Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 75 of 105
Found at i:13094250 original size:20 final size:19
Alignment explanation
Indices: 13094195--13094285 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 19
13094185 AAATAAAAAG
*
13094195 ATAAATATATTAATAGATAA
1 ATAAA-ATAATAATAGATAA
*
13094215 CA-AAAA-AAAAATTAGATAA
1 -ATAAAATAATAA-TAGATAA
*
13094234 ATAAAACTATTAATAGATAA
1 ATAAAA-TAATAATAGATAA
13094254 ATAATAATAATAATA-ATAA
1 ATAA-AATAATAATAGATAA
13094273 AT-AAATAATAATA
1 ATAAAATAATAATA
13094286 TGTATATCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
17 10 0.17
18 5 0.08
19 18 0.30
20 21 0.35
21 6 0.10
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (19 bp):
ATAAAATAATAATAGATAA
Found at i:13094259 original size:23 final size:23
Alignment explanation
Indices: 13094233--13094358 Score: 86
Period size: 23 Copynumber: 5.4 Consensus size: 23
13094223 AAATTAGATA
13094233 AATAA-AACTATTAATAGATAAAT
1 AATAATAA-TATTAATAGATAAAT
* *
13094256 AATAATAATAATAATAAATAAAT
1 AATAATAATATTAATAGATAAAT
* *
13094279 AATAATATGTATATCAACAGATAAAT
1 AATAATA---ATATTAATAGATAAAT
*
13094305 AATAA-AA-ATGAA-A-ATAAA-
1 AATAATAATATTAATAGATAAAT
13094323 AAT-ATATATATTAATAGATAGTAAT
1 AATAATA-ATATTAATAGATA--AAT
13094348 AATAAATAATA
1 AAT-AATAATA
13094359 AGTAACTAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.01
18 4 0.05
19 6 0.07
20 5 0.06
21 5 0.06
22 4 0.05
23 25 0.31
24 4 0.05
25 4 0.05
26 20 0.25
27 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAATATTAATAGATAAAT
Found at i:13094306 original size:43 final size:43
Alignment explanation
Indices: 13094259--13094359 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 43
13094249 GATAAATAAT
* *
13094259 AATAATAATAATAAATAAATAATAATATGTATATCAACAGATA-
1 AATAATAATAATAAA-AAATAAAAATATATATATCAACAGATAG
* * * *
13094302 AATAATAAAAAT-GAAAATAAAAATATATATATTAATAGATAG
1 AATAATAATAATAAAAAATAAAAATATATATATCAACAGATAG
13094344 TAATAATAAATAATAA
1 -AATAAT-AATAATAA
13094360 GTAACTAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
41 23 0.50
42 1 0.02
43 17 0.37
44 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (43 bp):
AATAATAATAATAAAAAATAAAAATATATATATCAACAGATAG
Found at i:13097695 original size:2 final size:2
Alignment explanation
Indices: 13097688--13097720 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13097678 TCAACAGTTT
13097688 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13097721 AATGCAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13103267 original size:2 final size:2
Alignment explanation
Indices: 13103262--13103287 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13103252 AAAAAAATTT
13103262 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13103288 GCTTTGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13103760 original size:20 final size:20
Alignment explanation
Indices: 13103724--13103762 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13103714 TTTGGTTTGA
*
13103724 AAAAATAAAGTACAAAAAAT
1 AAAAATAAAATACAAAAAAT
13103744 AAAAATAAAAATA-AAAAAA
1 AAAAAT-AAAATACAAAAAA
13103763 ACTCAGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAATAAAATACAAAAAAT
Found at i:13104434 original size:38 final size:38
Alignment explanation
Indices: 13104363--13104451 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
13104353 GTGTTTATTC
* * *
13104363 ACAAAAGCCTTAAATGATCATTTAAGGCATTTTTC-CA
1 ACAAATGCCTTAAAAGATAATTTAAGGCATTTTTCTCA
**
13104400 GACAAATGCCTTAAAAGATAATTTAAGGTGTTTTTCTTCA
1 -ACAAATGCCTTAAAAGATAATTTAAGGCATTTTTC-TCA
13104440 A-AAATGCCTTAA
1 ACAAATGCCTTAA
13104452 TTCATCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 41 0.93
39 1 0.02
40 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (38 bp):
ACAAATGCCTTAAAAGATAATTTAAGGCATTTTTCTCA
Found at i:13106217 original size:59 final size:60
Alignment explanation
Indices: 13106090--13106217 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 60
13106080 AATACCCTTC
* * ** ** *
13106090 AATTTTTTGAAGGGTATTATTTAAGGTTTTTTTTTACTAAAAATGTCTTAAATAATCTTT
1 AATTTTTTAAAGGGGATTATTTAAGGTTTTTTAGTACTAAAAACATCTTAAATAATCTCT
* *
13106150 AATATTTTAAAGGGGGTTATTTAAGGTGTTTTTAGT-C-AAAAACATCTTAAATAATCTCT
1 AATTTTTTAAAGGGGATTATTTAAGGT-TTTTTAGTACTAAAAACATCTTAAATAATCTCT
*
13106209 CATTTTTTA
1 AATTTTTTA
13106218 TCAAAAATAC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
59 26 0.46
60 24 0.43
61 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (60 bp):
AATTTTTTAAAGGGGATTATTTAAGGTTTTTTAGTACTAAAAACATCTTAAATAATCTCT
Found at i:13106250 original size:34 final size:35
Alignment explanation
Indices: 13106176--13106250 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 35
13106166 TTATTTAAGG
* *
13106176 TGTTTTTAGTCAAAAACATCTTAAATAATCTCTCA
1 TGTTTTTAGTCAAAAACACCTTAAATAATCTCTAA
* *
13106211 T-TTTTTA-TCAAAAATACCTTAAATAATCTTTAA
1 TGTTTTTAGTCAAAAACACCTTAAATAATCTCTAA
13106244 TGTTTTT
1 TGTTTTT
13106251 TAAAGAGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 23 0.66
34 11 0.31
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (35 bp):
TGTTTTTAGTCAAAAACACCTTAAATAATCTCTAA
Found at i:13107276 original size:11 final size:11
Alignment explanation
Indices: 13107262--13107290 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13107252 ATCATCAAAA
13107262 TATACCATACT
1 TATACCATACT
13107273 TATACCATACT
1 TATACCATACT
13107284 TATACCA
1 TATACCA
13107291 ACACTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (11 bp):
TATACCATACT
Found at i:13107719 original size:61 final size:62
Alignment explanation
Indices: 13107584--13107735 Score: 161
Period size: 61 Copynumber: 2.5 Consensus size: 62
13107574 GTTAAGGTAT
* * * *
13107584 TTTTGACAAAAAATACCTTTAATAATCTCTCATAAAAATTTATTAAAGGGATTATTAAAGGCA
1 TTTTGACCAAAAATGCCTTCAATAATC-CTCATAAAAATTTATGAAAGGGATTATTAAAGGCA
* *
13107647 TTTTTGGCCAAAAATGCCTTCAATAATCC-C-TGAAAAATTT-TGAAATGGATTATTGAAAGTGC
1 -TTTTGACCAAAAATGCCTTCAATAATCCTCAT-AAAAATTTATGAAAGGGATTATT-AAAG-GC
13107709 -
62 A
*
13107709 TTTTGACCAAAAATG-GTTCAATAATCC
1 TTTTGACCAAAAATGCCTTCAATAATCC
13107736 AAAAACACCT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
60 11 0.14
61 27 0.35
62 13 0.17
63 3 0.04
64 23 0.30
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (62 bp):
TTTTGACCAAAAATGCCTTCAATAATCCTCATAAAAATTTATGAAAGGGATTATTAAAGGCA
Found at i:13108023 original size:20 final size:20
Alignment explanation
Indices: 13107998--13108054 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
13107988 TAGCCTAATT
13107998 TCCACCTCCCACCAACTCTC
1 TCCACCTCCCACCAACTCTC
*
13108018 TCCACCTCCCACCAACTCTT
1 TCCACCTCCCACCAACTCTC
*
13108038 TCCACCTCTCACCAACT
1 TCCACCTCCCACCAACT
13108055 TTACAAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.56, G:0.00, T:0.23
Consensus pattern (20 bp):
TCCACCTCCCACCAACTCTC
Found at i:13108665 original size:20 final size:20
Alignment explanation
Indices: 13108640--13108680 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13108630 ATAGAGGATT
13108640 TGAGATTCAATCATTAGTAA
1 TGAGATTCAATCATTAGTAA
13108660 TGAGATTCAATCATTAGTAA
1 TGAGATTCAATCATTAGTAA
13108680 T
1 T
13108681 AGTATCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAGATTCAATCATTAGTAA
Found at i:13112140 original size:32 final size:32
Alignment explanation
Indices: 13112116--13112182 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
13112106 TCAATTAAAT
13112116 AATCAAGCCAGAAA-AAATATAATCAAATAATC
1 AATCAAGCCA-AAAGAAATATAATCAAATAATC
* * *
13112148 AATTAAGTCAAAAGAAATATAATCAAATCATC
1 AATCAAGCCAAAAGAAATATAATCAAATAATC
13112180 AAT
1 AAT
13112183 TAATCACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.22
Consensus pattern (32 bp):
AATCAAGCCAAAAGAAATATAATCAAATAATC
Found at i:13117252 original size:34 final size:33
Alignment explanation
Indices: 13117213--13117285 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
13117203 ATATCTTCAT
*
13117213 TTTTAAGTACTCTTAGTTATTTTA-TT-TTATTTTA
1 TTTTAAGTACTCTTA-TTA-CTTAGTTCTT-TTTTA
*
13117247 TTTTAAGTAGTCTTATTACTTAGTTCTTTTTTA
1 TTTTAAGTACTCTTATTACTTAGTTCTTTTTTA
13117280 TTTTAA
1 TTTTAA
13117286 TTCATGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 3 0.09
33 16 0.46
34 16 0.46
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (33 bp):
TTTTAAGTACTCTTATTACTTAGTTCTTTTTTA
Found at i:13119321 original size:2 final size:2
Alignment explanation
Indices: 13119314--13119338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13119304 TCTATATTAC
13119314 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13119339 AATCTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13120104 original size:20 final size:21
Alignment explanation
Indices: 13120060--13120105 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
13120050 TATTTTAATC
13120060 ATATTATAACGTATACAAAAT
1 ATATTATAACGTATACAAAAT
*
13120081 -TATTATAA-GTA-ACATAAGT
1 ATATTATAACGTATACA-AAAT
13120100 ATATTA
1 ATATTA
13120106 ATTTGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 3 0.14
19 6 0.27
20 13 0.59
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
ATATTATAACGTATACAAAAT
Found at i:13125709 original size:4 final size:4
Alignment explanation
Indices: 13125700--13125754 Score: 69
Period size: 4 Copynumber: 14.0 Consensus size: 4
13125690 AAAATGCAAA
* *
13125700 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAT GAAAT ATAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
13125748 AAA- AAAT
1 AAAT AAAT
13125755 TAACAACAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 6 0.13
4 37 0.80
5 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:13128914 original size:3 final size:3
Alignment explanation
Indices: 13128906--13128988 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
13128896 TAATTTTTAC
* * * * *
13128906 ATA ATA ATA ATA ATA ATA AT- ATA TTTA ATA ATTT TTA CGTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA ATA -ATA ATA ATA
* *
13128953 ATA ATA ATA ATA ACA ATA ATA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13128989 TTCAAAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.03
3 58 0.89
4 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:13128965 original size:41 final size:38
Alignment explanation
Indices: 13128881--13128964 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
13128871 AAAATTATAT
13128881 TAATAATATATTCAATAATTTTTACATAATAATAATAA
1 TAATAATATATTCAATAATTTTTACATAATAATAATAA
* * *
13128919 TAATAATATATTTAATAATTTTTACGTAGTAATAATAA
1 TAATAATATATTCAATAATTTTTACATAATAATAATAA
13128957 TAATAATA
1 TAATAATA
13128965 ACAATAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (38 bp):
TAATAATATATTCAATAATTTTTACATAATAATAATAA
Found at i:13128973 original size:38 final size:38
Alignment explanation
Indices: 13128881--13128975 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 38
13128871 AAAATTATAT
*
13128881 TAATAATAT-ATTCAATAATTTTTACATAATAATAATAA
1 TAATAATATAAAT-AATAATTTTTACATAATAATAATAA
** * *
13128919 TAATAATATATTTAATAATTTTTACGTAGTAATAATAA
1 TAATAATATAAATAATAATTTTTACATAATAATAATAA
13128957 TAATAATA-ACAATAATAAT
1 TAATAATATA-AATAATAAT
13128976 AATATTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.02
38 47 0.94
39 2 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (38 bp):
TAATAATATAAATAATAATTTTTACATAATAATAATAA
Found at i:13129849 original size:21 final size:18
Alignment explanation
Indices: 13129824--13129868 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
13129814 CTAAATCAAT
13129824 AAATTAATAGAATATATATAA
1 AAATTAAT--AATATATA-AA
*
13129845 CAATTAATAATATATAAA
1 AAATTAATAATATATAAA
13129863 AAATTA
1 AAATTA
13129869 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
21 7 0.32
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTAATAATATATAAA
Found at i:13135931 original size:62 final size:61
Alignment explanation
Indices: 13135769--13135932 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 61
13135759 TTTCGTAAGA
* *
13135769 GATTATTCAAGGCGTTTTCTAAAC-AAAAACGCCTTGAATAATCCCTAATAAAAAATTAGAGGG
1 GATTATTCAAGGCGTTTT-T--GCTAAAAACGCCTTGAATAATACCTAATAAAAAATTAGAGGG
* * * *
13135832 GATTATTCAAGGCGTTTTTGGTAAAAACACCTTGAATAATTACCTTAT-AAAAATT-GAAGTG
1 GATTATTCAAGGCGTTTTTGCTAAAAACGCCTTGAATAA-TACCTAATAAAAAATTAG-AGGG
* * * *
13135893 GATTATTGAAGGCATTTTTTGCTAGAAACGCATTGAATAA
1 GATTATTCAAGGC-GTTTTTGCTAAAAACGCCTTGAATAA
13135933 CCTCATCAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
60 1 0.01
61 38 0.45
62 28 0.33
63 18 0.21
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (61 bp):
GATTATTCAAGGCGTTTTTGCTAAAAACGCCTTGAATAATACCTAATAAAAAATTAGAGGG
Found at i:13136122 original size:191 final size:185
Alignment explanation
Indices: 13135679--13136152 Score: 467
Period size: 191 Copynumber: 2.5 Consensus size: 185
13135669 AAACACATTA
* * ** * * * *
13135679 AATAATCACCTCATAAAAATTGAAAAGAATTATTGAAGGTGTTTTTTTACTAGAAACACCTTCAA
1 AATAATTACCTTATAAAAATTGAAGTGGATTATTGAAGGTG-TTTTTTGCTAGAAACGCCTTGAA
* * * *
13135744 TAACCCTATTAAATTTTTCGTAAGAGATTATTCAAGGCGTTTTCTAAACAAAAACGCCTTGAATA
65 TAACCC-ATCAAATTTTTTGTAAGAGATTATTCAAGACGTTTTCTAAACAAAAACACCTTGAATA
* * * * * *
13135809 ATCCCTAATAAAAAATTAGAGGGGATTATTCAAGGCGTTTTTGGTAAAAACACCTTG
129 ATCCCTAATAAAAAATTAGAAGAGATTATTCAAGGCGTTTCTGATAAAAAAACCTTC
** *
13135866 AATAATTACCTTATAAAAATTGAAGTGGATTATTGAAGGCATTTTTTGCTAGAAACGCATTGAAT
1 AATAATTACCTTATAAAAATTGAAGTGGATTATTGAAGGTGTTTTTTGCTAGAAACGCCTTGAAT
* ** *
13135931 AACCTCATCAAATTTTTTGTAAGGGATTATTCAAGACAAACG-TTTCTAGCCAAAAACATCTTGA
66 AACC-CATCAAATTTTTTGTAAGAGATTATTCAAG----ACGTTTTCTAAACAAAAACACCTTGA
* *
13135995 ATAATCCCTTATAAAAAATTTA-ATAGAGATTATTCAAGGCGTTTCT-ATAAAAAAATGCTTTC
126 ATAATCCCTAATAAAAAA-TTAGA-AGAGATTATTCAAGGCGTTTCTGATAAAAAAA--CCTTC
** * *
13136057 AATAA-T-CCGTTTATAAAAATTTTTAGT-GATTATTCAAGGTGTTTTTGGCTAGAAACGCCTTG
1 AATAATTACC--TTATAAAAA-TTGAAGTGGATTATTGAAGGTGTTTTTTGCTAGAAACGCCTTG
*
13136119 AATAACCCCATTC-AATTTTTTATAAGAGATTATT
63 AATAA-CCCA-TCAAATTTTTTGTAAGAGATTATT
13136153 GAAGGCATTT
Statistics
Matches: 237, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
186 50 0.21
187 35 0.15
189 45 0.19
190 25 0.11
191 73 0.31
192 9 0.04
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (185 bp):
AATAATTACCTTATAAAAATTGAAGTGGATTATTGAAGGTGTTTTTTGCTAGAAACGCCTTGAAT
AACCCATCAAATTTTTTGTAAGAGATTATTCAAGACGTTTTCTAAACAAAAACACCTTGAATAAT
CCCTAATAAAAAATTAGAAGAGATTATTCAAGGCGTTTCTGATAAAAAAACCTTC
Found at i:13137361 original size:23 final size:26
Alignment explanation
Indices: 13137309--13137361 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
13137299 AAAAATTACT
*
13137309 AATGAAAATAAATAACCTATAAAGATA
1 AATGAAAATAAATAA-CTATAAAGACA
13137336 AATGAAAATAAATAA-TA-AAA-ACA
1 AATGAAAATAAATAACTATAAAGACA
13137359 AAT
1 AAT
13137362 TTTGGCTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 3 0.12
25 2 0.08
27 15 0.60
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (26 bp):
AATGAAAATAAATAACTATAAAGACA
Found at i:13137638 original size:22 final size:21
Alignment explanation
Indices: 13137613--13137671 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
13137603 AATTTTCCAC
13137613 TTGAAATTCAAAGGTTCACAA
1 TTGAAATTCAAAGGTTCACAA
*
13137634 TTTGAAATTC-AAGGATTCATAA
1 -TTGAAATTCAAAGG-TTCACAA
*
13137656 TT-AAATTCAAAAGTTC
1 TTGAAATTCAAAGGTTC
13137672 TTATTTGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 9 0.27
21 9 0.27
22 15 0.45
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (21 bp):
TTGAAATTCAAAGGTTCACAA
Found at i:13137834 original size:17 final size:16
Alignment explanation
Indices: 13137814--13137865 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
13137804 GAATATTCAC
13137814 AAGATTTTCAAATTCGT
1 AAGA-TTTCAAATTCGT
* * *
13137831 AAGAATTGAAGATCCGT
1 AAGATTTCAA-ATTCGT
13137848 AAGATTTCAAATTCGT
1 AAGATTTCAAATTCGT
13137864 AA
1 AA
13137866 TAACTAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (16 bp):
AAGATTTCAAATTCGT
Found at i:13137861 original size:33 final size:34
Alignment explanation
Indices: 13137795--13137865 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
13137785 TATTTGGATT
* *
13137795 GTAAGAATTGAATATTCACAAGATTTTCAAATTC
1 GTAAGAATTGAAGATCCACAAGATTTTCAAATTC
**
13137829 GTAAGAATTGAAGATCCGTAAGA-TTTCAAATTC
1 GTAAGAATTGAAGATCCACAAGATTTTCAAATTC
13137862 GTAA
1 GTAA
13137866 TAACTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (34 bp):
GTAAGAATTGAAGATCCACAAGATTTTCAAATTC
Found at i:13137883 original size:34 final size:33
Alignment explanation
Indices: 13137814--13137888 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
13137804 GAATATTCAC
** *
13137814 AAGATTTTCAAATTCGTAAGAATTGAAGATCCGT
1 AAGA-TTTCAAATTCGTAAGAATAAAAAATCCGT
* *
13137848 AAGATTTCAAATTCGTAATAACTAAAAAATTCGT
1 AAGATTTCAAATTCGTAAGAA-TAAAAAATCCGT
13137882 AAGATTT
1 AAGATTT
13137889 TCAACTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (33 bp):
AAGATTTCAAATTCGTAAGAATAAAAAATCCGT
Found at i:13138950 original size:18 final size:18
Alignment explanation
Indices: 13138916--13138950 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13138906 AAAAACTTAT
**
13138916 TTAAATAATTATCTTAAA
1 TTAAATAATTAGATTAAA
13138934 TTAAATAATTAGATTAA
1 TTAAATAATTAGATTAA
13138951 CTTTAAAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAAATAATTAGATTAAA
Found at i:13139327 original size:13 final size:13
Alignment explanation
Indices: 13139309--13139348 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
13139299 ATATATGAAA
**
13139309 ATTATGATTTAAT
1 ATTATGATAGAAT
13139322 ATTATGATAGAAT
1 ATTATGATAGAAT
*
13139335 ATTATGAAAGAAT
1 ATTATGATAGAAT
13139348 A
1 A
13139349 CTGTAGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTATGATAGAAT
Found at i:13139860 original size:21 final size:21
Alignment explanation
Indices: 13139836--13139917 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 21
13139826 TTCTTAGAGG
*
13139836 TTTACATCCAAATTTTAAAAA
1 TTTACATCAAAATTTTAAAAA
*
13139857 TTTATCTTCAAAAAAGTTTTAAAAA
1 TTTA-CATC--AAAA-TTTTAAAAA
* * *
13139882 TTCACATCAAAATTTTCAAAG
1 TTTACATCAAAATTTTAAAAA
13139903 TTTACATTCAAAATT
1 TTTACA-TCAAAATT
13139918 CAACGACTCG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 16 0.33
22 15 0.31
24 6 0.12
25 12 0.24
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.39
Consensus pattern (21 bp):
TTTACATCAAAATTTTAAAAA
Found at i:13139969 original size:22 final size:21
Alignment explanation
Indices: 13139940--13140273 Score: 138
Period size: 22 Copynumber: 15.0 Consensus size: 21
13139930 TTCAAAAATT
13139940 TTTAAAGATTCACATCTAAAA
1 TTTAAAGATTCACATCTAAAA
** *
13139961 TTCTAAAGATTCTTATTCAAAAAA
1 TT-TAAAGATTCACA-TC-TAAAA
*
13139985 CTTTAAAGATTCACATC-AATAT
1 -TTTAAAGATTCACATCTAA-AA
* *
13140007 TTTATAA-AGTTCTCATCCAAAA
1 TTTA-AAGA-TTCACATCTAAAA
* * *
13140029 TTCAAAAATTCACATTTGAAAAA
1 TTTAAAGATTCACATCT--AAAA
* * *
13140052 TTTTAGAGATGCACATATAAAA
1 -TTTAAAGATTCACATCTAAAA
* *
13140074 TTTTAAAGATTCTCATTTGAAAA
1 -TTTAAAGATTCACATCT-AAAA
* * *
13140097 TTTTATGAATTCACAT-AAAAA
1 TTTAAAG-ATTCACATCTAAAA
* *
13140118 TTTCAAAG-TTCACATCCAAAT
1 TTT-AAAGATTCACATCTAAAA
** *
13140139 TTTAAAGATTTTCATTCAAAAAAA
1 TTTAAAGATTCACA-TC--TAAAA
*
13140163 TTTAGAGATTCACATCTAAAA
1 TTTAAAGATTCACATCTAAAA
* *
13140184 TTTTAAAGATTCATATTCAAGAAA
1 -TTTAAAGATTCACA-TCTA-AAA
*
13140208 TTTCAATGATTCACATCTAAAA
1 TTT-AAAGATTCACATCTAAAA
* *
13140230 TTTCAAAGA-CCACATTCGAAAAA
1 TTT-AAAGATTCACA-TC-TAAAA
**
13140253 TTTTAGTGATTCACATCTAAA
1 -TTTAAAGATTCACATCTAAA
13140274 TTCAAAGGTC
Statistics
Matches: 235, Mismatches: 50, Indels: 55
0.69 0.15 0.16
Matches are distributed among these distances:
20 11 0.05
21 42 0.18
22 80 0.34
23 41 0.17
24 59 0.25
25 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (21 bp):
TTTAAAGATTCACATCTAAAA
Found at i:13139982 original size:46 final size:45
Alignment explanation
Indices: 13139868--13140373 Score: 271
Period size: 46 Copynumber: 11.3 Consensus size: 45
13139858 TTATCTTCAA
* *
13139868 AAAAGTTTTAAAAATTCACA-TC-AAAATTTTCAAAG-TTTACAT-T
1 AAAA-TTTTAAAGATTCACATTCAAAAATTTT-AAAGATTCACATCT
* * * *
13139911 CAAAA-TTCAACGACTCGCATTCAAAAATTTTTAAAGATTCACATCT
1 -AAAATTTTAAAGATTCACATTCAAAAA-TTTTAAAGATTCACATCT
* ** *
13139957 AAAATTCTAAAGATTCTTATTCAAAAAACTTTAAAGATTCACATC-
1 AAAATTTTAAAGATTCACATTC-AAAAATTTTAAAGATTCACATCT
* * * * * *
13140002 AATATTTTATAA-AGTTCTCA-TCCAAAA-TTCAAAAATTCACATTT
1 AAAATTTTA-AAGA-TTCACATTCAAAAATTTTAAAGATTCACATCT
* * * *
13140046 GAAAAATTTTAGAGATGCACA-T-ATAAAATTTTAAAGATTCTCATTT
1 --AAAATTTTAAAGATTCACATTCA-AAAATTTTAAAGATTCACATCT
* *
13140092 GAAAATTTT-ATGAATTCACA-T-AAAAATTTCAAAG-TTCACATC-
1 -AAAATTTTAAAG-ATTCACATTCAAAAATTTTAAAGATTCACATCT
* ** * *
13140134 CAAATTTTAAAGATTTTCATTCAAAAAAATTTAGAGATTCACATCT
1 AAAATTTTAAAGATTCACATTC-AAAAATTTTAAAGATTCACATCT
* * *
13140180 AAAATTTTAAAGATTCATATTCAAGAAATTTCAATGATTCACATCT
1 AAAATTTTAAAGATTCACATTCAA-AAATTTTAAAGATTCACATCT
* * **
13140226 AAAATTTCAAAGA-CCACATTCGAAAAATTTTAGTGATTCACATCT
1 AAAATTTTAAAGATTCACATTC-AAAAATTTTAAAGATTCACATCT
* * * ** ** * *
13140271 -AAA-TTCAAAG-GTCACATTCAAAAAATGCAGGGGTTCACATCC
1 AAAATTTTAAAGATTCACATTCAAAAATTTTAAAGATTCACATCT
* ** *
13140313 AAAATTTCAAAGATTTTCATTTGAAAAATTTTACAA-ATTCACATCT
1 AAAATTTTAAAGATTCACA-TTCAAAAATTTTA-AAGATTCACATCT
* *
13140359 AAAATCTCAAAGATT
1 AAAATTTTAAAGATT
13140374 TGTATTTGAA
Statistics
Matches: 358, Mismatches: 74, Indels: 58
0.73 0.15 0.12
Matches are distributed among these distances:
41 12 0.03
42 29 0.08
43 38 0.11
44 48 0.13
45 88 0.25
46 138 0.39
47 5 0.01
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (45 bp):
AAAATTTTAAAGATTCACATTCAAAAATTTTAAAGATTCACATCT
Found at i:13140077 original size:68 final size:69
Alignment explanation
Indices: 13139934--13140085 Score: 152
Period size: 67 Copynumber: 2.3 Consensus size: 69
13139924 CTCGCATTCA
* * ** *
13139934 AAAATTTT-TAAAGATTCACATCTAAAATTCTAAAGATTCTTATTCAAAAAACTTTAAAGATTCA
1 AAAATTTTATAAAGATTCACATCCAAAATTCTAAAAATTCACATTCAAAAAACTTTAAAGATGCA
13139998 CATC
66 CATC
* * ** * *
13140002 AATATTTTATAAAG-TTCTCATCCAAAATTC-AAAAATTCACATTTGAAAAATTTTAGAGATGCA
1 AAAATTTTATAAAGATTCACATCCAAAATTCTAAAAATTCACATTCAAAAAACTTTAAAGATGCA
13140065 CAT-
66 CATC
*
13140068 ATAAAATTT-TAAAGATTC
1 A-AAATTTTATAAAGATTC
13140086 TCATTTGAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
66 6 0.09
67 36 0.53
68 21 0.31
69 5 0.07
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (69 bp):
AAAATTTTATAAAGATTCACATCCAAAATTCTAAAAATTCACATTCAAAAAACTTTAAAGATGCA
CATC
Found at i:13140098 original size:45 final size:45
Alignment explanation
Indices: 13140025--13140132 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 45
13140015 GTTCTCATCC
*
13140025 AAAA-TTCAAAAATTCACATTTGAAAAATTTTA-GAGATGCACATA
1 AAAATTTCAAAGATTCACATTTGAAAAATTTTATGA-ATGCACATA
* * *
13140069 TAAAATTTTAAAGATTCTCATTTG-AAAATTTTATGAATTCACATA
1 -AAAATTTCAAAGATTCACATTTGAAAAATTTTATGAATGCACATA
13140114 AAAATTTCAAAG-TTCACAT
1 AAAATTTCAAAGATTCACAT
13140133 CCAAATTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 6 0.11
44 11 0.20
45 21 0.38
46 17 0.31
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (45 bp):
AAAATTTCAAAGATTCACATTTGAAAAATTTTATGAATGCACATA
Found at i:13140318 original size:43 final size:45
Alignment explanation
Indices: 13140215--13140325 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 45
13140205 AAATTTCAAT
* * ** *
13140215 GATTCACATCTAAAATTTCAAAGACCACATTCGAAAAATTTTAGT
1 GATTCACATCCAAAATTTCAAAGACCACATTCGAAAAAATGCAGG
* **
13140260 GATTCACAT-CTAAA-TTCAAAGGTCACATTC-AAAAAATGCAGG
1 GATTCACATCCAAAATTTCAAAGACCACATTCGAAAAAATGCAGG
*
13140302 GGTTCACATCCAAAATTTCAAAGA
1 GATTCACATCCAAAATTTCAAAGA
13140326 TTTTCATTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 16 0.30
43 18 0.34
44 10 0.19
45 9 0.17
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (45 bp):
GATTCACATCCAAAATTTCAAAGACCACATTCGAAAAAATGCAGG
Found at i:13140560 original size:22 final size:21
Alignment explanation
Indices: 13140535--13140609 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 21
13140525 ATGTCCAAAG
*
13140535 GTCTTATAAATTGTACTCGAAA
1 GTCTTATAAATTGTGC-CGAAA
* *
13140557 GTCTTATAGATTGTGCCGAAG
1 GTCTTATAAATTGTGCCGAAA
* *
13140578 GTCTT-TAGATTATGCCTGAAA
1 GTCTTATAAATTGTGCC-GAAA
13140599 GTCTTATAAAT
1 GTCTTATAAAT
13140610 CATGTGTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 10 0.22
21 17 0.38
22 18 0.40
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (21 bp):
GTCTTATAAATTGTGCCGAAA
Found at i:13140581 original size:21 final size:21
Alignment explanation
Indices: 13140535--13140606 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
13140525 ATGTCCAAAG
* *
13140535 GTCTTATAAATTGTACTCGAAA
1 GTCTTATAGATTGTGC-CGAAA
*
13140557 GTCTTATAGATTGTGCCGAAG
1 GTCTTATAGATTGTGCCGAAA
*
13140578 GTCTT-TAGATTATGCCTGAAA
1 GTCTTATAGATTGTGCC-GAAA
13140599 GTCTTATA
1 GTCTTATA
13140607 AATCATGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 10 0.23
21 17 0.40
22 16 0.37
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
GTCTTATAGATTGTGCCGAAA
Found at i:13140984 original size:46 final size:46
Alignment explanation
Indices: 13140934--13141029 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
13140924 ACCATGACAT
* *
13140934 AAATGCAATTA-TCAAAACAA-AGAT-TCAAATATTTACCAAATAATGC
1 AAATGCAA-TACTCAAAACAATA-ATCT-AAATAGTCACCAAATAATGC
* *
13140980 AAATGTAATACTCAAAACAATAATCTATATAGTCACCAAATAATGC
1 AAATGCAATACTCAAAACAATAATCTAAATAGTCACCAAATAATGC
13141026 AAAT
1 AAAT
13141030 TCATGGTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.05
46 39 0.91
47 2 0.05
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (46 bp):
AAATGCAATACTCAAAACAATAATCTAAATAGTCACCAAATAATGC
Found at i:13141070 original size:71 final size:71
Alignment explanation
Indices: 13140975--13141145 Score: 216
Period size: 71 Copynumber: 2.4 Consensus size: 71
13140965 TTTACCAAAT
* *
13140975 AATGCAAATGTAATACTCAAAACAATAATCTATATAGTCACCAAATAATGCAAATTCATGGTTCA
1 AATGCAAATGTAATATTCAAAACAATAATCTATATAGTCACCAAATAATGCAAATGCATGGTTCA
* **
13141040 CATGAC
66 AACAAC
* * * * * *
13141046 AATGGAAATGTAAAATTCAAAACAATCATCTATATATTCATCAAATAATGTAAATGCATGGTTCA
1 AATGCAAATGTAATATTCAAAACAATAATCTATATAGTCACCAAATAATGCAAATGCATGGTTCA
13141111 AACAAC
66 AACAAC
* * *
13141117 AATGTAAATGCAATATTCAAAATAATAAT
1 AATGCAAATGTAATATTCAAAACAATAAT
13141146 TTTACTTGCC
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 84 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (71 bp):
AATGCAAATGTAATATTCAAAACAATAATCTATATAGTCACCAAATAATGCAAATGCATGGTTCA
AACAAC
Found at i:13146707 original size:21 final size:21
Alignment explanation
Indices: 13146681--13146721 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13146671 TAAAACAAAG
13146681 TAAAGATA-ATTAAGAAATAAA
1 TAAAGATATA-TAAGAAATAAA
13146702 TAAAGATATATAAGAAATAA
1 TAAAGATATATAAGAAATAA
13146722 TCACTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAGATATATAAGAAATAAA
Found at i:13159543 original size:3 final size:3
Alignment explanation
Indices: 13159535--13159567 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13159525 ATTGTTACGA
13159535 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13159568 ATACTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13160581 original size:3 final size:3
Alignment explanation
Indices: 13160573--13160600 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13160563 CACAAAACTT
13160573 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13160601 AACTTCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13162516 original size:17 final size:17
Alignment explanation
Indices: 13162494--13162552 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
13162484 AAAGTATGCT
13162494 AAAAAATAATAATAGTA
1 AAAAAATAATAATAGTA
* *
13162511 AAAAAATAAAAATAAATCA
1 AAAAAATAATAAT-AGT-A
*
13162530 AAAATAA-AATAAAAGTA
1 AAAA-AATAATAATAGTA
13162547 AAAAAA
1 AAAAAA
13162553 AAATTCTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.06
17 17 0.50
18 4 0.12
19 9 0.26
20 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAATAATAATAGTA
Found at i:13162554 original size:22 final size:22
Alignment explanation
Indices: 13162513--13162556 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13162503 TAATAGTAAA
**
13162513 AAAATAAAAATAAATCAAAAAT
1 AAAATAAAAATAAAAAAAAAAT
*
13162535 AAAATAAAAGTAAAAAAAAAAT
1 AAAATAAAAATAAAAAAAAAAT
13162557 TCTGAACTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAAAAAAAAAT
Found at i:13164088 original size:21 final size:21
Alignment explanation
Indices: 13164064--13164121 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
13164054 TTTTTCTCTC
13164064 AATTCATATTCTCTCTCTAAA
1 AATTCATATTCTCTCTCTAAA
* * *
13164085 AATTTATATTCTTTCTGTAAA
1 AATTCATATTCTCTCTCTAAA
13164106 AATTC--ATTCTCTCTCT
1 AATTCATATTCTCTCTCT
13164122 TTTTCTAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 9 0.29
21 22 0.71
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTCATATTCTCTCTCTAAA
Found at i:13165717 original size:44 final size:44
Alignment explanation
Indices: 13165647--13165766 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 44
13165637 TATGCTCAAT
** *
13165647 AACTTTTG-AAAATTTAAAAAGTTCCTCTAAGTAGAGACTTGAC
1 AACTTTTGAAAAATTTAAATGGCTCCTCTAAGTAGAGACTTGAC
* * *
13165690 AACTTTTGAAAAATTTTAATGGCTCCTCT-AGCAGAGGCTTGAC
1 AACTTTTGAAAAATTTAAATGGCTCCTCTAAGTAGAGACTTGAC
* *
13165733 AATTTTTTAAAAATTTAAATGGCTCCTCTAAGTA
1 AACTTTTGAAAAATTTAAATGGCTCCTCTAAGTA
13165767 AAAGGTCAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 46 0.71
44 19 0.29
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (44 bp):
AACTTTTGAAAAATTTAAATGGCTCCTCTAAGTAGAGACTTGAC
Found at i:13165793 original size:43 final size:43
Alignment explanation
Indices: 13165605--13165794 Score: 118
Period size: 43 Copynumber: 4.4 Consensus size: 43
13165595 GAGGCTCGAT
* * * * * *
13165605 AACTTTTAAAATTTTAAATGG-TCCTTTAAGCATATGCTCAAT
1 AACTTTTGAAATTTTAAATGGCTCCTCTAAGTAAAAGCTCAAC
* ** * * **
13165647 AACTTTTGAAAATTTAAAAAGTTCCTCTAAGT-AGAGACTTGAC
1 AACTTTTGAAATTTTAAATGGCTCCTCTAAGTAAAAG-CTCAAC
* * * **
13165690 AACTTTTGAAAAATTTT-AATGGCTCCTCT-AGCAGAGGCTTGAC
1 AACTTTTG--AAATTTTAAATGGCTCCTCTAAGTAAAAGCTCAAC
* * * *
13165733 AATTTTTTAAAAATTTAAATGGCTCCTCTAAGTAAAAGGTCAAC
1 AA-CTTTTGAAATTTTAAATGGCTCCTCTAAGTAAAAGCTCAAC
13165777 AACTTTTGAAATTTTAAA
1 AACTTTTGAAATTTTAAA
13165795 ATATTCTGCC
Statistics
Matches: 108, Mismatches: 32, Indels: 15
0.70 0.21 0.10
Matches are distributed among these distances:
42 24 0.22
43 54 0.50
44 24 0.22
45 6 0.06
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (43 bp):
AACTTTTGAAATTTTAAATGGCTCCTCTAAGTAAAAGCTCAAC
Found at i:13165890 original size:78 final size:78
Alignment explanation
Indices: 13165754--13165948 Score: 239
Period size: 78 Copynumber: 2.5 Consensus size: 78
13165744 AATTTAAATG
* * * * *
13165754 GCTCCTCTAAGTAAAAGGTCAACAACTTTTGAAATTTTAAAATATTCTGCCTTGAGGACTTACGA
1 GCTCCTCTAAGCAGAAGCTCAACAAC-TTT-AAAATTTAAAATATTATGCCTTGAGGACTTACGA
13165819 ATCTTGACAAAAAAA
64 ATCTTGACAAAAAAA
* * *
13165834 GCTCCTCTAAGCAGAAGCTCAATAACTTTAAAATTTAAAATATTATG-TTTAGAGGACTTATGAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAATTTAAAATATTATGCCTT-GAGGACTTACGAA
* *
13165898 TTTTGACAAAGAAA
65 TCTTGACAAAAAAA
* * *
13165912 GCTCCTCTAAGCAGAGGCTTAACAACTTTACAATTTA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAATTTA
13165949 CATCTCTTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.02
78 73 0.73
79 3 0.03
80 22 0.22
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (78 bp):
GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAATTTAAAATATTATGCCTTGAGGACTTACGAAT
CTTGACAAAAAAA
Found at i:13174168 original size:26 final size:28
Alignment explanation
Indices: 13174109--13174169 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
13174099 TCAAAATGTC
*
13174109 ATGTTTTGAAATTTTTTCTTTTATCTTTT
1 ATGTTTT-TAATTTTTTCTTTTATCTTTT
*
13174138 -T-TTTTTAATTTTTTGTTTT-T-TTTT
1 ATGTTTTTAATTTTTTCTTTTATCTTTT
13174162 ATGTTTTT
1 ATGTTTTT
13174170 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 4 0.14
25 2 0.07
26 17 0.61
27 4 0.14
28 1 0.04
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (28 bp):
ATGTTTTTAATTTTTTCTTTTATCTTTT
Found at i:13177134 original size:19 final size:19
Alignment explanation
Indices: 13177094--13177148 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
13177084 TCCTTTTTTA
* *
13177094 TTTTCGATTTGTTT-TTATT
1 TTTTCTATTT-TTTATTAGT
13177113 TTTTC-ATTTTTTGATTAGT
1 TTTTCTATTTTTT-ATTAGT
13177132 TTTTCTATTTTTTATTA
1 TTTTCTATTTTTTATTA
13177149 AAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 18 0.56
20 7 0.22
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTCTATTTTTTATTAGT
Found at i:13178155 original size:30 final size:30
Alignment explanation
Indices: 13178088--13178155 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
13178078 CTCATTTTTA
*
13178088 TTACTTTT-ATTAATAATTTTAGTTAATTT
1 TTACTTTTAATTAATAATTTTAGTTAATTC
*
13178117 TTGCTTTTAATT-ATAATTTTTAGTTAATTC
1 TTACTTTTAATTAATAA-TTTTAGTTAATTC
*
13178147 TTATTTTTA
1 TTACTTTTA
13178156 TTTTATCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (30 bp):
TTACTTTTAATTAATAATTTTAGTTAATTC
Found at i:13178386 original size:3 final size:3
Alignment explanation
Indices: 13178380--13178408 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13178370 TTCTTTTCAT
13178380 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13178409 TAGTTATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13178561 original size:16 final size:15
Alignment explanation
Indices: 13178542--13178603 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 15
13178532 AAGTTTGCTA
13178542 AAAAAATAATAATAGT
1 AAAAAATAATAATA-T
13178558 AAAAAA-AATAA-AT
1 AAAAAATAATAATAT
13178571 AAAAAATAA-AATA-
1 AAAAAATAATAATAT
13178584 AAAATAA-AA-AATA-
1 AAAA-AATAATAATAT
13178597 AAAAAAT
1 AAAAAAT
13178604 GAACCAGACC
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.05
13 23 0.55
14 6 0.14
15 5 0.12
16 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAAATAATAATAT
Found at i:13178574 original size:29 final size:25
Alignment explanation
Indices: 13178542--13178601 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 25
13178532 AAGTTTGCTA
13178542 AAAAAATAATAATAGTAAAAAAAATAAAT
1 AAAAAATAA-AATA--AAAAAAAA-AAAT
*
13178571 AAAAAATAAAATAAAAATAAAAAAT
1 AAAAAATAAAATAAAAAAAAAAAAT
13178596 AAAAAA
1 AAAAAA
13178602 ATGAACCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 10 0.33
26 7 0.23
28 4 0.13
29 9 0.30
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAAATAAAATAAAAAAAAAAAAT
Found at i:13178576 original size:11 final size:10
Alignment explanation
Indices: 13178558--13178594 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
13178548 TAATAATAGT
13178558 AAAAAAAATA
1 AAAAAAAATA
13178568 AATAAAAAATA
1 AA-AAAAAATA
13178579 AAATAAAAATA
1 AAA-AAAAATA
13178590 AAAAA
1 AAAAA
13178595 TAAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:13178581 original size:18 final size:17
Alignment explanation
Indices: 13178560--13178602 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
13178550 ATAATAGTAA
13178560 AAAAAATAAATAAAAAAT
1 AAAAAA-AAATAAAAAAT
13178578 AAAATAAAAATAAAAAAT
1 AAAA-AAAAATAAAAAAT
13178596 AAAAAAA
1 AAAAAAA
13178603 TGAACCAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 2 0.08
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAAAAAATAAAAAAT
Found at i:13178587 original size:6 final size:6
Alignment explanation
Indices: 13178543--13178600 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
13178533 AGTTTGCTAA
* * *
13178543 AAAAAT AATAAT AGTAAA- AAAAAT AAATA- AAAAAT -AAAAT AAAAAT
1 AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
13178589 AAAAAAT AAAAA
1 -AAAAAT AAAAA
13178601 AATGAACCAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
5 12 0.29
6 21 0.51
7 8 0.20
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:13178602 original size:26 final size:29
Alignment explanation
Indices: 13178540--13178603 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
13178530 AAAAGTTTGC
13178540 TAAAAAAATAATAATAGTAAAAAAAATAAA
1 TAAAAAAATAATAATAG-AAAAAAAATAAA
*
13178570 T-AAAAAATAA-AATA-AAAATAAA-AAA
1 TAAAAAAATAATAATAGAAAAAAAATAAA
13178595 TAAAAAAAT
1 TAAAAAAAT
13178604 GAACCAGACC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.12
26 14 0.44
28 4 0.12
29 9 0.28
30 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (29 bp):
TAAAAAAATAATAATAGAAAAAAAATAAA
Found at i:13183122 original size:41 final size:41
Alignment explanation
Indices: 13183042--13183125 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 41
13183032 ATAAAATTAA
*
13183042 ATCTATTAAAATTATATAAAGAAAAATAAAAAATTTATATT
1 ATCTATTAAAATTATATAAAGAAAAATAAAAAATCTATATT
13183083 ATCTATTAAAATTATAATAAAAGAAAAAT-AAAAA-CTATATT
1 ATCTATTAAAATTAT-AT-AAAGAAAAATAAAAAATCTATATT
13183124 AT
1 AT
13183126 ATACATAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 23 0.57
42 7 0.17
43 10 0.25
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (41 bp):
ATCTATTAAAATTATATAAAGAAAAATAAAAAATCTATATT
Found at i:13183135 original size:42 final size:41
Alignment explanation
Indices: 13183048--13183135 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 41
13183038 TTAAATCTAT
* * *
13183048 TAAAATTATATAAAGAAAAATAAAAAATTTATATTATCTAT
1 TAAAATTATATAAAGAAAAATAAAAAATCTATATTATATAA
13183089 TAAAATTATAATAAAAGAAAAAT-AAAAA-CTATATTATATACA
1 TAAAATTAT-AT-AAAGAAAAATAAAAAATCTATATTATATA-A
13183131 TAAAA
1 TAAAA
13183136 AAATTAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 19 0.46
42 12 0.29
43 10 0.24
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (41 bp):
TAAAATTATATAAAGAAAAATAAAAAATCTATATTATATAA
Found at i:13186790 original size:3 final size:3
Alignment explanation
Indices: 13186784--13186808 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13186774 ACAGCAATGG
13186784 CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA C
13186809 GACAGCAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:13193157 original size:2 final size:2
Alignment explanation
Indices: 13193150--13193178 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13193140 ACTGCCACTG
13193150 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
13193179 CGTCAGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13197574 original size:16 final size:16
Alignment explanation
Indices: 13197541--13197578 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13197531 AACAATGGTG
*
13197541 ATAATAATAAAATAAA
1 ATAATAATAAAAAAAA
13197557 ATAA-AATAAAAAACAA
1 ATAATAATAAAAAA-AA
13197573 ATAATA
1 ATAATA
13197579 TCAACATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAATAATAAAAAAAA
Found at i:13200448 original size:27 final size:24
Alignment explanation
Indices: 13200389--13200451 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 24
13200379 TACTACTGCT
13200389 TCTCTCTCTCTCC-TCTCTTTCCC
1 TCTCTCTCTCTCCTTCTCTTTCCC
*
13200412 T-T-TCTTTCTCCTTCTCACTTTCCC
1 TCTCTCTCTCTCCTTCT--CTTTCCC
13200436 TCCTCTCTCTCTCCTT
1 T-CTCTCTCTCTCCTT
13200452 TTCCCTCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 8 0.25
22 4 0.12
23 1 0.03
24 8 0.25
26 1 0.03
27 10 0.31
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.51
Consensus pattern (24 bp):
TCTCTCTCTCTCCTTCTCTTTCCC
Found at i:13201439 original size:27 final size:27
Alignment explanation
Indices: 13201379--13201441 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
13201369 TATTTTATTA
* **
13201379 AAATCATATTTTATATTTTAATAGTTAG
1 AAATAATA-TTTATATTTTAATAAATAG
13201407 AAATAATATTTATATTTTAATAAATA-
1 AAATAATATTTATATTTTAATAAATAG
13201433 AATATAATA
1 AA-ATAATA
13201442 AATTATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 22 0.71
28 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:13203139 original size:25 final size:25
Alignment explanation
Indices: 13203111--13203163 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
13203101 CACATAAAGC
13203111 ATAAAACATCTAAATATAATATTCA
1 ATAAAACATCTAAATATAATATTCA
13203136 ATAAAACATCTAAATATAATATTCA
1 ATAAAACATCTAAATATAATATTCA
13203161 ATA
1 ATA
13203164 TAATTAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAAAACATCTAAATATAATATTCA
Found at i:13203165 original size:12 final size:12
Alignment explanation
Indices: 13203123--13203167 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13203113 AAAACATCTA
13203123 AATATAATATTC
1 AATATAATATTC
* * *
13203135 AATAAAACATCTA
1 AATATAATAT-TC
13203148 AATATAATATTC
1 AATATAATATTC
13203160 AATATAAT
1 AATATAAT
13203168 TAAAGGAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (12 bp):
AATATAATATTC
Found at i:13204103 original size:3 final size:3
Alignment explanation
Indices: 13204095--13204130 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13204085 ATAAACACAC
13204095 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13204131 ATAAAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13204791 original size:12 final size:11
Alignment explanation
Indices: 13204764--13204789 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13204754 TTTTGGACCA
13204764 TTTTGGAGGAT
1 TTTTGGAGGAT
13204775 TTTTGGAGGAT
1 TTTTGGAGGAT
13204786 TTTT
1 TTTT
13204790 TGTGCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (11 bp):
TTTTGGAGGAT
Found at i:13214488 original size:11 final size:11
Alignment explanation
Indices: 13214473--13214546 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
13214463 AAAAGTTGAA
13214473 AAAAAATTAACC
1 AAAAAATTAA-C
13214485 AAAAAATTAAC
1 AAAAAATTAAC
*
13214496 AAAAAA--ACCC
1 AAAAAATTA-AC
*
13214506 AAAAAATTTGAAG
1 AAAAAA-TT-AAC
*
13214519 AAAAAACTAAC
1 AAAAAATTAAC
13214530 AAAAAATCTAA-
1 AAAAAAT-TAAC
13214541 AAAAAA
1 AAAAAA
13214547 AAAAATCTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
9 1 0.02
10 7 0.14
11 21 0.42
12 14 0.28
13 6 0.12
14 1 0.02
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAAAATTAAC
Found at i:13214488 original size:12 final size:12
Alignment explanation
Indices: 13214473--13214513 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13214463 AAAAGTTGAA
13214473 AAAAAATTAACC
1 AAAAAATTAACC
13214485 AAAAAATTAA-C
1 AAAAAATTAACC
*
13214496 AAAAAA--ACCC
1 AAAAAATTAACC
13214506 AAAAAATT
1 AAAAAATT
13214514 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 1 0.04
10 7 0.28
11 7 0.28
12 10 0.40
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAATTAACC
Found at i:13215003 original size:11 final size:11
Alignment explanation
Indices: 13214985--13215024 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13214975 AATCCTATAA
13214985 GAGATTTGTTT
1 GAGATTTGTTT
* *
13214996 GGGATTTGTTA
1 GAGATTTGTTT
13215007 GAGATTTGTTT
1 GAGATTTGTTT
*
13215018 GAAATTT
1 GAGATTT
13215025 ATCAGATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13215139 original size:52 final size:52
Alignment explanation
Indices: 13215052--13215207 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
13215042 GGACAAAAAG
* *
13215052 ACTTGTAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTTA
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATAGGCAAGTTTA
* *
13215104 ACTTGTAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTTG
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTTA
** * * * * *
13215156 ACTTACAGGAGAAGAATTCTAAGAGTAGAGAGATTCTTAATGGGCAAATTTA
1 ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTTA
13215208 TATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 84 0.93
53 6 0.07
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (52 bp):
ACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTTA
Found at i:13215842 original size:25 final size:25
Alignment explanation
Indices: 13215780--13215844 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
13215770 TGAAGATTCA
**
13215780 AGATATGGAAAGAGCCGATGGTTCG
1 AGATATGGAAAGAGCCGACAGTTCG
* **
13215805 AGACAT-GAGAAGAGTTGACAGTTCG
1 AGATATGGA-AAGAGCCGACAGTTCG
13215830 AGATATGGAAAGAGC
1 AGATATGGAAAGAGC
13215845 TTTGTTTGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 2 0.06
25 27 0.87
26 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (25 bp):
AGATATGGAAAGAGCCGACAGTTCG
Found at i:13216092 original size:11 final size:11
Alignment explanation
Indices: 13216074--13216115 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
13216064 AATCTCATAA
13216074 GAGATTTGTTT
1 GAGATTTGTTT
* *
13216085 GGGATTTGTTC
1 GAGATTTGTTT
13216096 GAGATTTGTTT
1 GAGATTTGTTT
13216107 GAGATTTGT
1 GAGATTTGT
13216116 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13216099 original size:22 final size:22
Alignment explanation
Indices: 13216074--13216115 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13216064 AATCTCATAA
*
13216074 GAGATTTGTTTGGGATTTGTTC
1 GAGATTTGTTTGAGATTTGTTC
13216096 GAGATTTGTTTGAGATTTGT
1 GAGATTTGTTTGAGATTTGT
13216116 CAGATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (22 bp):
GAGATTTGTTTGAGATTTGTTC
Found at i:13216228 original size:52 final size:52
Alignment explanation
Indices: 13216140--13216296 Score: 169
Period size: 52 Copynumber: 3.0 Consensus size: 52
13216130 TGGATAAAAA
* * * *
13216140 GACTTGCAAAAGAAGAATTCTAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
* *
13216192 GACTTGCAAGAGAAAAATTTTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAGAGGATTCTTAATAGGCAAGTTT
* * *
13216244 GACTTACAGGAGAAGAATTCTAAGAGTAGAA-A-GATTCTTAAT-GGACAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAG-A-AAGAGGATTCTTAATAGG-CAAGTTT
13216296 G
1 G
13216297 TATGGTTATA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
51 3 0.03
52 79 0.89
53 7 0.08
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:13217229 original size:15 final size:15
Alignment explanation
Indices: 13217206--13217237 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13217196 ATAATTTAAG
13217206 TACCAAAAACTCAGA
1 TACCAAAAACTCAGA
*
13217221 TACCTAAAACTCAGA
1 TACCAAAAACTCAGA
13217236 TA
1 TA
13217238 ACGCAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (15 bp):
TACCAAAAACTCAGA
Found at i:13219287 original size:10 final size:10
Alignment explanation
Indices: 13219272--13219310 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
13219262 AGATGACGTG
13219272 GTAAAAAAAA
1 GTAAAAAAAA
*
13219282 GT-AAAAAAT
1 GTAAAAAAAA
13219291 GTAAAAAAAA
1 GTAAAAAAAA
13219301 -TAAAAAAAA
1 GTAAAAAAAA
13219310 G
1 G
13219311 ACTGTAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (10 bp):
GTAAAAAAAA
Found at i:13219308 original size:19 final size:19
Alignment explanation
Indices: 13219272--13219307 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13219262 AGATGACGTG
13219272 GTAAAAAAAAGTAAAAAAT
1 GTAAAAAAAAGTAAAAAAT
13219291 GTAAAAAAAA-TAAAAAA
1 GTAAAAAAAAGTAAAAAA
13219308 AAGACTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
GTAAAAAAAAGTAAAAAAT
Found at i:13220614 original size:22 final size:22
Alignment explanation
Indices: 13220581--13220645 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
13220571 TTAATTAATT
13220581 ATTTGATTATTAAATTAATTTTA
1 ATTT-ATTATTAAATTAATTTTA
* *
13220604 ATTTATTATTAAAAATGATTTTA
1 ATTTATTATT-AAATTAATTTTA
** *
13220627 ATTTAAAATTTAATTAATT
1 ATTTATTATTAAATTAATT
13220646 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTTATTATTAAATTAATTTTA
Found at i:13220642 original size:28 final size:25
Alignment explanation
Indices: 13220611--13220671 Score: 61
Period size: 28 Copynumber: 2.3 Consensus size: 25
13220601 TTAATTTATT
*
13220611 ATTAAAAATGATTTTAATTTAAAATTTA
1 ATTAAAAA--ATTTTAA-TTAAAATATA
13220639 ATTAATTAAAATTTTAATTAAAATATA
1 ATTAA--AAAATTTTAATTAAAATATA
13220666 A-TAAAA
1 ATTAAAA
13220672 TTTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 2 0.07
26 3 0.10
27 10 0.33
28 12 0.40
30 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTAAAAAATTTTAATTAAAATATA
Found at i:13220643 original size:16 final size:16
Alignment explanation
Indices: 13220624--13220659 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
13220614 AAAAATGATT
13220624 TTAATTTAAAA-TTTAA
1 TTAA-TTAAAATTTTAA
13220640 TTAATTAAAATTTTAA
1 TTAATTAAAATTTTAA
13220656 TTAA
1 TTAA
13220660 AATATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTAAAATTTTAA
Found at i:13220756 original size:28 final size:27
Alignment explanation
Indices: 13220725--13220791 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
13220715 TAAGTTACTA
13220725 AAAT-TTTTAATTTAATATG-TTTAAATTT
1 AAATATTTTAA-TTAA-ATGATTT-AATTT
*
13220753 AAATATTTTTATTAAATGATTTAATTT
1 AAATATTTTAATTAAATGATTTAATTT
*
13220780 AATTTATTTTAA
1 AA-ATATTTTAA
13220792 ATATAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 10 0.30
28 18 0.55
29 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
AAATATTTTAATTAAATGATTTAATTT
Found at i:13220763 original size:16 final size:16
Alignment explanation
Indices: 13220723--13220763 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
13220713 TTTAAGTTAC
13220723 TAAA-ATTTTT-AATT
1 TAAATATTTTTAAATT
*
13220737 T-AATATGTTTAAATT
1 TAAATATTTTTAAATT
13220752 TAAATATTTTTA
1 TAAATATTTTTA
13220764 TTAAATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 6 0.27
15 5 0.23
16 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TAAATATTTTTAAATT
Found at i:13222141 original size:25 final size:26
Alignment explanation
Indices: 13222107--13222164 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
13222097 ATCGTATATT
13222107 ATTTTT-AATAATAATA-AATGAAAA
1 ATTTTTAAATAATAATATAATGAAAA
* *
13222131 ATTTTTAAATAATTATATTATGAAAA
1 ATTTTTAAATAATAATATAATGAAAA
*
13222157 AGTTTTAA
1 ATTTTTAA
13222165 TGGATTGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 9 0.31
26 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (26 bp):
ATTTTTAAATAATAATATAATGAAAA
Found at i:13222959 original size:63 final size:62
Alignment explanation
Indices: 13222828--13222964 Score: 150
Period size: 63 Copynumber: 2.2 Consensus size: 62
13222818 GCGTTTCTCA
** * *
13222828 CAATTAAGGCATTTGGTTACAAAAATGCCTTAATCGATCTTGTTAATAAATTTATAAAAAGAT
1 CAATTAAGGTGTTTGGTTACAAAAATACCTTAATCGATCTTGTT-ATAAACTTATAAAAAGAT
* * * * **
13222891 TAATTAAGGTGTTTGGTTACACAAATACTTTAATTGATCTTGTT-TACAACTTATAAATTGAAT
1 CAATTAAGGTGTTTGGTTACAAAAATACCTTAATCGATCTTGTTATA-AACTTATAAAAAG-AT
13222954 CAATTAAGGTG
1 CAATTAAGGTG
13222965 ATTCTTCATT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
61 2 0.03
62 10 0.16
63 49 0.80
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (62 bp):
CAATTAAGGTGTTTGGTTACAAAAATACCTTAATCGATCTTGTTATAAACTTATAAAAAGAT
Found at i:13232931 original size:14 final size:15
Alignment explanation
Indices: 13232911--13232952 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
13232901 AAATAATAGA
*
13232911 TTATAAATATTGAAT
1 TTATAAATATTAAAT
*
13232926 TT-TAAATTTTAAAT
1 TTATAAATATTAAAT
13232940 TTGATAAATATTA
1 TT-ATAAATATTA
13232953 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
16 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTATAAATATTAAAT
Found at i:13233860 original size:12 final size:13
Alignment explanation
Indices: 13233836--13233860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13233826 TGTGAATTTT
13233836 TTTAATAAAAAAA
1 TTTAATAAAAAAA
13233849 TTTAATAAAAAA
1 TTTAATAAAAAA
13233861 GTCTAAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAATAAAAAAA
Found at i:13234661 original size:2 final size:2
Alignment explanation
Indices: 13234650--13234678 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13234640 GAAATGAGGC
13234650 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13234679 GCAATTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13235680 original size:13 final size:13
Alignment explanation
Indices: 13235662--13235686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13235652 CCACCGACTG
13235662 AAAATATTATTAC
1 AAAATATTATTAC
13235675 AAAATATTATTA
1 AAAATATTATTA
13235687 TATTTGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTATTAC
Found at i:13235880 original size:3 final size:3
Alignment explanation
Indices: 13235831--13235861 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13235821 TATTTATAAT
*
13235831 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13235862 CTAGTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13238624 original size:29 final size:29
Alignment explanation
Indices: 13238587--13238647 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
13238577 CTAACTATAA
* * *
13238587 ATAAAATTAGCAACCTTTTAATTCAAATT
1 ATAAAATTAACAACATTTGAATTCAAATT
* *
13238616 ATAAAATTAACAAGATTTGAATTTAAATT
1 ATAAAATTAACAACATTTGAATTCAAATT
13238645 ATA
1 ATA
13238648 TTTAATAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (29 bp):
ATAAAATTAACAACATTTGAATTCAAATT
Found at i:13254490 original size:101 final size:102
Alignment explanation
Indices: 13254315--13254610 Score: 522
Period size: 101 Copynumber: 2.9 Consensus size: 102
13254305 TTTATGTCAT
* * * * *
13254315 AATTCTTTTGGTATCCCTATCAAGTAGCTGGAAGCTCATGAGGGCAGTGGTTAGTAATTCTACTG
1 AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGGGTAATGGTTAGTAATTCTACTG
13254380 GTACTACAAAATTAAAATTCAATGATGTTAG-GATCG
66 GTACTACAAAATTAAAATTCAATGATGTTAGAGATCG
13254416 AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGGGTAATGGTTAGTAATTCTACTG
1 AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGGGTAATGGTTAGTAATTCTACTG
13254481 GTACTACAAAATTAAAATTCAATGATGTTAGAGATCG
66 GTACTACAAAATTAAAATTCAATGATGTTAGAGATCG
*
13254518 AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGAGTAATGGTTAGTAATTCTACTG
1 AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGGGTAATGGTTAGTAATTCTACTG
13254583 GTACTACAAAATTAAAATTCAATTGATG
66 GTACTACAAAATTAAAATTCAA-TGATG
13254611 AATTTGCTTT
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
101 91 0.49
102 91 0.49
103 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (102 bp):
AATTCTTTTGGTATCCTTATCAAGTAGCTGGGAGCTCACGAGGGTAATGGTTAGTAATTCTACTG
GTACTACAAAATTAAAATTCAATGATGTTAGAGATCG
Found at i:13257520 original size:2 final size:2
Alignment explanation
Indices: 13257513--13257554 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13257503 TTTCTGGTCT
13257513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13257555 AAGGATAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13258797 original size:182 final size:181
Alignment explanation
Indices: 13258486--13258850 Score: 532
Period size: 182 Copynumber: 2.0 Consensus size: 181
13258476 TTTTGATTTC
* * * *
13258486 TATCCTTAACTTTACTCAAAATTTTCTGATGATTTGTAATTTCAATTTTGATTCTTTAGCGGGAC
1 TATCATTAACTTTACTCAAAAATTTCTGATGATTTGTAATTTCAATTTTCATTCTTTAGCAGGAC
* * * *
13258551 CTTATTTGTTTGCAGTTAATTGCTCGAGTTTGTTATGCTTAATCACTTCCCTTGCAACCCTAATT
66 CTTATTTATTTGCAGTCAATAGCTCGAGTTCGTTATGCTTAATCACTTCCCTTGCAACCCTAATT
* * *
13258616 TGTGAAATTAGGGTTCGACTCTAGGGCAATTGAATTTAATCCATTTTGGCA
131 TATGAAATTAGGATTCGACTCTAGGGCAATTGAATTGAATCCATTTTGGCA
* ** *
13258667 TATCATTAACTTTACTCAAAAATTTCTGATGATTTGTACTTTCAATTTTCATTCTTTAATTATGA
1 TATCATTAACTTTACTCAAAAATTTCTGATGATTTGTAATTTCAATTTTCATTCTTT-AGCAGGA
* * *
13258732 CCTTATTTATTTGCGGTCAATAGCTCGAGTTCGTTATTCTTAATCTCTTCCCTTGCAACCCTAAT
65 CCTTATTTATTTGCAGTCAATAGCTCGAGTTCGTTATGCTTAATCACTTCCCTTGCAACCCTAAT
* * *
13258797 TTATGAAATTAGGATTCGACTCTCGGGCAATTTAATTGAATCCGTTTTGGCA
130 TTATGAAATTAGGATTCGACTCTAGGGCAATTGAATTGAATCCATTTTGGCA
13258849 TA
1 TA
13258851 GCTTTAAGTT
Statistics
Matches: 162, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
181 53 0.33
182 109 0.67
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (181 bp):
TATCATTAACTTTACTCAAAAATTTCTGATGATTTGTAATTTCAATTTTCATTCTTTAGCAGGAC
CTTATTTATTTGCAGTCAATAGCTCGAGTTCGTTATGCTTAATCACTTCCCTTGCAACCCTAATT
TATGAAATTAGGATTCGACTCTAGGGCAATTGAATTGAATCCATTTTGGCA
Found at i:13260714 original size:137 final size:136
Alignment explanation
Indices: 13260464--13260727 Score: 438
Period size: 137 Copynumber: 1.9 Consensus size: 136
13260454 TGAAATGTCT
* *
13260464 TGTTATTTTTGGTAATAGGGCATTGTGAGTAAACCTGGATCGAGCATTTAATAGGTTACAAGTTA
1 TGTTATTTTTGGTAATAGGGCATTGCGAGTAAACCTGGATCAAGCATTTAATAGGTTACAAGTTA
* *
13260529 CAGCAATGACATGGGCACGTCAATATATTAGATGGTCATATGAATTTTGCCTATTATATTTAACT
66 CAACAATGACATGGGCACGTCAATATATTAGATGGTAATATGAATTTTGCCTATTATATTTAACT
13260594 CTTCCA
131 CTTCCA
*
13260600 TGTTATTTTTGGTAATAGTGCATTGCGAGTAAACCTGGATCAAGCATTTAATAGGGTTACAAGTT
1 TGTTATTTTTGGTAATAGGGCATTGCGAGTAAACCTGGATCAAGCATTTAATA-GGTTACAAGTT
*** *
13260665 ACAACAATGACATGGGTGGGTCAATATATTAGATGGTAATATGACTTTTGCCTATTATATTTA
65 ACAACAATGACATGGGCACGTCAATATATTAGATGGTAATATGAATTTTGCCTATTATATTTA
13260728 CCCCTTTTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
136 50 0.42
137 68 0.58
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (136 bp):
TGTTATTTTTGGTAATAGGGCATTGCGAGTAAACCTGGATCAAGCATTTAATAGGTTACAAGTTA
CAACAATGACATGGGCACGTCAATATATTAGATGGTAATATGAATTTTGCCTATTATATTTAACT
CTTCCA
Found at i:13263286 original size:3 final size:3
Alignment explanation
Indices: 13263278--13263309 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13263268 AATACACAAA
13263278 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13263310 ATATGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13269353 original size:21 final size:20
Alignment explanation
Indices: 13269312--13269362 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13269302 TTATTTTGAA
* * *
13269312 AATATTAAAAATTTTATTTT
1 AATATTAAATATATTAATTT
13269332 AATATGTAAATATATTAATTT
1 AATAT-TAAATATATTAATTT
13269353 AA-ATTAAATA
1 AATATTAAATA
13269363 AAAATTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 6 0.22
20 7 0.26
21 14 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATTAAATATATTAATTT
Found at i:13270044 original size:17 final size:18
Alignment explanation
Indices: 13270011--13270044 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13270001 TAATAATTAA
*
13270011 TATTATTTCATATAATAG
1 TATTATTTCAAATAATAG
13270029 TATTATTT-AAATAATA
1 TATTATTTCAAATAATA
13270045 AAAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TATTATTTCAAATAATAG
Found at i:13271110 original size:23 final size:22
Alignment explanation
Indices: 13271084--13271129 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
13271074 TAAAATTAAA
13271084 TATTATAATT-TGATTTTGTTATT
1 TATTA-AATTATGATTTTG-TATT
*
13271107 TATTAATTTATGATTTTGTATT
1 TATTAAATTATGATTTTGTATT
13271129 T
1 T
13271130 GAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (22 bp):
TATTAAATTATGATTTTGTATT
Found at i:13272982 original size:16 final size:17
Alignment explanation
Indices: 13272935--13272983 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
13272925 AAATATAACT
*
13272935 ATTTTAAAT-ATTAATA
1 ATTTTAAATAATAAATA
*
13272951 ATTTTAAA-AATCAATA
1 ATTTTAAATAATAAATA
13272967 A-TTTAAATAATAAATA
1 ATTTTAAATAATAAATA
13272983 A
1 A
13272984 CAATAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTTAAATAATAAATA
Found at i:13277560 original size:52 final size:52
Alignment explanation
Indices: 13277480--13277594 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 52
13277470 TATCTAGGTT
* * *
13277480 TTATGGTAGCTTTGTTTAGAGATATTTCACTAGTATGAGCAATGTACGGGTC
1 TTATGGTAGTTTTATTTAGAGATATTTCACTAATATGAGCAATGTACGGGTC
* *
13277532 TTATGGTAGTTTTATTTAGAGATGTTTCACTAATATGAGCAATGTATGGGTC
1 TTATGGTAGTTTTATTTAGAGATATTTCACTAATATGAGCAATGTACGGGTC
13277584 TTATGGTAGTT
1 TTATGGTAGTT
13277595 ATGTTTATCG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (52 bp):
TTATGGTAGTTTTATTTAGAGATATTTCACTAATATGAGCAATGTACGGGTC
Found at i:13279230 original size:28 final size:30
Alignment explanation
Indices: 13279196--13279256 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13279186 ATATAATGTC
13279196 AAATATTTTT-AAAAA-TATAAAATAATAA
1 AAATATTTTTAAAAAATTATAAAATAATAA
*
13279224 AAATATTTTTAAAAAATTATAAAATATTAA
1 AAATATTTTTAAAAAATTATAAAATAATAA
13279254 AAA
1 AAA
13279257 AATATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.33
29 5 0.17
30 15 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATATTTTTAAAAAATTATAAAATAATAA
Found at i:13285880 original size:3 final size:3
Alignment explanation
Indices: 13285866--13285930 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
13285856 AAAAGAAAAG
* * * *
13285866 ATA ATG ATA ATA ATA AAA ATAA ATA ATA ATA ATG CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
*
13285912 ATAA ATA AAA ATA A-A ATA A
1 AT-A ATA ATA ATA ATA ATA A
13285931 AAAATATGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:13285898 original size:28 final size:28
Alignment explanation
Indices: 13285861--13285925 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
13285851 TCAAGAAAAG
13285861 AAAAGATAATGATAATAATAAAAATAAAT
1 AAAA-ATAATGATAATAATAAAAATAAAT
* * *
13285890 AATAATAATGCTAATAATAATAATAAAT
1 AAAAATAATGATAATAATAAAAATAAAT
13285918 AAAAATAA
1 AAAAATAA
13285926 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (28 bp):
AAAAATAATGATAATAATAAAAATAAAT
Found at i:13286274 original size:43 final size:44
Alignment explanation
Indices: 13286124--13286320 Score: 247
Period size: 44 Copynumber: 4.5 Consensus size: 44
13286114 AAAACTTGAT
* *
13286124 CAAAGCT-CTCTAATCAGAGGCTCAACGACTTTTAAAAAGATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGAC-TTTGAAAAGATAAA
* * *
13286168 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTCGAACAA-ATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAA-AAGATAAA
* * *
13286212 CAAGGCTACTATAAGCAGAGGCTCAACGACTTTGAAAA-ATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGATAAA
* *
13286255 CAAAGCTCCTCTAAACAGAGGCTTAACGACTTTGAAAAGATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGATAAA
* *
13286299 TAAAGCTCCTCTAAGTAGAGGC
1 CAAAGCTCCTCTAAGCAGAGGC
13286321 ACCACAATTT
Statistics
Matches: 131, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
43 40 0.31
44 70 0.53
45 21 0.16
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGATAAA
Found at i:13286319 original size:87 final size:88
Alignment explanation
Indices: 13286124--13286320 Score: 240
Period size: 87 Copynumber: 2.2 Consensus size: 88
13286114 AAAACTTGAT
**
13286124 CAAAGCTCTCTAA-TCAGAGGCTCAACGACTTTTAAAAAGATAAACAAAGCTCCTCTAAGTAGAG
1 CAAAGCTCTCTAAGT-AGAGGCTCAACGACTTTTAAAAAGATAAACAAAGCTCCTCTAAACAGAG
*
13286188 GCTCAATGACTTCGAACAAATAAA
65 GCTCAACGACTTCGAACAAATAAA
* * * *
13286212 CAAGGCTACTATAAGCAGAGGCTCAACGAC-TTTGAAAA-ATAAACAAAGCTCCTCTAAACAGAG
1 CAAAGCT-CTCTAAGTAGAGGCTCAACGACTTTTAAAAAGATAAACAAAGCTCCTCTAAACAGAG
* *
13286275 GCTTAACGACTTTGAA-AAGATAAA
65 GCTCAACGACTTCGAACAA-ATAAA
*
13286299 TAAAGCTCCTCTAAGTAGAGGC
1 CAAAGCT-CTCTAAGTAGAGGC
13286321 ACCACAATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
86 2 0.02
87 58 0.63
88 13 0.14
89 19 0.21
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (88 bp):
CAAAGCTCTCTAAGTAGAGGCTCAACGACTTTTAAAAAGATAAACAAAGCTCCTCTAAACAGAGG
CTCAACGACTTCGAACAAATAAA
Found at i:13286425 original size:84 final size:82
Alignment explanation
Indices: 13286283--13286481 Score: 222
Period size: 84 Copynumber: 2.3 Consensus size: 82
13286273 AGGCTTAACG
* ** *
13286283 ACTTTGAAAAGATAAATAAAGCTCCTCTAAGTAGAGGCACCACAATTTTAAAAATAAATTGCTCA
1 ACTTTGAAAA-ATAAAT-TA-CTCCTCTAAACAGAGGCACCACAATTTTAAAAATAAATTACTCA
* * *
13286348 TCTAAACAGAGG-TACCATA
63 TATAAACAGAGGCAACCACA
13286367 ACATTTG-AAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATTACTC
1 AC-TTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACAA-TTTT--AAAAATAAATTACTC
*
13286431 CTATAAACAGAGGCAACCACA
62 ATATAAACAGAGGCAACCACA
*
13286452 ACTTTGAAAAAAATAAATTGCTCCTCTAAA
1 ACTTTG--AAAAATAAATTACTCCTCTAAA
13286482 TGAGGTAACT
Statistics
Matches: 98, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
81 22 0.22
82 5 0.05
83 6 0.06
84 34 0.35
85 11 0.11
87 20 0.20
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (82 bp):
ACTTTGAAAAATAAATTACTCCTCTAAACAGAGGCACCACAATTTTAAAAATAAATTACTCATAT
AAACAGAGGCAACCACA
Found at i:13286465 original size:44 final size:44
Alignment explanation
Indices: 13286260--13286563 Score: 240
Period size: 44 Copynumber: 7.1 Consensus size: 44
13286250 ATAAACAAAG
* * * *
13286260 CTCCTCTAAACAGAGGCTTA--ACGACTTTG-AAAAGATAAATAAA
1 CTCCTCTAAACAGAGGC-AACCACAACTTTGAAAAAAATAAAT-TA
** * *
13286303 GCTCCTCTAAGTAGAGGC-ACCACAA-TTT--TAAAAATAAATTG
1 -CTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAAATAAATTA
* * *
13286344 CTCATCTAAACAGAGG-TACCATAACATTTG---AAAATAAATTA
1 CTCCTCTAAACAGAGGCAACCACAAC-TTTGAAAAAAATAAATTA
13286385 CTCCTCTAAACAGAGGC-ACCACAACTTTTG-AAAAAATAAATTA
1 CTCCTCTAAACAGAGGCAACCACAAC-TTTGAAAAAAATAAATTA
* *
13286428 CTCCTATAAACAGAGGCAACCACAACTTTGAAAAAAATAAATTG
1 CTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAAATAAATTA
* * * * *
13286472 CTCCTCTAAA-TGAGGTAACTACTGACTTTGAAAAAAAATAAATTG
1 CTCCTCTAAACAGAGGCAACCAC-AACTTTG-AAAAAAATAAATTA
* * * * *
13286517 TTTCTCTAAATAGAGGTAACCACGACTTTGAAAAAAATAAATTA
1 CTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAAATAAATTA
13286561 CTC
1 CTC
13286564 ATCGACAATC
Statistics
Matches: 217, Mismatches: 29, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
40 19 0.09
41 36 0.17
42 13 0.06
43 43 0.20
44 67 0.31
45 29 0.13
46 10 0.05
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (44 bp):
CTCCTCTAAACAGAGGCAACCACAACTTTGAAAAAAATAAATTA
Found at i:13287977 original size:8 final size:8
Alignment explanation
Indices: 13287966--13288029 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
13287956 CATTTTCATA
13287966 TTTTTTAT
1 TTTTTTAT
13287974 TTTTTTAT
1 TTTTTTAT
13287982 TTTTTTCA-
1 TTTTTT-AT
*
13287990 TTTTTCATT
1 TTTTTTA-T
13287999 TTTTTTAT
1 TTTTTTAT
* *
13288007 TTTTCTCAA
1 TTTT-TTAT
*
13288016 TTTTTCAT
1 TTTTTTAT
13288024 TTTTTT
1 TTTTTT
13288030 TTCATTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 1 0.02
8 32 0.70
9 13 0.28
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:13287987 original size:26 final size:25
Alignment explanation
Indices: 13287958--13288029 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 25
13287948 TTTTCTCTCA
*
13287958 TTTTCATATTTTTTATTTTTTTATTT
1 TTTTCA-ATTTTTCATTTTTTTATTT
13287984 TTTTC-ATTTTTCATTTTTTTTATTT
1 TTTTCAATTTTTCA-TTTTTTTATTT
*
13288009 TTCTCAATTTTTCATTTTTTT
1 TTTTCAATTTTTCATTTTTTT
13288030 TTCATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.17
25 22 0.52
26 13 0.31
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCAATTTTTCATTTTTTTATTT
Found at i:13287997 original size:33 final size:33
Alignment explanation
Indices: 13287958--13288027 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
13287948 TTTTCTCTCA
* *
13287958 TTTTCATATTTTTTATTTTT-TTATTTTTTTCAT
1 TTTTCATATTTTTTATTTTTCTCA-ATTTTTCAT
*
13287991 TTTTCATTTTTTTTATTTTTCTCAATTTTTCAT
1 TTTTCATATTTTTTATTTTTCTCAATTTTTCAT
13288024 TTTT
1 TTTT
13288028 TTTTCATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTCATATTTTTTATTTTTCTCAATTTTTCAT
Found at i:13288028 original size:9 final size:9
Alignment explanation
Indices: 13287958--13288043 Score: 74
Period size: 9 Copynumber: 9.8 Consensus size: 9
13287948 TTTTCTCTCA
13287958 TTTTCATATT
1 TTTTCAT-TT
13287968 TTTT-ATTT
1 TTTTCATTT
13287976 TTTT-ATTT
1 TTTTCATTT
13287984 TTTTCA--T
1 TTTTCATTT
13287991 TTTTCATTT
1 TTTTCATTT
*
13288000 TTTTTATTT
1 TTTTCATTT
* *
13288009 TTCTCA-AT
1 TTTTCATTT
13288017 TTTTCATTTTT
1 TTTTCA--TTT
*
13288028 TTTTCATTA
1 TTTTCATTT
13288037 TTTTCAT
1 TTTTCAT
13288044 CATTATTGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 7 0.11
8 20 0.32
9 25 0.40
10 4 0.06
11 7 0.11
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTCATTT
Found at i:13288029 original size:20 final size:20
Alignment explanation
Indices: 13288006--13288043 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13287996 ATTTTTTTTA
*
13288006 TTTTTCTCAAT-TTTTCATT
1 TTTTTTTCAATATTTTCATT
*
13288025 TTTTTTTCATTATTTTCAT
1 TTTTTTTCAATATTTTCAT
13288044 CATTATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTCAATATTTTCATT
Found at i:13288030 original size:26 final size:25
Alignment explanation
Indices: 13287965--13288030 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
13287955 TCATTTTCAT
* *
13287965 ATTTTTTA-TTTTTTTATTTTTTTC
1 ATTTTTCATTTTTTTTATTTTTCTC
13287989 ATTTTTCATTTTTTTTATTTTTCTC
1 ATTTTTCATTTTTTTTATTTTTCTC
13288014 AATTTTTCATTTTTTTT
1 -ATTTTTCATTTTTTTT
13288031 TCATTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 7 0.18
25 15 0.39
26 16 0.42
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.79
Consensus pattern (25 bp):
ATTTTTCATTTTTTTTATTTTTCTC
Found at i:13292892 original size:10 final size:10
Alignment explanation
Indices: 13292877--13292901 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13292867 TGATGTAGAC
13292877 TTTGGTTGCA
1 TTTGGTTGCA
13292887 TTTGGTTGCA
1 TTTGGTTGCA
13292897 TTTGG
1 TTTGG
13292902 CTTTCCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (10 bp):
TTTGGTTGCA
Found at i:13294810 original size:13 final size:13
Alignment explanation
Indices: 13294792--13294817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13294782 ACATAAAAAT
13294792 TTTAAAAAAATAA
1 TTTAAAAAAATAA
13294805 TTTAAAAAAATAA
1 TTTAAAAAAATAA
13294818 AAATACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTTAAAAAAATAA
Done.