Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 53 of 284
Found at i:18674261 original size:33 final size:33
Alignment explanation
Indices: 18674199--18674261 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
18674189 ATAGGCCCAC
* * *
18674199 ACTGTTACTGCATAGGGCTTAGGCACAGACTGT
1 ACTGTTACTGAATAAGGCTCAGGCACAGACTGT
* *
18674232 ACTGTTATTGAATAAGGCTCAGGCCCAGAC
1 ACTGTTACTGAATAAGGCTCAGGCACAGAC
18674262 CGTTATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (33 bp):
ACTGTTACTGAATAAGGCTCAGGCACAGACTGT
Found at i:18677049 original size:29 final size:28
Alignment explanation
Indices: 18676990--18677104 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 28
18676980 GTGGGCATGA
* *
18676990 ATATGAATGTGACTGGGCCTAATAGGG-C
1 ATATAAATGTGATTGGGCCTAAT-GGGCC
18677018 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
18677047 ATATATAA-GTGATTTGGGCCTAATGGGCC
1 ATATA-AATGTGA-TTGGGCCTAATGGGCC
* * *
18677076 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
18677104 A
1 A
18677105 GATACAGGTA
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
28 32 0.41
29 44 0.56
30 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:18682542 original size:27 final size:27
Alignment explanation
Indices: 18682477--18682629 Score: 139
Period size: 27 Copynumber: 5.7 Consensus size: 27
18682467 TTAGTTTACC
** *
18682477 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACCAAAATACCCTCAGTTTGTA
*
18682503 AAATTACCAAAATACCCTCAGTTTATA
1 AAATTACCAAAATACCCTCAGTTTGTA
* *
18682530 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCAAAATACCCTCAG-TTTGTA
* **
18682557 AAATTACCGAAATACCCTCAGTTTCCA
1 AAATTACCAAAATACCCTCAGTTTGTA
* * ***
18682584 AAATTGCTAAAATACCCTCAACATGTA
1 AAATTACCAAAATACCCTCAGTTTGTA
* *
18682611 AAATTATCAAAGTACCCTC
1 AAATTACCAAAATACCCTC
18682630 GAATTATAAA
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
26 19 0.19
27 81 0.80
28 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAGTTTGTA
Found at i:18682597 original size:54 final size:53
Alignment explanation
Indices: 18682469--18682629 Score: 153
Period size: 54 Copynumber: 3.0 Consensus size: 53
18682459 AGAATACTTT
* ** * *
18682469 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAATACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCAACTTGTAAAATTACC-AAATACCCTC
* * * * *
18682522 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCAACTTGTAAAATTACC-AAATACCCTC
* * * * *
18682576 AGTTTCCAAAATTGCTAAAATACCCTCAACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACCAAAATACCCTCAACTTGTAAAATTACCAAA-TACCCTC
18682630 GAATTATAAA
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
53 23 0.26
54 65 0.74
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (53 bp):
AGTTTACAAAATTACCAAAATACCCTCAACTTGTAAAATTACCAAATACCCTC
Found at i:18682630 original size:81 final size:81
Alignment explanation
Indices: 18682477--18682645 Score: 182
Period size: 81 Copynumber: 2.1 Consensus size: 81
18682467 TTAGTTTACC
* ***
18682477 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAATACCCTCAGTTTATAAAATTACCCAAA
1 AAATTACCGAAATACCCCCAGTTGTAAAATTACCAAAATACCCTCAACATATAAAATTACCCAAA
* * *
18682542 TATCCTCGATTTGT-A
66 TACCCTCGAATTATAA
* * * * *
18682557 AAATTACCGAAATACCCTCAGTT-TCCAAAATTGCTAAAATACCCTCAACATGTAAAATTA-TCA
1 AAATTACCGAAATACCCCCAGTTGT--AAAATTACCAAAATACCCTCAACATATAAAATTACCCA
18682620 AAGTACCCTCGAATTATAA
64 AA-TACCCTCGAATTATAA
18682639 AAATTAC
1 AAATTAC
18682646 TGTTTTACCC
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 1 0.01
80 25 0.34
81 39 0.53
82 8 0.11
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AAATTACCGAAATACCCCCAGTTGTAAAATTACCAAAATACCCTCAACATATAAAATTACCCAAA
TACCCTCGAATTATAA
Found at i:18682679 original size:27 final size:27
Alignment explanation
Indices: 18682623--18682871 Score: 270
Period size: 27 Copynumber: 9.2 Consensus size: 27
18682613 ATTATCAAAG
*
18682623 TACCCTCGAATTATA-AAAATTACTGTTT
1 TACCCTCG-ATT-TACAAAATTACTATTT
*
18682651 TACCCTCGATTTAC-AGATATACTATTT
1 TACCCTCGATTTACAAAAT-TACTATTT
* * *
18682678 TACCCTCAATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * * *
18682705 TACCCTTGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
18682732 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
**
18682759 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
18682786 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * **
18682813 TACCTTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
18682840 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
18682867 TACCC
1 TACCC
18682872 CTAGGGTGTT
Statistics
Matches: 190, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.03
27 172 0.91
28 12 0.06
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:18682759 original size:81 final size:81
Alignment explanation
Indices: 18682623--18682871 Score: 322
Period size: 81 Copynumber: 3.1 Consensus size: 81
18682613 ATTATCAAAG
* * *
18682623 TACCCTCGAATTATA-AAAATTACTGTTTTACCCTCGATTTACAG-ATATACTATTTTACCCTCA
1 TACCCTCG-ATT-TACAAAATTACTATTTTACCCTCGATTTACAGAAT-TACCATTTTACCCTCG
* *
18682686 ATTTATAAAATTATCGTTT
63 ATTTACAAAATTACCGTTT
* * * *
18682705 TACCCTTGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
18682770 TACAAAATTACCGTTT
66 TACAAAATTACCGTTT
* * * * *
18682786 TACCCTCGATTTACAAAATTACTATTTTACCTTCAATTTACAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
18682851 TACAAAATTACCATTT
66 TACAAAATTACCGTTT
18682867 TACCC
1 TACCC
18682872 CTAGGGTGTT
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 136 0.93
82 9 0.06
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:18683240 original size:27 final size:26
Alignment explanation
Indices: 18683200--18683258 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
18683190 ATATATATAT
*
18683200 ATATCTGTTCTGGTGACCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
18683226 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
18683253 ATATCT
1 ATATCT
18683259 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:18683412 original size:31 final size:31
Alignment explanation
Indices: 18683377--18683455 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
18683367 TTGCATTCAC
* *
18683377 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
18683408 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
18683439 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
18683456 AGTTTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:18683416 original size:6 final size:6
Alignment explanation
Indices: 18683377--18683455 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
18683367 TTGCATTCAC
* * *
18683377 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
18683426 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
18683456 AGTTTTGATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 48 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:18683464 original size:18 final size:18
Alignment explanation
Indices: 18683377--18683455 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
18683367 TTGCATTCAC
*
18683377 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
18683395 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
* *
18683414 ATTCTAATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
18683433 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
18683451 ATTCT
1 ATTCT
18683456 AGTTTTGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.06
18 15 0.31
19 27 0.56
20 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:18686446 original size:23 final size:23
Alignment explanation
Indices: 18686419--18686470 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
18686409 ATGTTTACCG
18686419 CTATTAGCAGCTTTCCTGTGTTA
1 CTATTAGCAGCTTTCCTGTGTTA
**
18686442 CTATTAGCAGCTTTGTTGTGTTA
1 CTATTAGCAGCTTTCCTGTGTTA
18686465 CTATTA
1 CTATTA
18686471 ACATCTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (23 bp):
CTATTAGCAGCTTTCCTGTGTTA
Found at i:18689140 original size:29 final size:29
Alignment explanation
Indices: 18689107--18689182 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
18689097 TCTTGACATA
* *
18689107 TACTGAGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACAGT
18689136 TACTGGGCCGAAGCCTTTCGTTTAACAGT
1 TACTGGGCCGAAGCCTTTCGTTTAACAGT
*
18689165 TACTGGGCCGAATCCTTT
1 TACTGGGCCGAAGCCTTT
18689183 TCATAAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.32
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAACAGT
Found at i:18689284 original size:42 final size:42
Alignment explanation
Indices: 18689237--18689328 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
18689227 TGGCCCATAG
* ** * *
18689237 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
*
18689279 GCCCATTTCAATATCATATGAAATACCAATGAATGTATACAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
18689321 GCCCATTT
1 GCCCATTT
18689329 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATACAA
Found at i:18689545 original size:26 final size:26
Alignment explanation
Indices: 18689461--18689596 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
18689451 CTAGAGTCCT
18689461 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
18689485 AGCCCTTTTCAGTAAACTGTGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
18689510 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
18689536 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
18689562 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
18689588 AACCCTTTT
1 AGCCCTTTT
18689597 GCACCTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 31 0.32
26 54 0.56
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:18689579 original size:52 final size:51
Alignment explanation
Indices: 18689467--18689596 Score: 203
Period size: 52 Copynumber: 2.6 Consensus size: 51
18689457 TCCTAGCCTC
*
18689467 TTTT-AAT-AACTGGGGCA-AAGCCCTTTTCAGTAAACTGTGGCAAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCAAAGCCA
*
18689515 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCA-AAGCCA
*
18689567 TTTTCAATAAACTGGGGCATAAACCCTTTT
1 TTTTCAATAAACTGGGGCATAAGCCCTTTT
18689597 GCACCTCCTC
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
48 4 0.05
49 3 0.04
50 10 0.13
51 23 0.31
52 35 0.47
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (51 bp):
TTTTCAATAAACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCAAAGCCA
Found at i:18689671 original size:20 final size:20
Alignment explanation
Indices: 18689646--18689712 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
18689636 TTATGAATAC
18689646 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
18689666 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
18689686 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
18689706 ATCATGT
1 ATCATGT
18689713 ATATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:18690450 original size:27 final size:27
Alignment explanation
Indices: 18690420--18690483 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
18690410 GGGCATATTC
18690420 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
18690447 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
18690474 GTCTTTTTAC
1 GTCATTTTAC
18690484 ATATTAGGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:18690568 original size:27 final size:27
Alignment explanation
Indices: 18690515--18690724 Score: 134
Period size: 27 Copynumber: 7.7 Consensus size: 27
18690505 TTTCATCCTA
* * * * *
18690515 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
18690542 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
18690569 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * * *
18690598 CAAGGGTACTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * * *
18690625 TAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * *
18690652 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
18690679 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * *
18690706 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
18690725 CTACCCTATA
Statistics
Matches: 144, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 113 0.78
28 15 0.10
29 14 0.10
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:18690643 original size:56 final size:54
Alignment explanation
Indices: 18690542--18690671 Score: 136
Period size: 56 Copynumber: 2.4 Consensus size: 54
18690532 ATCTACAAAC
* *
18690542 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTA-AAAAT
* * ** * *
18690598 CAAGGGTACTTCTGTAATTTTGTAAATTAGGGGTATTT-TGGTAATTTTAAAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTTTAAAAAT
* *
18690652 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
18690672 CACAAACCAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 21 0.34
55 6 0.10
56 35 0.56
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTAAAAAT
Found at i:18690740 original size:81 final size:81
Alignment explanation
Indices: 18690602--18690757 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
18690592 GAAAGTCAAG
* ** * * *
18690602 GGTACTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGGT
1 GGTACTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAAAAATTAAGGGTATTTCAGT
18690667 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* *** *
18690683 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCT-ACCCTATAGGGGTATTTCAG
1 GGTACTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAAAAAT-TAAGGGTATTTCAG
18690747 TAATTTCACAA
65 TAATTTCACAA
18690758 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTACTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTAAAAATTAAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:18690764 original size:27 final size:26
Alignment explanation
Indices: 18690626--18690757 Score: 104
Period size: 27 Copynumber: 4.9 Consensus size: 26
18690616 TTTGTAAATT
* * * *
18690626 AGGGGTATTTTGGTAATTTTAAAAATT
1 AGGGGTATTTCGGTAATTTCACAAA-C
*
18690653 AAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAA-C
* *
18690680 AGTGGTATTTCGGTAATTTTACAAAC
1 AGGGGTATTTCGGTAATTTCACAAAC
* ** *
18690706 TAGGGGTATTTTGGTAA-TTCTACCCTAT
1 -AGGGGTATTTCGGTAATTTC-A-CAAAC
*
18690734 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
18690758 TCGAGGGTAA
Statistics
Matches: 82, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
26 4 0.05
27 73 0.89
28 5 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGGTATTTCGGTAATTTCACAAAC
Found at i:18690786 original size:27 final size:27
Alignment explanation
Indices: 18690756--18690847 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
18690746 GTAATTTCAC
** *
18690756 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
18690783 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
18690810 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
18690837 AATTGAGGGTA
1 AATCGAGGGTA
18690848 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:18690830 original size:54 final size:54
Alignment explanation
Indices: 18690744--18691011 Score: 168
Period size: 54 Copynumber: 4.9 Consensus size: 54
18690734 AGGGGTATTT
* * *
18690744 CAGTAATTT-CACAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAA
1 CAGTAATTTGTACAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAA
* * ** ***
18690797 CAGTAATTCTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTACTT
1 CAGTAATT-TGTACAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAA
** * *** * * ***
18690851 TGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAAT-ATGGGGTATTT
1 CAGTAATTTGTACAA-TCGAGGGTAAAATAGTAATTTTA-TAAATCA-AGGGTAAAA
* * * *** * *
18690907 TAGTAATTT-TACAAGCTAGGGGTATTTTAGTAATTTTGTAAATCAAAGGTAAAA
1 CAGTAATTTGTACAATCGA-GGGTAAAATAGTAATTTTATAAATCAAGGGTAAAA
* *
18690961 CAGTAATTCTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTA
1 CAGTAATT-TGTACAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTA
18691012 CTTTGGTATT
Statistics
Matches: 162, Mismatches: 43, Indels: 19
0.72 0.19 0.08
Matches are distributed among these distances:
53 11 0.07
54 83 0.51
55 47 0.29
56 21 0.13
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (54 bp):
CAGTAATTTGTACAATCGAGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAA
Found at i:18691034 original size:54 final size:55
Alignment explanation
Indices: 18690736--18691083 Score: 162
Period size: 54 Copynumber: 6.4 Consensus size: 55
18690726 TACCCTATAG
* ** * *
18690736 GGGTA-TTTCAGTAA-TTTCACAA-TCGAGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTACTTT-AGTAATTTTTACAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA
**** * **
18690789 GGGTAAAACAGTAATTCTGTA-AA-TCGAGGGTAAAACAGTAATTCTATAAATTGA
1 GGGTACTTTAGTAATT-TTTACAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA
* **** * * *
18690843 GGGTACTTTGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAAT-ATG
1 GGGTACTTTAGTAATTTTTACAAGTCGAGGGTAAAACAGTAATTCTA-TAAATCA-A
* * **** * *
18690899 GGGTATTTTAGTAA-TTTTACAAG-CTAGGGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTACTTTAGTAATTTTTACAAGTCGA-GGGTAAAACAGTAATTCTATAAATCAA
* **** *
18690953 AGGTAAAACAGTAATTCTGTA-AA-TCGAGGGTAAAACAGTAATTCTATAAATCAA
1 GGGTACTTTAGTAATT-TTTACAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA
* **** * * *
18691007 GGGTACTTTGGT-ATTTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCAG
1 GGGTACTTTAGTAATTTTTACAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA
*
18691061 GGAGTATTTTAGTAA-TTTTACAA
1 GG-GTACTTTAGTAATTTTTACAA
18691084 ACCAGGGGTA
Statistics
Matches: 218, Mismatches: 61, Indels: 30
0.71 0.20 0.10
Matches are distributed among these distances:
52 3 0.01
53 18 0.08
54 109 0.50
55 68 0.31
56 20 0.09
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (55 bp):
GGGTACTTTAGTAATTTTTACAAGTCGAGGGTAAAACAGTAATTCTATAAATCAA
Found at i:18691119 original size:27 final size:27
Alignment explanation
Indices: 18690772--18691120 Score: 165
Period size: 27 Copynumber: 12.8 Consensus size: 27
18690762 GGGTAAAATG
* ****
18690772 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTATTTTA
* ****
18690799 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTATTTTA
* * * * *
18690826 GTAATTCTATAAATTGAGGGTACTTTG
1 GTAATTTTGTAAATCGAGGGTATTTTA
*
18690853 GTAATTTT-TACAAGTCGAGGGTATGTTA
1 GTAATTTTGTA-AA-TCGAGGGTATTTTA
** *
18690881 GTAATTTTACAAAATATG-GGGTATTTTA
1 GTAATTTT-GTAAAT-CGAGGGTATTTTA
* *
18690909 GTAA-TTT-TACAAGCTAGGGGTATTTTA
1 GTAATTTTGTA-AATCGA-GGGTATTTTA
* * ****
18690936 GTAATTTTGTAAATCAAAGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTATTTTA
* ****
18690963 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTATTTTA
* * * * *
18690990 GTAATTCTATAAATCAAGGGTACTTTG
1 GTAATTTTGTAAATCGAGGGTATTTTA
18691017 GT-ATTTT-TACAAGTCGAGGGTATTTTA
1 GTAATTTTGTA-AA-TCGAGGGTATTTTA
**
18691044 GTAATTTTACAAATC-AGGGAGTATTTTA
1 GTAATTTTGTAAATCGA-GG-GTATTTTA
** *
18691072 GTAATTTTACAAA-CCAGGGGTATTTTA
1 GTAATTTTGTAAATCGA-GGGTATTTTA
18691099 GTAATTTTGTAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
18691121 AAACGGTAAT
Statistics
Matches: 258, Mismatches: 46, Indels: 36
0.76 0.14 0.11
Matches are distributed among these distances:
25 3 0.01
26 11 0.04
27 164 0.64
28 73 0.28
29 6 0.02
30 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTATTTTA
Found at i:18691158 original size:163 final size:164
Alignment explanation
Indices: 18690772--18691142 Score: 622
Period size: 163 Copynumber: 2.3 Consensus size: 164
18690762 GGGTAAAATG
18690772 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
**
18690837 AATTGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAATATGGGG
66 AATCAAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAATATGGGG
* *
18690902 TATTTTAGTAATTTTACAAGCTAGGGGTATTTTA
131 TATTTTAGTAATTTTACAAACCAGGGGTATTTTA
*
18690936 GTAATTTTGTAAATCAAAGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
18691001 AATCAAGGGTACTTTGGT-ATTTTTACAAGTCGAGGGTATTTTAGTAATTTTAC-AAATCA-GGG
66 AATCAAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAAT-ATGGG
18691063 AGTATTTTAGTAATTTTACAAACCAGGGGTATTTTA
130 -GTATTTTAGTAATTTTACAAACCAGGGGTATTTTA
* * *
18691099 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
1 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGA
18691143 AGGCATTTCA
Statistics
Matches: 195, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
162 7 0.04
163 108 0.55
164 80 0.41
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (164 bp):
GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATGTTAGTAATTTTACAAAATATGGGG
TATTTTAGTAATTTTACAAACCAGGGGTATTTTA
Found at i:18691351 original size:17 final size:17
Alignment explanation
Indices: 18691331--18691374 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
18691321 AACTTATCCA
*
18691331 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCATAGGCCC
*
18691348 ATTGGGCCTATAGGCCC
1 ATTGGGCCCATAGGCCC
18691365 ATTGGGCCCA
1 ATTGGGCCCA
18691375 CATGACCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (17 bp):
ATTGGGCCCATAGGCCC
Found at i:18693638 original size:64 final size:64
Alignment explanation
Indices: 18693561--18693690 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
18693551 TGTTTAAGTA
*
18693561 AAGAATGATATCTGGTAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
1 AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
*
18693625 AAGAATGATATCTGGCAAAGAAACAAATTTTTGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
1 AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
18693689 AA
1 AA
18693691 AAGAATGTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (64 bp):
AAGAATGATATCTGGCAAAGAAACAAATTTTGGTCTGGGAAAAGATGGTGAGTTAAGAATCATG
Found at i:18699566 original size:46 final size:44
Alignment explanation
Indices: 18699505--18699681 Score: 149
Period size: 46 Copynumber: 3.9 Consensus size: 44
18699495 ATATTTGGGC
18699505 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * ** * *
18699549 ATGTTCGAATTCGTTGAGTAGAGTCCGAGTTCGAGATATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
** * *
18699598 ATCCGAGGTCGTTGATTTGAGTCCGAGTTCACTTATAGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* * *
18699643 CACCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18699682 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:18699666 original size:93 final size:93
Alignment explanation
Indices: 18699502--18699673 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
18699492 AGGATATTTG
* **** *
18699502 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAATTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACACCCGAACTCGTTGAG
18699567 TAGAGTCCGAGTTCGAGATATGTAACTA
66 TAGAGTCCGAGTTCGAGATATGTAACTA
** * *
18699595 GGCATCCGAGGTCGTTGATTTGAGTCCGAGTTCACTTATAGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACACCCGAACTCGTTGAG
* *
18699660 TTGAGTCTGAGTTC
66 TAGAGTCCGAGTTC
18699674 ACTTATGGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACACCCGAACTCGTTGAG
TAGAGTCCGAGTTCGAGATATGTAACTA
Found at i:18706876 original size:49 final size:48
Alignment explanation
Indices: 18706804--18706985 Score: 222
Period size: 49 Copynumber: 3.7 Consensus size: 48
18706794 CTGGTACGCA
*
18706804 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTGCA-G
* * *
18706853 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCAG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGT--GCAG
** * *
18706905 -AGTAGCCTGCACTTAGTTTTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTGCA-G
*
18706953 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
18706986 TCACAATAGC
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 66 0.58
50 6 0.05
51 34 0.30
52 1 0.01
53 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTGCAG
Found at i:18706969 original size:100 final size:100
Alignment explanation
Indices: 18706791--18706983 Score: 314
Period size: 100 Copynumber: 1.9 Consensus size: 100
18706781 TAGCCAAAGC
* * * *
18706791 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCATGTAG
1 TATCAGGTACGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
18706856 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
** *
18706891 TATCAGGTACGCAGAGTAGCCTGCACTTAGTTTTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCAGGTACGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
*
18706956 TAGCCTGCACTTAGTACTACACATGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
18706984 CCTCACAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (100 bp):
TATCAGGTACGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:18707668 original size:30 final size:30
Alignment explanation
Indices: 18707633--18707692 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18707623 CTTTAATACG
*
18707633 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGACAAAATTACAC-TTTTGCCCCTA
* *
18707663 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
18707693 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:18709755 original size:15 final size:15
Alignment explanation
Indices: 18709731--18709769 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
18709721 AATAGAGAAG
18709731 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
18709747 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
18709762 CCATGATA
1 CCAAGATA
18709770 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:18712598 original size:49 final size:49
Alignment explanation
Indices: 18712513--18712757 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
18712503 TAGCCAAAGC
* *
18712513 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
18712562 TATCCGGTGCACGTAGTATCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * **
18712612 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* **
18712663 TATCAGGTACACATAGTAGCCTGCACTTAGTTTTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
18712712 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
18712758 TCACAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 83 0.51
50 44 0.27
51 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:18714878 original size:38 final size:38
Alignment explanation
Indices: 18714824--18714908 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
18714814 AGAATGAAAG
*
18714824 AAAGAAGAGGAAAAGAATGGTGCAAGAACCCATTCCAA
1 AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
* *
18714862 AAAGAAGAGGAGAAGAATGGTCCAAGAACCCATTGCAA
1 AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
18714900 AAAGAAGAG
1 AAAGAAGAG
18714909 AAATTGATGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.09
Consensus pattern (38 bp):
AAAGAAGAGGAAAAGAATGGTCCAAGAACCCATTCCAA
Found at i:18723665 original size:16 final size:18
Alignment explanation
Indices: 18723646--18723683 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
18723636 ATATTCTCAT
18723646 TTTTTTCA-TTTCT-TCC
1 TTTTTTCATTTTCTCTCC
18723662 -TTTTTCATTTTCTCTCC
1 TTTTTTCATTTTCTCTCC
18723679 TTTTT
1 TTTTT
18723684 GAAAAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 3 0.16
18 4 0.21
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTCATTTTCTCTCC
Found at i:18723667 original size:15 final size:17
Alignment explanation
Indices: 18723647--18723683 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18723637 TATTCTCATT
18723647 TTTTTCA-TTTCT-TCC
1 TTTTTCATTTTCTCTCC
18723662 TTTTTCATTTTCTCTCC
1 TTTTTCATTTTCTCTCC
18723679 TTTTT
1 TTTTT
18723684 GAAAAACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTCATTTTCTCTCC
Found at i:18726838 original size:27 final size:27
Alignment explanation
Indices: 18726799--18726907 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
18726789 AAGCGTCCTT
* *
18726799 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTACCACAATTATCTGATCTG
*
18726826 GTGGCTCTACCACATATT-TCTGTTCTG
1 GTGGCTCTACCACA-ATTATCTGATCTG
*
18726853 GTGGCTCTACCACGATTATCTGTATCTG
1 GTGGCTCTACCACAATTATCTG-ATCTG
* ** *
18726881 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTACCACAATTATCTGATCTG
18726907 G
1 G
18726908 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 45 0.64
28 17 0.24
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTACCACAATTATCTGATCTG
Found at i:18726902 original size:54 final size:54
Alignment explanation
Indices: 18726799--18726907 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
18726789 AAGCGTCCTT
* * *
18726799 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTTCTG
1 GTGGCTATACCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTCTG
* * **
18726853 GTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATACCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTTCTG
18726907 G
1 G
18726908 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATACCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTCTG
Found at i:18729597 original size:372 final size:372
Alignment explanation
Indices: 18728912--18729656 Score: 1474
Period size: 372 Copynumber: 2.0 Consensus size: 372
18728902 AATCATGACC
18728912 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
1 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
18728977 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
66 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
18729042 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
131 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
18729107 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
196 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
18729172 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
261 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
18729237 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTATCC-AGATCTTGTA
326 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTA-CCTAGATCTTGTA
18729284 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
1 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
18729349 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
66 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
18729414 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
131 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
18729479 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
196 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
18729544 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
261 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
18729609 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCTAGATCTTGTA
326 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCTAGATCTTGTA
18729656 A
1 A
18729657 TTCTGGGGGC
Statistics
Matches: 372, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
371 2 0.01
372 370 0.99
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (372 bp):
ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCTAGATCTTGTA
Found at i:18733981 original size:55 final size:56
Alignment explanation
Indices: 18733916--18734030 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
18733906 AGCATGGCTG
* *
18733916 CCAGATACAGA-AAAGGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAAGGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
18733972 CCAGA-ACAGATATAGGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAAGGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
18734027 CCAG
1 CCAG
18734031 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAAGGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:18733983 original size:28 final size:27
Alignment explanation
Indices: 18733941--18734030 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
18733931 GTGACAGAGT
18733941 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
** *
18733970 CACCAGAACAGATATAGGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
18733997 CACTAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
18734025 CACCAG
1 CACCAG
18734031 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:18734183 original size:28 final size:27
Alignment explanation
Indices: 18734136--18734227 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 27
18734126 AAATTAACCC
*
18734136 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATA-AGGTAATTTTGCATACA
18734164 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAA-GGTAATTTTGCATACA
18734192 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAA-GGTAATTTTGCATACA
*
18734220 TTGGGGTA
1 TAGGGGTA
18734228 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAAGGTAATTTTGCATACA
Found at i:18742096 original size:28 final size:28
Alignment explanation
Indices: 18742049--18742140 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
18742039 AAATTAACCC
*
18742049 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
18742077 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18742105 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18742133 TAGGGGTA
1 TAGGGGTA
18742141 CTCTAGTACA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:18742418 original size:8 final size:8
Alignment explanation
Indices: 18742391--18742421 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18742381 CCAAAATACA
18742391 GGCTTTTC
1 GGCTTTTC
*
18742399 GGCATTTC
1 GGCTTTTC
18742407 GGCTTTTC
1 GGCTTTTC
18742415 GGCTTTT
1 GGCTTTT
18742422 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:18750008 original size:29 final size:28
Alignment explanation
Indices: 18749943--18750041 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
18749933 ATTCCAACCG
*
18749943 AATTAATGTGTCTTATTTTATACAAGTT
1 AATTAATGTGTCCTATTTTATACAAGTT
*
18749971 -ATTAATGTGTCCTA-TTTAGTTACATGTT
1 AATTAATGTGTCCTATTTTA--TACAAGTT
* * *
18749999 AATTAATGTGTCCAAGTTTTAAACATG-T
1 AATTAATGTGTCCTA-TTTTATACAAGTT
*
18750027 AATTAATTTGTCCTA
1 AATTAATGTGTCCTA
18750042 GTGTAGCTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.07
27 13 0.22
28 21 0.35
29 18 0.30
31 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (28 bp):
AATTAATGTGTCCTATTTTATACAAGTT
Found at i:18750544 original size:21 final size:21
Alignment explanation
Indices: 18750520--18750559 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18750510 AATGAGTGGA
18750520 GAAGCTTCCTAGAATTTTCTT
1 GAAGCTTCCTAGAATTTTCTT
* * *
18750541 GAAGTTTTCTGGAATTTTC
1 GAAGCTTCCTAGAATTTTC
18750560 AGCTCATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (21 bp):
GAAGCTTCCTAGAATTTTCTT
Found at i:18752187 original size:20 final size:20
Alignment explanation
Indices: 18752150--18752187 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18752140 CTCAGGCTTT
*
18752150 TACTTACATCAAAGTGTAAC
1 TACTTACATCAAAATGTAAC
*
18752170 TACTTACATTAAAATGTA
1 TACTTACATCAAAATGTA
18752188 CGAGTCTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (20 bp):
TACTTACATCAAAATGTAAC
Found at i:18757435 original size:29 final size:27
Alignment explanation
Indices: 18757368--18757452 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
18757358 TACCTGTATC
* * *
18757368 TGGCCCATTAAGCCCATTTATATTCATA
1 TGGCCCATT-AGCCCAATCACATTCATA
*
18757396 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTA-GCCC-AATCACATTCATA
** *
18757425 TGGCCTGTTAGCCCAGTCACATTCATA
1 TGGCCCATTAGCCCAATCACATTCATA
18757452 T
1 T
18757453 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
27 13 0.28
28 17 0.36
29 17 0.36
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (27 bp):
TGGCCCATTAGCCCAATCACATTCATA
Found at i:18757452 original size:27 final size:29
Alignment explanation
Indices: 18757389--18757452 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
18757379 GCCCATTTAT
18757389 ATTCATATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
* ** *
18757418 ATTTATATGGCCTGTTA-GCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
18757445 ATTCATAT
1 ATTCATAT
18757453 TCATGCTCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 12 0.40
28 4 0.13
29 14 0.47
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:18761310 original size:15 final size:16
Alignment explanation
Indices: 18761281--18761310 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18761271 CAAACATGCT
18761281 TTAACACATTATCAAA
1 TTAACACATTATCAAA
18761297 TTAACACA-TATCAA
1 TTAACACATTATCAA
18761311 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:18770589 original size:17 final size:16
Alignment explanation
Indices: 18770566--18770604 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
18770556 ATTGTAACAC
18770566 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
18770582 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
18770598 TCCAAAA
1 CCCAAAA
18770605 CTTTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:18772006 original size:24 final size:25
Alignment explanation
Indices: 18771979--18772030 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18771969 GCCTAGCCTC
*
18771979 TTTTAAT-AACTGGGGCGAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
18772003 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
18772028 TTT
1 TTT
18772031 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:18772133 original size:21 final size:21
Alignment explanation
Indices: 18772080--18772120 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18772070 AATGAGTATA
*
18772080 TCATAGCATATCATGTGCATC
1 TCATAACATATCATGTGCATC
18772101 TCATAACATATCATGTGCAT
1 TCATAACATATCATGTGCAT
18772121 ACCATGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TCATAACATATCATGTGCATC
Found at i:18774000 original size:19 final size:20
Alignment explanation
Indices: 18773976--18774013 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18773966 CACAACCCAA
18773976 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
18773995 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
18774014 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:18780182 original size:21 final size:22
Alignment explanation
Indices: 18780158--18780215 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
18780148 AATGAGTATA
18780158 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
18780179 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
18780201 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
18780216 ATTGCAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:18780297 original size:26 final size:27
Alignment explanation
Indices: 18780252--18780302 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
18780242 ATAATTAAAC
*
18780252 CCTAGGGGGAATAATGGTCATTTTTTT
1 CCTAGGGGGAATAATAGTCATTTTTTT
*
18780279 CCTAGGGGTAA-AATAGTCATTTTT
1 CCTAGGGGGAATAATAGTCATTTTT
18780303 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (27 bp):
CCTAGGGGGAATAATAGTCATTTTTTT
Found at i:18782108 original size:19 final size:20
Alignment explanation
Indices: 18782084--18782121 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18782074 CACAACCTAA
18782084 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
18782103 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
18782122 TTGAAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:18783148 original size:29 final size:29
Alignment explanation
Indices: 18783106--18783182 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
18783096 TGAATATGAC
* *
18783106 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
18783135 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
18783164 TGGGCCTAATAGGCCATAT
1 TGGGCCTAATGGGCCATAT
18783183 GAATAAGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:18783192 original size:29 final size:28
Alignment explanation
Indices: 18783106--18783207 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
18783096 TGAATATGAC
**
18783106 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATAGGCCATAT-AATGTGATT
* *
18783135 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATA-ATGTGATT
**
18783164 TGGGCCTAATAGGCCATATGAATAAGA-T
1 TGGGCCTAATAGGCCATAT-AATGTGATT
*
18783192 TGGGCTTAATAGGCCA
1 TGGGCCTAATAGGCCA
18783208 AATACAGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 17 0.27
29 46 0.72
30 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (28 bp):
TGGGCCTAATAGGCCATATAATGTGATT
Found at i:18783214 original size:57 final size:58
Alignment explanation
Indices: 18783106--18783216 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
18783096 TGAATATGAC
* ** * *
18783106 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATAGGCCAAATACAGGTGATT
* * *
18783164 TGGGCCTAATAGGCCATATGAATAAGA-TTGGGCTTAATAGGCCAAATACAGGT
1 TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATAGGCCAAATACAGGT
18783217 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATAGGCCAAATACAGGTGATT
Found at i:18791562 original size:24 final size:24
Alignment explanation
Indices: 18791518--18791565 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18791508 TAATTCAATC
*
18791518 TAACCATATTAAGCACACATATAT
1 TAACCATATTAAACACACATATAT
*
18791542 TAACCATATTATAAC-CTCATATAT
1 TAACCATATTA-AACACACATATAT
18791566 ATATATTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (24 bp):
TAACCATATTAAACACACATATAT
Found at i:18810890 original size:30 final size:29
Alignment explanation
Indices: 18810847--18810932 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
18810837 ACCGGGTTTG
* *
18810847 AGCTAAGCTGAGCTAAGCTTTAGC-CCTTA
1 AGCTAAGTTGAGCTAAGATTTAGCTCC-TA
*
18810876 AGCTAAAGTTGAGCTGAGATTATA-CTCCTA
1 AGCT-AAGTTGAGCTAAGATT-TAGCTCCTA
*
18810906 AGCTGAAGTTGAGCTAAGGTTTAGCTC
1 AGCT-AAGTTGAGCTAAGATTTAGCTC
18810933 GAGCTGAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 6 0.13
30 37 0.79
31 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (29 bp):
AGCTAAGTTGAGCTAAGATTTAGCTCCTA
Found at i:18815090 original size:21 final size:22
Alignment explanation
Indices: 18815042--18815091 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
18815032 TATTAAAGAG
**
18815042 TGTTGTGATTGCATCTGACTCT
1 TGTTGTGGGTGCATCTGACTCT
*
18815064 TG-TGTGGGTGCATCTGGCT-T
1 TGTTGTGGGTGCATCTGACTCT
18815084 TGTTGTGG
1 TGTTGTGG
18815092 TTGTATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.34, T:0.44
Consensus pattern (22 bp):
TGTTGTGGGTGCATCTGACTCT
Found at i:18818612 original size:49 final size:47
Alignment explanation
Indices: 18818519--18818743 Score: 299
Period size: 47 Copynumber: 4.7 Consensus size: 47
18818509 TTAGGATTCT
* *
18818519 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGAGATAAGGCCTAATGGCCG
18818566 ATGTGATGAATGTGAAAGTGTATATACATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGAGATAAGGCCTAATGGCCG
*
18818615 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
* * * * * *
18818662 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
* * * *
18818709 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGAGATAAG
18818744 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 114 0.70
49 47 0.29
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
Found at i:18818648 original size:96 final size:94
Alignment explanation
Indices: 18818519--18818743 Score: 317
Period size: 96 Copynumber: 2.4 Consensus size: 94
18818509 TTAGGATTCT
* *
18818519 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
18818583 GTGTATATACATGAGATAAGGCCTAATGGCCG
65 GTGTATAT--ATGAGACAAGGCCGAATGGCCA
*
18818615 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
18818680 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGAGACAAGGCCGAATGGCCA
* *
18818709 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
18818744 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
94 48 0.41
95 1 0.01
96 67 0.58
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (94 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGAGACAAGGCCGAATGGCCA
Found at i:18818912 original size:37 final size:37
Alignment explanation
Indices: 18818862--18818940 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
18818852 CCGAGCTCTA
* *
18818862 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
18818899 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
18818936 AAGAC
1 AAGAC
18818941 TTCGTAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:18819114 original size:114 final size:114
Alignment explanation
Indices: 18818914--18819136 Score: 446
Period size: 114 Copynumber: 2.0 Consensus size: 114
18818904 CCGATGACTA
18818914 CGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
1 CGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
18818979 AAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATAACTT
66 AAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATAACTT
18819028 CGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
1 CGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
18819093 AAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
66 AAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
18819137 TTGCACTAAA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (114 bp):
CGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGA
AAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATAACTT
Found at i:18821970 original size:47 final size:48
Alignment explanation
Indices: 18821858--18822123 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 48
18821848 GTTATTGTGG
* * * *
18821858 GCTAGTGAAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGA-GATGAGT
* * * *
18821904 GCCAGTGTAAGACCGTGTCTGGGATATGGCATCGGCATTGAGATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGT
* *
18821952 GCTAGTGTAAGA-CATGTCTGGGACGT-GCATCGGCCTCGAGA-G-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGT
* *
18821996 AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TACGAGATGA-T
1 --GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGT
* * *
18822043 AG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGGAAT-GAGAT-ATGA
1 -GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGA-GT
* * *
18822091 GCTAGTGTAAGACCGTGTCTGGGATATGTCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
18822124 AGCACTTTAC
Statistics
Matches: 178, Mismatches: 26, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 71 0.40
47 73 0.41
48 28 0.16
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGT
Found at i:18822005 original size:46 final size:47
Alignment explanation
Indices: 18821861--18822071 Score: 170
Period size: 46 Copynumber: 4.5 Consensus size: 47
18821851 ATTGTGGGCT
* * * * *
18821861 AGTGAAAGA-CATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GAGGTA-AGCC
* * * * *
18821907 AGTGTAAGACCGTGTCTGGGATATGGCATCGGCATTGAGATGAGT--GCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGA-G-GTAAGCC
*
18821955 AGTGTAAGA-CATGTCTGGGACGTGCATCGGCCTCGAGAGGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGAGGTAAGCC
* * *
18822001 AGTGTAAGA-CATGTCTAGGACATGCATCGG-CTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGAGGTA-AGCC
18822047 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
18822072 GCATTGGAAT
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 2 0.02
45 4 0.03
46 69 0.52
47 37 0.28
48 19 0.14
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGAGGTAAGCC
Found at i:18834306 original size:11 final size:11
Alignment explanation
Indices: 18834290--18834316 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18834280 GGCATGAATT
18834290 AGATTTGTTTG
1 AGATTTGTTTG
18834301 AGATTTGTTTG
1 AGATTTGTTTG
18834312 AGATT
1 AGATT
18834317 GGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:18834997 original size:43 final size:43
Alignment explanation
Indices: 18834944--18835032 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
18834934 CACACGCCAA
*
18834944 TGTGAACAGGCCGTGTGCCTCACACGGCTAGTAGACACACCCG
1 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
*
18834987 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGAGACACCCG
1 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
18835030 TGT
1 TGT
18835033 CTTAGGCCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (43 bp):
TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
Found at i:18842403 original size:65 final size:65
Alignment explanation
Indices: 18842330--18842457 Score: 238
Period size: 65 Copynumber: 2.0 Consensus size: 65
18842320 CACATGCATC
18842330 AGATAATAATAACATGGCATGCAATAAATAATAACAGTCAAACATACATTCAGGTCAACCTTATA
1 AGATAATAATAACATGGCATGCAATAAATAATAACAGTCAAACATACATTCAGGTCAACCTTATA
* *
18842395 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATACATTCAGGTCAACCTTA
1 AGATAATAATAACATGGCATGCAATAAATAATAACAGTCAAACATACATTCAGGTCAACCTTA
18842458 ACAGTGAATG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (65 bp):
AGATAATAATAACATGGCATGCAATAAATAATAACAGTCAAACATACATTCAGGTCAACCTTATA
Found at i:18842555 original size:27 final size:26
Alignment explanation
Indices: 18842499--18842555 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
18842489 TTCGATTCAC
* * *
18842499 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
18842525 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
18842552 CCTA
1 CCTA
18842556 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:18842829 original size:13 final size:13
Alignment explanation
Indices: 18842802--18842843 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
18842792 ACTTATTGCC
18842802 TATT-TTTTATAT
1 TATTATTTTATAT
18842814 TATATATTTT-TAT
1 TAT-TATTTTATAT
18842827 TATTATTTTAT-T
1 TATTATTTTATAT
18842839 TATTA
1 TATTA
18842844 ACCCGTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 15 0.56
13 8 0.30
14 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:18844948 original size:51 final size:51
Alignment explanation
Indices: 18844756--18845741 Score: 1799
Period size: 51 Copynumber: 19.5 Consensus size: 51
18844746 TTTCGCATTA
** *
18844756 GCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
* * ** *
18844803 GCCATTCGGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
* * *
18844850 GCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCA--CACATATATATACGGGTTCACATTCATCATATTG
18844903 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18844954 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845005 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845056 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845107 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845158 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845209 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845260 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845311 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845362 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845413 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845464 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845515 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845566 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845617 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845668 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
18845719 GCCATTCGGCCTTATCACACATA
1 GCCATTCGGCCTTATCACACATA
18845742 CGCATGTTCA
Statistics
Matches: 922, Mismatches: 8, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
45 4 0.00
46 1 0.00
47 53 0.06
51 820 0.89
53 44 0.05
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
GCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCATATTG
Found at i:18849149 original size:19 final size:18
Alignment explanation
Indices: 18849108--18849151 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
18849098 ATACATACAG
18849108 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
18849125 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
18849144 TGATAATT
1 TAATAATT
18849152 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:18851566 original size:65 final size:65
Alignment explanation
Indices: 18851460--18851587 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 65
18851450 CAGATGCATC
* *
18851460 AGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATA
1 AGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATACATTCAGGTCAACCTTATA
*
18851525 AGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATACATTTAGGTCAACCTTA
1 AGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATACATTCAGGTCAACCTTA
18851588 ACCCTAGGGG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (65 bp):
AGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATACATTCAGGTCAACCTTATA
Found at i:18851874 original size:22 final size:22
Alignment explanation
Indices: 18851813--18851875 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 22
18851803 CCATTTAAGC
18851813 CCATTTAACCCAAGTTTTATGA
1 CCATTTAACCCAAGTTTTATGA
* *
18851835 CCAGTCT-A-CC-GGTTTTATGA
1 CCA-TTTAACCCAAGTTTTATGA
18851855 CCATTTAACCCAAGTTTTATG
1 CCATTTAACCCAAGTTTTATG
18851876 CCTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 2 0.06
20 13 0.39
21 4 0.12
22 12 0.36
23 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (22 bp):
CCATTTAACCCAAGTTTTATGA
Found at i:18860031 original size:27 final size:27
Alignment explanation
Indices: 18860001--18860107 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
18859991 GGCTGCCACA
* *
18860001 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
18860028 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
18860055 ACAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
18860083 -CAGATAAATGTGGTATAGCCACCAG
1 ACAGAT-AATGTGGCAGAGCCACCAG
18860108 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
27 52 0.74
28 18 0.26
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:18861554 original size:24 final size:24
Alignment explanation
Indices: 18861525--18861595 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
18861515 ATAGATTTCC
**
18861525 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
18861549 TTCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
18861573 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
18861596 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:18864711 original size:27 final size:26
Alignment explanation
Indices: 18864676--18864787 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
18864666 AGCATGGCTG
*
18864676 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
18864702 CCAGATACAGATAATAGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
18864730 CCAGAACAGAAATATGTGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
18864757 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
18864784 CCAG
1 CCAG
18864788 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:18864768 original size:54 final size:54
Alignment explanation
Indices: 18864676--18864787 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
18864666 AGCATGGCTG
* *
18864676 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATAGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
* *
18864730 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
18864784 CCAG
1 CCAG
18864788 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 34 0.64
55 19 0.36
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
Found at i:18876724 original size:17 final size:17
Alignment explanation
Indices: 18876678--18876727 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
18876668 TTTTTATCAT
18876678 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
* *
18876695 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
18876712 CTT-TCATTTATCGGGC
1 -TTATCATTTATCGGGC
18876728 TTTAATGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 26 0.93
18 2 0.07
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:18878664 original size:25 final size:25
Alignment explanation
Indices: 18878630--18878680 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18878620 CTTTTTAATT
18878630 ACTATAGAACAAGGGAAAATAAAAC
1 ACTATAGAACAAGGGAAAATAAAAC
18878655 ACTATAGAACAAGGGAAAATAAAAC
1 ACTATAGAACAAGGGAAAATAAAAC
18878680 A
1 A
18878681 GAGTAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.12
Consensus pattern (25 bp):
ACTATAGAACAAGGGAAAATAAAAC
Found at i:18879771 original size:65 final size:65
Alignment explanation
Indices: 18879688--18879828 Score: 223
Period size: 65 Copynumber: 2.2 Consensus size: 65
18879678 GAATGTTCAA
* * *
18879688 AAAGAGCTGCGTTTGTGTCTACAACATATGCAGGATCACAACTGATCACAT-AACAGGATGCTCA
1 AAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCA-ATAAACAGGACGCTCA
18879752 C
65 C
18879753 AAAGAG-TGGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCA
1 AAAGAGCT-GCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCA
18879817 C
65 C
18879818 AAAGAGCTGCG
1 AAAGAGCTGCG
18879829 GTAGTCGCAA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
64 3 0.04
65 66 0.94
66 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (65 bp):
AAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCAC
Found at i:18882415 original size:40 final size:40
Alignment explanation
Indices: 18882371--18882534 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 40
18882361 AGAGGCATAA
*
18882371 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18882411 CCGGATTTAGTAATTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
18882450 CCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
18882490 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18882530 CCGGA
1 CCGGA
18882535 CATCATTCGA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 31 0.29
40 62 0.58
41 11 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18882468 original size:79 final size:80
Alignment explanation
Indices: 18882371--18882534 Score: 217
Period size: 79 Copynumber: 2.1 Consensus size: 80
18882361 AGAGGCATAA
* * *
18882371 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCACCAA
1 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTCAATTAGCA-CAA
*
18882434 TGCCTTCGGG-CTTAGC
64 AGCCTTCGGGACTTAGC
* ** *
18882450 CCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAG
1 CCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAATTAGCACAAAG
18882515 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
18882530 CCGGA
1 CCGGA
18882535 CATCATTCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 3 0.04
79 54 0.73
80 17 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAATTAGCACAAAG
CCTTCGGGACTTAGC
Found at i:18883653 original size:224 final size:224
Alignment explanation
Indices: 18883263--18883709 Score: 876
Period size: 224 Copynumber: 2.0 Consensus size: 224
18883253 CTCAATACAC
*
18883263 TCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTGTTTCAAGTTCAAAACTTGGCCCAT
1 TCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTCTTTCAAGTTCAAAACTTGGCCCAT
18883328 ACACATATATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTCAACACATGCATTACTCATT
66 ACACATATATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTCAACACATGCATTACTCATT
18883393 AATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCTTCTCCATCTAGCAA
131 AATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCTTCTCCATCTAGCAA
18883458 CTAATGCACATATGTGCTCATTTGTTAGT
196 CTAATGCACATATGTGCTCATTTGTTAGT
*
18883487 TCTACAAGTATGGTTACTTGTATTGACTAAACACCATTTTCTTTCAAGTTCAAAACTTGGCCCAT
1 TCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTCTTTCAAGTTCAAAACTTGGCCCAT
18883552 ACACATATATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTCAACACATGCATTACTCATT
66 ACACATATATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTCAACACATGCATTACTCATT
18883617 AATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCTTCTCCATCTAGCAA
131 AATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCTTCTCCATCTAGCAA
18883682 CTAATGCACATATGTGCTCATTTGTTAG
196 CTAATGCACATATGTGCTCATTTGTTAG
18883710 ACTCTACTTC
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
224 221 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (224 bp):
TCTACAAGTATGGTCACTTGTATTGACTAAACACCATTTTCTTTCAAGTTCAAAACTTGGCCCAT
ACACATATATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTCAACACATGCATTACTCATT
AATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTAGCCGATTCTTCTCCATCTAGCAA
CTAATGCACATATGTGCTCATTTGTTAGT
Found at i:18890087 original size:40 final size:40
Alignment explanation
Indices: 18890043--18890206 Score: 199
Period size: 40 Copynumber: 4.1 Consensus size: 40
18890033 AGAGGCATAA
*
18890043 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18890083 CCGGATTTAGTAATTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
18890122 CCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
18890162 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18890202 CCGGA
1 CCGGA
18890207 CATCATTCGA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 31 0.30
40 61 0.58
41 11 0.10
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18890140 original size:79 final size:80
Alignment explanation
Indices: 18890043--18890206 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 80
18890033 AGAGGCATAA
* * *
18890043 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCACCAA
1 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTCAATTAGCA-CAA
*
18890106 TGCCTTCGGG-CTTAGC
64 AGCCTTCGGGACTTAGC
* ** * *
18890122 CCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
1 CCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAATTAGCACAAAG
18890187 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
18890202 CCGGA
1 CCGGA
18890207 CATCATTCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 53 0.73
80 17 0.23
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTCAATTAGCACAAAG
CCTTCGGGACTTAGC
Found at i:18892149 original size:18 final size:18
Alignment explanation
Indices: 18892101--18892150 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
18892091 CCCAATTCAA
*
18892101 TAACAGTAAACAATGCAG
1 TAACAGTAAACAGTGCAG
18892119 TAACAGTAAACAGTGCAG
1 TAACAGTAAACAGTGCAG
*
18892137 TATCAGTAAACAGT
1 TAACAGTAAACAGT
18892151 ATGCAAGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAG
Found at i:18893996 original size:25 final size:25
Alignment explanation
Indices: 18893968--18894015 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18893958 TTATAATATG
* * *
18893968 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18893993 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18894016 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18894056 original size:9 final size:10
Alignment explanation
Indices: 18894044--18894100 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
18894034 TACATGGGAT
18894044 ATGATAT-AC
1 ATGATATGAC
*
18894053 ATGA-ATGAT
1 ATGATATGAC
18894062 ATGATATGCAC
1 ATGATATG-AC
*
18894073 ATGATATG-T
1 ATGATATGAC
18894082 ATGATATGCAC
1 ATGATATG-AC
18894093 ATGATATG
1 ATGATATG
18894101 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 17 0.44
10 3 0.08
11 17 0.44
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:18894076 original size:20 final size:20
Alignment explanation
Indices: 18894043--18894117 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
18894033 ATACATGGGA
18894043 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
18894060 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
18894081 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
18894101 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
18894118 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:18894078 original size:11 final size:11
Alignment explanation
Indices: 18894062--18894117 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18894052 CATGAATGAT
18894062 ATGATATGCAC
1 ATGATATGCAC
*
18894073 ATGATATG--T
1 ATGATATGCAC
18894082 ATGATATGCAC
1 ATGATATGCAC
*
18894093 ATGATATG--T
1 ATGATATGCAC
*
18894102 ATGAAATGCAC
1 ATGATATGCAC
18894113 ATGAT
1 ATGAT
18894118 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18894207 original size:26 final size:26
Alignment explanation
Indices: 18894167--18894263 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
18894157 GAGGAAGTGC
**
18894167 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
18894192 GTAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
18894218 AAAAGGGCTTATGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
18894244 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
18894264 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 15 0.24
26 48 0.76
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:18902133 original size:20 final size:21
Alignment explanation
Indices: 18902097--18902174 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 21
18902087 TTGATACGTG
18902097 GGATATGATAT--ACATGA-A
1 GGATATGATATGCACATGATA
18902115 GGATATGATATGCACATGATA
1 GGATATGATATGCACATGATA
*
18902136 TG-TATGATATGCACATGATA
1 GGATATGATATGCACATGATA
* * *
18902156 TG-TATGAAATACACATGAT
1 GGATATGATATGCACATGAT
18902175 GTAATCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
18 11 0.20
20 41 0.76
21 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (21 bp):
GGATATGATATGCACATGATA
Found at i:18902135 original size:11 final size:11
Alignment explanation
Indices: 18902119--18902157 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
18902109 CATGAAGGAT
18902119 ATGATATGCAC
1 ATGATATGCAC
*
18902130 ATGATATG--T
1 ATGATATGCAC
18902139 ATGATATGCAC
1 ATGATATGCAC
18902150 ATGATATG
1 ATGATATG
18902158 TATGAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18902253 original size:26 final size:26
Alignment explanation
Indices: 18902224--18902382 Score: 199
Period size: 26 Copynumber: 6.3 Consensus size: 26
18902214 GAGGAAGTGC
18902224 AAAAGGGCTTATGCCCCTA-TTTATTG
1 AAAAGGGCTTATGCCCC-AGTTTATTG
**
18902250 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18902276 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18902302 AAAAGGGCTTATG--CC--TTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
18902324 GAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18902350 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
18902373 AAAAGAGGCT
1 AAAAG-GGCT
18902383 AGGCCTCTAG
Statistics
Matches: 117, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
22 19 0.16
23 5 0.04
24 11 0.09
25 9 0.08
26 73 0.62
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:18902302 original size:52 final size:52
Alignment explanation
Indices: 18902224--18902369 Score: 196
Period size: 48 Copynumber: 2.9 Consensus size: 52
18902214 GAGGAAGTGC
18902224 AAAAGGGCTTATGCCCCTA-TTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCC-AGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
**
18902276 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG--CC--TTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* **
18902324 GAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTT
18902370 ATTAAAAGAG
Statistics
Matches: 84, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
47 2 0.02
48 38 0.45
49 2 0.02
50 2 0.02
51 3 0.04
52 37 0.44
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:18902349 original size:74 final size:73
Alignment explanation
Indices: 18902224--18902382 Score: 241
Period size: 74 Copynumber: 2.1 Consensus size: 73
18902214 GAGGAAGTGC
18902224 AAAAGGGCTTATGCCCCTATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATG-CCC-ATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TG
18902289 CCCCAGTTTATT
63 CCCCAG-TTATT
*
18902301 GAAAAGGGCTTATG-CC-TTTATTGGAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCC
1 -AAAAGGGCTTATGCCCATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCC
18902364 CCAGTTATT
65 CCAGTTATT
18902373 AAAAGAGGCT
1 AAAAG-GGCT
18902383 AGGCCTCTAG
Statistics
Matches: 79, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
71 5 0.06
72 9 0.11
73 8 0.10
74 42 0.53
76 2 0.03
78 13 0.16
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCC
CAGTTATT
Found at i:18914272 original size:43 final size:40
Alignment explanation
Indices: 18914225--18914346 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 40
18914215 TCCCAGACGT
**
18914225 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCTGACAG
1 GGTCTTACA--TAATCACATATCGATGCCA-TGTCCCAAACAG
* * *
18914268 GGTCTTACACATATCAAATA-CGATGCCGATGTCCCAAACAT
1 GGTCTTACATA-ATCACATATCGATGCC-ATGTCCCAAACAG
18914309 GGTCTTACATAATCACATATATCGATGCCAATGTCCCA
1 GGTCTTACATAATCAC--ATATCGATGCC-ATGTCCCA
18914347 GATGGGGTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
40 4 0.06
41 27 0.41
42 11 0.17
43 24 0.36
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (40 bp):
GGTCTTACATAATCACATATCGATGCCATGTCCCAAACAG
Found at i:18914313 original size:41 final size:41
Alignment explanation
Indices: 18914214--18914348 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 41
18914204 CAACACCAAC
* * *
18914214 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATAT-ATCAAATATCGATGCCA-T
* * *
18914257 GTCCCTGACAGGGTCTTACACATATCAAATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACATATATCAAATATCGATGCC-AT
*
18914298 GTCCCAAACATGGTCTTACATA-ATCACATATATCGATGCCAAT
1 GTCCCAGACATGGTCTTACATATATCA-A-ATATCGATGCC-AT
18914341 GTCCCAGA
1 GTCCCAGA
18914349 TGGGGTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
40 4 0.05
41 27 0.36
42 11 0.14
43 34 0.45
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACATATATCAAATATCGATGCCAT
Found at i:18916441 original size:20 final size:21
Alignment explanation
Indices: 18916416--18916454 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18916406 CTCTTGAAAC
18916416 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
18916436 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
18916455 ATCATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:18917760 original size:99 final size:92
Alignment explanation
Indices: 18917634--18917853 Score: 268
Period size: 99 Copynumber: 2.3 Consensus size: 92
18917624 TCCATCAAGT
* *
18917634 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGCCGACGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-AAATCGTA-GCCGA-GACATGTCCCA
18917698 GACATGGTCTTACACTAGCTCTCACATATCCGT-GC
61 GACAT-GTCTTACACTAGCTCTCACA-AT--GTGGC
* ** *
18917733 TGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATACATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACAAATCGTAGCCGAGACATGTCCCAGACAT
*
18917798 GTCTTACACTAGCTCTCATAATGTGGC
66 GTCTTACACTAGCTCTCACAATGTGGC
18917825 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
18917854 AGCGTACAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
90 10 0.09
91 16 0.14
92 6 0.05
93 2 0.02
94 19 0.17
95 13 0.12
96 9 0.08
97 2 0.02
98 1 0.01
99 33 0.30
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACAAATCGTAGCCGAGACATGTCCCAGACAT
GTCTTACACTAGCTCTCACAATGTGGC
Found at i:18917838 original size:46 final size:49
Alignment explanation
Indices: 18917585--18917856 Score: 248
Period size: 46 Copynumber: 5.7 Consensus size: 49
18917575 AGGATATAAT
* * * **
18917585 GCCGATGCCGTGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AATCGTG
* * *
18917632 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATAATCGTG
* * *
18917681 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-CGTG
* * * * *
18917731 GCTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
*
18917777 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
18917823 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
18917857 GTACAAATAA
Statistics
Matches: 189, Mismatches: 22, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
44 10 0.05
45 18 0.10
46 46 0.24
47 34 0.18
48 8 0.04
49 37 0.20
50 34 0.18
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTG
Found at i:18927551 original size:48 final size:45
Alignment explanation
Indices: 18927439--18927606 Score: 144
Period size: 48 Copynumber: 3.6 Consensus size: 45
18927429 AGGCCGGCGC
* * * *
18927439 CATGTTCCAGACATGGTCTTACACTAGCTCTCACATATTCGT-GCTAATG
1 CATGTCCCAGACATGGTCTTACACT-G---ACACAT-CTCGTAGCCAATG
* * *
18927488 TCATGTCCCACACATGGTCTTACACTGACACCTCTATACGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAGCCAATG
**
18927536 CTATGTCTTAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
1 C-ATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
18927582 CATGTCCCAGACAT-GTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
18927607 GCTTACACTG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 12 0.12
47 2 0.02
48 36 0.36
49 1 0.01
50 23 0.23
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
Found at i:18927660 original size:46 final size:46
Alignment explanation
Indices: 18927608--18927753 Score: 147
Period size: 46 Copynumber: 3.2 Consensus size: 46
18927598 CTTACACTGG
*
18927608 CTTACACTGGCTTTCATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CTTACACTGGCTCTCATCTCGAGGCTGATGCATGTCCCAGACATGT
* * * * *
18927654 CTTACACTAGCTCTCGTCTC-ATTGCCGATGCCATGT-CC-TACATGGT
1 CTTACACTGGCTCTCATCTCGA-GGCTGATG-CATGTCCCAGACAT-GT
* * *
18927700 CTTACACTGGCTCTCATAAT-GTGGCTGATACATGTCCCAGACATGT
1 CTTACACTGGCTCTCAT-CTCGAGGCTGATGCATGTCCCAGACATGT
18927746 CTTACACT
1 CTTACACT
18927754 AGCACACAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
45 10 0.13
46 59 0.75
47 10 0.13
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (46 bp):
CTTACACTGGCTCTCATCTCGAGGCTGATGCATGTCCCAGACATGT
Found at i:18929964 original size:20 final size:20
Alignment explanation
Indices: 18929941--18929980 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18929931 TTACAATTGC
18929941 TATCGATGAGCTAATGTTTA
1 TATCGATGAGCTAATGTTTA
18929961 TATCGATGAGCTAATGTTTA
1 TATCGATGAGCTAATGTTTA
18929981 CAATCGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (20 bp):
TATCGATGAGCTAATGTTTA
Found at i:18930677 original size:372 final size:372
Alignment explanation
Indices: 18929992--18930736 Score: 1454
Period size: 372 Copynumber: 2.0 Consensus size: 372
18929982 AATCGTGACC
*
18929992 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTTGAGATCGATAA
1 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
18930057 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
66 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
*
18930122 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTTAAGTACACCTT
131 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
18930187 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATACCCAAGT
196 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATACCCAAGT
18930252 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
261 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
18930317 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCCAGATCTTGTA
326 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCCAGATCTTGTA
18930364 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
1 ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
18930429 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
66 TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
18930494 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
131 TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
*
18930559 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATCCCCAAGT
196 TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATACCCAAGT
*
18930624 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGTCCCTAAATCGCACAAGGCTTT
261 TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
18930689 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCCAGATCTTGTA
326 ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCCAGATCTTGTA
18930736 A
1 A
18930737 TTCTGGGGGC
Statistics
Matches: 369, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 369 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (372 bp):
ACACTTGAACACTTCTATATCACCATCGATTTTCATAATTAGCTCATTTTGTTCGAGATCGATAA
TCAATTTAGAAGTGGCCAGAAATGGCCTACCTAACAGAATGGGGATTTCCCAATCTTCTTCGAAA
TCAAGTACTATAAAGTCGACGGGATTATAAATCCCCTTAGACCAATACATCCTCAAGTACACCTT
TCGGATGTACCAAATATCTATTGGCTAATTGTAGTGTTATAGAGGTATTTTTAGGATACCCAAGT
TTGAGTTTCTAATAGACCGGTAAGGGCATTAAGTTTATGCTAGCCCCTAAATCGCACAAGGCTTT
ACGGAAACATCAGTCTTTTAGAATCATAAAGCTACCCAGATCTTGTA
Found at i:18935059 original size:55 final size:56
Alignment explanation
Indices: 18934994--18935108 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
18934984 AGCATGGCTG
* * *
18934994 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
18935050 CCAGA-ACAGATATACGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
18935105 CCAG
1 CCAG
18935109 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:18935104 original size:28 final size:27
Alignment explanation
Indices: 18935019--18935108 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
18935009 GTGACAGAGT
*
18935019 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
18935048 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
18935075 CACTAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
18935103 CACCAG
1 CACCAG
18935109 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:18935261 original size:28 final size:28
Alignment explanation
Indices: 18935214--18935277 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
18935204 AAATTAACCC
*
18935214 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
18935242 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
18935270 TAGGGGTA
1 TAGGGGTA
18935278 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:18935550 original size:16 final size:15
Alignment explanation
Indices: 18935529--18935558 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18935519 CAAAATACCG
18935529 GCTTTTCGGCATTTTA
1 GCTTTTCGGC-TTTTA
18935545 GCTTTTCGGCTTTT
1 GCTTTTCGGCTTTT
18935559 GCCGATCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (15 bp):
GCTTTTCGGCTTTTA
Found at i:18942409 original size:13 final size:14
Alignment explanation
Indices: 18942391--18942421 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
18942381 TTTTTTCATC
18942391 ATAATAAAA-TAAA
1 ATAATAAAAGTAAA
18942404 ATAATAAAAGTAAA
1 ATAATAAAAGTAAA
18942418 ATAA
1 ATAA
18942422 AACCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
ATAATAAAAGTAAA
Found at i:18942429 original size:19 final size:19
Alignment explanation
Indices: 18942395--18942431 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18942385 TTCATCATAA
*
18942395 TAAAATAAAATAATAAAAG
1 TAAAATAAAACAATAAAAG
*
18942414 TAAAATAAAACCATAAAA
1 TAAAATAAAACAATAAAA
18942432 ATAATTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAAATAAAACAATAAAAG
Found at i:18942935 original size:55 final size:56
Alignment explanation
Indices: 18942870--18942984 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
18942860 AGCATGGCTG
* * *
18942870 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
18942926 CCAGA-ACAGATATACGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
18942981 CCAG
1 CCAG
18942985 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Done.