Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_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: 3217407
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:755086 original size:191 final size:188
Alignment explanation
Indices: 754751--755131 Score: 527
Period size: 191 Copynumber: 2.0 Consensus size: 188
754741 TGCATTAATA
*
754751 CATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTTCATGCATTTTA
1 CATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTCCATGCATTTTA
* * * *
754816 GTTATGGCATCCATTCATTCATTTTAATTATTGCATCCTTTCATGCCTTAATGCATTCTTTCATG
66 GTTATGGCATCCATTCATGCA-CTTAA-TATTGCATCATTTCATGCCTTAATGCATCCTTTCATG
*
754881 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTTAATTATGG
129 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCA-TTTTAATTATGG
* * **
754942 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCTTTAATGCATCCTTCCATGCATTTTA
1 CATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTCCATGCATTTTA
* * *
755007 GTTATGGTATCCTTTCATGC-CTT-A-A-TGCATCATTTCATGCATTTAAATAATGTCATCCTTT
66 GTTATGGCATCCATTCATGCACTTAATATTGCATCATTTCATGC--CT---TAATG-CATCCTTT
*
755068 CATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGG
125 CATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGG
755132 ATTCAGTTTA
Statistics
Matches: 170, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
185 14 0.08
186 1 0.01
187 1 0.01
188 1 0.01
189 2 0.01
190 17 0.10
191 134 0.79
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (188 bp):
CATCCGTTCATGCATTTTAATCATGGCATCCTTTCATGCCCTAATGCATCCTTCCATGCATTTTA
GTTATGGCATCCATTCATGCACTTAATATTGCATCATTTCATGCCTTAATGCATCCTTTCATGCA
TTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGG
Found at i:755110 original size:46 final size:47
Alignment explanation
Indices: 754822--755131 Score: 236
Period size: 46 Copynumber: 6.6 Consensus size: 47
754812 TTTAGTTATG
* * *
754822 GCATCCATTCATTCATTTTAATTATTGCATCCTTTCATGC-CTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCACTTAAT
*
754868 GCATTCTTTCATGCATTTTAATTATGGCATCCTTTCATGC-CTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCACTTAAT
* * *
754914 GCATTCGTTCATGCATTTTTAATTATGGCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGCA-TTTTAATTATGGCATCCTTTCATGCA-CTT-A--AT
* *
754966 GGCATCCTTTCATGC--TTT-A--AT-GCATCCTTCCATGCATTTTAGTTAT
1 -GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCA-CTTA---AT
* * * *
755012 GGTATCCTTTCATGC--CTT-A--AT-GCATCATTTCATGCATTTAAATAAT
1 -GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCA-CT---TAAT
*
755058 GTCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC-CTTAAT
1 G-CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCACTTAAT
*
755105 GCATCCGTTCATGCATTTTAATTATGG
1 GCATCCTTTCATGCATTTTAATTATGG
755132 ATTCAGTTTA
Statistics
Matches: 226, Mismatches: 20, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
45 2 0.01
46 151 0.67
47 32 0.14
48 2 0.01
49 5 0.02
50 5 0.02
51 2 0.01
52 15 0.07
53 12 0.05
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (47 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCACTTAAT
Found at i:767491 original size:20 final size:21
Alignment explanation
Indices: 767468--767507 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
767458 AAAAACTACC
767468 CATTTT-TTTAAAAAACATTT
1 CATTTTATTTAAAAAACATTT
*
767488 CATTTTATTTTAAAAACATT
1 CATTTTATTTAAAAAACATT
767508 ACAAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
CATTTTATTTAAAAAACATTT
Found at i:769003 original size:3 final size:3
Alignment explanation
Indices: 768995--769019 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
768985 AACCCATTTG
768995 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
769020 AGGTAAACAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:769978 original size:23 final size:23
Alignment explanation
Indices: 769934--769994 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
769924 CAACATTTCT
*
769934 TAATAAAAACTAAAATAATAATTG
1 TAATAAAAACTAAATTAATAA-TG
**
769958 TAATAAAAA-TAAATTTTTAATG
1 TAATAAAAACTAAATTAATAATG
*
769980 -AATTAAAAATTAAAT
1 TAA-TAAAAACTAAAT
769995 GACTATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.06
22 8 0.25
23 13 0.41
24 9 0.28
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATAAAAACTAAATTAATAATG
Found at i:770250 original size:13 final size:13
Alignment explanation
Indices: 770232--770256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
770222 GTAAGTACCT
770232 TTTTTGTATTTTG
1 TTTTTGTATTTTG
770245 TTTTTGTATTTT
1 TTTTTGTATTTT
770257 TATTTGATCA
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:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (13 bp):
TTTTTGTATTTTG
Found at i:773536 original size:2 final size:2
Alignment explanation
Indices: 773529--773560 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
773519 TAACTGAAGC
773529 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
773561 ACAATTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:777986 original size:18 final size:17
Alignment explanation
Indices: 777954--777996 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
777944 CATAGTATAC
*
777954 ATATTTAAATTATATTT
1 ATATTTAAATAATATTT
777971 ATATTATAAATAATATTT
1 ATATT-TAAATAATATTT
777989 A-ATTTAAA
1 ATATTTAAA
777997 AAAATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTAAATAATATTT
Found at i:778278 original size:27 final size:27
Alignment explanation
Indices: 778230--778401 Score: 218
Period size: 27 Copynumber: 6.4 Consensus size: 27
778220 TAATTCAGTG
* * *
778230 CTGACTGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAACACAAAAGTACATT
* * * *
778257 TTGAATAATTCAGCACATAAGTACATT
1 CTGAATGATTCAACACAAAAGTACATT
* * * *
778284 TTGAATGATTTAACATAAAAATACATT
1 CTGAATGATTCAACACAAAAGTACATT
778311 CTGAATGATTCAACACAAAAGTACATT
1 CTGAATGATTCAACACAAAAGTACATT
778338 CTGAATGATTCAACACAAAAGTACATT
1 CTGAATGATTCAACACAAAAGTACATT
* *
778365 CTGAATGATTCAACACAGAAGTATATT
1 CTGAATGATTCAACACAAAAGTACATT
*
778392 TTGAATGATT
1 CTGAATGATT
778402 TAGAGTTATT
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
CTGAATGATTCAACACAAAAGTACATT
Found at i:788500 original size:24 final size:24
Alignment explanation
Indices: 788467--788517 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
788457 TAATATCCAT
* * *
788467 TTCCTTTATTTTTTTCGATTACTC
1 TTCCTCTATTTTCTTCAATTACTC
*
788491 TTCCTCTATTTTCTTCAATTATTC
1 TTCCTCTATTTTCTTCAATTACTC
788515 TTC
1 TTC
788518 TCTCACAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.61
Consensus pattern (24 bp):
TTCCTCTATTTTCTTCAATTACTC
Found at i:791174 original size:24 final size:24
Alignment explanation
Indices: 791146--791191 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
791136 TCCATTTCCT
791146 CTATTTTCTTCAATTACTCTTCAA
1 CTATTTTCTTCAATTACTCTTCAA
*
791170 CTATTTTCTTCGATTACTCTTC
1 CTATTTTCTTCAATTACTCTTC
791192 TTCTCTCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.26, G:0.02, T:0.52
Consensus pattern (24 bp):
CTATTTTCTTCAATTACTCTTCAA
Found at i:795320 original size:48 final size:48
Alignment explanation
Indices: 795244--795335 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
795234 TATATTATGG
795244 CATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTTCAATTCTGT
1 CATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTTCAATTCTGT
* *
795292 CATCTTTTCATGCCTTAATGCATCATTTCATGCATTTTTCAATT
1 CATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTTCAATT
795336 ATGGATTCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.07, T:0.47
Consensus pattern (48 bp):
CATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTTCAATTCTGT
Found at i:795929 original size:20 final size:20
Alignment explanation
Indices: 795904--795955 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
795894 GATGTTTGCT
795904 TGGTATCGATACCCC-TACAA
1 TGGTATCGATACCCCAT-CAA
**
795924 TGGTATCGATACTGCATCAA
1 TGGTATCGATACCCCATCAA
795944 TGGTATCGATAC
1 TGGTATCGATAC
795956 TGGTTGAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCCATCAA
Found at i:803068 original size:2 final size:2
Alignment explanation
Indices: 803061--803104 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
803051 ATGCATTTTA
803061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
803102 AT A
1 AT A
803105 GCATCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:803171 original size:48 final size:48
Alignment explanation
Indices: 803099--803205 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
803089 ATATATATAT
* * * *
803099 ATTATAGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTCTCA
1 ATTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCA
*
803147 ATTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTTCA
1 ATTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCA
803195 ATTATGG-ATTC
1 ATTATGGCATTC
803206 GATTTAGAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 4 0.07
48 50 0.93
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.45
Consensus pattern (48 bp):
ATTATGGCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCA
Found at i:803759 original size:95 final size:96
Alignment explanation
Indices: 803596--803817 Score: 257
Period size: 95 Copynumber: 2.3 Consensus size: 96
803586 ATGCTCTATA
** * * * * ** * *
803596 GTATCGATACTATTACCCTGGTACCGATACTTCTATACCATGGTATCGATACCTCCGTCCGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
* ** * *
803661 CGATACCGAATTTAGCTTTGATGTTT-CCTG
66 CGATACCAAAAGTAGATTCGATGTTTGCCTG
* *
803691 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATAGTAAAGATACCCCCTTACGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
*
803756 CGATACCAAAAGTAGATTCGATGTTTGCTTG
66 CGATACCAAAAGTAGATTCGATGTTTGCCTG
* *
803787 GTATCGATACCCCTACAATGGTATCGATACT
1 GTATCGATACCCTTACCATGGTATCGATACT
803818 GATTGAATCA
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
95 74 0.70
96 32 0.30
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (96 bp):
GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
CGATACCAAAAGTAGATTCGATGTTTGCCTG
Found at i:811677 original size:20 final size:21
Alignment explanation
Indices: 811644--811682 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
811634 TTTTATTGAG
811644 TAAATTACATG-TTTAGTACA
1 TAAATTACATGTTTTAGTACA
811664 TAAATTATCA-GTTTTAGTA
1 TAAATTA-CATGTTTTAGTA
811683 TCTAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
TAAATTACATGTTTTAGTACA
Found at i:812388 original size:37 final size:37
Alignment explanation
Indices: 812335--812439 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
812325 CATTTTCGTC
* * **
812335 CTACTAGAATTCAAACTCTTAAAAATAGGATTTAATT
1 CTACTAGGATTTAAACTCTTAAAAATAGGATAGAATT
* *
812372 TTACTAGGATTTAAACTCTTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCTTAAAAATAGGATAGAATT
* * *
812409 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCTTAAAAATAGGAT
812440 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCTTAAAAATAGGATAGAATT
Found at i:813046 original size:24 final size:23
Alignment explanation
Indices: 812994--813058 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
812984 ATTTTTATTA
812994 TTACTATTATATTTATTATTATT-T
1 TTACTATTATATTT-TTATT-TTAT
*
813018 TTACTATTATATTTTTCTTTTAT
1 TTACTATTATATTTTTATTTTAT
813041 TCTACTTATTTATATTTT
1 T-TAC-TA-TTATATTTT
813059 ATATGTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 17 0.47
25 2 0.06
26 9 0.25
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (23 bp):
TTACTATTATATTTTTATTTTAT
Found at i:813076 original size:22 final size:23
Alignment explanation
Indices: 813049--813096 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
813039 ATTCTACTTA
*
813049 TTTATATTTTA-TATGTA-TATTT
1 TTTATAATTTATTAT-TATTATTT
813071 TTTATAATTTATTATTATTATTT
1 TTTATAATTTATTATTATTATTT
813094 TTT
1 TTT
813097 TACTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATAATTTATTATTATTATTT
Found at i:813136 original size:12 final size:11
Alignment explanation
Indices: 813114--813143 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
813104 TCTTTCTTTT
813114 TATTATTCTTG
1 TATTATTCTTG
813125 TATTATTACTTG
1 TATTATT-CTTG
813137 TATTATT
1 TATTATT
813144 TTATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:813353 original size:2 final size:2
Alignment explanation
Indices: 813346--813393 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
813336 TTATTGTTGT
* *
813346 TA TA TA TA CA T- TT 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
813387 TA TA TA T
1 TA TA TA T
813394 TCTACACAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:813659 original size:12 final size:11
Alignment explanation
Indices: 813642--813757 Score: 51
Period size: 11 Copynumber: 10.1 Consensus size: 11
813632 AATTTATATA
813642 TATTTACTTTTT
1 TATTTA-TTTTT
*
813654 TATTTATTTTA
1 TATTTATTTTT
* * *
813665 TATATATATAT
1 TATTTATTTTT
*
813676 TATTCGTACTTTGT
1 TATT--TA-TTTTT
813690 TA-TTATTATTT
1 TATTTATT-TTT
* *
813701 TGTTTA-ATTT
1 TATTTATTTTT
813711 T-TTTATTTTCT
1 TATTTATTTT-T
*
813722 T-TTTCTTTTT
1 TATTTATTTTT
813732 TATATATATTTTAT
1 TAT-T-TATTTT-T
813746 TATTTATTTTT
1 TATTTATTTTT
813757 T
1 T
813758 TTACTTACTA
Statistics
Matches: 79, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
9 4 0.05
10 10 0.13
11 31 0.39
12 16 0.20
13 9 0.11
14 9 0.11
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:816733 original size:75 final size:76
Alignment explanation
Indices: 816626--816822 Score: 281
Period size: 75 Copynumber: 2.6 Consensus size: 76
816616 GCTGTACAAG
* * * *
816626 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C
1 GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
**
816689 AAAACTGTTTA
66 AAAACCATTTA
* *
816700 GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
816765 AAAACCATTTA
66 AAAACCATTTA
* *
816776 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCACCTAT-GGGGGGAATCGGTTCCCTCCGAGCA
816823 ATCTGTAATT
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
74 17 0.15
75 39 0.35
76 30 0.27
77 24 0.22
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
AAAACCATTTA
Found at i:817280 original size:106 final size:106
Alignment explanation
Indices: 817060--818370 Score: 2176
Period size: 106 Copynumber: 12.4 Consensus size: 106
817050 TGTTTCAACA
* * ** * *
817060 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
817124 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
817165 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817230 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
817271 ATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-ACGAAGGGACCGTTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
817335 ACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
817376 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817441 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
817482 ATATTGGACTCGAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* ** * * *
817547 ATTTCCCAATTTTGGAGCCAATTTCAACTCCACAGCGAAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
817588 ATATTGGACTTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817653 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* ** *
817694 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817759 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
817800 ATATTGGACTGCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
817865 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
817906 ATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817971 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
818012 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
818077 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
818118 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
818183 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
818224 GTATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
818289 GCTTCCCAATTTCAGATCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
818330 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
818371 TGTCAACAAA
Statistics
Matches: 1130, Mismatches: 74, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
105 158 0.14
106 972 0.86
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
Found at i:817643 original size:212 final size:212
Alignment explanation
Indices: 817060--818848 Score: 2651
Period size: 212 Copynumber: 8.6 Consensus size: 212
817050 TGTTTCAACA
* * ** * *
817060 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
817124 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
817189 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
817254 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
*
817271 ATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-ACGAAGGGACCGTTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
817335 ACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
817400 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
817465 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
* *
817482 ATATTGGACTCGAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* ** * * * *
817547 ATTTCCCAATTTTGGAGCCAATTTCAACTCCACAGCGAAAGATATTGGACTTCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
817612 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
817677 CAACTTCACAACGAAGG
196 CAACTTCACAGCGAAGG
* ** *
817694 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
817759 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTGCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
817824 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
817889 CAACTTCACAACGAAGG
196 CAACTTCACAGCGAAGG
* *
817906 ATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817971 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
818036 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
818101 CAACTTCACAACGAAGG
196 CAACTTCACAGCGAAGG
*
818118 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * *
818183 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGGTATTGGACTCAAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
818248 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAGCTTCCCAATTTCAGATCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
818313 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
* *
818330 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
818383 ACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
818448 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
818513 CAACTTCACAGCGTAGG
196 CAACTTCACAGCGAAGG
* *
818530 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * * * *
818595 ACCTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTTGAAC-CCAAGGCAACACAA
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAA
* * * * * *
818659 GCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAA-TAA-AA-TT-TC-A-TTCAGAGTCAAT
130 GTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
818717 TTCAACTTCACAGCGAAGG
194 TTCAACTTCACAGCGAAGG
* * *
818736 ATATTGGACTCGAGACAACACAAGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAAC
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAAC
* ** * * *
818796 AATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
65 AACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
818849 AGAATAATGC
Statistics
Matches: 1448, Mismatches: 112, Indels: 44
0.90 0.07 0.03
Matches are distributed among these distances:
200 186 0.13
201 3 0.00
202 67 0.05
203 1 0.00
204 1 0.00
206 55 0.04
207 1 0.00
208 2 0.00
209 2 0.00
210 26 0.02
211 213 0.15
212 889 0.61
213 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (212 bp):
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGG
Found at i:817791 original size:318 final size:317
Alignment explanation
Indices: 817060--818851 Score: 2677
Period size: 318 Copynumber: 5.7 Consensus size: 317
817050 TGTTTCAACA
* ** * *
817060 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
817124 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
817189 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
817254 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-ACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * *
817318 TTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
817376 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * *
817441 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAAAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
**
817506 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * *
817571 CAACTCCACAGCGAAAGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGAC-TCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
817636 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
817694 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
817759 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTGCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
817824 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * *
817889 CAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
817954 CTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
818012 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
818077 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
818142 TTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
818207 CAACTTCACAGCGAAGGGTATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * * *
818272 CTGGTTGTCAATAAACAGCTTCCCAATTTCAGATCCAATTTCAACTTCACAGCGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
818330 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
818383 ACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
818448 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
818513 CAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * *
818578 CTGGTTGTCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * * * * * *
818636 ATCTTGAAC-CCAAGGCAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAA-TAA
1 ATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAA
* * * *
818698 -AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
64 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* ** *
818758 AGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAA
129 AGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
*
818818 TTTCAACTTCAC-GACGGAGGATATTGGACTCAGA
193 TTTCAACTTCACAG-CGAAGGATATTGGACTCAGA
818852 ATAATGCTAC
Statistics
Matches: 1358, Mismatches: 97, Indels: 51
0.90 0.06 0.03
Matches are distributed among these distances:
305 2 0.00
306 282 0.21
307 7 0.01
308 72 0.05
312 54 0.04
313 1 0.00
314 3 0.00
315 2 0.00
316 58 0.04
317 177 0.13
318 700 0.52
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (317 bp):
ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
Found at i:818404 original size:106 final size:102
Alignment explanation
Indices: 817060--818848 Score: 2121
Period size: 106 Copynumber: 17.1 Consensus size: 102
817050 TGTTTCAACA
* * ** * * *
817060 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAAAA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAA
*
817125 TTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
66 ---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
817165 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
817230 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
817271 ATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-ACGAAGGGACCGTTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
* *
817335 ACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGG
65 AC--C-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
817376 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
817441 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
817482 ATATTGGACTCGAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
** * *
817547 ATTTCCCAATTTTGGAGCCAATTTCAACTCCACAGCGAAAG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
817588 ATATTGGACTTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
*
817653 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* ** * *
817694 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
*
817759 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65 AC--C-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
817800 ATATTGGACTGCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
*
817865 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
817906 ATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
*
817971 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65 AC--C-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
818012 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
*
818077 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65 AC--C-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
818118 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
818183 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
818224 GTATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
* *
818289 GCTTCCCAATTTCAGATCCAATTTCAACTTCACAGCGAAGG
65 ---ACCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
818330 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
* *
818383 ACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGG
65 AC--C-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
818424 CTATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
* *
818489 ATTTCCCAATTTCAGATCCAATTTCAACTTCACAGCGTAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
818530 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-A
* *
818595 ACCTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGG
65 A---CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * * * * * *
818636 ATCTTGAAC-CCAAGGCAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAATAAA
1 ATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAATAAA
*** *
818699 ATTTC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGG
64 AACCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * * *
818736 ATATTGGACTCGAGACAACACAAGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAAC
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAA-
** * *
818796 AATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGG
64 AA---CCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGG
818838 ATATTGGACTC
1 ATATTGGACTC
818849 AGAATAATGC
Statistics
Matches: 1514, Mismatches: 117, Indels: 109
0.87 0.07 0.06
Matches are distributed among these distances:
91 1 0.00
93 1 0.00
94 79 0.05
95 4 0.00
96 21 0.01
97 1 0.00
98 1 0.00
100 51 0.03
101 3 0.00
102 40 0.03
103 2 0.00
104 1 0.00
105 159 0.11
106 1140 0.75
107 6 0.00
109 4 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (102 bp):
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAAA
CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
Found at i:819641 original size:37 final size:37
Alignment explanation
Indices: 819579--819683 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
819569 CCTTTTCGTC
* *
819579 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * * *
819616 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
819653 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
819684 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:820336 original size:15 final size:15
Alignment explanation
Indices: 820237--820340 Score: 55
Period size: 15 Copynumber: 7.3 Consensus size: 15
820227 TTTCTTTGCA
820237 TTTTTATTATTATA-
1 TTTTTATTATTATAT
820251 --TTTATTA-T-TA-
1 TTTTTATTATTATAT
*
820261 TTTTTACTATTATAT
1 TTTTTATTATTATAT
*
820276 TTTCCTT-TTATTCTACT
1 TTT--TTATTATTATA-T
*
820293 TATTTA-TATTATA-
1 TTTTTATTATTATAT
* * * *
820306 TATGTATTTTTTTAT
1 TTTTTATTATTATAT
820321 TTTTTATTATTATAT
1 TTTTTATTATTATAT
820336 TTTTT
1 TTTTT
820341 TACTTTCTCT
Statistics
Matches: 67, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
10 2 0.03
11 1 0.01
12 13 0.19
13 6 0.09
14 7 0.10
15 27 0.40
16 6 0.09
17 5 0.07
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (15 bp):
TTTTTATTATTATAT
Found at i:820381 original size:12 final size:11
Alignment explanation
Indices: 820351--820396 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
820341 TACTTTCTCT
*
820351 TTCTTTTATTA
1 TTCTTGTATTA
820362 TTCTTGTATTA
1 TTCTTGTATTA
820373 TTACTTGTATTA
1 TT-CTTGTATTA
*
820385 TT-TTATATTA
1 TTCTTGTATTA
820395 TT
1 TT
820397 TATTTTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 11 0.34
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:820930 original size:33 final size:31
Alignment explanation
Indices: 820861--820932 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 31
820851 TCGTCATTTA
* *
820861 ATTTATTA-ATTTATATATATTTACTTTTTT
1 ATTTATTATATATATATATATTTACTTTGTT
820891 ATTTATTATATATATATATTATTCATACTTTGTT
1 ATTTATTATATATATATA-TATT--TACTTTGTT
820925 A-TTATTAT
1 ATTTATTAT
820933 TTTGTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 8 0.22
31 8 0.22
32 4 0.11
33 7 0.19
34 9 0.25
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (31 bp):
ATTTATTATATATATATATATTTACTTTGTT
Found at i:820943 original size:9 final size:8
Alignment explanation
Indices: 820929--820987 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 8
820919 TTTGTTATTA
820929 TTATTTTGT
1 TTATTTT-T
820938 TTATTTTAT
1 TTATTTT-T
820947 TTATTTTCT
1 TTATTTT-T
820956 TT-TTTTT
1 TTATTTTT
* *
820963 TTATATAT
1 TTATTTTT
*
820971 TTA-TTAT
1 TTATTTTT
820978 TTATTTTT
1 TTATTTTT
820986 TT
1 TT
820988 TACTTACTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
7 9 0.21
8 15 0.36
9 18 0.43
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (8 bp):
TTATTTTT
Found at i:820946 original size:20 final size:19
Alignment explanation
Indices: 820923--820972 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
820913 TCATACTTTG
*
820923 TTATTATTATTTTGTTTATT
1 TTATTATTATTTTCTTT-TT
820943 TTA-T-TTATTTTCTTTTT
1 TTATTATTATTTTCTTTTT
*
820960 TTTTTATATATTT
1 TTATTAT-TATTT
820973 ATTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 2 0.08
20 8 0.32
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
TTATTATTATTTTCTTTTT
Found at i:820988 original size:24 final size:25
Alignment explanation
Indices: 820923--820998 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 25
820913 TCATACTTTG
* *
820923 TTATTA-TTATTTTGTTTATTTTAT
1 TTATTATTTATTTTTTTTATTATAT
*
820947 TTATT-TTCTTTTTTTTTTA-TATAT
1 TTATTATT-TATTTTTTTTATTATAT
820971 TTATTATTTATTTTTTTTACTTACTAT
1 TTATTATTTATTTTTTTTA-TTA-TAT
820998 T
1 T
820999 ATCATTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
24 25 0.60
25 11 0.26
26 2 0.05
27 4 0.10
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (25 bp):
TTATTATTTATTTTTTTTATTATAT
Found at i:821879 original size:15 final size:15
Alignment explanation
Indices: 821859--821887 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
821849 CACGTAATCG
821859 GATATGTTTTAGTCT
1 GATATGTTTTAGTCT
821874 GATATGTTTTAGTC
1 GATATGTTTTAGTC
821888 GGATCTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (15 bp):
GATATGTTTTAGTCT
Found at i:823103 original size:42 final size:42
Alignment explanation
Indices: 823045--823154 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
823035 ACAATAGTTA
**
823045 ATATATGTAACTTATAGTATGTGTATACATGCAATGTAAACT
1 ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
*
823087 ATATATGTAACTTATAGTACATGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
*
823129 ATATATGAAACTTATAGTACATGTAT
1 ATATATGTAACTTATAGTACATGTAT
823155 GTATAAACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (42 bp):
ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
Found at i:823361 original size:54 final size:54
Alignment explanation
Indices: 823279--823467 Score: 315
Period size: 54 Copynumber: 3.5 Consensus size: 54
823269 TAAAGTGACG
823279 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* *
823333 CCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCTCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* * ** *
823387 CCTCTTTCTTCAGGGAGTATAGAACTCGGATATCTTCTTCTTACAGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
823441 CCTCTTTCTTCAGGGAGTATAGAACTC
1 CCTCTTTCTTCAGGGAGTATAGAACTC
823468 ATTAGTGTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
Found at i:823797 original size:37 final size:37
Alignment explanation
Indices: 823756--823914 Score: 192
Period size: 37 Copynumber: 4.3 Consensus size: 37
823746 AAGGTTTACA
** *
823756 ATGGATTTGCTTCACTACCCTTCGGTGAAGACTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
* * *
823793 ATGGATTGGCTTCACCACTCTTCGGTGAAGGCTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
* * *
823830 ATGGAGTTGCTTCACTAATCTTTGGTGAAGGCTTAAT
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
** *
823867 ATGGAGCTGCTTCACTAATCTTTGGTGAAGGCTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
*
823904 ATTGACTTTGC
1 ATGGA-TTTGC
823915 CCCAATATAC
Statistics
Matches: 106, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 103 0.97
38 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (37 bp):
ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
Found at i:825118 original size:16 final size:17
Alignment explanation
Indices: 825097--825128 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
825087 AACCCTACTG
825097 TCACTCTTCAT-CATTT
1 TCACTCTTCATACATTT
825113 TCACTCTTCATACATT
1 TCACTCTTCATACATT
825129 CATGTCCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TCACTCTTCATACATTT
Found at i:825473 original size:125 final size:123
Alignment explanation
Indices: 825237--825493 Score: 390
Period size: 125 Copynumber: 2.1 Consensus size: 123
825227 GACTTCACTA
* *
825237 GTGCCCCAACAATCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCT
1 GTGCCCCAACAACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGGCT
* *
825302 CATTCTCAATGCCTTCTTGGTCTGAAACTTGTTATCTCAACATGATGTGGGTTCAGTC
66 CATTCTCAATGCCTCCTTGGTCTGAAACTTGTCATCTCAACATGATGTGGGTTCAGTC
* * *
825360 GTGCCCCAACATTACCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAGCTCAAATCGTAAGG
1 GTGCCCCAACA--ACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGG
* * *
825425 CTCATTCTTC-ATGCCTCCTTGGTCTGAATCTTGTCATCTCAACCTGATGTTGGTTCAGTC
64 CTCATTC-TCAATGCCTCCTTGGTCTGAAACTTGTCATCTCAACATGATGTGGGTTCAGTC
825485 GTGCCCCAA
1 GTGCCCCAA
825494 AATGGGTACT
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
123 11 0.09
125 108 0.89
126 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (123 bp):
GTGCCCCAACAACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGGCT
CATTCTCAATGCCTCCTTGGTCTGAAACTTGTCATCTCAACATGATGTGGGTTCAGTC
Found at i:826822 original size:16 final size:16
Alignment explanation
Indices: 826775--826828 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
826765 TTTCCTTCTC
*
826775 TTTCTTTATTTCATTT
1 TTTCTTTTTTTCATTT
* * *
826791 TTTC--ATTTCCAATT
1 TTTCTTTTTTTCATTT
826805 TTTCTTTTTTTCATTT
1 TTTCTTTTTTTCATTT
826821 TTTCTTTT
1 TTTCTTTT
826829 CTTTTTCTCT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 10 0.34
16 19 0.66
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTTTTTCATTT
Found at i:827337 original size:18 final size:17
Alignment explanation
Indices: 827304--827342 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
827294 TCTTTCCTTC
827304 TCTTTTTTTCCAATTTT
1 TCTTTTTTTCCAATTTT
* *
827321 TCTTTTTTTTC-ATATT
1 TCTTTTTTTCCAATTTT
827337 TCTTTT
1 TCTTTT
827343 CTTTTTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (17 bp):
TCTTTTTTTCCAATTTT
Found at i:827338 original size:16 final size:17
Alignment explanation
Indices: 827304--827347 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
827294 TCTTTCCTTC
* *
827304 TCTTTTTTTCCAATTTT
1 TCTTTTTTTTCAATATT
827321 TCTTTTTTTTC-ATATT
1 TCTTTTTTTTCAATATT
827337 TCTTTTCTTTT
1 TCTTTT-TTTT
827348 TCTCTTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTTTTTTCAATATT
Found at i:827629 original size:58 final size:58
Alignment explanation
Indices: 827539--827655 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
827529 TTGGTTTGGG
*
827539 TTGAATCCGAAGAAAAATACTGTAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
1 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
827597 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
1 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
827655 T
1 T
827656 ATATTTGAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (58 bp):
TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
Found at i:833306 original size:38 final size:38
Alignment explanation
Indices: 833263--833337 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
833253 CAAGTAGATC
833263 TATGTATAAACTGTATAAACTATGTAGTTTATAAATTG
1 TATGTATAAACTGTATAAACTATGTAGTTTATAAATTG
833301 TATGTATAAACTGTATAAACTATGTAGTTTATAAATT
1 TATGTATAAACTGTATAAACTATGTAGTTTATAAATT
833338 ATAATTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (38 bp):
TATGTATAAACTGTATAAACTATGTAGTTTATAAATTG
Found at i:833502 original size:14 final size:14
Alignment explanation
Indices: 833483--833527 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
833473 CTAAATATTG
833483 AACCTTAAATCTTA
1 AACCTTAAATCTTA
*
833497 ATCCTTAAATCTTA
1 AACCTTAAATCTTA
* *
833511 AACTTTAAACCTTA
1 AACCTTAAATCTTA
833525 AAC
1 AAC
833528 ATTATATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (14 bp):
AACCTTAAATCTTA
Found at i:833527 original size:7 final size:7
Alignment explanation
Indices: 833483--833527 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
833473 CTAAATATTG
833483 AACCTTA
1 AACCTTA
*
833490 AATCTTA
1 AACCTTA
*
833497 ATCCTTA
1 AACCTTA
*
833504 AATCTTA
1 AACCTTA
*
833511 AACTTTA
1 AACCTTA
833518 AACCTTA
1 AACCTTA
833525 AAC
1 AAC
833528 ATTATATGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (7 bp):
AACCTTA
Found at i:837060 original size:20 final size:21
Alignment explanation
Indices: 837014--837074 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
837004 TTCCCCTGTG
837014 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
837037 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
837057 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
837075 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:838126 original size:14 final size:14
Alignment explanation
Indices: 838109--838148 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
838099 ACTCACCTGG
838109 TATGCCTCACTATT
1 TATGCCTCACTATT
838123 TATGCCTCACTA-T
1 TATGCCTCACTATT
*
838136 TATGCCTTACTAT
1 TATGCCTCACTAT
838149 CGAAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (14 bp):
TATGCCTCACTATT
Found at i:842934 original size:45 final size:45
Alignment explanation
Indices: 842835--842945 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
842825 AGCTATAATA
* * **
842835 CATACTTTTCTGTTGATAATGCACCCATATGTATTTTAACTCTAG
1 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTTAACTAAAG
842880 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTCT-ACTAAAG
1 CATACTTTTCTGTTGATAATGCACCCAAATGCATTT-TAACTAAAG
* **
842925 TATGTTTTTCTGTTGATAATG
1 CATACTTTTCTGTTGATAATG
842946 TGCCCATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (45 bp):
CATACTTTTCTGTTGATAATGCACCCAAATGCATTTTAACTAAAG
Found at i:843613 original size:94 final size:95
Alignment explanation
Indices: 843432--843625 Score: 286
Period size: 94 Copynumber: 2.1 Consensus size: 95
843422 AACCCCTACT
843432 ATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCAAAATTAGCT
1 ATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCAAAATTAGCT
* *
843497 TCGATGTAGCCTGGTATTGATACCCTCACC
66 TCGATGTAGCATAGTATTGATACCCTCACC
*
843527 ATGGTATCGATACTA-C-TATGCTATGGTATTGATACCCCCTT-CGGTATCGATACCAAAATTAG
1 ATGGTATCGATACTACCGTA-G-TATGGTATTGATACCCCCTTCCAGTATCGATACCAAAATTAG
* ** *
843589 GTTCGATGTTTCATAGTATTGATACCCTTACC
64 CTTCGATGTAGCATAGTATTGATACCCTCACC
843621 ATGGT
1 ATGGT
843626 TTTGATATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
93 2 0.02
94 53 0.59
95 35 0.39
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (95 bp):
ATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCAAAATTAGCT
TCGATGTAGCATAGTATTGATACCCTCACC
Found at i:849775 original size:45 final size:45
Alignment explanation
Indices: 849716--849847 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
849706 AGCTATAATA
* * **
849716 CATACTTTTATGTTGATAATGCACCCATATGTATTTCAACTCTAG
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
*
849761 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTCAACTAAAG
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
* * * *
849806 TATTCTTTTCTGTTGATAATGTACCCATATACATTTCAACTA
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTA
849848 TGACATGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
Found at i:859430 original size:20 final size:20
Alignment explanation
Indices: 859405--859451 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
859395 AAGCATAATT
859405 GGGCAATGTCCAGTTGTGGA
1 GGGCAATGTCCAGTTGTGGA
859425 GGGCAATGTCCAGTTGTGGA
1 GGGCAATGTCCAGTTGTGGA
*
859445 GGCCAAT
1 GGGCAAT
859452 TCTTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (20 bp):
GGGCAATGTCCAGTTGTGGA
Found at i:867335 original size:161 final size:162
Alignment explanation
Indices: 867093--867428 Score: 496
Period size: 161 Copynumber: 2.1 Consensus size: 162
867083 CAGTATTGAA
* * * *
867093 ATGATAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGCCGGTACTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGCCGATACTTTAATATAAGAATCGA
* *
867158 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAAAGTGTCGATACTTTTAAAAAAT
66 CACTTCGTAAATTTAAAAGAGAAGCAGTTTTAGAAT-CTATAAAGTGTCGATACTTTAAAAAAAT
* *
867222 GTATCGATCCAAAACGATATACCAGGTAAAAAT
130 ATATCGATCCAAAACGATATAACAGGTAAAAAT
* * *
867255 ATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGAATCGA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGCCGATACTTTAATATAAGAATCGA
* * ** *
867319 CACTTTGTAAATTTAAAAGAGAAGTAGTTTTAGCGTCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTAAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAAAAAATA
*
867384 TATCGATCCACAACGATATAACAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
867416 ATGATAAAACCGG
1 ATGATAAAACCGG
867429 CATCAAAATG
Statistics
Matches: 156, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
161 110 0.71
162 46 0.29
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGCCGATACTTTAATATAAGAATCGA
CACTTCGTAAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAAT
Found at i:867455 original size:17 final size:19
Alignment explanation
Indices: 867416--867458 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
867406 AGGTAAAAAT
867416 ATGATAAAACCGGCATCAAA
1 ATGATAAAACCGG-ATCAAA
867436 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
867453 ATGATA
1 ATGATA
867459 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:869702 original size:21 final size:21
Alignment explanation
Indices: 869676--869740 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
869666 AAGACAATCA
*
869676 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
869697 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
869718 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
869739 AG
1 AG
869741 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:869816 original size:33 final size:33
Alignment explanation
Indices: 869774--869839 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
869764 AAATAGATGG
*
869774 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
869807 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
869840 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:871657 original size:19 final size:19
Alignment explanation
Indices: 871633--871681 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
871623 AATGTAGGGT
871633 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
871652 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
871671 TAATTTTGTAT
1 TAATTTTGTAT
871682 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:872137 original size:200 final size:200
Alignment explanation
Indices: 871794--872757 Score: 1687
Period size: 200 Copynumber: 4.8 Consensus size: 200
871784 AATTTACAAT
* * * *
871794 ATGGCAAACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTGTCGATCCTAAAAACAT
1 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * * *
871859 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTGCAAGTATACCGGTTTT
66 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
871924 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
871989 AATGA
196 AATGA
* *
871994 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* ** * *
872059 CGAAACCCAAAAGTGTAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
872124 ATGAGAGAATAGGTCTAAATAATGTGTCGACACCTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
872189 AATGA
196 AATGA
872194 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
872259 CAAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
872324 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
872389 AATGA
196 AATGA
*
872394 ATGGCAAACAGGCTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
872459 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTT
66 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
872524 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
872589 AATGA
196 AATGA
872594 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
872659 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
872724 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
872758 GTTTAATGTT
Statistics
Matches: 738, Mismatches: 25, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
200 735 1.00
201 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:874238 original size:6 final size:6
Alignment explanation
Indices: 874227--874326 Score: 83
Period size: 6 Copynumber: 16.7 Consensus size: 6
874217 CAAGCGGTCA
* * * * *
874227 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
874275 ATGACG ATGAAG CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
874323 ATGA
1 ATGA
874327 TGATTCAAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:874327 original size:6 final size:6
Alignment explanation
Indices: 874244--874330 Score: 84
Period size: 6 Copynumber: 14.5 Consensus size: 6
874234 TGAAGCTGAC
* * * * * * * *
874244 GATGAA GATGAC GATGAA GATGAC GATGAT GATGAC GATGAA GCTGAC
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
* *
874292 GATGAA GATGAT GACGAT GATGAT GATGAT GATGAT GAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GAT
874331 TCAAACAAGT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (6 bp):
GATGAT
Found at i:874330 original size:12 final size:12
Alignment explanation
Indices: 874227--874326 Score: 119
Period size: 12 Copynumber: 8.3 Consensus size: 12
874217 CAAGCGGTCA
*
874227 ATGAAGATGAAG
1 ATGACGATGAAG
*
874239 CTGACGATGAAG
1 ATGACGATGAAG
874251 ATGACGATGAAG
1 ATGACGATGAAG
*
874263 ATGACGATGATG
1 ATGACGATGAAG
874275 ATGACGATGAAG
1 ATGACGATGAAG
*
874287 CTGACGATGAAG
1 ATGACGATGAAG
* * *
874299 ATGATGACGATG
1 ATGACGATGAAG
* *
874311 ATGATGATGATG
1 ATGACGATGAAG
874323 ATGA
1 ATGA
874327 TGATTCAAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 77 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:877211 original size:183 final size:183
Alignment explanation
Indices: 875540--877209 Score: 2988
Period size: 183 Copynumber: 9.1 Consensus size: 183
875530 CAAAGCTTTC
* * *
875540 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * * * * *
875604 TAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTTAGAGATAATTTTGTG
65 TCAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
**
875667 ATATAACCATTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
875724 ACACTTTTTAATATTGTGTAGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
875789 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
875854 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
875907 ACACTTTTTAATATTGTGTAGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
875972 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
876037 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
876090 ACACTTTTTAATATTTTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
876155 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
876220 AACCGGTATAAATATACCTGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
876273 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGAGACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
* *
876338 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
876403 AACCGGTGTAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
876456 ACCCTTTTTAATATTGTGTCGGTACTCTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
876521 TAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
876586 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
876639 ACACTTTTTAATATTTTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
876704 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
876769 AACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
876822 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
876887 CAAAAAGTGTCGACATTTACACATCGGAAACCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
876952 AACCGGTGA-AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGT-ATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
877005 ACACTTTTTAATATTATGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
877070 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
877135 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
877188 ATACTTTTTAATATTGTGTCGG
1 ACACTTTTTAATATTGTGTCGG
877210 TAATTTTAAG
Statistics
Matches: 1434, Mismatches: 47, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
182 1 0.00
183 1362 0.95
184 68 0.05
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:878370 original size:23 final size:23
Alignment explanation
Indices: 878339--878411 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
878329 ATAGGTAAAA
*
878339 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
878362 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
878385 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
878408 ATAT
1 ATAT
878412 TATAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:878859 original size:23 final size:23
Alignment explanation
Indices: 878828--878900 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
878818 ATAAGTAAAA
*
878828 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
878851 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
878874 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
878897 ATAT
1 ATAT
878901 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:878943 original size:489 final size:490
Alignment explanation
Indices: 878016--879302 Score: 2418
Period size: 489 Copynumber: 2.6 Consensus size: 490
878006 AAATCCCGTA
*
878016 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAAT
1 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
878081 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
66 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
878146 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
131 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
878211 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
196 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
* * *
878276 TTTAAAAAAAAGTATTGATCGTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAAT
261 TTT-AAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAAGTAAAAAT
878341 ATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
325 ATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
878406 TTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATT
390 TTATATTATAAAGTATCTATCCTTTTTATAAAAGTGCCCATACTTTTTTAACTGTGAAAAACATT
878471 AATTTAAGGTTATCTTTTGAGTGAGGTTTAAGATAT
455 AATTTAAGGTTATCTTTTGAGTGAGGTTTAAGATAT
* *
878507 TAATTTAGTAATTATAGGCGTCTAATTATTTATTTTTTACATTACGATATATATTATTATTAAAT
1 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
878572 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
66 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
878637 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT-ATTTTTTGTGCAAATGAAATTATTA
131 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
878701 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
196 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
*
878766 TTTAAAAAAATTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAAGTAAAAATA
261 TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAAGTAAAAATA
878831 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
326 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
* *
878896 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGCCCATACTTTTTTAACTGTGGAAAACATTA
391 TATATTATAAAGTATCTATCCTTTTTATAAAAGTGCCCATACTTTTTTAACTGTGAAAAACATTA
*
878961 ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
456 ATTTAAGGTTATCTTTTGAGTGAGGTTTAAGATAT
878996 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
1 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
879061 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
66 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
879126 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
131 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
879191 AATTAATATTGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAAC
196 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
*
879254 TTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGACACTTTCAA
261 TTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTTCAA
879303 CATATTATAA
Statistics
Matches: 778, Mismatches: 16, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
488 52 0.07
489 406 0.52
490 154 0.20
491 166 0.21
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (490 bp):
TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTA
AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAAGTAAAAATA
TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
TATATTATAAAGTATCTATCCTTTTTATAAAAGTGCCCATACTTTTTTAACTGTGAAAAACATTA
ATTTAAGGTTATCTTTTGAGTGAGGTTTAAGATAT
Found at i:879466 original size:22 final size:23
Alignment explanation
Indices: 879431--879473 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
879421 TATTGTACTT
**
879431 TATAATATTTCCGGT-TAAATAA
1 TATAATATAACCGGTCTAAATAA
879453 TATAATATAACCGGTCTAAAT
1 TATAATATAACCGGTCTAAAT
879474 TTTAATCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (23 bp):
TATAATATAACCGGTCTAAATAA
Found at i:879774 original size:2 final size:2
Alignment explanation
Indices: 879767--879797 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
879757 ATATTTAGTG
879767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
879798 TACAGTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881708 original size:9 final size:9
Alignment explanation
Indices: 881651--881766 Score: 53
Period size: 9 Copynumber: 12.6 Consensus size: 9
881641 TTTACTAATA
881651 TTTATTTA-
1 TTTATTTAT
* *
881659 TGTATATAT
1 TTTATTTAT
881668 TATTA-TTAT
1 T-TTATTTAT
881677 TATTA-TTAT
1 T-TTATTTAT
* *
881686 CTTTCTTCAT
1 -TTTATTTAT
881696 TTTATTTAT
1 TTTATTTAT
*
881705 TTTATTCATT
1 TTTATTTA-T
*
881715 TTTACCTTTAC
1 TTTA--TTTAT
881726 TTTATTTGTAT
1 TTTA-TT-TAT
881737 TTT-TTTA-
1 TTTATTTAT
*
881744 TTCATTTAT
1 TTTATTTAT
*
881753 TTTCTTTAT
1 TTTATTTAT
881762 TTTAT
1 TTTAT
881767 ATTACTTTCT
Statistics
Matches: 81, Mismatches: 17, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
7 2 0.02
8 12 0.15
9 42 0.52
10 13 0.16
11 9 0.11
12 3 0.04
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTATTTAT
Found at i:881741 original size:25 final size:24
Alignment explanation
Indices: 881696--881764 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
881686 CTTTCTTCAT
881696 TTTATTTATTTTATTCATTTTTACC
1 TTTATTTATTTTATT-ATTTTTACC
881721 TTTACTTTATTTGTATT-TTTTTA--
1 TTTA-TTTATTT-TATTATTTTTACC
* *
881744 TTCATTTATTTTCTTTATTTT
1 TTTATTTATTTT-ATTATTTT
881765 ATATTACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 7 0.18
25 10 0.26
26 7 0.18
27 4 0.11
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (24 bp):
TTTATTTATTTTATTATTTTTACC
Found at i:881746 original size:35 final size:34
Alignment explanation
Indices: 881667--881750 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
881657 TATGTATATA
* *
881667 TTATTATTATT-ATTATTATCTTTCTTCATTTTAT
1 TTATT-TTATTCATTTTTACCTTTCTTCATTTTAT
*
881701 TTATTTTATTCATTTTTACCTTTACTTTATTTGTAT
1 TTATTTTATTCATTTTTACCTTT-CTTCATTT-TAT
881737 TT-TTTTATTCATTT
1 TTATTTTATTCATTT
881751 ATTTTCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
33 5 0.11
34 15 0.34
35 19 0.43
36 5 0.11
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.69
Consensus pattern (34 bp):
TTATTTTATTCATTTTTACCTTTCTTCATTTTAT
Found at i:884354 original size:23 final size:22
Alignment explanation
Indices: 884311--884355 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
884301 GAAGCTCACA
*
884311 GCCTGATAAAAAAGTTTGAGGG
1 GCCTGATAAAAAAGTTGGAGGG
* *
884333 GCCTGATGAAAATGCTTGGAGGG
1 GCCTGATAAAAAAG-TTGGAGGG
884356 AACAGCTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.31, C:0.11, G:0.36, T:0.22
Consensus pattern (22 bp):
GCCTGATAAAAAAGTTGGAGGG
Found at i:892125 original size:7 final size:7
Alignment explanation
Indices: 892113--892152 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
892103 TAAATTGAAA
892113 AAAAAAG
1 AAAAAAG
892120 AAAAAAG
1 AAAAAAG
892127 AACAAAAG
1 AA-AAAAG
892135 -AAAAAG
1 AAAAAAG
*
892141 AGAAAAG
1 AAAAAAG
892148 AAAAA
1 AAAAA
892153 TAAGGTGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.66
8 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:892140 original size:21 final size:20
Alignment explanation
Indices: 892110--892149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
892100 CCCTAAATTG
892110 AAAAAAAAAGAAAAAAGAAC
1 AAAAAAAAAGAAAAAAGAAC
*
892130 AAAAGAAAAAGAGAAAAGAA
1 AAAA-AAAAAGAAAAAAGAA
892150 AAATAAGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAGAAC
Found at i:899402 original size:24 final size:24
Alignment explanation
Indices: 899364--899409 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
899354 AGAATTTTCC
*
899364 AAAAAATTTTAAATTTTCGAAATAA
1 AAAAAATGTTAAATTTTC-AAATAA
899389 AAAAAATGTT-AATTTTCAAAT
1 AAAAAATGTTAAATTTTCAAAT
899410 TATTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
AAAAAATGTTAAATTTTCAAATAA
Found at i:902804 original size:9 final size:9
Alignment explanation
Indices: 902790--902814 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
902780 TCCCCTTTAA
902790 AACATTTTT
1 AACATTTTT
902799 AACATTTTT
1 AACATTTTT
902808 AACATTT
1 AACATTT
902815 CTCCCCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
AACATTTTT
Found at i:905034 original size:22 final size:23
Alignment explanation
Indices: 905009--905058 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
904999 GGGGTATCGA
*
905009 TTCCCCTACATA-GGGGAATCAG
1 TTCCCCTACAAAGGGGGAATCAG
* * *
905031 TTCCCTTTCAAAGGGGGAATCGG
1 TTCCCCTACAAAGGGGGAATCAG
905054 TTCCC
1 TTCCC
905059 ATTCAAGGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (23 bp):
TTCCCCTACAAAGGGGGAATCAG
Found at i:905066 original size:22 final size:23
Alignment explanation
Indices: 905021--905080 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
905011 CCCCTACATA
* *
905021 GGGGAATCAGTTCCCTTTCAAAG
1 GGGGAATCGGTTCCCATTCAAAG
905044 GGGGAATCGGTTCCCATTC-AAG
1 GGGGAATCGGTTCCCATTCAAAG
* *
905066 GGGGTATCGATTCCC
1 GGGGAATCGGTTCCC
905081 TCTACACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (23 bp):
GGGGAATCGGTTCCCATTCAAAG
Found at i:918063 original size:20 final size:19
Alignment explanation
Indices: 918034--918076 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
918024 CTAAATCTAA
918034 TAAATTAAAGAAAAAAAAT
1 TAAATTAAAGAAAAAAAAT
* *
918053 TAAATTTAAAGAACATAAAT
1 TAAA-TTAAAGAAAAAAAAT
918073 TAAA
1 TAAA
918077 AATATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAATTAAAGAAAAAAAAT
Found at i:918419 original size:10 final size:10
Alignment explanation
Indices: 918404--918432 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
918394 TTAACCTAAA
918404 AGTAAACCTT
1 AGTAAACCTT
918414 AGTAAACCTT
1 AGTAAACCTT
918424 AGTAAACCT
1 AGTAAACCT
918433 ACGAACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (10 bp):
AGTAAACCTT
Found at i:918745 original size:5 final size:5
Alignment explanation
Indices: 918732--918788 Score: 105
Period size: 5 Copynumber: 11.4 Consensus size: 5
918722 AGCTATTATG
*
918732 AATAG AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
918782 AATAA AA
1 AATAA AA
918789 AGGAAAATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:920564 original size:44 final size:44
Alignment explanation
Indices: 920485--920920 Score: 485
Period size: 44 Copynumber: 9.9 Consensus size: 44
920475 AAGGTTATCA
* * * * *
920485 ATGTTGTTTCAACTCTTTATGTGATGAAAACGAGCAAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * * *
920529 ATGCTGGTCCAGCTCCTTATGTGATGAAATCGAGCAAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * * * *
920573 ATGTTAATCTAACTCCTTATGTGATGGAATCAAACGAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
920617 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* **
920661 ATGTTGATCTAACTCCTTATGTGATGGAATCGAGCAAAATAATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * ** *
920705 ATGTTGATCCAACTCCTCATGTGATGGAATTGAGTGAAATGGTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * * **
920749 ATGTTGATCTAACTCCTCATGTGATGGAATTGAGTGAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * *
920793 ATGCTGATCTAACTCATTATGTGATGGAATCGAGCAAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
* * * * * *
920837 GTGCTAATCCAACTCTTTATGTGATAGAATCGAGCGAAATGTTG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
*** * * * *
920881 ATGCCAATCCAACTCTTTATGTGATAGAATCAAGCGAAAT
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAAT
920921 TAAATTCTGT
Statistics
Matches: 345, Mismatches: 47, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 345 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTG
Found at i:920727 original size:132 final size:132
Alignment explanation
Indices: 920485--920920 Score: 539
Period size: 132 Copynumber: 3.3 Consensus size: 132
920475 AAGGTTATCA
* * * * * * * *
920485 ATGTTGTTTCAACTCTTTATGTGATGAAAACGAGCAAAATGTTGATGCTGGTCCAGCTCCTTATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTGATGCTGATCTAACTCCTTATG
* * * *
920550 TGATGAAATCGAGCAAAATGTTGATGTTAATCTAACTCCTTATGTGATGGAATCAAACGAAATGT
66 TGATGGAATCGAGCAAAATGTTGATGTTAATCCAACTCCTTATGTGATGGAATCGAGCGAAATGT
920615 TG
131 TG
*
920617 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTGATGTTGATCTAACTCCTTATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTGATGCTGATCTAACTCCTTATG
** * * * * *
920682 TGATGGAATCGAGCAAAATAATGATGTTGATCCAACTCCTCATGTGATGGAATTGAGTGAAATGG
66 TGATGGAATCGAGCAAAATGTTGATGTTAATCCAACTCCTTATGTGATGGAATCGAGCGAAATGT
920747 TG
131 TG
* * * ** *
920749 ATGTTGATCTAACTCCTCATGTGATGGAATTGAGTGAAATGTTGATGCTGATCTAACTCATTATG
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTGATGCTGATCTAACTCCTTATG
* * * *
920814 TGATGGAATCGAGCAAAATGTTGGTGCTAATCCAACTCTTTATGTGATAGAATCGAGCGAAATGT
66 TGATGGAATCGAGCAAAATGTTGATGTTAATCCAACTCCTTATGTGATGGAATCGAGCGAAATGT
920879 TG
131 TG
*** * * * *
920881 ATGCCAATCCAACTCTTTATGTGATAGAATCAAGCGAAAT
1 ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAAT
920921 TAAATTCTGT
Statistics
Matches: 256, Mismatches: 48, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 256 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (132 bp):
ATGTTGATCCAACTCCTTATGTGATGGAATCGAGCAAAATGTTGATGCTGATCTAACTCCTTATG
TGATGGAATCGAGCAAAATGTTGATGTTAATCCAACTCCTTATGTGATGGAATCGAGCGAAATGT
TG
Found at i:937280 original size:22 final size:22
Alignment explanation
Indices: 937255--937300 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
937245 ATTGGTTATT
*
937255 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
937277 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
937299 AT
1 AT
937301 GTTACTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:937602 original size:61 final size:61
Alignment explanation
Indices: 937477--937604 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 61
937467 AAGGACACTG
* * ** *
937477 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGCACTAGAGTGTAAACCT
1 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGAACTAAAGCATAAACAT
* * ** * *
937538 AGTGTAGGTGGTGGGCAGGACCTTGTGTGTCATATCCGGATTAGAACTAAAGCATAAGCAT
1 AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGAACTAAAGCATAAACAT
937599 AGTGCA
1 AGTGCA
937605 AGTTTAGCAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (61 bp):
AGTGCAGGTGGAGGGCACAACCTTATGTGTCATATCCGGATTAGAACTAAAGCATAAACAT
Found at i:938753 original size:23 final size:22
Alignment explanation
Indices: 938702--938753 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
938692 TAAAGAAAAC
*
938702 ATTAAATTTAAAGAACATAAAT
1 ATTAAATTTAAAGAAAATAAAT
* *
938724 -TAAAAATTTCAAATAAAATAAAT
1 AT-TAAATTT-AAAGAAAATAAAT
938747 ATTAAAT
1 ATTAAAT
938754 AAGAATCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.04
22 6 0.26
23 15 0.65
24 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTAAATTTAAAGAAAATAAAT
Found at i:942637 original size:3 final size:3
Alignment explanation
Indices: 942629--942657 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
942619 ATCCGGGTCT
942629 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
942658 TATACAATAT
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:957346 original size:30 final size:30
Alignment explanation
Indices: 957312--957371 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
957302 ATGAAATTAC
*
957312 TGTAGCAGTTACTGTAATGTATCGATGCAT
1 TGTAGCAGTTACTGTAACGTATCGATGCAT
* *
957342 TGTAGCAGTTATTGTAGCGTATCGATGCAT
1 TGTAGCAGTTACTGTAACGTATCGATGCAT
957372 AATATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (30 bp):
TGTAGCAGTTACTGTAACGTATCGATGCAT
Found at i:957768 original size:3 final size:3
Alignment explanation
Indices: 957760--957791 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
957750 TGTCCGGTCT
*
957760 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
957792 TATACAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:961109 original size:822 final size:822
Alignment explanation
Indices: 959526--961169 Score: 3130
Period size: 822 Copynumber: 2.0 Consensus size: 822
959516 ATTATTTTCT
*
959526 CCTTGGAATTGGTTTAGAATGATTGTACAAAATATTAGTTCCGTTCATTTTTAATGTTTTTTTAT
1 CCTTGGAATTGGTTTAGAATGATTGTACAAAATATTAGTTCCGTTCATTTTTAATGCTTTTTTAT
*
959591 TCGAATATTTTCAAGAACAACGATTTGTATAATGGGCTTGGAAAGTATTGCATGATCGAAGTAGT
66 TAGAATATTTTCAAGAACAACGATTTGTATAATGGGCTTGGAAAGTATTGCATGATCGAAGTAGT
959656 GCAATCCGATACGACATTCGAACAAAATGTGAACTTGAAGTAAATCAATTTTATTTTGCTAATTA
131 GCAATCCGATACGACATTCGAACAAAATGTGAACTTGAAGTAAATCAATTTTATTTTGCTAATTA
*
959721 ATACATTTTTACTTTAAGTCAAACAATTTGATGCATGTTTCTAAATAGCAATTTATTTTATTTTA
196 ATACATTTTTACTTTAAGTCAAACAATGTGATGCATGTTTCTAAATAGCAATTTATTTTATTTTA
*
959786 TGCAAACGCCGATTTTCAGTTTATATTCGAGTTGCTTTTTTTGATAACCTTAGTGAGGGGGAATA
261 TGCAAACGCCGATTTTCAGTTTATATTCGAGTTCCTTTTTTTGATAACCTTAGTGAGGGGGAATA
959851 TTTCTTGTATAAAAGATGTGCAAATCTCGTGATTTCTTCTCGAATTAAGAAATGTTCCCTAACAA
326 TTTCTTGTATAAAAGATGTGCAAATCTCGTGATTTCTTCTCGAATTAAGAAATGTTCCCTAACAA
959916 ATAATTCGAAGCAAATTAATTAACTTTAATAATTGGATCATACTTTAATTATCGATGTGAATTCA
391 ATAATTCGAAGCAAATTAATTAACTTTAATAATTGGATCATACTTTAATTATCGATGTGAATTCA
959981 TGATTTCCACCATTACGACAACGTATAAGCGATTAAGTACCAATTTTTGGGCGTTGTGGGGGTGT
456 TGATTTCCACCATTACGACAACGTATAAGCGATTAAGTACCAATTTTTGGGCGTTGTGGGGGTGT
* *
960046 TAATCATTCCCCATGCGTAACTGACTCATGGACCCCTTAAATCAGATTTTTGGTAAACGTATACC
521 TAATCATTCCCCACGCGTAACTGACTCATGGACCCCTTAAATCAGATTTTTGGTAAACATATACC
*
960111 AAATCTTTTTATCTTAAAAAATTATTTTTGTTTAAAAATGTTTTAAAATACATTTTTAGGTATTC
586 AAATCTTTTTATCTTAAAAAATTATTTTTCTTTAAAAATGTTTTAAAATACATTTTTAGGTATTC
960176 GATCTACCTAGCCCAAAAAGTCGATGGAGAGTCACATTCGATTTAATTCAAACTAATTCCAAATC
651 GATCTACCTAGCCCAAAAAGTCGATGGAGAGTCACATTCGATTTAATTCAAACTAATTCCAAATC
960241 AACAATTTTTTAAAATAAAGTCATAATTGTTTTTTAAACTTAATTGTTTTTCAAAAAAATGGTTA
716 AACAATTTTTTAAAATAAAGTCATAATTGTTTTTTAAACTTAATTGTTTTTCAAAAAAATGGTTA
*
960306 TGACAGCTTGGCGACTCCGTTGGGACTTTTTTTGAGATTCAG
781 TGACAGCTTGGCGACTCCGTTGGGACTTTTTTTAAGATTCAG
960348 CCTTGGAATTGGTTTAGAATGATTGTACAAAATATTAGTTCCGTTCATTTTTAATGCTTTTTTAT
1 CCTTGGAATTGGTTTAGAATGATTGTACAAAATATTAGTTCCGTTCATTTTTAATGCTTTTTTAT
960413 TAGAATATTTTCAAGAACAACGATTTGTATAATGGGCTTGGAAAGTATTGCATGATCGAAGTAGT
66 TAGAATATTTTCAAGAACAACGATTTGTATAATGGGCTTGGAAAGTATTGCATGATCGAAGTAGT
960478 GCAATCCGATACGACATTCGAACAAAATGTGAACTTGAAGTAAATCAATTTTATTTTGCTAATTA
131 GCAATCCGATACGACATTCGAACAAAATGTGAACTTGAAGTAAATCAATTTTATTTTGCTAATTA
960543 ATACATTTTTACTTTAAGTCAAACAATGTGATGCATGTTTCTAAATAGCAATTTATTTTATTTTA
196 ATACATTTTTACTTTAAGTCAAACAATGTGATGCATGTTTCTAAATAGCAATTTATTTTATTTTA
*
960608 TGCAAACGTCGATTTTCAGTTTATATTCGAGTTCCTTTTTTTTGATAACCTTAGTGAGGGGGAAT
261 TGCAAACGCCGATTTTCAGTTTATATTCGAGTTCC-TTTTTTTGATAACCTTAGTGAGGGGGAAT
960673 ATTTCTTGTATAAAAGATGTGCAAATCTCGTGATTTCTTCTCGAATTAAGAAATGTTCCCTAACA
325 ATTTCTTGTATAAAAGATGTGCAAATCTCGTGATTTCTTCTCGAATTAAGAAATGTTCCCTAACA
960738 AATAATTCGAAGCAAATTAATTAACTTTAATAATTGGATCATACTTTAATTATCGATGTGAATTC
390 AATAATTCGAAGCAAATTAATTAACTTTAATAATTGGATCATACTTTAATTATCGATGTGAATTC
*
960803 ATGATTTCCACCATTACGACAACGTATAAGCGATTAAGTACCAATTTTTTGGCGTTGT-GGGGTG
455 ATGATTTCCACCATTACGACAACGTATAAGCGATTAAGTACCAATTTTTGGGCGTTGTGGGGGTG
*
960867 TTAATCATTCCCCACGTGTAACTGACTCATGGACCCCTTAAATCAGATTTTTGGTAAACATATAC
520 TTAATCATTCCCCACGCGTAACTGACTCATGGACCCCTTAAATCAGATTTTTGGTAAACATATAC
*
960932 CAAATCTTTTTATCTTAAAAATTTATTTTTCTTTAAAAATGTTTTAAAATACATTTTTAGGTATT
585 CAAATCTTTTTATCTTAAAAAATTATTTTTCTTTAAAAATGTTTTAAAATACATTTTTAGGTATT
* *
960997 CGATCTACCTAGCCCAAAAAGTCGATGGAGACTTC-CATTCGATTTAATTCAAACTAATTTCAAA
650 CGATCTACCTAGCCCAAAAAGTCGATGGAGA-GTCACATTCGATTTAATTCAAACTAATTCCAAA
961061 TCAACAATTTTTTAAAATAAAGTCATAATTGTTTTTTAAACTTAATTGTTTTTCAAAAAAATGGT
714 TCAACAATTTTTTAAAATAAAGTCATAATTGTTTTTTAAACTTAATTGTTTTTCAAAAAAATGGT
961126 TATGACAGCTTGGCGACTCCGTTGGGACTTTTTTTAAGATTCAG
779 TATGACAGCTTGGCGACTCCGTTGGGACTTTTTTTAAGATTCAG
961170 GATGTAAGTC
Statistics
Matches: 806, Mismatches: 14, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
822 588 0.73
823 218 0.27
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (822 bp):
CCTTGGAATTGGTTTAGAATGATTGTACAAAATATTAGTTCCGTTCATTTTTAATGCTTTTTTAT
TAGAATATTTTCAAGAACAACGATTTGTATAATGGGCTTGGAAAGTATTGCATGATCGAAGTAGT
GCAATCCGATACGACATTCGAACAAAATGTGAACTTGAAGTAAATCAATTTTATTTTGCTAATTA
ATACATTTTTACTTTAAGTCAAACAATGTGATGCATGTTTCTAAATAGCAATTTATTTTATTTTA
TGCAAACGCCGATTTTCAGTTTATATTCGAGTTCCTTTTTTTGATAACCTTAGTGAGGGGGAATA
TTTCTTGTATAAAAGATGTGCAAATCTCGTGATTTCTTCTCGAATTAAGAAATGTTCCCTAACAA
ATAATTCGAAGCAAATTAATTAACTTTAATAATTGGATCATACTTTAATTATCGATGTGAATTCA
TGATTTCCACCATTACGACAACGTATAAGCGATTAAGTACCAATTTTTGGGCGTTGTGGGGGTGT
TAATCATTCCCCACGCGTAACTGACTCATGGACCCCTTAAATCAGATTTTTGGTAAACATATACC
AAATCTTTTTATCTTAAAAAATTATTTTTCTTTAAAAATGTTTTAAAATACATTTTTAGGTATTC
GATCTACCTAGCCCAAAAAGTCGATGGAGAGTCACATTCGATTTAATTCAAACTAATTCCAAATC
AACAATTTTTTAAAATAAAGTCATAATTGTTTTTTAAACTTAATTGTTTTTCAAAAAAATGGTTA
TGACAGCTTGGCGACTCCGTTGGGACTTTTTTTAAGATTCAG
Found at i:964661 original size:2 final size:2
Alignment explanation
Indices: 964656--964684 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
964646 AGAATATATA
964656 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
964685 ACAAAAAAAC
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:966178 original size:38 final size:37
Alignment explanation
Indices: 966114--966216 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 37
966104 TTTGAGATTG
* * *
966114 TTTCTCTCAAAACAAAGTATCATCTCGCCAGAGACAGT
1 TTTCTCTAAAAACAAATTAT-GTCTCGCCAGAGACAGT
* * * **
966152 TTTTTCTTAAAAATAAATTTTGTCTCGCTTGAGACAGT
1 TTTCTC-TAAAAACAAATTATGTCTCGCCAGAGACAGT
966190 TTTCTCTAAAAACAAATTATGTCTCGC
1 TTTCTCTAAAAACAAATTATGTCTCGC
966217 TTGAGACAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
37 19 0.36
38 24 0.45
39 10 0.19
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (37 bp):
TTTCTCTAAAAACAAATTATGTCTCGCCAGAGACAGT
Found at i:966213 original size:37 final size:38
Alignment explanation
Indices: 966114--966266 Score: 152
Period size: 36 Copynumber: 4.1 Consensus size: 38
966104 TTTGAGATTG
* * * **
966114 TTTCTCTCAAAACAAAGTATCATCTCGCCAGAGACAGT
1 TTTCTCTAAAAACAAATTATCGTCTCGCTTGAGACAGT
* * *
966152 TTTTTCTTAAAAATAAATT-TTGTCTCGCTTGAGACAGT
1 TTTCTC-TAAAAACAAATTATCGTCTCGCTTGAGACAGT
*
966190 TTTCTCTAAAAACAAATTAT-GTCTCGCTTGAGACA-A
1 TTTCTCTAAAAACAAATTATCGTCTCGCTTGAGACAGT
* * * *
966226 TTTCCCTCAAGACAAATT-TCGTCTCGCTTGAGACATT
1 TTTCTCTAAAAACAAATTATCGTCTCGCTTGAGACAGT
966263 TTTC
1 TTTC
966267 CTTTGAGATG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.01
36 30 0.31
37 30 0.31
38 26 0.27
39 9 0.09
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (38 bp):
TTTCTCTAAAAACAAATTATCGTCTCGCTTGAGACAGT
Found at i:966717 original size:66 final size:67
Alignment explanation
Indices: 966570--966897 Score: 371
Period size: 66 Copynumber: 4.9 Consensus size: 67
966560 ACAAATTGAT
* * *
966570 AAACTTTGAGATTGTTTCTCTTC-AAACAAATTTTGTCTCTCTTAAAATAGTTTCTCTTGAAACA
1 AAACTTTGAGATTGTTTCTC-TCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
966634 T--
65 TAA
* * *
966635 AAACTTTGAGATTGTTTATCTCGAAA-AAAATTTGTCTCTCTTGAGACAGTTTCTCTTTAAACAT
1 AAACTTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
966699 AA
66 AA
* * * * *
966701 AAACTTTGAGATTGTTTCTCTTGAAACAAGGTTTTATCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AAACTTTGAGATTGTTTCTCTCGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
966766 TAA
65 TAA
* * * * * *
966769 AACCTTTGAGAATGTTTC-CAT-TAAACAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA
1 AAACTTTGAGATTGTTTCTC-TCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
*
966832 GAA
65 TAA
* * * * * *
966835 AACCTTTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 AAACTTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
966898 CAATTATCCC
Statistics
Matches: 230, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
64 35 0.15
65 22 0.10
66 77 0.33
67 47 0.20
68 49 0.21
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (67 bp):
AAACTTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
AA
Found at i:966786 original size:31 final size:31
Alignment explanation
Indices: 966675--966786 Score: 75
Period size: 31 Copynumber: 3.4 Consensus size: 31
966665 TTTGTCTCTC
* *
966675 TTGAGACA-GTTTCTCTTTAAACATAAAAACT
1 TTGAGA-ATGTTTCTCTTGAAACATAAAACCT
* *** *
966706 TTGAGATTGTTTCTCTTGAAACAAGGTTTTATCTCCC
1 TTGAGAATGTTTCTCTTGAAAC-A-----TAAAACCT
966743 TTGAG-ATAGTTTCTCTTGAAACATAAAACCT
1 TTGAGAAT-GTTTCTCTTGAAACATAAAACCT
966774 TTGAGAATGTTTC
1 TTGAGAATGTTTC
966787 CATTAAACAA
Statistics
Matches: 60, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
31 33 0.55
32 3 0.05
36 2 0.03
37 22 0.37
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (31 bp):
TTGAGAATGTTTCTCTTGAAACATAAAACCT
Found at i:966814 original size:134 final size:130
Alignment explanation
Indices: 966570--966897 Score: 417
Period size: 134 Copynumber: 2.5 Consensus size: 130
966560 ACAAATTGAT
* * * *
966570 AAACTTTGAGATTGTTTCTCTTCAAACAAATTTTGTCTCTCTTAAAATAGTTTCTCTTGAAACAT
1 AAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAT
* * * * *
966635 AAACTTTGAGATTGTTTATCTCGAAAAAAATTTGTCTCTCTTGAGACAGTTTCTCTTTAAACATA
66 AAACTTTGAGAATGTTTATCTC-AAAAAAATTTGTCTCCCTTGAGACAATTTCTCTTGAAACAGA
966700 A
130 A
* *
966701 AAACTTTGAGATTGTTTCTCTTGAAACAAGGTTTTATCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AAACTTTGAGATTGTTTCTCTTGAAACAA-GTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA
**
966766 TAAAACCTTTGAGAATGTTTCCAT-T-AAACAAGTTTTGTCTCCCTTGAGACAATTTCTCTTGAA
65 T-AAA-CTTTGAGAATGTTT--ATCTCAAA-AAAATTTGTCTCCCTTGAGACAATTTCTCTTGAA
966829 ACAGAA
125 ACAGAA
* * * * *
966835 AACCTTTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 AAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC
966898 CAATTATCCC
Statistics
Matches: 171, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
131 28 0.16
132 31 0.18
133 36 0.21
134 73 0.43
135 1 0.01
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (130 bp):
AAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAT
AAACTTTGAGAATGTTTATCTCAAAAAAATTTGTCTCCCTTGAGACAATTTCTCTTGAAACAGAA
Found at i:966888 original size:36 final size:36
Alignment explanation
Indices: 966774--966897 Score: 93
Period size: 36 Copynumber: 3.6 Consensus size: 36
966764 CATAAAACCT
* * *
966774 TTGAGAATGTTTCCATT-AAACAAGTTTTGTCTCCC
1 TTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTC
* * ***
966809 TTGAGACA-ATTTCTCTTGAAAC-AG-A-AAAC-CT-
1 TTGAGA-ATGTTTCCCTTGAAACAAGTATTGTCTCTC
966840 TTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTC
1 TTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTC
*
966876 TTGAGACA-GTTTCTCTTGAAAC
1 TTGAGA-ATGTTTCCCTTGAAAC
966898 CAATTATCCC
Statistics
Matches: 66, Mismatches: 14, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
30 1 0.02
31 18 0.27
32 3 0.05
33 2 0.03
34 1 0.02
35 16 0.24
36 24 0.36
37 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (36 bp):
TTGAGAATGTTTCCCTTGAAACAAGTATTGTCTCTC
Found at i:967163 original size:138 final size:138
Alignment explanation
Indices: 966901--967173 Score: 309
Period size: 138 Copynumber: 2.0 Consensus size: 138
966891 TTGAAACCAA
* * * *
966901 TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTATGAACCATGTCATCCACTGACCAGATCTC
1 TTATCCCTAAAGATGGCCAGACATCCTCATCACGTAGGAACCATGTCATCCACCGACAAGATCTC
* * ** * * * *
966966 CTCATCACGTAAGAGCCACGTCATCCTTAGATAGTCAGACTTTCTCAACGCGTAAGAACCGTGTT
66 CTCATCACATAAGAGCCACGTCACCCTTAGATAACCAGACTTTCTCAACACATAAGAACCATGCT
967031 ATCTCCAT
131 ATCTCCAT
* *
967039 TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGGAACCGTGTCATCCACCGACAAGATCTC
1 TTATCCCTAAAGATGGCCAGACATCCTCATCACGTAGGAACCATGTCATCCACCGACAAGATCTC
** * * * * *
967104 CTCATTGCAT-AGAAG-CAGTGTCACCCTTATATAACCATA-TTTCTTCATCACATAGGAACCAT
66 CTCATCACATAAG-AGCCA-CGTCACCCTTAGATAACCAGACTTTC-TCAACACATAAGAACCAT
967166 GCTATCTC
128 GCTATCTC
967174 TAAATTTACC
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
137 8 0.07
138 103 0.93
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (138 bp):
TTATCCCTAAAGATGGCCAGACATCCTCATCACGTAGGAACCATGTCATCCACCGACAAGATCTC
CTCATCACATAAGAGCCACGTCACCCTTAGATAACCAGACTTTCTCAACACATAAGAACCATGCT
ATCTCCAT
Found at i:978551 original size:11 final size:11
Alignment explanation
Indices: 978529--978562 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
978519 AGTTAGTAAG
978529 ATAAAGATAATA
1 ATAAA-ATAATA
978541 ATAAAATAATA
1 ATAAAATAATA
978552 ATAAAAATAAT
1 AT-AAAATAAT
978563 CCTACCACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:980956 original size:85 final size:85
Alignment explanation
Indices: 980808--980989 Score: 229
Period size: 85 Copynumber: 2.1 Consensus size: 85
980798 CGTGCGGCAC
* * * * * *
980808 TAAAACCCTAAAATCTTACATATGTAGACTGTTGGATTGGTTCAAATCCAATGGATCTAGTGATG
1 TAAAACCCTAAAATCTTACACATATAGACCGTTAGAATGGTTCAAATCCAACGGATCTAGTGATG
*** *
980873 CGGTGTTGATATCAGAAGGG
66 CAACGTTGATATCAAAAGGG
* * * * *
980893 TAAAACCCTAAGATCTTGCACATATAGACCGTTAGAATGGTTCAGATTCAACGGATCTGGTGATG
1 TAAAACCCTAAAATCTTACACATATAGACCGTTAGAATGGTTCAAATCCAACGGATCTAGTGATG
980958 CAACGTTGATATCAAAAGGG
66 CAACGTTGATATCAAAAGGG
980978 TAAAACCCTAAA
1 TAAAACCCTAAA
980990 TACGTCTGGA
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (85 bp):
TAAAACCCTAAAATCTTACACATATAGACCGTTAGAATGGTTCAAATCCAACGGATCTAGTGATG
CAACGTTGATATCAAAAGGG
Found at i:981178 original size:2 final size:2
Alignment explanation
Indices: 981160--981257 Score: 52
Period size: 2 Copynumber: 53.0 Consensus size: 2
981150 ATAAACCATA
*
981160 AT AT AA AT AT A- AT AT AT AT A- AT AT A- AT ACT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * *
981198 AT AT AT GT AC A- AT AT A- AT AT AT A- AT AT AC AT AT -T AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
981236 AC AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
981258 TCAAATATGT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
1 9 0.12
2 64 0.85
3 2 0.03
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (2 bp):
AT
Found at i:981192 original size:13 final size:12
Alignment explanation
Indices: 981157--981230 Score: 69
Period size: 13 Copynumber: 5.6 Consensus size: 12
981147 ATAATAAACC
981157 ATAATATA-AAT
1 ATAATATATAAT
981168 ATAATATATATAAT
1 AT-A-ATATATAAT
981182 ATAATACTATAAT
1 ATAATA-TATAAT
981195 ATAATATATGTACAAT
1 ATAATATA--T--AAT
981211 ATAATATATAAT
1 ATAATATATAAT
981223 ATACATAT
1 ATA-ATAT
981231 TACACACATA
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.04
12 12 0.22
13 22 0.41
14 7 0.13
16 11 0.20
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:981225 original size:5 final size:5
Alignment explanation
Indices: 981130--981218 Score: 62
Period size: 5 Copynumber: 18.2 Consensus size: 5
981120 ATAAAATAAA
* * *
981130 AATAT AACA- AATAA AATAT AATA- AACCAT AATAT AAATAT AATAT -ATAT
1 AATAT AATAT AATAT AATAT AATAT AA-TAT AATAT -AATAT AATAT AATAT
* * *
981179 AATAT -A-AT ACTAT AATAT AATAT ATGTAC AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT A
981219 TAATATACAT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
3 2 0.03
4 10 0.15
5 43 0.66
6 10 0.15
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:981312 original size:40 final size:41
Alignment explanation
Indices: 981268--981367 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 41
981258 TCAAATATGT
* * * *
981268 TTTTCAAAAAAATATATATTATATTTGTTTTC-GAAAAATG
1 TTTTCAAAAAAATATATATTATATATATTTTCAAAAAAACG
*
981308 TTTTC--AAAACTATATATTATATATATTTTCAAAAAAAACG
1 TTTTCAAAAAAATATATATTATATATATTTTC-AAAAAAACG
*
981348 TTTTCAAAAATTATATATAT
1 TTTTCAAAAA-AATATATAT
981368 GTTTTTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
38 22 0.46
40 16 0.33
42 3 0.06
43 7 0.15
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (41 bp):
TTTTCAAAAAAATATATATTATATATATTTTCAAAAAAACG
Found at i:981343 original size:38 final size:39
Alignment explanation
Indices: 981242--981342 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 39
981232 ACACACATAC
* *
981242 ATATA-TATATATATATTCAAATATGTTTTTCAAAAAAAT
1 ATATATTATATATATTTTCAAAAATGTTTTTC-AAAAAAT
* * *
981281 ATATATTATATTTGTTTTCGAAAAATG-TTTTC-AAAACT
1 ATATATTATATATATTTTC-AAAAATGTTTTTCAAAAAAT
981319 ATATATTATATATATTTTCAAAAA
1 ATATATTATATATATTTTCAAAAA
981343 AAACGTTTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 5 0.09
38 22 0.42
39 5 0.09
40 15 0.28
41 6 0.11
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (39 bp):
ATATATTATATATATTTTCAAAAATGTTTTTCAAAAAAT
Found at i:981436 original size:36 final size:37
Alignment explanation
Indices: 981371--981456 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 37
981361 TATATATGTT
* * * *
981371 TTTTAAAAACTATATATCATATATGTTTTCAAAGA-G
1 TTTTCAAAACTATATATCATACATATTTTCAAAAATG
*
981407 ATTTTC-AAACTATATATTATACATATTTTCAAAAATG
1 -TTTTCAAAACTATATATCATACATATTTTCAAAAATG
981444 TTTTCAAAACTAT
1 TTTTCAAAACTAT
981457 GTTTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 30 0.71
37 12 0.29
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTTCAAAACTATATATCATACATATTTTCAAAAATG
Found at i:981460 original size:14 final size:14
Alignment explanation
Indices: 981432--981473 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
981422 ATTATACATA
981432 TTTTCAAAA--ATG
1 TTTTCAAAACTATG
981444 TTTTCAAAACTATG
1 TTTTCAAAACTATG
*
981458 TTTTTAAAAACTATG
1 -TTTTCAAAACTATG
981473 T
1 T
981474 ATTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
14 4 0.15
15 13 0.50
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTCAAAACTATG
Found at i:981951 original size:45 final size:45
Alignment explanation
Indices: 981902--981991 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
981892 TAAAACTCTC
981902 TAATAATTAGATAATCAAAATTATTTGTTAAAACTAACTTAACTA
1 TAATAATTAGATAATCAAAATTATTTGTTAAAACTAACTTAACTA
981947 TAATAATTAGATAATCAAAATTATTTGTTAAAACTAACTTAACTA
1 TAATAATTAGATAATCAAAATTATTTGTTAAAACTAACTTAACTA
981992 CGTCAAGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (45 bp):
TAATAATTAGATAATCAAAATTATTTGTTAAAACTAACTTAACTA
Found at i:982995 original size:14 final size:14
Alignment explanation
Indices: 982976--983002 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
982966 TTCTATTTTG
982976 AGGATAACAAGGAT
1 AGGATAACAAGGAT
982990 AGGATAACAAGGA
1 AGGATAACAAGGA
983003 GGTTAACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.30, T:0.11
Consensus pattern (14 bp):
AGGATAACAAGGAT
Found at i:985536 original size:34 final size:34
Alignment explanation
Indices: 985498--985567 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
985488 AAAAGTTTGT
985498 AGTATGTAAGAAGAAGAATATTTTTAACGTCTGC
1 AGTATGTAAGAAGAAGAATATTTTTAACGTCTGC
* **
985532 AGTATGTAAGAAGAAGATTATTTTTAATTTCTGC
1 AGTATGTAAGAAGAAGAATATTTTTAACGTCTGC
985566 AG
1 AG
985568 ACTATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (34 bp):
AGTATGTAAGAAGAAGAATATTTTTAACGTCTGC
Found at i:986402 original size:31 final size:29
Alignment explanation
Indices: 986360--986445 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 29
986350 TCAATAAAGT
986360 TTAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAATTATAAAATA-TTATTAAATTTA
*
986390 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAA-ATTATAAAA-TATTATTAAATTTA
* *
986421 TTTAAATACTATAAAATAATTATTA
1 -TTAAAAATTATAAAAT-ATTATTA
986446 TATTATCGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 7 0.15
31 34 0.71
32 7 0.15
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (29 bp):
TTAAAAATTATAAAATATTATTAAATTTA
Found at i:986421 original size:20 final size:20
Alignment explanation
Indices: 986355--986421 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
986345 TTTTGTCAAT
986355 AAAG-TTTA-AAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
986372 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
986393 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
986412 ATAA-ATTTAT
1 A-AAGATTTAT
986422 TTAAATACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 12 0.31
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:987210 original size:18 final size:17
Alignment explanation
Indices: 987187--987220 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
987177 TAAGATCATA
*
987187 ATATTATTTTTTCATATT
1 ATATTATATTTT-ATATT
987205 ATATTATATTTTATAT
1 ATATTATATTTTATAT
987221 AAATAAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:987988 original size:43 final size:43
Alignment explanation
Indices: 987927--988012 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
987917 ATGCACACAG
*
987927 TTAATGCATTGTTTCCCCCAACTTATTAAACCTTCTAAAAGAC
1 TTAATGCATCGTTTCCCCCAACTTATTAAACCTTCTAAAAGAC
987970 TTAATGCATCGTTTCCCCCAACTTATTAAACCTTCTAAAAGAC
1 TTAATGCATCGTTTCCCCCAACTTATTAAACCTTCTAAAAGAC
988013 ATAAATGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.34
Consensus pattern (43 bp):
TTAATGCATCGTTTCCCCCAACTTATTAAACCTTCTAAAAGAC
Found at i:988602 original size:34 final size:34
Alignment explanation
Indices: 988559--988668 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 34
988549 GGTAAGAAAT
* * *
988559 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
988592 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
* *
988627 TT-TTTTT-TATTAAAATAATATTTATATAATTATTA
1 TTATTTTTATATT--AAT-ATATTTATGTAAATATTA
988662 TTTATTT
1 -TTATTT
988669 AGAATTATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
32 4 0.06
33 8 0.12
34 16 0.25
35 24 0.38
36 9 0.14
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:988628 original size:35 final size:35
Alignment explanation
Indices: 988582--988668 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
988572 AGTATTTTTT
*
988582 TAAATAGTTATTATATTTTATATT-AAT-ATATTTATG
1 TAAATA-TTATT-TATTTT-TATTAAATAATATTTATA
988618 TAAATATTATTT-TTTTTATTAAAATAATATTTATA
1 TAAATATTATTTATTTTTATT-AAATAATATTTATA
*
988653 TAATTATTATTTATTT
1 TAAATATTATTTATTT
988669 AGAATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 4 0.09
34 4 0.09
35 24 0.53
36 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TAAATATTATTTATTTTTATTAAATAATATTTATA
Found at i:988700 original size:52 final size:50
Alignment explanation
Indices: 988591--988700 Score: 118
Period size: 52 Copynumber: 2.2 Consensus size: 50
988581 TTAAATAGTT
*
988591 ATTATATTTTATATTAATATATTTATGTAAATATTATTTTTTTTATTAAA
1 ATTATATTTTATATTAATATATTTATGTAAATATTAATTTTTTTATTAAA
* * *
988641 ATAATA-TTTATA-TAATTATTATTTATTTAGAATTATTAATTTTTTT-TTACTA
1 ATTATATTTTATATTAA-TA-TATTTATGTA-AA-TATTAATTTTTTTATTA-AA
988693 ATTATATT
1 ATTATATT
988701 GTTTTGTCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
48 3 0.06
49 8 0.16
50 14 0.29
51 5 0.10
52 18 0.37
53 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (50 bp):
ATTATATTTTATATTAATATATTTATGTAAATATTAATTTTTTTATTAAA
Found at i:990961 original size:16 final size:16
Alignment explanation
Indices: 990919--990966 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
990909 TTTTTTAGTA
990919 ATTTATTTAATTATTTT
1 ATTTATTTAA-TATTTT
* *
990936 AATTGTTTAATATTTT
1 ATTTATTTAATATTTT
*
990952 ATTTAATTAA-ATTTT
1 ATTTATTTAATATTTT
990967 TTTGCATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTTATTTAATATTTT
Found at i:991074 original size:4 final size:4
Alignment explanation
Indices: 991060--991089 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
991050 TAACGTTTTA
991060 ATTT AATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT A
991090 ATGCTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Done.