Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 33 of 213
Found at i:8937771 original size:41 final size:41
Alignment explanation
Indices: 8937714--8937793 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
8937704 TGATCGAATG
* * *
8937714 TAATACAGAATTTACGTCTAGTAGGTTTGATGCCGGTGAAA
1 TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
8937755 TAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA
1 TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGA
8937794 TACATTTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (41 bp):
TAATACAGAATTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:8945356 original size:43 final size:43
Alignment explanation
Indices: 8945280--8945435 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
8945270 CAATGTCATA
* * * *
8945280 TCCCAGATATGGTCTTAAATGTAATCTCGTATCGATGCCAATAG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCGATGCCAAT-G
* * *
8945324 T-CCAGCCATGGTCTTACATGAAATCACATATCGATGTCAATG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCGATGCCAATG
* * * *
8945366 TCCCAGACATGGTCTTACACGAAGTCTCATATCGATTCC-ATA
1 TCCCAGACATGGTCTTACATGAAATCTCATATCGATGCCAATG
** * *
8945408 TCCCAGATGTGGTCTTACACGTAATCTC
1 TCCCAGACATGGTCTTACATGAAATCTC
8945436 GATAACCCTA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 28 0.30
43 64 0.69
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCTCATATCGATGCCAATG
Found at i:8949756 original size:43 final size:43
Alignment explanation
Indices: 8949692--8949958 Score: 313
Period size: 43 Copynumber: 6.2 Consensus size: 43
8949682 ATGGTACTTT
* * * * *
8949692 TAGCGGCGTTTGT-AATCAAAGCGTCGCTAAATGTCTTGAGCTA
1 TAGCGGCGTTTGTGAA-AAAAGCGCCGCTAAAGGTCCTGATCTA
** *
8949735 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTATTGAGCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * * *
8949778 TAGTGGCGTTTGTGAAAGATGCGTCGCTAAAGGTCCTAATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
8949821 TAGTGGCGTTTTTGTAAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * *
8949864 TAGCGGCGTTTTTGTAAAAAGTGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
8949907 TAGCGGCGTTT-TTAGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
8949949 TAGCGGCGTT
1 TAGCGGCGTT
8949959 GACAATAGCG
Statistics
Matches: 197, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
42 36 0.18
43 159 0.81
44 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:8980268 original size:119 final size:120
Alignment explanation
Indices: 8980053--8980299 Score: 408
Period size: 119 Copynumber: 2.0 Consensus size: 120
8980043 TTTCTGTTGC
* *
8980053 TTGAATACTTACAATGTATATACCTCCATTTGTAGCAATCCCTTCTGGTAAGTTTATTGATCTAG
1 TTGAATACTTACAATGTATATACCT-C-TTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAG
**
8980118 AAAGGTTGATCAAGCTAGAAAACATGGGAACAATGAATCAGAATCCAGTGACAAAAAA
64 AAAGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAAT-CAGTGACAAAAAA
*
8980176 TTGAATACTTACAATGTATATA-CT-TTTGTTGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
1 TTGAATACTTACAATGTATATACCTCTTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
8980239 AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
66 AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
8980294 TTGAAT
1 TTGAAT
8980300 CAGCATTTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
118 19 0.16
119 76 0.64
122 2 0.02
123 22 0.18
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (120 bp):
TTGAATACTTACAATGTATATACCTCTTTGTAGCAATCCCTTCTGGTAAGTTTATTCATCCAGAA
AGGTTGATCAAGCTAGAAAACAAAGGAACAATGAATCAGAATCAGTGACAAAAAA
Found at i:8984790 original size:97 final size:94
Alignment explanation
Indices: 8984679--8984877 Score: 224
Period size: 94 Copynumber: 2.1 Consensus size: 94
8984669 ATAAATACAA
*
8984679 ATATATCAAATAAATTAGTT-TAAAATAAAATATA-TTTAACACAAAGATAA-ATATAAAAAATA
1 ATATAT-AAATAAATAAGTTATAAAATAAAA-ATACTTTAA-ACAAA-ATAATATATAAAAAATA
8984741 TATAATTTTATTATATAATTACATATTTATTAATTT
62 T-T--TTTTATTATATAATTACATATTTATTAATTT
* * * * *
8984777 ATATATAAATAAATAAGTTATTAATTAAAAATACTTTTAACATAATAATATATATAAAATATTTT
1 ATATATAAATAAATAAGTTATAAAATAAAAATACTTTAAACAAAATAATATATAAAAAATATTTT
* * *
8984842 TTATTTTATAATTATATATTTATTATTTT
66 TTATTATATAATTACATATTTATTAATTT
*
8984871 ATTTATA
1 ATATATA
8984878 TAAAATTGGC
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
94 34 0.39
96 5 0.06
97 31 0.35
98 18 0.20
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.46
Consensus pattern (94 bp):
ATATATAAATAAATAAGTTATAAAATAAAAATACTTTAAACAAAATAATATATAAAAAATATTTT
TTATTATATAATTACATATTTATTAATTT
Found at i:8984876 original size:20 final size:21
Alignment explanation
Indices: 8984835--8984879 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
8984825 TATATATAAA
*
8984835 ATATTTTTTATTTTATAATTAT
1 ATATTTATTATTTTAT-ATTAT
8984857 ATATTTATTATTTTAT-TTAT
1 ATATTTATTATTTTATATTAT
8984877 ATA
1 ATA
8984880 AAATTGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTTATTATTTTATATTAT
Found at i:8994733 original size:34 final size:34
Alignment explanation
Indices: 8994678--8994743 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
8994668 CAAACACCAG
*
8994678 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
8994713 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
8994744 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:8994943 original size:9 final size:9
Alignment explanation
Indices: 8994921--8995208 Score: 137
Period size: 9 Copynumber: 30.9 Consensus size: 9
8994911 ATTTTCTCAT
8994921 AAAATTATCAA
1 AAAATTAT--A
8994932 AAAATTATA
1 AAAATTATA
8994941 AAAA--ATA
1 AAAATTATA
*
8994948 ATAACTTATA
1 A-AAATTATA
*
8994958 AATATTATA
1 AAAATTATA
8994967 AAAA-TATA
1 AAAATTATA
* *
8994975 CAAATTTTA
1 AAAATTATA
*
8994984 ATAAATT-TT
1 A-AAATTATA
8994993 AAAATTAATA
1 AAAATT-ATA
*
8995003 AAACATATTTA
1 AAA-AT-TATA
*
8995014 AAATTTTATA
1 AAA-ATTATA
*
8995024 AAAACATATA
1 AAAA-TTATA
*
8995034 AAAATTCTTA
1 AAAATT-ATA
8995044 AAAACTTATA
1 AAAA-TTATA
*
8995054 AAAGATCATA
1 AAA-ATTATA
8995064 AAAATTATA
1 AAAATTATA
*
8995073 AATAATAATA
1 AA-AATTATA
*
8995083 AACATTAT-
1 AAAATTATA
*
8995091 TAAA-TATTA
1 AAAATTA-TA
8995100 AAAA-TATTA
1 AAAATTA-TA
8995109 AAAATTGATA
1 AAAATT-ATA
*
8995119 TAAATTTATA
1 -AAAATTATA
8995129 AAAATTATA
1 AAAATTATA
*
8995138 AAATCTTATA
1 AAA-ATTATA
8995148 AATAA-TATA
1 AA-AATTATA
8995157 AAAATCTA-A
1 AAAAT-TATA
*
8995166 TAAATTAT-
1 AAAATTATA
* *
8995174 AAAATCATT
1 AAAATTATA
*
8995183 AAAATTATT
1 AAAATTATA
*
8995192 AAAAGTATA
1 AAAATTATA
*
8995201 TAAATTAT
1 AAAATTAT
8995209 TTTAAAAAAA
Statistics
Matches: 214, Mismatches: 38, Indels: 52
0.70 0.12 0.17
Matches are distributed among these distances:
7 6 0.03
8 27 0.13
9 86 0.40
10 68 0.32
11 26 0.12
12 1 0.00
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:8994943 original size:19 final size:18
Alignment explanation
Indices: 8994919--8995177 Score: 99
Period size: 19 Copynumber: 13.8 Consensus size: 18
8994909 ATATTTTCTC
8994919 ATAAAATTATCAAAAAATT
1 ATAAAATTAT-AAAAAATT
* * *
8994938 ATAAAA-AATAATAACTT
1 ATAAAATTATAAAAAATT
8994955 ATAAATATTAT-AAAAA-T
1 ATAAA-ATTATAAAAAATT
* *
8994972 ATACAAATTTTAATAAATT
1 ATA-AAATTATAAAAAATT
*
8994991 TTAAAATTAATAAAACATATT
1 ATAAAATT-ATAAAA-A-ATT
8995012 -TAAAATTTTATAAAAACA-T
1 ATAAAA--TTATAAAAA-ATT
* *
8995031 ATAAAAATTCTTAAAAACTT
1 AT-AAAATT-ATAAAAAATT
*
8995051 ATAAAA-GATCATAAAAATT
1 ATAAAATTAT-A-AAAAATT
*
8995070 AT-AAATAATAATAAACATT
1 ATAAAATTATAA-AAA-ATT
*
8995089 ATTAAATATTA-AAAATATT
1 A-TAAA-ATTATAAAAAATT
* *
8995108 A-AAAATTGATATAAATTT
1 ATAAAATT-ATAAAAAATT
**
8995126 ATAAAAATTATAAAATCTT
1 AT-AAAATTATAAAAAATT
*
8995145 AT-AAATAATATAAAAATCT
1 ATAAAATTATA-AAAAAT-T
8995164 A-ATAAATTATAAAA
1 ATA-AAATTATAAAA
8995178 TCATTAAAAT
Statistics
Matches: 180, Mismatches: 30, Indels: 60
0.67 0.11 0.22
Matches are distributed among these distances:
16 3 0.02
17 32 0.18
18 35 0.19
19 54 0.30
20 34 0.19
21 17 0.09
22 5 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (18 bp):
ATAAAATTATAAAAAATT
Found at i:8995015 original size:20 final size:22
Alignment explanation
Indices: 8994990--8995032 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8994980 TTTAATAAAT
8994990 TTTAAAA-TTAAT-AAAACATA
1 TTTAAAATTTAATAAAAACATA
*
8995010 TTTAAAATTTTATAAAAACATA
1 TTTAAAATTTAATAAAAACATA
8995032 T
1 T
8995033 AAAAATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATTTAATAAAAACATA
Found at i:8995030 original size:22 final size:22
Alignment explanation
Indices: 8994990--8995048 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 22
8994980 TTTAATAAAT
*
8994990 TTTAAAA-TTAAT-AAAACATA
1 TTTAAAATTTTATAAAAACATA
8995010 TTTAAAATTTTATAAAAACATA
1 TTTAAAATTTTATAAAAACATA
* *
8995032 -TAAAAATTCT-TAAAAAC
1 TTTAAAATTTTATAAAAAC
8995049 TTATAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.41
21 12 0.35
22 8 0.24
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATTTTATAAAAACATA
Found at i:8995035 original size:20 final size:19
Alignment explanation
Indices: 8995002--8995056 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
8994992 TAAAATTAAT
*
8995002 AAAACATATTTAAAATTTTATA
1 AAAACATA--TAAAATTCT-TA
8995024 AAAACATATAAAAATTCTTA
1 AAAACATAT-AAAATTCTTA
*
8995044 AAAACTTATAAAA
1 AAAACATATAAAA
8995057 GATCATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 7 0.23
22 8 0.27
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAACATATAAAATTCTTA
Found at i:8995130 original size:29 final size:27
Alignment explanation
Indices: 8995068--8995140 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
8995058 ATCATAAAAA
*
8995068 TTATAAATAATAATAAACATTATTAAAT
1 TTATAAA-AATAATAAAAATTATTAAAT
* *
8995096 AT-TAAAAATATTAAAAATTGATATAAAT
1 TTATAAAAATAATAAAAATT-AT-TAAAT
*
8995124 TTATAAAAATTATAAAA
1 TTATAAAAATAATAAAA
8995141 TCTTATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 11 0.31
27 6 0.17
28 7 0.19
29 12 0.33
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (27 bp):
TTATAAAAATAATAAAAATTATTAAAT
Found at i:8995130 original size:46 final size:44
Alignment explanation
Indices: 8995080--8995204 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 44
8995070 ATAAATAATA
8995080 ATAAACATTATTAAATATTAAAAATAT-TAAAAAT-TGATATAAATTT
1 ATAAA-ATTATTAAATATTAAAAATATATAAAAATCT-A-ATAAA-TT
* * *
8995126 ATAAAAATTATAAAATCTTATAAATAATATAAAAATCTAATAAATT
1 AT-AAAATTATTAAATATTAAAAAT-ATATAAAAATCTAATAAATT
* *
8995172 ATAAAATCATTAAAATTATTAAAAGTATATAAA
1 ATAAAATTATT-AAA-TATTAAAAATATATAAA
8995205 TTATTTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
45 7 0.11
46 32 0.49
47 17 0.26
48 8 0.12
49 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (44 bp):
ATAAAATTATTAAATATTAAAAATATATAAAAATCTAATAAATT
Found at i:8995170 original size:75 final size:73
Alignment explanation
Indices: 8995022--8995186 Score: 172
Period size: 75 Copynumber: 2.2 Consensus size: 73
8995012 TAAAATTTTA
* * *
8995022 TAAAAACATATAAAAATTCTTAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAACA
1 TAAAAATAT-TAAAAATTCATAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAAAA
*
8995087 TTATTAAATAT
65 TTAAT-AA-AT
* * * * *
8995098 TAAAAATATTAAAAATTGATATAAATTTATAAAA-ATTATAAAATCTTATAAATAAT-ATAAAAA
1 TAAAAATATTAAAAATTCATAAAAACTTATAAAAGATCATAAAA-ATTATAAATAATAATAAAAA
8995161 TCTAATAAAT
65 T-TAATAAAT
8995171 TATAAAATCATTAAAA
1 TA-AAAAT-ATTAAAA
8995187 TTATTAAAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
73 4 0.05
74 22 0.29
75 42 0.55
76 8 0.11
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (73 bp):
TAAAAATATTAAAAATTCATAAAAACTTATAAAAGATCATAAAAATTATAAATAATAATAAAAAT
TAATAAAT
Found at i:8996226 original size:19 final size:18
Alignment explanation
Indices: 8996161--8996368 Score: 115
Period size: 19 Copynumber: 11.4 Consensus size: 18
8996151 TTTATGGTTT
*
8996161 TTTTTATAA-ATTTATATA
1 TTTTTATAATTTTTATA-A
* *
8996179 TTTTTA-AATATTTAAAA
1 TTTTTATAATTTTTATAA
** *
8996196 AGTTTATGATTTTTATAA
1 TTTTTATAATTTTTATAA
8996214 GTTTTTATAATTTATTAT-A
1 -TTTTTATAATTT-TTATAA
* ** *
8996233 TTTTTTTGTTTTTTTTATA
1 TTTTTATAATTTTTATA-A
* *
8996252 TTTTTGTAATGTTTATAA
1 TTTTTATAATTTTTATAA
8996270 GTTTTTATAAGTTTTTATAA
1 -TTTTTATAA-TTTTTATAA
*
8996290 TTTTTATAAGTTTATATCAA
1 TTTTTATAA-TTTTTAT-AA
*
8996310 --TTT-TAATTTTTTTAA
1 TTTTTATAATTTTTATAA
* * *
8996325 TATTTAATAA-ATTTATAT
1 T-TTTTATAATTTTTATAA
*
8996343 TTTTTATAATTTTTAATGA
1 TTTTTATAATTTTT-ATAA
8996362 TTTTTAT
1 TTTTTAT
8996369 GAGAAAATGT
Statistics
Matches: 144, Mismatches: 31, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
15 2 0.01
16 5 0.03
17 20 0.14
18 44 0.31
19 59 0.41
20 14 0.10
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:8996297 original size:9 final size:9
Alignment explanation
Indices: 8996161--8996368 Score: 115
Period size: 9 Copynumber: 22.8 Consensus size: 9
8996151 TTTATGGTTT
8996161 TTTTTATAA
1 TTTTTATAA
*
8996170 -ATTTATATA
1 TTTTTATA-A
8996179 TTTTTA-AA
1 TTTTTATAA
* *
8996187 TATTTAAAA
1 TTTTTATAA
** *
8996196 AGTTTATGA
1 TTTTTATAA
8996205 TTTTTATAA
1 TTTTTATAA
8996214 GTTTTTATAA
1 -TTTTTATAA
8996224 TTTATTAT-A
1 TTT-TTATAA
* **
8996233 TTTTTTTGT
1 TTTTTATAA
*
8996242 TTTTTTTATA
1 TTTTTATA-A
*
8996252 TTTTTGTAA
1 TTTTTATAA
*
8996261 TGTTTATAA
1 TTTTTATAA
8996270 GTTTTTATAA
1 -TTTTTATAA
8996280 GTTTTTATAA
1 -TTTTTATAA
8996290 TTTTTATAA
1 TTTTTATAA
*
8996299 GTTTATATCAA
1 -TTTTTAT-AA
8996310 --TTT-TAA
1 TTTTTATAA
*
8996316 TTTTTTTAA
1 TTTTTATAA
*
8996325 TATTTAATAA
1 T-TTTTATAA
* *
8996335 -ATTTATAT
1 TTTTTATAA
8996343 TTTTTATAA
1 TTTTTATAA
*
8996352 TTTTTAATGA
1 TTTTT-ATAA
8996362 TTTTTAT
1 TTTTTAT
8996369 GAGAAAATGT
Statistics
Matches: 155, Mismatches: 28, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 1 0.01
8 25 0.16
9 63 0.41
10 62 0.40
11 2 0.01
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8996313 original size:29 final size:28
Alignment explanation
Indices: 8996198--8996368 Score: 117
Period size: 29 Copynumber: 6.2 Consensus size: 28
8996188 ATTTAAAAAG
*
8996198 TTTATGATTTTTATAAGTTTTTATAATT
1 TTTATAATTTTTATAAGTTTTTATAATT
* *
8996226 TATTAT-ATTTTT-T-TGTTTTTTTTATATT
1 T-TTATAATTTTTATAAG-TTTTTATA-ATT
* *
8996254 TTTGTAATGTTTATAAGTTTTTATAAGTT
1 TTTATAATTTTTATAAGTTTTTATAA-TT
*
8996283 TTTATAATTTTTATAAGTTTATATCAA--
1 TTTATAATTTTTATAAGTTTTTAT-AATT
* * *
8996310 TTT-TAATTTTTTTAA-TATTTAATAA-A
1 TTTATAATTTTTATAAGT-TTTTATAATT
* *
8996336 TTTATATTTTTTATAA-TTTTTAATGATT
1 TTTATAATTTTTATAAGTTTTT-ATAATT
8996364 TTTAT
1 TTTAT
8996369 GAGAAAATGT
Statistics
Matches: 113, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
25 3 0.03
26 22 0.19
27 28 0.25
28 22 0.19
29 35 0.31
30 3 0.03
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTATAATTTTTATAAGTTTTTATAATT
Found at i:8996607 original size:10 final size:10
Alignment explanation
Indices: 8996592--8996731 Score: 64
Period size: 10 Copynumber: 14.6 Consensus size: 10
8996582 CATATAAGCC
8996592 TAAAAATTTA
1 TAAAAATTTA
*
8996602 TAAAAA-ATA
1 TAAAAATTTA
*
8996611 T-AAATTTTA
1 TAAAAATTTA
*
8996620 T-AAAATTAA
1 TAAAAATTTA
*
8996629 TAAAAA-ATA
1 TAAAAATTTA
*
8996638 TTAAAATATT-
1 TAAAAAT-TTA
8996648 T-AAAATTGTA
1 TAAAAATT-TA
* *
8996658 T-AAAACTAA
1 TAAAAATTTA
**
8996667 TAAAAATCCA
1 TAAAAATTTA
*
8996677 TAAAAACTTA
1 TAAAAATTTA
*
8996687 TAAAAA-ATA
1 TAAAAATTTA
8996696 TAATAAATTTA
1 TAA-AAATTTA
*
8996707 TAAAAA-CTA
1 TAAAAATTTA
* *
8996716 TTAAAACTTA
1 TAAAAATTTA
8996726 TAAAAA
1 TAAAAA
8996732 AATCATCTAA
Statistics
Matches: 97, Mismatches: 23, Indels: 20
0.69 0.16 0.14
Matches are distributed among these distances:
8 4 0.04
9 39 0.40
10 48 0.49
11 6 0.06
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:8996636 original size:38 final size:38
Alignment explanation
Indices: 8996593--8996672 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
8996583 ATATAAGCCT
* * *
8996593 AAAAATTTATAAAAAATAT-AAATTTTATAAAATTAATA
1 AAAAATAT-TAAAAAATATAAAATTGTATAAAACTAATA
* *
8996631 AAAAATATTAAAATATTTAAAATTGTATAAAACTAATA
1 AAAAATATTAAAAAATATAAAATTGTATAAAACTAATA
8996669 AAAA
1 AAAA
8996673 TCCATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 8 0.22
38 28 0.78
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (38 bp):
AAAAATATTAAAAAATATAAAATTGTATAAAACTAATA
Found at i:8996644 original size:19 final size:19
Alignment explanation
Indices: 8996620--8996732 Score: 63
Period size: 19 Copynumber: 5.8 Consensus size: 19
8996610 ATAAATTTTA
8996620 TAAAATTAATAAAAAATAT
1 TAAAATTAATAAAAAATAT
* * * *
8996639 TAAAA-TATTTAAAATTGT
1 TAAAATTAATAAAAAATAT
*
8996657 ATAAAACTAAT-AAAAATCCAT
1 -TAAAATTAATAAAAAAT--AT
*
8996678 AAAAACTT-ATAAAAAATAT
1 TAAAA-TTAATAAAAAATAT
* * *
8996697 AATAAATTTATAAAAACTAT
1 TA-AAATTAATAAAAAATAT
8996717 TAAAACTT-ATAAAAAA
1 TAAAA-TTAATAAAAAA
8996733 ATCATCTAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
18 9 0.12
19 31 0.42
20 25 0.34
21 8 0.11
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (19 bp):
TAAAATTAATAAAAAATAT
Found at i:8996707 original size:20 final size:19
Alignment explanation
Indices: 8996676--8996732 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
8996666 ATAAAAATCC
8996676 ATAAAAACTTATAAAAAAT
1 ATAAAAACTTATAAAAAAT
* *
8996695 ATAATAAATTTATAAAAACT
1 ATAA-AAACTTATAAAAAAT
*
8996715 ATTAAAACTTATAAAAAA
1 ATAAAAACTTATAAAAAA
8996733 ATCATCTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAACTTATAAAAAAT
Found at i:8996728 original size:30 final size:29
Alignment explanation
Indices: 8996656--8996731 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
8996646 TTTAAAATTG
*
8996656 TATAAAACTAATAAAAATCCATAAAAACT
1 TATAAAACTTATAAAAATCCATAAAAACT
** **
8996685 TATAAAAAATATAATAAATTTATAAAAAC-
1 TATAAAACTTATAA-AAATCCATAAAAACT
8996714 TATTAAAACTTATAAAAA
1 TA-TAAAACTTATAAAAA
8996732 AATCATCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (29 bp):
TATAAAACTTATAAAAATCCATAAAAACT
Found at i:8997154 original size:25 final size:24
Alignment explanation
Indices: 8997116--8997167 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8997106 TTTCTAGCCA
*
8997116 TTTGATTTTTTTCTTTTATGTTCT
1 TTTGATTTCTTTCTTTTATGTTCT
* *
8997140 TTTGACTTTCTTTCTTTTTTTTTCT
1 TTTGA-TTTCTTTCTTTTATGTTCT
8997165 TTT
1 TTT
8997168 TTTTTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTGATTTCTTTCTTTTATGTTCT
Found at i:8997561 original size:16 final size:16
Alignment explanation
Indices: 8997540--8997572 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8997530 CCTTAATCAA
8997540 ATCTAAACATAGATTG
1 ATCTAAACATAGATTG
8997556 ATCTAAACATAGATTG
1 ATCTAAACATAGATTG
8997572 A
1 A
8997573 ACTCTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (16 bp):
ATCTAAACATAGATTG
Found at i:8998234 original size:89 final size:89
Alignment explanation
Indices: 8998078--8998424 Score: 488
Period size: 89 Copynumber: 3.9 Consensus size: 89
8998068 AACAATGAGG
* * *
8998078 GTTTATAATTTGTGGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
8998143 CTTTTTTCATAAACATAAATTTTT
66 CTTTTTTCATAAACATAAATTTTT
*
8998167 GTTTGTAATTTGTAGGATGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
8998232 CTTTTTTCATAAAC----ATTTTT
66 CTTTTTTCATAAACATAAATTTTT
* * *
8998252 -TTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTCT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTT-T
*****
8998316 TCTTTTTTCATAAACATAAAAAAAA
65 TCTTTTTTCATAAACATAAATTTTT
* * * * * *
8998341 ATTTGTAATTTGTGGGGTGAGAATATGAGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTTT
1 GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
8998406 CTTTTTTCATAAACATAAA
66 CTTTTTTCATAAACATAAA
8998425 AAAAATTTAA
Statistics
Matches: 237, Mismatches: 15, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
84 58 0.24
85 22 0.09
89 97 0.41
90 60 0.25
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (89 bp):
GTTTGTAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCGCCTTTT
CTTTTTTCATAAACATAAATTTTT
Found at i:8998375 original size:174 final size:173
Alignment explanation
Indices: 8998083--8998421 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 173
8998073 TGAGGGTTTA
*
8998083 TAATTTGTGGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
1 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
****** *
8998148 TTCATAAACATAAATTTTTGTTTGTAATTTGTAGGATGAGAATATGCGAATCAAGTTTTATTTTA
66 TTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTTA
8998213 GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTG
131 GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTG
* * **
8998256 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTGGTTTTAGCTTTTGCCTTCTTCTTT
1 TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTT-TTCTTT
* *
8998321 TTTCATAAACATAAAAAAAAATTTGTAATTTGTGGGGTGAGAATATGAGAATCAAGTTTTATTTT
65 TTTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTT
* * *
8998386 GGTTTTAGCTTTTGCCTTTTCTTTTTTCATAAACAT
130 AGTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACAT
8998422 AAAAAAAATT
Statistics
Matches: 148, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
173 53 0.36
174 95 0.64
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.48
Consensus pattern (173 bp):
TAATTTGTAGGGTGAGAATATGCGAATCAAGTTTTATTTTAGTTTCAGCTTTCACCTTTTCTTTT
TTCATAAACATAAAAAAAAATTTGTAATTTGTAGGATGAGAATATGAGAATCAAGTTTTATTTTA
GTTTCAGCTTTCGCCTTTTCTTTTTTCATAAACATTTTTTTTG
Found at i:8998953 original size:27 final size:27
Alignment explanation
Indices: 8998913--8998974 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
8998903 AAAAATGAAT
8998913 TTTTATATATTTTATAATT-TTAA-AA
1 TTTTATATATTTTATAATTATTAATAA
8998938 TTTTATATAAGTTTTATAATTATTAATAA
1 TTTTATAT-A-TTTTATAATTATTAATAA
8998967 TTATTATA
1 TT-TTATA
8998975 AATTGTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 8 0.25
26 1 0.03
27 10 0.31
28 4 0.12
29 4 0.12
30 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTATATATTTTATAATTATTAATAA
Found at i:8998972 original size:10 final size:9
Alignment explanation
Indices: 8998910--8998968 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 9
8998900 CCAAAAAATG
*
8998910 AATTTTTAT
1 AATTTTAAT
8998919 ATATTTT-AT
1 A-ATTTTAAT
8998928 AATTTTAA-
1 AATTTTAAT
8998936 AATTTTATAT
1 AATTTTA-AT
8998946 AAGTTTT-AT
1 AA-TTTTAAT
8998955 AATTATTAAT
1 AATT-TTAAT
8998965 AATT
1 AATT
8998969 ATTATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
8 14 0.33
9 12 0.28
10 13 0.30
11 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
AATTTTAAT
Found at i:8998975 original size:9 final size:8
Alignment explanation
Indices: 8998913--8998975 Score: 54
Period size: 9 Copynumber: 7.0 Consensus size: 8
8998903 AAAAATGAAT
8998913 TTTTATATA
1 TTTTATA-A
8998922 TTTTATAA
1 TTTTATAA
*
8998930 TTTTAAAA
1 TTTTATAA
8998938 TTTTATATAA
1 -TTT-TATAA
8998948 GTTTTATAA
1 -TTTTATAA
8998957 TTATTAATAA
1 TT-TT-ATAA
8998967 TTATTATAA
1 TT-TTATAA
8998976 ATTGTTTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 10 0.21
9 21 0.45
10 16 0.34
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
TTTTATAA
Found at i:8998978 original size:10 final size:9
Alignment explanation
Indices: 8998913--8998978 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 9
8998903 AAAAATGAAT
*
8998913 TTTTATATA
1 TTTTATAAA
8998922 TTTTAT-AA
1 TTTTATAAA
8998930 TTTTA-AAA
1 TTTTATAAA
8998938 TTTTATATAA
1 TTTTATA-AA
8998948 GTTTTAT-AA
1 -TTTTATAAA
8998957 TTATTA-ATAA
1 TT-TTATA-AA
8998967 TTATTATAAA
1 TT-TTATAAA
8998977 TT
1 TT
8998979 GTTTAGATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
8 15 0.31
9 12 0.25
10 14 0.29
11 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTATAAA
Found at i:8999010 original size:20 final size:19
Alignment explanation
Indices: 8998910--8999088 Score: 109
Period size: 19 Copynumber: 9.5 Consensus size: 19
8998900 CCAAAAAATG
*
8998910 AATTTTTAT-ATATTTTAT
1 AATTTTTATAATTTTTTAT
* *
8998928 AA-TTTTAAAATTTTATAT
1 AATTTTTATAATTTTTTAT
* * *
8998946 AAGTTTTATAATTATTAAT
1 AATTTTTATAATTTTTTAT
* * *
8998965 AATTATTATAAATTGTTTAG
1 AATTTTTAT-AATTTTTTAT
*
8998985 ATTTTTTTATAATTTTTTAT
1 A-ATTTTTATAATTTTTTAT
**
8999005 AATTTTTATGTTTTTTTCAT
1 AATTTTTATAATTTTTT-AT
* *
8999025 AATTTTTATAAGTTTATA-
1 AATTTTTATAATTTTTTAT
**
8999043 AAACTTT-TAATATTTTTAT
1 AATTTTTATAAT-TTTTTAT
*
8999062 AA-TTTT-GAATTTTTTAAT
1 AATTTTTATAATTTTTT-AT
*
8999080 TATTTTTAT
1 AATTTTTAT
8999089 GAGAAAAAAT
Statistics
Matches: 120, Mismatches: 31, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
17 13 0.11
18 30 0.25
19 39 0.32
20 32 0.27
21 6 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAT
Found at i:8999030 original size:10 final size:9
Alignment explanation
Indices: 8998910--8999067 Score: 97
Period size: 10 Copynumber: 16.7 Consensus size: 9
8998900 CCAAAAAATG
8998910 AATTTTTAT
1 AATTTTTAT
8998919 -ATATTTTAT
1 AAT-TTTTAT
*
8998928 AA-TTTTAA
1 AATTTTTAT
8998936 AATTTTATAT
1 AATTTT-TAT
*
8998946 AAGTTTTAT
1 AATTTTTAT
*
8998955 AATTATTAAT
1 AATT-TTTAT
*
8998965 AATTATTAT
1 AATTTTTAT
*
8998974 AAATTGTTTAG
1 -AATT-TTTAT
*
8998985 ATTTTTTTAT
1 A-ATTTTTAT
8998995 AATTTTTTAT
1 AA-TTTTTAT
8999005 AATTTTTAT
1 AATTTTTAT
**
8999014 GTTTTTTTCAT
1 -AATTTTT-AT
8999025 AATTTTTAT
1 AATTTTTAT
* *
8999034 AAGTTTATAA
1 AA-TTTTTAT
*
8999044 AACTTTTA-
1 AATTTTTAT
8999052 ATATTTTTAT
1 A-ATTTTTAT
8999062 AATTTT
1 AATTTT
8999068 GAATTTTTTA
Statistics
Matches: 114, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
8 10 0.09
9 44 0.39
10 53 0.46
11 7 0.06
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:9009645 original size:17 final size:17
Alignment explanation
Indices: 9009610--9009652 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
9009600 AAATAACCTC
9009610 ATATAAA-ATGTAAAGT
1 ATATAAATATGTAAAGT
9009626 ATATAAATATGTACAA-T
1 ATATAAATATGTA-AAGT
*
9009643 ATATATATAT
1 ATATAAATAT
9009653 CATGAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 15 0.62
18 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (17 bp):
ATATAAATATGTAAAGT
Found at i:9018751 original size:21 final size:21
Alignment explanation
Indices: 9018725--9018765 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9018715 GAATAGGGCA
* *
9018725 GATGATGATATGGCTGATGAG
1 GATGATGACATGGCGGATGAG
9018746 GATGATGACATGGCGGATGA
1 GATGATGACATGGCGGATGA
9018766 TGGGGAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.39, T:0.24
Consensus pattern (21 bp):
GATGATGACATGGCGGATGAG
Found at i:9018775 original size:12 final size:12
Alignment explanation
Indices: 9018760--9018807 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
9018750 ATGACATGGC
*
9018760 GGATGATGGGGA
1 GGATGATGAGGA
9018772 GGATGATGAGGA
1 GGATGATGAGGA
* *
9018784 TGATGATGAGGG
1 GGATGATGAGGA
*
9018796 GGAGGATGAGGA
1 GGATGATGAGGA
9018808 TGAGGATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.54, T:0.17
Consensus pattern (12 bp):
GGATGATGAGGA
Found at i:9018788 original size:24 final size:24
Alignment explanation
Indices: 9018761--9018810 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9018751 TGACATGGCG
*
9018761 GATGATG-GGGAGGATGATGAGGAT
1 GATGATGAGGG-GGAGGATGAGGAT
9018785 GATGATGAGGGGGAGGATGAGGAT
1 GATGATGAGGGGGAGGATGAGGAT
9018809 GA
1 GA
9018811 GGATATAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.52, T:0.18
Consensus pattern (24 bp):
GATGATGAGGGGGAGGATGAGGAT
Found at i:9018806 original size:6 final size:6
Alignment explanation
Indices: 9018776--9018814 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
9018766 TGGGGAGGAT
* **
9018776 GATGAG GATGAT GATGAG GGGGAG GATGAG GATGAG GAT
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GAT
9018815 ATAGCTGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (6 bp):
GATGAG
Found at i:9030131 original size:41 final size:41
Alignment explanation
Indices: 9030068--9030184 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 41
9030058 GATGAATTTT
* * *
9030068 TCAGACTATAAATCTAGCAGGCTAAGTGCCGGTGATCGGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
* * *
9030109 TCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGATATGAA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
* *
9030150 TCAGGCTATAAGCTTAGCAGGCTAAGTGCCGGTGA
1 TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGA
9030185 ATATGTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
TCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATAGGAA
Found at i:9033445 original size:41 final size:41
Alignment explanation
Indices: 9033329--9033445 Score: 105
Period size: 41 Copynumber: 2.9 Consensus size: 41
9033319 TTGCATAAAA
* *
9033329 CACCGGCATAAAGCCTGCTAGGCA-CAAAGCCTG-A-TACATTT
1 CACCGGCATAAAGCCGGCTAGACATC-AAGCCTGAATTA-A-TT
* *
9033370 CACCGGCATAAAGCCTGCTAGACATCAAGTCTGAATTAATT
1 CACCGGCATAAAGCCGGCTAGACATCAAGCCTGAATTAATT
* * * * *
9033411 CATCGGCATCAAGCCGGCTAGGCATTAGGCCTGAA
1 CACCGGCATAAAGCCGGCTAGACATCAAGCCTGAA
9033446 AATCTCAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 59 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCGGCTAGACATCAAGCCTGAATTAATT
Found at i:9041274 original size:41 final size:41
Alignment explanation
Indices: 9041183--9041327 Score: 175
Period size: 41 Copynumber: 3.6 Consensus size: 41
9041173 AAGCTAAGCG
* **** *
9041183 CCTAGCAGGCTAAATGCCGGTGA-ATTTTTCAGACTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
9041223 TCTAGCAGGCTAAGTGCCGGTGATCGGAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
9041264 CCTAGCAGGCTACGTGCCGGTGATATGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
9041305 CCTAGCAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
9041328 ATATGTTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 21 0.24
41 67 0.76
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
Found at i:9042529 original size:45 final size:45
Alignment explanation
Indices: 9042465--9042554 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9042455 AAAGCTAAAA
*
9042465 CTAAACTAATGTGTGTCTTCCTCCTCCTCAGCCAAATTTGGTTGT
1 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
9042510 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
1 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
9042555 TTTAGGCTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (45 bp):
CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
Found at i:9043197 original size:23 final size:23
Alignment explanation
Indices: 9043167--9043213 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9043157 GTAACGTGAT
9043167 TGGTTAAGAGTCAACTGAAAAGA
1 TGGTTAAGAGTCAACTGAAAAGA
9043190 TGGTTAAGAGTCAACTGAAAAGA
1 TGGTTAAGAGTCAACTGAAAAGA
9043213 T
1 T
9043214 TGACTGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.23
Consensus pattern (23 bp):
TGGTTAAGAGTCAACTGAAAAGA
Found at i:9048387 original size:228 final size:228
Alignment explanation
Indices: 9047990--9048876 Score: 1161
Period size: 228 Copynumber: 3.9 Consensus size: 228
9047980 GACACAACAG
* * * * *
9047990 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
* *
9048055 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * *
9048120 TCTTCGCCGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
9048185 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
196 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * *
9048218 ATGCAGATCTTCGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCTGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
* * *
9048283 AATTGATAATGTCAAGGCTAAGATCCAGGATAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * *
9048348 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
*
9048413 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
196 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * *
9048446 ATGCAAATATTTGTCAAAACCCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
* *
9048511 AATTGATAATATCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * *
9048576 TCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCA-AAAGGAGTC
*
9048640 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 TACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * * * *
9048674 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTT-GAGGTGGAAAGCTCCGACA
* * * * * * *
9048738 CAATTGATAACGTTAAGGCCAAGATTCAGGAC-AAGGAGGGCATCCCACCTGACCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGG-ATCCCTCCTGACCAACAGAGGCT
* * * * * * * * *
9048801 TAATTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAG
129 T-ATCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAG
9048866 TCTACCCTCCA
193 TCTACCCTCCA
9048877 TTTGGTGTTG
Statistics
Matches: 577, Mismatches: 77, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
227 14 0.02
228 560 0.97
229 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (228 bp):
ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:9048960 original size:228 final size:227
Alignment explanation
Indices: 9047990--9049116 Score: 1120
Period size: 228 Copynumber: 4.9 Consensus size: 227
9047980 GACACAACAG
* * * * * * * * *
9047990 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTGGAAAGCTCTGACAC
* *
9048055 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGG-AGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * * *
9048120 TCTTCGCCGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
9048185 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
195 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
9048218 ATGCAGATCTTCGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTGGAAAGCTCTGACAC
* * *
9048283 AATTGATAATGTCAAGGCTAAGATCCAGGATAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGA-CAAGGAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * *
9048348 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
*
9048413 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
195 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * *
9048446 ATGCAAATATTTGTCAAAACCCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTGGAAAGCTCTGACAC
* * * *
9048511 AATTGATAATATCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGAC-AAGGAGGGATCCCTCCTGACCAACAGAGGCTTA
* *
9048576 TCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCA-AAAGGAGTC
*
9048640 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
194 TACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * * *
9048674 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTT-GAAGTGGAAAGCTCTGACA
* * * * *
9048738 CAATTGATAACGTTAAGGCCAAGATTCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGG-ATCCCTCCTGACCAACAGAGGCTT
* * * * * * * *
9048802 AATTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGT
129 -ATCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGT
* * * *
9048867 CTACCCTCCA-TTTGGT-GTTGCGTCTTC-GTGGTGGT
193 CTACCCTCCACCTT-GTCCTT-CGTC-TCAGGGGTGGC
* * * * * * * * * *
9048902 ATGCAAATTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATA
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTT-GAAGTGGAAAGCTCTGACA
* * * * * * * * *
9048966 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCC-CCGGATCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGG-A-TCCCTCCTGACCAACAGAGGCT
* ** * * * * * * * *
9049029 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACTCTAGCTGACTACAATATCCAGAAGGAG
128 T-ATCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAG
* * *
9049094 TCTACTCTGCATCTTGTCCTTCG
192 TCTACCCTCCACCTTGTCCTTCG
9049117 CCTCCGTGGT
Statistics
Matches: 762, Mismatches: 124, Indels: 26
0.84 0.14 0.03
Matches are distributed among these distances:
227 18 0.02
228 729 0.96
229 15 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (227 bp):
ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTGGAAAGCTCTGACAC
AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGGATCCCTCCTGACCAACAGAGGCTTAT
CTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCTA
CCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:9049037 original size:456 final size:455
Alignment explanation
Indices: 9048020--9049116 Score: 1253
Period size: 456 Copynumber: 2.4 Consensus size: 455
9048010 TCTTACTGGT
* * *
9048020 AAGACCATCACCCTCGAGGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
1 AAGACAATCACCCTTGAAGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
* * * *
9048085 CAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTATCTTCGCCGGGAAACAGCTTGAGGATGGCC
66 CAAGG-AGGGATTCCCCCTGACCAACAGAGGCTTATCTTTGCTGGGAAACAGCTGGAGGATGGCC
* *
9048150 GTACCCTTGCTGACTACAACATCCA-AAAGGAGTCCACCCTCCACCTTGTCCTTCGTCTCAGGGG
130 GAACCCTTGCTGACTACAACATCCAGAAA-GAGTCTACCCTCCACCTTGTCCTTCGTCTCAGGGG
* * * *
9048214 TGGCATGCAGATCTTCGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCTG
194 TGGCATGCAGATCTTCGTAAAAACCCTCACTGGAAAAACAATCACCCTTGAGGTGGAAAGCTCTG
* * *
9048279 ACACAATTGATAATGTCAAGGCTAAGATCCAGGATAAAGAAGGGATCCCTCCTGACCAACAGAGG
259 ACACAATTGATAACGTCAAGGCCAAGATCCAGGATAAAGAAGGGATCCCACCTGACCAACAGAGG
* * * *
9048344 CTTATCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGA
324 CTTATCTTTGCCGGGAAACAACTGGAAGATGGTCGAACCCTTGCAGACTACAACATTCAAAAAGA
* *
9048409 GTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGCATGCAAATATTTGTCAAAACCCTTACTG
389 GTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGCATGCAAATATTTGTCAAAACCCTCACAG
*
9048474 GC
454 GA
*
9048476 AAGACAATCACCCTTGAAGTGGAAAGCTCCGACACAATTGATAATATCAAGGCCAAGATCCAAGA
1 AAGACAATCACCCTTGAAGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
* * * *
9048541 CAAAGAAGG-TATCCCTCCTGACCAACAGAGGCTTATCTTTGCTGGTAAACAACTGGAGGATGGC
66 CAAGGAGGGAT-TCCC-CCTGACCAACAGAGGCTTATCTTTGCTGGGAAACAGCTGGAGGATGGC
* *
9048605 CGCACCCTTGCTGACTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCGTCTTAGGGG
129 CGAACCCTTGCTGACTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCGTCTCAGGGG
* * * * * *
9048670 TGGCATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCT
194 TGGCATGCAGATCTTCGTAAAAACCCTCACTGGAAAAACAATCACCCTT-GAGGTGGAAAGCTCT
* * * * * *
9048734 GATACAATTGATAACGTTAAGGCCAAGATTCAGGA-CAAGGAGGGCATCCCACCTGACCAGCAGA
258 GACACAATTGATAACGTCAAGGCCAAGATCCAGGATAAAGAAGGG-ATCCCACCTGACCAACAGA
* * * * *
9048798 GG-TTAATTTTTGCTGGGAAACAGCTTGAAGATGG-CAGAACCCTTGCAGACTATAACATTCAAA
322 GGCTT-ATCTTTGCCGGGAAACAACTGGAAGATGGTC-GAACCCTTGCAGACTACAACATTCAAA
* * * * * * *
9048861 AGGAGTCTACCCTCCA-TTTGGTG-TTGCGTCTTC-GTGGTGGTATGCAAATTTTTGTGAAGACC
385 AAGAGTCTACCCTCCACCTT-GTGCTT-CGTC-TCAGGGGTGGCATGCAAATATTTGTCAAAACC
9048923 CTCACAGGA
447 CTCACAGGA
* * * * * * * * * * * * * *
9048932 AAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATACGATTGACAATGTAAAAGCAAAGATTCAGG
1 AAGACAATCACCCTT-GAAGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAG
* * * * * *
9048996 ACAAGGAGGGAATTCCCCCGGATCAGCAGAGG-TTGATCTTTGCTGGGAAGCAGTTGGAGGACGG
65 ACAAGGAGGG-ATTCCCCCTGACCAACAGAGGCTT-ATCTTTGCTGGGAAACAGCTGGAGGATGG
* * * * * * * *
9049060 TCGAACTCTAGCTGACTACAATATCCAGAAGGAGTCTACTCTGCATCTTGTCCTTCG
128 CCGAACCCTTGCTGACTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCG
9049117 CCTCCGTGGT
Statistics
Matches: 540, Mismatches: 87, Indels: 28
0.82 0.13 0.04
Matches are distributed among these distances:
454 1 0.00
455 29 0.05
456 500 0.93
457 9 0.02
458 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (455 bp):
AAGACAATCACCCTTGAAGTGGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
CAAGGAGGGATTCCCCCTGACCAACAGAGGCTTATCTTTGCTGGGAAACAGCTGGAGGATGGCCG
AACCCTTGCTGACTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCGTCTCAGGGGTG
GCATGCAGATCTTCGTAAAAACCCTCACTGGAAAAACAATCACCCTTGAGGTGGAAAGCTCTGAC
ACAATTGATAACGTCAAGGCCAAGATCCAGGATAAAGAAGGGATCCCACCTGACCAACAGAGGCT
TATCTTTGCCGGGAAACAACTGGAAGATGGTCGAACCCTTGCAGACTACAACATTCAAAAAGAGT
CTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGCATGCAAATATTTGTCAAAACCCTCACAGGA
Found at i:9049285 original size:43 final size:43
Alignment explanation
Indices: 9049224--9049311 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
9049214 CAAAACCTTC
*
9049224 TATTAGTTGAAGGTCCTTGTGTTTTTTATTTTTAAGGTAATGA
1 TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
*
9049267 TATTAGTTGAAGATCCTTGTGTTTTTTGTTTTTAAGGTAATGA
1 TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
9049310 TA
1 TA
9049312 CTTTGGTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (43 bp):
TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
Found at i:9050995 original size:9 final size:9
Alignment explanation
Indices: 9050981--9051012 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9050971 CCATTTGTTC
9050981 TTGCATCTG
1 TTGCATCTG
9050990 TTGCATCTG
1 TTGCATCTG
9050999 TTGCATC-G
1 TTGCATCTG
9051007 TTGCAT
1 TTGCAT
9051013 GTCTTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGCATCTG
Found at i:9052394 original size:30 final size:30
Alignment explanation
Indices: 9052358--9052416 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
9052348 ACTTAACAAG
9052358 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
9052388 CAAATGCCTCTAAAATAATAACAAAATTA
1 CAAATGCCTCTAAAATAATAACAAAATTA
9052417 TCAATAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:9054931 original size:3 final size:3
Alignment explanation
Indices: 9054923--9054967 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
9054913 ATAAATTTGA
* * * *
9054923 TAT TAT TAT GAT TAT GAT TAT TAT TAT CAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9054968 ATTTCTATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:9054944 original size:18 final size:18
Alignment explanation
Indices: 9054923--9054967 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
9054913 ATAAATTTGA
*
9054923 TATTATTATGATTA-TGAT
1 TATTATTATCATTAGT-AT
9054941 TATTATTATCATTAGTAT
1 TATTATTATCATTAGTAT
9054959 TATTATTAT
1 TATTATTAT
9054968 ATTTCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (18 bp):
TATTATTATCATTAGTAT
Found at i:9059674 original size:14 final size:14
Alignment explanation
Indices: 9059655--9059684 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9059645 AATTCGAATT
9059655 TCGAGTTAATCGAA
1 TCGAGTTAATCGAA
*
9059669 TCGAGTTATTCGAA
1 TCGAGTTAATCGAA
9059683 TC
1 TC
9059685 AACTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (14 bp):
TCGAGTTAATCGAA
Found at i:9059749 original size:9 final size:9
Alignment explanation
Indices: 9059735--9059762 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9059725 TGAGTTTTCA
9059735 AATTCGAAT
1 AATTCGAAT
9059744 AATTCGAAT
1 AATTCGAAT
9059753 AATTCGAAT
1 AATTCGAAT
9059762 A
1 A
9059763 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9061891 original size:19 final size:19
Alignment explanation
Indices: 9061867--9061903 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9061857 AAATTCCTTA
9061867 TTCCA-TTCGCCAACTAACT
1 TTCCATTTC-CCAACTAACT
9061886 TTCCATTTCCCAACTAAC
1 TTCCATTTCCCAACTAAC
9061904 ATGTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCCATTTCCCAACTAACT
Found at i:9063196 original size:24 final size:24
Alignment explanation
Indices: 9063154--9063205 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9063144 AATCAAAGTC
** *
9063154 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
9063178 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
9063202 AAAT
1 AAAT
9063206 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:9068777 original size:36 final size:37
Alignment explanation
Indices: 9068703--9068794 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 37
9068693 ATATGTGTGG
*
9068703 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAAGTGA
1 AATTGAATTGAA-ATGTGA-TTGAAAATGGAAAAAGTGA
* *
9068741 ATTTTGAATTG-AATGTGATTGAAAGT-GAAAAAGTGA
1 A-ATTGAATTGAAATGTGATTGAAAATGGAAAAAGTGA
9068777 AATTGAATTGAAATGTGA
1 AATTGAATTGAAATGTGA
9068795 AATTGGAGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
35 8 0.17
36 18 0.38
37 9 0.19
38 5 0.11
39 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.23, T:0.30
Consensus pattern (37 bp):
AATTGAATTGAAATGTGATTGAAAATGGAAAAAGTGA
Found at i:9068794 original size:18 final size:18
Alignment explanation
Indices: 9068744--9068799 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
9068734 AAAGTGAATT
9068744 TTGAATTG-AATGTG--A
1 TTGAATTGAAATGTGAAA
* *
9068759 TTGAAAGTGAAAAAGTGAAA
1 TTG-AATTG-AAATGTGAAA
9068779 TTGAATTGAAATGTGAAA
1 TTGAATTGAAATGTGAAA
9068797 TTG
1 TTG
9068800 GAGACCCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 3 0.09
16 4 0.12
18 17 0.53
19 4 0.12
20 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.32
Consensus pattern (18 bp):
TTGAATTGAAATGTGAAA
Found at i:9070131 original size:13 final size:13
Alignment explanation
Indices: 9070115--9070178 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
9070105 TTCTTTATTG
*
9070115 CTTTTGAGAAATG
1 CTTTTGAGAAATA
9070128 CTTTTGA-AAAGTA
1 CTTTTGAGAAA-TA
* *
9070141 CTTTTCAGAAGTA
1 CTTTTGAGAAATA
9070154 CTTTTGAGAAATA
1 CTTTTGAGAAATA
9070167 CTTTTGAGAAAT
1 CTTTTGAGAAAT
9070179 TCGAGTGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 3 0.07
13 39 0.89
14 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAATA
Found at i:9070790 original size:22 final size:21
Alignment explanation
Indices: 9070765--9070808 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
9070755 AAGCATATGA
*
9070765 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
9070787 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
9070808 A
1 A
9070809 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:9072383 original size:12 final size:12
Alignment explanation
Indices: 9072366--9072401 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
9072356 TGCGCAAGAA
9072366 AAAAACTAAAGC
1 AAAAACTAAAGC
9072378 AAAAACTAAAGC
1 AAAAACTAAAGC
9072390 AAAAACTAAAGC
1 AAAAACTAAAGC
9072402 TGATATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAACTAAAGC
Found at i:9073221 original size:14 final size:14
Alignment explanation
Indices: 9073202--9073230 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9073192 CGATAATCTC
9073202 AGGGAAATTTTCTA
1 AGGGAAATTTTCTA
9073216 AGGGAAATTTTCTA
1 AGGGAAATTTTCTA
9073230 A
1 A
9073231 CAGAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (14 bp):
AGGGAAATTTTCTA
Found at i:9074119 original size:25 final size:27
Alignment explanation
Indices: 9074088--9074149 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 27
9074078 ATATTTTTTC
9074088 ATATTAATATAATTATT-TTTAATTA-
1 ATATTAATATAATTATTATTTAATTAT
*
9074113 ATATTAATATAATTTTTATTTAATTAT
1 ATATTAATATAATTATTATTTAATTAT
*
9074140 ATTTTAATAT
1 ATATTAATAT
9074150 TGTGGCATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 16 0.48
26 8 0.24
27 9 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTAATATAATTATTATTTAATTAT
Found at i:9074127 original size:22 final size:19
Alignment explanation
Indices: 9074090--9074136 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
9074080 ATTTTTTCAT
9074090 ATTAATATAATTATTTTTA
1 ATTAATATAATTATTTTTA
9074109 ATTAATATTAATATAATTTTTA
1 ATTAATA-TAAT-T-ATTTTTA
*
9074131 TTTAAT
1 ATTAAT
9074137 TATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 1 0.04
22 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAATATAATTATTTTTA
Found at i:9088423 original size:16 final size:17
Alignment explanation
Indices: 9088402--9088441 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
9088392 ATTATCTTAG
9088402 ATTTTTTAGTGT-TTCT
1 ATTTTTTAGTGTATTCT
*
9088418 ATTTTTT-GTGTATTTT
1 ATTTTTTAGTGTATTCT
9088434 ATTTTTTA
1 ATTTTTTA
9088442 ATCAAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (17 bp):
ATTTTTTAGTGTATTCT
Found at i:9104109 original size:23 final size:23
Alignment explanation
Indices: 9104083--9104220 Score: 113
Period size: 23 Copynumber: 5.9 Consensus size: 23
9104073 GGACTCACCA
9104083 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* * *
9104106 CAGC-TCTACGGAGCTTACCATTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
9104129 CAGCTAG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
*
9104154 CAGCTTGGAATGAGCTTACCGTTT
1 CAGCTT-GTATGAGCTTACCGTTT
* *
9104178 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
9104201 CAGCTCG-ATAGAGCTTACCG
1 CAGCTTGTAT-GAGCTTACCG
9104221 ATCATGGCTC
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
22 4 0.04
23 59 0.65
24 7 0.08
25 8 0.09
26 11 0.12
27 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:9104211 original size:72 final size:71
Alignment explanation
Indices: 9104083--9104220 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 71
9104073 GGACTCACCA
*
9104083 CAGCTTGTATGAGCTTACCGTTTCAGCTCTACGGAGCTTACCATTTCAGCTAGATAGAGCTTACC
1 CAGCTTGAATGAGCTTACCGTTTCAGCTCTACGGAGCTTACCATTTCAGCTAGATAGAGCTTACC
9104148 GTTTAT
66 GTTTAT
* *
9104154 CAGCTTGGAATGAGCTTACCGTTTCAGCTCTACGGAGCTTACCGTTTCAGCTCGATAGAGCTTAC
1 CAGCTT-GAATGAGCTTACCGTTTCAGCTCTACGGAGCTTACCATTTCAGCTAGATAGAGCTTAC
9104219 CG
65 CG
9104221 ATCATGGCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 6 0.10
72 57 0.90
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (71 bp):
CAGCTTGAATGAGCTTACCGTTTCAGCTCTACGGAGCTTACCATTTCAGCTAGATAGAGCTTACC
GTTTAT
Found at i:9111724 original size:21 final size:22
Alignment explanation
Indices: 9111698--9111743 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9111688 CTATCACATG
9111698 TATGTGTATAAAAAT-TATAAA
1 TATGTGTATAAAAATATATAAA
*
9111719 TATGTGTTTAAAAATAATATAAA
1 TATGTGTATAAAAAT-ATATAAA
9111742 TA
1 TA
9111744 ATAAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
23 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (22 bp):
TATGTGTATAAAAATATATAAA
Found at i:9113399 original size:3 final size:3
Alignment explanation
Indices: 9113386--9113621 Score: 82
Period size: 3 Copynumber: 77.0 Consensus size: 3
9113376 TAAGCATTTT
* * *
9113386 TTA TT- TTA TTA TTAA TCA TATA TTT TTA TTA -TA TTTA TT- TATA TTC
1 TTA TTA TTA TTA TT-A TTA T-TA TTA TTA TTA TTA -TTA TTA T-TA TTA
* * *
9113432 TTA TTCA TTA TTA -TA TATA TGTA TACA TTA TT- TTA ATA TGTA CTA
1 TTA TT-A TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA T-TA TTA
* * *
9113477 TTA TT- TTAA GTTA TTA TTA TATA TTA GTA TT- TAA GCTCA TTA TGTA
1 TTA TTA TT-A -TTA TTA TTA T-TA TTA TTA TTA TTA --TTA TTA T-TA
* *
9113523 TTA TGTA TTA TTA -TA TTG TTA TTA TTA TTA TTA TT- TTG TT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
9113566 AAA TTA TTA TTA TTA TTA TTA TCA GTA TTA TAA AT- TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
9113611 TTA TTA -TA TTA
1 TTA TTA TTA TTA
9113622 AGTTTCTTCT
Statistics
Matches: 173, Mismatches: 33, Indels: 54
0.67 0.13 0.21
Matches are distributed among these distances:
2 21 0.12
3 115 0.66
4 33 0.19
5 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:9115336 original size:27 final size:27
Alignment explanation
Indices: 9115306--9115443 Score: 165
Period size: 27 Copynumber: 5.1 Consensus size: 27
9115296 TAATGTGTAG
* * *
9115306 TATTTATAACAGTGTATTAAAATATTA
1 TATTTATAACAGTATATTAAAACAGTA
*
9115333 TA-TTA-ACACAGTATATTTATAACAGTA
1 TATTTATA-ACAGTATA-TTAAAACAGTA
* * * *
9115360 TA-CTAAAACAATATATTAAAATAGTA
1 TATTTATAACAGTATATTAAAACAGTA
9115386 TATTTATAACAGTATATTAAAACAGTA
1 TATTTATAACAGTATATTAAAACAGTA
9115413 TATTTATAACAGTATATTAAAACAGTA
1 TATTTATAACAGTATATTAAAACAGTA
9115440 TATT
1 TATT
9115444 ACATTAAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.22
27 72 0.76
28 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (27 bp):
TATTTATAACAGTATATTAAAACAGTA
Found at i:9115338 original size:13 final size:13
Alignment explanation
Indices: 9115304--9115444 Score: 149
Period size: 13 Copynumber: 10.7 Consensus size: 13
9115294 ATTAATGTGT
*
9115304 AGTAT-TTATAAC
1 AGTATATTAAAAC
* *
9115316 AGTGTATTAAAAT
1 AGTATATTAAAAC
* *
9115329 ATTATATTAACAC
1 AGTATATTAAAAC
*
9115342 AGTATATTTATAAC
1 AGTATA-TTAAAAC
*
9115356 AGTATACTAAAAC
1 AGTATATTAAAAC
* *
9115369 AATATATTAAAAT
1 AGTATATTAAAAC
*
9115382 AGTATATTTATAAC
1 AGTATA-TTAAAAC
9115396 AGTATATTAAAAC
1 AGTATATTAAAAC
*
9115409 AGTATATTTATAAC
1 AGTATA-TTAAAAC
9115423 AGTATATTAAAAC
1 AGTATATTAAAAC
9115436 AGTATATTA
1 AGTATATTA
9115445 CATTAAAATT
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
12 4 0.04
13 66 0.63
14 34 0.33
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
AGTATATTAAAAC
Found at i:9115338 original size:40 final size:39
Alignment explanation
Indices: 9115301--9115444 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 39
9115291 ATAATTAATG
* * *
9115301 TGTAGTATTTATAACAGTGTATTAAAATATTATATTAACACA
1 TGTA-TATTTATAACAGTATATTAAAACAATATATTAA-A-A
*
9115343 -GTATATTTATAACAGTATACTAAAACAATATATTAAAA
1 TGTATATTTATAACAGTATATTAAAACAATATATTAAAA
*
9115381 TAGTATATTTATAACAGTATATTAAAACAGTATATTTATAACA
1 T-GTATATTTATAACAGTATATTAAAACAATATA-TTA-AA-A
*
9115424 -GTATA-TTAAAACAGTATATTA
1 TGTATATTTATAACAGTATATTA
9115445 CATTAAAATT
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 74 0.82
41 11 0.12
42 2 0.02
43 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (39 bp):
TGTATATTTATAACAGTATATTAAAACAATATATTAAAA
Found at i:9116445 original size:18 final size:18
Alignment explanation
Indices: 9116422--9116461 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9116412 TTTTTAAGTA
9116422 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
9116440 AATAAAAATGTTGCAAAG
1 AATAAAAATGTTGCAAAG
9116458 AATA
1 AATA
9116462 CTATACTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (18 bp):
AATAAAAATGTTGCAAAG
Found at i:9117219 original size:7 final size:7
Alignment explanation
Indices: 9117207--9117242 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
9117197 CACGTGGTCG
9117207 GGGAAAT
1 GGGAAAT
9117214 GGGAAAT
1 GGGAAAT
9117221 GGGAAAT
1 GGGAAAT
9117228 GGGAAAT
1 GGGAAAT
*
9117235 GAGAAAT
1 GGGAAAT
9117242 G
1 G
9117243 TAAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (7 bp):
GGGAAAT
Found at i:9119510 original size:9 final size:9
Alignment explanation
Indices: 9119496--9119562 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
9119486 TTTGGTTAAA
*
9119496 AATTAACCT
1 AATTAACCG
*
9119505 AATTAACCA
1 AATTAACCG
9119514 AATTAACCG
1 AATTAACCG
* *
9119523 AATAAATCG
1 AATTAACCG
9119532 AATTAACCG
1 AATTAACCG
*
9119541 AATTACCCG
1 AATTAACCG
9119550 AATTAACCG
1 AATTAACCG
9119559 AATT
1 AATT
9119563 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:9135286 original size:9 final size:9
Alignment explanation
Indices: 9135264--9135297 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9135254 TTATTCATTT
9135264 AATTAATT-
1 AATTAATTA
9135272 AATTAATTA
1 AATTAATTA
*
9135281 AATTAACTA
1 AATTAATTA
9135290 AATTAATT
1 AATTAATT
9135298 TCTCAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:9139115 original size:14 final size:15
Alignment explanation
Indices: 9139088--9139121 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
9139078 CCCAACTAGC
9139088 CCAAATACAACCAAA
1 CCAAATACAACCAAA
9139103 CCAAATA-AACCAAA
1 CCAAATACAACCAAA
9139117 CCAAA
1 CCAAA
9139122 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (15 bp):
CCAAATACAACCAAA
Found at i:9140587 original size:30 final size:29
Alignment explanation
Indices: 9140520--9140589 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
9140510 ATATGTATTT
*
9140520 ATATACAT-TTTTTTACGAATATATATAC
1 ATATACATGTTTTTTACAAATATATATAC
* *
9140548 ATACTTACATGTTTTTTATAAACTTTATATAC
1 ATA--TACATGTTTTTTACAAA-TATATATAC
9140580 ATATACATGT
1 ATATACATGT
9140590 ATATACACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 3 0.09
30 12 0.34
31 9 0.26
32 11 0.31
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (29 bp):
ATATACATGTTTTTTACAAATATATATAC
Found at i:9141180 original size:108 final size:109
Alignment explanation
Indices: 9140980--9141193 Score: 290
Period size: 108 Copynumber: 2.0 Consensus size: 109
9140970 ATATCTTGCA
* * * * *
9140980 TTTGGAAGTTCGAGAAAGCGTGCCCTAATGTGTTGGGGTTCGATTTTTCTTGATCAACTTAATAG
1 TTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGGGGTTCGAATTTTCTCGATCAACTCAATAG
9141045 TCAAATATCCTTTTAAAAATTTCAAAATAAAGCAATGTTTTACG
66 TCAAATATCCTTTTAAAAATTTCAAAATAAAGCAATGTTTTACG
* * * *
9141089 TTTGGAAATTCGAGGAAA-CGTGCCTTAATGTGCTGGGTTTC-AATTTTCTCGTTCGAC-CAGAT
1 TTTGGAAATTCGA-GAAAGCGTGCCCTAATGTGCTGGGGTTCGAATTTTCTCGATCAACTCA-AT
* *
9141151 AGTCGAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTT
64 AGTCAAATATCCTTTTAAAAATTTCAAAATAAAGCAATGTTTT
9141194 GTGCTTGGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 55 0.60
109 32 0.35
110 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (109 bp):
TTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGGGGTTCGAATTTTCTCGATCAACTCAATAG
TCAAATATCCTTTTAAAAATTTCAAAATAAAGCAATGTTTTACG
Found at i:9141682 original size:17 final size:17
Alignment explanation
Indices: 9141660--9141693 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9141650 TAAATTTAAA
9141660 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
9141677 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
9141694 TAGCCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
CGGTAATAACATCAAAT
Found at i:9144959 original size:26 final size:26
Alignment explanation
Indices: 9144924--9144974 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9144914 CAGAGAACCA
9144924 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
*
9144950 TTAATTAGGAAGCTCACAAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
9144975 ATATATCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:9144985 original size:26 final size:26
Alignment explanation
Indices: 9144925--9144985 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
9144915 AGAGAACCAT
*
9144925 TAATCAGGAAGCTCACAAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAGCCTA
*
9144951 TAATTAGGAAGCTCACAAAGAGCC-A
1 TAATCAGGAAGCTCACAAAGAGCCTA
9144976 TATATCAGGA
1 TA-ATCAGGA
9144986 TGCTTATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGCCTA
Found at i:9145093 original size:25 final size:24
Alignment explanation
Indices: 9145065--9145111 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
9145055 TATTAATGGG
9145065 AAGCTCACA-AGAACCATATAACGAA
1 AAGCT-ACAGAGAACCA-ATAACGAA
*
9145090 AAGCTAGAGAGAACCAATAACG
1 AAGCTACAGAGAACCAATAACG
9145112 GGATGCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (24 bp):
AAGCTACAGAGAACCAATAACGAA
Found at i:9145470 original size:5 final size:5
Alignment explanation
Indices: 9145441--9145479 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
9145431 TAAATTTAAC
* *
9145441 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
9145480 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:9146357 original size:19 final size:19
Alignment explanation
Indices: 9146316--9146358 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
9146306 CACACGGCCA
* *
9146316 TGTGGACTGGTTCAGCCCG
1 TGTGGAATGGCTCAGCCCG
* *
9146335 TGTGGAATGGCTCATCCCT
1 TGTGGAATGGCTCAGCCCG
9146354 TGTGG
1 TGTGG
9146359 CTCTTGCAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (19 bp):
TGTGGAATGGCTCAGCCCG
Found at i:9146550 original size:17 final size:17
Alignment explanation
Indices: 9146530--9146562 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9146520 ATATGTTACT
9146530 TTTAGCAATTATCATTG
1 TTTAGCAATTATCATTG
9146547 TTTAGCAATTATCATT
1 TTTAGCAATTATCATT
9146563 AAACTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (17 bp):
TTTAGCAATTATCATTG
Found at i:9148620 original size:64 final size:64
Alignment explanation
Indices: 9148447--9148623 Score: 268
Period size: 64 Copynumber: 2.8 Consensus size: 64
9148437 AGTGTTGTTA
* * * *
9148447 GCCCGTATGGTCT-TAAATCACAAACAAT-AGGTCACACGGCTTAGACACATGCCTGTATCTTTG
1 GCCCGTATGATCTCTAAATCACAAACAGTGA-GTCACACGGCTTGGACACATGCCCGTATCTTTG
*
9148510 GCCCGTGTGATCTCTAAATCACAAACAGTGAGTCACACGGCTTGGACACATGCCCGTATCTTTG
1 GCCCGTATGATCTCTAAATCACAAACAGTGAGTCACACGGCTTGGACACATGCCCGTATCTTTG
* *
9148574 GCCCGTATGATCTCTAAATCACAAACAGTGAGTCACATGGCCTGGACACA
1 GCCCGTATGATCTCTAAATCACAAACAGTGAGTCACACGGCTTGGACACA
9148624 CGCTCGTGTC
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
63 11 0.11
64 92 0.88
65 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (64 bp):
GCCCGTATGATCTCTAAATCACAAACAGTGAGTCACACGGCTTGGACACATGCCCGTATCTTTG
Found at i:9148645 original size:64 final size:64
Alignment explanation
Indices: 9148416--9148653 Score: 234
Period size: 64 Copynumber: 3.8 Consensus size: 64
9148406 GCCGTGTGTC
* * * * *
9148416 TCACATGGCCT-GACACACACCAGTGT-TGTTAGCCCGTATGGTCT-TAAATCACAAACAAT-AG
1 TCACACGGCCTGGACACACGCCAGTATCT-TTAGCCCGTATGATCTCTAAATCACAAACAGTGA-
9148477 G
64 G
* * * * * *
9148478 TCACACGGCTTAGACACATGCCTGTATCTTTGGCCCGTGTGATCTCTAAATCACAAACAGTGAG
1 TCACACGGCCTGGACACACGCCAGTATCTTTAGCCCGTATGATCTCTAAATCACAAACAGTGAG
* * * *
9148542 TCACACGGCTTGGACACATGCCCGTATCTTTGGCCCGTATGATCTCTAAATCACAAACAGTGAG
1 TCACACGGCCTGGACACACGCCAGTATCTTTAGCCCGTATGATCTCTAAATCACAAACAGTGAG
* * * * *
9148606 TCACATGGCCTGGACACACGCTC-GTGTCATTAGCTCGTATGAACTCTA
1 TCACACGGCCTGGACACACGC-CAGTATCTTTAGCCCGTATGATCTCTA
9148654 CACTAATATG
Statistics
Matches: 150, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
62 9 0.06
63 24 0.16
64 115 0.77
65 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (64 bp):
TCACACGGCCTGGACACACGCCAGTATCTTTAGCCCGTATGATCTCTAAATCACAAACAGTGAG
Found at i:9151948 original size:32 final size:29
Alignment explanation
Indices: 9151924--9151998 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 29
9151914 CAAATAAAGG
*
9151924 AAGAAAAAGAAATAGAAAGAAACAAAGAAAA
1 AAGAAAAAGAAAGAGAAAGAAAC-AA-AAAA
* * *
9151955 AACAAAAAAGAAAGGGAAAGAAAGAAAAAA
1 AA-GAAAAAGAAAGAGAAAGAAACAAAAAA
9151985 AAGAAAAAGAAAGA
1 AAGAAAAAGAAAGA
9151999 AGGGGACGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 10 0.27
30 6 0.16
31 4 0.11
32 17 0.46
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.01
Consensus pattern (29 bp):
AAGAAAAAGAAAGAGAAAGAAACAAAAAA
Found at i:9151987 original size:19 final size:20
Alignment explanation
Indices: 9151919--9151999 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
9151909 AATAACAAAT
* * *
9151919 AAAGGAAGAAAAAGAAATAG
1 AAAGAAAGAAAAAGAAAGAA
* * *
9151939 AAAGAAACAAAGAAAAAACAAA
1 AAAGAAAGAAA-AAGAAA-GAA
**
9151961 AAAGAAAGGGAAAGAAAGAA
1 AAAGAAAGAAAAAGAAAGAA
9151981 AAA-AAAGAAAAAGAAAGAA
1 AAAGAAAGAAAAAGAAAGAA
9152000 GGGGACGAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 14 0.30
20 14 0.30
21 10 0.21
22 9 0.19
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (20 bp):
AAAGAAAGAAAAAGAAAGAA
Found at i:9151988 original size:23 final size:24
Alignment explanation
Indices: 9151947--9151999 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
9151937 AGAAAGAAAC
**
9151947 AAAGAAAAAACAAAAAAGAAAGGG
1 AAAGAAAAAACAAAAAAGAAAAAG
*
9151971 AAAGAAAGAA-AAAAAAGAAAAAG
1 AAAGAAAAAACAAAAAAGAAAAAG
9151994 AAAGAA
1 AAAGAA
9152000 GGGGACGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (24 bp):
AAAGAAAAAACAAAAAAGAAAAAG
Found at i:9153317 original size:24 final size:24
Alignment explanation
Indices: 9153254--9153305 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
9153244 TTTCTAGAAA
* *
9153254 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
9153278 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
9153302 ATTT
1 ATTT
9153306 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:9153657 original size:39 final size:40
Alignment explanation
Indices: 9153588--9153678 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
9153578 ATTATAAAAT
* *
9153588 AGTATAAAAAATTTTGAGGGAATAGAAAAAA-TTATGAGG
1 AGTACAAAAAATTTTGAGGGAAGAGAAAAAATTTATGAGG
* *
9153627 GGTAACAAAAAATTTTGA-GGAAGA-ATAAAAATTTCTGAGG
1 AGT-ACAAAAAATTTTGAGGGAAGAGA-AAAAATTTATGAGG
9153667 AGTACAAAAAAT
1 AGTACAAAAAAT
9153679 CATGAGATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 1 0.02
39 21 0.48
40 22 0.50
ACGTcount: A:0.52, C:0.03, G:0.21, T:0.24
Consensus pattern (40 bp):
AGTACAAAAAATTTTGAGGGAAGAGAAAAAATTTATGAGG
Found at i:9153676 original size:20 final size:19
Alignment explanation
Indices: 9153588--9153678 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 19
9153578 ATTATAAAAT
*
9153588 AGTATAAAAAATTTTGAGGG
1 AGTACAAAAAATTTTGA-GG
* * *
9153608 AATAGAAAAAATTATGAGG
1 AGTACAAAAAATTTTGAGG
*
9153627 GGTAACAAAAAATTTTGAGG
1 AGT-ACAAAAAATTTTGAGG
9153647 AAG-A-ATAAAAATTTCTGAGG
1 -AGTACA-AAAAATTT-TGAGG
9153667 AGTACAAAAAAT
1 AGTACAAAAAAT
9153679 CATGAGATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.02
19 14 0.25
20 40 0.70
21 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.21, T:0.24
Consensus pattern (19 bp):
AGTACAAAAAATTTTGAGG
Found at i:9155711 original size:17 final size:18
Alignment explanation
Indices: 9155685--9155723 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9155675 GCACCTGTGG
9155685 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
9155701 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
9155719 AAAAT
1 AAAAT
9155724 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:9155900 original size:15 final size:15
Alignment explanation
Indices: 9155880--9155910 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9155870 AAAACAATAT
9155880 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9155895 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9155910 A
1 A
9155911 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:9159282 original size:15 final size:15
Alignment explanation
Indices: 9159272--9159301 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9159262 TCCCTTCTTG
9159272 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
9159287 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
9159302 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:9160069 original size:17 final size:18
Alignment explanation
Indices: 9160043--9160081 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9160033 CAAATTGTGG
9160043 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
9160059 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
9160077 AAAAT
1 AAAAT
9160082 CAAAAGCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:9160259 original size:15 final size:15
Alignment explanation
Indices: 9160239--9160269 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9160229 AAAACAATAT
9160239 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9160254 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9160269 A
1 A
9160270 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:9161416 original size:29 final size:29
Alignment explanation
Indices: 9161382--9161440 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9161372 AGAACATATC
9161382 TTTTCTATTATCTCATCTTTAGAAAAGAG
1 TTTTCTATTATCTCATCTTTAGAAAAGAG
9161411 TTTTCTATTATCTCATCTTTAGAAAAGAG
1 TTTTCTATTATCTCATCTTTAGAAAAGAG
9161440 T
1 T
9161441 GAGCAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (29 bp):
TTTTCTATTATCTCATCTTTAGAAAAGAG
Found at i:9162894 original size:40 final size:40
Alignment explanation
Indices: 9162822--9162918 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 40
9162812 TGGCGTTTGG
*
9162822 ACAACAAACGCCGCTAAAAATTGAACACTAGCGGCGA-ATCT
1 ACAA-AAACGCCGCTAAAAATCGAACACTAGCGGC-ACATCT
* * *
9162863 ACAAAAACGCCGCTAAAGATCGAGA-ATTAGCGGCACATTT
1 ACAAAAACGCCGCTAAAAATCGA-ACACTAGCGGCACATCT
**
9162903 AGGAAAACGCCGCTAA
1 ACAAAAACGCCGCTAA
9162919 TAATAAGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 42 0.88
41 5 0.10
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (40 bp):
ACAAAAACGCCGCTAAAAATCGAACACTAGCGGCACATCT
Found at i:9163118 original size:41 final size:41
Alignment explanation
Indices: 9163002--9163118 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 41
9162992 TTTGGACCTG
* * *
9163002 TAGCGGCGTTTTTTGAAAAGTGCCGCTAATGCTCCTGCCTT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCTTGCCTT
* * *
9163043 TAGCGGCATTTTTTAAAAAGCGCCGCTAATGATCTTGTCTT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCTTGCCTT
* *
9163084 TAGCGGCGTTTTGTGAAAAGCGTCGCTAATGATCT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCT
9163119 GGACGTTAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (41 bp):
TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCTTGCCTT
Found at i:9163128 original size:41 final size:40
Alignment explanation
Indices: 9163002--9163138 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 40
9162992 TTTGGACCTG
* * *
9163002 TAGCGGCGTTTTTTGAAAAGTGCCGCTAATGCTCCTGCCTT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGAT-CTGACTT
* * *
9163043 TAGCGGCATTTTTTAAAAAGCGCCGCTAATGATCTTGTCTT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATC-TGACTT
* * *
9163084 TAGCGGCGTTTTGTGAAAAGCGTCGCTAATGATCTGGACGT
1 TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCT-GACTT
* *
9163125 TAGCAGTGTTTTTT
1 TAGCGGCGTTTTTT
9163139 AGGAAGCGCT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 2 0.03
41 78 0.98
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (40 bp):
TAGCGGCGTTTTTTGAAAAGCGCCGCTAATGATCTGACTT
Found at i:9163139 original size:82 final size:82
Alignment explanation
Indices: 9163002--9163154 Score: 182
Period size: 82 Copynumber: 1.9 Consensus size: 82
9162992 TTTGGACCTG
* * * * * *
9163002 TAGCGGCGTTTTTTGAAAAGTGCCGCTAATGCTCCTGCCTTTAGCGGCATTTTTTAAAAAGCGCC
1 TAGCGGCGTTTTGTGAAAAGCGCCGCTAATGATCCTGACGTTAGCAGCATTTTTTAAAAAGCGCC
9163067 GCTAATGATCTTGTCTT
66 GCTAATGATCTTGTCTT
* ** **
9163084 TAGCGGCGTTTTGTGAAAAGCGTCGCTAATGAT-CTGGACGTTAGCAGTGTTTTTTAGGAAGCGC
1 TAGCGGCGTTTTGTGAAAAGCGCCGCTAATGATCCT-GACGTTAGCAGCATTTTTTAAAAAGCGC
*
9163148 TGCTAAT
65 CGCTAAT
9163155 AGTAATAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
81 2 0.03
82 56 0.97
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (82 bp):
TAGCGGCGTTTTGTGAAAAGCGCCGCTAATGATCCTGACGTTAGCAGCATTTTTTAAAAAGCGCC
GCTAATGATCTTGTCTT
Found at i:9163780 original size:14 final size:15
Alignment explanation
Indices: 9163756--9163784 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9163746 TCTAGAGGTT
9163756 AGACGTTAGGGTTTA
1 AGACGTTAGGGTTTA
9163771 AGAC-TTAGGGTTTA
1 AGACGTTAGGGTTTA
9163785 GGGTTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (15 bp):
AGACGTTAGGGTTTA
Found at i:9164066 original size:7 final size:7
Alignment explanation
Indices: 9164056--9164153 Score: 52
Period size: 7 Copynumber: 13.9 Consensus size: 7
9164046 GGTTTTTTGA
9164056 GTTTGGG
1 GTTTGGG
* *
9164063 GTTTAGT
1 GTTTGGG
*
9164070 TTTTGGG
1 GTTTGGG
*
9164077 GTTAGGG
1 GTTTGGG
*
9164084 GTTTGTG
1 GTTTGGG
9164091 GTTTGGG
1 GTTTGGG
*
9164098 ATTTTGGG
1 -GTTTGGG
*
9164106 ATTTGGG
1 GTTTGGG
* *
9164113 GTTTTGA
1 GTTTGGG
*
9164120 GTTTAGG
1 GTTTGGG
* *
9164127 GTTTAGT
1 GTTTGGG
* *
9164134 GTTCGTG
1 GTTTGGG
*
9164141 GTTAGGG
1 GTTTGGG
9164148 GTTTGG
1 GTTTGG
9164154 AAATTTGGGG
Statistics
Matches: 65, Mismatches: 25, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
7 59 0.91
8 6 0.09
ACGTcount: A:0.08, C:0.01, G:0.44, T:0.47
Consensus pattern (7 bp):
GTTTGGG
Found at i:9164073 original size:21 final size:21
Alignment explanation
Indices: 9164047--9164087 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9164037 GGGATTTTTG
* *
9164047 GTTTTTTGAGTTTGGGGTTTA
1 GTTTTTGGAGTTAGGGGTTTA
*
9164068 GTTTTTGGGGTTAGGGGTTT
1 GTTTTTGGAGTTAGGGGTTT
9164088 GTGGTTTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.39, T:0.54
Consensus pattern (21 bp):
GTTTTTGGAGTTAGGGGTTTA
Found at i:9167791 original size:56 final size:56
Alignment explanation
Indices: 9167697--9167826 Score: 197
Period size: 56 Copynumber: 2.3 Consensus size: 56
9167687 TAAAATTTCT
* * *
9167697 TAACTTATATAATATTAAGATAACTTACATAATATTAAGATAAAATTTCTAATTACA
1 TAACTTATATAATATT-ACATAACTTACATAATATTAAGATAAAATATCGAATTACA
* *
9167754 TAACTTATATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACA
1 TAACTTATATAATATTACATAACTTACATAATATTAAGATAAAATATCGAATTACA
*
9167810 TAACTTATACAATATTA
1 TAACTTATATAATATTA
9167827 AGATAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 51 0.76
57 16 0.24
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.38
Consensus pattern (56 bp):
TAACTTATATAATATTACATAACTTACATAATATTAAGATAAAATATCGAATTACA
Found at i:9167817 original size:37 final size:37
Alignment explanation
Indices: 9167767--9167904 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
9167757 CTTATATAAT
* *
9167767 ATTACATAACTTATATAATGTTAAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
9167804 ATTACATAACTTATACAATATTAAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
9167841 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
9167878 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATACAATATTAAGAT
9167905 TACTTTTATA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (37 bp):
ATTACATAACTTATACAATATTAAGATAAAATATCGA
Found at i:9167936 original size:58 final size:57
Alignment explanation
Indices: 9167849--9168075 Score: 348
Period size: 58 Copynumber: 4.0 Consensus size: 57
9167839 GAATTACATA
*
9167849 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
9167906 ACTTTTATAATATTAAGAATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAG-ATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9167964 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
9168020 ACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTGAGAT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
9168076 AAAATATCGA
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
56 50 0.32
57 50 0.32
58 55 0.35
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:9168062 original size:37 final size:37
Alignment explanation
Indices: 9168012--9168149 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
9168002 CTTATATAAT
* *
9168012 ATTACATAACTTATATAATGTTAAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
9168049 ATTACATAACTTATACAATATTGAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
9168086 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
9168123 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATACAATATTAAGAT
9168150 TACTTTTATA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (37 bp):
ATTACATAACTTATACAATATTAAGATAAAATATCGA
Found at i:9168127 original size:245 final size:244
Alignment explanation
Indices: 9167697--9168387 Score: 1242
Period size: 245 Copynumber: 2.8 Consensus size: 244
9167687 TAAAATTTCT
* *
9167697 TAACTTATATAATATTAAGATAACTTACATAATATTAAGATAAAATTTCTAATTACATAACTTAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
9167762 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
66 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
9167827 AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
131 AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
9167892 ATAATATTAAGATTACTTTTATAATATTAAGAATCAAATTTCGAATTACA
196 ATAATATTAAGATTACTTTTATAATATTAAG-ATCAAATTTCGAATTACA
9167942 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
*
9168007 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTG
66 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
9168072 AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
131 AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
9168137 ATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTACA
196 ATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTACA
* *
9168186 TAACTTATATAATATTACGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
* * *
9168251 ATAA-ATAACATAACTTATACAATGTTAAGATAATATATCGAATTACATAACTTATACAATATTA
66 ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
* * * * *
9168315 AGGTAAAATTTCGAATTACATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
131 AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
9168380 ATAA-ATTA
196 ATAATATTA
9168388 CATAACTTAC
Statistics
Matches: 432, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
242 4 0.01
243 120 0.28
244 85 0.20
245 223 0.52
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (244 bp):
TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
ATAATATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTA
AGATAAAATATCGAATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTAT
ATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTACA
Found at i:9168175 original size:57 final size:57
Alignment explanation
Indices: 9168094--9168316 Score: 315
Period size: 57 Copynumber: 3.9 Consensus size: 57
9168084 GAATTACATA
*
9168094 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9168151 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTACGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
9168208 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA-A-TAACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * * *
9168263 ACTTATACAATGTTAAGATAATATATCGAATTACATAACTTATACAATATTAAG
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
9168317 GTAAAATTTC
Statistics
Matches: 145, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
55 44 0.30
56 2 0.01
57 99 0.68
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:9168308 original size:37 final size:37
Alignment explanation
Indices: 9168258--9168378 Score: 188
Period size: 37 Copynumber: 3.3 Consensus size: 37
9168248 TACATAAATA
* * *
9168258 ACATAACTTATACAATGTTAAGATAATATATCGAATT
1 ACATAACTTATACAATATTAAGATAAAATTTCGAATT
*
9168295 ACATAACTTATACAATATTAAGGTAAAATTTCGAATT
1 ACATAACTTATACAATATTAAGATAAAATTTCGAATT
* *
9168332 ACATAACTTATATAATATTAAGATAAAATTTCTAATT
1 ACATAACTTATACAATATTAAGATAAAATTTCGAATT
9168369 ACATAACTTA
1 ACATAACTTA
9168379 CATAAATTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 77 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (37 bp):
ACATAACTTATACAATATTAAGATAAAATTTCGAATT
Found at i:9168381 original size:9 final size:9
Alignment explanation
Indices: 9168367--9168566 Score: 180
Period size: 9 Copynumber: 22.9 Consensus size: 9
9168357 AAATTTCTAA
9168367 TTACATAAC
1 TTACATAAC
*
9168376 TTACATAAA
1 TTACATAAC
9168385 TTACATAAC
1 TTACATAAC
9168394 TTACATAAC
1 TTACATAAC
*
9168403 TTACATAAA
1 TTACATAAC
*
9168412 TTAAATAAC
1 TTACATAAC
*
9168421 TTGCATAAC
1 TTACATAAC
* *
9168430 GTAAATAAC
1 TTACATAAC
9168439 TTACATAA-
1 TTACATAAC
9168447 -TACATAACC
1 TTACATAA-C
*
9168456 TT-CCTAAC
1 TTACATAAC
* *
9168464 TTACATTAT
1 TTACATAAC
*
9168473 TTAGATAA-
1 TTACATAAC
*
9168481 -TACATAGC
1 TTACATAAC
*
9168489 CTACATAAC
1 TTACATAAC
9168498 TTACATAAC
1 TTACATAAC
*
9168507 TTACATAAA
1 TTACATAAC
*
9168516 TTAAATAAC
1 TTACATAAC
*
9168525 TTCCATAAC
1 TTACATAAC
*
9168534 TCACAT--C
1 TTACATAAC
* *
9168541 ATACACAAC
1 TTACATAAC
9168550 TTACATAAC
1 TTACATAAC
9168559 TTACATAA
1 TTACATAA
9168567 TACATAAAAA
Statistics
Matches: 149, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
7 16 0.11
8 3 0.02
9 129 0.87
10 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:9168524 original size:95 final size:95
Alignment explanation
Indices: 9168386--9168564 Score: 216
Period size: 95 Copynumber: 1.9 Consensus size: 95
9168376 TTACATAAAT
* * ** *
9168386 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACGTAAATAACTTACATAATACA
1 TACATAACCTACATAACTTACATAAATTAAATAAATTAAATAACGTAAATAACTCACATAATACA
* *
9168451 TAACCTT-CCTAACTTACATTATTTAGATAA
66 CAA-CTTACATAACTTACATTATTTAGATAA
* * * * ** *
9168481 TACATAGCCTACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACTCACATCATACA
1 TACATAACCTACATAACTTACATAAATTAAATAAATTAAATAACGTAAATAACTCACATAATACA
9168546 CAACTTACATAACTTACAT
66 CAACTTACATAACTTACAT
9168565 AATACATAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
94 3 0.04
95 66 0.96
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (95 bp):
TACATAACCTACATAACTTACATAAATTAAATAAATTAAATAACGTAAATAACTCACATAATACA
CAACTTACATAACTTACATTATTTAGATAA
Found at i:9168598 original size:104 final size:102
Alignment explanation
Indices: 9168377--9168602 Score: 235
Period size: 104 Copynumber: 2.2 Consensus size: 102
9168367 TTACATAACT
* * *
9168377 TACATAAATTACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACGTAAATAACTTA
1 TACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAAT-ACATA
* * * **
9168442 CATAATACATAACCTTCCTAACTTACATTATTTAGATAA
65 CACAATACATAACCTTCATAAC-TACATAAAATAGATAA
* * *
9168481 TACATAGCCTACATAACTTACATAACTTACATAAATTAAATAACTTCCATAAC-TCACAT-CATA
1 TACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGT-AAATACATA
* *
9168544 CACAACTTACATAA-CTTACATAA-TACATAAAAATATATCA
65 CACAA--TACATAACCTT-CATAACTACAT-AAAATAGATAA
9168584 TATCATAACTTACATAACT
1 TA-CATAACTTACATAACT
9168603 CATTTATAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
102 12 0.12
103 12 0.12
104 77 0.76
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (102 bp):
TACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTCCATAACGTAAATACATAC
ACAATACATAACCTTCATAACTACATAAAATAGATAA
Found at i:9173737 original size:21 final size:21
Alignment explanation
Indices: 9173692--9173750 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
9173682 GTAGAGGCGG
* *
9173692 CAGCGAGGGAAGCA-ACGTCTG
1 CAGCGAGGGAAGCAGA-GGCTA
9173713 CAGCGAGGGAAGCAGAGGCTA
1 CAGCGAGGGAAGCAGAGGCTA
*
9173734 CAGCGAGAGAAGCAGAG
1 CAGCGAGGGAAGCAGAG
9173751 CAGAGCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.41, T:0.05
Consensus pattern (21 bp):
CAGCGAGGGAAGCAGAGGCTA
Found at i:9174120 original size:42 final size:41
Alignment explanation
Indices: 9174061--9174180 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 41
9174051 TAGTTTTTGT
* *
9174061 AAAAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTA
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
* *
9174102 GAAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTA
1 -AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
*
9174144 AGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGC
1 A-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
9174181 ATTTTTATCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 69 0.99
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
Found at i:9174246 original size:43 final size:43
Alignment explanation
Indices: 9174152--9174271 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 43
9174142 TAAGAAAAAA
* * *
9174152 CGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTATCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATCTAAG
* *
9174194 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATCTAAG
*
9174237 CGTCACTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTT
9174272 GTTTGTAAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 27 0.38
43 44 0.62
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (43 bp):
CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATCTAAG
Found at i:9175106 original size:104 final size:105
Alignment explanation
Indices: 9174968--9175157 Score: 242
Period size: 104 Copynumber: 1.8 Consensus size: 105
9174958 CAAATAATTA
* * * * *
9174968 TCATTTTAAAAAGAAAATTAGAAAGTTGAAGCCTAATTATTTGAATAGAAATGAAAATAGTAT-T
1 TCATTTTAAAAAGAAAATCAGAAAGTTGAAGCCTAATTATTTCAATAGAAATAAAAATAGCATAA
9175032 AAAATAA-CTCTAGATTTTGAATTCTATTTGAAAAGAAACT
66 AAAATAATC-CTAGATTTTGAATTCTATTTGAAAAGAAACT
* * * * *
9175072 TCATTTTGAATAGAAAATCATG-AAGTTGAGGCCTATTTATTTCATTAGAAATAAAAATAGCATA
1 TCATTTTAAAAAGAAAATCA-GAAAGTTGAAGCCTAATTATTTCAATAGAAATAAAAATAGCATA
*
9175136 AAAAATAATCCTATATTTTGAA
65 AAAAATAATCCTAGATTTTGAA
9175158 GTCCATTTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
104 52 0.72
105 19 0.26
106 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (105 bp):
TCATTTTAAAAAGAAAATCAGAAAGTTGAAGCCTAATTATTTCAATAGAAATAAAAATAGCATAA
AAAATAATCCTAGATTTTGAATTCTATTTGAAAAGAAACT
Done.