Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 100 of 189
Found at i:27957329 original size:19 final size:19
Alignment explanation
Indices: 27957305--27957341 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27957295 TATTATTAAT
*
27957305 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
27957324 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
27957342 TTAATATTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:27957454 original size:20 final size:20
Alignment explanation
Indices: 27957425--27957462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27957415 AATAAAATTG
*
27957425 AAATATTAAATAATTTATTA
1 AAATAATAAATAATTTATTA
*
27957445 AAATAATAAATTATTTAT
1 AAATAATAAATAATTTAT
27957463 ATGATTAGAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATAAATAATTTATTA
Found at i:27962080 original size:7 final size:7
Alignment explanation
Indices: 27962068--27962150 Score: 94
Period size: 7 Copynumber: 11.9 Consensus size: 7
27962058 AAAAAAATAT
27962068 TTGAGAA
1 TTGAGAA
27962075 TTGAGAA
1 TTGAGAA
*
27962082 TTAAGAA
1 TTGAGAA
27962089 TTGAGAA
1 TTGAGAA
*
27962096 TTGAAAA
1 TTGAGAA
27962103 TTGAGAA
1 TTGAGAA
* *
27962110 TCGAGGA
1 TTGAGAA
*
27962117 TTAAGAA
1 TTGAGAA
27962124 TTGAGAA
1 TTGAGAA
**
27962131 TTGATTA
1 TTGAGAA
*
27962138 TTGAGTA
1 TTGAGAA
27962145 TTGAGA
1 TTGAGA
27962151 TAAAAAGAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.42, C:0.01, G:0.25, T:0.31
Consensus pattern (7 bp):
TTGAGAA
Found at i:27962670 original size:65 final size:65
Alignment explanation
Indices: 27962588--27962774 Score: 241
Period size: 65 Copynumber: 2.9 Consensus size: 65
27962578 TATAAGATAA
* * * * * *
27962588 ATAATTTGTGTATTTATATTTGGTATTTAGATATCTTATTGAATTATAATCATATTTATTTTAAT
1 ATAATTTGTATATTTATAATTGGTATTTAAATATTTTATTGAATTATAATAATATTTATCTTAAT
* * *
27962653 ATAATTTGTATATTTATAACTAGTATTTAAATATTTTATTAAATTATAATAATATTTATCTTAAT
1 ATAATTTGTATATTTATAATTGGTATTTAAATATTTTATTGAATTATAATAATATTTATCTTAAT
* * ** *
27962718 ATAATTTTTAGATTTATAATTGACATTAAAATATTTTATTGAATTATAATAA-ATTTA
1 ATAATTTGTATATTTATAATTGGTATTTAAATATTTTATTGAATTATAATAATATTTA
27962775 ATAAAATTTG
Statistics
Matches: 105, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 5 0.05
65 100 0.95
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (65 bp):
ATAATTTGTATATTTATAATTGGTATTTAAATATTTTATTGAATTATAATAATATTTATCTTAAT
Found at i:27966448 original size:161 final size:157
Alignment explanation
Indices: 27966208--27966529 Score: 428
Period size: 161 Copynumber: 2.0 Consensus size: 157
27966198 CAGAAATTGA
* *
27966208 TTACAATGCTTCTTTTTTTTTGTACAAAATTTGTTCATTCATTTTTTTTGTATTTCATTTGTATT
1 TTACAATGCTTCTTTTTTTTTGTACAAAATCTATTCATTCATTTTTTTTGTATTTCATTTGTATT
* * * * * *
27966273 TTTAAATATCTACTAACATTCATATAGTGGAAAATTTGCTATTTTAAGTGTTACATCAAATACAA
66 TGTAAACATCTACTAACATTCATATAGTGGAAAAATAGCTACTTTAAATGTTACATCAAATACAA
*
27966338 ATTACAATTTCTCTGGCGATTGAACTT
131 ATTACAATTTCTCTGGCGATTGAACAT
* *
27966365 TTACAATGCTTATTTTTTTTCTTGTGCAAAATCTATTCATTCATTTTTTTTTGGTATTTCATTTG
1 TTACAATGCTT-CTTTTTTT-TTGTACAAAATCTATTCATTCA-TTTTTTTT-GTATTTCATTTG
* * * * * *
27966430 TATTTGTCACCGTCTACTAACATTCATATAGTGGAAAAATAGCTACTTTAAATTTTACGTCAAGT
62 TATTTGTAAACATCTACTAACATTCATATAGTGGAAAAATAGCTACTTTAAATGTTACATCAAAT
* * *
27966495 ACCAATTACAATTTCTTTGGTGATTGAACAT
127 ACAAATTACAATTTCTCTGGCGATTGAACAT
27966526 TTAC
1 TTAC
27966530 CATTTTTACT
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
157 11 0.08
158 7 0.05
159 19 0.13
160 8 0.06
161 96 0.68
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (157 bp):
TTACAATGCTTCTTTTTTTTTGTACAAAATCTATTCATTCATTTTTTTTGTATTTCATTTGTATT
TGTAAACATCTACTAACATTCATATAGTGGAAAAATAGCTACTTTAAATGTTACATCAAATACAA
ATTACAATTTCTCTGGCGATTGAACAT
Found at i:27969042 original size:18 final size:18
Alignment explanation
Indices: 27969008--27969043 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27968998 TTTTAGAATT
* *
27969008 TTTTTTAAAATTTTATAA
1 TTTTTTAAAAATATATAA
27969026 TTTTTTAAAAATATATAA
1 TTTTTTAAAAATATATAA
27969044 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTAAAAATATATAA
Found at i:27969044 original size:28 final size:27
Alignment explanation
Indices: 27969013--27969085 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
27969003 GAATTTTTTT
27969013 TAAAATTTTATAATTTTTTAAAAATATA
1 TAAAATTTTA-AATTTTTTAAAAATATA
* * *
27969041 TAAAATTTAAAATTTTTTATAAATATT
1 TAAAATTTTAAATTTTTTAAAAATATA
**
27969068 TTGAATTTTAAATTTTTT
1 TAAAATTTTAAATTTTTT
27969086 TTTGGTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
TAAAATTTTAAATTTTTTAAAAATATA
Found at i:27972291 original size:36 final size:35
Alignment explanation
Indices: 27972251--27972322 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
27972241 AATGAGGCAG
* *
27972251 TCCAAAATGTGTTCTCAAACTACGGAATCTTAACAT
1 TCCAAAATCTATTCTCAAACTACGGAATCTT-ACAT
*
27972287 TCCAAAATCTATTCTCAAATTACGGAATCTTACAT
1 TCCAAAATCTATTCTCAAACTACGGAATCTTACAT
27972322 T
1 T
27972323 GGAGGATCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (35 bp):
TCCAAAATCTATTCTCAAACTACGGAATCTTACAT
Found at i:27974718 original size:32 final size:31
Alignment explanation
Indices: 27974673--27974768 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27974663 CTTAGATAAT
27974673 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27974704 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27974736 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27974767 TT
1 TT
27974769 GTAATTTACC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27975120 original size:29 final size:27
Alignment explanation
Indices: 27975071--27975129 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
27975061 AATCTATCCT
*
27975071 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
27975100 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
27975127 TTT
1 TTT
27975130 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:27976649 original size:32 final size:31
Alignment explanation
Indices: 27976604--27976699 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27976594 CTTAGATAAT
27976604 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27976635 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27976667 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27976698 TT
1 TT
27976700 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27977049 original size:29 final size:27
Alignment explanation
Indices: 27977000--27977058 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
27976990 AATCTATCCT
*
27977000 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
27977029 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
27977056 TTT
1 TTT
27977059 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:27978575 original size:32 final size:31
Alignment explanation
Indices: 27978530--27978625 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27978520 CTTAGATAAT
27978530 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27978561 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27978593 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27978624 TT
1 TT
27978626 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27980504 original size:32 final size:31
Alignment explanation
Indices: 27980459--27980554 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27980449 CTTAGATAAT
27980459 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27980490 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27980522 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27980553 TT
1 TT
27980555 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27980894 original size:17 final size:17
Alignment explanation
Indices: 27980857--27980897 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
27980847 AATCTATCCT
** *
27980857 TTTTATTATTTATTTAT
1 TTTTATTATTTAACTAA
27980874 TTTTATTATTTAACTAA
1 TTTTATTATTTAACTAA
27980891 TTTTATT
1 TTTTATT
27980898 TATTCTCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTATTTAACTAA
Found at i:27982440 original size:32 final size:31
Alignment explanation
Indices: 27982395--27982490 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27982385 CTTAGATAAT
27982395 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27982426 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27982458 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27982489 TT
1 TT
27982491 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27984379 original size:32 final size:31
Alignment explanation
Indices: 27984334--27984429 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27984324 CTTAGATAAT
27984334 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27984365 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27984397 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27984428 TT
1 TT
27984430 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27986312 original size:32 final size:31
Alignment explanation
Indices: 27986267--27986362 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27986257 CTTAGATAAT
27986267 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27986298 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27986330 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27986361 TT
1 TT
27986363 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27986714 original size:29 final size:27
Alignment explanation
Indices: 27986665--27986723 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
27986655 AATCTATCCT
*
27986665 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
27986694 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
27986721 TTT
1 TTT
27986724 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:27988239 original size:32 final size:31
Alignment explanation
Indices: 27988194--27988289 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27988184 CTTAGATAAT
27988194 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27988225 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27988257 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27988288 TT
1 TT
27988290 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27990176 original size:32 final size:31
Alignment explanation
Indices: 27990122--27990216 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
27990112 CTTAGATAAT
27990122 TTTAAAGAGTTTT-TTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27990152 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27990184 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27990215 TT
1 TT
27990217 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
30 9 0.15
31 28 0.45
32 25 0.40
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27990547 original size:15 final size:14
Alignment explanation
Indices: 27990520--27990564 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27990510 ATCTATCCTT
27990520 TTTATTTTTATTTA
1 TTTATTTTTATTTA
27990534 TTTATTTATTATTTA
1 TTTATTT-TTATTTA
** *
27990549 ACTAATTTTATTTA
1 TTTATTTTTATTTA
27990563 TT
1 TT
27990565 CTCGTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:27990574 original size:29 final size:27
Alignment explanation
Indices: 27990525--27990583 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
27990515 TCCTTTTTAT
*
27990525 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
27990554 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
27990581 TTT
1 TTT
27990584 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:27992101 original size:32 final size:31
Alignment explanation
Indices: 27992056--27992151 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27992046 CTTAGATAAT
27992056 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27992087 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27992119 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27992150 TT
1 TT
27992152 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27994023 original size:32 final size:31
Alignment explanation
Indices: 27993978--27994070 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
27993968 CTTAGATAAT
27993978 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27994009 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27994041 TTGAAAGAGTTTTATTAGGATTCAATTACT
1 TTTAAAGAGTTTTATTAGGATTCAATTACT
27994071 TTGTAATTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 30 0.50
32 30 0.50
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27995919 original size:32 final size:31
Alignment explanation
Indices: 27995874--27995969 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
27995864 CTTAGATAAT
27995874 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27995905 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
27995937 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
27995968 TT
1 TT
27995970 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:27998470 original size:26 final size:26
Alignment explanation
Indices: 27998441--27998630 Score: 117
Period size: 26 Copynumber: 7.5 Consensus size: 26
27998431 ATCCTCTCTC
27998441 GAGCCATATAA-CAGGAAGCTCACAAA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
*
27998467 GAGCCATTAATCGGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * * *
27998493 AAGTC-TT--TCAGGAAGCTTATC--C
1 GAGCCATTAATCAGGAAGCTCA-CAAA
* * * *
27998515 GGGCTATATAAT-GGGAAGCTCACACA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* * *
27998541 GAGCCA-TAATCAGAAAGTTCACATA
1 GAGCCATTAATCAGGAAGCTCACAAA
* ** *
27998566 GAACTTTTAATCAAGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * * *
27998592 GAGCCTTTAAACGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
27998618 GAGCCATTAATCA
1 GAGCCATTAATCA
27998631 AGAGCTCCAG
Statistics
Matches: 119, Mismatches: 35, Indels: 20
0.68 0.20 0.11
Matches are distributed among these distances:
22 1 0.01
23 11 0.09
24 7 0.06
25 26 0.22
26 74 0.62
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:27998752 original size:65 final size:64
Alignment explanation
Indices: 27998683--27998864 Score: 195
Period size: 65 Copynumber: 2.8 Consensus size: 64
27998673 ATATCAGGAT
* * *
27998683 GCTCACAAAGAGCTGCGTTTGAGTCTGCAACATATGTAGGATCACAGCCGATCATAAAACAAGAC
1 GCTCACAAAGAGCTGCGTTT-AGTCCGCAACATATGCAGGATCACAACCGATCATAAAACAAGAC
* * * * * * ** *
27998748 GCTCACAAAGAGCTACGTTTCTGTCCGCAATATATGCAAGATTACAATCGATCATTTAACAGGAC
1 GCTCACAAAGAGCTGCGTTT-AGTCCGCAACATATGCAGGATCACAACCGATCATAAAACAAGAC
* * * *
27998813 GCTCACAAAGAGCTGCG-GTAGTCCGCAACACATGCAGGATCACTACCAATCA
1 GCTCACAAAGAGCTGCGTTTAGTCCGCAACATATGCAGGATCACAACCGATCA
27998865 GGATGCTCGT
Statistics
Matches: 94, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
63 25 0.27
64 1 0.01
65 68 0.72
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (64 bp):
GCTCACAAAGAGCTGCGTTTAGTCCGCAACATATGCAGGATCACAACCGATCATAAAACAAGAC
Found at i:28004653 original size:2 final size:2
Alignment explanation
Indices: 28004646--28004670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28004636 CATTGACAAA
28004646 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
28004671 AATTTAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28011944 original size:14 final size:15
Alignment explanation
Indices: 28011910--28011947 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
28011900 TTTAATACGT
28011910 TAATTTTTTTTACTTA
1 TAATTTTTTTTA-TTA
*
28011926 AAATTTTTTTT-TTA
1 TAATTTTTTTTATTA
28011940 TAATTTTT
1 TAATTTTT
28011948 GGATTGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
16 10 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TAATTTTTTTTATTA
Found at i:28017159 original size:23 final size:23
Alignment explanation
Indices: 28017124--28017184 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
28017114 TAGATTATGA
*
28017124 TTTTTTGAAATTTTTCATGATTTT
1 TTTTTTGAAATTTTTAATG-TTTT
*
28017148 TTTTTTG-GATTTTTAATGTTTT
1 TTTTTTGAAATTTTTAATGTTTT
28017170 TTTTTT--AATTTTTAA
1 TTTTTTGAAATTTTTAA
28017185 GTAAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.24
22 10 0.29
23 9 0.26
24 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTTTGAAATTTTTAATGTTTT
Found at i:28017169 original size:21 final size:21
Alignment explanation
Indices: 28017124--28017184 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
28017114 TAGATTATGA
*
28017124 TTTTTTGAAATTTTTCATGATTTT
1 TTTTTTG-AATTTTTAATG--TTT
*
28017148 TTTTTTGGATTTTTAATGTTT
1 TTTTTTGAATTTTTAATGTTT
*
28017169 TTTTTTTAATTTTTAA
1 TTTTTTGAATTTTTAA
28017185 GTAAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 17 0.52
23 9 0.27
24 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (21 bp):
TTTTTTGAATTTTTAATGTTT
Found at i:28021197 original size:22 final size:22
Alignment explanation
Indices: 28021172--28021214 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
28021162 TGTAATAATA
* *
28021172 ATATTTTAATTTTAGAATATAT
1 ATATATTAATTTTAAAATATAT
*
28021194 ATATATTAGTTTTAAAATATA
1 ATATATTAATTTTAAAATATA
28021215 ATTACATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
ATATATTAATTTTAAAATATAT
Found at i:28026801 original size:4 final size:4
Alignment explanation
Indices: 28026794--28026824 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
28026784 TATACCTACC
28026794 TACA TACA TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TAC
28026825 TTGTATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:28027008 original size:48 final size:48
Alignment explanation
Indices: 28026937--28027028 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
28026927 GTTAGCTGCG
28026937 GCAGTATATTGGATATTATTATAGAATGAGAGAGCAAACAGACATGCA
1 GCAGTATATTGGATATTATTATAGAATGAGAGAGCAAACAGACATGCA
28026985 GCAGTATATTGGATATTATTATAGAATGAGAGAGCAAACAGACA
1 GCAGTATATTGGATATTATTATAGAATGAGAGAGCAAACAGACA
28027029 GTTTGAAGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (48 bp):
GCAGTATATTGGATATTATTATAGAATGAGAGAGCAAACAGACATGCA
Found at i:28044275 original size:24 final size:24
Alignment explanation
Indices: 28044228--28044275 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
28044218 ATTCTTTTAA
* *
28044228 ATAAATAGTTATTTATTTATATGG
1 ATAAATAGTTATTTATATAAATGG
28044252 ATAAA-AGTATATTTATATAAATGG
1 ATAAATAGT-TATTTATATAAATGG
28044276 TATTTTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (24 bp):
ATAAATAGTTATTTATATAAATGG
Found at i:28047613 original size:17 final size:17
Alignment explanation
Indices: 28047591--28047625 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28047581 CAATCATCCA
*
28047591 CTTAGGATTAATGTATG
1 CTTAGGATTAAGGTATG
28047608 CTTAGGATTAAGGTATG
1 CTTAGGATTAAGGTATG
28047625 C
1 C
28047626 CACACTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (17 bp):
CTTAGGATTAAGGTATG
Found at i:28050336 original size:238 final size:238
Alignment explanation
Indices: 28049917--28050604 Score: 1081
Period size: 238 Copynumber: 2.9 Consensus size: 238
28049907 TAAACCTATG
* * ** *
28049917 ATGATTATAATATTTGCCACTCCTAGCTAAGAATCTCCTTTCAGTCTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTTTTAGCTAAGAATCTCCTTTCGGTCTCATCCTAGACTAAAAGAT
** * * * *
28049982 GCCACCTAGGTTCTCCTCTCGGTCTCACCTAGGCATATAGATCTTCTCTTGGTTTCACTATTCGA
66 GCTTCCTAGGTTCT-CTCTCGATCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCGA
* * * * *
28050047 CACAAGTGTATCAAATTCCTATACGATAGAGTCTCCTCTTAGTCTCATCTATCTAAATCTTCCAT
130 CACAAGTGTATCAAAATCCTACACGATAAAGTCTCCTCTCAGTCTCATCTATCTAAATCTTCCAC
*
28050112 TAGAGGCGTTAATTCTAGTATAATATGCAATTTAATACACTTGA
195 TAGAGGCGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
*
28050156 ATGATTATAATGTTTGTCACTTTTAGCTAAGAATCTCCTTTCGGTCTCATCTTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTTTTAGCTAAGAATCTCCTTTCGGTCTCATCCTAGACTAAAAGAT
*
28050221 GCTTCCTAAGTTCTCTCTCGATCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCGAC
66 GCTTCCTAGGTTCTCTCTCGATCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCGAC
* *
28050286 ATAAGTGTATCAAAATCCTACACGATAAAGTCTCTTCTCAGTCTCATCTATCTAAATCTTCCACT
131 ACAAGTGTATCAAAATCCTACACGATAAAGTCTCCTCTCAGTCTCATCTATCTAAATCTTCCACT
*
28050351 AAAGGCGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
196 AGAGGCGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
* * * *
28050394 ATGATTATAATGGTTGTCACTTTTAGCTAATAATCTCCTTTTGATCTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTTTTAGCTAAGAATCTCCTTTCGGTCTCATCCTAGACTAAAAGAT
*
28050459 GCTTACTAGGTTCTCTCTCGATCTCACCT-GGACATATAGATCTCCTCTTGATCTCACTATTCGA
66 GCTTCCTAGGTTCTCTCTCGATCTCACCTAGG-CATATAGATCTCCTCTTGATCTCACTATTCGA
* * *
28050523 CACAAGTGTATGAAAGTCCTACACGATATAGTCTCCTCTCAGTCTCATCTATCTAAATCTTCCAC
130 CACAAGTGTATCAAAATCCTACACGATAAAGTCTCCTCTCAGTCTCATCTATCTAAATCTTCCAC
28050588 TAGAGGCGTCAATTCTA
195 TAGAGGCGTCAATTCTA
28050605 TTATTGTTGG
Statistics
Matches: 413, Mismatches: 35, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
237 2 0.00
238 341 0.83
239 70 0.17
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (238 bp):
ATGATTATAATGTTTGTCACTTTTAGCTAAGAATCTCCTTTCGGTCTCATCCTAGACTAAAAGAT
GCTTCCTAGGTTCTCTCTCGATCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCGAC
ACAAGTGTATCAAAATCCTACACGATAAAGTCTCCTCTCAGTCTCATCTATCTAAATCTTCCACT
AGAGGCGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
Found at i:28052426 original size:12 final size:12
Alignment explanation
Indices: 28052411--28052436 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28052401 AAAAGAAAAG
28052411 AAAACCTAAACT
1 AAAACCTAAACT
28052423 AAAACCTAAACT
1 AAAACCTAAACT
28052435 AA
1 AA
28052437 GAGCTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAACCTAAACT
Found at i:28059852 original size:16 final size:16
Alignment explanation
Indices: 28059819--28059852 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28059809 ACCAACTGTT
* *
28059819 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
28059835 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
28059851 AA
1 AA
28059853 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:28062676 original size:21 final size:21
Alignment explanation
Indices: 28062650--28062690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28062640 AGACGAGCAA
* *
28062650 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
28062671 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
28062691 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:28064627 original size:16 final size:16
Alignment explanation
Indices: 28064594--28064627 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28064584 GGAGATTGTT
* *
28064594 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
28064610 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
28064626 AA
1 AA
28064628 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:28066608 original size:16 final size:15
Alignment explanation
Indices: 28066589--28066622 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
28066579 AAAATAAAAT
28066589 AAAATATTAATATTTA
1 AAAATATTAATA-TTA
28066605 AAAATATTAATATTA
1 AAAATATTAATATTA
28066620 AAA
1 AAA
28066623 TATAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTAATATTA
Found at i:28066639 original size:8 final size:8
Alignment explanation
Indices: 28066588--28066642 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
28066578 TAAAATAAAA
28066588 TAAAATAT
1 TAAAATAT
*
28066596 TAATAT-T
1 TAAAATAT
28066603 TAAAAATAT
1 T-AAAATAT
28066612 T--AATAT
1 TAAAATAT
28066618 TAAAATAT
1 TAAAATAT
28066626 AGTAAAATAT
1 --TAAAATAT
28066636 TAAAATA
1 TAAAATA
28066643 AAATTGTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
6 6 0.15
7 2 0.05
8 21 0.54
9 2 0.05
10 8 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
TAAAATAT
Found at i:28066702 original size:26 final size:25
Alignment explanation
Indices: 28066659--28066709 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
28066649 TTATACTTTT
28066659 TAATTTTATTTTATATTAAAATATA
1 TAATTTTATTTTATATTAAAATATA
*
28066684 TAATTTTATATTTATATTAATATATA
1 TAATTTTAT-TTTATATTAAAATATA
28066710 AATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TAATTTTATTTTATATTAAAATATA
Found at i:28071119 original size:24 final size:24
Alignment explanation
Indices: 28071067--28071145 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
28071057 CCGGGTAATA
* *
28071067 TAACGGAAAGCTCACAAAGAGC-CT
1 TAACGGATAGCTC-CAAAGAGCAAT
* *
28071091 ATAACGGATAGCTCCAAATAGTAAT
1 -TAACGGATAGCTCCAAAGAGCAAT
* *
28071116 TAACAGATAGCTCCGAAGAGCAAT
1 TAACGGATAGCTCCAAAGAGCAAT
28071140 TAACGG
1 TAACGG
28071146 GAAGCATCGG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 31 0.70
25 13 0.30
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (24 bp):
TAACGGATAGCTCCAAAGAGCAAT
Found at i:28071252 original size:26 final size:26
Alignment explanation
Indices: 28071193--28071253 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
28071183 AGCACTAAAG
* *
28071193 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCC
*
28071219 GGAAGCTCACGAAGAGCCATATAA-CC
1 GGAAGCTCACAAAGAGCC-TATAATCC
*
28071245 GGACGCTCA
1 GGAAGCTCA
28071254 TAAGAGCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCC
Found at i:28074867 original size:27 final size:27
Alignment explanation
Indices: 28074829--28074886 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
28074819 CTATATATAG
**
28074829 AGTCTGCTGGGATAGTAAACATTAGGT
1 AGTCTGCTGGGATAGTAAACACGAGGT
*
28074856 AGTCTGCTGGGATATTAAACACGAGGT
1 AGTCTGCTGGGATAGTAAACACGAGGT
28074883 AGTC
1 AGTC
28074887 CGCTAGGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (27 bp):
AGTCTGCTGGGATAGTAAACACGAGGT
Found at i:28080219 original size:23 final size:23
Alignment explanation
Indices: 28080193--28080242 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
28080183 GCTCGATTTG
*
28080193 TTTAGCATTTGCGAACATGTTCA
1 TTTAGCATTCGCGAACATGTTCA
* *
28080216 TTTAGCATTCGTGAACATGTTCG
1 TTTAGCATTCGCGAACATGTTCA
28080239 TTTA
1 TTTA
28080243 ATGCTCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (23 bp):
TTTAGCATTCGCGAACATGTTCA
Found at i:28080648 original size:3 final size:3
Alignment explanation
Indices: 28080640--28080678 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
28080630 TTGTTTGATC
28080640 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
28080679 AAGAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:28090896 original size:39 final size:39
Alignment explanation
Indices: 28090829--28090977 Score: 156
Period size: 39 Copynumber: 3.7 Consensus size: 39
28090819 TTACTGATTA
* * * *
28090829 GGCAC-TTATGTGCCGACTACTGTTACTGTTACTAATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTAACTC
** *
28090867 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACCC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTAACTC
*
28090906 GGCACTTTGAGTGTCGAATACTGTTACTGTTACTGTTACCGACTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTAC---TA---ACTC
*
28090951 GGCACTTTGTGTGTCGAATGCTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTAC
28090978 CTCTACCGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
38 5 0.05
39 58 0.64
45 28 0.31
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (39 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACTAACTC
Found at i:28090934 original size:45 final size:45
Alignment explanation
Indices: 28090866--28091034 Score: 199
Period size: 45 Copynumber: 3.9 Consensus size: 45
28090856 GTTACTAATT
28090866 CGGCACTTTGTGTGTCGAATACTGTTA---CT---GTTACCGACC
1 CGGCACTTTGTGTGTCGAATACTGTTACTGCTACCGTTACCGACC
* * * *
28090905 CGGCACTTTGAGTGTCGAATACTGTTACTGTTACTGTTACCGACT
1 CGGCACTTTGTGTGTCGAATACTGTTACTGCTACCGTTACCGACC
* * *
28090950 CGGCACTTTGTGTGTCGAATGCTGTTACCT-CTACCGTTACAGATC
1 CGGCACTTTGTGTGTCGAATACTGTTA-CTGCTACCGTTACCGACC
* *
28090995 CAGCACTTTGTGTGTTGAATACTGTTACTGCTACCGTTAC
1 CGGCACTTTGTGTGTCGAATACTGTTACTGCTACCGTTAC
28091035 TGATTACTGT
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
42 1 0.01
44 2 0.02
45 78 0.72
46 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (45 bp):
CGGCACTTTGTGTGTCGAATACTGTTACTGCTACCGTTACCGACC
Found at i:28092503 original size:17 final size:19
Alignment explanation
Indices: 28092467--28092507 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
28092457 AACTTCCCGA
*
28092467 AAAAAATTACATATATTTT
1 AAAAAATTACATATAATTT
28092486 AAAAAA-TACAT-TAATTT
1 AAAAAATTACATATAATTT
28092503 AAAAA
1 AAAAA
28092508 TAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATTACATATAATTT
Found at i:28109147 original size:20 final size:20
Alignment explanation
Indices: 28109122--28109165 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
28109112 AACTGCAGCT
28109122 TTTTTTTACTATTCTTGCTA
1 TTTTTTTACTATTCTTGCTA
* * *
28109142 TTTTTTTTCTTTTTTTGCTA
1 TTTTTTTACTATTCTTGCTA
28109162 TTTT
1 TTTT
28109166 CTTGTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTTTTACTATTCTTGCTA
Found at i:28109163 original size:29 final size:30
Alignment explanation
Indices: 28109122--28109179 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
28109112 AACTGCAGCT
28109122 TTTTTTTACTA-TTCTTGCTATTTTTTTTC
1 TTTTTTTACTATTTCTTGCTATTTTTTTTC
* *
28109151 TTTTTTTGCTATTTTCTTGTTATTTTTTT
1 TTTTTTTACTA-TTTCTTGCTATTTTTTT
28109180 CACCTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
31 15 0.60
ACGTcount: A:0.09, C:0.10, G:0.05, T:0.76
Consensus pattern (30 bp):
TTTTTTTACTATTTCTTGCTATTTTTTTTC
Found at i:28109176 original size:20 final size:20
Alignment explanation
Indices: 28109130--28109177 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
28109120 CTTTTTTTTA
* *
28109130 CTATTCTTGCTATTTTTTTT
1 CTATTTTTGCTATTTTTTGT
*
28109150 CTTTTTTTGCTATTTTCTTGT
1 CTATTTTTGCTATTTT-TTGT
28109171 -TATTTTT
1 CTATTTTT
28109178 TTCACCTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.73
Consensus pattern (20 bp):
CTATTTTTGCTATTTTTTGT
Found at i:28110166 original size:19 final size:20
Alignment explanation
Indices: 28110142--28110179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28110132 TTTAATATTA
28110142 AATG-TTAT-TAAAATAATAG
1 AATGTTTATCTAAAA-AATAG
28110161 AATGTTTATCTAAAAAATA
1 AATGTTTATCTAAAAAATA
28110180 AATATTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (20 bp):
AATGTTTATCTAAAAAATAG
Found at i:28110219 original size:17 final size:18
Alignment explanation
Indices: 28110118--28110218 Score: 55
Period size: 17 Copynumber: 5.6 Consensus size: 18
28110108 AAGATAAATA
*
28110118 AATATTAAAT-TAAATTT
1 AATATTAAATGTTAATTT
*
28110135 AATATTAAATGTT-ATTAA
1 AATATTAAATGTTAATT-T
* * *
28110153 AATAATAGAATGTTTATCTA
1 AATATTA-AATGTTAAT-TT
* * * **
28110173 AAAAATAAATATTAAGAT
1 AATATTAAATGTTAATTT
28110191 AAGTATTAAAT-TTAATTT
1 AA-TATTAAATGTTAATTT
28110209 AATATTAAAT
1 AATATTAAAT
28110219 TATTAAAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
17 21 0.32
18 16 0.25
19 18 0.28
20 9 0.14
21 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (18 bp):
AATATTAAATGTTAATTT
Found at i:28116584 original size:26 final size:27
Alignment explanation
Indices: 28116555--28116605 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
28116545 GACCATAATG
28116555 CCCCTAGAGGGTAAATGACT-ATTTTT
1 CCCCTAGAGGGTAAATGACTGATTTTT
* *
28116581 CCCCTCGTGGGTAAATGACTGATTT
1 CCCCTAGAGGGTAAATGACTGATTT
28116606 GTGTTATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
CCCCTAGAGGGTAAATGACTGATTTTT
Found at i:28117762 original size:25 final size:25
Alignment explanation
Indices: 28117725--28117808 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
28117715 TACCGATTGC
* * * *
28117725 AGCTCATAAGAGCTTATCGATTCGT
1 AGCTCGTATGAGCTTACCGATTCAT
* *
28117750 AGCTCGTATGAGCTTACCGATTTAC
1 AGCTCGTATGAGCTTACCGATTCAT
*
28117775 AGCTCGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCTTACCGATTCAT
28117800 AGCTCGTAT
1 AGCTCGTAT
28117809 CTGTAAACTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTCAT
Found at i:28117796 original size:50 final size:49
Alignment explanation
Indices: 28117714--28117808 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 49
28117704 TCATTAAGGA
* * * *
28117714 TTACCGATTGCAGCTCATAAGAGCTTATCGATTCGTAGCTCGTATGAGC
1 TTACCGATTACAGCTCATAAGAGCATACCGATTCATAGCTCGTATGAGC
* *
28117763 TTACCGATTTACAGCTCGTGAGAGCATACCGATTCATAGCTCGTAT
1 TTACCGA-TTACAGCTCATAAGAGCATACCGATTCATAGCTCGTAT
28117809 CTGTAAACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 7 0.18
50 32 0.82
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (49 bp):
TTACCGATTACAGCTCATAAGAGCATACCGATTCATAGCTCGTATGAGC
Found at i:28118913 original size:15 final size:16
Alignment explanation
Indices: 28118893--28118922 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28118883 TGGTGCCTTA
28118893 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
28118908 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
28118923 AGCATATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:28122227 original size:15 final size:15
Alignment explanation
Indices: 28122209--28122241 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
28122199 AAGATTTAGA
28122209 AAAAAAAGA-AAAATG
1 AAAAAAAGAGAAAA-G
28122224 AAAAAAAGAGAAAAG
1 AAAAAAAGAGAAAAG
28122239 AAA
1 AAA
28122242 TGATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:28125306 original size:2 final size:2
Alignment explanation
Indices: 28125299--28125328 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28125289 TTTGATGTGG
28125299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28125329 TTGGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28132057 original size:102 final size:102
Alignment explanation
Indices: 28131880--28132107 Score: 377
Period size: 102 Copynumber: 2.2 Consensus size: 102
28131870 GAATAAAAAG
* *
28131880 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
**
28131945 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AA
66 TGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAA
**
28131981 GAGGGTTGCTAAGTGCTGATTCCCCTGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
1 G-GGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
28132046 TTGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAA
65 TTGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAA
*
28132084 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
28132108 GACTCATTGG
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
101 1 0.01
102 114 0.97
103 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
TGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAA
Found at i:28138691 original size:45 final size:45
Alignment explanation
Indices: 28138620--28138831 Score: 207
Period size: 45 Copynumber: 4.7 Consensus size: 45
28138610 TTTTCAAGGA
* * * * * *
28138620 TGCCATAGCGTCTTTCAGCCACGGTCTTATTAATTTCCGACAT-G
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAG
*
28138664 ATGCCATAGTGTCTTTCAAATATGGTCTTATTCATTTCC-AGTATAG
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAG
* ** * *
28138710 TGTCATAGTGTCTTTCAACTATGGTAGTATTCATGTCCGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAG
* *
28138755 TGCCATAGTGTCTTTCAATTATGGTCTTATTCATTT-CTAGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAG
* * *
28138800 TGTCACCA-TATCTTTCAACTATGGTCTTATTC
1 TGCCA-TAGTGTCTTTCAACTATGGTCTTATTC
28138832 GTTTTTCAAG
Statistics
Matches: 138, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.01
45 134 0.97
46 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAG
Found at i:28140980 original size:45 final size:45
Alignment explanation
Indices: 28140930--28141017 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
28140920 CATATTCAAG
28140930 TATGTAATTATAAACACCAATCTCACAACAACATATTACTAAAAT
1 TATGTAATTATAAACACCAATCTCACAACAACATATTACTAAAAT
28140975 TATGTAATTATAAACACCAATCTCACAACAACATATTACTAAA
1 TATGTAATTATAAACACCAATCTCACAACAACATATTACTAAA
28141018 CTTACATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.28
Consensus pattern (45 bp):
TATGTAATTATAAACACCAATCTCACAACAACATATTACTAAAAT
Found at i:28141776 original size:73 final size:73
Alignment explanation
Indices: 28141673--28141856 Score: 237
Period size: 73 Copynumber: 2.5 Consensus size: 73
28141663 CGAGCTGTAG
* *
28141673 ATATAATCGTGTCAGGCTACCCCT-TCGGGCTAAACCTTTATATAAATACATCAATTGCTCA-TC
1 ATATAATCGTGTCAGGTTACCCATCT-GGGCTAAACCTTTATATAAATACATCAATTGCTCATTC
* *
28141736 TGAGCTGACC
65 -GAACTGAAC
* * * * *
28141746 ATATAATCGTATCAGGTTACCCGTCTGGGCTAAACCTTTATATGAATACATCAGTTGCTCGTTCG
1 ATATAATCGTGTCAGGTTACCCATCTGGGCTAAACCTTTATATAAATACATCAATTGCTCATTCG
28141811 AACTGAAC
66 AACTGAAC
* *
28141819 ATATAATTGTGTCAGGTTACCTATCTGGGCTAAACCTT
1 ATATAATCGTGTCAGGTTACCCATCTGGGCTAAACCTT
28141857 AATGTAGACA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
73 94 0.97
74 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (73 bp):
ATATAATCGTGTCAGGTTACCCATCTGGGCTAAACCTTTATATAAATACATCAATTGCTCATTCG
AACTGAAC
Found at i:28141870 original size:73 final size:71
Alignment explanation
Indices: 28141652--28141872 Score: 214
Period size: 73 Copynumber: 3.0 Consensus size: 71
28141642 CAGACATATT
* * * * * *
28141652 AATTGCTTGTTCGAGCTGTAGATATAATCGTGTCAGGCTACCCCTTC-GGGCTAAACCTTTATAT
1 AATTGCTCGTTCGAGCTGAACATATAATCGTGTCAGGTTA--CCTTCTGGGCTAAACCTTAATGT
28141716 AAATACATC
64 -AATACATC
* * * *
28141725 AATTGCTC-ATCTGAGCTGACCATATAATCGTATCAGGTTACCCGTCTGGGCTAAACCTTTATAT
1 AATTGCTCGTTC-GAGCTGAACATATAATCGTGTCAGGTTA-CCTTCTGGGCTAAACC-TTA-AT
28141789 G-AATACATC
62 GTAATACATC
* * *
28141798 AGTTGCTCGTTCGAACTGAACATATAATTGTGTCAGGTTACCTATCTGGGCTAAACCTTAATGTA
1 AATTGCTCGTTCGAGCTGAACATATAATCGTGTCAGGTTACCT-TCTGGGCTAAACCTTAATGTA
*
28141863 GACACATC
65 -ATACATC
28141871 AA
1 AA
28141873 ATAGCTTGGC
Statistics
Matches: 121, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
71 3 0.02
72 13 0.11
73 99 0.82
74 4 0.03
75 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (71 bp):
AATTGCTCGTTCGAGCTGAACATATAATCGTGTCAGGTTACCTTCTGGGCTAAACCTTAATGTAA
TACATC
Found at i:28144858 original size:16 final size:16
Alignment explanation
Indices: 28144837--28144873 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
28144827 TTGGTTCGCT
28144837 GTAATGGAATAGGGGC
1 GTAATGGAATAGGGGC
28144853 GTAATGGAATAGGGGC
1 GTAATGGAATAGGGGC
28144869 GTAAT
1 GTAAT
28144874 AGGTAATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGGGGC
Found at i:28145130 original size:18 final size:18
Alignment explanation
Indices: 28145107--28145240 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
28145097 TTATTATTAA
28145107 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
28145125 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
28145142 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
28145160 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
28145176 ATAAAATATAACTTAAAAT
1 ATATAATTTAA-TAAAAAT
**
28145195 A-ATAA-TT-AT--TTA-
1 ATATAATTTAATAAAAAT
*
28145207 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
28145225 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
28145241 TTCTTAGTGT
Statistics
Matches: 86, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 19 0.22
18 43 0.50
19 5 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:28145211 original size:26 final size:28
Alignment explanation
Indices: 28145180--28145237 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
28145170 AATACTATAA
* *
28145180 AATATAACTTAA-AATAATA-ATTATTT
1 AATATAACTTAACAAAAATATATAATTT
*
28145206 AATATAATTTAACAAAAATATATAATTT
1 AATATAACTTAACAAAAATATATAATTT
28145234 AATA
1 AATA
28145238 AAATTCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 6 0.22
28 10 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
AATATAACTTAACAAAAATATATAATTT
Found at i:28145457 original size:119 final size:120
Alignment explanation
Indices: 28145141--28145575 Score: 791
Period size: 120 Copynumber: 3.6 Consensus size: 120
28145131 TTTAATAAAA
* * *
28145141 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAACTTAAAATAATAATTATTT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* *
28145206 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTGTTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
28145261 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* *
28145326 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATGAAATATCCT
66 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
28145381 TATATGAATTTACT-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
28145445 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
28145500 TATATGAATTTACTAAAATTATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
28145565 AATATAATTTA
66 AATATAATTTA
28145576 TAATCTACTT
Statistics
Matches: 304, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 117 0.38
120 187 0.62
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:28145575 original size:239 final size:240
Alignment explanation
Indices: 28145141--28145575 Score: 809
Period size: 239 Copynumber: 1.8 Consensus size: 240
28145131 TTTAATAAAA
*
28145141 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAACTTAAAATAATAATTATTT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAACTTAAAATAATAATTATTA
*
28145206 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTGTTAAATATTCTTATATGAATT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATT
28145271 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTT
131 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTT
28145336 AATAAAAATATATAATTTAATAAAATTCTTAGTATGAAATATCCT
196 AATAAAAATATATAATTTAATAAAATTCTTAGTATGAAATATCCT
* *
28145381 TATATGAATTTACT-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAACTTAAAATAATAATTATTA
*
28145445 AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATT
*
28145510 TACTAAAATTATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTT
131 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTT
28145575 A
196 A
28145576 TAATCTACTT
Statistics
Matches: 189, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
239 175 0.93
240 14 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (240 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAACTTAAAATAATAATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATT
TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTT
AATAAAAATATATAATTTAATAAAATTCTTAGTATGAAATATCCT
Found at i:28149899 original size:22 final size:22
Alignment explanation
Indices: 28149874--28149965 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
28149864 AAATTCAATA
* *
28149874 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
28149896 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
28149918 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
28149939 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
28149962 TCAA
1 TCAA
28149966 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:28149931 original size:44 final size:44
Alignment explanation
Indices: 28149874--28149965 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
28149864 AAATTCAATA
* * *
28149874 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
28149918 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
28149962 TCAA
1 TCAA
28149966 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:28149981 original size:52 final size:51
Alignment explanation
Indices: 28149915--28150017 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
28149905 TTCAAAATTT
* *
28149915 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
28149967 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
28150018 TCCATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 7 0.16
52 29 0.64
53 9 0.20
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:28150006 original size:21 final size:22
Alignment explanation
Indices: 28149967--28150008 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28149957 TTCTCTCAAA
28149967 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
28149989 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
28150009 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:28150104 original size:28 final size:27
Alignment explanation
Indices: 28150052--28150105 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
28150042 TAAATTTCAT
28150052 TTTTTTAAGAAAATTTTAAAATTTTTA
1 TTTTTTAAGAAAATTTTAAAATTTTTA
28150079 TTTTTTAA-AATAATTTTAAAATTTTTA
1 TTTTTTAAGAA-AATTTTAAAATTTTTA
28150106 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:28150258 original size:24 final size:23
Alignment explanation
Indices: 28150196--28150258 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
28150186 TAAATTTAAA
*
28150196 TTTTAAAT-TTTTTTTAAGATAT
1 TTTTATATATTTTTTTAAGATAT
*
28150218 TTTTATTTATGTATTTTT-AGATAT
1 TTTTATATAT-T-TTTTTAAGATAT
28150242 TTATTAATATATTTTTT
1 TT-TT-ATATATTTTTT
28150259 GTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 13 0.39
25 8 0.24
26 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTATATATTTTTTTAAGATAT
Found at i:28152411 original size:17 final size:18
Alignment explanation
Indices: 28152389--28152424 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28152379 TAAAATCCTT
28152389 AAACCCT-ACTTAATTAA
1 AAACCCTAACTTAATTAA
*
28152406 AAACCCTAATTTAATTAA
1 AAACCCTAACTTAATTAA
28152424 A
1 A
28152425 TTAAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACCCTAACTTAATTAA
Found at i:28152450 original size:24 final size:23
Alignment explanation
Indices: 28152390--28152466 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
28152380 AAAATCCTTA
28152390 AACCCTACTTAATTAAAAACCCT
1 AACCCTACTTAATTAAAAACCCT
** *
28152413 AA-TTTAATTAAATTAAAAACCCT
1 AACCCTACTT-AATTAAAAACCCT
*
28152436 AAACCCTACTTAATTAAAAACTCT
1 -AACCCTACTTAATTAAAAACCCT
28152460 AACCCTA
1 AACCCTA
28152467 ACCTAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.09
23 22 0.50
24 14 0.32
25 4 0.09
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTACTTAATTAAAAACCCT
Found at i:28152454 original size:23 final size:24
Alignment explanation
Indices: 28152377--28152466 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
28152367 ACATTATTTG
* *
28152377 ATTAAAATCCTTAAACCCTACTTA
1 ATTAAAAACCCTAAACCCTACTTA
** *
28152401 ATTAAAAACCCT-AA-TTTAATTAA
1 ATTAAAAACCCTAAACCCTACTT-A
28152424 ATTAAAAACCCTAAACCCTACTTA
1 ATTAAAAACCCTAAACCCTACTTA
*
28152448 ATTAAAAACTCT-AACCCTA
1 ATTAAAAACCCTAAACCCTA
28152467 ACCTAATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.07
23 22 0.41
24 24 0.44
25 4 0.07
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTAAAAACCCTAAACCCTACTTA
Found at i:28152492 original size:28 final size:26
Alignment explanation
Indices: 28152400--28153003 Score: 381
Period size: 28 Copynumber: 22.6 Consensus size: 26
28152390 AACCCTACTT
*
28152400 AATTAAAAACCCTAA--T-TTAATTA
1 AATTAAAAACCCTAACCTAATAATTA
*
28152423 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTA-ATAATTA
*
28152452 AA--AACTCTAACCCTAACCTAATTTAATTA
1 AATTAA---AAACCCTAACCTAA--TAATTA
*
28152481 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA--TAATTA
28152509 AATTAAAAACCCTAACCCTAACCTAACCTAATTA
1 AATT--AAA----AACCCTAACCTAA--TAATTA
28152543 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
*
28152566 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
28152589 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
*
28152612 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
* *
28152635 AATTAAAAATCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
*
28152663 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
*
28152686 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTA-ATAATTA
*
28152715 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTA-ATAATTA
*
28152744 AA--AACCCTAACCCTAACCTAATTTAATTA
1 AATTAA---AAACCCTAACCTAA--TAATTA
*
28152773 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA--TAATTA
* *
28152801 AATTAAAAACCTTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
28152824 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
*
28152852 AATTAAAAACCCTAACCCTAACCTAACCTAATTT
1 AATT--AAA----AACCCTAACCTAA--TAATTA
*
28152886 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
28152914 AATTAAAAACCCTAAACCTAAT--TT-
1 AATTAAAAACCCT-AACCTAATAATTA
*
28152938 AATTAAAAACTCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
28152966 AATTAAAAACCCTAACCCT-AT--TT-
1 AATTAAAAACCCTAA-CCTAATAATTA
28152989 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
28153004 TTAAATTGTA
Statistics
Matches: 485, Mismatches: 29, Indels: 134
0.75 0.04 0.21
Matches are distributed among these distances:
20 2 0.00
22 4 0.01
23 142 0.29
24 20 0.04
25 5 0.01
26 3 0.01
27 8 0.02
28 152 0.31
29 71 0.15
30 20 0.04
31 4 0.01
32 6 0.01
34 48 0.10
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (26 bp):
AATTAAAAACCCTAACCTAATAATTA
Found at i:28152557 original size:23 final size:23
Alignment explanation
Indices: 28152530--28152755 Score: 265
Period size: 23 Copynumber: 9.3 Consensus size: 23
28152520 CTAACCCTAA
28152530 CCTAACCTAATTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
28152553 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
28152576 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
28152599 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
* *
28152622 CCTAACCTACTTAAATTAAAAAT
1 CCTAACCTAATTAAATTAAAAAC
28152645 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAACC-----TAATTAAATTAAAAAC
*
28152673 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
28152696 CCTAACCCCTACTTAATTAAATTAAAAAC
1 CCTAA---C--C-TAATTAAATTAAAAAC
*
28152725 CCTAAACCCTACTT-AATTAAAAAC
1 CCT-AA-CCTAATTAAATTAAAAAC
28152749 CCTAACC
1 CCTAACC
28152756 CTAACCTAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 25
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.01
23 113 0.63
24 13 0.07
25 4 0.02
26 2 0.01
28 24 0.13
29 18 0.10
30 2 0.01
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (23 bp):
CCTAACCTAATTAAATTAAAAAC
Found at i:28152868 original size:23 final size:23
Alignment explanation
Indices: 28152788--28152868 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 23
28152778 AAAACCCTAA
*
28152788 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
* *
28152811 CTTAACCTACTTAAATTAAAAACCC
1 CCTAACCTAATTAAATTAAAAA--C
28152836 TAACCTAACCTAATTAAATTAAAAAC
1 ---CCTAACCTAATTAAATTAAAAAC
28152862 CCTAACC
1 CCTAACC
28152869 CTAACCTAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 26 0.54
25 1 0.02
26 1 0.02
28 20 0.42
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (23 bp):
CCTAACCTAATTAAATTAAAAAC
Found at i:28156388 original size:124 final size:124
Alignment explanation
Indices: 28156168--28156422 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 124
28156158 CCACGAGGGC
* *
28156168 GCGATTTGAGACTGTTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGAGACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
28156233 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
28156292 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTGAGACTATTTCCTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAG
* * *
28156355 CGAAATCGCTTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
28156416 GCGATTT
1 GCGATTT
28156423 CCCACTATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 87 0.75
125 29 0.25
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTGAGACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:28163458 original size:35 final size:36
Alignment explanation
Indices: 28163412--28163480 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
28163402 TGTCAATCAT
28163412 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
28163447 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
28163481 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:28163478 original size:27 final size:28
Alignment explanation
Indices: 28163448--28163523 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
28163438 AATAATAAAT
* *
28163448 TCAATATCCAACAAGCTTAAAACATA-A
1 TCAATATCTAACAAACTTAAAACATATA
* *
28163475 TCAATATCTAACAAATTTAAGACATATA
1 TCAATATCTAACAAACTTAAAACATATA
*
28163503 TCAAAATCTAACAAAC-TAAAA
1 TCAATATCTAACAAACTTAAAA
28163524 TTTCAATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 26 0.63
28 15 0.37
ACGTcount: A:0.54, C:0.18, G:0.03, T:0.25
Consensus pattern (28 bp):
TCAATATCTAACAAACTTAAAACATATA
Found at i:28163514 original size:28 final size:27
Alignment explanation
Indices: 28163464--28163517 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
28163454 TCCAACAAGC
*
28163464 TTAAAACATAATCAATATCTAACAAAT
1 TTAAAACATAATCAAAATCTAACAAAT
*
28163491 TTAAGACATATATCAAAATCTAACAAA
1 TTAAAACATA-ATCAAAATCTAACAAA
28163518 CTAAAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.28
Consensus pattern (27 bp):
TTAAAACATAATCAAAATCTAACAAAT
Found at i:28164876 original size:24 final size:24
Alignment explanation
Indices: 28164844--28164891 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
28164834 GGCAATGGTC
28164844 AACATTGCCCTTGTATTATATGTT
1 AACATTGCCCTTGTATTATATGTT
28164868 AACATTGCCCTTGTATTATATGTT
1 AACATTGCCCTTGTATTATATGTT
28164892 TTATAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (24 bp):
AACATTGCCCTTGTATTATATGTT
Found at i:28167758 original size:18 final size:18
Alignment explanation
Indices: 28167737--28167771 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
28167727 CTGGGGTAGG
28167737 TTTGGG-TTTAAGTTTGGT
1 TTTGGGCTTT-AGTTTGGT
28167755 TTTGGGCTTTAGTTTGG
1 TTTGGGCTTTAGTTTGG
28167772 GTACTAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.09, C:0.03, G:0.34, T:0.54
Consensus pattern (18 bp):
TTTGGGCTTTAGTTTGGT
Found at i:28169515 original size:41 final size:41
Alignment explanation
Indices: 28169470--28169595 Score: 135
Period size: 41 Copynumber: 3.1 Consensus size: 41
28169460 TTTATTATCA
* * *
28169470 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
28169511 GTGAAATTATTTAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* * * * * * * *
28169552 ATGATACATTTCGGACAATAAGTCTAGCAGGCTAAAAGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
28169593 GTG
1 GTG
28169596 TACCGATTCA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:28171018 original size:15 final size:17
Alignment explanation
Indices: 28170998--28171037 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
28170988 CGATCCATCT
28170998 ACACAAAATA-ATG-TC
1 ACACAAAATATATGATC
28171013 ACAC-AAATATATGATC
1 ACACAAAATATATGATC
28171029 ACTACAAAA
1 AC-ACAAAA
28171038 AAGATGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 7 0.33
16 4 0.19
17 2 0.10
18 3 0.14
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (17 bp):
ACACAAAATATATGATC
Found at i:28171805 original size:25 final size:25
Alignment explanation
Indices: 28171763--28171816 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
28171753 CTATTTTTTA
**
28171763 TAATTTTTTAAATTATAAAT-TGAT
1 TAATTTTTTAAAAAATAAATATGAT
28171787 TAATTTTTATAAAAAATAAATAATGAT
1 TAATTTTT-TAAAAAATAAAT-ATGAT
28171814 TAA
1 TAA
28171817 GTGCACTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 10 0.40
27 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATTTTTTAAAAAATAAATATGAT
Found at i:28172313 original size:28 final size:28
Alignment explanation
Indices: 28172273--28172329 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
28172263 TCTCTAGCAT
*
28172273 CAAATACTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
28172301 CAAATACTAACAGATCAGTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
28172329 C
1 C
28172330 CAGAGAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAGATCAGTAAGTGCTAA
Found at i:28174800 original size:28 final size:28
Alignment explanation
Indices: 28174766--28174823 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
28174756 AGGGTTAGGG
*
28174766 TTAGGG-TTATAGTTTTTGAAAAAATAAA
1 TTAGGGTTTATAGATTTT-AAAAAATAAA
* *
28174794 TTAGGGTTTATGGATTTTAAAAATTAAA
1 TTAGGGTTTATAGATTTTAAAAAATAAA
28174822 TT
1 TT
28174824 TGAGTTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (28 bp):
TTAGGGTTTATAGATTTTAAAAAATAAA
Found at i:28174838 original size:27 final size:28
Alignment explanation
Indices: 28174779--28174839 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
28174769 GGGTTATAGT
* *
28174779 TTTTGAAAAAATAAATTAGGGTTTATGGA
1 TTTT-AAAAAATAAATTAGAGTTTAAGGA
* *
28174808 TTTTAAAAATTAAATTTGAGTTTAAGG-
1 TTTTAAAAAATAAATTAGAGTTTAAGGA
28174835 TTTTA
1 TTTTA
28174840 GGATTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 19 0.68
29 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTAAAAAATAAATTAGAGTTTAAGGA
Found at i:28190620 original size:25 final size:25
Alignment explanation
Indices: 28190484--28190622 Score: 136
Period size: 25 Copynumber: 5.6 Consensus size: 25
28190474 TGAGCATGTA
* * * *
28190484 ATCGAGAAGCTCTTCCGAGCTATAT
1 ATCGGGAAGCTCATGCGAGCTAAAT
* *
28190509 AACGGGAAGCTCATGTGAGCTAAAT
1 ATCGGGAAGCTCATGCGAGCTAAAT
* * * **
28190534 AACGGGAAGCTTATACGAGCTGTAT
1 ATCGGGAAGCTCATGCGAGCTAAAT
* ** *
28190559 ATCGGGAAGCTTATAAGAGCTGAA-
1 ATCGGGAAGCTCATGCGAGCTAAAT
28190583 ATCGGGAAGCTCATGCGAGCTAAAT
1 ATCGGGAAGCTCATGCGAGCTAAAT
28190608 ATCGGGAAGCTCATG
1 ATCGGGAAGCTCATG
28190623 AGAAATGTGG
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
24 20 0.21
25 75 0.79
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (25 bp):
ATCGGGAAGCTCATGCGAGCTAAAT
Found at i:28192807 original size:37 final size:35
Alignment explanation
Indices: 28192766--28192864 Score: 94
Period size: 37 Copynumber: 2.7 Consensus size: 35
28192756 AAAGATAAAC
28192766 ATTAAATTAAA-TATTAAGATAATTACTTTAATATTAA
1 ATTAAATTAAACTATTAAGATAATT-C-TTAA-ATTAA
* *
28192803 ATT-AATAAAATACTATTAAGATAAGTCTTAAATTAA
1 ATTAAAT-TAA-ACTATTAAGATAATTCTTAAATTAA
*
28192839 ATTTAATATTAAACTATTAAAATAAT
1 A-TTAA-ATTAAACTATTAAGATAAT
28192865 ATTATTTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
36 9 0.18
37 23 0.45
38 5 0.10
39 14 0.27
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (35 bp):
ATTAAATTAAACTATTAAGATAATTCTTAAATTAA
Found at i:28194454 original size:15 final size:15
Alignment explanation
Indices: 28194426--28194464 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
28194416 ATCAATGAGC
*
28194426 TAATATTTGTTTGTCA
1 TAAT-TTTGCTTGTCA
28194442 TAATTTTGCTTGTCA
1 TAATTTTGCTTGTCA
*
28194457 CAATTTTG
1 TAATTTTG
28194465 TTATGCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (15 bp):
TAATTTTGCTTGTCA
Found at i:28196118 original size:18 final size:18
Alignment explanation
Indices: 28196070--28196120 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
28196060 ACTTAATCAC
28196070 TTTAATATTAAA--TTAA
1 TTTAATATTAAATCTTAA
** **
28196086 GATAATATTTTATCTTAA
1 TTTAATATTAAATCTTAA
28196104 TTTAATATTAAATCTTA
1 TTTAATATTAAATCTTA
28196121 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
16 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATATTAAATCTTAA
Found at i:28196201 original size:20 final size:18
Alignment explanation
Indices: 28196154--28196202 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
28196144 GTAGATAAAC
28196154 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
28196171 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
28196191 ATTAAATTAATA
1 ATTAAATTAATA
28196203 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:28202896 original size:18 final size:18
Alignment explanation
Indices: 28202873--28202907 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28202863 CCCTCGTCCT
* *
28202873 CTAAGGGGAAACAGAAAG
1 CTAAGGGAAAAAAGAAAG
28202891 CTAAGGGAAAAAAGAAA
1 CTAAGGGAAAAAAGAAA
28202908 CCTACTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAAAAGAAAG
Found at i:28204475 original size:6 final size:6
Alignment explanation
Indices: 28204459--28204524 Score: 77
Period size: 6 Copynumber: 11.3 Consensus size: 6
28204449 ATAAAAATTA
28204459 AATATTT AATATT AATATT AATATT AATATT AATATT AATA-- AATATTT
1 AATA-TT AATATT AATATT AATATT AATATT AATATT AATATT AATA-TT
*
28204507 AAT-TT AAT-CT AATATT AA
1 AATATT AATATT AATATT AA
28204525 ATTTGTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.08
5 9 0.17
6 33 0.62
7 7 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:28210586 original size:14 final size:16
Alignment explanation
Indices: 28210555--28210587 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
28210545 ATAATGCATT
28210555 AAACCACATAACACCA
1 AAACCACATAACACCA
28210571 AAACCAC-TAA-ACCA
1 AAACCACATAACACCA
28210585 AAA
1 AAA
28210588 TGATATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAACCACATAACACCA
Found at i:28211530 original size:9 final size:9
Alignment explanation
Indices: 28211513--28211579 Score: 116
Period size: 9 Copynumber: 7.4 Consensus size: 9
28211503 GTAGTGATTC
*
28211513 AATTTGGTT
1 AATTCGGTT
28211522 AATTCGGTT
1 AATTCGGTT
28211531 AATTCGGTT
1 AATTCGGTT
28211540 AATTCGGTT
1 AATTCGGTT
*
28211549 AATTCGGGT
1 AATTCGGTT
28211558 AATTCGGTT
1 AATTCGGTT
28211567 AATTCGGTT
1 AATTCGGTT
28211576 AATT
1 AATT
28211580 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:28211854 original size:13 final size:13
Alignment explanation
Indices: 28211846--28211870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28211836 TCAAAATAAA
28211846 AAAATAAAAAAAT
1 AAAATAAAAAAAT
28211859 AAAATAAAAAAA
1 AAAATAAAAAAA
28211871 CATCAGCAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:28211870 original size:8 final size:8
Alignment explanation
Indices: 28211838--28211862 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28211828 AAGTTGAATC
28211838 AAAATAAA
1 AAAATAAA
28211846 AAAATAAA
1 AAAATAAA
28211854 AAAATAAA
1 AAAATAAA
28211862 A
1 A
28211863 TAAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:28211965 original size:16 final size:16
Alignment explanation
Indices: 28211946--28211978 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28211936 AGAATTTATT
28211946 TTAAAAT-TTATTTAAA
1 TTAAAATATT-TTTAAA
28211962 TTAAAATATTTTTAAA
1 TTAAAATATTTTTAAA
28211978 T
1 T
28211979 GTATTTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAATATTTTTAAA
Found at i:28212957 original size:12 final size:12
Alignment explanation
Indices: 28212940--28212966 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28212930 ATCCAAAATT
28212940 ATAAAAAATAAA
1 ATAAAAAATAAA
28212952 ATAAAAAATAAA
1 ATAAAAAATAAA
28212964 ATA
1 ATA
28212967 TTAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:28213670 original size:19 final size:19
Alignment explanation
Indices: 28213642--28213681 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
28213632 AGTTCTAATA
*
28213642 TTTTTTAATA-AATTTTCAC
1 TTTTTAAATATAATTTT-AC
28213661 TTTTTAAATATAATTTTAC
1 TTTTTAAATATAATTTTAC
28213680 TT
1 TT
28213682 ATATCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAATATAATTTTAC
Found at i:28224075 original size:62 final size:62
Alignment explanation
Indices: 28223978--28224104 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
28223968 ACTTAGTCGC
28223978 ATAAAGAGTTTCTAACATTTTCCACAAGGCAGATGAGGTATTCTCCATCAATACCTCCTAAA
1 ATAAAGAGTTTCTAACATTTTCCACAAGGCAGATGAGGTATTCTCCATCAATACCTCCTAAA
*
28224040 ATAAAGAGTTTCTAACATTTTCCACAAGGCAGATGAGGTATTCTCCATCAATACTTCCTAAA
1 ATAAAGAGTTTCTAACATTTTCCACAAGGCAGATGAGGTATTCTCCATCAATACCTCCTAAA
28224102 ATA
1 ATA
28224105 CCGTATCCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (62 bp):
ATAAAGAGTTTCTAACATTTTCCACAAGGCAGATGAGGTATTCTCCATCAATACCTCCTAAA
Found at i:28224701 original size:24 final size:24
Alignment explanation
Indices: 28224673--28224724 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
28224663 TTAGTAAGTC
* *
28224673 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
28224697 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
28224721 AAAT
1 AAAT
28224725 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:28227326 original size:126 final size:126
Alignment explanation
Indices: 28227101--28227573 Score: 700
Period size: 126 Copynumber: 3.8 Consensus size: 126
28227091 CGAGTTGACT
* * * *
28227101 TTTCTG-GTCAAATAATATAAAATCGCTTCTACCAGGATGCTATTTGAAAAGAAATTGTGAAATC
1 TTTCTGAG-CAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATC
*
28227165 GCACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATG
65 GCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATG
** * *
28227227 TTTCTGAGCAAATAGTATAAAATCGTTTCTACGAGAATGCTACTTGAGAAGAAATTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATCG
* * * * * * *
28227292 CGCCATCATGGATGCGATTCTGCTATAGTAGGTCATGTAAGAAATGA-TTTTTTTCTAATG
66 CGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATG
* * * *
28227352 TTTCTGAGCAAATAGTATAAAATTATTTCTACGAGAATGCTATTTAAGAAGAAATTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATCG
* *
28227417 CGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTGT-TGACG
66 CGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT-TCTGATG
*
28227478 TTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATCG
28227543 CGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 CGCCCTCGTGGACGCGATTTTGCTACAGTAG
28227574 CAAGTTTGGG
Statistics
Matches: 313, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
125 115 0.37
126 196 0.63
127 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (126 bp):
TTTCTGAGCAAATAGTATAAAATCACTTCTACCAGAATGCTATTTGAGAAGAAATTGTGAAATCG
CGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATG
Found at i:28230703 original size:10 final size:10
Alignment explanation
Indices: 28230688--28230712 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
28230678 CAAATCTAAC
28230688 ATTATGTAAA
1 ATTATGTAAA
28230698 ATTATGTAAA
1 ATTATGTAAA
28230708 ATTAT
1 ATTAT
28230713 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:28230794 original size:56 final size:56
Alignment explanation
Indices: 28230704--28231032 Score: 474
Period size: 55 Copynumber: 5.9 Consensus size: 56
28230694 TAAAATTATG
28230704 TAAAATTATTAAG-CCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
**
28230761 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
28230816 TAAAATTATTAAGT-CAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* * **
28230871 TAAAATTATTAAGTCCAGAAATTGTGTTAATAGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
28230926 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
*
28230981 TAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
28231033 TAAGTTAGGT
Statistics
Matches: 242, Mismatches: 21, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
54 53 0.22
55 87 0.36
56 87 0.36
57 13 0.05
58 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (56 bp):
TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:28230859 original size:110 final size:110
Alignment explanation
Indices: 28230695--28231031 Score: 584
Period size: 110 Copynumber: 3.0 Consensus size: 110
28230685 AACATTATGT
* *
28230695 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAA-TATGTAAAATTATTAAGCC--AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
28230760 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
63 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
28230808 AAAATATGTAAAATTATTAAGTCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
* *
28230873 AAATTATTAAGTCCAGAAATTGTGTTAATAGTTAGTAAAATTATC
66 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
28230918 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
*
28230983 AAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAA-TTATC
28231029 AAA
1 AAA
28231032 TTAAGTTAGG
Statistics
Matches: 214, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
110 184 0.86
111 8 0.04
112 18 0.08
113 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (110 bp):
AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:28231069 original size:29 final size:29
Alignment explanation
Indices: 28231030--28231171 Score: 221
Period size: 29 Copynumber: 4.9 Consensus size: 29
28231020 AAATTTATCA
28231030 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
28231059 AGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
28231088 AATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
28231117 AATTAATTTATGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
28231146 AGTTAATTTAGGTTAGGGTTAGGGTT
1 AATTAAGTTAGGTTAGGGTTAGGGTT
28231172 AGGGTTAGGG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 107 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (29 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:28231093 original size:58 final size:58
Alignment explanation
Indices: 28231030--28231626 Score: 581
Period size: 58 Copynumber: 9.9 Consensus size: 58
28231020 AAATTTATCA
*
28231030 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
28231088 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTTAGGGTTTTTAGTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGG--TTT--TT
*
28231150 AATTTAGGTTAGGGTTAGGGTTAGGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGGTTAG
1 AA-TTA----A--GTTA-GGTTAGGGTTAGGGTTTTTAATTAA--T---------TTA-GGTTAG
28231215 GGTTAGGGTTTTT
46 GGTTAGGGTTTTT
* * * *
28231228 AAGTAAGATAGGTTAAGGTTAGGG--TTT--TT-AGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* **
28231281 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAGTTAGGTTAGGTTAGGGTTAGGG-----
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
28231334 --TTAGGTTAGGTTAGAGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
28231390 AGTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGAGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTA--G---G-GTTAGGGTTTTT
* *
28231454 AATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTAGGGTTTTT
1 AATT-A---A-GTTA-GGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* * *
28231518 AGTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGAGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
* *
28231576 AATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTA-GGTTAGG
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGG
28231627 TTAGGTTAGG
Statistics
Matches: 457, Mismatches: 34, Indels: 97
0.78 0.06 0.16
Matches are distributed among these distances:
51 46 0.10
53 40 0.09
54 3 0.01
55 3 0.01
57 8 0.02
58 194 0.42
59 4 0.01
60 4 0.01
62 4 0.01
63 5 0.01
64 30 0.07
65 3 0.01
66 2 0.00
67 1 0.00
68 3 0.01
69 7 0.02
70 70 0.15
71 3 0.01
72 1 0.00
73 1 0.00
77 2 0.00
78 4 0.01
80 3 0.01
81 3 0.01
82 13 0.03
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (58 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTT
Done.