Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001400.1 Hibiscus syriacus cultivar Beakdansim tig00002734_pilon, 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: 119835
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1073 original size:60 final size:59
Alignment explanation
Indices: 899--1084 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 59
889 GCATCATATG
* * * *
899 TCCCCAAACTATGACACTCATTTTAAATTAGTCCTTAAACTTTTAAATATTCTAATTTCA
1 TCCCCAAACTATGA-ACTCATTCTAAATTAGTCCTTAAACTTTTAGATCTTCCAATTTCA
** * * *
959 TCATCAAACTATG-ACTCATTCTAAATTAGTCTTTAAAATTTT-GAACATTCCAATTTCA
1 TCCCCAAACTATGAACTCATTCTAAATTAGTCCTTAAACTTTTAGATC-TTCCAATTTCA
* * *
1017 TCCCCAAACTATGAATCTCATTCTAAATTGGTCCCTAAACTTTTAGATCTGCCAATTTCA
1 TCCCCAAACTATGAA-CTCATTCTAAATTAGTCCTTAAACTTTTAGATCTTCCAATTTCA
1077 TCCCCAAA
1 TCCCCAAA
1085 TTCATCCAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
57 1 0.01
58 47 0.45
59 1 0.01
60 53 0.50
61 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (59 bp):
TCCCCAAACTATGAACTCATTCTAAATTAGTCCTTAAACTTTTAGATCTTCCAATTTCA
Found at i:1382 original size:60 final size:59
Alignment explanation
Indices: 1226--1389 Score: 161
Period size: 60 Copynumber: 2.7 Consensus size: 59
1216 AGGATGAAAT
* * *
1226 TGAAATTGAAATATTTAGAAAGTCTGGGGACCAATTTAAAATGAAGATCATAGTTTGGAGA
1 TGAAATTGAAATGTTTA-AAAGT-TTGGGACCAATTTAAAATGAAGATCATAGTTTGAAGA
* * * * ** *
1287 TGAAAATGAAATGTTTGAAAGGTTGAAGATTAATTTATAATGATAG-TCATAGTTT-AAGTA
1 TGAAATTGAAATGTTTAAAAGTTTG-GGACCAATTTAAAATGA-AGATCATAGTTTGAAG-A
*
1347 TGAAATTGAAATGTTTAAAAGTTTAGGGACCAATTTGAAATGA
1 TGAAATTGAAATGTTTAAAAGTTT-GGGACCAATTTAAAATGA
1390 GGGCCAGTGA
Statistics
Matches: 81, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
59 4 0.05
60 60 0.74
61 17 0.21
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.33
Consensus pattern (59 bp):
TGAAATTGAAATGTTTAAAAGTTTGGGACCAATTTAAAATGAAGATCATAGTTTGAAGA
Found at i:1913 original size:39 final size:40
Alignment explanation
Indices: 1847--1928 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 40
1837 TAATAAGCAA
*
1847 GAAAAATTAAAACCTAAAACTTTATGGTTATCTAAACATG
1 GAAAAATTAAAACCTAAAACTTGATGGTTATCTAAACATG
*
1887 GAAAAATTAAAA-CTAAAACTTGATGGTTATCTAAACTTG
1 GAAAAATTAAAACCTAAAACTTGATGGTTATCTAAACATG
1926 GAA
1 GAA
1929 TAAAGAATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 28 0.70
40 12 0.30
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (40 bp):
GAAAAATTAAAACCTAAAACTTGATGGTTATCTAAACATG
Found at i:3033 original size:5 final size:5
Alignment explanation
Indices: 2995--3026 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
2985 CGTAATTTTC
2995 ATAAA GATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA A
3027 AATAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:5372 original size:129 final size:129
Alignment explanation
Indices: 5091--5573 Score: 411
Period size: 133 Copynumber: 3.7 Consensus size: 129
5081 TGGTCATTTA
* * * * * * * ** *
5091 AGGGTGACACGGCTCTTACATGATGAGGAGATCTGGTCGGTGGATGACACGGCTCATACGTGATG
1 AGGGTGACAC-GCTCCTACGTGATGAGGAGGTATGGTCGGGGGATGATATGATTCCTACGTGATG
* ** * * * * * *
5156 AAGA-GTTATAGCCATCTTTAGGAAGGGTTATAACACGGTTCCTACGCGATGAGGATGACTGGTT
65 AGGATGGCA-AGCCATCTTTA-G--GGATGATAACACGATTCTTACACGATAAGGATGACTGGTT
5220 ATCT
126 ATCT
* * *
5224 AGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGATATGTTTCCTACGCGATG
1 AGGGTGACAC-GCTCCTACGTGATGAGGAGGTATGGTCGGGGGATGATATGATTCCTACGTGATG
* * *
5289 AGGATGACAAGCCATC-TTAGGGATGATAACACGATTCTTACATGATAAGGACGACTGGTTATCT
65 AGGATGGCAAGCCATCTTTAGGGATGATAACACGATTCTTACACGATAAGGATGACTGGTTATCT
* * *
5353 AGGGTGACACAGCTCCTACGTGATGAGAAGGTATGGTC--GGGATGATATAATTCCTACGTAATG
1 AGGGTGACAC-GCTCCTACGTGATGAGGAGGTATGGTCGGGGGATGATATGATTCCTACGTGATG
* * * * * ** * *
5416 GGGACGGCATGCCATCTTTAGGGAGGGTGATAACATGGTTCTTATGCGATGAGGATGGCTGGTTA
65 AGGATGGCAAGCCATCTTTAGGGA---TGATAACACGATTCTTACACGATAAGGATGACTGGTTA
5481 TC-
127 TCT
* * * * *
5483 AGGGGTGACACGACTCCTACATGATGAGGAGGTTTGGGT-GGGGGATGACACGGTTCCTACGTGA
1 A-GGGTGACACG-CTCCTACGTGATGAGGAGGTAT-GGTCGGGGGATGATATGATTCCTACGTGA
* *
5547 TGAGGATGGTAGGCCATCTTTAGGGAT
63 TGAGGATGGCAAGCCATCTTTAGGGAT
5574 AAAGGTTTCA
Statistics
Matches: 288, Mismatches: 52, Indels: 23
0.79 0.14 0.06
Matches are distributed among these distances:
127 33 0.11
128 7 0.02
129 71 0.25
130 3 0.01
131 61 0.21
132 6 0.02
133 105 0.36
134 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (129 bp):
AGGGTGACACGCTCCTACGTGATGAGGAGGTATGGTCGGGGGATGATATGATTCCTACGTGATGA
GGATGGCAAGCCATCTTTAGGGATGATAACACGATTCTTACACGATAAGGATGACTGGTTATCT
Found at i:5491 original size:131 final size:131
Alignment explanation
Indices: 5165--5530 Score: 420
Period size: 129 Copynumber: 2.8 Consensus size: 131
5155 GAAGAGTTAT
* * *
5165 AGCCATCTTTAGGAAGGGTTATAACACGGTTCCTACGCGATGAGGATGACTGGTTATCTAGGGTG
1 AGCCATCTTTAGGGAGGGTGATAACACGGTTCTTACGCGATGAGGATGACTGGTTATCTAGGGTG
* ** * *
5230 ACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGATATGTTTCCTACGCGATGAGGATG
66 ACAC-GCTCCTACGTGATGAGGAGGTATGGTC-GGGGATGATATAATTCCTACGCAATGAGGACG
5295 ACA
129 ACA
* ** * *
5298 AGCCATC-TTAGGGA---TGATAACACGATTCTTACATGATAAGGACGACTGGTTATCTAGGGTG
1 AGCCATCTTTAGGGAGGGTGATAACACGGTTCTTACGCGATGAGGATGACTGGTTATCTAGGGTG
* * * *
5359 ACACAGCTCCTACGTGATGAGAAGGTATGGTC-GGGATGATATAATTCCTACGTAATGGGGACGG
66 ACAC-GCTCCTACGTGATGAGGAGGTATGGTCGGGGATGATATAATTCCTACGCAATGAGGACGA
5423 CA
130 CA
* * * *
5425 TGCCATCTTTAGGGAGGGTGATAACATGGTTCTTATGCGATGAGGATGGCTGGTTATC-AGGGGT
1 AGCCATCTTTAGGGAGGGTGATAACACGGTTCTTACGCGATGAGGATGACTGGTTATCTA-GGGT
* * *
5489 GACACGACTCCTACATGATGAGGAGGTTTGGGTGGGGGATGA
65 GACACG-CTCCTACGTGATGAGGAGGTAT-GGTCGGGGATGA
5531 CACGGTTCCT
Statistics
Matches: 194, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
127 33 0.17
128 7 0.04
129 69 0.36
130 2 0.01
131 60 0.31
132 9 0.05
133 14 0.07
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (131 bp):
AGCCATCTTTAGGGAGGGTGATAACACGGTTCTTACGCGATGAGGATGACTGGTTATCTAGGGTG
ACACGCTCCTACGTGATGAGGAGGTATGGTCGGGGATGATATAATTCCTACGCAATGAGGACGAC
A
Found at i:5992 original size:33 final size:34
Alignment explanation
Indices: 5954--6020 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
5944 TGAATCCTCG
5954 AAGATG-CCCCAACATTCAATGTTGATTGCTTCA
1 AAGATGCCCCCAACATTCAATGTTGATTGCTTCA
* *
5987 AAGATGCCCCCAATATTCGATGTTGATTGCTTCA
1 AAGATGCCCCCAACATTCAATGTTGATTGCTTCA
6021 GCACTGATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 6 0.19
34 25 0.81
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (34 bp):
AAGATGCCCCCAACATTCAATGTTGATTGCTTCA
Found at i:7054 original size:25 final size:24
Alignment explanation
Indices: 7026--7114 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 24
7016 TCTTGTCTTC
7026 TTTTTTCTCTTTGCTTTTTCTTTGA
1 TTTTTTCTCTTTG-TTTTTCTTTGA
* * **
7051 -TTTTGCT-TTT-CTTTTCTTTTCT
1 TTTTTTCTCTTTGTTTTTC-TTTGA
* *
7073 TTTTTTCTTTTTGTTTTTCTTTGC
1 TTTTTTCTCTTTGTTTTTCTTTGA
7097 TTCTTTTCTCTTTGTTTT
1 TT-TTTTCTCTTTGTTTT
7115 GATTAGATCT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
21 5 0.10
22 3 0.06
23 9 0.18
24 14 0.28
25 19 0.38
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTTCTCTTTGTTTTTCTTTGA
Found at i:12229 original size:3 final size:3
Alignment explanation
Indices: 12221--12264 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
12211 TAATATATGT
* *
12221 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA AAA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12265 CTATTTTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:16159 original size:216 final size:216
Alignment explanation
Indices: 15500--16210 Score: 1043
Period size: 216 Copynumber: 3.3 Consensus size: 216
15490 ATTTTATGAA
* * * *
15500 AAATACAAATTTAAGAATTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * * * *
15565 ACAACACACATTGATGGGGGATCAAATTGAAATAATTTTAAAATGTGAGGTTGAAATTAATATAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
**
15630 AAAAGTACTAAATTATAC-CTATTTAAAAAGTTACAGGCCAATTAAAAAATATAAATAAGTAATA
131 AAAAGTACTAAATTATACTC-ATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
15694 AGTATGGGTCAATTTCAGATGA-
195 AGTATGGGTCAATTTCAGAT-AC
* * *
15716 AAATATAATTTTTAGGACTAAATTGAACAAATATGAAATTAAAAATAGAAAATTTAAATAAATT-
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAAT-TAAAATTTAAATAAATTA
15780 ----A-A-ACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAA
65 AACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAA
* *
15839 AAAAAGTGCTAAATTATAATCATTTAAAAAGTTATGGGCCAATT-AAAAATATAAATAAGTAATA
130 AAAAAGTACTAAATTATACTCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATA
*
15903 AATATGGGTCAATTTCAGATAC
195 AGTATGGGTCAATTTCAGATAC
* *
15925 AAATATAATTTCAAGGACTAAATTGAACAAATATGAAATTACAAATTAAATTTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * *
15990 ACAACACACATTGATGAGAGATCAAATCAAAATAATTTTAAATTGTGAGGTTTAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
* * *
16055 AAAAGTACTAAATAATACTCATTTAAAAAGTTATGGGTCAATTAAAAAATAGAAATAAGTAATAA
131 AAAAGTACTAAATTATACTCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
*
16120 GTATGGGTCAATTTCAGATTC
196 GTATGGGTCAATTTCAGATAC
* * *
16141 AAATATAATTTTAAGGACTAAATTAAACAACTAT---ATTACAAATTAAATTTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
16203 ACAACACA
66 ACAACACA
16211 AAGGTGTCAA
Statistics
Matches: 449, Mismatches: 35, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
208 16 0.04
209 82 0.18
210 90 0.20
211 2 0.00
212 1 0.00
213 37 0.08
214 1 0.00
215 94 0.21
216 110 0.24
217 16 0.04
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (216 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATAAAA
AAAAGTACTAAATTATACTCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAA
GTATGGGTCAATTTCAGATAC
Found at i:16319 original size:2 final size:2
Alignment explanation
Indices: 16308--16618 Score: 191
Period size: 2 Copynumber: 154.5 Consensus size: 2
16298 TTGAAACAAC
16308 TA TA -A 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
*
16349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
16391 GTT TA TA TA TA AA GTA TA TA TG T- TA TA TA TA AA CTA TA TA T-
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
16432 TT TA TT TA TA T- TA TA CTA TA TA TA AA CTA TA TA T- 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
* * * * *
16474 TA T- TA TG TA TA AA CTA TA TA TA CCA TG TA TA AA CTA TA -A TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* *
16515 CTA TA TA GTT TA TA TA TA AA T- TA TA TA TGA -A T- TA TA TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * * *
16555 AA CTA TA CA -A TT TA TA TT TA TA TA TA -A T- TA TA AA CTA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
16596 GTT TA TA TA TA TA TA GTA TA TA T
1 -TA TA TA TA TA TA TA -TA TA TA T
16619 GGTTTAAGGT
Statistics
Matches: 240, Mismatches: 39, Indels: 60
0.71 0.12 0.18
Matches are distributed among these distances:
1 14 0.06
2 207 0.86
3 19 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16541 original size:13 final size:11
Alignment explanation
Indices: 16313--16561 Score: 88
Period size: 11 Copynumber: 22.4 Consensus size: 11
16303 ACAACTATAA
*
16313 TATATATATAT
1 TATATATAAAT
*
16324 ATATATATATAT
1 -TATATATAAAT
*
16336 ATATATATATAT
1 -TATATATAAAT
*
16348 ATATATATATAT
1 -TATATATAAAT
*
16360 ATATATATATAT
1 -TATATATAAAT
*
16372 ATATAATATAAAC
1 -TAT-ATATAAAT
16385 TATATAGT---T
1 TATATA-TAAAT
*
16394 TATATATAAAG
1 TATATATAAAT
*
16405 TATATAT--GT
1 TATATATAAAT
*
16414 TATATATAAAC
1 TATATATAAAT
16425 TATATAT---T
1 TATATATAAAT
* *
16433 T-TATTTATAT
1 TATATATAAAT
*
16443 TATACTATATA-
1 TATA-TATAAAT
* *
16454 TAAACTATATAT
1 TATA-TATAAAT
*
16466 TATATATATAT
1 TATATATAAAT
* *
16477 TATGTATAAAC
1 TATATATAAAT
*
16488 TATATATACCAT
1 TATATATA-AAT
*
16500 GTATAAACTATAA-
1 -TATATA-TA-AAT
**
16513 TACTATATAGTT
1 TA-TATATAAAT
16525 TATATATAAAT
1 TATATATAAAT
*
16536 TATATATGAAT
1 TATATATAAAT
*
16547 TATATATAAAC
1 TATATATAAAT
16558 TATA
1 TATA
16562 CAATTTATAT
Statistics
Matches: 189, Mismatches: 30, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
7 4 0.02
8 2 0.01
9 13 0.07
10 2 0.01
11 81 0.43
12 70 0.37
13 14 0.07
14 3 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATAAAT
Found at i:16608 original size:15 final size:15
Alignment explanation
Indices: 16567--16618 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16557 CTATACAATT
* *
16567 TATATTTATATATAA
1 TATATATATATATAG
*
16582 T-TATAAACTATATAG
1 TATATATA-TATATAG
*
16597 TTTATATATATATAG
1 TATATATATATATAG
16612 TATATAT
1 TATATAT
16619 GGTTTAAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TATATATATATATAG
Found at i:16748 original size:11 final size:11
Alignment explanation
Indices: 16699--16752 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
16689 TAGTAGTATT
16699 TAAACTATATA
1 TAAACTATATA
16710 TAAAC-A-ATA
1 TAAACTATATA
16719 TAAACTA-ACT-
1 TAAACTATA-TA
* *
16729 TATACTATATG
1 TAAACTATATA
16740 TAAACTATATA
1 TAAACTATATA
16751 TA
1 TA
16753 TTATATAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 8 0.22
10 10 0.28
11 18 0.50
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAACTATATA
Found at i:16794 original size:9 final size:9
Alignment explanation
Indices: 16780--16823 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
16770 GAACTATATG
16780 TATAAACTA
1 TATAAACTA
16789 TATAAAC--
1 TATAAACTA
16796 TAT--A-TA
1 TATAAACTA
16802 TATAAACTA
1 TATAAACTA
16811 TATAAACTA
1 TATAAACTA
16820 TATA
1 TATA
16824 GTTTACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
5 1 0.03
6 3 0.10
7 3 0.10
8 1 0.03
9 22 0.73
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (9 bp):
TATAAACTA
Found at i:16797 original size:22 final size:22
Alignment explanation
Indices: 16771--16823 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
16761 TTTACAGATG
*
16771 AACTATATGTATAAACTATATA
1 AACTATATATATAAACTATATA
16793 AACTATATATATAAACTATATA
1 AACTATATATATAAACTATATA
16815 AACTATATA
1 AACTATATA
16824 GTTTACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (22 bp):
AACTATATATATAAACTATATA
Found at i:16848 original size:13 final size:13
Alignment explanation
Indices: 16787--16814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16777 ATGTATAAAC
16787 TATATAAACTATA
1 TATATAAACTATA
16800 TATATAAACTATA
1 TATATAAACTATA
16813 TA
1 TA
16815 AACTATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TATATAAACTATA
Found at i:16896 original size:18 final size:18
Alignment explanation
Indices: 16870--16904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16860 TAGTGAACTA
*
16870 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
16888 TATATACTATATATATA
1 TATAAACTATATATATA
16905 TAAATTATAG
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:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:16956 original size:18 final size:18
Alignment explanation
Indices: 16935--17044 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
16925 TATACTATAT
16935 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* *
16953 ATATAAACTATATAGTTTAT
1 ATATGAAC--TATAGTTTAC
16973 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATAGTTTAC
*
16991 ATATAAACTATAGTTGATATTTAC
1 ATATGAACTATA---G---TTTAC
*
17015 GTATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
17033 ATATGAACTATA
1 ATATGAACTATA
17045 TATATAAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
17 1 0.01
18 42 0.55
20 15 0.20
21 3 0.04
24 15 0.20
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:16975 original size:38 final size:40
Alignment explanation
Indices: 16932--17046 Score: 148
Period size: 38 Copynumber: 2.9 Consensus size: 40
16922 TTTTATACTA
16932 TATATATGAACTATAGTTTACATATAAACTATATAG-T-T
1 TATATATGAACTATAGTTTACATATAAACTATATAGATAT
*
16970 TATATACT-AACTATAGTTTACATATAAACTATAGTTGATAT
1 TATATA-TGAACTATAGTTTACATATAAACTATA-TAGATAT
*
17011 T-TACGTATGAACTATAGTTTACATATGAACTATATA
1 TATA--TATGAACTATAGTTTACATATAAACTATATA
17047 TATAAACTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
38 31 0.46
39 3 0.04
40 3 0.04
41 4 0.06
42 26 0.39
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (40 bp):
TATATATGAACTATAGTTTACATATAAACTATATAGATAT
Found at i:17048 original size:2 final size:2
Alignment explanation
Indices: 17041--17117 Score: 57
Period size: 2 Copynumber: 36.0 Consensus size: 2
17031 ACATATGAAC
* * *
17041 TA TA TA TA TA AA CTA TA GTT TA TA TT TA TA TA CTA TA TA T- TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
*
17083 TA TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
17118 ATTTACATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
1 1 0.02
2 50 0.83
3 9 0.15
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17054 original size:13 final size:13
Alignment explanation
Indices: 17033--17105 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 13
17023 TATAGTTTAC
*
17033 ATATGAACTATAT
1 ATATAAACTATAT
17046 ATATAAACTATAGTTT
1 ATATAAACTATA---T
17062 ATATTTATATACTATAT
1 ATA--TA-A-ACTATAT
*
17079 AT-TATA-TATAT
1 ATATAAACTATAT
17090 ATATAAACTATAT
1 ATATAAACTATAT
17103 ATA
1 ATA
17106 CTATATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
11 7 0.15
12 4 0.08
13 19 0.40
14 2 0.04
16 4 0.08
17 3 0.06
18 2 0.04
19 1 0.02
20 6 0.12
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:17079 original size:22 final size:24
Alignment explanation
Indices: 17041--17117 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
17031 ACATATGAAC
17041 TATATATATAAACTATAGT-TTATA
1 TATATATATAAACTATA-TATTATA
17065 T-T-TATAT--ACTATATATTATA
1 TATATATATAAACTATATATTATA
17085 TATATATATAAACTATATA-TACTA
1 TATATATATAAACTATATATTA-TA
17109 TATAGTATA
1 TATA-TATA
17118 ATTTACATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.02
20 12 0.26
21 1 0.02
22 10 0.22
23 3 0.07
24 15 0.33
25 4 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (24 bp):
TATATATATAAACTATATATTATA
Found at i:17091 original size:20 final size:20
Alignment explanation
Indices: 17041--17138 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
17031 ACATATGAAC
*
17041 TATATATATAAACTATAGT-T
1 TATATATATATACTATA-TAT
*
17061 TATATTTATATACTATATAT
1 TATATATATATACTATATAT
*
17081 TATATATATATA-TAAACTA-
1 TATATATATATACTATA-TAT
*
17100 TATATACTATATAGTATA-AT
1 TATATA-TATATACTATATAT
*
17120 T-TACATATGA-ACTATATAT
1 TATATATAT-ATACTATATAT
17139 AAAAATTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
18 8 0.12
19 17 0.27
20 36 0.56
21 3 0.05
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (20 bp):
TATATATATATACTATATAT
Found at i:17192 original size:28 final size:28
Alignment explanation
Indices: 17141--17197 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
17131 CTATATATAA
* *
17141 AAATTCTAAACCCTAAACTATAAAATAT
1 AAATCCTAAACCCTAAACCATAAAATAT
* *
17169 AAATCCTAAACCCTAAACCCTAAACTAT
1 AAATCCTAAACCCTAAACCATAAAATAT
17197 A
1 A
17198 CATTATATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
AAATCCTAAACCCTAAACCATAAAATAT
Found at i:17239 original size:18 final size:18
Alignment explanation
Indices: 17213--17336 Score: 98
Period size: 18 Copynumber: 7.1 Consensus size: 18
17203 TATAGTTTAT
17213 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
17231 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
* *
17249 TGGTATATATAAGCTATA
1 TAGTATATATAAACTATA
* * **
17267 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
17284 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
17302 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
17317 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
17335 TA
1 TA
17337 TTAATTTATT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
15 4 0.05
16 8 0.10
17 21 0.26
18 47 0.59
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:17301 original size:26 final size:27
Alignment explanation
Indices: 17271--17362 Score: 82
Period size: 33 Copynumber: 3.3 Consensus size: 27
17261 GCTATACATT
17271 ATATATAGTTCATTAGTATATATAAAC
1 ATATATAGTTCATTAGTATATATAAAC
17298 TATATATTATATAGTTCATTAGTATATATAAAC
1 -----A-TATATAGTTCATTAGTATATATAAAC
* *
17331 -TATATA-TTAATTTATTA-ATATAAAC
1 ATATATAGTTCA-TTAGTATATATAAAC
17356 ATATATA
1 ATATATA
17363 TTAATTGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
25 11 0.20
26 17 0.31
32 1 0.02
33 26 0.47
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATATAGTTCATTAGTATATATAAAC
Found at i:17337 original size:33 final size:33
Alignment explanation
Indices: 17189--17339 Score: 187
Period size: 33 Copynumber: 4.4 Consensus size: 33
17179 CCCTAAACCC
* *
17189 TAAACTATACATTATATAGTTTATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
* *
17222 TAAACTATATAATATATATAG-ACTATATGGTATATA
1 TAAACTATAT-AT-TATATAGTTC-AT-TAGTATATA
* *
17258 TAAGCTATACATTATATATAGTTCATTAGTATATA
1 TAAACTATATA-T-TATATAGTTCATTAGTATATA
17293 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATA
17326 TAAACTATATATTA
1 TAAACTATATATTA
17340 ATTTATTAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
33 44 0.43
34 3 0.03
35 27 0.26
36 27 0.26
37 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTCATTAGTATATA
Found at i:17480 original size:60 final size:60
Alignment explanation
Indices: 17412--17524 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
17402 AACAAATTTT
* * ** * *
17412 AAATATGAAGCTTAAGTTAAAAAATTGTAACATTAAATTTGGATTAAATTAAAAAAGTTG
1 AAATATGAAGATTAAATTAAAAAATTACAACAATAAATTTGGACTAAATTAAAAAAGTTG
* * *
17472 AAATATGAAGATTAAATTAATATATTACATCAATAAATTTGGACTAAATTAAA
1 AAATATGAAGATTAAATTAAAAAATTACAACAATAAATTTGGACTAAATTAAA
17525 CAAATATAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (60 bp):
AAATATGAAGATTAAATTAAAAAATTACAACAATAAATTTGGACTAAATTAAAAAAGTTG
Found at i:22081 original size:24 final size:24
Alignment explanation
Indices: 22018--22117 Score: 100
Period size: 24 Copynumber: 4.3 Consensus size: 24
22008 AAACATAATT
* * *
22018 CAGGTCAAGTAGCATATCATAATC
1 CAGGTCAAGTATCATATAAAAATC
*
22042 CATGTCAAG--TC--ATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
22062 CAGGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
* * * *
22086 CAGGTTAAATATCATATCAAGATC
1 CAGGTCAAGTATCATATAAAAATC
22110 CAGGTCAA
1 CAGGTCAA
22118 AAACCAGATA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
20 15 0.24
22 3 0.05
24 44 0.71
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (24 bp):
CAGGTCAAGTATCATATAAAAATC
Found at i:22317 original size:21 final size:21
Alignment explanation
Indices: 22293--22342 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
22283 AATCCTAATA
22293 TAAATAATCTTAATATTTATT
1 TAAATAATCTTAATATTTATT
22314 TAAATAATCTTAATATTTATT
1 TAAATAATCTTAATATTTATT
22335 TAAATAAT
1 TAAATAAT
22343 ATACGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATAATCTTAATATTTATT
Found at i:22862 original size:29 final size:29
Alignment explanation
Indices: 22814--23001 Score: 114
Period size: 29 Copynumber: 6.6 Consensus size: 29
22804 AACAACTATT
* * *
22814 TTACGAAAATAGCATCATTTTAAAAAAAA
1 TTACCAAAATATCACCATTTTAAAAAAAA
* *
22843 TTACCAAAATATCACAATTTTAAAAATAA
1 TTACCAAAATATCACCATTTTAAAAAAAA
* ***
22872 TTACTAAAATAT-AGTTTTTTAAAAAAAA
1 TTACCAAAATATCACCATTTTAAAAAAAA
*** *
22900 TTA-CAAAATTAT-ATTTTTTTTAAAAAAA
1 TTACCAAAA-TATCACCATTTTAAAAAAAA
* * * *
22928 TTA-CAAAATTAGCACCCTTTTCAAAATAA
1 TTACCAAAA-TATCACCATTTTAAAAAAAA
* * ** *
22957 TTACCAGAATAGCACCATTTTCCAAATAA
1 TTACCAAAATATCACCATTTTAAAAAAAA
* *
22986 TTACCAGAATAGCACC
1 TTACCAAAATATCACC
23002 CGGTCAACGG
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
27 4 0.03
28 43 0.32
29 83 0.62
30 4 0.03
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.32
Consensus pattern (29 bp):
TTACCAAAATATCACCATTTTAAAAAAAA
Found at i:22891 original size:28 final size:27
Alignment explanation
Indices: 22831--22936 Score: 122
Period size: 28 Copynumber: 3.8 Consensus size: 27
22821 AATAGCATCA
**
22831 TTTTAAAAAAAATTACCAAAATATCACAA
1 TTTTAAAAAAAATTA-CAAAATAT-ACTT
* *
22860 TTTTAAAAATAATTACTAAAATATAGTT
1 TTTTAAAAAAAATTAC-AAAATATACTT
*
22888 TTTTAAAAAAAATTACAAAATTATATTT
1 TTTTAAAAAAAATTACAAAA-TATACTT
*
22916 TTTTTAAAAAAATTACAAAAT
1 TTTTAAAAAAAATTACAAAAT
22937 TAGCACCCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.07
28 42 0.62
29 21 0.31
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.38
Consensus pattern (27 bp):
TTTTAAAAAAAATTACAAAATATACTT
Found at i:28994 original size:24 final size:24
Alignment explanation
Indices: 28947--29122 Score: 217
Period size: 24 Copynumber: 7.3 Consensus size: 24
28937 AAACATAATT
* * * *
28947 CAGGTCAAGTAGCAGATTAGAATC
1 CAGGTCAAGTATCATATAAAAATC
*
28971 CATGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
28995 CAGGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
* * * *
29019 CAGGTCAAGTAGCAGATTAGAATC
1 CAGGTCAAGTATCATATAAAAATC
*
29043 CATGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
29067 CAGGTCAAGTATCATATAAAAATC
1 CAGGTCAAGTATCATATAAAAATC
* * * *
29091 CAGGTCAAATATTATATCAAGATC
1 CAGGTCAAGTATCATATAAAAATC
*
29115 TAGGTCAA
1 CAGGTCAA
29123 AAACCAGATT
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 131 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCATATAAAAATC
Found at i:29028 original size:72 final size:72
Alignment explanation
Indices: 28947--29098 Score: 304
Period size: 72 Copynumber: 2.1 Consensus size: 72
28937 AAACATAATT
28947 CAGGTCAAGTAGCAGATTAGAATCCATGTCAAGTATCATATAAAAATCCAGGTCAAGTATCATAT
1 CAGGTCAAGTAGCAGATTAGAATCCATGTCAAGTATCATATAAAAATCCAGGTCAAGTATCATAT
29012 AAAAATC
66 AAAAATC
29019 CAGGTCAAGTAGCAGATTAGAATCCATGTCAAGTATCATATAAAAATCCAGGTCAAGTATCATAT
1 CAGGTCAAGTAGCAGATTAGAATCCATGTCAAGTATCATATAAAAATCCAGGTCAAGTATCATAT
29084 AAAAATC
66 AAAAATC
29091 CAGGTCAA
1 CAGGTCAA
29099 ATATTATATC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 80 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (72 bp):
CAGGTCAAGTAGCAGATTAGAATCCATGTCAAGTATCATATAAAAATCCAGGTCAAGTATCATAT
AAAAATC
Found at i:29720 original size:41 final size:42
Alignment explanation
Indices: 29655--29766 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 42
29645 AAGATAATTA
* *
29655 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGA-CATTT
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGATCATTT
* *
29696 GCGGCGTTTGTTCTAAAAGCGCCGCTATAGATCTGATCTTTT
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGATCATTT
* * *
29738 GCAGCGTTTGTTCTAAAAACACCGTTATA
1 GCGGCGTTTGTTCTAAAAACGCCGCTATA
29767 TATACAAACT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
41 33 0.53
42 29 0.47
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGATCATTT
Found at i:29751 original size:42 final size:41
Alignment explanation
Indices: 29658--29809 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 41
29648 ATAATTAGCG
* * *
29658 GCGTTTGTTCCAAAAATGCCGCTATAGATCTGACATTTGCG
1 GCGTTTGTTCTAAAAACGCCGCTATAGATCTGACATTTGCA
* *
29699 GCGTTTGTTCTAAAAGCGCCGCTATAGATCTGATCTTTTGCA
1 GCGTTTGTTCTAAAAACGCCGCTATAGATCTGA-CATTTGCA
* * * ** *
29741 GCGTTTGTTCTAAAAACACCGTTATATATACAAACTTTTTGCA
1 GCGTTTGTTCTAAAAACGCCGCTATAGAT-CTGAC-ATTTGCA
* * *
29784 CCGTTTTTTCCAAAAACGCCGCTATA
1 GCGTTTGTTCTAAAAACGCCGCTATA
29810 TATATCGACC
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 30 0.33
42 32 0.35
43 30 0.33
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (41 bp):
GCGTTTGTTCTAAAAACGCCGCTATAGATCTGACATTTGCA
Found at i:29824 original size:43 final size:42
Alignment explanation
Indices: 29658--29824 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 42
29648 ATAATTAGCG
* * * *
29658 GCGTTTGTTCCAAAAATGCCGCTATAGATCTGA-CATTTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGCA
* * * *
29699 GCGTTTGTTCTAAAAGCGCCGCTATAGATCTGATCTTTTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGCA
* * * * ** *
29741 GCGTTTGTTCTAAAAACACCGTTATATATACAAACTTTTTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATA-TGACCTTTTGCA
* * *
29784 CCGTTTTTTCCAAAAACGCCGCTATATATATCGACCTTTTG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATAT-GACCTTTTG
29825 GAACAAACGC
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 30 0.30
42 31 0.31
43 40 0.40
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (42 bp):
GCGTTTGTTCCAAAAACGCCGCTATAGATATGACCTTTTGCA
Found at i:30709 original size:26 final size:26
Alignment explanation
Indices: 30673--30724 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30663 TCACCGTACA
30673 CGTAGAAGGCTTCTCATAATGTTGAT
1 CGTAGAAGGCTTCTCATAATGTTGAT
30699 CGTAGAAGGCTTCTCATAATGTTGAT
1 CGTAGAAGGCTTCTCATAATGTTGAT
30725 TGATGTATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (26 bp):
CGTAGAAGGCTTCTCATAATGTTGAT
Found at i:39486 original size:2 final size:2
Alignment explanation
Indices: 39481--39506 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39471 AAATCAAATA
39481 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
39507 TAACTTAAAT
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):
AT
Found at i:41170 original size:26 final size:26
Alignment explanation
Indices: 41141--41200 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
41131 TTAAATATTT
* *
41141 TTATATTTTTAATTTTGTAAAAAAAA
1 TTATAATTTAAATTTTGTAAAAAAAA
* *
41167 TTATGAATTTAAATTTTTTAAATAAAA
1 TTAT-AATTTAAATTTTGTAAAAAAAA
41194 TATATAA
1 T-TATAA
41201 ATATTTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
28 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
TTATAATTTAAATTTTGTAAAAAAAA
Found at i:41416 original size:20 final size:20
Alignment explanation
Indices: 41359--41409 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
41349 ATTATATTCT
41359 CTGATAATCTTTTATTCTCA
1 CTGATAATCTTTTATTCTCA
41379 CTGATAATCTTTTATTCTCA
1 CTGATAATCTTTTATTCTCA
41399 CTGATAATCTT
1 CTGATAATCTT
41410 ACATTCTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (20 bp):
CTGATAATCTTTTATTCTCA
Found at i:44244 original size:37 final size:37
Alignment explanation
Indices: 44150--44246 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
44140 CATTTTCGTC
44150 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
44187 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
44224 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
44247 GACAGGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:44651 original size:18 final size:17
Alignment explanation
Indices: 44619--44652 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44609 GGATATTTTA
*
44619 TTCATTTATTTTTATTT
1 TTCATTTATTATTATTT
44636 TTCATGTTATTATTATT
1 TTCAT-TTATTATTATT
44653 ATATGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (17 bp):
TTCATTTATTATTATTT
Found at i:44724 original size:2 final size:2
Alignment explanation
Indices: 44717--44741 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44707 TTATTATTAT
44717 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44742 TTCTTTAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44774 original size:59 final size:59
Alignment explanation
Indices: 44658--44786 Score: 138
Period size: 59 Copynumber: 2.2 Consensus size: 59
44648 TTATTATATG
* * * * * *
44658 TATATATATATATATATTAAATTATTTTCATTTATTTTTTTACTATATTTTATTATTAT
1 TATATATATATATATATTAAATTATTTTCATTTAATATTTTACTATAGTCTAATATTAC
*
44717 TATATATATATATATA-TATA-TATATTTC-TTTAATATTTTACTTATAAGTCTAATATTAC
1 TATATATATATATATATTAAATTAT-TTTCATTTAATATTTTAC-TAT-AGTCTAATATTAC
*
44776 TACATATATAT
1 TATATATATAT
44787 TGTAATTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 14 0.24
58 10 0.17
59 35 0.59
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (59 bp):
TATATATATATATATATTAAATTATTTTCATTTAATATTTTACTATAGTCTAATATTAC
Found at i:49402 original size:183 final size:183
Alignment explanation
Indices: 49086--49622 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
49076 ATTAAATCCG
49086 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
49151 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCTACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
49216 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
49269 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
49334 ATAGATTATGTTCAAACTATGACACTGCTCGAACACTTGGCAATTCGGTGTTTGCTCCACTACTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
*
49399 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
49452 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * **
49517 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTTGT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACT
*
49581 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
49623 TAAACCTGAT
Statistics
Matches: 341, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
182 1 0.00
183 340 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTACTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:50819 original size:36 final size:34
Alignment explanation
Indices: 50779--50892 Score: 86
Period size: 36 Copynumber: 3.2 Consensus size: 34
50769 CACTCAAATT
50779 TGTTTTTCTTAAAACATACTTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-A-TTTGTCTCACTTGAGAC
* * * ** *
50815 TGTTTTTCTCGAAAGA-AGATTTATTTCACTCAAGAT
1 TGTTTTTCT-TAAA-ACA-ATTTGTCTCACTTGAGAC
*
50851 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAAC-A-ATTTGTCTCACTTGAGAC
*
50887 CGTTTT
1 TGTTTT
50893 CACTCGAAAG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 49 0.83
37 5 0.08
38 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (34 bp):
TGTTTTTCTTAAAACAATTTGTCTCACTTGAGAC
Found at i:50855 original size:72 final size:75
Alignment explanation
Indices: 50763--50938 Score: 218
Period size: 72 Copynumber: 2.4 Consensus size: 75
50753 ATGCAGATGA
* * * *
50763 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
50825 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
50835 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
50900 AAGAAGGCAT
66 AAGAAGGCAT
** *
50910 TTCATTTCACTCAAGGCTGTTTTTTTTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
50939 GAAGATTTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
71 1 0.01
72 50 0.56
73 11 0.12
74 1 0.01
75 4 0.04
76 23 0.26
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:51040 original size:104 final size:101
Alignment explanation
Indices: 50940--51327 Score: 405
Period size: 104 Copynumber: 3.9 Consensus size: 101
50930 TTTTTTTAAG
* *
50940 AAGATTTTATCTTGCTTGAGATAGTTTCCATCGAAACAGAAAATTTCGTCTCCCTTGAGACAGTT
1 AAGATTTTATCTT-CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTT
*
51005 TCTCTTG----A-AAACA-T-------TTCCCTTGAA
65 TCTCTTGAAACATAAACATTGAAAACATTTCCTTGAA
* *
51029 ATTA-ATTTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACA
1 A--AGA-TTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACA
51093 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAA
62 GTTTCTCTTGAAACATAAACATTGAAAACATTT-CCTTGAA
* * * * **
51134 ATGATTTTTTTCTCTATTGAGATAGTTTCCCTCGAAACAAAAAAAATTGTCTCCCTTGAGACAGT
1 AAGA-TTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGT
51199 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAA
64 TTCTCTTGAAACATAAACATTGAAAACATTT-CCTTGAA
* * *
51238 ATAAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AATTTTGTCTCCCTTGAGACAGT
1 A-AGATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGT
** *
51300 TTCTCTCCAAACATAAACTTTGAAAACA
64 TTCTCTTGAAACATAAACATTGAAAACA
51328 ATTTAACGAA
Statistics
Matches: 256, Mismatches: 23, Indels: 28
0.83 0.07 0.09
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 63 0.25
92 1 0.00
95 1 0.00
96 5 0.02
97 1 0.00
101 46 0.18
104 128 0.50
105 9 0.04
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (101 bp):
AAGATTTTATCTTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTT
CTCTTGAAACATAAACATTGAAAACATTTCCTTGAA
Found at i:51274 original size:36 final size:36
Alignment explanation
Indices: 51227--51302 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
51217 ATTGAAAACA
* * *
51227 TTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAG
* *
51263 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAG
51299 TTTC
1 TTTC
51303 TCTCCAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTATCTCCCTTGAGACAG
Found at i:51707 original size:105 final size:105
Alignment explanation
Indices: 51502--51922 Score: 559
Period size: 105 Copynumber: 4.0 Consensus size: 105
51492 ATATCGCGAC
* * * *
51502 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCC
51567 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
51608 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-GACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCC
*
51672 AATCTCAGAGCCAATTTCAACTTCACAACGAAGGATGTTGG
66 AAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
51713 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAAC-AA-AA-TT-TC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCC
*
51774 -ATTCAGAGTCAATTTCAACTTCACAGA-GAAGGATATTGG
66 AATTCAGAGCCAATTTCAACTTCACA-ACGAAGGATATTGG
* * * * *
51813 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCT
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCC
** * *
51878 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATT-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
51919 ACTC
1 ACTC
51923 GGAAAAATGC
Statistics
Matches: 281, Mismatches: 25, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
100 80 0.28
101 5 0.02
102 3 0.01
103 4 0.01
104 3 0.01
105 103 0.37
106 83 0.30
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (105 bp):
ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCC
AATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:51816 original size:205 final size:212
Alignment explanation
Indices: 51502--51922 Score: 581
Period size: 205 Copynumber: 2.0 Consensus size: 212
51492 ATATCGCGAC
* * * *
51502 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTCCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
*
51567 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
* *
51632 TCACGACGAAGGGACCGCTGCTTGTCAAC-GACAACTTCCCAA-TCTCAGAGCCAATTTCAACTT
131 TCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCCAATTC-CAGAGCCAATTTCAACTT
*
51695 CACAACGAAGGATGTTGG
195 CACAACGAAGGATATTGG
* *
51713 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAAC-AA-AA-TT-TC
1 ACTCCAGACAACACAAGTTCAACTCCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
* *
51774 -A-TTCAGAGTCAATTTCAACTTCACAGA-GAAGGATATTGGACTCGAGACAACACAAGTTCAAC
66 AATTTCAGAGCCAATTTCAACTTCACA-ACGAAGGATATTGGACTCCAGACAACACAAGTTCAAC
* * * ***
51836 TTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCTGGTTCCAGAGCCAATTTCAACTT
130 TTCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTT
* *
51901 CACGACGGAGGATATTGG
195 CACAACGAAGGATATTGG
51919 ACTC
1 ACTC
51923 GGAAAAATGC
Statistics
Matches: 187, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
205 83 0.44
206 47 0.25
207 4 0.02
208 2 0.01
209 2 0.01
210 2 0.01
211 47 0.25
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (212 bp):
ACTCCAGACAACACAAGTTCAACTCCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
TCACAACGAAGGGACCGCTGCTTGTCAACAAACAACTTCCCAATTCCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGG
Found at i:52516 original size:37 final size:37
Alignment explanation
Indices: 52463--52567 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
52453 CATTTTCGTC
52463 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * *
52500 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
52537 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
52568 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:52965 original size:18 final size:17
Alignment explanation
Indices: 52933--52966 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52923 GGATATTTTA
*
52933 TTCATTTATTTTTATTT
1 TTCATTTATTATTATTT
52950 TTCATGTTATTATTATT
1 TTCAT-TTATTATTATT
52967 ATATGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (17 bp):
TTCATTTATTATTATTT
Found at i:52979 original size:2 final size:2
Alignment explanation
Indices: 52966--53018 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
52956 TTATTATTAT
*
52966 TA TA TG 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
53008 TA TA TA TA TA T
1 TA TA TA TA TA T
53019 TAAATTATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60111 original size:15 final size:15
Alignment explanation
Indices: 60091--60121 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60081 ATCGAAAGAC
60091 TCCTTGCATTTTGAA
1 TCCTTGCATTTTGAA
*
60106 TCCTTGTATTTTGAA
1 TCCTTGCATTTTGAA
60121 T
1 T
60122 TAAAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (15 bp):
TCCTTGCATTTTGAA
Found at i:60937 original size:5 final size:5
Alignment explanation
Indices: 60924--60966 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
60914 TCCTGATATT
*
60924 ATAAC ATAAA ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATA
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATA
60967 GGAATATGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAC
Found at i:61327 original size:17 final size:17
Alignment explanation
Indices: 61279--61321 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 17
61269 CCCTATAAGG
61279 AGTATCGATAATCTACCCTT
1 AGTATCGAT-A-CT-CCCTT
61299 AGTATCGATACTCCCTT
1 AGTATCGATACTCCCTT
61316 GAGTAT
1 -AGTAT
61322 GGTACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 1 0.05
20 9 0.41
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (17 bp):
AGTATCGATACTCCCTT
Found at i:70628 original size:20 final size:20
Alignment explanation
Indices: 70605--70666 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
70595 TAATAAAACT
70605 ATATTTAATTATGTAAAAAA
1 ATATTTAATTATGTAAAAAA
* * **
70625 ATATTATAAGTA-ATAAAATT
1 ATATT-TAATTATGTAAAAAA
70645 ATATTTAATTATGTAAAAAA
1 ATATTTAATTATGTAAAAAA
70665 AT
1 AT
70667 GAAAACTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATTTAATTATGTAAAAAA
Found at i:70648 original size:40 final size:40
Alignment explanation
Indices: 70588--70666 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
70578 TTATGTCTTC
70588 TTATAAGTAATAAAACTATATTTAATTATGTAAAAAAATA
1 TTATAAGTAATAAAACTATATTTAATTATGTAAAAAAATA
*
70628 TTATAAGTAATAAAATTATATTTAATTATGTAAAAAAAT
1 TTATAAGTAATAAAACTATATTTAATTATGTAAAAAAAT
70667 GAAAACTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (40 bp):
TTATAAGTAATAAAACTATATTTAATTATGTAAAAAAATA
Found at i:70666 original size:23 final size:23
Alignment explanation
Indices: 70594--70666 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
70584 CTTCTTATAA
* *
70594 GTAATAAAACTATATTTAATTAT
1 GTAAAAAAATTATATTTAATTAT
*
70617 GT-AAAAAA--ATA-TT-A-TAA
1 GTAAAAAAATTATATTTAATTAT
*
70634 GTAATAAAATTATATTTAATTAT
1 GTAAAAAAATTATATTTAATTAT
70657 GTAAAAAAAT
1 GTAAAAAAAT
70667 GAAAACTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 2 0.05
20 6 0.15
21 2 0.05
22 6 0.15
23 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (23 bp):
GTAAAAAAATTATATTTAATTAT
Found at i:81470 original size:29 final size:29
Alignment explanation
Indices: 81427--81509 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
81417 CTCACCTAAC
*
81427 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
81457 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
81486 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
81510 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:86239 original size:29 final size:29
Alignment explanation
Indices: 86196--86278 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
86186 CTCACCTAAC
*
86196 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
86226 TAAATGACGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
86255 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
86279 ATTTAGTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 43 0.91
30 4 0.09
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:94607 original size:21 final size:21
Alignment explanation
Indices: 94581--94620 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94571 CCAGATTCGC
94581 AACGCGAACTTCGACTATCTT
1 AACGCGAACTTCGACTATCTT
*
94602 AACGCGAACTTGGACTATC
1 AACGCGAACTTCGACTATC
94621 GCAATGCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AACGCGAACTTCGACTATCTT
Found at i:94629 original size:21 final size:21
Alignment explanation
Indices: 94577--94629 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
94567 GTTTCCAGAT
94577 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
** *
94598 TCTTAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
94619 TCGCAATGCGA
1 TCGCAACGCGA
94630 TTTACATATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:94679 original size:21 final size:21
Alignment explanation
Indices: 94644--94852 Score: 186
Period size: 21 Copynumber: 10.3 Consensus size: 21
94634 CATATTTGCA
94644 TTGCGA-AGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
94664 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
94685 TTGCGAT-TTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
*
94703 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
94724 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* *
94743 TTGTGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
94764 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
*
94785 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
94806 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
*
94825 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
94846 TTGCGAT
1 TTGCGAT
94853 TTATTCCAAA
Statistics
Matches: 146, Mismatches: 31, Indels: 23
0.73 0.16 0.12
Matches are distributed among these distances:
18 9 0.06
19 43 0.29
20 12 0.08
21 74 0.51
23 8 0.05
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:94751 original size:40 final size:40
Alignment explanation
Indices: 94662--94873 Score: 363
Period size: 40 Copynumber: 5.2 Consensus size: 40
94652 TCCAAGTTCG
94662 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
94701 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
94741 CGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
94783 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
94823 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
*
94865 CATTGCGAT
1 CGTTGCGAT
94874 TTATTCCAAA
Statistics
Matches: 165, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
39 29 0.18
40 76 0.46
41 6 0.04
42 54 0.33
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:94804 original size:82 final size:82
Alignment explanation
Indices: 94662--94873 Score: 385
Period size: 82 Copynumber: 2.6 Consensus size: 82
94652 TCCAAGTTCG
94662 CGTTGCGATAGTCGAAGTTCGCGTTGCGA--T-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
94724 TTGCGATTTTCCAAATT
66 TTGCGATTTTCCAAATT
*
94741 CGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
94806 TTGCGATTTTCCAAATT
66 TTGCGATTTTCCAAATT
*
94823 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCATTGCGAT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
94874 TTATTCCAAA
Statistics
Matches: 127, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
79 28 0.22
81 1 0.01
82 98 0.77
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (82 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
TTGCGATTTTCCAAATT
Found at i:94870 original size:21 final size:21
Alignment explanation
Indices: 94846--94896 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
94836 GAAGTTCGCG
94846 TTGCGATTTATTCCAAATTCA
1 TTGCGATTTATTCCAAATTCA
*
94867 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCA
94888 TTGCGATTT
1 TTGCGATTT
94897 TCCCACATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (21 bp):
TTGCGATTTATTCCAAATTCA
Found at i:94890 original size:82 final size:81
Alignment explanation
Indices: 94662--94899 Score: 367
Period size: 82 Copynumber: 2.9 Consensus size: 81
94652 TCCAAGTTCG
94662 CGTTGCGATAGTCGAAGTTCGCGTTGCGA--T-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTC-CG
94724 TTGCGATTTTCCAAATT
65 TTGCGATTTTCCAAATT
*
94741 CGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTC-CG
94806 TTGCGATTTTCCAAATT
65 TTGCGATTTTCCAAATT
* * * *
94823 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCATTGCGATTTATTCCAAATT-C
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCGAAGTTCC
94887 GTTGCGATTTTCC
64 GTTGCGATTTTCC
94900 CACATAGTAT
Statistics
Matches: 148, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
79 28 0.19
81 1 0.01
82 111 0.75
84 8 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (81 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCCGT
TGCGATTTTCCAAATT
Found at i:95176 original size:21 final size:21
Alignment explanation
Indices: 95152--95223 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
95142 CGAAAAATAA
95152 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
95173 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
95192 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
95215 ATCGCAACG
1 ATCGCAACG
95224 AACTTGGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 10 0.23
21 23 0.53
23 10 0.23
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:95182 original size:38 final size:39
Alignment explanation
Indices: 95131--95225 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 39
95121 TTGCGATTTG
*
95131 GACTATCGTAACGAA-AAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATAAATAAATCGCAACGCGAACTTC
*
95169 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAA--T-AAATAAATCGCAACGCGAACTTC
95211 GACTATCGCAACGAA
1 GACTATCGCAACGAA
95226 CTTGGAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 14 0.27
42 37 0.73
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (39 bp):
GACTATCGCAACGAATAAATAAATCGCAACGCGAACTTC
Found at i:95183 original size:19 final size:19
Alignment explanation
Indices: 95161--95228 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
95151 AATCGCAACG
95161 CGAACTTCGACTATCGCAA
1 CGAACTTCGACTATCGCAA
* *
95180 CGAACTTGGAATAAATCGCAA
1 CGAACTTCGACT--ATCGCAA
95201 CGCGAACTTCGACTATCGCAA
1 --CGAACTTCGACTATCGCAA
95222 CGAACTT
1 CGAACTT
95229 GGAAAATGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 17 0.41
21 14 0.34
23 10 0.24
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (19 bp):
CGAACTTCGACTATCGCAA
Found at i:95202 original size:42 final size:42
Alignment explanation
Indices: 95147--95232 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
95137 CGTAACGAAA
95147 AATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 AATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
95189 AATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 AATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
95231 AA
1 AA
95233 AATGCAAGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (42 bp):
AATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
Found at i:95683 original size:18 final size:18
Alignment explanation
Indices: 95660--95695 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
95650 CTCCGGGCGA
95660 CCTTGTAGGTCGCCATGC
1 CCTTGTAGGTCGCCATGC
95678 CCTTGTAGGTCGCCATGC
1 CCTTGTAGGTCGCCATGC
95696 ACTCCGGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (18 bp):
CCTTGTAGGTCGCCATGC
Found at i:95744 original size:21 final size:21
Alignment explanation
Indices: 95718--95759 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
95708 CTACCCTTGC
95718 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
95739 TCAAACAGAGAGAATGAACGT
1 TCAAACAGAGAGAATGAACGT
95760 GTTGCATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.24, T:0.14
Consensus pattern (21 bp):
TCAAACAGAGAGAATGAACGT
Found at i:95822 original size:29 final size:29
Alignment explanation
Indices: 95789--95844 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
95779 TCCCAACACA
*
95789 TAGGTCGCCATGCCCTCAGGGCGACCTTG
1 TAGGTCGCCATGCACTCAGGGCGACCTTG
*
95818 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCAGGGCGACCT
95845 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.36, G:0.30, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCAGGGCGACCTTG
Found at i:95889 original size:33 final size:33
Alignment explanation
Indices: 95848--95932 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
95838 GCGACCTACC
*
95848 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
95881 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
95914 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
95933 TCGGATGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.08, C:0.39, G:0.27, T:0.26
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:95904 original size:10 final size:10
Alignment explanation
Indices: 95860--95966 Score: 52
Period size: 10 Copynumber: 9.7 Consensus size: 10
95850 CGCTCGGCTT
*
95860 CCCTCGGATT
1 CCCTCGGATG
*
95870 CCCTCGCATAG
1 CCCTCGGAT-G
*
95881 CTCGCTCGGTTG
1 C-C-CTCGGATG
95893 CCCTCGGATG
1 CCCTCGGATG
*
95903 CCCTCGCATAG
1 CCCTCGGAT-G
*
95914 CTCGTTCGGATGG
1 C-C-CTCGGAT-G
95927 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
95940 GCCTCGGATG
1 CCCTCGGATG
*
95950 CTCTCGGATG
1 CCCTCGGATG
*
95960 GCCTCGG
1 CCCTCGG
95967 TCGGATGGCC
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
10 43 0.59
11 4 0.05
12 6 0.08
13 14 0.19
14 6 0.08
ACGTcount: A:0.09, C:0.36, G:0.31, T:0.24
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:95936 original size:14 final size:14
Alignment explanation
Indices: 95914--95987 Score: 85
Period size: 14 Copynumber: 4.9 Consensus size: 14
95904 CCTCGCATAG
*
95914 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
95928 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
95942 CTCGGATGCTCTCGGATGGC
1 CTC-G--G---TCGGATGGC
95962 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
95976 CTCGGTCGGATG
1 CTCGGTCGGATG
95988 CCCAGCGTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
14 37 0.70
15 1 0.02
17 2 0.04
19 1 0.02
20 12 0.23
ACGTcount: A:0.08, C:0.28, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:95962 original size:34 final size:36
Alignment explanation
Indices: 95896--95980 Score: 129
Period size: 34 Copynumber: 2.4 Consensus size: 36
95886 TCGGTTGCCC
* *
95896 TCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 TCGGATGGCCTCGGATAGCTCG-TCGGATGGCCTCGG
95933 TCGGATGGCCTCGGAT-GCTC-TCGGATGGCCTCGG
1 TCGGATGGCCTCGGATAGCTCGTCGGATGGCCTCGG
95967 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
95981 TCGGATGCCC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 28 0.61
36 4 0.09
37 14 0.30
ACGTcount: A:0.09, C:0.31, G:0.36, T:0.24
Consensus pattern (36 bp):
TCGGATGGCCTCGGATAGCTCGTCGGATGGCCTCGG
Found at i:97695 original size:25 final size:25
Alignment explanation
Indices: 97660--97708 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
97650 CCATATAATA
*
97660 TTTAAAATAAAATAAGTTTAATATC
1 TTTAAAATAAAATAAGTTCAATATC
*
97685 TTTAAACTAAAATAAGTTCAATAT
1 TTTAAAATAAAATAAGTTCAATAT
97709 AATACTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (25 bp):
TTTAAAATAAAATAAGTTCAATATC
Found at i:98061 original size:17 final size:18
Alignment explanation
Indices: 98039--98084 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
98029 GGATTATGAC
**
98039 TTAGGGTTTTTAT-TTAT
1 TTAGGGTTTTTATAGAAT
98056 TTAGGGTTTTT-TAGAAT
1 TTAGGGTTTTTATAGAAT
98073 TTAGGGTTTTTA
1 TTAGGGTTTTTA
98085 GGACATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.59
Consensus pattern (18 bp):
TTAGGGTTTTTATAGAAT
Found at i:100220 original size:121 final size:121
Alignment explanation
Indices: 99940--100562 Score: 966
Period size: 121 Copynumber: 5.0 Consensus size: 121
99930 TTTAATTTCG
99940 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
100005 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
100061 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
* *
100126 TTGTATATTTATATTAT-ATAT-ATATTA-TTTTATTTTTTCGTGGTGTGTCAAAT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
*
100179 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATAT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
100244 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
* *
100300 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATGT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
* *
100365 TTGTATATTTATATTATAATATAATATTA-TTTTATTATTTCGTGGTGTCTAATATAAGAGGTGT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTG-----TGT-CGA-----
100429 ATTT
120 A--T
*
100433 ATAATATTATTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTGA
1 -T---ATT-TTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAA
* *
100498 CATGTTTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCTAAT
61 CATGTTTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
100559 TATT
1 TATT
100563 GTCAGATATA
Statistics
Matches: 465, Mismatches: 15, Indels: 43
0.89 0.03 0.08
Matches are distributed among these distances:
118 105 0.23
119 10 0.02
120 28 0.06
121 197 0.42
122 3 0.01
125 3 0.01
126 3 0.01
128 1 0.00
131 1 0.00
133 2 0.00
134 3 0.01
137 3 0.01
138 88 0.19
139 18 0.04
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (121 bp):
TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAAT
Found at i:100365 original size:239 final size:246
Alignment explanation
Indices: 99940--100562 Score: 999
Period size: 239 Copynumber: 2.5 Consensus size: 246
99930 TTTAATTTCG
99940 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
100005 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATTTTTTT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATTTTTTT
*
100070 CATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGTTTGTATATT
131 CATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTAACATGTTTGTATATT
* *
100135 TATATTAT-ATAT-ATATTATTTTATTTTTTCGTGGTG-T-GT-CA-A-AT
196 TATATTATAATATAATATTATTTTATTATTTCGTGGTGATAGTGCATATAA
*
100179 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATAT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
100244 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATTTTTTT
66 TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATTTTTTT
*
100309 CATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATGTTTGTATATT
131 CATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTAACATGTTTGTATATT
*
100374 TATATTATAATATAATATTATTTTATTATTTCGTGGTGTCTAATATAAGAGGTGTATTTATAA
196 TATATTATAATATAATATTATTTTATTATTTCGTGGTG------AT---A-GTGCA--TATAA
*
100437 TATTATTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTGACATG
1 TATT-TTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATG
* *
100502 TTTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCTAATTATT
65 TTTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATT
100563 GTCAGATATA
Statistics
Matches: 354, Mismatches: 10, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
239 200 0.56
240 4 0.01
241 23 0.06
248 1 0.00
253 2 0.01
254 1 0.00
257 1 0.00
258 5 0.01
259 117 0.33
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (246 bp):
TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTAACATGT
TTGTATATTTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTGTCGAATTATTTTTTT
CATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTAACATGTTTGTATATT
TATATTATAATATAATATTATTTTATTATTTCGTGGTGATAGTGCATATAA
Found at i:100456 original size:138 final size:138
Alignment explanation
Indices: 100300--100551 Score: 470
Period size: 138 Copynumber: 1.8 Consensus size: 138
100290 TGTGTCGAAT
100300 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATGT
1 TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATGT
*
100365 TTGTATATTTATATTATAATATAATATTA-TTTTATTATTTCGTGGTGTCTAATATAAGAGGTGT
66 TTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTCTAATATAAGAGGTGT
100429 ATTTATAA
131 ATTTATAA
*
100437 TATTATTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTTCATATATTTTGACATG
1 TATT-TTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATG
100502 TTTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGT
65 TTTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGT
100552 GTCTAATTAT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
137 4 0.04
138 88 0.79
139 19 0.17
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (138 bp):
TATTTTTTTCATAATAAGAGGTGTATTTATACATTAATAATATATTTACATATATTTTGACATGT
TTGTATAATTATATTATAATATAATATTATTTTTATTATTTCGTGGTGTCTAATATAAGAGGTGT
ATTTATAA
Found at i:100575 original size:2 final size:2
Alignment explanation
Indices: 100568--100648 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
100558 TTATTGTCAG
100568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100649 ATGCAAACTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:103811 original size:14 final size:15
Alignment explanation
Indices: 103787--103816 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
103777 TAACCTCGTT
103787 ACCTCTAAACCCTAA
1 ACCTCTAAACCCTAA
103802 ACCT-TAAACCCTAA
1 ACCTCTAAACCCTAA
103816 A
1 A
103817 TACTATTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
ACCTCTAAACCCTAA
Found at i:109661 original size:30 final size:30
Alignment explanation
Indices: 109625--109683 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
109615 ATGGCTAGGT
109625 AGGTTGTCGTGTGCTCCTGGAGACCTATGA
1 AGGTTGTCGTGTGCTCCTGGAGACCTATGA
*
109655 AGGTTGTCGTGTGCTCCTGGAGACTTATG
1 AGGTTGTCGTGTGCTCCTGGAGACCTATG
109684 GAAGTCACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.34, T:0.32
Consensus pattern (30 bp):
AGGTTGTCGTGTGCTCCTGGAGACCTATGA
Found at i:110062 original size:12 final size:12
Alignment explanation
Indices: 110045--110078 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
110035 CTCGAGACTC
110045 GAGCTCGATTTT
1 GAGCTCGATTTT
110057 GAGCTCGATTTT
1 GAGCTCGATTTT
110069 GAGCTCGATT
1 GAGCTCGATT
110079 CAAGCTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (12 bp):
GAGCTCGATTTT
Found at i:110395 original size:21 final size:21
Alignment explanation
Indices: 110370--110463 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
110360 TGGCATAACT
110370 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
*
110391 TAAACCTTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* *
110412 TAAACCCTAA-ACTTTAAACCT
1 TAAACCCTAACAC-ATAAACCC
* * *
110433 TAAATCCTATCACATAAACTC
1 TAAACCCTAACACATAAACCC
*
110454 TAAATCCTAA
1 TAAACCCTAA
110464 ACCTTAAACC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:110396 original size:7 final size:7
Alignment explanation
Indices: 110370--110473 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
110360 TGGCATAACT
110370 TAAACCC
1 TAAACCC
*
110377 T-AACACA
1 TAAAC-CC
110384 TAAACCC
1 TAAACCC
110391 TAAA-CC
1 TAAACCC
* *
110397 TTAACACA
1 TAAAC-CC
110405 TAAACCC
1 TAAACCC
110412 TAAACCC
1 TAAACCC
**
110419 TAAACTT
1 TAAACCC
*
110426 TAAACCT
1 TAAACCC
*
110433 TAAATCC
1 TAAACCC
* *
110440 T-ATCACA
1 TAAAC-CC
*
110447 TAAACTC
1 TAAACCC
*
110454 TAAATCC
1 TAAACCC
*
110461 TAAACCT
1 TAAACCC
110468 TAAACC
1 TAAACC
110474 TTATCACATA
Statistics
Matches: 70, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
6 9 0.13
7 51 0.73
8 10 0.14
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:110451 original size:35 final size:35
Alignment explanation
Indices: 110412--110484 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
110402 ACATAAACCC
*
110412 TAAACCCTAAA-CTTTAAACCTTAAATCC-TATCACA
1 TAAACCCTAAATC-CTAAACCTTAAA-CCTTATCACA
*
110447 TAAACTCTAAATCCTAAACCTTAAACCTTATCACA
1 TAAACCCTAAATCCTAAACCTTAAACCTTATCACA
110482 TAA
1 TAA
110485 TTAGTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 2 0.06
35 31 0.91
36 1 0.03
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (35 bp):
TAAACCCTAAATCCTAAACCTTAAACCTTATCACA
Found at i:110464 original size:42 final size:42
Alignment explanation
Indices: 110370--110476 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
110360 TGGCATAACT
* *
110370 TAAACCCT-AACACATAAACCCTAAACCTTAACACATAAACCC
1 TAAACCCTAAAC-CTTAAACCTTAAACCTTAACACATAAACCC
* * *
110412 TAAACCCTAAACTTTAAACCTTAAATCC-TATCACATAAACTC
1 TAAACCCTAAACCTTAAACCTTAAA-CCTTAACACATAAACCC
*
110454 TAAATCCTAAACCTTAAACCTTA
1 TAAACCCTAAACCTTAAACCTTA
110477 TCACATAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 51 0.91
43 5 0.09
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (42 bp):
TAAACCCTAAACCTTAAACCTTAAACCTTAACACATAAACCC
Found at i:110471 original size:21 final size:20
Alignment explanation
Indices: 110405--110474 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
110395 CCTTAACACA
* *
110405 TAAACCCTAAACCCTAAACTT
1 TAAA-CCTAAATCCTAAACCT
* *
110426 TAAACCTTAAATCCT-ATCACA
1 TAAACC-TAAATCCTAAAC-CT
110447 TAAACTCTAAATCCTAAACCT
1 TAAAC-CTAAATCCTAAACCT
110468 TAAACCT
1 TAAACCT
110475 TATCACATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.15
21 30 0.77
22 3 0.08
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAACCTAAATCCTAAACCT
Found at i:110734 original size:14 final size:14
Alignment explanation
Indices: 110717--110757 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
110707 TTTATTCATC
110717 AATAATGTATTTTT
1 AATAATGTATTTTT
110731 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
110742 AATAATGTAATTTT
1 AATAATGTATTTTT
110756 AA
1 AA
110758 AAAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:113803 original size:33 final size:33
Alignment explanation
Indices: 113751--113829 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
113741 TTTATTTTGT
113751 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
*
113783 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
113816 TCGGGTTCGGGTTT
1 TCGGG-TCGGGTTT
113830 AGGGTGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 10 0.23
33 26 0.59
34 8 0.18
ACGTcount: A:0.11, C:0.10, G:0.37, T:0.42
Consensus pattern (33 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
Found at i:113879 original size:91 final size:93
Alignment explanation
Indices: 113776--113977 Score: 327
Period size: 96 Copynumber: 2.2 Consensus size: 93
113766 TAAGTGTGAT
*
113776 ATTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA-T-TCGGGTCGGGTTCGGGTTTAGGGTGAAA
1 ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTATCGGGTCGGGTTCGGGTTTAGGGTGAAA
* *
113839 AAAACGGACCGACCCGAAAATATATATA
66 AAAACGGACAGACCCAAAAATATATATA
113867 ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAAGTCGGGTCGGGTTCGGGTTTAGGGTG
1 ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATT--A-TCGGGTCGGGTTCGGGTTTAGGGTG
*
113932 AAAAAACCGGACAGACCCAAAAATATATATA
63 AAAAAAACGGACAGACCCAAAAATATATATA
113963 ATTCGGGTCGGGTCG
1 ATTCGGGTCGGGTCG
113978 TGTCGGATTT
Statistics
Matches: 102, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
91 33 0.32
92 1 0.01
96 68 0.67
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (93 bp):
ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATTATCGGGTCGGGTTCGGGTTTAGGGTGAAA
AAAACGGACAGACCCAAAAATATATATA
Found at i:114074 original size:37 final size:38
Alignment explanation
Indices: 114032--114112 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
114022 TTTATTTTGT
114032 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
*
114069 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
114107 TCGGGT
1 TCGGGT
114113 TCGAGTTTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 10 0.24
38 32 0.76
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.38
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
Done.