Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 47 of 100
Found at i:11642399 original size:20 final size:22
Alignment explanation
Indices: 11642346--11642398 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
11642336 ATATATATTT
*
11642346 ATATATTTATATCT-AAAAAATA
1 ATAT-TTTATATTTAAAAAAATA
11642368 ATATTTTATATTTAAAAAAATA
1 ATATTTTATATTTAAAAAAATA
11642390 ATATTTTAT
1 ATATTTTAT
11642399 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTTTATATTTAAAAAAATA
Found at i:11643008 original size:24 final size:25
Alignment explanation
Indices: 11642952--11643008 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
11642942 ATTTTTGTTA
*
11642952 ATAAAATTTTTATATTTTTATAAAT
1 ATAAAATATTTATATTTTTATAAAT
**
11642977 -TAATAATATTTA-ATTTTTATTTAT
1 ATAA-AATATTTATATTTTTATAAAT
11643001 ATAAAATA
1 ATAAAATA
11643009 AAATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAAAATATTTATATTTTTATAAAT
Found at i:11643020 original size:29 final size:31
Alignment explanation
Indices: 11642959--11643020 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
11642949 TTAATAAAAT
* *
11642959 TTTTATATTTTTATAAATTAATAATATTTAA
1 TTTTATATTTATATAAAATAATAATATTTAA
11642990 TTTT-TATTTATATAAAATAA-AATATTTAA
1 TTTTATATTTATATAAAATAATAATATTTAA
11643019 TT
1 TT
11643021 CTGAATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.38
30 14 0.48
31 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTTATATTTATATAAAATAATAATATTTAA
Found at i:11648739 original size:3 final size:3
Alignment explanation
Indices: 11648731--11648767 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
11648721 ATGAAGTTGG
11648731 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11648768 AATGAAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11648935 original size:29 final size:28
Alignment explanation
Indices: 11648849--11648935 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 28
11648839 AATTAACCTA
*
11648849 TTTTATT-T-TTTAAATAAATTCTTATGT
1 TTTTATTATATTTAAATAAATTTTTAT-T
* * *
11648876 TTTTATTATATTCAAATAAAGTTTTGTT
1 TTTTATTATATTTAAATAAATTTTTATT
*
11648904 TTTTACTTTCTATTTAAATAAATTTTTATT
1 TTTTA--TTATATTTAAATAAATTTTTATT
11648934 TT
1 TT
11648936 AAACGAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 7 0.15
28 7 0.15
29 13 0.27
30 21 0.44
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTATTATATTTAAATAAATTTTTATT
Found at i:11648988 original size:30 final size:30
Alignment explanation
Indices: 11648954--11649090 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 30
11648944 ATATTGATTT
11648954 ATATTAAAAATTTATTTAGATATAAATTAA
1 ATATTAAAAATTTATTTAGATATAAATTAA
** * *
11648984 ATATTACGAGTTTATTTTA-ATTTAAATTAA
1 ATATTAAAAATTTA-TTTAGATATAAATTAA
* ** * *
11649014 AGATTAATGATTTATTT-GAAAGCAAATTAA
1 ATATTAAAAATTTATTTAGATA-TAAATTAA
* * * *
11649044 AAATTAAAAATTAATTTTGATA-AAATAAA
1 ATATTAAAAATTTATTTAGATATAAATTAA
*
11649073 AGTA-TAAAAACTTATTTA
1 A-TATTAAAAATTTATTTA
11649091 AGCAAAATGA
Statistics
Matches: 80, Mismatches: 22, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
29 22 0.28
30 51 0.64
31 7 0.09
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (30 bp):
ATATTAAAAATTTATTTAGATATAAATTAA
Found at i:11651003 original size:17 final size:18
Alignment explanation
Indices: 11650983--11651016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11650973 AAAAAAACTC
11650983 ATAT-AAAAAATAAAAAA
1 ATATGAAAAAATAAAAAA
*
11651000 ATATGAAGAAATAAAAA
1 ATATGAAAAAATAAAAA
11651017 CTCAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (18 bp):
ATATGAAAAAATAAAAAA
Found at i:11653709 original size:26 final size:26
Alignment explanation
Indices: 11653674--11653748 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
11653664 GTCCATTTTG
*
11653674 GGCCCATTTTTATTCGGGCCCAATAA
1 GGCCCATTTTTGTTCGGGCCCAATAA
* ** * *
11653700 GGCCCATTTTTGTTTGATCCTAATAG
1 GGCCCATTTTTGTTCGGGCCCAATAA
*
11653726 GGCTCATTTTTGTTCGGGCCCAA
1 GGCCCATTTTTGTTCGGGCCCAA
11653749 GTGAGCCTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
GGCCCATTTTTGTTCGGGCCCAATAA
Found at i:11653872 original size:3 final size:3
Alignment explanation
Indices: 11653866--11653932 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
11653856 CATTTCATAC
11653866 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11653914 TAT TAT TAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
11653933 TGCTTTTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11653963 original size:5 final size:5
Alignment explanation
Indices: 11653953--11653988 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
11653943 GTTTTTCTGC
* *
11653953 TCTTT TTTTT TCTTT TCTTT TTTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
11653989 TTGATGCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TCTTT
Found at i:11653964 original size:15 final size:15
Alignment explanation
Indices: 11653935--11653990 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
11653925 TTATTATTTG
*
11653935 CTTTT-TTTGTTTTT
1 CTTTTCTTTTTTTTT
**
11653949 CTGCTCTTTTTTTTT
1 CTTTTCTTTTTTTTT
11653964 CTTTTCTTTTTTTTT
1 CTTTTCTTTTTTTTT
11653979 CTTTTCTTTTTT
1 CTTTTCTTTTTT
11653991 GATGCAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 3 0.08
15 33 0.92
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (15 bp):
CTTTTCTTTTTTTTT
Found at i:11653968 original size:20 final size:19
Alignment explanation
Indices: 11653935--11653988 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
11653925 TTATTATTTG
*
11653935 CTTTTTTTGT-TTTTCTGCT
1 CTTTTTTTTTCTTTTCT-CT
*
11653954 CTTTTTTTTTCTTTTCTTT
1 CTTTTTTTTTCTTTTCTCT
*
11653973 TTTTTTCTTTTCTTTT
1 CTTTTT-TTTTCTTTT
11653989 TTGATGCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (19 bp):
CTTTTTTTTTCTTTTCTCT
Found at i:11654372 original size:31 final size:31
Alignment explanation
Indices: 11654337--11654395 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
11654327 AATTTAGGAT
* * *
11654337 TTAGGA-CAATTTTGAGAGATTTTGGGAGTGG
1 TTAGGATCAAATTTG-GAGAATCTGGGAGTGG
11654368 TTAGGATCAAATTTGGAGAATCTGGGAG
1 TTAGGATCAAATTTGGAGAATCTGGGAG
11654396 AAATTCGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (31 bp):
TTAGGATCAAATTTGGAGAATCTGGGAGTGG
Found at i:11654865 original size:16 final size:18
Alignment explanation
Indices: 11654846--11654884 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
11654836 ATTTTAACCA
11654846 TTTTTTT-GTTTT-TT-T
1 TTTTTTTGGTTTTATTAT
11654861 TTTTTTTGGTTTTATTAT
1 TTTTTTTGGTTTTATTAT
11654879 TTTTTT
1 TTTTTT
11654885 AAAATGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
16 5 0.24
17 2 0.10
18 7 0.33
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTTTTTGGTTTTATTAT
Found at i:11665128 original size:8 final size:8
Alignment explanation
Indices: 11665087--11665120 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11665077 CTTAAATCAT
11665087 AATAAAAA
1 AATAAAAA
*
11665095 ATTAAAAA
1 AATAAAAA
11665103 AATAAAAA
1 AATAAAAA
*
11665111 AACAAAAA
1 AATAAAAA
11665119 AA
1 AA
11665121 AAATAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:11666089 original size:119 final size:119
Alignment explanation
Indices: 11665878--11666413 Score: 530
Period size: 119 Copynumber: 4.5 Consensus size: 119
11665868 TTACTCACCT
*
11665878 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGA-TTGTGGTTTCATCTCGATCATCTATCTT
1 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCATCTCGATCATCTATCTT
* * * * *
11665942 CAACCTCGACTTGGTCTTGATCGT-TTTATTTTGACTCGTGATTTCATCTCGATC
66 CAACCTCGACTCGATCCT-AGCCTCTTTATTTTGACTCGTGATTTCATCTCGATC
* * *
11665996 ACTTGGTTTTGGCTCAGTCCAAATCATCTCTGATGATTTGTGGTTTCATC-CTGGTCATCTATCT
1 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCATCTC-GATCATCTATCT
* * *
11666060 TCGACCTCGACTC-AGTCCTAGCCTCTTTATTTTGACCCGTGATTTCATCTTGATC
65 TCAACCTCGACTCGA-TCCTAGCCTCTTTATTTTGACTCGTGATTTCATCTCGATC
* * * * *
11666115 ACTTGATTTTGGCTCAGTCCAAATTATCTCTGATGATTCATGGTTTCATTTCGATCATCTATCTT
1 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCATCTCGATCATCTATCTT
* * * * * * * * *
11666180 CGACCTCAACTCGATTCTAG-TTATTTTATTTTAACTTGTGGTTTCATCCCGATC
66 CAACCTCGACTCGATCCTAGCCT-CTTTATTTTGACTCGTGATTTCATCTCGATC
* * * * * * *
11666234 ACTTGGTCTTGGTTCAATTCAGATCATCTTTGATGATTTATGGTTTTATC-CTAATCATCTAT-T
1 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCATCTC-GATCATCTATCT
* * * * * * * * * *
11666297 TTAACATCGACTTGATCCTAGTCACTTTATTTTGACTCATAATTTTATCTTGGTC
65 TCAACCTCGACTCGATCCTAGCCTCTTTATTTTGACTCGTGATTTCATCTCGATC
* * * * *
11666352 ACTTGGTCTTGGCTCAGTTCAGATCATTTCTGATAATTTATGGTTT-AGTCCCGATCATCTAT
1 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCA-TCTCGATCATCTAT
11666414 TTTTGATTTC
Statistics
Matches: 345, Mismatches: 62, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
117 1 0.00
118 130 0.38
119 212 0.61
120 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (119 bp):
ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATTTATGGTTTCATCTCGATCATCTATCTT
CAACCTCGACTCGATCCTAGCCTCTTTATTTTGACTCGTGATTTCATCTCGATC
Found at i:11666445 original size:237 final size:238
Alignment explanation
Indices: 11665878--11666445 Score: 579
Period size: 237 Copynumber: 2.4 Consensus size: 238
11665868 TTACTCACCT
* * * *
11665878 ACTTGGTCTTGGCTCAGTCCAAATCATCTCTGATGATT-GTGGTTTCATCTCGATCATCTATCTT
1 ACTTGATCTTGGCTCAGTCCAAATCATCTCTGATAATTCATGGTTTCATCCCGATCATCTATCTT
* * ** * * * * * *
11665942 CAACCTCGACTTGGT-CTTGATCGTTTTATTTTGACTCGTGATTTCATCTCGATCACTTGGTTTT
66 CGACCTCAACCCGATCCTAG-TCATTTTATTTTAACTCGTGATTTCATCCCGATCACTTGGTCTT
* * ** * *
11666006 GGCTCAGTCCAAATCATCTCTGATGATTTGTGGTTTCATCCTGGTCATCTATCTTCGACCTCGAC
130 GGCTCAATCCAAATCATCTCTGATGATTTATGGTTTCATCCTAATCATCTATCTTCAACATCGAC
* * *
11666071 TCAGTCCTAGCCTCTTTATTTTGACCCGTGATTTCATCTTGATC
195 TCAGTCCTAGCCACTTTATTTTGACCCATAATTTCATCTTGATC
* * * **
11666115 ACTTGATTTTGGCTCAGTCCAAATTATCTCTGATGATTCATGGTTTCATTTCGATCATCTATCTT
1 ACTTGATCTTGGCTCAGTCCAAATCATCTCTGATAATTCATGGTTTCATCCCGATCATCTATCTT
* * * * *
11666180 CGACCTCAACTCGATTCTAGTTATTTTATTTTAACTTGTGGTTTCATCCCGATCACTTGGTCTTG
66 CGACCTCAACCCGATCCTAGTCATTTTATTTTAACTCGTGATTTCATCCCGATCACTTGGTCTTG
* * * * * *
11666245 GTTCAATTCAGATCATCTTTGATGATTTATGGTTTTATCCTAATCATCTAT-TTTAACATCGACT
131 GCTCAATCCAAATCATCTCTGATGATTTATGGTTTCATCCTAATCATCTATCTTCAACATCGACT
* * * * *
11666309 -TGATCCTAGTCACTTTATTTTGACTCATAATTTTATCTTGGTC
196 CAG-TCCTAGCCACTTTATTTTGACCCATAATTTCATCTTGATC
* * * * * *
11666352 ACTTGGTCTTGGCTCAGTTCAGATCATTTCTGATAATTTATGGTTT-AGTCCCGATCATCTATTT
1 ACTTGATCTTGGCTCAGTCCAAATCATCTCTGATAATTCATGGTTTCA-TCCCGATCATCTATCT
* ** * *
11666416 TTGATTTCGACCCGATCCTGGTCATTTTAT
65 TCGACCTCAACCCGATCCTAGTCATTTTAT
11666446 CTTGACCCAT
Statistics
Matches: 271, Mismatches: 56, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
236 2 0.01
237 151 0.56
238 115 0.42
239 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (238 bp):
ACTTGATCTTGGCTCAGTCCAAATCATCTCTGATAATTCATGGTTTCATCCCGATCATCTATCTT
CGACCTCAACCCGATCCTAGTCATTTTATTTTAACTCGTGATTTCATCCCGATCACTTGGTCTTG
GCTCAATCCAAATCATCTCTGATGATTTATGGTTTCATCCTAATCATCTATCTTCAACATCGACT
CAGTCCTAGCCACTTTATTTTGACCCATAATTTCATCTTGATC
Found at i:11666739 original size:16 final size:16
Alignment explanation
Indices: 11666718--11666752 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11666708 CTATAAATAT
11666718 CCATTTATGTTTGAGC
1 CCATTTATGTTTGAGC
* *
11666734 CCATTTTTGTTTGGGC
1 CCATTTATGTTTGAGC
11666750 CCA
1 CCA
11666753 ATAAGGCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (16 bp):
CCATTTATGTTTGAGC
Found at i:11666967 original size:13 final size:11
Alignment explanation
Indices: 11666943--11667004 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 11
11666933 TATTATTTAC
*
11666943 TTTTTTCATTT
1 TTTTTTCTTTT
*
11666954 TTTTTGCTCTTT
1 TTTTTTCT-TTT
11666966 TTTTTTCTTTTT
1 TTTTTTC-TTTT
11666978 TCTTTTTCTTTT
1 T-TTTTTCTTTT
11666990 TCTGTTTTCCTTTT
1 T-T-TTTT-CTTTT
11667004 T
1 T
11667005 GATGCAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.14
12 20 0.47
13 11 0.26
14 6 0.14
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:11666976 original size:19 final size:19
Alignment explanation
Indices: 11666954--11667004 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
11666944 TTTTTCATTT
11666954 TTTTTGCTCTTTT-TTTTTC
1 TTTTTGCT-TTTTCTTTTTC
*
11666973 TTTTTTCTTTTTCTTTTTC
1 TTTTTGCTTTTTCTTTTTC
*
11666992 TGTTTTCCTTTTT
1 T-TTTTGCTTTTT
11667005 GATGCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 14 0.50
20 10 0.36
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTGCTTTTTCTTTTTC
Found at i:11667840 original size:5 final size:5
Alignment explanation
Indices: 11667827--11667875 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
11667817 GGTTTTTCTT
*
11667827 TTTTCA TTTTA TTTTA -TTT- TTTGA TTTTGA -TTTA TTTTA TTTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA
11667876 ACCCCTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 6 0.16
5 26 0.70
6 5 0.14
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:11667846 original size:18 final size:17
Alignment explanation
Indices: 11667820--11667875 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
11667810 GATCACAGGT
*
11667820 TTTTCTTTTTTCATTTTA
1 TTTTATTTTTT-ATTTTA
11667838 TTTTATTTTTTGATTTTGA
1 TTTTATTTTTT-ATTTT-A
11667857 -TTTA--TTTTATTTTA
1 TTTTATTTTTTATTTTA
11667871 TTTTA
1 TTTTA
11667876 ACCCCTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 4 0.12
18 19 0.56
19 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTTATTTTA
Found at i:11669058 original size:18 final size:19
Alignment explanation
Indices: 11669023--11669069 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
11669013 TATAAAAATT
11669023 TAAAAATATTAAAATT-AA
1 TAAAAATATTAAAATTAAA
*
11669041 TAAAAATA-TATAATTTAAA
1 TAAAAATATTA-AAATTAAA
*
11669060 TTAAAATATT
1 TAAAAATATT
11669070 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 12 0.50
19 9 0.38
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATATTAAAATTAAA
Found at i:11670085 original size:15 final size:16
Alignment explanation
Indices: 11670065--11670097 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
11670055 ATTAAAAATA
11670065 AATAAAATAAT-TATT
1 AATAAAATAATATATT
11670080 AATAAAATAATATATT
1 AATAAAATAATATATT
11670096 AA
1 AA
11670098 CCATACCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAAAATAATATATT
Found at i:11671185 original size:61 final size:60
Alignment explanation
Indices: 11671062--11671234 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 60
11671052 CATTTAAAGG
* * * * * *
11671062 TTTTTATTTCAAGAAAAATTAATATTTTCAACTTTTCCTTAAAAATATTTTTCTTGATAA
1 TTTTAATTTAAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTTCTTGATAA
* * * *
11671122 TTTTATTTTTAAAG-AAAATTGGTACTTCCAACTTTTTCTCAAAAATATTTTTTTTCTGA-AA
1 TTTTA-ATTTAAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATA-TTTTTCT-TGATAA
* *
11671183 TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATACTTTTT
1 TTTTAATTTAAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATA-TTTTT
11671235 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
60 48 0.52
61 42 0.45
62 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (60 bp):
TTTTAATTTAAAGAAAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTTCTTGATAA
Found at i:11671318 original size:71 final size:72
Alignment explanation
Indices: 11671179--11671387 Score: 316
Period size: 72 Copynumber: 2.9 Consensus size: 72
11671169 TTTTTTTTCT
* *
11671179 GAAATTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATA-CTTTTTGAAAAAT
1 GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATC-TTTT-AGAAAT
11671242 TTTATTTTA
64 TTTATTTTA
* *
11671251 GAAGTTTTATTTTTAAGAAAAATTGATAC-TTCAACTTTTCCTCAAAAATATCTTTTAGAAATTT
1 GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTAGAAATTT
11671315 TATTTTA
66 TATTTTA
* * *
11671322 TAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAATTT
1 GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTAGAAATTT
11671387 T
66 T
11671388 TATCTTCAAG
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
71 53 0.42
72 71 0.57
73 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (72 bp):
GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTAGAAATTT
TATTTTA
Found at i:11671326 original size:14 final size:14
Alignment explanation
Indices: 11671303--11671334 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11671293 CAAAAATATC
11671303 TTTTAGAAATTTTA
1 TTTTAGAAATTTTA
*
11671317 TTTTATAAATTTTA
1 TTTTAGAAATTTTA
11671331 TTTT
1 TTTT
11671335 CAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTTAGAAATTTTA
Found at i:11671397 original size:59 final size:59
Alignment explanation
Indices: 11671317--11671513 Score: 256
Period size: 60 Copynumber: 3.3 Consensus size: 59
11671307 AGAAATTTTA
* *
11671317 TTTTATAAA-TTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATATT
1 TTTTAGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
* *
11671375 TTTTAGAAATTTTTATCTTCAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATAATT
1 TTTTAGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATT
* * * * *
11671435 TTTTTGAAATTTTTATTTTCAA-AAGAAATTGATACTTTCAAATTTTCTTTAAATATATATA
1 TTTTAGAAATTTTTATTTTCAAGAA-AAATTGATACTTTCAACTTTTCCTCAAA-A-ATATT
11671496 TTTTA-AAATTTTTATTTT
1 TTTTAGAAATTTTTATTTT
11671514 TGAATAGATC
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
58 8 0.07
59 45 0.37
60 60 0.49
61 7 0.06
62 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (59 bp):
TTTTAGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
Found at i:11672900 original size:6 final size:6
Alignment explanation
Indices: 11672889--11672931 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
11672879 GATAAACCAT
*
11672889 AAAATA AAAATA AAAATAA AAAATGA TAAATA CAAAATA AAAA
1 AAAATA AAAATA AAAAT-A AAAAT-A AAAATA -AAAATA AAAA
11672932 ATTTGGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 16 0.50
7 16 0.50
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:11672917 original size:27 final size:28
Alignment explanation
Indices: 11672861--11672931 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
11672851 ATGAAAAGAG
*
11672861 AAAA-AAAAATAAACAATAGATAAACCAT
1 AAAATAAAAATAAA-AATAGAAAAACCAT
**
11672889 AAAATAAAAATAAAAATA-AAAAATGAT
1 AAAATAAAAATAAAAATAGAAAAACCAT
11672916 -AAATACAAAATAAAAA
1 AAAATA-AAAATAAAAA
11672932 ATTTGGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 5 0.13
27 16 0.42
28 8 0.21
29 9 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (28 bp):
AAAATAAAAATAAAAATAGAAAAACCAT
Found at i:11672919 original size:14 final size:13
Alignment explanation
Indices: 11672889--11672931 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
11672879 GATAAACCAT
11672889 AAAAT-AAAAATA
1 AAAATAAAAAATA
11672901 AAAATAAAAAATGA
1 AAAATAAAAAAT-A
* *
11672915 TAAATACAAAATA
1 AAAATAAAAAATA
11672928 AAAA
1 AAAA
11672932 ATTTGGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:11672933 original size:34 final size:35
Alignment explanation
Indices: 11672861--11672931 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
11672851 ATGAAAAGAG
* *
11672861 AAAA-AAAAATAAACAATAGATAAACCATAAAATA
1 AAAATAAAAATAAAAAATAGATAAACCACAAAATA
*
11672895 AAAATAAAAATAAAAAAT-GATAAA-TACAAAATA
1 AAAATAAAAATAAAAAATAGATAAACCACAAAATA
11672928 AAAA
1 AAAA
11672932 ATTTGGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 11 0.33
34 10 0.30
35 12 0.36
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (35 bp):
AAAATAAAAATAAAAAATAGATAAACCACAAAATA
Found at i:11673258 original size:42 final size:43
Alignment explanation
Indices: 11673194--11673411 Score: 139
Period size: 43 Copynumber: 5.1 Consensus size: 43
11673184 ACGTTTGAAA
* ** *
11673194 GAAAAAAAATAAA-GCTTTTCTAAGCAGAGGC-TGACAACTTTT
1 GAAAAAAAATAAAGGATCCTCTAAGCAGAGGCTTAACAAC-TTT
* *
11673236 G-AAAAAAATAAAGGATCCTCTAAGTAGAGGCTTAACGACTTT
1 GAAAAAAAATAAAGGATCCTCTAAGCAGAGGCTTAACAACTTT
* * * * * *
11673278 GAAAAAAAATAAAGGGTTCTCCTATGTAGAGGCTCAACGACTTT
1 GAAAAAAAATAAAGGATCCT-CTAAGCAGAGGCTTAACAACTTT
* * * *
11673322 GAAAAATAAA-AAAGG-TTCTCCTAAGTAGAGGCTCAACGACTTT
1 GAAAAA-AAATAAAGGATCCT-CTAAGCAGAGGCTTAACAACTTT
* * * *
11673365 GAAAAATAAA-ATA--CTCCTCTAACCAGAGGCACT-ACAACTTT
1 GAAAAA-AAATAAAGGATCCTCTAAGCAGAGGC-TTAACAACTTT
11673406 GAAAAA
1 GAAAAA
11673412 TGCTCATTAT
Statistics
Matches: 151, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
41 34 0.23
42 22 0.15
43 60 0.40
44 32 0.21
45 3 0.02
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (43 bp):
GAAAAAAAATAAAGGATCCTCTAAGCAGAGGCTTAACAACTTT
Found at i:11673308 original size:44 final size:44
Alignment explanation
Indices: 11673194--11673370 Score: 206
Period size: 43 Copynumber: 4.1 Consensus size: 44
11673184 ACGTTTGAAA
* * * * *
11673194 GAAAAAAAATAAA-GCTT-TTCTAAGCAGAGGCT-GACAACTTTT
1 GAAAAAAAATAAAGGGTTCTCCTAAGTAGAGGCTCAACGAC-TTT
* * *
11673236 G-AAAAAAATAAAGGATCCT-CTAAGTAGAGGCTTAACGACTTT
1 GAAAAAAAATAAAGGGTTCTCCTAAGTAGAGGCTCAACGACTTT
*
11673278 GAAAAAAAATAAAGGGTTCTCCTATGTAGAGGCTCAACGACTTT
1 GAAAAAAAATAAAGGGTTCTCCTAAGTAGAGGCTCAACGACTTT
11673322 GAAAAATAAA-AAA-GGTTCTCCTAAGTAGAGGCTCAACGACTTT
1 GAAAAA-AAATAAAGGGTTCTCCTAAGTAGAGGCTCAACGACTTT
11673365 GAAAAA
1 GAAAAA
11673371 TAAAATACTC
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
41 11 0.09
42 19 0.16
43 56 0.47
44 30 0.25
45 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.24
Consensus pattern (44 bp):
GAAAAAAAATAAAGGGTTCTCCTAAGTAGAGGCTCAACGACTTT
Found at i:11673492 original size:28 final size:28
Alignment explanation
Indices: 11673460--11673514 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11673450 GATCTGATAA
11673460 AATTTATA-ATAAAAACTCAAAGATTCAT
1 AATTT-TAGATAAAAACTCAAAGATTCAT
* * *
11673488 AATTTTAGTTCAAAATTCAAAGATTCA
1 AATTTTAGATAAAAACTCAAAGATTCA
11673515 GATTCGCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (28 bp):
AATTTTAGATAAAAACTCAAAGATTCAT
Found at i:11673825 original size:20 final size:20
Alignment explanation
Indices: 11673789--11673826 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11673779 CACATCCAAG
*
11673789 AGTTTGAAACTTTTCATTAT
1 AGTTTGAAACTTCTCATTAT
11673809 AGTTTGAAGA-TTCTCATT
1 AGTTTGAA-ACTTCTCATT
11673827 CGACTAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
AGTTTGAAACTTCTCATTAT
Found at i:11673881 original size:21 final size:21
Alignment explanation
Indices: 11673857--11674129 Score: 198
Period size: 21 Copynumber: 12.5 Consensus size: 21
11673847 CATCTAAAAT
11673857 ATTCTCATTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
* *
11673878 ATTCACATTTGAAGATTTCTTAAAG
1 ATTCTCATTTGAA-A---CTCAAAG
11673903 ATTCTCATTT-AAGACTCAAAG
1 ATTCTCATTTGAA-ACTCAAAG
* * *
11673924 ATTCTTATTTGAGGACTTTTTAAAG
1 ATTCTCATTTGA-AAC---TCAAAG
*
11673949 ATTATCATTT-AAGACTCAAAG
1 ATTCTCATTTGAA-ACTCAAAG
* *
11673970 ATTCTCATTCGAAAATTCAAAG
1 ATTCTCATTTG-AAACTCAAAG
*
11673992 ATTCTCTTTTGAAACTCAAAG
1 ATTCTCATTTGAAACTCAAAG
11674013 ATTCAT-ATTT-AAGACTCAAAG
1 ATTC-TCATTTGAA-ACTCAAAG
* *
11674034 ATTCTTATTCGAAAACTCAAAG
1 ATTCTCATTTG-AAACTCAAAG
* **
11674056 ATTCTTATTCAAAAACTCAAAG
1 ATTCTCATT-TGAAACTCAAAG
*
11674078 ATTCACATTT-AAGACTCAAAG
1 ATTCTCATTTGAA-ACTCAAAG
* *
11674099 ATTCACATTT-ACAACTTAAAG
1 ATTCTCATTTGA-AACTCAAAG
11674120 ATTCTCATTT
1 ATTCTCATTT
11674130 AAAAAAATAA
Statistics
Matches: 206, Mismatches: 26, Indels: 40
0.76 0.10 0.15
Matches are distributed among these distances:
20 5 0.02
21 106 0.51
22 56 0.27
23 4 0.02
24 7 0.03
25 28 0.14
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATTCTCATTTGAAACTCAAAG
Found at i:11674009 original size:43 final size:43
Alignment explanation
Indices: 11673857--11674131 Score: 202
Period size: 43 Copynumber: 6.3 Consensus size: 43
11673847 CATCTAAAAT
* * *
11673857 ATTCTCATTTGAA-ACTCAAAGATTCACATTTGAAGATTTCTTAAAG
1 ATTCTCATTT-AAGACTCAAAGATTCTCATTCGAA-AATTC--AAAG
* * ** *
11673903 ATTCTCATTTAAGACTCAAAGATTCTTATTTGAGGACTTTTTAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTCGA--A-AATTCAAAG
*
11673949 ATTATCATTTAAGACTCAAAGATTCTCATTCGAAAATTCAAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTCGAAAATTCAAAG
* * * *
11673992 ATTCTCTTTTGAA-ACTCAAAGATTCAT-ATT-TAAGACTCAAAG
1 ATTCTCATTT-AAGACTCAAAGATTC-TCATTCGAAAATTCAAAG
* * * * * *
11674034 ATTCTTATTCGAAAACTCAAAGATTCTTATTCAAAAACTCAAAG
1 ATTCTCATT-TAAGACTCAAAGATTCTCATTCGAAAATTCAAAG
* * * *
11674078 ATTCACATTTAAGACTCAAAGATTCACATT-TACAACTT-AAAG
1 ATTCTCATTTAAGACTCAAAGATTCTCATTCGA-AAATTCAAAG
11674120 ATTCTCATTTAA
1 ATTCTCATTTAA
11674132 AAAAATAAGA
Statistics
Matches: 188, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
42 35 0.19
43 64 0.34
44 21 0.11
45 2 0.01
46 62 0.33
48 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (43 bp):
ATTCTCATTTAAGACTCAAAGATTCTCATTCGAAAATTCAAAG
Found at i:11674095 original size:86 final size:85
Alignment explanation
Indices: 11673899--11674133 Score: 267
Period size: 86 Copynumber: 2.7 Consensus size: 85
11673889 AAGATTTCTT
* * * * *
11673899 AAAGATTCTCATTTAAGACTCAAAGATTCTTATTTGAGGACTTTTTAAAGATTATCATTTAAGAC
1 AAAGATTCTCATTTAAGACTCAAAGATTCATATTT-AAGAC---TTAAAGATTCTCATTGAAAAC
* *
11673964 TCAAAGATTCTCATTCGAAAATTC
62 TCAAAGATTCTCATTCAAAAACTC
* * *
11673988 AAAGATTCTCTTTTGAA-ACTCAAAGATTCATATTTAAGACTCAAAGATTCTTATTCGAAAACTC
1 AAAGATTCTCATTT-AAGACTCAAAGATTCATATTTAAGACTTAAAGATTCTCATT-GAAAACTC
*
11674052 AAAGATTCTTATTCAAAAACTC
64 AAAGATTCTCATTCAAAAACTC
* * *
11674074 AAAGATTCACATTTAAGACTCAAAGATTCACATTTACA-ACTTAAAGATTCTCATTTAAAA
1 AAAGATTCTCATTTAAGACTCAAAGATTCATATTTA-AGACTTAAAGATTCTCATTGAAAA
11674134 AAATAAGATT
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
85 18 0.14
86 70 0.56
87 1 0.01
88 4 0.03
89 30 0.24
90 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.34
Consensus pattern (85 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCATATTTAAGACTTAAAGATTCTCATTGAAAACTCAA
AGATTCTCATTCAAAAACTC
Found at i:11674153 original size:19 final size:20
Alignment explanation
Indices: 11674117--11674156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
11674107 TTACAACTTA
11674117 AAGATTCTCATTTAAAAAAAT
1 AAGATTCTCA-TTAAAAAAAT
11674138 AAGATTCTCA-TAAAAAAAT
1 AAGATTCTCATTAAAAAAAT
11674157 TCACTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (20 bp):
AAGATTCTCATTAAAAAAAT
Found at i:11674871 original size:19 final size:20
Alignment explanation
Indices: 11674835--11674872 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11674825 TTTTTTCAAG
*
11674835 TTTTTGCCATCTATTCATCA
1 TTTTTGCCATCGATTCATCA
*
11674855 TTTTTGCCTTCGA-TCATC
1 TTTTTGCCATCGATTCATC
11674873 CTGGATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.16, C:0.26, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTTGCCATCGATTCATCA
Found at i:11679220 original size:23 final size:22
Alignment explanation
Indices: 11679172--11679220 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
11679162 TGATATAGAT
*
11679172 CTTTTTATAAGAAAAACTCATG
1 CTTTTTATAAGAAAAACTCATA
* *
11679194 CTTTTATATAAGAAAAATTGATA
1 CTTTT-TATAAGAAAAACTCATA
11679217 CTTT
1 CTTT
11679221 CAACTTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (22 bp):
CTTTTTATAAGAAAAACTCATA
Found at i:11679263 original size:52 final size:56
Alignment explanation
Indices: 11679203--11679354 Score: 186
Period size: 52 Copynumber: 2.7 Consensus size: 56
11679193 GCTTTTATAT
11679203 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTG-A-TAATTT-
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTGAATTAATTTC
* * * *
11679256 TA-AAAAATTGGTACTTCCAACTTTTCCTTAAAAATACTTTTTTTTTGAAATTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA--TTTTTCTTG-AA--TTAATTTC
*
11679316 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATT
11679355 ATTTAAAAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
52 32 0.39
53 1 0.01
54 8 0.10
56 1 0.01
59 8 0.10
60 1 0.01
61 31 0.38
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (56 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTGAATTAATTTC
Found at i:11679332 original size:61 final size:57
Alignment explanation
Indices: 11679206--11679548 Score: 270
Period size: 58 Copynumber: 5.9 Consensus size: 57
11679196 TTTATATAAG
** *
11679206 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCT-----TGATAATTT-TA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TAAAAATTTTAATTTCAA
* * **
11679258 AAAAATTGGTACTTCCAACTTTTCCTTAAAAATACTTTTTTTTTGAAATTTTAATTTCAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA---TTTTTTAAAAATTTTAATTTCAA
* * * *
11679318 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTATTTAAAAATTTTATTTTTAA
1 -AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAAAAATTTTAATTTCAA
* * * * * * * *
11679376 AGAAAATTAATACTTCCAATTTTTTCTCAAAAATATTTTTAAAAAATTTTTATCTTTAA
1 A-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAAAAATTTTAAT-TTCAA
* * * *
11679435 GGAAAATTGATAATTTCAACTTTT-CTTCAAAAAATAATTTTTTTGAAAATTTTATTTTCAA
1 -AAAAATTGATACTTTCAACTTTTCCTT--AAAAAT-A-TTTTTTAAAAATTTTAATTTCAA
*
11679496 AGAAAATTGATACTTTCAAC-TTTCCTTTAAAAATATATATTTTAAAATTTTTA
1 A-AAAATTGATACTTTCAACTTTTCC-TTAAAAATAT-T-TTTTAAAAATTTTA
11679549 TTTTTGAAGA
Statistics
Matches: 233, Mismatches: 36, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
52 32 0.14
54 1 0.00
55 5 0.02
57 1 0.00
58 64 0.27
59 32 0.14
60 28 0.12
61 54 0.23
62 16 0.07
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAAAAATTTTAATTTCAA
Found at i:11687496 original size:4 final size:4
Alignment explanation
Indices: 11687487--11687535 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
11687477 ATTGTAGGGT
* *
11687487 TTTA TTTA -TT- TTTA TTT- TGTA TTTA TTTA CTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
11687533 TTT
1 TTT
11687536 TGTGATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.16
4 27 0.73
5 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11687513 original size:21 final size:21
Alignment explanation
Indices: 11687487--11687535 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
11687477 ATTGTAGGGT
11687487 TTTATTTA-TT-TTTATTTTGTA
1 TTTATTTACTTATTTA-TTT-TA
11687508 TTTATTTACTTATTTATTTTA
1 TTTATTTACTTATTTATTTTA
11687529 TTTATTT
1 TTTATTT
11687536 TGTGATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 17 0.65
22 5 0.19
23 4 0.15
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTACTTATTTATTTTA
Found at i:11687523 original size:12 final size:11
Alignment explanation
Indices: 11687487--11687535 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
11687477 ATTGTAGGGT
11687487 TTTATTTATT-
1 TTTATTTATTA
11687497 TTTATTT-TGTA
1 TTTATTTAT-TA
11687508 TTTATTTACTTA
1 TTTATTTA-TTA
11687520 TTTA-TT-TTA
1 TTTATTTATTA
11687529 TTTATTT
1 TTTATTT
11687536 TGTGATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 8 0.24
10 10 0.29
11 9 0.26
12 6 0.18
13 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:11687543 original size:12 final size:11
Alignment explanation
Indices: 11687497--11687545 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
11687487 TTTATTTATT
11687497 TTTATTTTGTA
1 TTTATTTTGTA
11687508 TTTATTTACT-TA
1 TTTATTT--TGTA
11687520 TTTA-TTT-TA
1 TTTATTTTGTA
11687529 TTTATTTTGTGA
1 TTTATTTTGT-A
11687541 TTTAT
1 TTTAT
11687546 CTCTAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.21
10 3 0.09
11 10 0.30
12 12 0.36
13 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTATTTTGTA
Found at i:11687545 original size:21 final size:19
Alignment explanation
Indices: 11687486--11687536 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
11687476 GATTGTAGGG
11687486 TTTTATTTATTTTTA-TT-
1 TTTTATTTATTTTTATTTA
*
11687503 TTGTATTTATTTACTTATTTA
1 TTTTATTTATTT--TTATTTA
11687524 TTTTATTTATTTT
1 TTTTATTTATTTT
11687537 GTGATTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 11 0.39
19 4 0.14
20 2 0.07
21 11 0.39
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTTATTTTTATTTA
Found at i:11688602 original size:17 final size:17
Alignment explanation
Indices: 11688582--11688624 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11688572 TAGTCTTCTT
11688582 TATTTTATAATTTTATA
1 TATTTTATAATTTTATA
* *
11688599 TATTTCATAATTTTTTA
1 TATTTTATAATTTTATA
11688616 TAGTTTTAT
1 TA-TTTTAT
11688625 TTAGATGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTTTATAATTTTATA
Found at i:11688744 original size:17 final size:17
Alignment explanation
Indices: 11688722--11688757 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11688712 TAACGATAAT
*
11688722 ATTCTTAAAAATTTTAA
1 ATTCTTAAAAATTTCAA
11688739 ATTCTTAAAAATTTCAA
1 ATTCTTAAAAATTTCAA
11688756 AT
1 AT
11688758 GTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTCTTAAAAATTTCAA
Found at i:11688948 original size:47 final size:46
Alignment explanation
Indices: 11688892--11688987 Score: 140
Period size: 48 Copynumber: 2.1 Consensus size: 46
11688882 AAAAAAGAAC
11688892 AAAAAAAATTT-TAAATAGACCCAAATGGTGAAAAATTTAAAAATTA
1 AAAAAAAATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAA-TA
* * *
11688938 AAAAGAAAATTTCTAAATTGACTCAAATTGTGAAAAATTTAAAAATA
1 AAAA-AAAATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAATA
11688985 AAA
1 AAA
11688988 CTTGTAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 4 0.09
47 12 0.27
48 29 0.64
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.27
Consensus pattern (46 bp):
AAAAAAAATTTCTAAATAGACCCAAATGGTGAAAAATTTAAAAATA
Found at i:11693025 original size:10 final size:10
Alignment explanation
Indices: 11693009--11693064 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
11692999 AATAAAATAT
11693009 AAAAAAAAA-
1 AAAAAAAAAG
11693018 AAAGAAAAAATG
1 AAA-AAAAAA-G
*
11693030 AAAAAAAATG
1 AAAAAAAAAG
*
11693040 AAAAAAAATG
1 AAAAAAAAAG
*
11693050 -AAAAAAGAG
1 AAAAAAAAAG
11693059 AAAAAA
1 AAAAAA
11693065 TGAAAAATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 10 0.25
10 22 0.55
11 5 0.12
12 3 0.08
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11693053 original size:8 final size:8
Alignment explanation
Indices: 11693014--11693087 Score: 60
Period size: 8 Copynumber: 8.6 Consensus size: 8
11693004 AATATAAAAA
*
11693014 AAAAAAAG
1 AAAAAATG
11693022 AAAAAATG
1 AAAAAATG
11693030 AAAAAAAATG
1 --AAAAAATG
11693040 AAAAAAAATG
1 --AAAAAATG
*
11693050 AAAAAAGAG
1 AAAAAA-TG
11693059 AAAAAATG
1 AAAAAATG
11693067 -AAAAATGG
1 AAAAAAT-G
11693075 AAAAAATG
1 AAAAAATG
*
11693083 TAAAA
1 AAAAA
11693088 GGAGAGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.11
8 20 0.35
9 13 0.23
10 18 0.32
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:11693053 original size:27 final size:28
Alignment explanation
Indices: 11693012--11693071 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
11693002 AAAATATAAA
*
11693012 AAAAAAAAAGAAAAAATGAAAAAAAATG
1 AAAAAAAAAGAAAAAAAGAAAAAAAATG
* *
11693040 AAAAAAAATG-AAAAAAGAGAAAAAATG
1 AAAAAAAAAGAAAAAAAGAAAAAAAATG
11693067 AAAAA
1 AAAAA
11693072 TGGAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (28 bp):
AAAAAAAAAGAAAAAAAGAAAAAAAATG
Found at i:11693079 original size:9 final size:9
Alignment explanation
Indices: 11693021--11693087 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
11693011 AAAAAAAAAA
11693021 GAAAAAATG
1 GAAAAAATG
*
11693030 AAAAAAAATG
1 -GAAAAAATG
*
11693040 AAAAAAAAT-
1 -GAAAAAATG
11693049 GAAAAAA-G
1 GAAAAAATG
11693057 AGAAAAAAT-
1 -GAAAAAATG
11693066 G-AAAAATG
1 GAAAAAATG
11693074 GAAAAAATG
1 GAAAAAATG
*
11693083 TAAAA
1 GAAAA
11693088 GGAGAGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 6 0.12
8 8 0.16
9 18 0.37
10 17 0.35
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (9 bp):
GAAAAAATG
Found at i:11693080 original size:10 final size:10
Alignment explanation
Indices: 11693022--11693064 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
11693012 AAAAAAAAAG
11693022 AAAAAATGAA
1 AAAAAATGAA
11693032 AAAAAATGAA
1 AAAAAATGAA
11693042 AAAAAATGAA
1 AAAAAATGAA
*
11693052 AAAAGA-GAA
1 AAAAAATGAA
11693061 AAAA
1 AAAA
11693065 TGAAAAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:11693087 original size:17 final size:17
Alignment explanation
Indices: 11693013--11693103 Score: 87
Period size: 17 Copynumber: 5.2 Consensus size: 17
11693003 AAATATAAAA
*
11693013 AAAAAAAAGAAAAAATG
1 AAAAAAGAGAAAAAATG
*
11693030 AAAAAAAATGAAAAAAAATG
1 --AAAAAA-GAGAAAAAATG
11693050 AAAAAAGAGAAAAAATG
1 AAAAAAGAGAAAAAATG
*
11693067 AAAAATG-GAAAAAATG
1 AAAAAAGAGAAAAAATG
* *
11693083 TAAAAGGAGAGAAAAA-G
1 AAAAAAGAGA-AAAAATG
11693100 AAAA
1 AAAA
11693104 CTCAAATTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
16 14 0.23
17 22 0.35
18 11 0.18
19 6 0.10
20 9 0.15
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (17 bp):
AAAAAAGAGAAAAAATG
Found at i:11694291 original size:14 final size:14
Alignment explanation
Indices: 11694272--11694334 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 14
11694262 AGTTAAAAAT
11694272 AATGAGAATCTTTG
1 AATGAGAATCTTTG
11694286 AATGAGAATC--TG
1 AATGAGAATCTTTG
* *
11694298 --TAAGAATTTTTG
1 AATGAGAATCTTTG
* *
11694310 AATGAAAATCTTTA
1 AATGAGAATCTTTG
11694324 AATGAGAATCT
1 AATGAGAATCT
11694335 CTAAGAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 6 0.16
12 4 0.11
14 28 0.74
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.35
Consensus pattern (14 bp):
AATGAGAATCTTTG
Found at i:11694328 original size:38 final size:38
Alignment explanation
Indices: 11694272--11694358 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
11694262 AGTTAAAAAT
* * * *
11694272 AATGAGAATCTTTGAATGAGAATCTGTAAGAATTTTTG
1 AATGAAAATCTTTAAATGAGAATCTCTAAGAAATTTTG
11694310 AATGAAAATCTTTAAATGAGAATCTCTAAGAAATTTTG
1 AATGAAAATCTTTAAATGAGAATCTCTAAGAAATTTTG
* *
11694348 TATAAAAATCT
1 AATGAAAATCT
11694359 CTCAAATGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (38 bp):
AATGAAAATCTTTAAATGAGAATCTCTAAGAAATTTTG
Found at i:11694589 original size:110 final size:108
Alignment explanation
Indices: 11694352--11694705 Score: 489
Period size: 109 Copynumber: 3.3 Consensus size: 108
11694342 ATTTTGTATA
* * * *
11694352 AAAATCTCTCAAATGTGAATATTTGAACTCGAATGAGAAGCTTTGAACTTTTGAATGTGAACTTC
1 AAAATCTATCAAATGTGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAAC-CC
* *
11694417 AAATTTTTTTGAAT-AAGAACTTTTGAATTTAGATGTGAAACTCT
65 TAATTTTTTTGAATGAA-AACCTTTGAATTTAGATGTGAAACTCT
*
11694461 AAAATCTATCAAATGTGAATCTTTGAACTCGAATGAGAAACTTTGAACTTTTGGATGTGAACCCT
1 AAAATCTATCAAATGTGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCT
11694526 AATTTTTTTTGTAATGAAAACCTTTGAATTTAGATGTGAAACTCT
66 AA-TTTTTTTG-AATGAAAACCTTTGAATTTAGATGTGAAACTCT
* * * *
11694571 AAAATTTATCAAATGTGAATCTTTGAACT-TAATGAGAAGCTTTGAAATTTTAGATGTGAATCCC
1 AAAATCTATCAAATGTGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAA-CCC
* * * *
11694635 -AAATCTTTTGAATGAGAACCTTTGAATTTAGATGTAAAACTCT
65 TAATTTTTTTGAATGAAAACCTTTGAATTTAGATGTGAAACTCT
* *
11694678 AAAATCTATCGAATGTAAATCTTTGAAC
1 AAAATCTATCAAATGTGAATCTTTGAAC
11694706 CTAAATGAGA
Statistics
Matches: 222, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
107 56 0.25
108 9 0.04
109 95 0.43
110 60 0.27
111 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (108 bp):
AAAATCTATCAAATGTGAATCTTTGAACTCGAATGAGAAGCTTTGAACTTTTGGATGTGAACCCT
AATTTTTTTGAATGAAAACCTTTGAATTTAGATGTGAAACTCT
Found at i:11694692 original size:44 final size:44
Alignment explanation
Indices: 11694601--11694692 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
11694591 CTTTGAACTT
* * * * *
11694601 AATGAGAAGCTTTGAAATTTTAGATGTGAATCCCAAATCTTTTG
1 AATGAGAACCTTTGAAATTTTAGATGTAAATCCAAAATCTATCG
*
11694645 AATGAGAACCTTTG-AA-TTTAGATGTAAAACTCTAAAATCTATCG
1 AATGAGAACCTTTGAAATTTTAGATGT-AAA-TCCAAAATCTATCG
11694689 AATG
1 AATG
11694693 TAAATCTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
42 9 0.22
43 4 0.10
44 27 0.68
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (44 bp):
AATGAGAACCTTTGAAATTTTAGATGTAAATCCAAAATCTATCG
Found at i:11694897 original size:15 final size:15
Alignment explanation
Indices: 11694877--11694905 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11694867 TGAACTTTAG
11694877 ATGTGAATCTCTCAC
1 ATGTGAATCTCTCAC
11694892 ATGTGAATCTCTCA
1 ATGTGAATCTCTCA
11694906 AATATGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (15 bp):
ATGTGAATCTCTCAC
Found at i:11694913 original size:15 final size:15
Alignment explanation
Indices: 11694880--11694913 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11694870 ACTTTAGATG
* *
11694880 TGAATCTCTCACATG
1 TGAATCTCTCAAATA
11694895 TGAATCTCTCAAATA
1 TGAATCTCTCAAATA
11694910 TGAA
1 TGAA
11694914 CCTTAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (15 bp):
TGAATCTCTCAAATA
Found at i:11695059 original size:16 final size:17
Alignment explanation
Indices: 11695030--11695061 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11695020 CTTGCAAGCT
11695030 TGAAATTCTTACGAATA
1 TGAAATTCTTACGAATA
11695047 TGAAATT-TTACGAAT
1 TGAAATTCTTACGAAT
11695062 CAAATTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TGAAATTCTTACGAATA
Found at i:11695482 original size:4 final size:4
Alignment explanation
Indices: 11695473--11695521 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
11695463 ATTGTAGGGT
* *
11695473 TTTA TTTA -TT- TTTA TTT- TATA TTTA TTTA CTTA TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
11695519 TTT
1 TTT
11695522 TGTGAGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.16
4 27 0.73
5 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11695495 original size:17 final size:17
Alignment explanation
Indices: 11695475--11695520 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
11695465 TGTAGGGTTT
11695475 TATTTATTT-TTATTTTA
1 TATTTATTTATTA-TTTA
11695492 TATTTATTTACTTATTTA
1 TATTTATTTA-TTATTTA
11695510 T-TTTATTTATT
1 TATTTATTTATT
11695521 TTGTGAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.07
17 17 0.63
18 5 0.19
19 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTATTTATTATTTA
Found at i:11695521 original size:21 final size:21
Alignment explanation
Indices: 11695473--11695515 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
11695463 ATTGTAGGGT
11695473 TTTATTTATTTTTATTTTATA
1 TTTATTTATTTTTATTTTATA
11695494 TTTATTTACTTATTTATTTTAT
1 TTTATTTA-TT-TTTATTTTAT
11695516 TTATTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTTTATTTTATA
Found at i:11696581 original size:17 final size:17
Alignment explanation
Indices: 11696559--11696591 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11696549 TTTTTATTTT
11696559 ATAATTTTATATAGTTC
1 ATAATTTTATATAGTTC
*
11696576 ATAATTTTTTATAGTT
1 ATAATTTTATATAGTT
11696592 TTATTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (17 bp):
ATAATTTTATATAGTTC
Found at i:11696913 original size:44 final size:43
Alignment explanation
Indices: 11696860--11696947 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 43
11696850 ACAAAAAAAG
11696860 AATTTTTTAAATAGACCT-AAATAGTGAAAAATTTAGAAATTAAA
1 AATTTTTTAAATAG-CCTCAAATAGTGAAAAATTTAGAAA-TAAA
* * *
11696904 AATTTTTTAAATTGGCTCAAATTGTGAAAAATTTAGAAATAAA
1 AATTTTTTAAATAGCCTCAAATAGTGAAAAATTTAGAAATAAA
11696947 A
1 A
11696948 CTTGTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 7 0.17
44 33 0.82
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (43 bp):
AATTTTTTAAATAGCCTCAAATAGTGAAAAATTTAGAAATAAA
Found at i:11702977 original size:20 final size:20
Alignment explanation
Indices: 11702938--11702979 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11702928 AAAAGTTTTT
*
11702938 AATTTTTTTTCTCAAGAATA
1 AATTTTTTTTCTCAAAAATA
11702958 AATTTTTTTTCT-AATAAATA
1 AATTTTTTTTCTCAA-AAATA
11702978 AA
1 AA
11702980 AAATCAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTTTTTTCTCAAAAATA
Found at i:11703760 original size:24 final size:24
Alignment explanation
Indices: 11703720--11703766 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11703710 AAGCTATATG
* *
11703720 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
11703743 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
11703767 CAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:11704796 original size:18 final size:17
Alignment explanation
Indices: 11704773--11704824 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
11704763 ATAGGCTAGG
*
11704773 TTTAGGTTTAGGATTTGT
1 TTTAGGTTTAGG-TTGGT
11704791 TTTAGGGTTTAAGGTTGGT
1 TTTA-GGTTT-AGGTTGGT
*
11704810 TTAAGGTTTAAGGTT
1 TTTAGGTTT-AGGTT
11704825 TAGGTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 12 0.40
20 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (17 bp):
TTTAGGTTTAGGTTGGT
Found at i:11704902 original size:19 final size:19
Alignment explanation
Indices: 11704854--11704902 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
11704844 TAGTTTATAG
*
11704854 TTAGGGCTTTAGGGTTTGGT
1 TTAGGG-TTTAGGGTTAGGT
* * *
11704874 TTATGATTTAGGGTTAGTT
1 TTAGGGTTTAGGGTTAGGT
11704893 TTAGGGTTTA
1 TTAGGGTTTA
11704903 TGATTTATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.49
Consensus pattern (19 bp):
TTAGGGTTTAGGGTTAGGT
Found at i:11707404 original size:55 final size:55
Alignment explanation
Indices: 11707286--11707439 Score: 168
Period size: 55 Copynumber: 2.8 Consensus size: 55
11707276 GGTGAACACC
* * *
11707286 CTATCAATATAGACTTATATGTTTTAAGTTTTGTTA-TCTATACCGACAATTAATG
1 CTATCAGTATAGACTTATATGTTTTAATTTTTGTTACT-TATACCGACAATTAACG
* * ***
11707341 CTTGTCAGTCTAGACTTATAT-TTTTAATTTTTGTTACTTATACCGATGCTTAACG
1 C-TATCAGTATAGACTTATATGTTTTAATTTTTGTTACTTATACCGACAATTAACG
* * *
11707396 TCTATCAGTATAGATTTGTATGTTTTAATTTTTTTTACTTATAC
1 -CTATCAGTATAGACTTATATGTTTTAATTTTTGTTACTTATAC
11707440 GGGCAGTTAG
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
55 43 0.52
56 39 0.48
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (55 bp):
CTATCAGTATAGACTTATATGTTTTAATTTTTGTTACTTATACCGACAATTAACG
Found at i:11711307 original size:23 final size:23
Alignment explanation
Indices: 11711281--11711324 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11711271 TGCACATAAC
11711281 ATCATGCAATAATAATATAATGT
1 ATCATGCAATAATAATATAATGT
11711304 ATCATGCAATAATAATATAAT
1 ATCATGCAATAATAATATAAT
11711325 AATATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (23 bp):
ATCATGCAATAATAATATAATGT
Found at i:11711513 original size:25 final size:26
Alignment explanation
Indices: 11711476--11711524 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
11711466 TAATATATAA
*
11711476 AAAAAACAAAATA-GAAAAATCAAGT
1 AAAAAACAAAATACAAAAAATCAAGT
* *
11711501 AAAAAATAGAATACAAAAAATCAA
1 AAAAAACAAAATACAAAAAATCAA
11711525 ATAACCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (26 bp):
AAAAAACAAAATACAAAAAATCAAGT
Found at i:11712099 original size:33 final size:33
Alignment explanation
Indices: 11712032--11712108 Score: 102
Period size: 33 Copynumber: 2.2 Consensus size: 33
11712022 ACCCTAAACT
11712032 CAAAACAATCCCCTAATTCTTCCAAAAAAAAAACCC
1 CAAAACAA--CCCTAATTCTTCC-AAAAAAAAACCC
*
11712068 CAGAACAACCCTAAATTCTTCC-AAAAAAAACCC
1 CAAAACAACCCT-AATTCTTCCAAAAAAAAACCC
11712101 CAAAACAA
1 CAAAACAA
11712109 AGAACACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 18 0.47
34 4 0.11
35 9 0.24
36 7 0.18
ACGTcount: A:0.52, C:0.32, G:0.01, T:0.14
Consensus pattern (33 bp):
CAAAACAACCCTAATTCTTCCAAAAAAAAACCC
Found at i:11712689 original size:13 final size:12
Alignment explanation
Indices: 11712662--11712692 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
11712652 ATTTTAATTT
11712662 TATTTTTAAATA
1 TATTTTTAAATA
11712674 TATTTTTAAATAA
1 TATTTTTAAAT-A
11712687 TATTTT
1 TATTTT
11712693 CTATAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:11713258 original size:13 final size:13
Alignment explanation
Indices: 11713240--11713294 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
11713230 GTTATTAAGG
11713240 TTTTATTTTAGGA
1 TTTTATTTTAGGA
11713253 TTTTATTTTAAGG-
1 TTTTATTTT-AGGA
* *
11713266 TTTTATTTTGGGG
1 TTTTATTTTAGGA
* *
11713279 TTTCATTTTAAGA
1 TTTTATTTTAGGA
11713292 TTT
1 TTT
11713295 CGTATTAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 2 0.06
13 30 0.86
14 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.62
Consensus pattern (13 bp):
TTTTATTTTAGGA
Found at i:11713266 original size:26 final size:26
Alignment explanation
Indices: 11713234--11713309 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
11713224 TTTAGGGTTA
*
11713234 TTAAGGTTTTATTTTAGGATTTTATT
1 TTAAGGTTTTATTTTAGGATTTCATT
* *
11713260 TTAAGGTTTTATTTTGGGGTTTCATT
1 TTAAGGTTTTATTTTAGGATTTCATT
* ** *
11713286 TTAAGATTTCGTATTAGGATTTCA
1 TTAAGGTTTTATTTTAGGATTTCA
11713310 ACTTGGGGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.55
Consensus pattern (26 bp):
TTAAGGTTTTATTTTAGGATTTCATT
Found at i:11713618 original size:3 final size:3
Alignment explanation
Indices: 11713610--11713651 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11713600 ATTTTTTAAC
11713610 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11713652 TTAAAACACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11714386 original size:2 final size:2
Alignment explanation
Indices: 11714379--11714405 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11714369 TACTATTTCG
11714379 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11714406 TTGGAAACCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11718208 original size:13 final size:13
Alignment explanation
Indices: 11718190--11718214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11718180 GTACATTGAA
11718190 ACCATTAAATTTT
1 ACCATTAAATTTT
11718203 ACCATTAAATTT
1 ACCATTAAATTT
11718215 GTTGATAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
ACCATTAAATTTT
Found at i:11723390 original size:207 final size:205
Alignment explanation
Indices: 11723015--11723400 Score: 486
Period size: 207 Copynumber: 1.9 Consensus size: 205
11723005 TTCAACCAAA
* *
11723015 TTTTTTGTTTGGAAAAGAATACAATTACTTTTACTGAAATTTCATCTAAATTATTCCACCATTTT
1 TTTTTTGTTTGGAAAAAAATACAATTACTTTTACTGAAATTTCATCTAAATTATTCCACCATTTA
* * * *
11723080 GGTCAAATTTAGAGAAAATTTTCACCTAGAGATTTCTTAGAAATTTACCACTCGAAATTTTTTAA
66 GGTCAAATTTAGAAAAAATTTTCACCTAGAAATTTCATAGAAACTTACCACTCGAAATTTTTTAA
**
11723145 GAATCTCATTCTTGGATAATTTGTATTTAATTCCAAAAATTTTATTATTTTATATTTTCTCATTT
131 GAATCTCATTCTTGGATAATTAATATTTAATTCCAAAAATTTTATTATTTTATATTTTCTCATTT
11723210 GTTTTTTTTT
196 GTTTTTTTTT
* *
11723220 TTTTTTGTTT-GAAAATAAATATCAATTATTTTTATTGAAACTTT-ATCTAAATTATTCCACCAT
1 TTTTTTGTTTGGAAAA-AAATA-CAATTACTTTTACTGAAA-TTTCATCTAAATTATTCCACCAT
*
11723283 TTAGGAT-AAATTTAGACAAAAATTTCTCACCTAGAAAATTT-ATAG-AACTTACCATTTC-AAA
63 TTAGG-TCAAATTTAGA-AAAAATTT-TCACCTAG-AAATTTCATAGAAACTTACCA-CTCGAAA
*
11723344 TTTTTTATA-AAT-TCCA-TCATTTGATAATTAATATTT-ATTCCCAAAAATTTTATTATT
123 TTTTTTA-AGAATCT-CATTC-TTGGATAATTAATATTTAATT-CCAAAAATTTTATTATT
11723401 ATTTTTATTT
Statistics
Matches: 157, Mismatches: 12, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
204 5 0.03
205 14 0.09
206 54 0.34
207 65 0.41
208 14 0.09
209 5 0.03
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (205 bp):
TTTTTTGTTTGGAAAAAAATACAATTACTTTTACTGAAATTTCATCTAAATTATTCCACCATTTA
GGTCAAATTTAGAAAAAATTTTCACCTAGAAATTTCATAGAAACTTACCACTCGAAATTTTTTAA
GAATCTCATTCTTGGATAATTAATATTTAATTCCAAAAATTTTATTATTTTATATTTTCTCATTT
GTTTTTTTTT
Found at i:11723459 original size:13 final size:13
Alignment explanation
Indices: 11723443--11723478 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
11723433 GAAAAAAAAC
11723443 AAATACATAAATA
1 AAATACATAAATA
*
11723456 AAATACTTAAATA
1 AAATACATAAATA
*
11723469 AAATAAATAA
1 AAATACATAA
11723479 GAAAATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATACATAAATA
Found at i:11724449 original size:63 final size:63
Alignment explanation
Indices: 11724380--11724504 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
11724370 AATAACTTTT
* * *
11724380 AAAAAATAAAAT-GCTCCTCTAAATAGAGGTAACAAAACTTTAGAAGGATAAATGGCTGCTCTA
1 AAAAAAT-AAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCTCCTCTA
* * * * *
11724443 AAAAAATAAATGGCTCCTCTGAATATAGGCAATAGAACTTTGGAAAGATAAATGGCTCCTCT
1 AAAAAATAAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCTCCTCT
11724505 GAATAGAGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 4 0.08
63 49 0.92
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (63 bp):
AAAAAATAAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCTCCTCTA
Found at i:11724495 original size:42 final size:42
Alignment explanation
Indices: 11724444--11724622 Score: 241
Period size: 42 Copynumber: 4.2 Consensus size: 42
11724434 GCTGCTCTAA
* * *
11724444 AAAAATAAATGGCTCCTCTGAATATAGGCAATAGAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTTGG
* * *
11724486 AAAGATAAATGGCTCCTCTGAATAGAGGCAATAAAACTTTAG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTTGG
*
11724528 AAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTTGG
* * * **
11724570 AAAAATAAAATAGCTCCTCTGAATAGAGGTAACAGAACTTTAA
1 AAAAAT-AAATGGCTCCTCTGAATAGAGGCAACAAAACTTTGG
11724613 AAAAATAAAT
1 AAAAATAAAT
11724623 TACTCTTTGA
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
42 86 0.70
43 36 0.30
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.23
Consensus pattern (42 bp):
AAAAATAAATGGCTCCTCTGAATAGAGGCAACAAAACTTTGG
Found at i:11724538 original size:84 final size:85
Alignment explanation
Indices: 11724441--11724622 Score: 267
Period size: 84 Copynumber: 2.2 Consensus size: 85
11724431 ATGGCTGCTC
* * * * * *
11724441 TAAAAAAATAAATGGCTCCTCTGAATATAGGCAATAGAACTTTGGAAAGAT-AAATGGCTCCTCT
1 TAAAAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGGAAAAATAAAATAGCTCCTCT
*
11724505 GAATAGAGGCAATAAAACTT
66 GAATAGAGGCAACAAAACTT
*
11724525 TAGAAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGGAAAAATAAAATAGCTCCTCT
1 TAAAAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGGAAAAATAAAATAGCTCCTCT
* *
11724590 GAATAGAGGTAACAGAACTT
66 GAATAGAGGCAACAAAACTT
11724610 TAAAAAAATAAAT
1 TAAAAAAATAAAT
11724623 TACTCTTTGA
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 45 0.52
85 41 0.48
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (85 bp):
TAAAAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGGAAAAATAAAATAGCTCCTCT
GAATAGAGGCAACAAAACTT
Found at i:11724893 original size:20 final size:20
Alignment explanation
Indices: 11724870--11724907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11724860 ATATTCGCAT
11724870 TCAAAGCTTCCCATTCAAAC
1 TCAAAGCTTCCCATTCAAAC
* *
11724890 TCAAAGGTTCTCATTCAA
1 TCAAAGCTTCCCATTCAA
11724908 TAAATCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (20 bp):
TCAAAGCTTCCCATTCAAAC
Found at i:11724978 original size:21 final size:22
Alignment explanation
Indices: 11724953--11725007 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
11724943 TTGAAACTTA
* *
11724953 AAATTTAAAGACTTTTC-TTTT
1 AAATTCAAAGACTTTTCATTTG
11724974 AAATTCAAAGA-TTTTCATTTG
1 AAATTCAAAGACTTTTCATTTG
11724995 AAATTCAAAGACT
1 AAATTCAAAGACT
11725008 CTCATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 5 0.17
21 24 0.80
22 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (22 bp):
AAATTCAAAGACTTTTCATTTG
Found at i:11726129 original size:5 final size:5
Alignment explanation
Indices: 11726119--11726167 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
11726109 TGAGTTTCCA
* *
11726119 TTTTC TTTTC TTTTC ATTTTC TTTT- TTTTT TTTTC TTTTT TTTTC TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
11726168 TTTCACCCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 5 0.13
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:11726138 original size:16 final size:15
Alignment explanation
Indices: 11726117--11726161 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
11726107 TTTGAGTTTC
11726117 CATTTTCTTTTCTTTT
1 CATTTTCTTTT-TTTT
11726133 CATTTTCTTTTTTTT
1 CATTTTCTTTTTTTT
*
11726148 -TTTTTCTTTTTTTT
1 CATTTTCTTTTTTTT
11726162 TCTTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 4 0.14
16 11 0.39
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (15 bp):
CATTTTCTTTTTTTT
Found at i:11726168 original size:11 final size:11
Alignment explanation
Indices: 11726119--11726170 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
11726109 TGAGTTTCCA
*
11726119 TTTTCTTTTCT
1 TTTTTTTTTCT
*
11726130 TTTCATTTTCTTTT
1 TTT--TTTT-TTCT
11726144 TTTTTTTTTC-
1 TTTTTTTTTCT
11726154 TTTTTTTTTCT
1 TTTTTTTTTCT
11726165 TTTTTT
1 TTTTTT
11726171 CACCCATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 10 0.29
11 11 0.32
12 4 0.12
13 3 0.09
14 6 0.18
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:11730841 original size:204 final size:206
Alignment explanation
Indices: 11730467--11730863 Score: 508
Period size: 204 Copynumber: 1.9 Consensus size: 206
11730457 TCAGCCAAAG
*
11730467 TTTTTTGTTTGGAAAATAATACAATTACTTTTATTGAAACTTCATGTAAATTATTCCACAATTTG
1 TTTTTTGTTTGGAAAATAATACAATTACTTTTATTGAAACTTCATGTAAATTATTCCACAATTTA
* * * * *
11730532 GGCCAAATTTAGAGAAAATTTTCTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTCTA
66 GGACAAATTTAGACAAAATTTTCTCACCTAAAAATTTCTTAGAAACTTACCATTTGAAATTTCTA
* **
11730597 AGAATCTCATCCTTGGATAATTTGTATTTAATTACAAAA-TTTATTATTTTATTA-TTTTTATTT
131 AGAATCTCATCATTGGATAATTAATATTTAATTACAAAATTTTA-T-TTTTATTATTTTTTATTT
11730660 TTTTTCATTTGTT
194 TTTTTCATTTGTT
* * *
11730673 TTTTTTGTTT-GAAAATAAATATTAATTA-TTGTTATTGAAACTTTAT-TAAATTATTCCACCAT
1 TTTTTTGTTTGGAAAAT-AATA-CAATTACTT-TTATTGAAACTTCATGTAAATTATTCCACAAT
*
11730735 TTAGGATAAATTTAGACAAAA-TTTCTCACCTAAAAATTT-TATAG-AACTTACCATTTGAAATT
63 TTAGGACAAATTTAGACAAAATTTTCTCACCTAAAAATTTCT-TAGAAACTTACCATTTGAAATT
* * *
11730797 TCTATA-AATTTCATCATTGGATAATTAATGTTT-ATTCCCAAAATTTTATTTTTATTATTTTTT
127 TCTA-AGAATCTCATCATTGGATAATTAATATTTAATT-ACAAAATTTTATTTTTATTATTTTTT
11730860 ATTT
190 ATTT
11730864 AATTTAATAG
Statistics
Matches: 167, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
203 11 0.07
204 59 0.35
205 30 0.18
206 48 0.29
207 19 0.11
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.48
Consensus pattern (206 bp):
TTTTTTGTTTGGAAAATAATACAATTACTTTTATTGAAACTTCATGTAAATTATTCCACAATTTA
GGACAAATTTAGACAAAATTTTCTCACCTAAAAATTTCTTAGAAACTTACCATTTGAAATTTCTA
AGAATCTCATCATTGGATAATTAATATTTAATTACAAAATTTTATTTTTATTATTTTTTATTTTT
TTTCATTTGTT
Found at i:11731741 original size:7 final size:7
Alignment explanation
Indices: 11731724--11731764 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
11731714 TTAACCGAAA
11731724 AAAATAAT
1 AAAA-AAT
11731732 AAAAAAT
1 AAAAAAT
11731739 AAAAAAT
1 AAAAAAT
11731746 AAAAAAT
1 AAAAAAT
*
11731753 AAAAAAC
1 AAAAAAT
11731760 AAAAA
1 AAAAA
11731765 TACAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 28 0.88
8 4 0.12
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:11731749 original size:13 final size:13
Alignment explanation
Indices: 11731729--11731775 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
11731719 CGAAAAAAAT
11731729 AATAAAAAATAAAA
1 AATAAAAAAT-AAA
11731743 AATAAAAAATAAA
1 AATAAAAAATAAA
*
11731756 AA-ACAAAAATACA
1 AATA-AAAAATAAA
11731769 AATAAAA
1 AATAAAA
11731776 TAGACTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 18 0.60
14 11 0.37
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:11731755 original size:21 final size:22
Alignment explanation
Indices: 11731724--11731773 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
11731714 TTAACCGAAA
*
11731724 AAAATAATAAAAAATAAAAAAT
1 AAAATAATAAAAAACAAAAAAT
11731746 AAAA-AATAAAAAAC-AAAAAT
1 AAAATAATAAAAAACAAAAAAT
11731766 ACAAATAA
1 A-AAATAA
11731774 AATAGACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 12 0.48
22 6 0.24
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATAATAAAAAACAAAAAAT
Found at i:11732337 original size:6 final size:6
Alignment explanation
Indices: 11732328--11732430 Score: 75
Period size: 6 Copynumber: 17.2 Consensus size: 6
11732318 ATGTATATGA
* * * *
11732328 ATATAG ATATAT ATATAT ATATAT GTATAT ATGA-AT ATATGT ATATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT AT-ATAT ATATAT ATATAT
* * * * * * *
11732376 ATATAT ATAGAC ATATAT GTATAC ATATAT -TCATCT ATACAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT AT-ATAT ATATAT ATATAT
11732424 ATATAT A
1 ATATAT A
11732431 AGGTTAATAG
Statistics
Matches: 74, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
5 2 0.03
6 70 0.95
7 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:11732349 original size:8 final size:8
Alignment explanation
Indices: 11732328--11732430 Score: 75
Period size: 8 Copynumber: 12.9 Consensus size: 8
11732318 ATGTATATGA
*
11732328 ATATAGAT
1 ATATATAT
11732336 ATATATAT
1 ATATATAT
11732344 ATATATAT
1 ATATATAT
*
11732352 GTATATAT
1 ATATATAT
11732360 GA-ATATAT
1 -ATATATAT
* *
11732368 GTATATAC
1 ATATATAT
11732376 ATATATAT
1 ATATATAT
* *
11732384 AGACATAT
1 ATATATAT
* *
11732392 ATGTATAC
1 ATATATAT
11732400 ATATAT-T
1 ATATATAT
* *
11732407 CATCTATAC
1 -ATATATAT
*
11732416 ATATACAT
1 ATATATAT
11732424 ATATATA
1 ATATATA
11732431 AGGTTAATAG
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
8 70 1.00
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (8 bp):
ATATATAT
Found at i:11732392 original size:34 final size:34
Alignment explanation
Indices: 11732321--11732394 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
11732311 TAGGTTGATG
* *
11732321 TATATGAATATAGATATATATATATATATATGTA
1 TATATGAATATAGATATATACATATATATATGCA
11732355 TATATGAATATATG-TATATACATATATATA-GACA
1 TATATGAATATA-GATATATACATATATATATG-CA
11732389 TATATG
1 TATATG
11732395 TATACATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 34 0.94
35 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (34 bp):
TATATGAATATAGATATATACATATATATATGCA
Found at i:11732956 original size:21 final size:22
Alignment explanation
Indices: 11732932--11732973 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11732922 TCTATTCAAA
11732932 AAATATAT-TTTTTAAAATATT
1 AAATATATATTTTTAAAATATT
*
11732953 AAATATATATTTTTCAAATAT
1 AAATATATATTTTTAAAATAT
11732974 ATTTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATATATTTTTAAAATATT
Found at i:11733646 original size:12 final size:13
Alignment explanation
Indices: 11733629--11733657 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11733619 AATTATATAG
11733629 ATTTAAATTTAA-
1 ATTTAAATTTAAT
11733641 ATTTAAATTTAAT
1 ATTTAAATTTAAT
11733654 ATTT
1 ATTT
11733658 TTATAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAAATTTAAT
Found at i:11734320 original size:25 final size:26
Alignment explanation
Indices: 11734268--11734323 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
11734258 TTGTGGTTAA
*
11734268 AAAAAATTAAGATAAAAAATACATTT
1 AAAAAATTAAGATAAAAAATACAGTT
* **
11734294 AAAAAA-TATGATAAAAAATTTAGTT
1 AAAAAATTAAGATAAAAAATACAGTT
11734319 AAAAA
1 AAAAA
11734324 TTTTAAGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAAAATTAAGATAAAAAATACAGTT
Found at i:11738049 original size:64 final size:65
Alignment explanation
Indices: 11737964--11738102 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 65
11737954 ATAATCCCAA
* * * *
11737964 AAAAAAATTGAGAAGGGATTAT-TCAAGACGTTTTTGGTCAAAAATGTATTGAATAATCCCTTAG
1 AAAAAAATTGAAAAGAGATTATAT-AAGACATTTTTGGTCAAAAACGTATTGAATAATCCCTTAG
11738028 T
65 T
** * * *
11738029 AAAAAAATT-AAAAGAGATTATATAAGGTATTTTTTGTCAGAAACGTCTTGAATAATCCCTTA--
1 AAAAAAATTGAAAAGAGATTATATAAGACATTTTTGGTCAAAAACGTATTGAATAATCCCTTAGT
*
11738091 CAAAAAATTGAA
1 AAAAAAATTGAA
11738103 TGGGGTTATT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
62 8 0.13
63 2 0.03
64 42 0.68
65 10 0.16
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (65 bp):
AAAAAAATTGAAAAGAGATTATATAAGACATTTTTGGTCAAAAACGTATTGAATAATCCCTTAGT
Found at i:11738441 original size:64 final size:63
Alignment explanation
Indices: 11738333--11738451 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 63
11738323 AATAATCTCC
* * * * * *
11738333 AAAAAAAATTGGAGAGGATTATTAAGGTATTTTTAGTCAAAAACGCTTTGAATAATCCCTAAT
1 AAAAAAAATTGAAGAGGATTATTAAAGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTAAT
*
11738396 AAAAAAAATTGAA-AGGGATTATTTAAAGCATTTTTAGCCAGAAACGCCTTCAATAA
1 AAAAAAAATTGAAGA-GGATTA-TTAAAGCATTTTTAGCCAAAAACGCCTTCAATAA
11738452 CCTAATTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 1 0.02
63 18 0.38
64 28 0.60
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (63 bp):
AAAAAAAATTGAAGAGGATTATTAAAGCATTTTTAGCCAAAAACGCCTTCAATAATCCCTAAT
Found at i:11744174 original size:15 final size:14
Alignment explanation
Indices: 11744154--11744187 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11744144 ATTTGGAGCC
11744154 TTTTTTT-TTTTTGA
1 TTTTTTTGTTTTT-A
11744168 TTTTTTTGTTTTTA
1 TTTTTTTGTTTTTA
11744182 TTTTTT
1 TTTTTT
11744188 GAAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTGTTTTTA
Found at i:11744793 original size:30 final size:30
Alignment explanation
Indices: 11744732--11744793 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
11744722 TTTTTTTTGC
* **
11744732 TTATTTATTTATTTATTGGTTAAATTGATA
1 TTATTTATTTATTTATTAGTTAAATAAATA
*
11744762 TTATTTATTTATTTATTTAG-TGAATAAATA
1 TTATTTATTTATTTA-TTAGTTAAATAAATA
11744792 TT
1 TT
11744794 CTTTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (30 bp):
TTATTTATTTATTTATTAGTTAAATAAATA
Found at i:11745034 original size:58 final size:57
Alignment explanation
Indices: 11744835--11745058 Score: 227
Period size: 59 Copynumber: 3.8 Consensus size: 57
11744825 TAACAATAAT
*
11744835 AAAAATTCAAAAAAAGAGATTTCTTTTAGGAAAGGTTGAAGTATCAATTTTATTTGAAAATA
1 AAAAATTCAAAAAAA-A-A-TT-TTTTAGGAAAAGTTGAAGTATCAATTTT-TTTGAAAATA
*** * * *
11744897 AAAAATTCAAAAAATGGTTTTTTTAGGAAAAATTGAAAGTATTAATTTTTTTGAAGATA
1 AAAAATTCAAAAAA-AAATTTTTTAGGAAAAGTTG-AAGTATCAATTTTTTTGAAAATA
* * * *
11744956 AAAATTTC-AAAAAATATTTTTTAGGAAAAGTTGAAGTATAAATTTTCTTTAAAAATA
1 AAAAATTCAAAAAAAAATTTTTTAGGAAAAGTTGAAGTATCAATTTT-TTTGAAAATA
** *
11745013 AAATTTTCAAAAAAAAATTTTTTGAGAAAAAG-TGAAGTATCAATTT
1 AAAAATTCAAAAAAAAATTTTTT-AGGAAAAGTTGAAGTATCAATTT
11745059 GCCTAAAAAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
56 12 0.09
57 31 0.22
58 31 0.22
59 36 0.26
60 14 0.10
62 14 0.10
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.37
Consensus pattern (57 bp):
AAAAATTCAAAAAAAAATTTTTTAGGAAAAGTTGAAGTATCAATTTTTTTGAAAATA
Found at i:11745068 original size:58 final size:57
Alignment explanation
Indices: 11744953--11745083 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 57
11744943 TTTTTTGAAG
* * * * *
11744953 ATAAAAATTTCAAAAAATATTTTTTAGGAAAAGTTGAAGTATAAATTTTCTTTAAAA
1 ATAAAAATTTCAAAAAAAATTTTTTAGAAAAAGTTGAAGTATAAATTTGCCTAAAAA
* *
11745010 ATAAAATTTTCAAAAAAAAATTTTTTGAGAAAAAG-TGAAGTATCAATTTGCCTAAAAA
1 ATAAAAATTTC-AAAAAAAATTTTTT-AGAAAAAGTTGAAGTATAAATTTGCCTAAAAA
* * *
11745068 ATGAATACTTCAAAAA
1 ATAAAAATTTCAAAAA
11745084 TAATGAAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
57 15 0.25
58 39 0.64
59 7 0.11
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (57 bp):
ATAAAAATTTCAAAAAAAATTTTTTAGAAAAAGTTGAAGTATAAATTTGCCTAAAAA
Found at i:11753757 original size:24 final size:24
Alignment explanation
Indices: 11753730--11753778 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11753720 TATTATTAGT
11753730 AAGGGTAATTTAGAATTAGAGAAC
1 AAGGGTAATTTAGAATTAGAGAAC
* *
11753754 AAGGGTATTTTAGAATTTGAGAAC
1 AAGGGTAATTTAGAATTAGAGAAC
11753778 A
1 A
11753779 TGTAATTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (24 bp):
AAGGGTAATTTAGAATTAGAGAAC
Found at i:11763408 original size:17 final size:18
Alignment explanation
Indices: 11763382--11763415 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11763372 ACTTGCAATC
*
11763382 CCAAATCCCTAT-TATAG
1 CCAAACCCCTATCTATAG
11763399 CCAAACCCCTATCTATA
1 CCAAACCCCTATCTATA
11763416 AATAAAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (18 bp):
CCAAACCCCTATCTATAG
Found at i:11765862 original size:13 final size:13
Alignment explanation
Indices: 11765844--11765879 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
11765834 AAAAAAAAAC
11765844 AAATACATAAATA
1 AAATACATAAATA
*
11765857 AAATACTTAAATA
1 AAATACATAAATA
*
11765870 AAATAAATAA
1 AAATACATAA
11765880 GAAAATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATACATAAATA
Found at i:11766973 original size:63 final size:63
Alignment explanation
Indices: 11766904--11767023 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
11766894 AATAACTTTT
* *
11766904 AAAAAATAAAAT-GCTCCTCTAAATAGAGGTAACAAAACTTTAGAAGGATAAATGGCTGCTCTA
1 AAAAAAT-AAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCTGCTCTA
* * * * *
11766967 AAAAAATAAATGGCTCCTCTGAATATAGGCAATAGAACTTTGGAAAGATAAATGGCT
1 AAAAAATAAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCT
11767024 CCTTTGAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 4 0.08
63 45 0.92
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.24
Consensus pattern (63 bp):
AAAAAATAAATGGCTCCTCTAAATAGAGGCAACAAAACTTTAGAAAGATAAATGGCTGCTCTA
Found at i:11767019 original size:42 final size:42
Alignment explanation
Indices: 11766968--11767230 Score: 391
Period size: 42 Copynumber: 6.2 Consensus size: 42
11766958 GCTGCTCTAA
* *
11766968 AAAAATAAATGGCTCCTCTGAATATAGGCAATAGAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
* *
11767010 AAAGATAAATGGCTCCTTTGAATAGAGGCAACAGAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
*
11767052 AAAGATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
* * *
11767094 AAAAATAAATGGCTCCTCTGAATAGAGGCAATAAAACTTTAG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
* *
11767136 AAAAATAAATGGCTCATCTGAATAGAGGCAACAAAACTTTGG
1 AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
* * **
11767178 AAAAATAAAATAGCTCCTCTGAATAGAGGTAACAGAACTTTAA
1 AAAAAT-AAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
11767221 AAAAATAAAT
1 AAAAATAAAT
11767231 TACTCTTTGA
Statistics
Matches: 202, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 166 0.82
43 36 0.18
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (42 bp):
AAAAATAAATGGCTCCTCTGAATAGAGGCAACAGAACTTTGG
Found at i:11767603 original size:21 final size:21
Alignment explanation
Indices: 11767568--11767616 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
11767558 CTTAAAACTT
11767568 AAAGACTTTTCTTTGAAATTC
1 AAAGACTTTTCTTTGAAATTC
11767589 AAAGA-TTTTCATTTGAAATTC
1 AAAGACTTTTC-TTTGAAATTC
11767610 AAAGACT
1 AAAGACT
11767617 CTCATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 20 0.77
22 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAGACTTTTCTTTGAAATTC
Found at i:11767621 original size:21 final size:21
Alignment explanation
Indices: 11767579--11767621 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11767569 AAGACTTTTC
* *
11767579 TTTGAAATTCAAAGATTTTCA
1 TTTGAAATTCAAAGACTCTCA
11767600 TTTGAAATTCAAAGACTCTCA
1 TTTGAAATTCAAAGACTCTCA
11767621 T
1 T
11767622 AAAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTGAAATTCAAAGACTCTCA
Found at i:11767988 original size:48 final size:48
Alignment explanation
Indices: 11767913--11768016 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
11767903 GCACTAGCCA
* * *
11767913 TCTCAGAATAAATTTTGTCTTCTATCACTTGATCATCACTCATAAGCT
1 TCTCAGTACAAATTTTATCTTCTATCACTTGATCATCACTCATAAGCT
* * *
11767961 TCTCAGTACAAATTTTATCCTTC-ATCACTTTATCATCATTCATGAGCT
1 TCTCAGTACAAATTTTAT-CTTCTATCACTTGATCATCACTCATAAGCT
11768009 TCTCAGTA
1 TCTCAGTA
11768017 TTTCAGAGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 45 0.92
49 4 0.08
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (48 bp):
TCTCAGTACAAATTTTATCTTCTATCACTTGATCATCACTCATAAGCT
Found at i:11768768 original size:21 final size:22
Alignment explanation
Indices: 11768744--11768822 Score: 117
Period size: 22 Copynumber: 3.6 Consensus size: 22
11768734 CTGCTTTTCA
11768744 TTTTCTTTTTTTTCTTCTTATT
1 TTTTCTTTTTTTTCTTCTTATT
*
11768766 TTTTCTTATTTTT-TTCTTATT
1 TTTTCTTTTTTTTCTTCTTATT
*
11768787 TTTTCTTTTTCTTTCTT-TTTTT
1 TTTTCTTTTT-TTTCTTCTTATT
11768809 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
11768823 ACCCATTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
21 21 0.40
22 29 0.56
23 2 0.04
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTCTTTTTTTTCTTCTTATT
Found at i:11768820 original size:10 final size:10
Alignment explanation
Indices: 11768744--11768822 Score: 86
Period size: 10 Copynumber: 7.5 Consensus size: 10
11768734 CTGCTTTTCA
11768744 TTTTCTTTTTT
1 TTTTC-TTTTT
*
11768755 TTCTTCTTATT
1 TT-TTCTTTTT
11768766 TTTTCTTATTT
1 TTTTCTT-TTT
*
11768777 TTTTCTTATT
1 TTTTCTTTTT
11768787 TTTTCTTTTT
1 TTTTCTTTTT
*
11768797 CTTTCTTTTT
1 TTTTCTTTTT
*
11768807 TTTTTTCTTTT
1 TTTTCT-TTTT
11768818 TTTTC
1 TTTTC
11768823 ACCCATTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
10 29 0.51
11 25 0.44
12 3 0.05
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Done.