Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 77 of 153
Found at i:24490413 original size:20 final size:21
Alignment explanation
Indices: 24490368--24490464 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 21
24490358 GTTTAGATAA
24490368 AGGCA-CAAATGTGC-AATCAG
1 AGGCACCAAA-GTGCAAATCAG
*
24490388 AAGCACCAAAGTGCAAAT-AG
1 AGGCACCAAAGTGCAAATCAG
** *
24490408 AGGCACCGTAGTCCAAAT-AG
1 AGGCACCAAAGTGCAAATCAG
*** *
24490428 AGGCATTGATGTGC-AATCAG
1 AGGCACCAAAGTGCAAATCAG
*
24490448 AGGCACTAAAGTGCAAA
1 AGGCACCAAAGTGCAAA
24490465 CTCATACAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.05
20 48 0.80
21 9 0.15
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (21 bp):
AGGCACCAAAGTGCAAATCAG
Found at i:24491544 original size:20 final size:19
Alignment explanation
Indices: 24491521--24491563 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
24491511 TAAAAATTAT
24491521 TTTAACATAAACACAATTTA
1 TTTAACA-AAACACAATTTA
24491541 TTT---AAAACACAATTTA
1 TTTAACAAAACACAATTTA
24491557 TTTAACA
1 TTTAACA
24491564 CAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
16 15 0.75
17 1 0.05
19 1 0.05
20 3 0.15
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAACAAAACACAATTTA
Found at i:24491548 original size:16 final size:16
Alignment explanation
Indices: 24491529--24491561 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24491519 ATTTTAACAT
24491529 AAACACAATTTATTTA
1 AAACACAATTTATTTA
24491545 AAACACAATTTATTTA
1 AAACACAATTTATTTA
24491561 A
1 A
24491562 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
AAACACAATTTATTTA
Found at i:24491565 original size:14 final size:15
Alignment explanation
Indices: 24491528--24491566 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
24491518 TATTTTAACA
24491528 TAAACACAATTTATT
1 TAAACACAATTTATT
24491543 TAAAACACAATTTATT
1 T-AAACACAATTTATT
24491559 T-AACACAA
1 TAAACACAA
24491567 AAAATTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 1 0.04
16 15 0.65
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAACACAATTTATT
Found at i:24496472 original size:18 final size:18
Alignment explanation
Indices: 24496449--24496484 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24496439 TTAGAATGCT
24496449 ATTTTGCTATCAATATTA
1 ATTTTGCTATCAATATTA
*
24496467 ATTTTGGTATCAATATTA
1 ATTTTGCTATCAATATTA
24496485 GATGCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (18 bp):
ATTTTGCTATCAATATTA
Found at i:24498332 original size:76 final size:76
Alignment explanation
Indices: 24498206--24498358 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
24498196 TCACACCGTT
*
24498206 TGCTTAATCTTTTCAAGTAACCCTCAGACTTAAGATTTGGTGGTGCTCGGGAGCTCAGACTAGTT
1 TGCTTAATCTTTTCAAGTAACCCTCAGACTTAAGATTTGGTGGTGCTCGGGAGCTCAGACTAGAT
24498271 ATTTCAACTAA
66 ATTTCAACTAA
24498282 TGCTTAATCTTTTCAAGTAACCCTCAGACTTAAGATTTGGTGGTGCTCGGGAGCTCAGACTAGAT
1 TGCTTAATCTTTTCAAGTAACCCTCAGACTTAAGATTTGGTGGTGCTCGGGAGCTCAGACTAGAT
24498347 ATTTCAACTAA
66 ATTTCAACTAA
24498358 T
1 T
24498359 ATTGATTTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (76 bp):
TGCTTAATCTTTTCAAGTAACCCTCAGACTTAAGATTTGGTGGTGCTCGGGAGCTCAGACTAGAT
ATTTCAACTAA
Found at i:24500166 original size:79 final size:79
Alignment explanation
Indices: 24500035--24500193 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
24500025 GTCTGCAATG
24500035 ATAGGTTCTAATCTCAAAGATCTTTCGTTTCATTAAAATCCTGTAGAGAAATACACACATGATTA
1 ATAGGTTCTAATCTCAAAGATCTTTCGTTTCATTAAAATCCTGTAGAGAAATACACACATGATTA
24500100 GTTACTTCGGAATC
66 GTTACTTCGGAATC
*
24500114 ATAGGTTCTTATCTCAAAGATCTTTCGTTTCATTAAAATCCTGTAGAGAAATACACACATGATTA
1 ATAGGTTCTAATCTCAAAGATCTTTCGTTTCATTAAAATCCTGTAGAGAAATACACACATGATTA
24500179 GTTACTTCGGAATC
66 GTTACTTCGGAATC
24500193 A
1 A
24500194 ATAACCTAGA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (79 bp):
ATAGGTTCTAATCTCAAAGATCTTTCGTTTCATTAAAATCCTGTAGAGAAATACACACATGATTA
GTTACTTCGGAATC
Found at i:24501747 original size:28 final size:29
Alignment explanation
Indices: 24501691--24501747 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
24501681 GTCCTGACAC
**
24501691 AACTCACTGACTTGATCTCGTCATGATGT
1 AACTCACTGACTTGATCTCGTCACAATGT
24501720 AACTCACTG-CTTGATCTCGTCACAATGT
1 AACTCACTGACTTGATCTCGTCACAATGT
24501748 TGAGATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (29 bp):
AACTCACTGACTTGATCTCGTCACAATGT
Found at i:24503330 original size:204 final size:204
Alignment explanation
Indices: 24502975--24503382 Score: 726
Period size: 204 Copynumber: 2.0 Consensus size: 204
24502965 TAGATGCTAG
* * *
24502975 ATCCTGATATAACCTGTAATAATCTTCGTACAACCACATATCTCATATAAGCGCACATATAACCT
1 ATCCCGATATAACATGTAATAATCTTCGTACAACCACATATCTCATATAAGCGCACATATAACCC
* *
24503040 TATTAGCATGTCAATTGTATTCTAACCTTTTACTAAGTTCATATGGGCATAAATATTCATATTTT
66 TATTAGCATGTCAATCGTATCCTAACCTTTTACTAAGTTCATATGGGCATAAATATTCATATTTT
*
24503105 CTTTATCATACTTGTAACTACTCTTGTTCGCATATCCATATCCTATAATCATTTACATTTATTTG
131 CTTTATCATACTTATAACTACTCTTGTTCGCATATCCATATCCTATAATCATTTACATTTATTTG
24503170 TCATACCCT
196 TCATACCCT
* *
24503179 ATCCCGATATAACATGTAATAATCTTCGTGCAATCACATATCTCATATAAGCGCACATATAACCC
1 ATCCCGATATAACATGTAATAATCTTCGTACAACCACATATCTCATATAAGCGCACATATAACCC
*
24503244 TATTAGCATGTCAATCGTATCCTAACCTTTTACTAAGTTCATATGGGCATAAATATTTATATTTT
66 TATTAGCATGTCAATCGTATCCTAACCTTTTACTAAGTTCATATGGGCATAAATATTCATATTTT
*
24503309 CTTTATCATACTTATAACTACTCTTGTTTGCATATCCATATCCTATAATCATTTACATTTATTTG
131 CTTTATCATACTTATAACTACTCTTGTTCGCATATCCATATCCTATAATCATTTACATTTATTTG
24503374 TCATACCCT
196 TCATACCCT
24503383 GTGTTCGGTC
Statistics
Matches: 194, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
204 194 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (204 bp):
ATCCCGATATAACATGTAATAATCTTCGTACAACCACATATCTCATATAAGCGCACATATAACCC
TATTAGCATGTCAATCGTATCCTAACCTTTTACTAAGTTCATATGGGCATAAATATTCATATTTT
CTTTATCATACTTATAACTACTCTTGTTCGCATATCCATATCCTATAATCATTTACATTTATTTG
TCATACCCT
Found at i:24503428 original size:5 final size:5
Alignment explanation
Indices: 24503420--24503448 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
24503410 TTCATTTTAG
24503420 TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
24503449 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCAA
Found at i:24504120 original size:22 final size:21
Alignment explanation
Indices: 24504086--24504132 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
24504076 TTAGTCCTTT
*
24504086 TCAAAATCTAAGCTTAATATCTA
1 TCAAAATCTAAGCCTAAT-TC-A
*
24504109 TCAAATTC-AAGCCTAATTCA
1 TCAAAATCTAAGCCTAATTCA
24504129 TCAA
1 TCAA
24504133 TTTATCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 8 0.36
23 7 0.32
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (21 bp):
TCAAAATCTAAGCCTAATTCA
Found at i:24511014 original size:21 final size:22
Alignment explanation
Indices: 24510989--24511029 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24510979 TTTTAAAAAA
*
24510989 TAATTATTTTA-GTTTTTTATT
1 TAATTATTTTATCTTTTTTATT
24511010 TAATTATTTTATCTTTTTTA
1 TAATTATTTTATCTTTTTTA
24511030 ATCCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TAATTATTTTATCTTTTTTATT
Found at i:24511159 original size:18 final size:18
Alignment explanation
Indices: 24511133--24511185 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
24511123 AAATGACACA
* *
24511133 TTAACATTTAATTATTTT
1 TTAAAATTTAATAATTTT
24511151 TTAAAATTT-ATAATTTT
1 TTAAAATTTAATAATTTT
* *
24511168 ATAAATTTTAATAATTTT
1 TTAAAATTTAATAATTTT
24511186 AATGATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAAAATTTAATAATTTT
Found at i:24511172 original size:17 final size:18
Alignment explanation
Indices: 24511138--24511186 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
24511128 ACACATTAAC
* *
24511138 ATTTAATTATTTTTTAAA
1 ATTTAATAATTTTATAAA
24511156 ATTT-ATAATTTTATAAA
1 ATTTAATAATTTTATAAA
*
24511173 TTTTAATAATTTTA
1 ATTTAATAATTTTA
24511187 ATGATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTAATAATTTTATAAA
Found at i:24511179 original size:15 final size:15
Alignment explanation
Indices: 24511149--24511206 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
24511139 TTTAATTATT
24511149 TTTTAAAATTTATAA
1 TTTTAAAATTTATAA
24511164 TTTTATAAATTTTAATAA
1 TTTTA-AAA-TTT-ATAA
* *
24511182 TTTTAATGATTTTAAAA
1 TTTTAA--AATTTATAA
24511199 TTTTAAAA
1 TTTTAAAA
24511207 ATAGTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.17
16 3 0.09
17 13 0.37
18 12 0.34
19 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
TTTTAAAATTTATAA
Found at i:24511204 original size:8 final size:8
Alignment explanation
Indices: 24511149--24511206 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 8
24511139 TTTAATTATT
24511149 TTTTAAAA
1 TTTTAAAA
*
24511157 -TTTATAA
1 TTTTAAAA
24511164 TTTTATAAA
1 TTTTA-AAA
24511173 TTTTAATAA
1 TTTTAA-AA
*
24511182 TTTTAATGA
1 TTTTAA-AA
24511191 TTTTAAAA
1 TTTTAAAA
24511199 TTTTAAAA
1 TTTTAAAA
24511207 ATAGTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
7 6 0.14
8 14 0.33
9 23 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:24511654 original size:20 final size:20
Alignment explanation
Indices: 24511631--24511680 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24511621 AAATCCAAAT
24511631 TAAAATACTAAAATTCA-TAA
1 TAAAATACTAAAATTCAGT-A
* *
24511651 TAAAATCCTGAAATTCAGTA
1 TAAAATACTAAAATTCAGTA
24511671 TAATAATACT
1 TAA-AATACT
24511681 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGTA
Found at i:24511952 original size:21 final size:22
Alignment explanation
Indices: 24511928--24511972 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
24511918 TCTCTTTATT
* *
24511928 TTAAAAATTTATTAA-ATTAAA
1 TTAAAAATTAATGAATATTAAA
24511949 TT-AAAATTAATGAATATTAAA
1 TTAAAAATTAATGAATATTAAA
24511970 TTA
1 TTA
24511973 TTAATCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATTAATGAATATTAAA
Found at i:24513585 original size:13 final size:13
Alignment explanation
Indices: 24513567--24513591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24513557 TATTATATAT
24513567 TCAATTAAATTAA
1 TCAATTAAATTAA
24513580 TCAATTAAATTA
1 TCAATTAAATTA
24513592 GCTAAATTAA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TCAATTAAATTAA
Found at i:24519159 original size:3 final size:3
Alignment explanation
Indices: 24519151--24519175 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24519141 GATCCTTTAA
24519151 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
24519176 TTTCAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:24519298 original size:22 final size:22
Alignment explanation
Indices: 24519248--24519298 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24519238 GATGCTTACA
* *
24519248 AATTATTTAAATTCGACTTGAT
1 AATTATTTAAACTCGACTTCAT
*
24519270 AAATATTTAAACTCGA-TTCAGT
1 AATTATTTAAACTCGACTTCA-T
24519292 AATTATT
1 AATTATT
24519299 AAGTCAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (22 bp):
AATTATTTAAACTCGACTTCAT
Found at i:24519414 original size:17 final size:16
Alignment explanation
Indices: 24519378--24519417 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
24519368 TATTTTTATG
24519378 TTATTAAATTACATTA
1 TTATTAAATTACATTA
24519394 TTATTAATATATACA-TA
1 TTATTAA-AT-TACATTA
24519411 TTATTAA
1 TTATTAA
24519418 CCTGAAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTAAATTACATTA
Found at i:24523870 original size:25 final size:25
Alignment explanation
Indices: 24523797--24523872 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
24523787 TTCCAAGCCA
* **
24523797 AATAACAAAAAGCTCATGTGAGCTT
1 AATAACAAGAAGCTCATAAGAGCTT
* *
24523822 -GTAACAAGAAGCTTTC-TCAG-GCTT
1 AATAACAAGAAGC--TCATAAGAGCTT
24523846 AATAACAAGAAGCTCATAAGAGCTT
1 AATAACAAGAAGCTCATAAGAGCTT
24523871 AA
1 AA
24523873 ATTAGAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.05
24 17 0.43
25 19 0.47
26 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (25 bp):
AATAACAAGAAGCTCATAAGAGCTT
Found at i:24528427 original size:28 final size:29
Alignment explanation
Indices: 24528376--24528433 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
24528366 TCCCCTTCCC
24528376 ACAAATGTTCCCCCTTTTGAAAAAACTAA
1 ACAAATGTTCCCCCTTTTGAAAAAACTAA
*
24528405 ACAAATGTTCCCCTTTTTGAAAAAACTAA
1 ACAAATGTTCCCCCTTTTGAAAAAACTAA
24528434 CTTTTGGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (29 bp):
ACAAATGTTCCCCCTTTTGAAAAAACTAA
Found at i:24529785 original size:17 final size:17
Alignment explanation
Indices: 24529763--24529798 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24529753 GAAACAAAAG
24529763 TATGAACCAATCTTAAA
1 TATGAACCAATCTTAAA
24529780 TATGAACCAATCTTAAA
1 TATGAACCAATCTTAAA
24529797 TA
1 TA
24529799 AGTTACAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
TATGAACCAATCTTAAA
Found at i:24533186 original size:3 final size:3
Alignment explanation
Indices: 24533154--24533225 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
24533144 CTTTTTTAGT
* * *
24533154 TTA TT- TTA TTA ATA TTG TTA TTGCA TTA TTA TTA TTA TTA TTA CTAA
1 TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA TTA TTA -TTA
*
24533201 TTA TTA CTA -TA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA T
24533226 ACTTGCATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.07
3 44 0.79
4 5 0.09
5 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:24538185 original size:32 final size:30
Alignment explanation
Indices: 24538141--24538208 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 30
24538131 AAAATCTGAA
24538141 AAAAAAAACAAAATAAAAAAATAAAAAATCAG
1 AAAAAAAACAAAATAAAAAAAT-AAAAATC-G
* *
24538173 AAAAAAATCAAAATAAAAAAATCAAAATCG
1 AAAAAAAACAAAATAAAAAAATAAAAATCG
24538203 AAAAAA
1 AAAAAA
24538209 TAAAAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 7 0.21
31 6 0.18
32 21 0.62
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.10
Consensus pattern (30 bp):
AAAAAAAACAAAATAAAAAAATAAAAATCG
Found at i:24538206 original size:14 final size:14
Alignment explanation
Indices: 24538141--24538215 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 14
24538131 AAAATCTGAA
*
24538141 AAAAAAAACAAAAT
1 AAAAAAATCAAAAT
*
24538155 AAAAAAATAAAAAAT
1 AAAAAAAT-CAAAAT
24538170 CAGAAAAAAATCAAAAT
1 ---AAAAAAATCAAAAT
24538187 AAAAAAATCAAAAT
1 AAAAAAATCAAAAT
* *
24538201 CGAAAAAATAAAAAT
1 -AAAAAAATCAAAAT
24538216 GATGAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
14 21 0.41
15 17 0.33
17 5 0.10
18 8 0.16
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAATCAAAAT
Found at i:24538366 original size:70 final size:70
Alignment explanation
Indices: 24538285--24538420 Score: 202
Period size: 70 Copynumber: 1.9 Consensus size: 70
24538275 GACCAAATGT
** *
24538285 GGATTGGAGTTGAAAACCCAAAAAGGGCGGCTCAAATATT-GATCAAAATGGGGTATGAGGTGAT
1 GGATTGGAGTTGAAAACCC-AAAAGGGCAACTCAAATATTGGATCAAAATGGGGCATGAGGTGAT
24538349 CAAAGG
65 CAAAGG
* * *
24538355 GGATTTGAGTTGAAAACCCGAAAGGGCAACTCAAATTTTGGATCAAAATGGGGCATGAGGTGATC
1 GGATTGGAGTTGAAAACCCAAAAGGGCAACTCAAATATTGGATCAAAATGGGGCATGAGGTGATC
24538420 A
66 A
24538421 GAGCAGCTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 16 0.27
70 43 0.73
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.21
Consensus pattern (70 bp):
GGATTGGAGTTGAAAACCCAAAAGGGCAACTCAAATATTGGATCAAAATGGGGCATGAGGTGATC
AAAGG
Found at i:24538948 original size:23 final size:23
Alignment explanation
Indices: 24538922--24538967 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24538912 AAATCTAATA
24538922 AGAAAGAGTCTAAATTAAGACTT
1 AGAAAGAGTCTAAATTAAGACTT
24538945 AGAAAGAGTCTAAATTAAGACTT
1 AGAAAGAGTCTAAATTAAGACTT
24538968 TCTCTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (23 bp):
AGAAAGAGTCTAAATTAAGACTT
Found at i:24539732 original size:89 final size:89
Alignment explanation
Indices: 24539570--24539732 Score: 202
Period size: 89 Copynumber: 1.8 Consensus size: 89
24539560 AGAACAGAGT
* * *
24539570 AGATTGAAAATAGCAAATCTTGCCTTCCTGTACTGGTAGCGAAGCAAGTCGAAGACATTAACCTT
1 AGATTGAAAATAGCAAATCTTGCCTTCCTGTACTGGCAGCGAAACAAGTCGAAGACACTAACCTT
* *
24539635 GCCTCCATGGGTTTGCAGCGGAGC
66 ACCGCCATGGGTTTGCAGCGGAGC
* * * * **
24539659 AGATTGAAGATGGCAGATCTTGCCTTCCTGTACTGGCAGCGAAAC-AGATTGAAGACACTAGTCT
1 AGATTGAAAATAGCAAATCTTGCCTTCCTGTACTGGCAGCGAAACAAG-TCGAAGACACTAACCT
*
24539723 TATCGCCATG
65 TACCGCCATG
24539733 ACGTTGCAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
88 2 0.03
89 59 0.97
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (89 bp):
AGATTGAAAATAGCAAATCTTGCCTTCCTGTACTGGCAGCGAAACAAGTCGAAGACACTAACCTT
ACCGCCATGGGTTTGCAGCGGAGC
Found at i:24540016 original size:50 final size:49
Alignment explanation
Indices: 24539962--24540434 Score: 234
Period size: 50 Copynumber: 9.5 Consensus size: 49
24539952 GTAGAGGAAC
* * *
24539962 AGATTGAAATCACGACGGCGGATCTGATTTCCCCAACATTGCAGTTAAAA
1 AGATTG-AAGCACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * * * * ** *
24540012 AGATTGAAGCCACAACGACGGATCTTACTTCTCTGGCGGTGCAG-TAGAAC
1 AGATTGAAG-CACAACGGCGGATCTGATTTCCCCGACATTGCAGTTA-AAA
* * *
24540062 AGATTGAAGCTACGACGGCGGATCTTG-TTTCCCCGACATTACAATTAAAA
1 AGATTGAAGC-ACAACGGCGGATC-TGATTTCCCCGACATTGCAGTTAAAA
* * * * * ** ** *
24540112 ATATTGAAGCATAACGGCGGATCTTATTTCCCTGGCGGTGCAGTGGAAT
1 AGATTGAAGCACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * *
24540161 AGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGC-ACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * * ** ** **
24540211 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAG-CACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * * * * *
24540261 AGATTGAAGCTACGATGGTGGATCTGGTTTCCTCGACATTGTAATT-AAA
1 AGATTGAAGC-ACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * * * * **** ** **
24540310 AGATTGAAGCCACAACGTCAGATCTTACTTCTCTGGTGGTGCAGTGGAGC
1 AGATTGAAG-CACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
* * * *
24540360 AGATTGAAGCTACGACGGTGGATCT-AGTTTCCCCGACATTACAATTAAAA
1 AGATTGAAGC-ACAACGGCGGATCTGA-TTTCCCCGACATTGCAGTTAAAA
24540410 AGATTGAAGCCACAACGGCGGATCT
1 AGATTGAAG-CACAACGGCGGATCT
24540435 TACTTCCTTA
Statistics
Matches: 289, Mismatches: 120, Indels: 28
0.66 0.27 0.06
Matches are distributed among these distances:
48 1 0.00
49 69 0.24
50 214 0.74
51 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (49 bp):
AGATTGAAGCACAACGGCGGATCTGATTTCCCCGACATTGCAGTTAAAA
Found at i:24540266 original size:199 final size:199
Alignment explanation
Indices: 24539909--24540468 Score: 737
Period size: 199 Copynumber: 2.8 Consensus size: 199
24539899 ATTACAGTGG
* * * * * * * *
24539909 AAAAGATTGAAACGACAACGGCGAATCATACTTCCCTAGCGGTGTAGAGGAACAGATTGAA-ATC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT-
* * * *
24539973 ACGACGGCGGATCTGATTTCCCCAACATTGCAGTTAAAAAGATTGAAGCCACAACGACGGATCTT
65 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTT
* * *
24540038 ACTTCTCTGGCGGTGCAGTAGAACAGATTGAAGCTACGACGGCGGATCTTGTTTCCCCGACATTA
130 ACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTA
24540103 CAATT
195 CAATT
* * * *
24540108 AAAAATATTGAAG-CATAACGGCGGATCTTATTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCT
1 -AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
*
24540172 ACGACGGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTT
65 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTT
* * * * *
24540237 ACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGCTACGATGGTGGATCTGGTTTCCTCGACATTG
130 ACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTA
*
24540302 TAATT
195 CAATT
* * * * *
24540307 AAAAGATTGAAGCCACAACGTCAGATCTTACTTCTCTGGTGGTGCAGTGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * *
24540372 CGACGGTGGATCTAGTTTCCCCGACATTACAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA
66 CGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA
* * * * *
24540437 CTTCCTTAGCGGTGTAGTGAAATAGATTGAAG
131 CTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
24540469 TCATGACGGC
Statistics
Matches: 313, Mismatches: 45, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
198 11 0.04
199 291 0.93
200 11 0.04
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (199 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
CGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA
CTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTAC
AATT
Found at i:24540477 original size:100 final size:100
Alignment explanation
Indices: 24539909--24540468 Score: 739
Period size: 100 Copynumber: 5.6 Consensus size: 100
24539899 ATTACAGTGG
* * * * * * * *
24539909 AAAAGATTGAAACGACAACGGCGAATCATACTTCCCTAGCGGTGTAGAGGAACAGATTGAA-ATC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT-
* * *
24539973 ACGACGGCGGATCTGATTTCCCCAACATTGCAGTTA
65 ACGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
* * *
24540009 AAAAGATTGAAGCCACAACGACGGATCTTACTTCTCTGGCGGTGCAGTAGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* *
24540074 CGACGGCGGATCTTGTTTCCCCGACATTACAATTA
66 CGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
* * * *
24540109 AAAATATTGAAG-CATAACGGCGGATCTTATTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
*
24540173 CGACGGCAGATCTGGTTTCCCCGACATTGCAATTA
66 CGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
*
24540208 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * * *
24540273 CGATGGTGGATCTGGTTTCCTCGACATTGTAATT-
66 CGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
* * * * *
24540307 AAAAGATTGAAGCCACAACGTCAGATCTTACTTCTCTGGTGGTGCAGTGGAGCAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * *
24540372 CGACGGTGGATCTAGTTTCCCCGACATTACAATTA
66 CGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
* * * * *
24540407 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGTAGTGAAATAGATTGAAG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
24540469 TCATGACGGC
Statistics
Matches: 402, Mismatches: 55, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
99 179 0.45
100 222 0.55
101 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
CGACGGCGGATCTGGTTTCCCCGACATTGCAATTA
Found at i:24545322 original size:17 final size:18
Alignment explanation
Indices: 24545300--24545334 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24545290 AGAATAGTAT
*
24545300 ATTAATCTAATT-TTAAA
1 ATTAATCAAATTATTAAA
24545317 ATTAATCAAATTATTAAA
1 ATTAATCAAATTATTAAA
24545335 TAAAAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAATCAAATTATTAAA
Found at i:24551485 original size:52 final size:52
Alignment explanation
Indices: 24551407--24551510 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
24551397 AAGATGCCGC
24551407 TATCAAGTATCAACCAGAACTTTATACATTAAAGAAAATTTCTAATCCAACT
1 TATCAAGTATCAACCAGAACTTTATACATTAAAGAAAATTTCTAATCCAACT
24551459 TATCAAGTATCAACCAGAACTTTATACATTAAAGAAAATTTCTAATCCAACT
1 TATCAAGTATCAACCAGAACTTTATACATTAAAGAAAATTTCTAATCCAACT
24551511 CTATGACATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (52 bp):
TATCAAGTATCAACCAGAACTTTATACATTAAAGAAAATTTCTAATCCAACT
Found at i:24552407 original size:19 final size:19
Alignment explanation
Indices: 24552383--24552420 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24552373 ACACCATCCC
24552383 CCCCCCCCGGTTCTCAATT
1 CCCCCCCCGGTTCTCAATT
*
24552402 CCCCCCCGGGTTCTCAATT
1 CCCCCCCCGGTTCTCAATT
24552421 GTTTTCCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.50, G:0.13, T:0.26
Consensus pattern (19 bp):
CCCCCCCCGGTTCTCAATT
Found at i:24568317 original size:23 final size:23
Alignment explanation
Indices: 24568289--24568382 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
24568279 ATGTGTGTAT
* *
24568289 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
24568312 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
24568335 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
24568358 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
24568381 CT
1 CT
24568383 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:24593650 original size:23 final size:24
Alignment explanation
Indices: 24593626--24593699 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
24593616 AATAGAGATG
24593626 TTAAAGTGCTGCAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGT
* *
24593650 TTAAA-TGTTGTAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGT
* * *
24593673 TTTAAGTACTGCAAATTGAATTGT
1 TTAAAGTGCTGCAAATTGAAGTGT
24593697 TTA
1 TTA
24593700 GTTGCTGGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (24 bp):
TTAAAGTGCTGCAAATTGAAGTGT
Found at i:24593721 original size:47 final size:47
Alignment explanation
Indices: 24593620--24593722 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 47
24593610 GTTGTTAATA
* * * *
24593620 GAGATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATT
1 GAGATGTTTAAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAACT
* * **
24593666 GA-AGTGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGGAAACT
1 GAGA-TGTTTAAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAACT
24593713 GAGATGTTTA
1 GAGATGTTTA
24593723 TCGTTGTAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
45 1 0.02
46 4 0.09
47 39 0.87
48 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (47 bp):
GAGATGTTTAAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAACT
Found at i:24593787 original size:137 final size:138
Alignment explanation
Indices: 24593535--24593811 Score: 414
Period size: 137 Copynumber: 2.0 Consensus size: 138
24593525 TAAAGCCCTA
* * * *
24593535 TTTAAGTATTGCAATTTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTATTGTTGTAATTAAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAACTGAGATGTTTTATCGTTGTAATTAAG
* *
24593600 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAAT
66 GTGTATAAATGGTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
24593665 TGAAGTGT
131 TGAAGTGT
* * *
24593673 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGGAAACTGAGATG-TTTATCGTTGTAATTGAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAACTGAGATGTTTTATCGTTGTAATTAAG
* * * *
24593737 GTGTATAAATGGTGTTAATTAG-GATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTGTAAA
66 GTGTATAAATGGTGTTAA-TAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAA
24593801 TTGAAGTGT
130 TTGAAGTGT
24593810 TT
1 TT
24593812 AATTGCTATA
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 81 0.65
138 44 0.35
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.42
Consensus pattern (138 bp):
TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAACTGAGATGTTTTATCGTTGTAATTAAG
GTGTATAAATGGTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
TGAAGTGT
Found at i:24593828 original size:46 final size:47
Alignment explanation
Indices: 24593550--24593848 Score: 177
Period size: 46 Copynumber: 6.5 Consensus size: 47
24593540 GTATTGCAAT
* ** * * * *
24593550 TTGAAGTGTTTAGTTGCTGAAAATTG-AGATGTTTTATTGTTGT-AA
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGTGCTGTAAA
* * * * * * *
24593595 TTAAGGTGTATAAATGTTGTTAATAG-AGATGTTAAAGTGCTGCAAA
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGTGCTGTAAA
* * * *
24593641 TTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTTTTAAGTACTGCAAA
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATG-TTTAAGTGCTGTAAA
** ** * * *
24593688 TTGAATTGTTTAGTTGCTGGAAACTG-AGATGTTT-A-TCGTTGT-AA
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGT-GCTGTAAA
* * * * * * *
24593732 TTGAGGTGTATAAATGGTGTTAATT-AGGATGTTAAAGTGTTGTAAG
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGTGCTGTAAA
* *
24593778 TTGAGGTGTTTAAATGCTGTAAATTGAAG-TGTTTAATTGCTATAAA
1 TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGTGCTGTAAA
* * *
24593824 TTGAGGTGCTCAAATGATGTAAATT
1 TTGAGGTGTTTAAATGCTGTAAATT
24593849 CGGAATATTC
Statistics
Matches: 190, Mismatches: 54, Indels: 19
0.72 0.21 0.07
Matches are distributed among these distances:
44 25 0.13
45 38 0.20
46 88 0.46
47 39 0.21
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (47 bp):
TTGAGGTGTTTAAATGCTGTAAATTGAAGATGTTTAAGTGCTGTAAA
Found at i:24593846 original size:23 final size:23
Alignment explanation
Indices: 24593550--24593848 Score: 144
Period size: 23 Copynumber: 13.1 Consensus size: 23
24593540 GTATTGCAAT
* ** *
24593550 TTGAAGTGTTTAGTTGCTGAAAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * * *
24593573 TTGAGATGTTTTATTGTTGT-AA
1 TTGAGGTGTTTAAATGCTGTAAA
* * * *
24593595 TTAAGGTGTATAAATGTTGTTAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * *
24593618 TAGAGATG-TTAAAGTGCTGCAAA
1 TTGAGGTGTTTAAA-TGCTGTAAA
* *
24593641 TTGAAGTGTTTAAATGTTGTAAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * * *
24593664 TTGAAGTGTTTTAAGTACTGCAAA
1 TTGAGGTG-TTTAAATGCTGTAAA
** ** *
24593688 TTGAATTGTTTAGTTGCTGGAAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * *
24593711 CTGAGATGTTT--ATCGTTGT-AA
1 TTGAGGTGTTTAAAT-GCTGTAAA
* * *
24593732 TTGAGGTGTATAAATGGTGTTAA
1 TTGAGGTGTTTAAATGCTGTAAA
* *
24593755 TT-AGGATG-TTAAAGTGTTGTAAG
1 TTGAGG-TGTTTAAA-TGCTGTAAA
24593778 TTGAGGTGTTTAAATGCTGTAAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * *
24593801 TTGAAGTGTTTAATTGCTATAAA
1 TTGAGGTGTTTAAATGCTGTAAA
* * *
24593824 TTGAGGTGCTCAAATGATGTAAA
1 TTGAGGTGTTTAAATGCTGTAAA
24593847 TT
1 TT
24593849 CGGAATATTC
Statistics
Matches: 207, Mismatches: 57, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
21 11 0.05
22 35 0.17
23 130 0.63
24 31 0.15
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
TTGAGGTGTTTAAATGCTGTAAA
Found at i:24594599 original size:12 final size:12
Alignment explanation
Indices: 24594582--24594611 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24594572 ATAATAAAAG
24594582 AAAAAAGTTAAA
1 AAAAAAGTTAAA
*
24594594 AAAAAATTTAAA
1 AAAAAAGTTAAA
24594606 AAAAAA
1 AAAAAA
24594612 CAAGTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAAGTTAAA
Found at i:24601321 original size:38 final size:38
Alignment explanation
Indices: 24601279--24601357 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
24601269 TCCTGGGCAT
24601279 TGTCATGCTTTGCTACAGTTCTTTTGTATGCATGCCTA
1 TGTCATGCTTTGCTACAGTTCTTTTGTATGCATGCCTA
*
24601317 TGTCATGCTTTGTTACAGTTCTTTTGTATGCATGCCTA
1 TGTCATGCTTTGCTACAGTTCTTTTGTATGCATGCCTA
24601355 TGT
1 TGT
24601358 GTTTATAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (38 bp):
TGTCATGCTTTGCTACAGTTCTTTTGTATGCATGCCTA
Found at i:24603069 original size:45 final size:45
Alignment explanation
Indices: 24602963--24603053 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
24602953 TTGCAGGCTC
*
24602963 TCTTTCCATTTTGAGACCATTTTTGCTACACAGTCAATAATTTGG
1 TCTTTCCCTTTTGAGACCATTTTTGCTACACAGTCAATAATTTGG
24603008 TCTTTCCCTTTTGAGACCATTTTTGCTACACAGTCAATAATTTGG
1 TCTTTCCCTTTTGAGACCATTTTTGCTACACAGTCAATAATTTGG
24603053 T
1 T
24603054 TATCTTCCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (45 bp):
TCTTTCCCTTTTGAGACCATTTTTGCTACACAGTCAATAATTTGG
Found at i:24603857 original size:31 final size:31
Alignment explanation
Indices: 24603798--24603870 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
24603788 GAAAATAAAA
* * *
24603798 ATTTTCATTTTAGGTATTGCGGTCAAAAACT
1 ATTTTCATTTTAAGCACTGCGGTCAAAAACT
* * *
24603829 ATTTTCATTTTAAGCACTGCTGTTAAAAATT
1 ATTTTCATTTTAAGCACTGCGGTCAAAAACT
24603860 ATTATT-ATTTT
1 ATT-TTCATTTT
24603871 GATTACCCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (31 bp):
ATTTTCATTTTAAGCACTGCGGTCAAAAACT
Found at i:24604140 original size:42 final size:42
Alignment explanation
Indices: 24604081--24604167 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
24604071 AGTGATGAAA
24604081 CTTTTAAAACCCAAGTAGTTCACCGGAAAA-CTCAAATTTTCC
1 CTTTTAAAACCCAAGTAGTTCACCGGAAAATC-CAAATTTTCC
*
24604123 CTTTTAAAACCCAAGTAGTTCACCGGAAAATCCAAGTTTTCC
1 CTTTTAAAACCCAAGTAGTTCACCGGAAAATCCAAATTTTCC
24604165 CTT
1 CTT
24604168 ATTATCAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.30
Consensus pattern (42 bp):
CTTTTAAAACCCAAGTAGTTCACCGGAAAATCCAAATTTTCC
Found at i:24604152 original size:21 final size:21
Alignment explanation
Indices: 24604086--24604159 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
24604076 TGAAACTTTT
24604086 AAAACCCAAGTAGTTCACCGG
1 AAAACCCAAGTAGTTCACCGG
* * * **
24604107 AAAACTCAAAT-TTTC-CCTTTT
1 AAAACCCAAGTAGTTCACC--GG
24604128 AAAACCCAAGTAGTTCACCGG
1 AAAACCCAAGTAGTTCACCGG
*
24604149 AAAATCCAAGT
1 AAAACCCAAGT
24604160 TTTCCCTTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 28 0.74
22 3 0.08
23 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAACCCAAGTAGTTCACCGG
Found at i:24604613 original size:30 final size:30
Alignment explanation
Indices: 24604586--24604653 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
24604576 AGAAGTGATC
24604586 AAAAT-AAAATTTTATTAAAATTGAGTGACT
1 AAAATGAAAA-TTTATTAAAATTGAGTGACT
*
24604616 AAAATGAAAATTTATTAAAGTTGAGTGACT
1 AAAATGAAAATTTATTAAAATTGAGTGACT
24604646 AAAATGAA
1 AAAATGAA
24604654 TGTAAAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.32
Consensus pattern (30 bp):
AAAATGAAAATTTATTAAAATTGAGTGACT
Found at i:24614231 original size:23 final size:23
Alignment explanation
Indices: 24614201--24614249 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24614191 AATTAAAAAG
*
24614201 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
24614224 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
24614247 ATG
1 ATG
24614250 TTGTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:24614339 original size:9 final size:9
Alignment explanation
Indices: 24614327--24614358 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
24614317 ACAAATATTA
24614327 AAAATAAAC
1 AAAATAAAC
24614336 AAAATAAAC
1 AAAATAAAC
24614345 AAAATAAAC
1 AAAATAAAC
24614354 AAAAT
1 AAAAT
24614359 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:24618715 original size:23 final size:23
Alignment explanation
Indices: 24618685--24618733 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24618675 AATTAAAAAG
*
24618685 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
24618708 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
24618731 ATG
1 ATG
24618734 TTGTTTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:24618822 original size:9 final size:9
Alignment explanation
Indices: 24618810--24618841 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
24618800 TACAAATATT
24618810 AAAATAAAC
1 AAAATAAAC
24618819 AAAATAAAC
1 AAAATAAAC
24618828 AAAATAAAC
1 AAAATAAAC
24618837 AAAAT
1 AAAAT
24618842 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:24620144 original size:31 final size:32
Alignment explanation
Indices: 24620083--24620144 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
24620073 AATAATTATT
**
24620083 AAACTATTTGAAAGTTTTCATTCTAAGTCACG
1 AAACTATTCAAAAGTTTTCATTCTAAGTCACG
*
24620115 AAACTATTCAAAAGTTTTTATT-TAAGTCAC
1 AAACTATTCAAAAGTTTTCATTCTAAGTCAC
24620145 TGAATTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (32 bp):
AAACTATTCAAAAGTTTTCATTCTAAGTCACG
Found at i:24634917 original size:77 final size:77
Alignment explanation
Indices: 24634789--24634936 Score: 251
Period size: 77 Copynumber: 1.9 Consensus size: 77
24634779 GATGAGGCAG
24634789 AGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCATCACTCATG
1 AGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCATCACTCATG
24634854 TATAAACCAGAA
66 TATAAACCAGAA
* ** **
24634866 AGGATTCAAATGGATCATTGCTGACAGATTCCACTTGTGAATTTTTTTGAATTTCATCACTCATG
1 AGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCATCACTCATG
24634931 TATAAA
66 TATAAA
24634937 TCAGTACAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (77 bp):
AGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCATCACTCATG
TATAAACCAGAA
Found at i:24635116 original size:287 final size:285
Alignment explanation
Indices: 24634600--24635436 Score: 1165
Period size: 287 Copynumber: 2.9 Consensus size: 285
24634590 GGATGACTGA
* ** * * *
24634600 TGACAGATTCCACTTGTGAAATTTTATGAATTTCATCACTTGTGCATAAATCAGTATAGGGAAAA
1 TGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTAATGTATAAATCAGTACAGGGTAAA
*
24634665 TTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTGTGAGGA
66 TTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTGTGAGGA
24634730 AACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAGAGGATT
131 AACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAGAGGATT
*
24634795 CAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCATCACTCATGTATAAA
196 CAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTCATGTATAAA
*
24634860 CCAG-A-AAGGATTCAAATGGATCATTG-C
261 CCAGTATAAGGA---AAATGG-TCA-GGAC
* *
24634887 TGACAGATTCCACTTGTGAATTTTTTTGAATTTCATCACTCATGTATAAATCAGTACAGGGTAAA
1 TGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTAATGTATAAATCAGTACAGGGTAAA
* * * *
24634952 TTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATATGTTCACTGGCAAAATTCTGCGAGGA
66 TTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTGTGAGGA
24635017 AACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAGAGGATT
131 AACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAGAGGATT
*
24635082 CAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCACCACTCATGTATAAA
196 CAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTCATGTATAAA
* * *
24635147 TCAGTATAGGGAAAATTGTCAGGATC
261 CCAGTATAAGGAAAATGGTCAGGA-C
* * ** ** * * *
24635173 AGA-AGATTTCC-C-TGAG-ATTTGCAACATATGTTCACTGGCA-AAAT-TCT--GTCAGTACAG
1 TGACAGA-TTCCACTTGTGAATTTTTATGA-AT-TTCA-T--CACTAATGTATAAATCAGTACAG
24635230 GGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTG
60 GGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTG
* * *
24635295 TGAGGAAATTGGATCAGGTAAACTTGTGGAGATCCCATTGCTTGCAATGATATTGGATGAGGCAG
125 TGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAG
* * * *
24635360 AGGATTCAAATGGATCATTGATGACAGATTCCCCTTGTGAATTTTTTTGAATTTCATCACTCATG
190 AGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTCATG
*
24635425 TATAAATCAGTA
255 TATAAACCAGTA
24635437 CAGGGTAAAT
Statistics
Matches: 499, Mismatches: 41, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
283 5 0.01
284 210 0.42
285 11 0.02
286 15 0.03
287 251 0.50
288 3 0.01
289 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (285 bp):
TGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTAATGTATAAATCAGTACAGGGTAAA
TTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGCAAAATTCTGTGAGGA
AACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGGATGAGGCAGAGGATT
CAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCATCACTCATGTATAAA
CCAGTATAAGGAAAATGGTCAGGAC
Found at i:24635242 original size:74 final size:74
Alignment explanation
Indices: 24635147--24635295 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
24635137 CATGTATAAA
* *
24635147 TCAGTATAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAACATATGTTCACTGGC
1 TCAGTACAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAACATATGCTCACTGGC
24635212 AAAATTCTG
66 AAAATTCTG
* * * *
24635221 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
1 TCAGTACAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAACATATGCTCACTGGC
24635286 AAAATTCTG
66 AAAATTCTG
24635295 T
1 T
24635296 GAGGAAATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (74 bp):
TCAGTACAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAACATATGCTCACTGGC
AAAATTCTG
Found at i:24635365 original size:284 final size:282
Alignment explanation
Indices: 24634650--24635504 Score: 1213
Period size: 284 Copynumber: 3.0 Consensus size: 282
24634640 TGTGCATAAA
* * *
24634650 TCAGTATAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
1 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
24634715 AAAATTCTGTGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
66 AAAATTCTGTGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
*
24634780 ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTCATGAATTTCA
131 ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCA
* * * * * *
24634845 TCACTCATGTATAAACCAG-AAAGGATTCAAATGGATCA-TTGCTGACAGA-TTCCACTTGTGAA
196 TCACTCATGTATAAATCAGTAAGGGA---AAATTG-TCAGAT-CAGA-AGATTTCC-C-TGAG-A
***** ** * *
24634907 TTTTTTTGA-AT-TTCA-T--CACTCATGTATAAA
252 TTTGCAACATATGTTCACTGGCA-AAAT-TCT--G
* * *
24634937 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATATGTTCACTGGC
1 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
*
24635002 AAAATTCTGCGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
66 AAAATTCTGTGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
24635067 ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCA
131 ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCA
*
24635132 CCACTCATGTATAAATCAGTATAGGGAAAATTGTCAGGATCAGAAGATTTCCCTGAGATTTGCAA
196 TCACTCATGTATAAATCAGTA-AGGGAAAATTGTCA-GATCAGAAGATTTCCCTGAGATTTGCAA
24635197 CATATGTTCACTGGCAAAATTCTG
259 CATATGTTCACTGGCAAAATTCTG
24635221 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
1 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
* * *
24635286 AAAATTCTGTGAGGAAATTGGATCAGGTAAACTTGTGGAGATCCCATTGCTTGCAATGATATTGG
66 AAAATTCTGTGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
* * * *
24635351 ATGAGGCAGAGGATTCAAATGGATCATTGATGACAGATTCCCCTTGTGAATTTTTTTGAATTTCA
131 ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCA
*
24635416 TCACTCATGTATAAATCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAA
196 TCACTCATGTATAAATCAGTA-AGGGAAAATTGTCAG-ATCAGAAGATTTCCCTGAGATTTGCAA
24635481 CATATGTTCACTGGCAAAATTCTG
259 CATATGTTCACTGGCAAAATTCTG
24635505 CGAGGAAACT
Statistics
Matches: 519, Mismatches: 38, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
283 6 0.01
284 273 0.53
285 11 0.02
286 15 0.03
287 207 0.40
288 3 0.01
289 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (282 bp):
TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
AAAATTCTGTGAGGAAACTGGATCAGGTAAACTCGTGGAGATCCCATTGCTTGAAATGATATTGG
ATGAGGCAGAGGATTCAAATGGATCACTAATGACAGATTCCACTTGTGAATTTTTATGAATTTCA
TCACTCATGTATAAATCAGTAAGGGAAAATTGTCAGATCAGAAGATTTCCCTGAGATTTGCAACA
TATGTTCACTGGCAAAATTCTG
Found at i:24635583 original size:210 final size:210
Alignment explanation
Indices: 24635221--24635788 Score: 899
Period size: 210 Copynumber: 2.7 Consensus size: 210
24635211 CAAAATTCTG
*
24635221 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAGCATCTGCTCACTGGC
1 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATCTGCTCACTGGC
* * * * *
24635286 AAAATTCTGTGAGGAAATTGGATCAGGTAAACTTGTGGAGATCCCATTGCTTGCAATGATATTGG
66 AAAATTCTGCGAGGAAACTGGATCAGGTAAACTCGTGGAGATCTCATTGCTTGAAATGATATTGG
* * **
24635351 ATGAGGCAGAGGATTCAAATGGATCATTGATGACAGATTCCCCTTGTGAATTTTTTTGAATTTCA
131 ATGAGGCAGAGGATTCAAATGGATCACTGATGACAGATTCCACTTGTGAATTTTCATGAATTTCA
24635416 TCACTCATGTATAAA
196 TCACTCATGTATAAA
* *
24635431 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATATGTTCACTGGC
1 TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATCTGCTCACTGGC
* *
24635496 AAAATTCTGCGAGGAAACTGGATCAGGTAAACTCGTGGAGATCTCATCGCTTAAAATGATATTGG
66 AAAATTCTGCGAGGAAACTGGATCAGGTAAACTCGTGGAGATCTCATTGCTTGAAATGATATTGG
*
24635561 ATGAGGCAGAGGATTCAAATGGATTACTGATGACAGATTCCACTTGTGAATTTTCATGAATTTCA
131 ATGAGGCAGAGGATTCAAATGGATCACTGATGACAGATTCCACTTGTGAATTTTCATGAATTTCA
24635626 TCACTCATGTATAAA
196 TCACTCATGTATAAA
* * *
24635641 CCAG-A-ATGGGATAAATTGTCAGGATCAGAAGATTTCCCTAAGATTTGCAACATCTGCTCACTG
1 TCAGTACA-GGG-TAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATCTGCTCACTG
* * *
24635704 GCAAAATTC-GCTGTGGGAACTGGATCAGGTAAACTCATGGAGATCTCATTGCTTGAAATGATAT
64 GCAAAATTCTGC-GAGGAAACTGGATCAGGTAAACTCGTGGAGATCTCATTGCTTGAAATGATAT
24635768 TGGATGAGGCAGAGGATTCAA
128 TGGATGAGGCAGAGGATTCAA
24635789 TTATAGATTG
Statistics
Matches: 330, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
208 1 0.00
209 6 0.02
210 323 0.98
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (210 bp):
TCAGTACAGGGTAAATTGTCAGTATCAGAAGATTTCCCTGAGATTTGCAACATCTGCTCACTGGC
AAAATTCTGCGAGGAAACTGGATCAGGTAAACTCGTGGAGATCTCATTGCTTGAAATGATATTGG
ATGAGGCAGAGGATTCAAATGGATCACTGATGACAGATTCCACTTGTGAATTTTCATGAATTTCA
TCACTCATGTATAAA
Found at i:24647370 original size:23 final size:23
Alignment explanation
Indices: 24647328--24647371 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24647318 CCCTTCAAAA
* *
24647328 ATAATAAAATTATATATTAATAT
1 ATAATAAAACTACATATTAATAT
*
24647351 ATAATAAAACTACATTTTAAT
1 ATAATAAAACTACATATTAAT
24647372 TTTTCAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAATAAAACTACATATTAATAT
Found at i:24655134 original size:3 final size:3
Alignment explanation
Indices: 24655126--24655163 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
24655116 TATCATGCAA
*
24655126 AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24655164 AAATTTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24661396 original size:21 final size:21
Alignment explanation
Indices: 24661372--24661412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24661362 TCTCTTCATC
*
24661372 CCTTCCCTCTCCTCTCCCTCT
1 CCTTCACTCTCCTCTCCCTCT
*
24661393 CCTTCACTTTCCTCTCCCTC
1 CCTTCACTCTCCTCTCCCTC
24661413 GCTTTCCTCA
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:0.02, C:0.59, G:0.00, T:0.39
Consensus pattern (21 bp):
CCTTCACTCTCCTCTCCCTCT
Found at i:24661408 original size:15 final size:15
Alignment explanation
Indices: 24661388--24661427 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
24661378 CTCTCCTCTC
*
24661388 CCTCTCCTTCACTTT
1 CCTCTCCCTCACTTT
*
24661403 CCTCTCCCTCGCTTT
1 CCTCTCCCTCACTTT
*
24661418 CCTCACCCTC
1 CCTCTCCCTC
24661428 CTCCTCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.55, G:0.03, T:0.38
Consensus pattern (15 bp):
CCTCTCCCTCACTTT
Found at i:24661450 original size:3 final size:3
Alignment explanation
Indices: 24661444--24661477 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24661434 ATCACTTTCC
* *
24661444 GCA GCA GCA GCA GCC GCA GCA GCA GCA ACA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
24661478 AATAGTTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.35, G:0.32, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:24661462 original size:15 final size:15
Alignment explanation
Indices: 24661442--24661470 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24661432 TCATCACTTT
24661442 CCGCAGCAGCAGCAG
1 CCGCAGCAGCAGCAG
24661457 CCGCAGCAGCAGCA
1 CCGCAGCAGCAGCA
24661471 ACAGCAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.41, G:0.31, T:0.00
Consensus pattern (15 bp):
CCGCAGCAGCAGCAG
Found at i:24676789 original size:3 final size:3
Alignment explanation
Indices: 24676781--24676858 Score: 61
Period size: 3 Copynumber: 25.7 Consensus size: 3
24676771 TAGATGAGGA
* * *
24676781 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAT AAA AGAT GAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
24676828 AAT -AT ATT AAA AAT AAT GAAG AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
24676859 AAATGCTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 4 0.07
3 49 0.83
4 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:24677994 original size:20 final size:21
Alignment explanation
Indices: 24677971--24678017 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
24677961 GTTTTTGGGC
*
24677971 TGGGTTTTAATTTT-TCT-TTT
1 TGGGTTGTAATTTTAT-TGTTT
*
24677991 TGGGCTGTAATTTTATTGTTT
1 TGGGTTGTAATTTTATTGTTT
24678012 TGGGTT
1 TGGGTT
24678018 AGGTCTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.11, C:0.04, G:0.23, T:0.62
Consensus pattern (21 bp):
TGGGTTGTAATTTTATTGTTT
Found at i:24682951 original size:40 final size:40
Alignment explanation
Indices: 24682889--24682983 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
24682879 CTTTTCTTTT
* *
24682889 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
24682930 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
24682970 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
24682984 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:24683009 original size:3 final size:3
Alignment explanation
Indices: 24683001--24683051 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
24682991 TCATATATAT
*
24683001 ATA ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24683044 AT- ATA ATA
1 ATA ATA ATA
24683052 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:24683017 original size:5 final size:5
Alignment explanation
Indices: 24682993--24683054 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
24682983 TTTCTTTGTC
24682993 ATATA TATATA ATAATA ATATA ATATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
24683044 ATATA ATATA A
1 ATATA ATATA A
24683055 AAACATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 33 0.63
6 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24683063 original size:24 final size:23
Alignment explanation
Indices: 24682993--24683054 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
24682983 TTTCTTTGTC
24682993 ATATATATATAATAATAATATAATATA
1 ATATA-ATATAAT-ATAATA-AA-ATA
*
24683020 ATATAATATAATATATTAATAATA
1 ATATAATATAATATAATAA-AATA
24683044 ATATAATATAA
1 ATATAATATAA
24683055 AAACATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 15 0.45
25 6 0.18
26 7 0.21
27 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATAATATAATAAAATA
Found at i:24684490 original size:6 final size:6
Alignment explanation
Indices: 24684481--24684545 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
24684471 AAAAAAAAGA
* * * * *
24684481 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATG AAAATGAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT--C
24684531 AAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAA
24684546 AAAAAACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.08
6 43 0.83
8 5 0.10
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:24684611 original size:19 final size:20
Alignment explanation
Indices: 24684589--24684632 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
24684579 AATCAAGATC
*
24684589 AAAATGAA-AATGAGAAAAG
1 AAAATGAAGAATGAAAAAAG
24684608 AAAA-GAAGAATGAAAAAAG
1 AAAATGAAGAATGAAAAAAG
24684627 AGAAAT
1 A-AAAT
24684633 CTAGATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 15 0.71
20 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.09
Consensus pattern (20 bp):
AAAATGAAGAATGAAAAAAG
Found at i:24685547 original size:6 final size:6
Alignment explanation
Indices: 24685536--24685571 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
24685526 TGAGTCAAAA
24685536 AAAATG AAAATG AAAAATG AAAATG AAAAATG AAAA
1 AAAATG AAAATG -AAAATG AAAATG -AAAATG AAAA
24685572 GTAAAATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:24685552 original size:7 final size:7
Alignment explanation
Indices: 24685535--24685571 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
24685525 TTGAGTCAAA
24685535 AAAAATG
1 AAAAATG
24685542 -AAAATG
1 AAAAATG
24685548 AAAAATG
1 AAAAATG
24685555 -AAAATG
1 AAAAATG
24685561 AAAAATG
1 AAAAATG
24685568 AAAA
1 AAAA
24685572 GTAAAATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:24685577 original size:13 final size:13
Alignment explanation
Indices: 24685535--24685571 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
24685525 TTGAGTCAAA
24685535 AAAAATGAAAATG
1 AAAAATGAAAATG
24685548 AAAAATGAAAATG
1 AAAAATGAAAATG
24685561 AAAAATGAAAA
1 AAAAATGAAAA
24685572 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:24686930 original size:43 final size:43
Alignment explanation
Indices: 24686821--24687161 Score: 289
Period size: 43 Copynumber: 7.9 Consensus size: 43
24686811 GAATATTTCA
* * * *
24686821 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA-C
*
24686865 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAC
* * ** * * *
24686908 TATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TCGAAGACAC
* * ** * * *
24686952 GATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAC
* * * *
24686993 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTC
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA---C
* * * *
24687038 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAC
* *
24687082 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCCAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAC
* *
24687125 TATCCTATCTCCCTGAAGTTACAGTGGAGCAGA-CGAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAA
24687162 AAATACCAAT
Statistics
Matches: 235, Mismatches: 50, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
41 31 0.13
42 5 0.02
43 92 0.39
44 71 0.30
46 35 0.15
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (43 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAC
Found at i:24686974 original size:87 final size:86
Alignment explanation
Indices: 24686819--24687161 Score: 286
Period size: 87 Copynumber: 4.0 Consensus size: 86
24686809 GTGAATATTT
* * **
24686819 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTG-AG
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAG-GATCTTATCTCCCTGAAG
24686882 ATTACAGCGGAGCAGATCGAAGA
65 -TTACAGCGGAGCAGATCGAAGA
* * * * *
24686905 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAG
1 CA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAAG
* * * *
24686970 TTACAGCAGAGTAGATCGCA-T
65 TTACAGCGGAGCAGATCGAAGA
* * * ** *
24686991 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GATCTTATCTCCCTGA
1 CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TACAGGATCTTATCTCCCTGA
* * * *
24687055 GGTTACAGTGGAGCAGATTGAAGC
63 AGTTACAGCGGAGCAGATCGAAGA
* ** * ** *
24687079 CAGGATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCCAAGACACTATCCTATCTCCCTGAA
1 CA-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAA
*
24687142 GTTACAGTGGAGCAGA-CGAA
64 GTTACAGCGGAGCAGATCGAA
24687162 AAATACCAAT
Statistics
Matches: 203, Mismatches: 44, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
85 33 0.16
86 38 0.19
87 94 0.46
88 11 0.05
89 27 0.13
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (86 bp):
CAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGGATCTTATCTCCCTGAAGT
TACAGCGGAGCAGATCGAAGA
Found at i:24688769 original size:3 final size:3
Alignment explanation
Indices: 24688735--24688800 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
24688725 CCTTTTGTAG
* * *
24688735 TAT TTT TAT TAT T-T TGT TCAT TAT T-C TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* *
24688779 TATT TAA TAT TAT TTT TAT TAT
1 TA-T TAT TAT TAT TAT TAT TAT
24688801 CATCATATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24688769 original size:23 final size:21
Alignment explanation
Indices: 24688735--24688800 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
24688725 CCTTTTGTAG
*
24688735 TATTT-TTATTATTTTGTTCAT
1 TATTTATTATTATTTTATT-AT
24688756 TATTCTATTATTATTATTATTAT
1 TATT-TATTATTATT-TTATTAT
*
24688779 TATTTAATATTATTTTTATTAT
1 TATTTATTATTA-TTTTATTAT
24688801 CATCATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.10
22 15 0.38
23 16 0.41
24 4 0.10
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTTATTATTATTTTATTAT
Found at i:24689879 original size:110 final size:109
Alignment explanation
Indices: 24689681--24689975 Score: 436
Period size: 110 Copynumber: 2.7 Consensus size: 109
24689671 TTTCTAATTG
* *
24689681 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATGTTTAGCGTTT-GGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
24689746 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAATTTTAAAATA
65 TCATTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTCAAAATA
*
24689792 AGGCAATGTTTGGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
24689857 CATTCAACCAAATGG-TTAAATATCCTTTTAAAAATTTCAAAATA
66 CATTCAACCAAATGGCTT-AATATCCTTTTAAAAATTTCAAAATA
* * * * *
24689901 AGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
24689963 CATTTAACCAAAT
66 CATTCAACCAAAT
24689976 AGCCAAATAT
Statistics
Matches: 172, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
106 17 0.10
108 24 0.14
109 44 0.26
110 71 0.41
111 16 0.09
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (109 bp):
AGGCAATGTTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CATTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCAAAATA
Found at i:24695548 original size:33 final size:33
Alignment explanation
Indices: 24695511--24695589 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
24695501 CCTAGATATG
* *
24695511 ATATATTCGTTTTGGCTTCTACTACTGCTATAA
1 ATATATTCCTTTTGGCTTCTACTACTACTATAA
*
24695544 ATATATTCCTTTTGGCTTGTACTACTACTATAA
1 ATATATTCCTTTTGGCTTCTACTACTACTATAA
24695577 ATATATTCCTTTT
1 ATATATTCCTTTT
24695590 ATCTATAGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (33 bp):
ATATATTCCTTTTGGCTTCTACTACTACTATAA
Found at i:24699540 original size:22 final size:24
Alignment explanation
Indices: 24699515--24699559 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
24699505 ATTTAAAACT
*
24699515 TATAAATATA-TTT-TAAAAAATC
1 TATAAATAAAGTTTATAAAAAATC
*
24699537 TATATATAAAGTTTATAAAAAAT
1 TATAAATAAAGTTTATAAAAAAT
24699560 AACATGAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TATAAATAAAGTTTATAAAAAATC
Found at i:24700234 original size:24 final size:25
Alignment explanation
Indices: 24700172--24700221 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24700162 ATTTATTCGG
24700172 ATCTAATAGAGATATAAAATTTTAT
1 ATCTAATAGAGATATAAAATTTTAT
24700197 ATCTAATAGAGATATAAAATTTTAT
1 ATCTAATAGAGATATAAAATTTTAT
24700222 TTAAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
ATCTAATAGAGATATAAAATTTTAT
Found at i:24702211 original size:23 final size:22
Alignment explanation
Indices: 24702177--24702219 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
24702167 ATTTATGCAC
24702177 TTTTTTAATTATTTAATTTTAA
1 TTTTTTAATTATTTAATTTTAA
*
24702199 TTTTTGTATTTATTTAATTTT
1 TTTTT-TAATTATTTAATTTT
24702220 TGAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTAATTATTTAATTTTAA
Found at i:24703538 original size:54 final size:53
Alignment explanation
Indices: 24703456--24703563 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 53
24703446 AATTGATTAC
* *
24703456 ACTCTTTCTTTTTTGTACATGTTACAATCTATTTTCTATACTTATTTGGGCAA
1 ACTCTTTCTTTTTCGTACACGTTACAATCTATTTTCTATACTTATTTGGGCAA
24703509 NACTCTTTCTTTTTCGTACACGTTACAATCTATTTTCTATACTTATTTGGGCAA
1 -ACTCTTTCTTTTTCGTACACGTTACAATCTATTTTCTATACTTATTTGGGCAA
24703563 A
1 A
24703564 AATAACAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.48
Consensus pattern (53 bp):
ACTCTTTCTTTTTCGTACACGTTACAATCTATTTTCTATACTTATTTGGGCAA
Found at i:24707636 original size:42 final size:42
Alignment explanation
Indices: 24707575--24707695 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
24707565 CTCCCCATGA
** * * * *
24707575 ACAAATCCGATGGTACATTTGAACCACCTAGGCTCTCCAAGG
1 ACAAATCCGATACTGCATTTCAATCACCCAGGCTCTCCAAGG
* *
24707617 ACAAATCCGATACTGCATTTCAGTCGCCCAGGCTCTCCAAGG
1 ACAAATCCGATACTGCATTTCAATCACCCAGGCTCTCCAAGG
24707659 ACAAA-CCAGATACTGCATTTCAATCACCCAGGCTCTC
1 ACAAATCC-GATACTGCATTTCAATCACCCAGGCTCTC
24707696 GAGGGGCAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.03
42 66 0.97
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (42 bp):
ACAAATCCGATACTGCATTTCAATCACCCAGGCTCTCCAAGG
Found at i:24707706 original size:42 final size:41
Alignment explanation
Indices: 24707590--24707715 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 41
24707580 TCCGATGGTA
* * *
24707590 CATTTGAACCACCTAGGCTCTCCAAGGACAAATCCGATACTG
1 CATTTCAATCACCCAGGCTCTCCAAGGACAAA-CCGATACTG
* *
24707632 CATTTCAGTCGCCCAGGCTCTCCAAGGACAAACCAGATACTG
1 CATTTCAATCACCCAGGCTCTCCAAGGACAAACC-GATACTG
* * *
24707674 CATTTCAATCACCCAGGCTCTCGAGGGGCAAACCGAATACTG
1 CATTTCAATCACCCAGGCTCTCCAAGGACAAACCG-ATACTG
24707716 ACGTTCAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.04
42 69 0.96
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (41 bp):
CATTTCAATCACCCAGGCTCTCCAAGGACAAACCGATACTG
Found at i:24707723 original size:42 final size:41
Alignment explanation
Indices: 24707604--24707735 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 41
24707594 TGAACCACCT
* *
24707604 AGGCTCTCCAAGGACAAATCC-GATACTGCATTTCAGTCGCCC
1 AGGCTCTCCAAGGACAAA-CCAGATACTGCAGTTCAATC-CCC
*
24707646 AGGCTCTCCAAGGACAAACCAGATACTGCATTTCAATCACCC
1 AGGCTCTCCAAGGACAAACCAGATACTGCAGTTCAATC-CCC
* * *
24707688 AGGCTCTCGAGGGGCAAACC-GAATACTG-ACGTTCAATCCCC
1 AGGCTCTCCAAGGACAAACCAG-ATACTGCA-GTTCAATCCCC
24707729 TAGGCTC
1 -AGGCTC
24707736 CCTGAGATAG
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
41 7 0.09
42 73 0.91
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.20
Consensus pattern (41 bp):
AGGCTCTCCAAGGACAAACCAGATACTGCAGTTCAATCCCC
Found at i:24711607 original size:20 final size:20
Alignment explanation
Indices: 24711571--24711608 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24711561 TGCGAAACTT
24711571 TATATATTTTTTAATTTTTC
1 TATATATTTTTTAATTTTTC
24711591 TATA-ATTTTTTACATTTT
1 TATATATTTTTTA-ATTTT
24711609 AATAATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATATTTTTTAATTTTTC
Found at i:24721238 original size:27 final size:27
Alignment explanation
Indices: 24721199--24721263 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
24721189 TGTTCTTATC
* *
24721199 AATTCTTATGTGTAGTTTAACCCACTAA
1 AATT-TTACGTGTAGTGTAACCCACTAA
24721227 AATTTTACGTGTAGTGTAACCCACTAA
1 AATTTTACGTGTAGTGTAACCCACTAA
24721254 AATTTTACGT
1 AATTTTACGT
24721264 CCTTATCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (27 bp):
AATTTTACGTGTAGTGTAACCCACTAA
Found at i:24724701 original size:43 final size:42
Alignment explanation
Indices: 24724653--24724747 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 42
24724643 AATTGTTTCC
*
24724653 TTTAATTTTAAAAGACATACAAAATAAAATAATTTATATTTG
1 TTTAATTTTAAAAGACATACAAAAGAAAATAATTTATATTTG
*
24724695 TTTTAATTTTAAAAGACATATAAAAGAAAATAATTTATATTTG
1 -TTTAATTTTAAAAGACATACAAAAGAAAATAATTTATATTTG
*
24724738 TATAATTTTA
1 TTTAATTTTA
24724748 TATCATCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 9 0.18
43 40 0.82
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (42 bp):
TTTAATTTTAAAAGACATACAAAAGAAAATAATTTATATTTG
Found at i:24733266 original size:4 final size:4
Alignment explanation
Indices: 24733257--24733287 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
24733247 AATTTTCTTC
24733257 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
24733288 CACTGCCACC
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:24733902 original size:15 final size:16
Alignment explanation
Indices: 24733877--24733910 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24733867 TAAATATAAT
24733877 TTTATTATTTTAGTAA
1 TTTATTATTTTAGTAA
*
24733893 TTTA-TATTTTTGTAA
1 TTTATTATTTTAGTAA
24733908 TTT
1 TTT
24733911 TTTGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAGTAA
Found at i:24738765 original size:12 final size:11
Alignment explanation
Indices: 24738743--24738841 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 11
24738733 CAAATATCTC
24738743 TAAAATAATAA
1 TAAAATAATAA
24738754 TAAAATTAATAA
1 TAAAA-TAATAA
* *
24738766 TAAAACAAGAGTTA
1 TAAAA-TA-A-TAA
*
24738780 TACAATATATAA
1 TAAAATA-ATAA
* *
24738792 -ACAATAACAA
1 TAAAATAATAA
*
24738802 CAAAATAATAA
1 TAAAATAATAA
* *
24738813 TAATATAATAG
1 TAAAATAATAA
* *
24738824 TGAAATGATAA
1 TAAAATAATAA
24738835 TAAAATA
1 TAAAATA
24738842 GTGAAAAAAA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
10 3 0.05
11 39 0.60
12 14 0.22
13 3 0.05
14 6 0.09
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:24738878 original size:29 final size:30
Alignment explanation
Indices: 24738826--24738885 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24738816 TATAATAGTG
* * * *
24738826 AAATGATAATAAAATAGTGAAAAAAACAGA
1 AAATAATAACAAAACAGTGAAAAAAAAAGA
24738856 AAATAATAACAAAACAGT-AAAAAAAAAGA
1 AAATAATAACAAAACAGTGAAAAAAAAAGA
24738885 A
1 A
24738886 GAAGAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (30 bp):
AAATAATAACAAAACAGTGAAAAAAAAAGA
Found at i:24743619 original size:30 final size:27
Alignment explanation
Indices: 24743559--24743620 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
24743549 AATCCTCTTC
* * *
24743559 CTGCTGGAGCACAGCATTCTTTATCTG
1 CTGCTGGAGCACAACATTATTTATCAG
24743586 CTGCTGGAGCACATACAGTTATATTATCAG
1 CTGCTGGAGCACA-ACA-TTAT-TTATCAG
24743616 CTGCT
1 CTGCT
24743621 AATGCTGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 13 0.45
28 2 0.07
29 3 0.10
30 11 0.38
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGCTGGAGCACAACATTATTTATCAG
Found at i:24752827 original size:10 final size:10
Alignment explanation
Indices: 24752808--24752837 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24752798 ATATATGTAT
*
24752808 AAAATCTAAA
1 AAAATATAAA
24752818 AAAATATAAA
1 AAAATATAAA
24752828 AAAATATAAA
1 AAAATATAAA
24752838 TTATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATATAAA
Found at i:24753802 original size:11 final size:11
Alignment explanation
Indices: 24753786--24753810 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24753776 CATCCTCTGA
24753786 TGGATGAACAT
1 TGGATGAACAT
24753797 TGGATGAACAT
1 TGGATGAACAT
24753808 TGG
1 TGG
24753811 CCATTGCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (11 bp):
TGGATGAACAT
Found at i:24759290 original size:65 final size:65
Alignment explanation
Indices: 24759186--24759315 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
24759176 AGCCTTATAA
24759186 AGGGTGTTGTTGGTCCCTTGCCGAGGCTTTACATCTCTTTCTACTTTTGGTTTTGTATTATTTGG
1 AGGGTGTTGTTGGTCCCTTGCCGAGGCTTTACATCTCTTTCTACTTTTGGTTTTGTATTATTTGG
* *
24759251 AGGGTGTTGTTGGTCCCTTGCCGAGGCTTTACGTGTCTTTCTACTTTTGGTTTTGTATTATTTGG
1 AGGGTGTTGTTGGTCCCTTGCCGAGGCTTTACATCTCTTTCTACTTTTGGTTTTGTATTATTTGG
24759316 GTTTAGTCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.10, C:0.16, G:0.26, T:0.48
Consensus pattern (65 bp):
AGGGTGTTGTTGGTCCCTTGCCGAGGCTTTACATCTCTTTCTACTTTTGGTTTTGTATTATTTGG
Found at i:24760865 original size:37 final size:37
Alignment explanation
Indices: 24760808--24760913 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
24760798 TATGATCACT
*
24760808 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
24760843 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
24760880 TATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
24760914 GAAGCTATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:24760955 original size:52 final size:52
Alignment explanation
Indices: 24760876--24761092 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
24760866 TAAGTGTAGC
* *
24760876 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
24760929 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
24760981 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
24761027 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
24761079 CACTTTGTCACTTG
1 CACTTT-TCACTTG
24761093 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:24760998 original size:46 final size:46
Alignment explanation
Indices: 24760926--24761098 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
24760916 AGCTATCACT
*
24760926 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
24760971 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
24761017 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
24761069 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
24761099 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:24761042 original size:98 final size:98
Alignment explanation
Indices: 24760875--24761098 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
24760865 ATAAGTGTAG
* *
24760875 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
24760940 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
24760973 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
24761038 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
24761071 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
24761099 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:24762875 original size:201 final size:200
Alignment explanation
Indices: 24762531--24762934 Score: 781
Period size: 201 Copynumber: 2.0 Consensus size: 200
24762521 TCTAGATAAT
24762531 TCCACTTGGGTCCTAACTTTATTAAGCAAATTTTGCAATTTTCCAATTTTGCCCTTAATTCTCCT
1 TCCACTTGGGTCCTAACTTTATTAAGCAAATTTTGCAATTTTCCAATTTTGCCCTTAATTCTCCT
24762596 TACTTTCTTGCTGATTTCATGCCTCTGCCGTCCAGCCCAAATAGACCTTGGGTCTATTTGCCTTT
66 TACTTTCTTGCTGATTTCATGCCTCTGCCGTCCAGCCCAAATAGACCTTGGGTCTATTTGCCTTT
* *
24762661 TAATCCCTCTTCCTTTTATCATTTAAGCTATTTAATTATTTCCCAAAATTTTGCATTTGTTACAA
131 TAAGCCCTCTTCCTTTTATCATTTAAGCTATTTAATCATTTCCCAAAATTTTGCATTTGTTACAA
24762726 TTTAG
196 TTTAG
24762731 TCCACTTGGGTCCTAACTTTATTAAGCAAATTTTTGCAATTTTCCAATTTTGCCCTTAATTCTCC
1 TCCACTTGGGTCCTAACTTTATTAAGCAAA-TTTTGCAATTTTCCAATTTTGCCCTTAATTCTCC
24762796 TTACTTTCTTGCTGATTTCATGCCTCTGCCGTCCAGCCCAAATAGACCTTGGGTCTATTTGCCTT
65 TTACTTTCTTGCTGATTTCATGCCTCTGCCGTCCAGCCCAAATAGACCTTGGGTCTATTTGCCTT
24762861 TTAAGCCCTCTTCCTTTTATCATTTAAGCTATTTAATCATTTCCCAAAATTTTGCATTTGTTACA
130 TTAAGCCCTCTTCCTTTTATCATTTAAGCTATTTAATCATTTCCCAAAATTTTGCATTTGTTACA
24762926 ATTTAG
195 ATTTAG
24762932 TCC
1 TCC
24762935 TTTTTGTTCA
Statistics
Matches: 201, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
200 30 0.15
201 171 0.85
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (200 bp):
TCCACTTGGGTCCTAACTTTATTAAGCAAATTTTGCAATTTTCCAATTTTGCCCTTAATTCTCCT
TACTTTCTTGCTGATTTCATGCCTCTGCCGTCCAGCCCAAATAGACCTTGGGTCTATTTGCCTTT
TAAGCCCTCTTCCTTTTATCATTTAAGCTATTTAATCATTTCCCAAAATTTTGCATTTGTTACAA
TTTAG
Found at i:24764480 original size:49 final size:55
Alignment explanation
Indices: 24764425--24764729 Score: 409
Period size: 58 Copynumber: 5.6 Consensus size: 55
24764415 TTCGTTTTCT
* * *
24764425 CGATGCCATAGTCCAACTATGGTCTTACAC-G-T-A-ATCACA-A-ATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGATCATATCACACATATCACTTAC
*
24764474 CGATGCCATAGCCCAACTATGGTCTTACAC-GA--A-AT--CACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGATCATATCACACATATCACTTAC
24764523 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGG-AT--CATATCACACATATCACTTAC
24764581 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGG-AT--CATATCACACATATCACTTAC
24764639 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGG-AT--CATATCACACATATCACTTAC
24764697 CGATGCCATAGCCCAGCTATGGTCTTACACGGA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGA
24764730 ATCACATAAT
Statistics
Matches: 241, Mismatches: 3, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
47 2 0.01
48 1 0.00
49 70 0.29
50 1 0.00
51 1 0.00
55 1 0.00
56 2 0.01
57 1 0.00
58 162 0.67
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (55 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGATCATATCACACATATCACTTAC
Found at i:24764595 original size:58 final size:58
Alignment explanation
Indices: 24764509--24764743 Score: 461
Period size: 58 Copynumber: 4.0 Consensus size: 58
24764499 TACACGAAAT
24764509 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
24764567 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
24764625 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
24764683 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
24764742 CA
1 CA
24764744 TGTTCACATG
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
58 170 0.97
59 6 0.03
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (58 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
Found at i:24766126 original size:46 final size:46
Alignment explanation
Indices: 24766073--24767077 Score: 1740
Period size: 46 Copynumber: 21.6 Consensus size: 46
24766063 TAAGTGTAGC
24766073 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766119 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766165 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766211 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766257 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766303 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766349 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766395 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766441 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766487 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766533 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766579 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766625 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766671 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766717 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
24766763 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
24766809 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * **
24766855 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
24766901 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * **
24766953 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
24766999 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
24767051 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
24767078 AGTACTCAAA
Statistics
Matches: 927, Mismatches: 20, Indels: 24
0.95 0.02 0.02
Matches are distributed among these distances:
46 843 0.91
48 2 0.00
50 2 0.00
52 80 0.09
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:24767406 original size:200 final size:200
Alignment explanation
Indices: 24767063--24767462 Score: 764
Period size: 200 Copynumber: 2.0 Consensus size: 200
24767053 CTTATCACTT
* *
24767063 TGTCACTTGATCAGAAGTACTCAAATCCGGCGTTCTGCTCAATTTGGTCATTTATTCATATATCA
1 TGTCACTTGATCAGAAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCA
*
24767128 GGCATAGCAACATGTGTTAATTCATAAACCATTCATGGTATTATTTCATGCCAAATCATATACTG
66 GGCATACCAACATGTGTTAATTCATAAACCATTCATGGTATTATTTCATGCCAAATCATATACTG
24767193 AATATACCATACACACATACTATGAAACTTTATTTTCACACATGAGCTTAAACCATGATCAATAA
131 AATATACCATACACACATACTATGAAACTTTATTTTCACACATGAGCTTAAACCATGATCAATAA
24767258 TGCAC
196 TGCAC
24767263 TGTCACTTGATCAGAAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCA
1 TGTCACTTGATCAGAAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCA
*
24767328 GGCTTACCAACATGTGTTAATTCATAAACCATTCATGGTATTATTTCATGCCAAATCATATACTG
66 GGCATACCAACATGTGTTAATTCATAAACCATTCATGGTATTATTTCATGCCAAATCATATACTG
24767393 AATATACCATACACACATACTATGAAACTTTATTTTCACACATGAGCTTAAACCATGATCAATAA
131 AATATACCATACACACATACTATGAAACTTTATTTTCACACATGAGCTTAAACCATGATCAATAA
24767458 TGCAC
196 TGCAC
24767463 AAAAATAAGC
Statistics
Matches: 196, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (200 bp):
TGTCACTTGATCAGAAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCA
GGCATACCAACATGTGTTAATTCATAAACCATTCATGGTATTATTTCATGCCAAATCATATACTG
AATATACCATACACACATACTATGAAACTTTATTTTCACACATGAGCTTAAACCATGATCAATAA
TGCAC
Found at i:24770049 original size:49 final size:49
Alignment explanation
Indices: 24769994--24770139 Score: 220
Period size: 49 Copynumber: 3.0 Consensus size: 49
24769984 TTCGTTTTCT
* *
24769994 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* * *
24770043 CGATGCCATAGCCCAACTACGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
24770092 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
24770140 GTTCACATGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 80 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:24771453 original size:37 final size:37
Alignment explanation
Indices: 24771392--24771870 Score: 899
Period size: 37 Copynumber: 13.0 Consensus size: 37
24771382 TACGTATGAT
* *
24771392 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
24771427 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771464 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771501 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771538 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771575 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771612 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771649 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771686 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771723 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771760 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771797 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
24771834 CACTTATCTCTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
24771871 TAAAGCTACC
Statistics
Matches: 436, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
35 9 0.02
36 3 0.01
37 424 0.97
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:24772001 original size:61 final size:61
Alignment explanation
Indices: 24771906--24772026 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
24771896 ACTTGATCAA
*
24771906 AAGTATTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCAGGCTTACCAG
1 AAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCAGGCTTACCAG
*
24771967 AAGTACTCAAATCCGGCGTTCCGCTTAATTTGATCATTTATTCATATATCAGGCTTACCA
1 AAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCAGGCTTACCA
24772027 ACATGTGTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (61 bp):
AAGTACTCAAATCCGGCGTTCCGCTCAATTTGATCATTTATTCATATATCAGGCTTACCAG
Found at i:24775146 original size:49 final size:49
Alignment explanation
Indices: 24775091--24775243 Score: 189
Period size: 58 Copynumber: 2.9 Consensus size: 49
24775081 TTCGTTTTCT
* *
24775091 CGATGCCATAGTCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
24775140 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACAC-G----A-A-AT--CACATATCACTTAC
*
24775198 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAT-ATCAC
24775244 ATGTTCACAT
Statistics
Matches: 91, Mismatches: 3, Indels: 19
0.81 0.03 0.17
Matches are distributed among these distances:
49 33 0.36
50 6 0.07
51 2 0.02
52 1 0.01
54 1 0.01
55 1 0.01
56 2 0.02
57 1 0.01
58 44 0.48
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
Found at i:24775212 original size:58 final size:59
Alignment explanation
Indices: 24775126--24775244 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
24775116 TACACGAAAT
24775126 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
24775184 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
24775243 CA
1 CA
24775245 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:24775225 original size:28 final size:28
Alignment explanation
Indices: 24775135--24775225 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
24775125 TCACATATCA
24775135 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
24775163 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
24775193 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
24775221 CTTAC
1 CTTAC
24775226 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:24776608 original size:37 final size:37
Alignment explanation
Indices: 24776551--24776702 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
24776541 TATGATCACT
*
24776551 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
24776586 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
24776623 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
24776668 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
24776703 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:24776686 original size:46 final size:46
Alignment explanation
Indices: 24776619--24776789 Score: 225
Period size: 46 Copynumber: 3.6 Consensus size: 46
24776609 TAAGTGTAGC
24776619 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
24776665 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
24776711 CAATTATCACTTTTCACTTGTCGCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
24776763 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
24776790 AGTACTCAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
46 67 0.62
49 2 0.02
52 39 0.36
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:24776738 original size:52 final size:52
Alignment explanation
Indices: 24776662--24776783 Score: 163
Period size: 52 Copynumber: 2.3 Consensus size: 52
24776652 TAGCTAAAGC
* * * *
24776662 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAAT
1 TATCACTTTTCAC-TTGTCGCTTGATCAGATAAGTATAGCCAAAGCTACCAAT
* * *
24776715 TATCACTTTTCACTTGTCGCTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCGCTTGATCAGATAAGTATAGCCAAAGCTACCAAT
24776767 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
24776784 ATCAGAAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 42 0.69
53 19 0.31
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCGCTTGATCAGATAAGTATAGCCAAAGCTACCAAT
Found at i:24779957 original size:49 final size:49
Alignment explanation
Indices: 24779902--24780047 Score: 211
Period size: 49 Copynumber: 3.0 Consensus size: 49
24779892 TTCGTTTTCT
* * * *
24779902 CGATGCCAGAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
* * *
24779951 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
*
24780000 CGATGCCACAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACA-AATCACAT
24780048 GTTCACATGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 80 0.93
50 6 0.07
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (49 bp):
CGATGCCACAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
Done.