Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 59 of 117
Found at i:13132260 original size:16 final size:16
Alignment explanation
Indices: 13132227--13132266 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
13132217 TTTTATTAAA
13132227 TAAATAAAGGAAAAAAT
1 TAAATAAA-GAAAAAAT
13132244 TAAATAAA-AAAAGAAT
1 TAAATAAAGAAAA-AAT
13132260 TAAATAA
1 TAAATAA
13132267 CTTAACATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
TAAATAAAGAAAAAAT
Found at i:13132975 original size:16 final size:16
Alignment explanation
Indices: 13132955--13132995 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
13132945 TTAAATAAAG
13132955 ATATTAAATAATAACA
1 ATATTAAATAATAACA
*
13132971 TTATT-AAT-ATAACA
1 ATATTAAATAATAACA
13132985 ATATATAAATA
1 ATAT-TAAATA
13132996 TTAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATTAAATAATAACA
Found at i:13143469 original size:30 final size:28
Alignment explanation
Indices: 13143409--13143471 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
13143399 GGTTGAAATA
* *
13143409 AATTT-TTATTTATTTTAAATTTGATCT
1 AATTTATTATTTATTTAAAATTTAATCT
*
13143436 AATTTATTATTATAATTTAAAATTTAATTT
1 AATTTATTATT-T-ATTTAAAATTTAATCT
13143466 AATTTA
1 AATTTA
13143472 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 5 0.17
28 5 0.17
29 1 0.03
30 19 0.63
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
AATTTATTATTTATTTAAAATTTAATCT
Found at i:13143876 original size:8 final size:8
Alignment explanation
Indices: 13143863--13143903 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
13143853 AATTTTAAAT
*
13143863 ATAATATG
1 ATAATATA
13143871 ATAATATA
1 ATAATATA
*
13143879 ATAATAAA
1 ATAATATA
13143887 ATAATATA
1 ATAATATA
*
13143895 ATCATATA
1 ATAATATA
13143903 A
1 A
13143904 AAAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
ATAATATA
Found at i:13143889 original size:21 final size:20
Alignment explanation
Indices: 13143860--13143912 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
13143850 AATAATTTTA
*
13143860 AATATAATATGATAAT-ATAAT
1 AATAAAATAT-ATAATCAT-AT
13143881 AATAAAATAATATAATCATAT
1 AATAAAAT-ATATAATCATAT
*
13143902 AAAAAAATATA
1 AATAAAATATA
13143913 ATTTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AATAAAATATATAATCATAT
Found at i:13143905 original size:18 final size:16
Alignment explanation
Indices: 13143871--13143914 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
13143861 ATATAATATG
13143871 ATAATATAATAATAAA
1 ATAATATAATAATAAA
13143887 ATAATATAATCATATAAA
1 ATAATATAAT-A-ATAAA
*
13143905 AAAATATAAT
1 ATAATATAAT
13143915 TTAAAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
18 14 0.56
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATAATAATAAA
Found at i:13144747 original size:2 final size:2
Alignment explanation
Indices: 13144740--13144769 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13144730 AATGTGAATT
13144740 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
13144770 AATAACTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13151413 original size:20 final size:21
Alignment explanation
Indices: 13151368--13151407 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13151358 ATTCTAATGT
13151368 ATCAAGAATCATCCAAGATTG
1 ATCAAGAATCATCCAAGATTG
*
13151389 ATCAAGAA-CTTCCAAGATT
1 ATCAAGAATCATCCAAGATT
13151408 TTTCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.25
Consensus pattern (21 bp):
ATCAAGAATCATCCAAGATTG
Found at i:13156319 original size:19 final size:20
Alignment explanation
Indices: 13156284--13156324 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13156274 ACAACAAATT
*
13156284 AAGCACTTTAAGTAAAA-AA
1 AAGCACTTTAAGCAAAACAA
13156303 AAGCTACTTTAA-CAAAACAA
1 AAGC-ACTTTAAGCAAAACAA
13156323 AA
1 AA
13156325 TAAAAGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.20
Consensus pattern (20 bp):
AAGCACTTTAAGCAAAACAA
Found at i:13158298 original size:34 final size:34
Alignment explanation
Indices: 13158259--13158324 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
13158249 ATATTTTAGC
13158259 TCATCTATCAAAAGTCTTAAGAAAACATCTATTT
1 TCATCTATCAAAAGTCTTAAGAAAACATCTATTT
* *
13158293 TCATCTATTAAAAGTTTTAAGAAAACATCTAT
1 TCATCTATCAAAAGTCTTAAGAAAACATCTAT
13158325 ATATTGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (34 bp):
TCATCTATCAAAAGTCTTAAGAAAACATCTATTT
Found at i:13160112 original size:27 final size:28
Alignment explanation
Indices: 13160052--13160113 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
13160042 ATTATTAATT
* **
13160052 AAAAATATAAACAGTAAATAAAATTTAG
1 AAAAATATAAACAATAAATAAAATCAAG
*
13160080 ACAAATATAAA-AATAAATAAAATCAAG
1 AAAAATATAAACAATAAATAAAATCAAG
13160107 AAAAATA
1 AAAAATA
13160114 CTTAAATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (28 bp):
AAAAATATAAACAATAAATAAAATCAAG
Found at i:13160611 original size:23 final size:21
Alignment explanation
Indices: 13160578--13160620 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13160568 TTTTGCTTTT
13160578 ATTTTTATTTTTTTAAAAAAATA
1 ATTTTTA--TTTTTAAAAAAATA
*
13160601 ATTTTTGTTTTTAAAAAAAT
1 ATTTTTATTTTTAAAAAAAT
13160621 GTATTTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
23 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTATTTTTAAAAAAATA
Found at i:13162758 original size:18 final size:18
Alignment explanation
Indices: 13162737--13162801 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
13162727 TCTTTTTTGA
*
13162737 TTTTGATTTTGGTTTTAT
1 TTTTGATTTTGATTTTAT
* *
13162755 TTTTTATTTTTAATTTTATT
1 TTTTGA-TTTTGATTTTA-T
*
13162775 TTTTGA-TTTGATTTGAT
1 TTTTGATTTTGATTTTAT
*
13162792 TTTTTATTTT
1 TTTTGATTTT
13162802 TAAATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 6 0.16
18 16 0.43
19 9 0.24
20 6 0.16
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.75
Consensus pattern (18 bp):
TTTTGATTTTGATTTTAT
Found at i:13162923 original size:21 final size:21
Alignment explanation
Indices: 13162899--13162954 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
13162889 GATATTTTGT
13162899 ATGAATTTTATTTATTCTTAC
1 ATGAATTTTATTTATTCTTAC
* *
13162920 ATG-ATTTTGA--TATTTTTGC
1 ATGAATTTT-ATTTATTCTTAC
*
13162939 ACGAATTTTATTTATT
1 ATGAATTTTATTTATT
13162955 TGCATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 10 0.36
20 10 0.36
21 8 0.29
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (21 bp):
ATGAATTTTATTTATTCTTAC
Found at i:13164974 original size:139 final size:139
Alignment explanation
Indices: 13164641--13165219 Score: 672
Period size: 139 Copynumber: 4.2 Consensus size: 139
13164631 TATTTCATTT
*
13164641 GTTTTGAATATGAATTCTTA-TTTTACTATACATTGCATACATTTATTTGCACATACATTTTTAT
1 GTTTTGAATATGAATTCTTAGTTTTACTATACATTGCATACATGTATTTGCACATACATTTTTAT
* * * * * * *
13164705 CTATGTAAACATCTTAGTATGTACATTATTTCATTTATTTGGGAGAATCTTTACC-CTCTT-CTT
66 CCATGTAAACATCTTTGTATGTACATTATTTCATTTATTTGAGAGAATCTTTGCCTTTTTTAGTT
* *
13164768 GT-C-CAAA
131 TTACACATA
* * * *
13164775 GTTTTGAATATGAATTCTT-GTTTTTACTATGCATTGCATACATATATATGCATATACATTTTTA
1 GTTTTGAATATGAATTCTTAG-TTTTACTATACATTGCATACATGTATTTGCACATACATTTTTA
* * * *
13164839 TTCATGTAAACCTCATTGTATGTACATTATTTCATTTGTTTGAGAGAATCTTTGCCTTTTTTAGT
65 TCCATGTAAACATCTTTGTATGTACATTATTTCATTTATTTGAGAGAATCTTTGCCTTTTTTAGT
13164904 TTTACACATA
130 TTTACACATA
* ** *
13164914 GTCTTGAATATGAATTCTTAGTTTTACTATGTATTGCATACATGTATTTGCATATACATTTTTAT
1 GTTTTGAATATGAATTCTTAGTTTTACTATACATTGCATACATGTATTTGCACATACATTTTTAT
** * *
13164979 CCATGTAAACATCTTTGTATGCCCGTTATTTCATTTGTTTGAGAGAATCTTTGCCTTTTTTAGTT
66 CCATGTAAACATCTTTGTATGTACATTATTTCATTTATTTGAGAGAATCTTTGCCTTTTTTAGTT
**
13165044 TTGTACATA
131 TTACACATA
* * * * * *
13165053 ATTTTGACTATGAATTCTTACTTTTACTGTATATTGCATACATGTATTTACACATACATTTTTTC
1 GTTTTGAATATGAATTCTTAGTTTTACTATACATTGCATACATGTATTTGCACATACA-TTTTT-
* * **
13165118 ATCCATGTAAACATCTTTGTATGAACATTATTTCATTTATTTG-GGGCAATCTTT-TTTTTTTTC
64 ATCCATGTAAACATCTTTGTATGTACATTATTTCATTTATTTGAGAG-AATCTTTGCCTTTTTT-
*
13165181 AATTTTAGCACATAA
127 AGTTTTA-CACAT-A
*
13165196 GTTTTGAATAAGAATTCTT-GTTTT
1 GTTTTGAATATGAATTCTTAGTTTT
13165220 TCATTACATT
Statistics
Matches: 381, Mismatches: 51, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
134 19 0.05
135 87 0.23
136 3 0.01
137 3 0.01
138 1 0.00
139 178 0.47
140 14 0.04
141 51 0.13
142 8 0.02
143 17 0.04
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (139 bp):
GTTTTGAATATGAATTCTTAGTTTTACTATACATTGCATACATGTATTTGCACATACATTTTTAT
CCATGTAAACATCTTTGTATGTACATTATTTCATTTATTTGAGAGAATCTTTGCCTTTTTTAGTT
TTACACATA
Found at i:13165174 original size:274 final size:269
Alignment explanation
Indices: 13164644--13165160 Score: 640
Period size: 274 Copynumber: 1.9 Consensus size: 269
13164634 TTCATTTGTT
* *
13164644 TTGAATATGAATTCTTATTTTACTATACATTGCATACATTTATTTGCACATACATTTTTATCTAT
1 TTGAATATGAATTCTTATTTTACTATACATTGCATACATGTATTTGCACATACATTTTTATCCAT
* * *
13164709 GTAAACATCTTAGTATGTACATTATTTCATTTATTTGGGAGAATCTTTACCCTCTTCTTGTCCAA
66 GTAAACATCTTAGTATGCACATTATTTCATTTATTTGAGAGAATCTTTACCCTCTTCTTGTACAA
** * * *
13164774 AGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACATATATATGCATATACATTTTTA
131 AGTTTTGAATATGAATTCTTACTTTTACTATACATTGCATACATATATATACACATACATTTTTA
* * * *
13164839 TTCATGTAAACCTCATTGTATGTACATTATTTCATTTGTTTGAGAGAATCTTTGCCTTTTTTAGT
196 TCCATGTAAACATCATTGTATGAACATTATTTCATTTATTTGAGAGAA---TT-CCTTTTTTAGT
13164904 TTTACACATAGTC
257 TTTACACATAGTC
** *
13164917 TTGAATATGAATTCTTAGTTTTACTATGTATTGCATACATGTATTTGCATATACATTTTTATCCA
1 TTGAATATGAATTCTTA-TTTTACTATACATTGCATACATGTATTTGCACATACATTTTTATCCA
* * * * * * * *
13164982 TGTAAACATCTTTGTATGCCCGTTATTTCATTTGTTTGAGAGAATCTTTGCCTTTTTTAGTTTTG
65 TGTAAACATCTTAGTATGCACATTATTTCATTTATTTGAGAGAATCTTTACC--CTCT--TCTTG
* * * * *
13165047 TACATAA-TTTTGACTATGAATTCTTACTTTTACTGTATATTGCATACATGTATTTACACATACA
126 TACA-AAGTTTTGAATATGAATTCTTACTTTTACTATACATTGCATACATATATATACACATACA
*
13165111 TTTTTTCATCCATGTAAACATCTTTGTATGAACATTATTTCATTTATTTG
190 -TTTTT-ATCCATGTAAACATCATTGTATGAACATTATTTCATTTATTTG
13165161 GGGCAATCTT
Statistics
Matches: 205, Mismatches: 31, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
273 17 0.08
274 87 0.42
276 2 0.01
278 54 0.26
279 7 0.03
280 38 0.19
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (269 bp):
TTGAATATGAATTCTTATTTTACTATACATTGCATACATGTATTTGCACATACATTTTTATCCAT
GTAAACATCTTAGTATGCACATTATTTCATTTATTTGAGAGAATCTTTACCCTCTTCTTGTACAA
AGTTTTGAATATGAATTCTTACTTTTACTATACATTGCATACATATATATACACATACATTTTTA
TCCATGTAAACATCATTGTATGAACATTATTTCATTTATTTGAGAGAATTCCTTTTTTAGTTTTA
CACATAGTC
Found at i:13166689 original size:9 final size:8
Alignment explanation
Indices: 13166673--13166719 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
13166663 GAAAGCATGC
13166673 AAGAAAAA
1 AAGAAAAA
13166681 AATG-AAAA
1 AA-GAAAAA
13166689 AAGAATGAAA
1 AAGAA--AAA
13166699 AAGAAAAAA
1 AAG-AAAAA
13166708 AAGAAAAA
1 AAGAAAAA
13166716 AAGA
1 AAGA
13166720 TGAAAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 1 0.03
8 18 0.53
9 7 0.21
10 6 0.18
11 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (8 bp):
AAGAAAAA
Found at i:13166702 original size:26 final size:26
Alignment explanation
Indices: 13166673--13166725 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
13166663 GAAAGCATGC
*
13166673 AAGAAAAAAATG-AAAAAAGAATGAAA
1 AAGAAAAAAAAGAAAAAAAG-ATGAAA
13166699 AAGAAAAAAAAGAAAAAAAGATGAAA
1 AAGAAAAAAAAGAAAAAAAGATGAAA
13166725 A
1 A
13166726 TGTATGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (26 bp):
AAGAAAAAAAAGAAAAAAAGATGAAA
Found at i:13167881 original size:50 final size:50
Alignment explanation
Indices: 13167777--13167920 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
13167767 ATTGCATCTA
* **
13167777 CATAATTGTTTGGATCATGCATTTGCATTATTTAAG-AATTTATAAACTG
1 CATAATTGTTTGGATCATGCATTTGCATCATTTGGGAAATTTATAAACTG
* *
13167826 CATAATTATTTAGATCATGCATTTGCATCATTTGGGAAATTTATAAACTG
1 CATAATTGTTTGGATCATGCATTTGCATCATTTGGGAAATTTATAAACTG
* * **
13167876 CATAATTGTTTGGACCATACATTTGTGTCATTTGGTGAAAATTTA
1 CATAATTGTTTGGATCATGCATTTGCATCATTTGG-G-AAATTTA
13167921 AAGCATTGTT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 31 0.38
50 42 0.52
51 1 0.01
52 7 0.09
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (50 bp):
CATAATTGTTTGGATCATGCATTTGCATCATTTGGGAAATTTATAAACTG
Found at i:13167999 original size:70 final size:70
Alignment explanation
Indices: 13167874--13168049 Score: 174
Period size: 70 Copynumber: 2.5 Consensus size: 70
13167864 ATTTATAAAC
* * * ** * *
13167874 TGCATAATTGTTTGGACCATACATTTGTGTCATTTGGTGAAAATTTAAAGCATTGTTTTAAATAT
1 TGCATCATTGTTTGAACCATGCATTTGCATCATTTGGTGAAAATCTAAAGAATTG-TTTAAATAT
13167939 TACA-T
65 TACATT
* ** * *
13167944 TGCATCATTGTTTGTACCATGCATTTGCATCATTTGGTGACTATCTAAATAATTGTTTGAATATT
1 TGCATCATTGTTTGAACCATGCATTTGCATCATTTGGTGAAAATCTAAAGAATTGTTTAAATATT
*
13168009 GCATT
66 ACATT
*** * *
13168014 TGCATCACAATTAGAACCATGCATTTGCATAATTTG
1 TGCATCATTGTTTGAACCATGCATTTGCATCATTTG
13168050 ATGAGTATTT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 11 0.13
70 76 0.87
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (70 bp):
TGCATCATTGTTTGAACCATGCATTTGCATCATTTGGTGAAAATCTAAAGAATTGTTTAAATATT
ACATT
Found at i:13168904 original size:42 final size:41
Alignment explanation
Indices: 13168845--13169026 Score: 113
Period size: 42 Copynumber: 4.2 Consensus size: 41
13168835 TTGTAAAAAG
*
13168845 GTTTCATTGCCAT-TAGTTAGAATAGCCTTTTAAAATTTTAAA
1 GTTTCAATGCC-TCTAGTTAGAA-AGCCTTTTAAAATTTTAAA
** *
13168887 GTTTCAATGCCTCTAGTTAGAGAATTCTTTT-AAATTCCTAAA
1 GTTTCAATGCCTCTAGTTAGA-AAGCCTTTTAAAATT-TTAAA
*
13168929 GTTTTAATGCCTCT-GTTGAGGAAGAG-CTTTTCAATTTTGAATTTTTAAA
1 GTTTCAATGCCTCTAGTT-A-GAA-AGCCTTTT-AA-----AA-TTTTAAA
* * *
13168978 GTTTCAATGCCTTTGGTTTAAAAAGCC-TTTAAAATTTATAAA
1 GTTTCAATGCCTCTAG-TTAGAAAGCCTTTTAAAATTT-TAAA
13169020 GTTTCAA
1 GTTTCAA
13169027 AACTTCTGTT
Statistics
Matches: 112, Mismatches: 10, Indels: 36
0.71 0.06 0.23
Matches are distributed among these distances:
41 12 0.11
42 61 0.54
43 4 0.04
44 1 0.01
47 2 0.02
48 5 0.04
49 21 0.19
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (41 bp):
GTTTCAATGCCTCTAGTTAGAAAGCCTTTTAAAATTTTAAA
Found at i:13169117 original size:134 final size:133
Alignment explanation
Indices: 13168868--13169125 Score: 288
Period size: 134 Copynumber: 1.9 Consensus size: 133
13168858 TAGTTAGAAT
** *
13168868 AGCCTTTTAAAATTTTAAAGTTTCAATGCCTCTAGTTAGAGAATTCTTTTAAATTCCTAAAGTTT
1 AGCCTTTTAAAATTTTAAAGTTTCAAAACCTCTAGTTAGAGAATTCTTTTAAATTCCTAAAATTT
* * * ** * * *
13168933 TAATGCCTCTGTTGAGGAAGAGCTTTTCAATTTTGAATTTTTAAAGTTTCAATGCCTTTGGTTTA
66 CAATGCCTCTATTAAGGAAGAGCTTTTCAATTTCAAAATTTTAAACTTTCAATGACTTTGGTTTA
13168998 AAA
131 AAA
* * **
13169001 AGCC-TTTAAAATTTATAAAGTTTCAAAACTTCT-GTTAAGGAGGAGTT-TTTTAAATTTTTAAA
1 AGCCTTTTAAAATTT-TAAAGTTTCAAAACCTCTAGTT-A-GA-GAATTCTTTTAAATTCCTAAA
* * * *
13169063 ATTTCAATGTCTCTATTAAGGAAGAGCTTTTTAGTTTCAAAATTTTGAACTTTCAATGACTTT
62 ATTTCAATGCCTCTATTAAGGAAGAGCTTTTCAATTTCAAAATTTTAAACTTTCAATGACTTT
13169126 ATCAAGGATG
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
132 13 0.13
133 20 0.20
134 65 0.64
135 4 0.04
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (133 bp):
AGCCTTTTAAAATTTTAAAGTTTCAAAACCTCTAGTTAGAGAATTCTTTTAAATTCCTAAAATTT
CAATGCCTCTATTAAGGAAGAGCTTTTCAATTTCAAAATTTTAAACTTTCAATGACTTTGGTTTA
AAA
Found at i:13170093 original size:20 final size:19
Alignment explanation
Indices: 13170070--13170131 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
13170060 TGATTCAAGT
13170070 TTTTTTTTTAAGTTTTTGGG
1 TTTTTTTTTAA-TTTTTGGG
13170090 TTTTTTTTT--TTTTTGGG
1 TTTTTTTTTAATTTTTGGG
* *
13170107 ATTTCTTTTGAATTTTTGGG
1 -TTTTTTTTTAATTTTTGGG
13170127 TTTTT
1 TTTTT
13170132 AGCTTGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.22
18 7 0.19
19 4 0.11
20 17 0.47
ACGTcount: A:0.08, C:0.02, G:0.18, T:0.73
Consensus pattern (19 bp):
TTTTTTTTTAATTTTTGGG
Found at i:13170525 original size:12 final size:13
Alignment explanation
Indices: 13170508--13170537 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13170498 CGATTGTAGG
13170508 TTTTTC-TTTTTA
1 TTTTTCTTTTTTA
13170520 TTTTTCTTTTTTA
1 TTTTTCTTTTTTA
13170533 TTTTT
1 TTTTT
13170538 TTCATTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTCTTTTTTA
Found at i:13170725 original size:46 final size:45
Alignment explanation
Indices: 13170673--13170784 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 45
13170663 TTATGATAGT
* * *
13170673 TTTGCATGAATTTTATTTATTTGCATAATATTTTGCATGCTATT-TA
1 TTTGCATGATTTTTATTTACTTGCATAATATTTTACAT--TATTATA
* *
13170719 TTTGCATGATTTTTATTATTTACTTGCATGATATTTTACATTATTATT
1 TTTGCATGA--TTT-TTATTTACTTGCATAATATTTTACATTATTATA
13170767 TTTGCATGATTTTTATTT
1 TTTGCATGATTTTTATTT
13170785 GCATGAAGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
45 6 0.11
46 12 0.21
47 4 0.07
48 12 0.21
49 23 0.40
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (45 bp):
TTTGCATGATTTTTATTTACTTGCATAATATTTTACATTATTATA
Found at i:13170733 original size:15 final size:15
Alignment explanation
Indices: 13170686--13170735 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
13170676 GCATGAATTT
13170686 TATTTATTTGCAT-A
1 TATTTATTTGCATGA
* *
13170700 -ATAT-TTTGCATGC
1 TATTTATTTGCATGA
13170713 TATTTATTTGCATGA
1 TATTTATTTGCATGA
*
13170728 TTTTTATT
1 TATTTATT
13170736 ATTTACTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 3 0.11
15 15 0.54
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (15 bp):
TATTTATTTGCATGA
Found at i:13170753 original size:49 final size:48
Alignment explanation
Indices: 13170685--13170783 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 48
13170675 TGCATGAATT
* *
13170685 TTATTTATTTGCATAATATTTTGCATGCTATT-TATTTGCATGATTTTTA
1 TTATTTACTTGCATAATATTTTACAT--TATTATATTTGCATGATTTTTA
* *
13170734 TTATTTACTTGCATGATATTTTACATTATTATTTTTGCATGATTTTTA
1 TTATTTACTTGCATAATATTTTACATTATTATATTTGCATGATTTTTA
13170782 TT
1 TT
13170784 TGCATGAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
47 4 0.09
48 18 0.40
49 23 0.51
ACGTcount: A:0.24, C:0.08, G:0.09, T:0.59
Consensus pattern (48 bp):
TTATTTACTTGCATAATATTTTACATTATTATATTTGCATGATTTTTA
Found at i:13170776 original size:26 final size:26
Alignment explanation
Indices: 13170731--13170781 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
13170721 TGCATGATTT
13170731 TTATTATTTACTTGCATGATATTTTACA
1 TTATTATTTA-TTGCATGAT-TTTTACA
13170759 TTATTATTT-TTGCATGATTTTTA
1 TTATTATTTATTGCATGATTTTTA
13170782 TTTGCATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
28 9 0.39
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTATTTATTGCATGATTTTTACA
Found at i:13170780 original size:25 final size:23
Alignment explanation
Indices: 13170685--13170781 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 23
13170675 TGCATGAATT
* *
13170685 TTATTTATTTGCATAATATTTTGCA
1 TTATTTATTTGCATGAT-TTTT-AA
13170710 TGCTATTTATTTGCATGATTTTT-A
1 T--TATTTATTTGCATGATTTTTAA
*
13170734 TTATTTACTTGCATGATATTTTACA
1 TTATTTATTTGCATGAT-TTTTA-A
*
13170759 TTATTATTTTTGCATGATTTTTA
1 TTATT-TATTTGCATGATTTTTA
13170782 TTTGCATGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
22 15 0.24
23 4 0.06
24 2 0.03
25 12 0.19
26 14 0.23
27 15 0.24
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (23 bp):
TTATTTATTTGCATGATTTTTAA
Found at i:13173399 original size:23 final size:22
Alignment explanation
Indices: 13173369--13173414 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
13173359 TAGTACAACG
*
13173369 AAACTAACTTGAAAGCATAAAAA
1 AAACTAACTT-AAAACATAAAAA
*
13173392 AAACTAACTTAAAACATGAAAA
1 AAACTAACTTAAAACATAAAAA
13173414 A
1 A
13173415 CAAAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (22 bp):
AAACTAACTTAAAACATAAAAA
Found at i:13174714 original size:14 final size:15
Alignment explanation
Indices: 13174695--13174725 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13174685 AACACAAACA
13174695 TACGTTC-ATTCATT
1 TACGTTCGATTCATT
13174709 TACGTTCGATTCATT
1 TACGTTCGATTCATT
13174724 TA
1 TA
13174726 TAGCCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (15 bp):
TACGTTCGATTCATT
Found at i:13176276 original size:122 final size:122
Alignment explanation
Indices: 13176137--13176431 Score: 321
Period size: 123 Copynumber: 2.4 Consensus size: 122
13176127 TTTTTTGGTA
* * * * * *
13176137 TTTCTAAAGGATTATTTAAG-ATTTTTTTTAATAAAAAATACTTTATATAATC-CTTTGAAAAAC
1 TTTCCAAAGGATTATTTAAGCATTTGTTGT--CAAAAAATACCTTAAATAATCAC-TTGAAAAAC
* * * **
13176200 CT-AAAAAATGCTAGA-ATGAGA-GATCAAACCTATGACTTTATGATTAACAGTTATAAGAT
63 CTAAAAAAATGCTAGAGGT-A-ATGATCAAACATATGACCTTATGATTAACAGCCATAAGAT
*
13176259 TTTCCAAGGGATTATTTAAGGCATTTGTTGTCAAAAAATACCTTAAATAATCACTTGAAAAACCT
1 TTTCCAAAGGATTATTTAA-GCATTTGTTGTCAAAAAATACCTTAAATAATCACTTGAAAAACCT
* *
13176324 AAAAAAATGCTAGAGGTAATGATCAAACATATGACCTTATGGTTAACAGCCATAGGAT
65 AAAAAAATGCTAGAGGTAATGATCAAACATATGACCTTATGATTAACAGCCATAAGAT
* ** * *
13176382 TTTTCAAAGGATTATTTAAGGTGTTTGTTGTCTAAAAATTCCTTAAATAA
1 TTTCCAAAGGATTATTTAA-GCATTTGTTGTCAAAAAATACCTTAAATAA
13176432 CCCCTGTTGT
Statistics
Matches: 147, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
122 47 0.32
123 92 0.63
124 8 0.05
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (122 bp):
TTTCCAAAGGATTATTTAAGCATTTGTTGTCAAAAAATACCTTAAATAATCACTTGAAAAACCTA
AAAAAATGCTAGAGGTAATGATCAAACATATGACCTTATGATTAACAGCCATAAGAT
Found at i:13176372 original size:123 final size:122
Alignment explanation
Indices: 13176169--13176431 Score: 334
Period size: 123 Copynumber: 2.1 Consensus size: 122
13176159 TTTTTTTAAT
* * *
13176169 AAAAAATACTTTATATAATCCTTTGAAAAACCTAAAAAATGCTAGAATGAGAGATCAAACCTATG
1 AAAAAATACCTTAAATAATCCTTTGAAAAACCTAAAAAATGCTAGAATGAGAGATCAAACATATG
* ** *
13176234 ACTTTATGATTAACAGTTATAAGATTTTCCAAGGGATTATTTAAGGCATTTGTTGTC
66 ACCTTATGATTAACAGCCATAAGATTTTCCAAAGGATTATTTAAGGCATTTGTTGTC
*
13176291 AAAAAATACCTTAAATAATCAC-TTGAAAAACCTAAAAAAATGCTAG-AGGTA-ATGATCAAACA
1 AAAAAATACCTTAAATAATC-CTTTGAAAAACCT-AAAAAATGCTAGAATG-AGA-GATCAAACA
* * * **
13176353 TATGACCTTATGGTTAACAGCCATAGGATTTTTCAAAGGATTATTTAAGGTGTTTGTTGTC
62 TATGACCTTATGATTAACAGCCATAAGATTTTCCAAAGGATTATTTAAGGCATTTGTTGTC
* *
13176414 TAAAAATTCCTTAAATAA
1 AAAAAATACCTTAAATAA
13176432 CCCCTGTTGT
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
122 32 0.26
123 90 0.74
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (122 bp):
AAAAAATACCTTAAATAATCCTTTGAAAAACCTAAAAAATGCTAGAATGAGAGATCAAACATATG
ACCTTATGATTAACAGCCATAAGATTTTCCAAAGGATTATTTAAGGCATTTGTTGTC
Found at i:13176795 original size:44 final size:45
Alignment explanation
Indices: 13176725--13176810 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
13176715 TTCTAAAGAA
* * * *
13176725 TTATTTAAGACGTTTGTTGTC-CAAAAATGTCTTAAATAATTCCC
1 TTATTTAAGACATTTGTTGACAAAAAAATGCCTTAAATAATTCCC
13176769 TTATTTAAGACATTT-TTAGACAAAAAAAATGCCTTAAATAAT
1 TTATTTAAGACATTTGTT-GAC-AAAAAAATGCCTTAAATAAT
13176811 CTTTTGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.06
44 16 0.46
46 17 0.49
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (45 bp):
TTATTTAAGACATTTGTTGACAAAAAAATGCCTTAAATAATTCCC
Found at i:13176883 original size:168 final size:167
Alignment explanation
Indices: 13176580--13176919 Score: 439
Period size: 168 Copynumber: 2.0 Consensus size: 167
13176570 CTTAAACACT
* * *
13176580 AAAAATGCCTTAAATAATTCTCTTGTTTAAAGCATTTTTAGACAAAAAAATGCCTTAAATATTCT
1 AAAAATGCCTTAAATAATTCCCTTATTTAAAGCATTTTTAGACAAAAAAATGCCTTAAATAATCT
* * * ** * *
13176645 TTTAAAAAACTTTAAAAATACTAAAAAGAAGGATCAAACTTACAACTTTATGGTTAATTGCCATA
66 TTTAAAAAACCTAAAAAATACTAAAAAGAAGGATCAAACTTACAACCTTATACTCAATAGCCATA
*
13176710 GGATTTTCTAAAGAATTATTTAAGACGTTTGTTGTCC
131 GGATTTTCCAAAGAATTATTTAAGACGTTTGTTGTCC
*
13176747 AAAAATGTCTTAAATAATTCCCTTATTT-AAGACATTTTTAGACAAAAAAAATGCCTTAAATAAT
1 AAAAATGCCTTAAATAATTCCCTTATTTAAAG-CATTTTTAGAC-AAAAAAATGCCTTAAATAAT
* * * * ** *
13176811 CTTTTGAAAAACCTAAAAAATGCTAGAAAGAGGGATTGAACTTACGACCTTATACTCAATAGCCA
64 CTTTTAAAAAACCTAAAAAATACTAAAAAGAAGGATCAAACTTACAACCTTATACTCAATAGCCA
* * ** *
13176876 TAGGATTTTCCAAGGGATTATTTAAGGTGTTTGTTGTCT
129 TAGGATTTTCCAAAGAATTATTTAAGACGTTTGTTGTCC
13176915 AAAAA
1 AAAAA
13176920 CACTTTAAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
166 3 0.02
167 36 0.24
168 108 0.73
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (167 bp):
AAAAATGCCTTAAATAATTCCCTTATTTAAAGCATTTTTAGACAAAAAAATGCCTTAAATAATCT
TTTAAAAAACCTAAAAAATACTAAAAAGAAGGATCAAACTTACAACCTTATACTCAATAGCCATA
GGATTTTCCAAAGAATTATTTAAGACGTTTGTTGTCC
Found at i:13176953 original size:13 final size:13
Alignment explanation
Indices: 13176935--13176962 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13176925 TAAATAGGGA
13176935 TTATTTAAAGTGT
1 TTATTTAAAGTGT
13176948 TTATTTAAAGTGT
1 TTATTTAAAGTGT
13176961 TT
1 TT
13176963 TTGGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTATTTAAAGTGT
Found at i:13177468 original size:63 final size:61
Alignment explanation
Indices: 13177145--13177455 Score: 206
Period size: 62 Copynumber: 5.0 Consensus size: 61
13177135 AAACCCCCCA
* * ** * **
13177145 AAAAAATGAGAGGAGATTATTCAAGGTATTTTTT-GTCAAAACCGCCTTGAATAATCCCCTTAT-
1 AAAAATTGA-AGGGGATTATTCAAGGCGTTTTTTAGCCAAAAATGCCTTGAATAA--CCC-TATC
* * * * * *
13177208 AAAAATTGAAGGGGATTATTCATGGTG-TTTTTGGCCAACAACGCCTTGAATAACCCTGTTC
1 AAAAATTGAAGGGGATTATTCAAGGCGTTTTTTAGCCAAAAATGCCTTGAATAACCCT-ATC
*** * * * * * *
13177269 AATTTTTTGTAA-TGGATTATTCGAGGC-ATTTTTAGCCATAGAAAATGCCTTAAATAATCCTAA
1 AA-AAATTG-AAGGGGATTATTCAAGGCGTTTTTTAGCC--A-AAAATGCCTTGAATAACCCTAT
13177332 C
61 C
* *
13177333 AAAAAATGATAGGGGATTATTCAAGGCG-TTTTTAGCCAAAAATGCCTTGAATAATTCCCCCAT-
1 AAAAATTGA-AGGGGATTATTCAAGGCGTTTTTTAGCCAAAAATGCCTTGAATAA---CCCTATC
*
13177396 AAAAATTGAAGAGGATTATTCAAGGCGTTTTTTA-CCATAAAATGCCTTGAATAACCCTAT
1 AAAAATTGAAGGGGATTATTCAAGGCGTTTTTTAGCCA-AAAATGCCTTGAATAACCCTAT
13177456 TCAATTAATT
Statistics
Matches: 196, Mismatches: 35, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
59 1 0.01
60 9 0.05
61 22 0.11
62 76 0.39
63 43 0.22
64 29 0.15
65 16 0.08
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (61 bp):
AAAAATTGAAGGGGATTATTCAAGGCGTTTTTTAGCCAAAAATGCCTTGAATAACCCTATC
Found at i:13180203 original size:15 final size:17
Alignment explanation
Indices: 13180172--13180205 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13180162 TTAAGAAAAA
13180172 GAAAGTAAAAGGAAATT
1 GAAAGTAAAAGGAAATT
13180189 GAAAG-AAAA-GAAATT
1 GAAAGTAAAAGGAAATT
13180204 GA
1 GA
13180206 TGAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (17 bp):
GAAAGTAAAAGGAAATT
Found at i:13187037 original size:21 final size:21
Alignment explanation
Indices: 13187013--13187060 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
13187003 CGAGATGAAC
13187013 TATTTTTCTA-TAAAATGTTAT
1 TATTTTT-TATTAAAATGTTAT
* * *
13187034 TATTATTTATTAAATTTTTAT
1 TATTTTTTATTAAAATGTTAT
13187055 TATTTT
1 TATTTT
13187061 AAATATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTTTTATTAAAATGTTAT
Found at i:13187386 original size:27 final size:27
Alignment explanation
Indices: 13187331--13187404 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
13187321 AATTTTGCCA
*
13187331 AATTATGATAAGAGGGG-ATTTATCAT
1 AATTATAATAAGAGGGGTATTTATCAT
* **
13187357 AATTTATAGTAAGAGGGGTATTT-TTGT
1 AA-TTATAATAAGAGGGGTATTTATCAT
*
13187384 AATTATAATAAGAGGGATATT
1 AATTATAATAAGAGGGGTATT
13187405 ATTGATAGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.47
27 17 0.43
28 4 0.10
ACGTcount: A:0.38, C:0.01, G:0.23, T:0.38
Consensus pattern (27 bp):
AATTATAATAAGAGGGGTATTTATCAT
Found at i:13194809 original size:3 final size:3
Alignment explanation
Indices: 13194801--13194832 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13194791 TTTTAAGTAT
13194801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13194833 TATTAATTAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13194920 original size:12 final size:12
Alignment explanation
Indices: 13194899--13194939 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
13194889 ATCGAGCTAG
*
13194899 CCCGACCAACTC
1 CCCGAACAACTC
13194911 CCCGAACAACTC
1 CCCGAACAACTC
* *
13194923 CCTGAACAACTA
1 CCCGAACAACTC
13194935 CCCGA
1 CCCGA
13194940 CCAGCCTCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.49, G:0.10, T:0.10
Consensus pattern (12 bp):
CCCGAACAACTC
Found at i:13195944 original size:22 final size:23
Alignment explanation
Indices: 13195901--13195944 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13195891 AAATTTTTTT
* *
13195901 TTTATATTTATGTATGATAAATG
1 TTTAAATTTATGTAGGATAAATG
13195924 TTTAAATTTAT-TAGGATAAAT
1 TTTAAATTTATGTAGGATAAAT
13195945 ATCTAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTAAATTTATGTAGGATAAATG
Found at i:13196335 original size:17 final size:18
Alignment explanation
Indices: 13196304--13196344 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
13196294 TTAAGTTTCT
13196304 AAAA-CTCCTAGAAATTC
1 AAAATCTCCTAGAAATTC
13196321 AAAATCTCCTA-AAATTC
1 AAAATCTCCTAGAAATTC
13196338 AAAATCT
1 AAAATCT
13196345 TTTAAAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATCTCCTAGAAATTC
Found at i:13196350 original size:17 final size:17
Alignment explanation
Indices: 13196315--13196362 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13196305 AAACTCCTAG
*
13196315 AAATTCAAAATCTCCTA
1 AAATTCAAAATCTTCTA
*
13196332 AAATTCAAAATCTTTTA
1 AAATTCAAAATCTTCTA
* *
13196349 AAATCCAAAGTCTT
1 AAATTCAAAATCTT
13196363 AAAAATCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATTCAAAATCTTCTA
Found at i:13196645 original size:16 final size:17
Alignment explanation
Indices: 13196614--13196646 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13196604 ATTCAACTCT
*
13196614 TAAATTACATTTCATTA
1 TAAATGACATTTCATTA
13196631 TAAATGACA-TTCATTA
1 TAAATGACATTTCATTA
13196647 GCATACATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATGACATTTCATTA
Found at i:13198483 original size:16 final size:18
Alignment explanation
Indices: 13198451--13198485 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
13198441 GTAAATTTTA
13198451 AATTTTGAAAGAAAATAT
1 AATTTTGAAAGAAAATAT
13198469 AATTTT-AAA-AAAATAT
1 AATTTTGAAAGAAAATAT
13198485 A
1 A
13198486 TATGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
AATTTTGAAAGAAAATAT
Found at i:13199250 original size:20 final size:19
Alignment explanation
Indices: 13199227--13199267 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13199217 TATTTTTAGG
*
13199227 ATTACTTATAAGTTTTTTTT
1 ATTACTTA-AAGTATTTTTT
*
13199247 ATTATTTAAAGTATTTTTT
1 ATTACTTAAAGTATTTTTT
13199266 AT
1 AT
13199268 AAAAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTACTTAAAGTATTTTTT
Found at i:13199373 original size:61 final size:61
Alignment explanation
Indices: 13199307--13199448 Score: 207
Period size: 61 Copynumber: 2.3 Consensus size: 61
13199297 ATTTTTTAAG
* *
13199307 AGATTATTTAAGGTATTTTCTTAT-TAAAAATA-TTTTAAATAATCTCAAAAAAAATTGAACA
1 AGATTATTTAAGGTATTTT-TTATCTAAAAAAAGTCTTAAATAATCTC-AAAAAAATTGAACA
* *
13199368 AGATTATTTAAGGTATTATTTATCTAAAAAAAGTCTTAAATAATCTCAAAAAAATTTAACA
1 AGATTATTTAAGGTATTTTTTATCTAAAAAAAGTCTTAAATAATCTCAAAAAAATTGAACA
*
13199429 AGATTATTTAAGATATTTTT
1 AGATTATTTAAGGTATTTTT
13199449 CATATCAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
60 4 0.05
61 56 0.77
62 13 0.18
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (61 bp):
AGATTATTTAAGGTATTTTTTATCTAAAAAAAGTCTTAAATAATCTCAAAAAAATTGAACA
Found at i:13209658 original size:26 final size:26
Alignment explanation
Indices: 13209628--13209681 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
13209618 TCCTGATCAA
13209628 TACCCCATTCAGCAAAGCAATGATAT
1 TACCCCATTCAGCAAAGCAATGATAT
*
13209654 TACCCCATTCAGCTAAGCAATGATAT
1 TACCCCATTCAGCAAAGCAATGATAT
13209680 TA
1 TA
13209682 TTTAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCATTCAGCAAAGCAATGATAT
Found at i:13217926 original size:3 final size:3
Alignment explanation
Indices: 13217918--13217948 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13217908 ATTGTTGAGG
13217918 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13217949 AAACAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13219993 original size:139 final size:140
Alignment explanation
Indices: 13219741--13220016 Score: 430
Period size: 139 Copynumber: 2.0 Consensus size: 140
13219731 ATGAAACCTG
*
13219741 ATTGAATACATTGTTATTAAACTTAAGGATTTCAATTTAAAAAAAAAGAATTATGACTTTCGTAA
1 ATTGAATACATTGTTATTAAACTTAAGGATTTCAATTT-AAAAAAAAGAATTACGACTTTCGTAA
* * * *
13219806 CACCTTTTATTATCATAGAGCATTTAAGGAGGTTACATCAAAAGTAGCTTTATGATAATACTGAG
65 CACCTTTTACTATCAGAGAGCATTTAAGGAAGATACATCAAAAGTAGCTTTATGATAATACTGAG
13219871 ATCTATTGATT
130 ATCTATTGATT
* * * *
13219882 ATTGAATATATTGTTATTAAACTTAAGGATTTTTAATTT-GAAAAAA-AATTACGGCTTTCGTAA
1 ATTGAATACATTGTTATTAAACTTAAGGA-TTTCAATTTAAAAAAAAGAATTACGACTTTCGTAA
*
13219945 CACCTTTTACTATCAGAGAGCATTTAAGGAAGATACATTAAAAGTAGCTTTATGATAATACTGAG
65 CACCTTTTACTATCAGAGAGCATTTAAGGAAGATACATCAAAAGTAGCTTTATGATAATACTGAG
13220010 ATCTATT
130 ATCTATT
13220017 AATTTTCTAT
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
139 82 0.66
140 6 0.05
141 28 0.23
142 8 0.06
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (140 bp):
ATTGAATACATTGTTATTAAACTTAAGGATTTCAATTTAAAAAAAAGAATTACGACTTTCGTAAC
ACCTTTTACTATCAGAGAGCATTTAAGGAAGATACATCAAAAGTAGCTTTATGATAATACTGAGA
TCTATTGATT
Found at i:13223138 original size:19 final size:20
Alignment explanation
Indices: 13223110--13223150 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
13223100 TTTGAAATTT
13223110 TTTTTAAAAAATACT-AAAAA
1 TTTTTAAAAAAT-CTGAAAAA
13223130 TTTTT-AAAAATCTGAAAAA
1 TTTTTAAAAAATCTGAAAAA
13223149 TT
1 TT
13223151 AAAATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTTTAAAAAATCTGAAAAA
Found at i:13223283 original size:22 final size:22
Alignment explanation
Indices: 13223249--13223326 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
13223239 AAGAATCCTA
13223249 AAAAATTATAAAA-ACAAAATTTG
1 AAAAATTA-AAAAGA-AAAATTTG
* * *
13223272 AGAAATTAAAAAGAAAATTTTA
1 AAAAATTAAAAAGAAAAATTTG
*
13223294 AAAAATTAAAAAGAAAATTTTG
1 AAAAATTAAAAAGAAAAATTTG
13223316 AAAAATTAAAA
1 AAAAATTAAAA
13223327 GAACTAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 41 0.84
23 8 0.16
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (22 bp):
AAAAATTAAAAAGAAAAATTTG
Found at i:13223327 original size:43 final size:43
Alignment explanation
Indices: 13223220--13223329 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
13223210 AAAAATTGGC
*
13223220 AAAAAATTTTG-AAGATTAAAAG--AATCCTAAAAAATTATAA
1 AAAAAATTTTGAAAAATTAAAAGAAAATCCTAAAAAATTATAA
* * **
13223260 AAACAAAATTTGAGAAATTAAAAAGAAAATTTTAAAAAATTA-AA
1 AAA-AAATTTTGAAAAATT-AAAAGAAAATCCTAAAAAATTATAA
13223304 AAGAAAATTTTGAAAAATTAAAAGAA
1 AA-AAAATTTTGAAAAATTAAAAGAA
13223330 CTAAATATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.05
41 7 0.12
42 4 0.07
43 12 0.21
44 17 0.30
45 14 0.25
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.25
Consensus pattern (43 bp):
AAAAAATTTTGAAAAATTAAAAGAAAATCCTAAAAAATTATAA
Found at i:13223329 original size:21 final size:22
Alignment explanation
Indices: 13223257--13223326 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
13223247 TAAAAAATTA
* *
13223257 TAAAAACAAAA-TTTGAGAAAT
1 TAAAAAGAAAATTTTGAAAAAT
*
13223278 TAAAAAGAAAATTTTAAAAAAT
1 TAAAAAGAAAATTTTGAAAAAT
13223300 TAAAAAGAAAATTTTGAAAAAT
1 TAAAAAGAAAATTTTGAAAAAT
13223322 TAAAA
1 TAAAA
13223327 GAACTAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 10 0.23
22 34 0.77
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (22 bp):
TAAAAAGAAAATTTTGAAAAAT
Found at i:13223513 original size:16 final size:16
Alignment explanation
Indices: 13223495--13223524 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13223485 TATATTAATT
13223495 TTTTTCAAAT-TTTTA
1 TTTTTCAAATATTTTA
13223510 TTTTTCAAATATTTT
1 TTTTTCAAATATTTT
13223525 TCATTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCAAATATTTTA
Found at i:13223778 original size:20 final size:20
Alignment explanation
Indices: 13223753--13223802 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13223743 AATTTTGAAA
* *
13223753 TTTAAAAATTTTTTAGTTTT
1 TTTAAAAATTTTTGAGTATT
* *
13223773 TTTAAAAAATTTTGGGTATT
1 TTTAAAAATTTTTGAGTATT
13223793 TTTAAAAATT
1 TTTAAAAATT
13223803 GCATATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTAAAAATTTTTGAGTATT
Found at i:13223873 original size:40 final size:38
Alignment explanation
Indices: 13223828--13223910 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
13223818 TTTTGTAGGA
*
13223828 TTTTTTTTAATTTTTAG-A-TTTCTTTAATTTTTCATTAT
1 TTTTTTTTTATTTTTAGTACTTTC-TTAATTTTTCATT-T
* *
13223866 TTGTTTTTTATTTTTTGTACCTTTCTTAATTTTTCATTT
1 TTTTTTTTTATTTTTAGTA-CTTTCTTAATTTTTCATTT
13223905 TTTTTT
1 TTTTTT
13223911 CAAATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
38 14 0.37
39 7 0.18
40 13 0.34
41 4 0.11
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (38 bp):
TTTTTTTTTATTTTTAGTACTTTCTTAATTTTTCATTT
Found at i:13223942 original size:28 final size:28
Alignment explanation
Indices: 13223907--13223970 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13223897 TTTCATTTTT
*
13223907 TTTTCAAATTTTTTTATATTTTT-AAAAA
1 TTTTCAAATTTTTTGA-ATTTTTGAAAAA
* *
13223935 TTTTCAAATTTTTTGAATTTTTGAGAAT
1 TTTTCAAATTTTTTGAATTTTTGAAAAA
13223963 TTTTCAAA
1 TTTTCAAA
13223971 AATTTTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTCAAATTTTTTGAATTTTTGAAAAA
Found at i:13224099 original size:28 final size:28
Alignment explanation
Indices: 13224042--13224099 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
13224032 AAATTTTTAA
* * *
13224042 AACTTTTTAGATTTTCTAATTTTTTTTT
1 AACTTTTTAGATTTTCTAATATTCTCTT
*
13224070 AACTTTTTAAGATTTT-TTATATTCTCTT
1 AACTTTTT-AGATTTTCTAATATTCTCTT
13224098 AA
1 AA
13224100 TACTTACAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (28 bp):
AACTTTTTAGATTTTCTAATATTCTCTT
Found at i:13231462 original size:23 final size:23
Alignment explanation
Indices: 13231430--13231498 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
13231420 GAAATTTGAA
*
13231430 TATTTATTATATTTTATATTATG
1 TATTTTTTATATTTTATATTATG
**
13231453 TATTTTTTATACATT-TATTATG
1 TATTTTTTATATTTTATATTATG
* **
13231475 AATATTTAAATATTTTTATATTAT
1 TAT-TTTTTATA-TTTTATATTAT
13231499 TTTGTTGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 9 0.26
23 18 0.51
24 2 0.06
25 6 0.17
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (23 bp):
TATTTTTTATATTTTATATTATG
Found at i:13232974 original size:18 final size:19
Alignment explanation
Indices: 13232951--13232989 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13232941 ATTCAGCAAC
13232951 ATTATAATAT-TTAACAAT
1 ATTATAATATATTAACAAT
*
13232969 ATTATAATATATTAATAAT
1 ATTATAATATATTAACAAT
13232988 AT
1 AT
13232990 GAATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATAATATATTAACAAT
Found at i:13233034 original size:36 final size:35
Alignment explanation
Indices: 13232959--13233100 Score: 140
Period size: 38 Copynumber: 3.8 Consensus size: 35
13232949 ACATTATAAT
* *
13232959 ATTTAACAATATTATAATATATTAATAATATGAATTATTA
1 ATTTAATAATATT-TAATAT-TTAAT-AT-T-AAATATTA
*
13232999 ATGTAATAATACTTTAATATTTAATATTAAATATTA
1 ATTTAATAATA-TTTAATATTTAATATTAAATATTA
*
13233035 ATTTAGTAATATGTTAATATTTAAAATATTAAATATTA
1 ATTTAATAATAT-TTAATATTT--AATATTAAATATTA
* * *
13233073 ATTTAATAAAATTCAGTATTTAATATTA
1 ATTTAATAATATTTAATATTTAATATTA
13233101 TTTATTTATA
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
35 8 0.09
36 25 0.28
37 8 0.09
38 26 0.29
39 5 0.06
40 15 0.17
41 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (35 bp):
ATTTAATAATATTTAATATTTAATATTAAATATTA
Found at i:13233072 original size:38 final size:38
Alignment explanation
Indices: 13232959--13233081 Score: 137
Period size: 36 Copynumber: 3.2 Consensus size: 38
13232949 ACATTATAAT
* * *
13232959 ATTTAACAATA-TTATAATATATTAATAATATGAATTATTA
1 ATTTAATAATACTT-TAATAT-TTAA-AATATTAAATATTA
*
13232999 ATGTAATAATACTTTAATATTT--AATATTAAATATTA
1 ATTTAATAATACTTTAATATTTAAAATATTAAATATTA
*
13233035 ATTTAGTAATA-TGTTAATATTTAAAATATTAAATATTA
1 ATTTAATAATACT-TTAATATTTAAAATATTAAATATTA
13233073 ATTTAATAA
1 ATTTAATAA
13233082 AATTCAGTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
35 1 0.01
36 30 0.42
38 22 0.31
39 2 0.03
40 15 0.21
41 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (38 bp):
ATTTAATAATACTTTAATATTTAAAATATTAAATATTA
Found at i:13233581 original size:24 final size:24
Alignment explanation
Indices: 13233525--13233574 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13233515 ACAAGGTAGT
13233525 GATGGGTCATGATATTTAGTTTGG
1 GATGGGTCATGATATTTAGTTTGG
13233549 GATGGGTCATGATATTTAGTTTGG
1 GATGGGTCATGATATTTAGTTTGG
13233573 GA
1 GA
13233575 GAGGTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.34, T:0.40
Consensus pattern (24 bp):
GATGGGTCATGATATTTAGTTTGG
Found at i:13239198 original size:52 final size:52
Alignment explanation
Indices: 13238999--13239184 Score: 221
Period size: 52 Copynumber: 3.6 Consensus size: 52
13238989 TACAGATTTA
* * * * * *
13238999 CCTATTAAGAATCTTTTTTCTTTTAGAATTCTTCTTCTGCAAGTCAAACTTG
1 CCTATTAAAAATCTATTTCCTCTTAGAATTCTTCTTCTACAAGTTAAACTTG
* * * * *
13239051 CCTATTAAAAATCTCTTTCCTTTTAAAATTCTTTTTCTACAAGTTAAACTTA
1 CCTATTAAAAATCTATTTCCTCTTAGAATTCTTCTTCTACAAGTTAAACTTG
* * * *
13239103 CATTTTAATAAT-TCATTTTCTCTTAGAATTCTTCTTCTACAAGTTAAACTTG
1 CCTATTAAAAATCT-ATTTCCTCTTAGAATTCTTCTTCTACAAGTTAAACTTG
13239155 CCTATTAAAAATCTATTTCCTCTTAGAATT
1 CCTATTAAAAATCTATTTCCTCTTAGAATT
13239185 AATCGTTTGC
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
51 1 0.01
52 109 0.98
53 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (52 bp):
CCTATTAAAAATCTATTTCCTCTTAGAATTCTTCTTCTACAAGTTAAACTTG
Found at i:13239552 original size:31 final size:31
Alignment explanation
Indices: 13239511--13239595 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
13239501 CTTGAACCTT
* * *
13239511 CAGCTCTGATACCATTTGTTAGGAATCATCA
1 CAGCTTTGATATCACTTGTTAGGAATCATCA
13239542 CAGCTTTGATATCACTTGTT-GAGAATCATCA
1 CAGCTTTGATATCACTTGTTAG-GAATCATCA
*
13239573 CAACTTTGATATCACTTGTTAGG
1 CAGCTTTGATATCACTTGTTAGG
13239596 CTAAAAAGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.02
31 46 0.96
32 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (31 bp):
CAGCTTTGATATCACTTGTTAGGAATCATCA
Found at i:13240159 original size:52 final size:52
Alignment explanation
Indices: 13240073--13240281 Score: 246
Period size: 52 Copynumber: 4.0 Consensus size: 52
13240063 TATAATCATA
* * * **
13240073 CAAATTTACCTATTAAGAATCT-TTTTCTTTTTAAAATTCTTTTTTTACAAGT
1 CAAACTTACCTATTAAGAATCTCTTTTC-TCTTAAAATTCTTCTTTTGTAAGT
* * * *
13240125 CAAACTTGCCTATTAAGAA-CACCTTTCCTCTTAAAATTCTTTTTTTGTAAGT
1 CAAACTTACCTATTAAGAATC-TCTTTTCTCTTAAAATTCTTCTTTTGTAAGT
* *
13240177 TAAACTTACCT-TCTAAGAATCTCTTTTCTTTTAGAAATT-TTCTTTTGTAAGT
1 CAAACTTACCTAT-TAAGAATCTCTTTTCTCTTA-AAATTCTTCTTTTGTAAGT
*
13240229 CAAACTTACCTATTAAGAATCTCTTTTCTCTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCTCTTTTCTCTTAAAATTCTTCTTTTGTAAGT
13240281 C
1 C
13240282 TTGTCTTTCA
Statistics
Matches: 134, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
51 6 0.04
52 117 0.87
53 11 0.08
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTTCTCTTAAAATTCTTCTTTTGTAAGT
Found at i:13242342 original size:14 final size:14
Alignment explanation
Indices: 13242309--13242342 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13242299 TTGTTTCTTA
*
13242309 ATTTTTTGCATTTT
1 ATTTTTTGCATTTC
13242323 ACTTTTTTGCATTTC
1 A-TTTTTTGCATTTC
13242338 ATTTT
1 ATTTT
13242343 CCTGCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.68
Consensus pattern (14 bp):
ATTTTTTGCATTTC
Found at i:13242816 original size:11 final size:11
Alignment explanation
Indices: 13242798--13242837 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
13242788 AATCCCATAA
13242798 GAGATTTGTTT
1 GAGATTTGTTT
* *
13242809 GGGATTTGTTA
1 GAGATTTGTTT
13242820 GAGATTTGTTT
1 GAGATTTGTTT
13242831 GAGATTT
1 GAGATTT
13242838 ATCAGATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13242957 original size:52 final size:51
Alignment explanation
Indices: 13242864--13243020 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 51
13242854 TGGATAAGAA
*
13242864 GACTTACAA-AATAAGAATTCTAAGAGAAAGATGATTTTTAATAGGTAAGTTT
1 GACTTACAAGAA-AAGAATTCTAAGAGAAAGA-GATTCTTAATAGGTAAGTTT
** * * **
13242916 GACTTGTAAGAAAAGAATTTTAAAATGAAAGAGATTCTTAATAGACAAGTTT
1 GACTTACAAGAAAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGTAAGTTT
* * * *
13242968 AACTTACAAGAGAAGAATTCTAAGAGGAGAGAGATTCTTAATGGGTAAGTTT
1 GACTTACAAGAAAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGTAAGTTT
13243020 G
1 G
13243021 TATGATTATA
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
52 76 0.90
53 8 0.10
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.30
Consensus pattern (51 bp):
GACTTACAAGAAAAGAATTCTAAGAGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:13247949 original size:13 final size:12
Alignment explanation
Indices: 13247933--13247977 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
13247923 TTTTTTCATC
13247933 TTTTTTATTTTAT
1 TTTTTTATTTT-T
*
13247946 TTTTTTATTTTG
1 TTTTTTATTTTT
13247958 TTTTTTATTTTT
1 TTTTTTATTTTT
13247970 CTTTTTTA
1 -TTTTTTA
13247978 CAATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:13248253 original size:18 final size:19
Alignment explanation
Indices: 13248210--13248255 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
13248200 TTATTTATTT
13248210 ATTTTTTAATATTCAATAA
1 ATTTTTTAATATTCAATAA
13248229 ATATTTTTAATATT--ATAAA
1 AT-TTTTTAATATTCAAT-AA
13248248 ATTTTTTA
1 ATTTTTTA
13248256 GTGATACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.32
19 6 0.24
20 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTTAATATTCAATAA
Found at i:13248589 original size:25 final size:25
Alignment explanation
Indices: 13248561--13248609 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13248551 TTTTTTTCCT
*
13248561 TTTCTAATTTATGTTTTTTCTTTTC
1 TTTCTAATTTATCTTTTTTCTTTTC
** *
13248586 TTTCTTTTTTTTCTTTTTTCTTTT
1 TTTCTAATTTATCTTTTTTCTTTT
13248610 TTCTTTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (25 bp):
TTTCTAATTTATCTTTTTTCTTTTC
Found at i:13248596 original size:40 final size:40
Alignment explanation
Indices: 13248546--13248654 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
13248536 TGAGCTTCAT
*
13248546 TTTCTTTTTTTTC-CTTTTCTAATTTATGTTTTTTC-TTTTC
1 TTTCTTTTTTTTCTCTTTTCT--TTTATCTTTTTTCTTTTTC
* *
13248586 TTTCTTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTC
1 TTTCTTTTTTTTCTCTTTTCTTTTATCTTTTTTCTTTTTC
* *
13248626 -TT-TTTCTTTTCTC-TTT-TTTTATGTTTTTT
1 TTTCTTTTTTTTCTCTTTTCTTTTATCTTTTTT
13248655 AATTTAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
36 11 0.18
37 3 0.05
38 9 0.15
39 13 0.22
40 18 0.30
41 6 0.10
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.81
Consensus pattern (40 bp):
TTTCTTTTTTTTCTCTTTTCTTTTATCTTTTTTCTTTTTC
Found at i:13248599 original size:13 final size:12
Alignment explanation
Indices: 13248574--13248645 Score: 81
Period size: 13 Copynumber: 5.6 Consensus size: 12
13248564 CTAATTTATG
*
13248574 TTTTTTCTTTTC
1 TTTTTTTTTTTC
13248586 TTTCTTTTTTTTC
1 TTT-TTTTTTTTC
13248599 TTTTTTCTTTTTTC
1 -TTTTT-TTTTTTC
13248613 TTTTTTCTTTTTC
1 TTTTTT-TTTTTC
*
13248626 TTTTTCTTTTCTC
1 TTTTT-TTTTTTC
13248639 TTTTTTT
1 TTTTTTT
13248646 ATGTTTTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.11
13 36 0.68
14 11 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:13248602 original size:7 final size:7
Alignment explanation
Indices: 13248581--13248644 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
13248571 ATGTTTTTTC
13248581 TTTTCTT
1 TTTTCTT
*
13248588 TCTT-TT
1 TTTTCTT
13248594 TTTTCTT
1 TTTTCTT
13248601 TTTTCTT
1 TTTTCTT
13248608 TTTTCTT
1 TTTTCTT
13248615 TTTTC-T
1 TTTTCTT
13248621 TTTTC-T
1 TTTTCTT
13248627 TTTTCTT
1 TTTTCTT
*
13248634 TTCTCTT
1 TTTTCTT
13248641 TTTT
1 TTTT
13248645 TATGTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 17 0.33
7 34 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:13248603 original size:26 final size:26
Alignment explanation
Indices: 13248574--13248654 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
13248564 CTAATTTATG
13248574 TTTTTTCTTTTCTTTCTTTTTTTTC-
1 TTTTTTCTTTTCTTTCTTTTTTTTCT
*
13248599 TTTTTTC-TTT-TTTCTTTTTTCTTTT
1 TTTTTTCTTTTCTTTCTTTTTT-TTCT
*
13248624 TCTTTTTCTTTTC--TCTTTTTTTATGT
1 T-TTTTTCTTTTCTTTCTTTTTTT-TCT
13248650 TTTTT
1 TTTTT
13248655 AATTTAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
23 10 0.21
24 5 0.10
25 13 0.27
26 17 0.35
27 3 0.06
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (26 bp):
TTTTTTCTTTTCTTTCTTTTTTTTCT
Found at i:13248733 original size:7 final size:7
Alignment explanation
Indices: 13248721--13248745 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13248711 TTAATTGGCT
13248721 TTTTATA
1 TTTTATA
13248728 TTTTATA
1 TTTTATA
13248735 TTTTATA
1 TTTTATA
13248742 TTTT
1 TTTT
13248746 TTAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:13249088 original size:23 final size:22
Alignment explanation
Indices: 13249052--13249104 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
13249042 AACTTTTATG
* *
13249052 TTTTATTTTATGTTTTTCCTTTTC
1 TTTT-TTTTATGTTTTT-ATCTTC
*
13249076 TTTTTTTTTTGTTTTTATCTTC
1 TTTTTTTTATGTTTTTATCTTC
13249098 TTTTTTT
1 TTTTTTT
13249105 ATTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 11 0.42
23 11 0.42
24 4 0.15
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTTTTTATGTTTTTATCTTC
Found at i:13249096 original size:19 final size:19
Alignment explanation
Indices: 13249074--13249112 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13249064 TTTTTCCTTT
* *
13249074 TCTTTTTTTTTTGTTTTTA
1 TCTTCTTTTTTTATTTTTA
13249093 TCTTCTTTTTTTATTTTTA
1 TCTTCTTTTTTTATTTTTA
13249112 T
1 T
13249113 TACTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (19 bp):
TCTTCTTTTTTTATTTTTA
Found at i:13249118 original size:18 final size:19
Alignment explanation
Indices: 13249079--13249118 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13249069 CCTTTTCTTT
* *
13249079 TTTTTTTGTTTTTATCTTC
1 TTTTTTTATTTTTATCTAC
13249098 TTTTTTTATTTTTAT-TAC
1 TTTTTTTATTTTTATCTAC
13249116 TTT
1 TTT
13249119 AATTAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTTTATTTTTATCTAC
Found at i:13259279 original size:8 final size:8
Alignment explanation
Indices: 13259268--13259319 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
13259258 GAAATAAAGA
13259268 AAAAAAAT
1 AAAAAAAT
13259276 AAAAAAAAT
1 -AAAAAAAT
*
13259285 AAAATAAT
1 AAAAAAAT
*
13259293 -ATAAAAT
1 AAAAAAAT
*
13259300 -AATAAAT
1 AAAAAAAT
13259307 AAAAAAAT
1 AAAAAAAT
13259315 AAAAA
1 AAAAA
13259320 GGGGAAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 10 0.28
8 18 0.50
9 8 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAAAT
Found at i:13259282 original size:10 final size:10
Alignment explanation
Indices: 13259267--13259313 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
13259257 GGAAATAAAG
13259267 AAAAAAAAT-
1 AAAAAAAATA
13259276 AAAAAAAATA
1 AAAAAAAATA
* *
13259286 AAATAATATA
1 AAAAAAAATA
13259296 AAATAATAAATA
1 AAA-AA-AAATA
13259308 AAAAAA
1 AAAAAA
13259314 TAAAAAGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 9 0.29
10 12 0.39
11 3 0.10
12 7 0.23
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:13261259 original size:11 final size:11
Alignment explanation
Indices: 13261243--13261267 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13261233 AAAGACTTGA
13261243 TTCTTTTTATT
1 TTCTTTTTATT
13261254 TTCTTTTTATT
1 TTCTTTTTATT
13261265 TTC
1 TTC
13261268 ATGTTAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTTTTTATT
Found at i:13263243 original size:15 final size:15
Alignment explanation
Indices: 13263200--13263244 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
13263190 TTTTGGTTTG
13263200 AAAAAATAAAGTATAAA
1 AAAAAATAAA--ATAAA
13263217 AAAATAATTAAAATAAA
1 AAAA-AA-TAAAATAAA
13263234 AAAAAATAAAA
1 AAAAAATAAAA
13263245 AACTCTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.19
16 2 0.08
17 13 0.50
18 2 0.08
19 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAAATAAAATAAA
Found at i:13265678 original size:3 final size:3
Alignment explanation
Indices: 13265670--13265715 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13265660 AAACATCTTG
13265670 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13265716 TTAAGGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13268970 original size:21 final size:20
Alignment explanation
Indices: 13268944--13268985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13268934 AAAATTAGAA
*
13268944 TTGCATGACATTCATTGACAT
1 TTGCATGACATGCATTG-CAT
*
13268965 TTGCATTACATGCATTGCAT
1 TTGCATGACATGCATTGCAT
13268985 T
1 T
13268986 CATGATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (20 bp):
TTGCATGACATGCATTGCAT
Found at i:13269360 original size:26 final size:26
Alignment explanation
Indices: 13269331--13269391 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 26
13269321 AATTTTGGAA
13269331 GTGAATCTCTAAAATTAATTTCAAAT
1 GTGAATCTCTAAAATTAATTTCAAAT
* *
13269357 GTGAATCT-T----TTAATTTTAGAT
1 GTGAATCTCTAAAATTAATTTCAAAT
13269378 GTGAATCTCTAAAA
1 GTGAATCTCTAAAA
13269392 CTTTCAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
21 18 0.64
22 1 0.04
25 1 0.04
26 8 0.29
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (26 bp):
GTGAATCTCTAAAATTAATTTCAAAT
Found at i:13269371 original size:21 final size:21
Alignment explanation
Indices: 13269345--13269410 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
13269335 ATCTCTAAAA
13269345 TTAATTTCAAATGTGAATCTT
1 TTAATTTCAAATGTGAATCTT
* *
13269366 TTAATTTTAGATGTGAATCTCT
1 TTAATTTCAAATGTGAATCT-T
** *
13269388 AAAACTTTCAAATGAGAATCTT
1 TTAA-TTTCAAATGTGAATCTT
13269410 T
1 T
13269411 GAACTTTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 18 0.51
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (21 bp):
TTAATTTCAAATGTGAATCTT
Found at i:13269382 original size:47 final size:44
Alignment explanation
Indices: 13269317--13269428 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 44
13269307 AATGCAAATA
* * *
13269317 TTTGAATTTTGGAAGTGAATCTCTAAAATTAATTTCAAATGTGAATC
1 TTTGAATTTTAGATGTGAATCTCT-AAA--AATTTCAAATGAGAATC
* *
13269364 TTTTAATTTTAGATGTGAATCTCTAAAACTTTCAAATGAGAATC
1 TTTGAATTTTAGATGTGAATCTCTAAAAATTTCAAATGAGAATC
13269408 TTTGAACTTTTTAGATGTGAA
1 TTTGAA--TTTTAGATGTGAA
13269429 GCTTTGAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 20 0.35
46 16 0.28
47 21 0.37
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (44 bp):
TTTGAATTTTAGATGTGAATCTCTAAAAATTTCAAATGAGAATC
Found at i:13269458 original size:67 final size:66
Alignment explanation
Indices: 13269355--13269494 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 66
13269345 TTAATTTCAA
* * * * * * *
13269355 ATGTGAATCTTTTAATTTTAGATGTGAATCTCTAAAACTTTCAAATGAGAATCTTTGAACTTTTT
1 ATGTGAAGCTTTGAATTGTAGATGTAAACCTATAAAACTTTCAAATGAGAATCTTTGAA-ATTTT
13269420 AG
65 AG
* ** *
13269422 ATGTGAAGCTTTGAATTGTAGATGTAAACCTATAAAATTTTCAAATTTGAATCTTTGAAATTTTG
1 ATGTGAAGCTTTGAATTGTAGATGTAAACCTATAAAACTTTCAAATGAGAATCTTTGAAATTTTA
13269487 G
66 G
13269488 ATGTGAA
1 ATGTGAA
13269495 TCCCTAAAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
66 12 0.19
67 50 0.81
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (66 bp):
ATGTGAAGCTTTGAATTGTAGATGTAAACCTATAAAACTTTCAAATGAGAATCTTTGAAATTTTA
G
Found at i:13269579 original size:16 final size:17
Alignment explanation
Indices: 13269556--13269610 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 17
13269546 TTTGGATTTT
13269556 AGATGTGAATCTTTAAA
1 AGATGTGAATCTTTAAA
*
13269573 A-ATGTGAATATTTGAAA
1 AGATGTGAATCTTT-AAA
13269590 TTTAGATGTGAATCTTTAAA
1 ---AGATGTGAATCTTTAAA
13269610 A
1 A
13269611 TTTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 11 0.35
17 5 0.16
20 4 0.13
21 11 0.35
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (17 bp):
AGATGTGAATCTTTAAA
Found at i:13269598 original size:21 final size:21
Alignment explanation
Indices: 13269574--13269613 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13269564 ATCTTTAAAA
*
13269574 ATGTGAATATTTGAAATTTAG
1 ATGTGAATATTTAAAATTTAG
*
13269595 ATGTGAATCTTTAAAATTT
1 ATGTGAATATTTAAAATTT
13269614 TTAAATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (21 bp):
ATGTGAATATTTAAAATTTAG
Found at i:13269668 original size:21 final size:21
Alignment explanation
Indices: 13269590--13269713 Score: 77
Period size: 21 Copynumber: 5.7 Consensus size: 21
13269580 ATATTTGAAA
*
13269590 TTTAGATGTGAATCTTTAAAATT
1 TTTAGATGTGAATCTCT-AAA-T
* ** * *
13269613 TTTAAATAAGAATCTTTGAAT
1 TTTAGATGTGAATCTCTAAAT
* * **
13269634 TTCAAATGCAAATCTCTAAAT
1 TTTAGATGTGAATCTCTAAAT
*
13269655 GTTAGATGTGAATCTCTAAACT
1 TTTAGATGTGAATCTCTAAA-T
* *
13269677 TTTCAAATGTGAATCTTTGAAAT
1 TTT-AGATGTGAATCTCT-AAAT
*
13269700 TTTGGATGTGAATC
1 TTTAGATGTGAATC
13269714 CTTAAAATTT
Statistics
Matches: 78, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
21 31 0.40
22 14 0.18
23 30 0.38
24 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (21 bp):
TTTAGATGTGAATCTCTAAAT
Found at i:13269690 original size:23 final size:22
Alignment explanation
Indices: 13269595--13269774 Score: 89
Period size: 23 Copynumber: 8.1 Consensus size: 22
13269585 TGAAATTTAG
* *
13269595 ATGTGAATCTTTAAAATTTTTAA
1 ATGTGAATCTCT-AAATTTTCAA
** * *
13269618 ATAAGAATCTTTGAA-TTTCAA
1 ATGTGAATCTCTAAATTTTCAA
** * *
13269639 ATGCAAATCTCTAAATGTT-AG
1 ATGTGAATCTCTAAATTTTCAA
13269660 ATGTGAATCTCTAAACTTTTCAA
1 ATGTGAATCTCTAAA-TTTTCAA
* **
13269683 ATGTGAATCTTTGAAATTTT-GG
1 ATGTGAATCTCT-AAATTTTCAA
13269705 ATGTGAATC-CTTAAAATTTTCAA
1 ATGTGAATCTC-T-AAATTTTCAA
** * * * *
13269728 ATAAGAATCTTTGAATTTTTAG
1 ATGTGAATCTCTAAATTTTCAA
* *
13269750 ATATGAATATCTAAAATTTTCAA
1 ATGTGAATCTCT-AAATTTTCAA
13269773 AT
1 AT
13269775 TATAAATTTT
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
21 29 0.25
22 40 0.35
23 43 0.37
24 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
ATGTGAATCTCTAAATTTTCAA
Found at i:13269706 original size:217 final size:218
Alignment explanation
Indices: 13269353--13269747 Score: 542
Period size: 217 Copynumber: 1.8 Consensus size: 218
13269343 AATTAATTTC
* * * *
13269353 AAATGTGAATCTTTTAATTTTAGATGTGAATCTCTAAAACTTTCAAATGAGAATCTTTGAACTTT
1 AAATGTGAATATTTGAAATTTAGATGTGAATCTCTAAAACTTTCAAATAAGAATCTTTGAAC-TT
* * ** * * *
13269418 TTAGATGTGAAGCTTTGAATTGTAGATGTAAACCTATAAAATTTTCAAATTTGAATCTTTGAAAT
65 TCAAATGCAAAGCTCTAAATTGTAGATGTAAACCTATAAAATTTTCAAATGTGAATCTTTGAAAT
*
13269483 TTTGGATGTGAATCCCTAAAAGTTTCAAATGAGAATATTTGAACTTTTCGAATGATGCGAATCTT
130 TTTGGATGTGAATCCCTAAAAGTTTCAAATAAGAATATTTGAACTTTTCGAATGATGCGAATCTT
13269548 TGGATTTTAGATGTGAATCTTTAA
195 TGGATTTTAGATGTGAATCTTTAA
* * *
13269572 AAATGTGAATATTTGAAATTTAGATGTGAATCTTTAAAATTTTTAAATAAGAATCTTTGAA-TTT
1 AAATGTGAATATTTGAAATTTAGATGTGAATCTCTAAAACTTTCAAATAAGAATCTTTGAACTTT
* * * * *
13269636 CAAATGCAAATCTCTAAA-TGTTAGATGTGAATCTCTAAACTTTTCAAATGTGAATCTTTGAAAT
66 CAAATGCAAAGCTCTAAATTG-TAGATGTAAACCTATAAAATTTTCAAATGTGAATCTTTGAAAT
* * * *
13269700 TTTGGATGTGAATCCTTAAAATTTTCAAATAAGAATCTTTGAATTTTT
130 TTTGGATGTGAATCCCTAAAAGTTTCAAATAAGAATATTTGAACTTTT
13269748 AGATATGAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
216 2 0.01
217 95 0.63
219 54 0.36
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (218 bp):
AAATGTGAATATTTGAAATTTAGATGTGAATCTCTAAAACTTTCAAATAAGAATCTTTGAACTTT
CAAATGCAAAGCTCTAAATTGTAGATGTAAACCTATAAAATTTTCAAATGTGAATCTTTGAAATT
TTGGATGTGAATCCCTAAAAGTTTCAAATAAGAATATTTGAACTTTTCGAATGATGCGAATCTTT
GGATTTTAGATGTGAATCTTTAA
Found at i:13269725 original size:45 final size:44
Alignment explanation
Indices: 13269422--13269910 Score: 247
Period size: 45 Copynumber: 11.2 Consensus size: 44
13269412 AACTTTTTAG
* * * * *
13269422 ATGTGAAGCTTTG-AATTGTAGATGTAAACCTATAAAATTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAAAATTTTCAA
* * *
13269466 ATTTGAATCTTTGAAATTTTGGATGTGAATCCCTAAAAGTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAAT-CTTAAAATTTTCAA
* * * * *** *
13269511 ATGAGAATATTTGAACTTTTCGAATGATGCGAATCTTTGGATTTT-AG
1 ATGTGAATCTTTGAAATTTT-G---GATGTGAATCTTAAAATTTTCAA
* * * *
13269558 ATGTGAATCTTT-AAA-----AATGTGAATATTTGAAA-TTT-AG
1 ATGTGAATCTTTGAAATTTTGGATGTGAAT-CTTAAAATTTTCAA
* ** ** **
13269595 ATGTGAATCTTTAAAATTTTTAAATAAGAATCTTTGAA-TTTCAA
1 ATGTGAATCTTTGAAA-TTTTGGATGTGAATCTTAAAATTTTCAA
** * * * *
13269639 ATGCAAATCTCT-AAATGTTAGATGTGAATCTCTAAACTTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAAAATTTTCAA
13269683 ATGTGAATCTTTGAAATTTTGGATGTGAATCCTTAAAATTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAAT-CTTAAAATTTTCAA
** * * * *
13269728 ATAAGAATCTTTGAATTTTTAGATATGAATATCTAAAATTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAAAATTTTCAA
* * * * ** * *
13269773 ATTATAAAT-TTTG-AATCTTGGGTGTGAATCTTTATGATATTCGA
1 A-TGTGAATCTTTGAAATTTTGGATGTGAATC-TTAAAATTTTCAA
* *
13269817 ATGTGAATCTTTGAATTTTTGGATGTGAATCTCTAAGATTTTCAA
1 ATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAAAATTTTCAA
* * **
13269862 ATGT-AAACTTTTAAA-TTTGGATGTGAATCTCT-AAATTTTTTA
1 ATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAAAATTTTCAA
13269904 ATGTGAA
1 ATGTGAA
13269911 AATTTTGGAT
Statistics
Matches: 337, Mismatches: 82, Indels: 53
0.71 0.17 0.11
Matches are distributed among these distances:
37 24 0.07
38 6 0.02
42 23 0.07
43 36 0.11
44 77 0.23
45 135 0.40
46 11 0.03
47 11 0.03
48 6 0.02
49 8 0.02
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (44 bp):
ATGTGAATCTTTGAAATTTTGGATGTGAATCTTAAAATTTTCAA
Found at i:13269846 original size:89 final size:88
Alignment explanation
Indices: 13269656--13269896 Score: 261
Period size: 89 Copynumber: 2.7 Consensus size: 88
13269646 TCTCTAAATG
* * * *
13269656 TTAGATGTGAATCTCTAAACTTTTCAAA-TGTGAATCTTTGAAATTTTGGATGTGAATCCTTAAA
1 TTAGATGTGAATCTCTAAAATTTTCAAATTATAAAT-TTTG-AA-TTTGGATGTGAATCTTTAAA
*
13269720 ATTTTCAAATAAGAATCTTTGAATTT
63 ATATTCAAATAAGAATCTTTGAATTT
* * * **
13269746 TTAGATATGAATATCTAAAATTTTCAAATTATAAATTTTGAATCTTGGGTGTGAATCTTTATGAT
1 TTAGATGTGAATCTCTAAAATTTTCAAATTATAAATTTTGAAT-TTGGATGTGAATCTTTAAAAT
* **
13269811 ATTCGAATGTGAATCTTTGAATTT
65 ATTCAAATAAGAATCTTTGAATTT
* * * * *
13269835 TTGGATGTGAATCTCTAAGATTTTCAAATGTA-AACTTTTAAATTTGGATGTGAATCTCTAAA
1 TTAGATGTGAATCTCTAAAATTTTCAAAT-TATAAATTTTGAATTTGGATGTGAATCTTTAAA
13269897 TTTTTTAATG
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
88 16 0.13
89 73 0.58
90 31 0.25
91 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (88 bp):
TTAGATGTGAATCTCTAAAATTTTCAAATTATAAATTTTGAATTTGGATGTGAATCTTTAAAATA
TTCAAATAAGAATCTTTGAATTT
Found at i:13269865 original size:23 final size:23
Alignment explanation
Indices: 13269795--13269910 Score: 73
Period size: 22 Copynumber: 5.3 Consensus size: 23
13269785 GAATCTTGGG
* *
13269795 TGTGAATCTTTATGATATTCGAA
1 TGTGAATCTTTAAGATTTTCGAA
* * *
13269818 TGTGAATCTTTGA-ATTTTTGGA
1 TGTGAATCTTTAAGATTTTCGAA
* *
13269840 TGTGAATCTCTAAGATTTTCAAA
1 TGTGAATCTTTAAGATTTTCGAA
* *
13269863 TGT-AAACTTTTAA-A-TTT-GGA
1 TGTGAATC-TTTAAGATTTTCGAA
* **
13269883 TGTGAATCTCTAA-ATTTTTTAA
1 TGTGAATCTTTAAGATTTTCGAA
13269905 TGTGAA
1 TGTGAA
13269911 AATTTTGGAT
Statistics
Matches: 70, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
20 9 0.13
21 9 0.13
22 28 0.40
23 24 0.34
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (23 bp):
TGTGAATCTTTAAGATTTTCGAA
Found at i:13270040 original size:36 final size:36
Alignment explanation
Indices: 13269993--13270137 Score: 155
Period size: 36 Copynumber: 4.0 Consensus size: 36
13269983 TTCAAGAATT
* *
13269993 TCTTTGTGAATCTTGAGTCTTTTATAAACCTTTGAA
1 TCTTTGTGAATCTTGAATCTTTTGTAAACCTTTGAA
* * * * * *
13270029 TCTTTATGAATCCTAAATCTTTTGTGAACCCTTAAA
1 TCTTTGTGAATCTTGAATCTTTTGTAAACCTTTGAA
* * *
13270065 TCTTTGTGAATTTTGAATCTTTTGCAAACCATTGAA
1 TCTTTGTGAATCTTGAATCTTTTGTAAACCTTTGAA
* * * *
13270101 TTTTTCTGAATCTTGAATCTTTTGTGAATCTTTGAA
1 TCTTTGTGAATCTTGAATCTTTTGTAAACCTTTGAA
13270137 T
1 T
13270138 TTTTTGCAAA
Statistics
Matches: 86, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (36 bp):
TCTTTGTGAATCTTGAATCTTTTGTAAACCTTTGAA
Found at i:13270073 original size:72 final size:72
Alignment explanation
Indices: 13269993--13270128 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
13269983 TTCAAGAATT
* * *
13269993 TCTTTGTGAATCTTGAGTCTTTTATAAACCTTTGAATCTTTATGAATCCTAAATCTTTTGTGAAC
1 TCTTTGTGAATCTTGAATCTTTTACAAACCATTGAATCTTTATGAATCCTAAATCTTTTGTGAAC
13270058 CCTTAAA
66 CCTTAAA
* * * * * *
13270065 TCTTTGTGAATTTTGAATCTTTTGCAAACCATTGAATTTTTCTGAATCTTGAATCTTTTGTGAA
1 TCTTTGTGAATCTTGAATCTTTTACAAACCATTGAATCTTTATGAATCCTAAATCTTTTGTGAA
13270129 TCTTTGAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (72 bp):
TCTTTGTGAATCTTGAATCTTTTACAAACCATTGAATCTTTATGAATCCTAAATCTTTTGTGAAC
CCTTAAA
Found at i:13270088 original size:18 final size:18
Alignment explanation
Indices: 13269995--13270143 Score: 106
Period size: 18 Copynumber: 8.2 Consensus size: 18
13269985 CAAGAATTTC
*
13269995 TTTGTGAATCTTGAGTCT
1 TTTGTGAATCTTGAATCT
* * *
13270013 TTTATAAACCTTTGAATC-
1 TTTGTGAATC-TTGAATCT
* * *
13270031 TTTATGAATCCTAAATCT
1 TTTGTGAATCTTGAATCT
* *
13270049 TTTGTGAACCCTTAAATC-
1 TTTGTGAA-TCTTGAATCT
*
13270067 TTTGTGAATTTTGAATCT
1 TTTGTGAATCTTGAATCT
** *
13270085 TTTGCAAACCATTGAAT-T
1 TTTGTGAATC-TTGAATCT
*
13270103 TTTCTGAATCTTGAATCT
1 TTTGTGAATCTTGAATCT
*
13270121 TTTGTGAATCTTTGAATTT
1 TTTGTGAATC-TTGAATCT
13270140 TTTG
1 TTTG
13270144 CAAATCTTTG
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
17 17 0.17
18 53 0.53
19 30 0.30
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (18 bp):
TTTGTGAATCTTGAATCT
Found at i:13270203 original size:22 final size:22
Alignment explanation
Indices: 13270169--13270222 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
13270159 TTGCAAACTT
*
13270169 TTTAAATTT--AATTGTAAATC
1 TTTAAATTTCAAATTGTAAACC
* *
13270189 TTTGAATTTCAAATTGTGAACC
1 TTTAAATTTCAAATTGTAAACC
13270211 TTTAAATTTCAA
1 TTTAAATTTCAA
13270223 GTTGCATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 8 0.29
22 20 0.71
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTAAATTTCAAATTGTAAACC
Found at i:13273366 original size:20 final size:20
Alignment explanation
Indices: 13273341--13273379 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13273331 AGAAAAAATA
13273341 TGAGAAAAAATGTG-GAAAAC
1 TGAGAAAAAA-GTGAGAAAAC
13273361 TGAGAAAAAAGTGAGAAAA
1 TGAGAAAAAAGTGAGAAAA
13273380 ATTCTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.59, C:0.03, G:0.26, T:0.13
Consensus pattern (20 bp):
TGAGAAAAAAGTGAGAAAAC
Found at i:13274421 original size:14 final size:14
Alignment explanation
Indices: 13274376--13274436 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
13274366 TAAACCCTTT
*
13274376 TAAACTCTAAACCC
1 TAAACTTTAAACCC
* * *
13274390 TAAGCTTTAATCCA
1 TAAACTTTAAACCC
13274404 TAAACTTTAAACCC
1 TAAACTTTAAACCC
*
13274418 TAAA-TCTTAAAGCC
1 TAAACT-TTAAACCC
13274432 TAAAC
1 TAAAC
13274437 CCTAAGCCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 1 0.03
14 36 0.97
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (14 bp):
TAAACTTTAAACCC
Found at i:13274435 original size:28 final size:28
Alignment explanation
Indices: 13274376--13274441 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
13274366 TAAACCCTTT
* *
13274376 TAAACTCTAAACCCTAAGCTTTAATCCA
1 TAAACTCTAAACCCTAAGCTTAAAGCCA
* *
13274404 TAAACTTTAAACCCTAAATCTTAAAGCC-
1 TAAACTCTAAACCCT-AAGCTTAAAGCCA
*
13274432 TAAACCCTAA
1 TAAACTCTAA
13274442 GCCACCTTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (28 bp):
TAAACTCTAAACCCTAAGCTTAAAGCCA
Found at i:13274477 original size:19 final size:19
Alignment explanation
Indices: 13274433--13274557 Score: 132
Period size: 19 Copynumber: 6.7 Consensus size: 19
13274423 CTTAAAGCCT
*
13274433 AAACCCTAAGCCACCTT-C
1 AAACCCTAAACCACCTTCC
*
13274451 AAATCCTAAACCACCTTCC
1 AAACCCTAAACCACCTTCC
* *
13274470 AAACCCTAAACCACATCCC
1 AAACCCTAAACCACCTTCC
*
13274489 AAACCCTAAATCACC-TCGC
1 AAACCCTAAACCACCTTC-C
*
13274508 AAAGCCTAAACCA-CTTCC
1 AAACCCTAAACCACCTTCC
*
13274526 AAAACCCTAAACCACCTTCT
1 -AAACCCTAAACCACCTTCC
*
13274546 AAAACC-AAACCA
1 AAACCCTAAACCA
13274558 ACCCCAAACT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
18 24 0.27
19 61 0.69
20 4 0.04
ACGTcount: A:0.41, C:0.42, G:0.02, T:0.15
Consensus pattern (19 bp):
AAACCCTAAACCACCTTCC
Found at i:13274538 original size:57 final size:56
Alignment explanation
Indices: 13274433--13274540 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 56
13274423 CTTAAAGCCT
* * *
13274433 AAACCCTAAGCCACCTTCAAATCCTAAACCACCTTCCAAACCCTAAACCACATCCC
1 AAACCCTAAACCACCTGCAAAGCCTAAACCACCTTCCAAACCCTAAACCACATCCC
*
13274489 AAACCCTAAATCACCTCGCAAAGCCTAAACCA-CTTCCAAAACCCTAAACCAC
1 AAACCCTAAACCACCT-GCAAAGCCTAAACCACCTTCC-AAACCCTAAACCAC
13274541 CTTCTAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 19 0.41
57 27 0.59
ACGTcount: A:0.40, C:0.43, G:0.03, T:0.15
Consensus pattern (56 bp):
AAACCCTAAACCACCTGCAAAGCCTAAACCACCTTCCAAACCCTAAACCACATCCC
Found at i:13275712 original size:14 final size:14
Alignment explanation
Indices: 13275689--13275722 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13275679 ATTTCTCATG
13275689 AAACCCTAAATTAT
1 AAACCCTAAATTAT
* *
13275703 AAACCTTAAATTCT
1 AAACCCTAAATTAT
13275717 AAACCC
1 AAACCC
13275723 CAATCCACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACCCTAAATTAT
Found at i:13275740 original size:18 final size:19
Alignment explanation
Indices: 13275717--13275759 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
13275707 CTTAAATTCT
*
13275717 AAACCCCAATCCACCC-TG
1 AAACCCCAAGCCACCCATG
*
13275735 AAACCCTAAGCCACCCATG
1 AAACCCCAAGCCACCCATG
13275754 AAACCC
1 AAACCC
13275760 TAAACCACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.37, C:0.47, G:0.07, T:0.09
Consensus pattern (19 bp):
AAACCCCAAGCCACCCATG
Found at i:13275757 original size:19 final size:18
Alignment explanation
Indices: 13275717--13275822 Score: 79
Period size: 19 Copynumber: 5.7 Consensus size: 18
13275707 CTTAAATTCT
* *
13275717 AAACCCCAATCCACCCTG
1 AAACCCTAAACCACCCTG
*
13275735 AAACCCTAAGCCACCCATG
1 AAACCCTAAACCACCC-TG
* *
13275754 AAACCCTAAACCACACTAT
1 AAACCCTAAACCACCCT-G
* *
13275773 AAATCCTAAACCACCCTCC
1 AAACCCTAAACCACCCT-G
* *
13275792 AAA-CCTCAAACCACCATCC
1 AAACCCT-AAACCACCCT-G
13275811 AAACCCTAAACC
1 AAACCCTAAACC
13275823 TTAATCCAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
18 18 0.24
19 53 0.72
20 3 0.04
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.12
Consensus pattern (18 bp):
AAACCCTAAACCACCCTG
Found at i:13279132 original size:22 final size:21
Alignment explanation
Indices: 13279104--13279171 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
13279094 TAATGAAGCG
13279104 AAAAAAAAAATGAAAAATGACA
1 AAAAAAAAAATGAAAAATGA-A
**
13279126 AAAAAAAGGATGAAAAATGAA
1 AAAAAAAAAATGAAAAATGAA
* * *
13279147 AAAAAAAGATTAAAAAAATGAA
1 AAAAAAAAAAT-GAAAAATGAA
13279169 AAA
1 AAA
13279172 GAAGGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.25
22 30 0.75
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAAAAATGAAAAATGAA
Found at i:13279163 original size:21 final size:20
Alignment explanation
Indices: 13279103--13279162 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
13279093 TTAATGAAGC
13279103 GAAAAAAAAA-ATGAAAAAT
1 GAAAAAAAAAGATGAAAAAT
13279122 GACAAAAAAAAGGATGAAAAAT
1 GA-AAAAAAAA-GATGAAAAAT
*
13279144 GAAAAAAAAAGATTAAAAA
1 GAAAAAAAAAGATGAAAAA
13279163 AATGAAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.05
20 16 0.43
21 8 0.22
22 11 0.30
ACGTcount: A:0.75, C:0.02, G:0.13, T:0.10
Consensus pattern (20 bp):
GAAAAAAAAAGATGAAAAAT
Found at i:13279183 original size:22 final size:22
Alignment explanation
Indices: 13279116--13279183 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
13279106 AAAAAAAATG
* **
13279116 AAAAATGACAAAAAAAAG-GATG
1 AAAAATGA-AAAAAAAAGAAAAA
**
13279138 AAAAATGAAAAAAAAAGATTAA
1 AAAAATGAAAAAAAAAGAAAAA
* *
13279160 AAAAATGAAAAAGAAGGAAAAA
1 AAAAATGAAAAAAAAAGAAAAA
13279182 AA
1 AA
13279184 TGACTTAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 9 0.24
22 28 0.76
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAATGAAAAAAAAAGAAAAA
Found at i:13279192 original size:32 final size:32
Alignment explanation
Indices: 13279116--13279192 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 32
13279106 AAAAAAAATG
**
13279116 AAAAATGACAAAAAAAAGGATGAAAAATGAAAA
1 AAAAATGACTTAAAAAA-GATGAAAAATGAAAA
13279149 AAAAA-GA-TTAAAAAA-ATGAAAAA-GAAGGAA
1 AAAAATGACTTAAAAAAGATGAAAAATGAA--AA
13279179 AAAAATGACTTAAA
1 AAAAATGACTTAAA
13279193 TTGGAAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 3 0.08
29 8 0.21
30 7 0.18
31 8 0.21
32 7 0.18
33 5 0.13
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.12
Consensus pattern (32 bp):
AAAAATGACTTAAAAAAGATGAAAAATGAAAA
Found at i:13280390 original size:58 final size:59
Alignment explanation
Indices: 13280293--13280418 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 59
13280283 TTATTTCATA
* * * *
13280293 CTTTGACTTAGGCTTAGACCAACTCATTTTCGATCTTGACTCAAT-CTGGTCATCTTTAT
1 CTTTGACTTAGACGTAGACCAACTCATTTTCGATCTTGACTCAATCCT-ATCACCTTTAT
* **
13280352 -TTTGACTTAGACGTAGACCAAGTCATTTTTTA-CTTTGACTCAATCCTATCACCTTTAT
1 CTTTGACTTAGACGTAGACCAACTCATTTTCGATC-TTGACTCAATCCTATCACCTTTAT
13280410 CTTTGACTT
1 CTTTGACTT
13280419 TAGCTCAGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.02
58 46 0.81
59 10 0.18
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (59 bp):
CTTTGACTTAGACGTAGACCAACTCATTTTCGATCTTGACTCAATCCTATCACCTTTAT
Found at i:13280534 original size:32 final size:31
Alignment explanation
Indices: 13280434--13280578 Score: 139
Period size: 32 Copynumber: 4.5 Consensus size: 31
13280424 CAGTCCAATC
*
13280434 ACCTTCATTTTTTTACCTT-GTCTCAATTCATT
1 ACCTTCA-TTTTTTACCTTGGT-TCAATTGATT
* * *
13280466 ACCTTCATCTTTTACCTTGGTTCAATTTGGTC
1 ACCTTCATTTTTTACCTTGGTTCAA-TTGATT
*
13280498 ACCTTCATTTTTTACCTTGGTTCAATCTGGTT
1 ACCTTCATTTTTTACCTTGGTTCAAT-TGATT
* ** * *
13280530 ACCTTCGTTTTCAACCTTGGCTCAGTTAGATT
1 ACCTTCATTTTTTACCTTGGTTCAATT-GATT
*
13280562 ACCTTCAGTTTTTACCT
1 ACCTTCATTTTTTACCT
13280579 CGATTTAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
31 16 0.17
32 77 0.83
ACGTcount: A:0.17, C:0.25, G:0.10, T:0.48
Consensus pattern (31 bp):
ACCTTCATTTTTTACCTTGGTTCAATTGATT
Found at i:13280547 original size:64 final size:63
Alignment explanation
Indices: 13280431--13280578 Score: 156
Period size: 64 Copynumber: 2.3 Consensus size: 63
13280421 GCTCAGTCCA
* * *
13280431 ATCACCTTCATTTTTTTACCTTGTCTCAATTCATTACCTTCATCTTTTACCTTGGTTCAATTTG
1 ATCACCTTCA-TTTTTTACCTTGTCTCAATTCATTACCTTCATCTTTAACCTTGGCTCAATTAG
* ** * *
13280495 GTCACCTTCATTTTTTACCTTGGT-TCAATCTGGTTACCTTCGT-TTTCAACCTTGGCTCAGTTA
1 ATCACCTTCATTTTTTACCTT-GTCTCAAT-TCATTACCTTCATCTTT-AACCTTGGCTCAATTA
13280558 G
63 G
* *
13280559 ATTACCTTCAGTTTTTACCT
1 ATCACCTTCATTTTTTACCT
13280579 CGATTTAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
63 19 0.27
64 51 0.73
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.47
Consensus pattern (63 bp):
ATCACCTTCATTTTTTACCTTGTCTCAATTCATTACCTTCATCTTTAACCTTGGCTCAATTAG
Done.