Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 17 of 93
Found at i:7749263 original size:12 final size:12
Alignment explanation
Indices: 7749246--7749271 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7749236 TTTTCAAATA
7749246 TATATATATTTT
1 TATATATATTTT
7749258 TATATATATTTT
1 TATATATATTTT
7749270 TA
1 TA
7749272 ATAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATATATTTT
Found at i:7752088 original size:2 final size:2
Alignment explanation
Indices: 7752081--7752109 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7752071 ATAGCACGAC
7752081 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
7752110 GTTTTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7755235 original size:2 final size:2
Alignment explanation
Indices: 7755228--7755260 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7755218 TTTGTATGTA
7755228 AT AT AT AT AT AT AT AT -T AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7755261 GTTTAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7755606 original size:11 final size:11
Alignment explanation
Indices: 7755582--7755616 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
7755572 ATATAATATG
*
7755582 ATTATTTTTGTA
1 ATTA-TTTTATA
7755594 ATTATTTTATA
1 ATTATTTTATA
7755605 ATTATTTTATA
1 ATTATTTTATA
7755616 A
1 A
7755617 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
ATTATTTTATA
Found at i:7775915 original size:2 final size:2
Alignment explanation
Indices: 7775908--7776006 Score: 148
Period size: 2 Copynumber: 50.0 Consensus size: 2
7775898 TTAACACATA
*
7775908 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7775950 AT NAT AT AT AT -T AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7775991 AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT
7776007 CAGTCTTTAA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
1 2 0.02
2 84 0.95
3 2 0.02
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7778668 original size:66 final size:66
Alignment explanation
Indices: 7778559--7778690 Score: 203
Period size: 66 Copynumber: 2.0 Consensus size: 66
7778549 TAGGTATTCT
* * *
7778559 AAGTTTAAGTTTTGATGCGCATATCTTTGCCCTACAAAAAATTACTTGTAGATCATCATAATAAT
1 AAGTTTAAGTTTTGATGCACATATCCTTGCACTACAAAAAATTACTTGTAGATCATCATAATAAT
7778624 C
66 C
* *
7778625 AAGTTTAAGTTTTGATGCACATTTCCTTGCACTA-AAAAGAATTACTTGTAGATCATGATAATAA
1 AAGTTTAAGTTTTGATGCACATATCCTTGCACTACAAAA-AATTACTTGTAGATCATCATAATAA
7778689 TC
65 TC
7778691 TCTATAGAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 4 0.07
66 56 0.93
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (66 bp):
AAGTTTAAGTTTTGATGCACATATCCTTGCACTACAAAAAATTACTTGTAGATCATCATAATAAT
C
Found at i:7787432 original size:18 final size:19
Alignment explanation
Indices: 7787399--7787434 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7787389 TGCTTGCAAC
7787399 AGATGAAAGCTTGCTTCTT
1 AGATGAAAGCTTGCTTCTT
*
7787418 AGATGTAAG-TTGCTTCT
1 AGATGAAAGCTTGCTTCT
7787435 ATATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (19 bp):
AGATGAAAGCTTGCTTCTT
Found at i:7797490 original size:21 final size:21
Alignment explanation
Indices: 7797465--7797504 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7797455 AATTAGAATA
*
7797465 TAATATCA-ATTATAATAGAGT
1 TAATAT-ATATTAAAATAGAGT
7797486 TAATATATATTAAAATAGA
1 TAATATATATTAAAATAGA
7797505 ATCGTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
TAATATATATTAAAATAGAGT
Found at i:7800282 original size:344 final size:335
Alignment explanation
Indices: 7799662--7800319 Score: 789
Period size: 344 Copynumber: 1.9 Consensus size: 335
7799652 TCTTACTTTT
* * * * * *
7799662 TTGGTTGATATTTTAGATAAATTGCTTTTTATATTTTCTGTTTCAATTTGTTAGCTTGTTTGTTG
1 TTGGTTGATATTTGAGATAAATTGCTCTTCATATTTTCTGTTTCAATTTGTTACCCTGTTTCTTG
* * *
7799727 CCCCTCAAAAGTGTGCGGTATACAAGTGTTTAGTCAAACTCCATTTCAAGTCTGTCAGTTTTATT
66 CCCATCAAAAGTGTGCGGCATACAAGTGTTTAGTCAAACTCCATTT-AACTCTGTCAGTTTTATT
* * *
7799792 GAGAATCATGGTATGGCTGGCTGGGATTTTTTAAATGAGAGTAATGCATTATTGAAATGATGGGT
130 GAGAATCATGGTAAGGCTGGCTGGGATTCTTTAAATGAGAGTAATGAATTATTGAAATGATGGGT
* * ** *
7799857 TTTGTGGAGACTGATGTGAAAATTTGTTTTATGTTTGAGTTTTGTGTGTGTCTATTTGTCATTTC
195 TTTGTGGAGACTGATGTAAAAAATTGTTTTATGTTTGAGTTTTGTGCATGTCTA-TTGTCATTTA
* *
7799922 TAGCAATCACATGTCTTGAGGTTTCGTTAATCTCTCAGGCTATGAAGGTGAACTACTAATACCAT
259 TAGCAATCACATGTCTTAAGGTTTCATTAATCTCTCAGGCTATGAAGGTGAACTACTAATACCAT
7799987 TGATTCTGGGTG
324 TGATTCTGGGTG
7799999 TTGGTTGATATTTGAGATAAATTGCTCTTCAT-TTTTCTGTTTCAATTTGTTACCCTGTTTCTTG
1 TTGGTTGATATTTGAGATAAATTGCTCTTCATATTTTCTGTTTCAATTTGTTACCCTGTTTCTTG
** * *
7800063 -CCATTTAAAGTGTG-TGCATACGAGTTGTTTAGTC-AACTCCATCGTT-ACT-TAGTCAG-TTT
66 CCCATCAAAAGTGTGCGGCATACAAG-TGTTTAGTCAAACTCCAT--TTAACTCT-GTCAGTTTT
7800122 ATTGAGAATCATGGTAAGGCTGGC-GTGGATTCTTTAAATCAGAGTGATGCTTATAATCGGAATT
127 ATTGAGAATCATGGTAAGGCTGGCTG-GGATTCTTTAAAT--GA--GA-G----TAAT--GAA-T
* * *
7800186 TATTGAAATGATGTGTTTTGTGGAGACTG-TTTAAAAAATTGTTTTATGTTTGATTTTTGTGCAT
179 TATTGAAATGATGGGTTTTGTGGAGACTGATGTAAAAAATTGTTTTATGTTTGAGTTTTGTGCAT
* *
7800250 GTCTA-TG-CATTAACTATAGCCATCACATGTCTTAAGGTTTTATTAATCTCTCAGGCTATGAAG
244 GTCTATTGTCATT---TATAGCAATCACATGTCTTAAGGTTTCATTAATCTCTCAGGCTATGAAG
7800313 GTGAACT
306 GTGAACT
7800320 GATAATATCA
Statistics
Matches: 273, Mismatches: 28, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
332 1 0.00
333 39 0.14
334 22 0.08
335 22 0.08
336 31 0.11
337 31 0.11
338 1 0.00
341 4 0.01
342 6 0.02
344 87 0.32
345 29 0.11
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (335 bp):
TTGGTTGATATTTGAGATAAATTGCTCTTCATATTTTCTGTTTCAATTTGTTACCCTGTTTCTTG
CCCATCAAAAGTGTGCGGCATACAAGTGTTTAGTCAAACTCCATTTAACTCTGTCAGTTTTATTG
AGAATCATGGTAAGGCTGGCTGGGATTCTTTAAATGAGAGTAATGAATTATTGAAATGATGGGTT
TTGTGGAGACTGATGTAAAAAATTGTTTTATGTTTGAGTTTTGTGCATGTCTATTGTCATTTATA
GCAATCACATGTCTTAAGGTTTCATTAATCTCTCAGGCTATGAAGGTGAACTACTAATACCATTG
ATTCTGGGTG
Found at i:7804132 original size:16 final size:16
Alignment explanation
Indices: 7804111--7804151 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
7804101 AACTGCATTT
*
7804111 ATATTAATCCAAAATA
1 ATATTAACCCAAAATA
7804127 ATATTAACCCAAAATA
1 ATATTAACCCAAAATA
7804143 ATATTAACC
1 ATATTAACC
7804152 ATTGCCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATTAACCCAAAATA
Found at i:7805012 original size:2 final size:2
Alignment explanation
Indices: 7805005--7805095 Score: 105
Period size: 2 Copynumber: 45.5 Consensus size: 2
7804995 TAGGACATAG
* * *
7805005 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NA CCA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
7805048 TA GGA CA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7805090 TA -A TA T
1 TA TA TA T
7805096 CAACATTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.03
2 73 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:7805069 original size:53 final size:52
Alignment explanation
Indices: 7804989--7805091 Score: 188
Period size: 53 Copynumber: 2.0 Consensus size: 52
7804979 ACACAATGGT
*
7804989 ACCATTTAGGACATAGTATATATATATATATATATATATATATATATATATA
1 ACCATTTAGGACATAATATATATATATATATATATATATATATATATATATA
7805041 NACCATTTAGGACATAATATATATATATATATATATATATATATATATATA
1 -ACCATTTAGGACATAATATATATATATATATATATATATATATATATATA
7805092 ATATCAACAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (52 bp):
ACCATTTAGGACATAATATATATATATATATATATATATATATATATATATA
Found at i:7814837 original size:7 final size:8
Alignment explanation
Indices: 7814823--7814849 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
7814813 TGGTTTAAAT
7814823 TAAAAAAA
1 TAAAAAAA
7814831 TAAAAAAA
1 TAAAAAAA
7814839 TAAAAAAA
1 TAAAAAAA
7814847 TAA
1 TAA
7814850 TGACTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:7819501 original size:21 final size:21
Alignment explanation
Indices: 7819462--7819501 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7819452 CGTGTTTGAC
* *
7819462 AAACTTAGTATGAAATCTGTT
1 AAACTTAATATCAAATCTGTT
*
7819483 AAACTTAATATCAATTCTG
1 AAACTTAATATCAAATCTG
7819502 GAAATAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
AAACTTAATATCAAATCTGTT
Found at i:7821147 original size:243 final size:244
Alignment explanation
Indices: 7820712--7821193 Score: 788
Period size: 243 Copynumber: 2.0 Consensus size: 244
7820702 ATGGTGAGCA
* *
7820712 GAGAATATAATGAATATTATGAATTTGCTATAATGTGCTGAGAGGAATTGTTCAAAATGTGTTTA
1 GAGAACATAATGAATATTATGAATTTGCTATAAAGTGCTGAGAGGAATTGTTCAAAATGTGTTTA
* *
7820777 TAACTTCAGAGACATCATGAAACCATGAATGTAATCCTCAGGTGTGCATGATTATGAGGGTCTGG
66 TAACTTCAAAGACATCATGAAACCATGAATGTAATCCTCAGGTGTGCATGATTATAAGGGTCTGG
*
7820842 CATATGTTTGTGGCACAATTATCAAGGAATCTAGTGTATGCAAGTACTGGTTATATTTGTGACAT
131 CATATGTTTGTGGCACAATTATCAAGGAATCTAGTATATGCAAGTACTGGTTATATTTGTGACAT
**
7820907 GATTTTTATCAAGAAGTGCTAGC-AAAAGCATATATGTTTTAAAGCTATT
196 GATCATTATCAAGAAGTGCTA-CAAAAAGCATATATGTTTTAAAGCTATT
* * *
7820956 GAGAACATAATGAATATTATGAATTTTCTTTAAAGTGCTGAGAGGAATTGTTTAAAATGTGTTTA
1 GAGAACATAATGAATATTATGAATTTGCTATAAAGTGCTGAGAGGAATTGTTCAAAATGTGTTTA
* *
7821021 TAACTTCAAAGACTTCATGAAA-CATGAATGTAATCCTCAGTTGTGCATGATTATAAGGGTCTGG
66 TAACTTCAAAGACATCATGAAACCATGAATGTAATCCTCAGGTGTGCATGATTATAAGGGTCTGG
* * *
7821085 TATATGTTTGTGGCACAATTATCAAGGAGTCTAGTATATGCCAGTACTGGTTATATTTGTGACAT
131 CATATGTTTGTGGCACAATTATCAAGGAATCTAGTATATGCAAGTACTGGTTATATTTGTGACAT
* *
7821150 GATCATTATGAAGAAGTGCTACAAAAAGTATATATGTTTTAAAG
196 GATCATTATCAAGAAGTGCTACAAAAAGCATATATGTTTTAAAG
7821194 GGTTGAGATG
Statistics
Matches: 220, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
242 1 0.00
243 139 0.63
244 80 0.36
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (244 bp):
GAGAACATAATGAATATTATGAATTTGCTATAAAGTGCTGAGAGGAATTGTTCAAAATGTGTTTA
TAACTTCAAAGACATCATGAAACCATGAATGTAATCCTCAGGTGTGCATGATTATAAGGGTCTGG
CATATGTTTGTGGCACAATTATCAAGGAATCTAGTATATGCAAGTACTGGTTATATTTGTGACAT
GATCATTATCAAGAAGTGCTACAAAAAGCATATATGTTTTAAAGCTATT
Found at i:7821271 original size:21 final size:21
Alignment explanation
Indices: 7821246--7821287 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7821236 TTTTTTTTTT
*
7821246 GGGTGGGG-GGGTGTGGTGTTG
1 GGGTGGGGTGGG-GTGGGGTTG
7821267 GGGTGGGGTGGGGTGGGGTTG
1 GGGTGGGGTGGGGTGGGGTTG
7821288 ACGGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.00, C:0.00, G:0.74, T:0.26
Consensus pattern (21 bp):
GGGTGGGGTGGGGTGGGGTTG
Found at i:7829828 original size:23 final size:23
Alignment explanation
Indices: 7829789--7829853 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
7829779 ATAGGCTTGG
* *
7829789 ACATAGATTTGGACTTTTTG-AT
1 ACATAGACTTAGACTTTTTGAAT
*
7829811 GCATAGACTTAAGACTTTTTGAAT
1 ACATAGACTT-AGACTTTTTGAAT
7829835 ACATAGACTTAGACTTTTT
1 ACATAGACTTAGACTTTTT
7829854 ACAAGATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 8 0.22
23 18 0.49
24 11 0.30
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (23 bp):
ACATAGACTTAGACTTTTTGAAT
Found at i:7834375 original size:23 final size:23
Alignment explanation
Indices: 7834349--7834402 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
7834339 AACATCTTGT
*
7834349 AAAAAGTC-TAAGTTTATATATTC
1 AAAAAGTCTTAAGTTTATACA-TC
* *
7834372 AAAAATTCTTAAGTTTATGCATC
1 AAAAAGTCTTAAGTTTATACATC
7834395 AAAAAGTC
1 AAAAAGTC
7834403 CAAATCTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (23 bp):
AAAAAGTCTTAAGTTTATACATC
Found at i:7839614 original size:25 final size:25
Alignment explanation
Indices: 7839581--7839631 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7839571 GTTAAAGGAT
7839581 AAAAATATAATATTAATGTAATCAA
1 AAAAATATAATATTAATGTAATCAA
7839606 AAAAATATAATATTAATGTAATCAA
1 AAAAATATAATATTAATGTAATCAA
7839631 A
1 A
7839632 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAAATATAATATTAATGTAATCAA
Found at i:7843047 original size:24 final size:25
Alignment explanation
Indices: 7843015--7843068 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
7843005 GATTTAGTTA
7843015 TTACATGTCATATTG-AAAATGTAG
1 TTACATGTCATATTGAAAAATGTAG
*
7843039 TTACATGTCATGTTGAAAAATGTAG
1 TTACATGTCATATTGAAAAATGTAG
7843064 TTACA
1 TTACA
7843069 CAACATGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (25 bp):
TTACATGTCATATTGAAAAATGTAG
Found at i:7843102 original size:27 final size:26
Alignment explanation
Indices: 7842998--7843123 Score: 78
Period size: 25 Copynumber: 4.8 Consensus size: 26
7842988 TTACAAGCTT
*
7842998 TGTTGAAGATTTAGTTATTACATGTCA
1 TGTTGAA-ATTTAGTTGTTACATGTCA
* * *
7843025 TATTGAAA-AT-GTAGTTACATGTCA
1 TGTTGAAATTTAGTTGTTACATGTCA
** * ***
7843049 TGTTGAAAAAT-GTAGTTACACAACA
1 TGTTGAAATTTAGTTGTTACATGTCA
*
7843074 TGTTGAAGATTTAGTTGTTACATTTCA
1 TGTTGAA-ATTTAGTTGTTACATGTCA
* *
7843101 TGTTAAAAAATTTAATTGTTACA
1 TGTT--GAAATTTAGTTGTTACA
7843124 CGTTATAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
24 19 0.24
25 21 0.27
26 3 0.04
27 20 0.26
28 13 0.17
29 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (26 bp):
TGTTGAAATTTAGTTGTTACATGTCA
Found at i:7849570 original size:25 final size:25
Alignment explanation
Indices: 7849522--7849570 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7849512 TAAAAATCAA
* *
7849522 TTTCTTTTCTTTTTCTTCCTTTCTT
1 TTTCTTTTCTTCTTCTTCCATTCTT
7849547 TTTCTTTTCTTACTTCTT-CATTCT
1 TTTCTTTTCTT-CTTCTTCCATTCT
7849571 CTTACGTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCTTTTCTTCTTCTTCCATTCTT
Found at i:7852243 original size:28 final size:29
Alignment explanation
Indices: 7852212--7852278 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
7852202 ATGTTAAAGC
7852212 ACTTAATAAAG-TCAAAAGGTGTGAAGAT
1 ACTTAATAAAGTTCAAAAGGTGTGAAGAT
* * *
7852240 ACTTAATAAAGTTCCAAAGGTGTTATGAT
1 ACTTAATAAAGTTCAAAAGGTGTGAAGAT
7852269 ACTTAATAAA
1 ACTTAATAAA
7852279 TCACATCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (29 bp):
ACTTAATAAAGTTCAAAAGGTGTGAAGAT
Found at i:7852446 original size:2 final size:2
Alignment explanation
Indices: 7852398--7852427 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7852388 AAACACAAAT
7852398 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7852428 GCATGCGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7855576 original size:2 final size:2
Alignment explanation
Indices: 7855554--7855605 Score: 72
Period size: 2 Copynumber: 26.5 Consensus size: 2
7855544 TGTATGTATG
*
7855554 TA TA TA GA TA TGA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7855595 TA TA TA TA TA T
1 TA TA TA TA TA T
7855606 GTTTTCATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 2 0.04
2 42 0.93
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7855790 original size:29 final size:28
Alignment explanation
Indices: 7855719--7855848 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 28
7855709 GATAATGTGA
7855719 TTTGTTAGGTGCCTTAGCACTTTTGGA-
1 TTTGTTAGGTGCCTTAGCACTTTTGGAC
* * * * *
7855746 TTTATTAAGTGCTTTAGCTCTTTTGGAAT
1 TTTGTTAGGTGCCTTAGCACTTTTGG-AC
*
7855775 TTTGTTAGGTGCTTTAGCACCTTTT-GAC
1 TTTGTTAGGTGCCTTAGCA-CTTTTGGAC
*
7855803 TTTGTTAGGTACCTTAGCACTTTTGGAAC
1 TTTGTTAGGTGCCTTAGCACTTTTGG-AC
*
7855832 TTTGTTAGTTGCCTTAG
1 TTTGTTAGGTGCCTTAG
7855849 AACCTTTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
27 27 0.31
28 20 0.23
29 34 0.40
30 5 0.06
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.47
Consensus pattern (28 bp):
TTTGTTAGGTGCCTTAGCACTTTTGGAC
Found at i:7855828 original size:57 final size:57
Alignment explanation
Indices: 7855719--7855856 Score: 172
Period size: 57 Copynumber: 2.4 Consensus size: 57
7855709 GATAATGTGA
* * * *
7855719 TTTGTTAGGTGCCTTAGCA-CTTTTGGATTTATTAAGTGCTTTAGCTCTTTTGGAAT
1 TTTGTTAGGTGCCTTAGCACCTTTTGGATTTATTAAGTACCTTAGCACTTTTGGAAC
* * *
7855775 TTTGTTAGGTGCTTTAGCACCTTTT-GACTTTGTTAGGTACCTTAGCACTTTTGGAAC
1 TTTGTTAGGTGCCTTAGCACCTTTTGGA-TTTATTAAGTACCTTAGCACTTTTGGAAC
* *
7855832 TTTGTTAGTTGCCTTAGAACCTTTT
1 TTTGTTAGGTGCCTTAGCACCTTTT
7855857 AATTTTGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 20 0.29
57 50 0.71
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (57 bp):
TTTGTTAGGTGCCTTAGCACCTTTTGGATTTATTAAGTACCTTAGCACTTTTGGAAC
Found at i:7862058 original size:20 final size:21
Alignment explanation
Indices: 7862033--7862081 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7862023 TTCGACAAGG
*
7862033 TTCTAAATTTA-TTT-GGTCT
1 TTCTAAATTGATTTTAGGTCT
7862052 ATTCTAAATTGATTTTAGGTCT
1 -TTCTAAATTGATTTTAGGTCT
7862074 TTCTAAAT
1 TTCTAAAT
7862082 AACAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 11 0.42
22 5 0.19
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (21 bp):
TTCTAAATTGATTTTAGGTCT
Found at i:7864096 original size:27 final size:27
Alignment explanation
Indices: 7864042--7864158 Score: 96
Period size: 27 Copynumber: 4.4 Consensus size: 27
7864032 ACACACGATG
* * * * *
7864042 TTGAAAGTGTAATTGTTAAATGTTATA
1 TTGAAAATTTAATTGTTACATATAATA
*
7864069 TTGAAAATTTAATTGTTACACATAATA
1 TTGAAAATTTAATTGTTACATATAATA
** * *
7864096 TTGAAGGTTT-A--GTTGCATATCATA
1 TTGAAAATTTAATTGTTACATATAATA
** *
7864120 TTGAAAATTTAATTGTTACATGCAATG
1 TTGAAAATTTAATTGTTACATATAATA
7864147 TTGAAAATTTAA
1 TTGAAAATTTAA
7864159 CGTTCACGTC
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
24 18 0.26
25 1 0.01
26 1 0.01
27 49 0.71
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (27 bp):
TTGAAAATTTAATTGTTACATATAATA
Found at i:7864100 original size:54 final size:51
Alignment explanation
Indices: 7864025--7864139 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
7864015 TATTAGAAAC
* * * *
7864025 AATTGTTACACACGATGTTGAAAGTGTAATT-GTTAAATGTTATATTGAAAATTT
1 AATTGTTACACACAATATTG-AAG-GT--TTAGTTAAATATCATATTGAAAATTT
* **
7864079 AATTGTTACACATAATATTGAAGGTTTAGTTGCATATCATATTGAAAATTT
1 AATTGTTACACACAATATTGAAGGTTTAGTTAAATATCATATTGAAAATTT
7864130 AATTGTTACA
1 AATTGTTACA
7864140 TGCAATGTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 2 0.04
51 29 0.55
52 2 0.04
53 3 0.06
54 17 0.32
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (51 bp):
AATTGTTACACACAATATTGAAGGTTTAGTTAAATATCATATTGAAAATTT
Found at i:7868266 original size:2 final size:2
Alignment explanation
Indices: 7868259--7868301 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7868249 TTTGTCTGCT
7868259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7868301 T
1 T
7868302 TCAAGCAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7878099 original size:29 final size:28
Alignment explanation
Indices: 7878067--7878125 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
7878057 TATGATAATA
7878067 TTAAAATAATATT-TTA-ATTTTTATTTATT
1 TTAAAA-AATATTATTATA-TTTTA-TTATT
*
7878096 TTAAAAATTATTATTATATTTTATTATT
1 TTAAAAAATATTATTATATTTTATTATT
7878124 TT
1 TT
7878126 TTATTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 12 0.44
29 14 0.52
30 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTAAAAAATATTATTATATTTTATTATT
Found at i:7878857 original size:26 final size:26
Alignment explanation
Indices: 7878821--7878900 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 26
7878811 TTGTCACATC
*
7878821 ATAAGAATTAAATTAAAAAAAATAAT
1 ATAAAAATTAAATTAAAAAAAATAAT
7878847 ATAAAAATTAAATTGAATAAAATATCATAAT
1 ATAAAAATTAAATT-AA-AAAA-A--ATAAT
* * *
7878878 ACATAAATTAAATTAAACAAAAT
1 ATAAAAATTAAATTAAAAAAAAT
7878901 TTTATCGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
26 15 0.33
27 2 0.04
28 5 0.11
29 4 0.09
30 2 0.04
31 17 0.38
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (26 bp):
ATAAAAATTAAATTAAAAAAAATAAT
Found at i:7878877 original size:31 final size:31
Alignment explanation
Indices: 7878842--7878900 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7878832 ATTAAAAAAA
* * *
7878842 ATAATATAAAAATTAAATTGAATAAAATATC
1 ATAATACAAAAATTAAATTAAACAAAATATC
*
7878873 ATAATACATAAATTAAATTAAACAAAAT
1 ATAATACAAAAATTAAATTAAACAAAAT
7878901 TTTATCGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (31 bp):
ATAATACAAAAATTAAATTAAACAAAATATC
Found at i:7880290 original size:21 final size:21
Alignment explanation
Indices: 7880219--7880280 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
7880209 AGTTACAATC
7880219 AATTACAAAAATATAAACTTT
1 AATTACAAAAATATAAACTTT
* *
7880240 AATTACAAAAAGAT-AACTTC
1 AATTACAAAAATATAAACTTT
*
7880260 ACTTACAAAAATATAAACTTT
1 AATTACAAAAATATAAACTTT
7880281 TGTTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
AATTACAAAAATATAAACTTT
Found at i:7880716 original size:17 final size:17
Alignment explanation
Indices: 7880694--7880734 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
7880684 TAATTATATT
7880694 AAAAATATATAAAAATA
1 AAAAATATATAAAAATA
* *
7880711 AAAAATATGTAAAAGTA
1 AAAAATATATAAAAATA
7880728 AAAAATA
1 AAAAATA
7880735 ATTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAAATATATAAAAATA
Found at i:7884109 original size:14 final size:15
Alignment explanation
Indices: 7884090--7884121 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7884080 AAATAATATT
7884090 TTAATTAA-TATTAA
1 TTAATTAATTATTAA
7884104 TTAATTAATTATTAA
1 TTAATTAATTATTAA
7884119 TTA
1 TTA
7884122 TAAAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTAATTATTAA
Found at i:7891899 original size:185 final size:183
Alignment explanation
Indices: 7891561--7891930 Score: 516
Period size: 185 Copynumber: 2.0 Consensus size: 183
7891551 ATATTTACCC
*
7891561 TTCCACTGGCCAAGCGAATCTCTAGAACACCACCAGTCATTGCTTGCTCAGTTGATTTCTGATAG
1 TTCCACTGGCCAAGCGAATCTCTAGAACACCACCAGTCACTGCTTGCTCAGTTGATTTCTGATAG
* *
7891626 GCTCCATCAGTATTTAGCAAGATTCAATCCACGACTAGAGGGGACCAACTTATCAAAATTTCTGT
66 GCTCCATCAGTATTTAGCAAGATTCAATCAACGACTAGAGGAGACCAACTTATCAAAATTTCTGT
* *
7891691 TCGACTGTCATGCTGTTGTTTCCCAT-TTCTGAAGCTCACAAAACATCCATTGTG
131 TCGACTGTCAT-CTGTAGTTTCCCATATTC-GAAACTCACAAAACATCCATTGTG
* * *
7891745 TTCCATTGGCCAAGCGAATCTTTAAGAACACCACCAGTCGCTGCTTGCTCAGTTGATTT-TCGAT
1 TTCCACTGGCCAAGCGAATCTCT-AGAACACCACCAGTCACTGCTTGCTCAGTTGATTTCT-GAT
* * *
7891809 AGGCTCCATTAGTATTTAGCAAGA-TCTAATTAATGACTAGAGGAGACCAACTTATCAAAACTTT
64 AGGCTCCATCAGTATTTAGCAAGATTC-AATCAACGACTAGAGGAGACCAACTTATCAAAA-TTT
* *
7891873 -TGTTCGACTGCTACAT-TGTAGTTTCCCATATTCGAAACTTACAGAACATCCATTGTG
127 CTGTTCGACTG-T-CATCTGTAGTTTCCCATATTCGAAACTCACAAAACATCCATTGTG
7891930 T
1 T
7891931 ATAGCTGAGA
Statistics
Matches: 166, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
184 24 0.14
185 132 0.80
186 7 0.04
187 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (183 bp):
TTCCACTGGCCAAGCGAATCTCTAGAACACCACCAGTCACTGCTTGCTCAGTTGATTTCTGATAG
GCTCCATCAGTATTTAGCAAGATTCAATCAACGACTAGAGGAGACCAACTTATCAAAATTTCTGT
TCGACTGTCATCTGTAGTTTCCCATATTCGAAACTCACAAAACATCCATTGTG
Found at i:7892217 original size:14 final size:13
Alignment explanation
Indices: 7892198--7892243 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
7892188 TAATAAAAAA
7892198 TAAAATTAATAAAT
1 TAAAATTAAT-AAT
7892212 TAAAATTAAT--T
1 TAAAATTAATAAT
*
7892223 TATAAAATAATAAT
1 TA-AAATTAATAAT
7892237 TAAAATT
1 TAAAATT
7892244 TAAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.11
12 7 0.26
13 4 0.15
14 13 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATTAATAAT
Found at i:7892227 original size:18 final size:19
Alignment explanation
Indices: 7892186--7892239 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
7892176 TTATGATATT
7892186 ATTAATAAAA-AATAA--A
1 ATTAATAAAATAATAATTA
*
7892202 ATTAATAAATTAA-AATTA
1 ATTAATAAAATAATAATTA
*
7892220 ATTTATAAAATAATAATTA
1 ATTAATAAAATAATAATTA
7892239 A
1 A
7892240 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
18 12 0.39
19 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAATAAAATAATAATTA
Found at i:7899606 original size:37 final size:37
Alignment explanation
Indices: 7899556--7899664 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
7899546 TATCCTACAC
7899556 AATAATTGTATAAAGTAATATCATTTGCATTTATATA
1 AATAATTGTATAAAGTAATATCATTTGCATTTATATA
*
7899593 AATAATTGTATAAAGTAATATCATTTGCATTTATATC
1 AATAATTGTATAAAGTAATATCATTTGCATTTATATA
*
7899630 AATAATTGTATAAAGTAATATCATTTGCGTTTATA
1 AATAATTGTATAAAGTAATATCATTTGCATTTATA
7899665 ATCAATATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.43
Consensus pattern (37 bp):
AATAATTGTATAAAGTAATATCATTTGCATTTATATA
Found at i:7900126 original size:18 final size:18
Alignment explanation
Indices: 7900103--7900144 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7900093 GCAGTAGCAA
**
7900103 ATGAAGGCCTTTTTGCAG
1 ATGAAGGCCTCATTGCAG
*
7900121 ATGAAGGCCTCATTGCAT
1 ATGAAGGCCTCATTGCAG
7900139 ATGAAG
1 ATGAAG
7900145 TAGACTTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
ATGAAGGCCTCATTGCAG
Found at i:7900331 original size:21 final size:21
Alignment explanation
Indices: 7900279--7900334 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
7900269 TGTAAACCTA
* *
7900279 CCAACAACTCTTGATGTAGAC
1 CCAACAACTCTTGACGGAGAC
** * *
7900300 CCATGAGCTCTTGACGGAGAG
1 CCAACAACTCTTGACGGAGAC
7900321 CCAACAACTCTTGA
1 CCAACAACTCTTGA
7900335 TGAAGATTCA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (21 bp):
CCAACAACTCTTGACGGAGAC
Found at i:7901178 original size:42 final size:42
Alignment explanation
Indices: 7901126--7901207 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
7901116 TATAATTTGC
* *
7901126 TAATTAGTCCTTACGCTTAATTGAACCATTTAATTAAGTTGT
1 TAATTAGTCCTTACACTTAATTAAACCATTTAATTAAGTTGT
* ** *
7901168 TAATTGGTCCTTGTACTTAATTAAATCATTTAATTAAGTT
1 TAATTAGTCCTTACACTTAATTAAACCATTTAATTAAGTT
7901208 CAATTGAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (42 bp):
TAATTAGTCCTTACACTTAATTAAACCATTTAATTAAGTTGT
Found at i:7902659 original size:37 final size:38
Alignment explanation
Indices: 7902597--7902676 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
7902587 GTAGAATATA
* *
7902597 TATTGAATATAAATACAATTGATATTACTTTATGCAAT
1 TATTGAATATAAATACAAATAATATTACTTTATGCAAT
*
7902635 TATTG-ATATAAATGCAAATAATATTACTTTATGCAAT
1 TATTGAATATAAATACAAATAATATTACTTTATGCAAT
7902672 TATTG
1 TATTG
7902677 TGTAGAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (38 bp):
TATTGAATATAAATACAAATAATATTACTTTATGCAAT
Found at i:7903004 original size:23 final size:23
Alignment explanation
Indices: 7902978--7903041 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
7902968 TTATATTTCC
7902978 ATTCAATATTTCAACAATTTTGA
1 ATTCAATATTTCAACAATTTTGA
* * *
7903001 ATTCAAT-TTACAATAATTTTGC
1 ATTCAATATTTCAACAATTTTGA
7903023 ATTCAATATTTCAACAATT
1 ATTCAATATTTCAACAATT
7903042 CATAACAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTCAATATTTCAACAATTTTGA
Found at i:7906141 original size:2 final size:2
Alignment explanation
Indices: 7906120--7906165 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
7906110 GTCCAAAGAC
7906120 GA GA GA -A GA GA -A GA GA -A GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7906159 GA GA GA G
1 GA GA GA G
7906166 GGAAGGAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7916629 original size:27 final size:27
Alignment explanation
Indices: 7916591--7916642 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7916581 AGGCTGGAAA
7916591 CGGGTGTAGTGTAGCAAGACATGTACT
1 CGGGTGTAGTGTAGCAAGACATGTACT
7916618 CGGGTGTAGTGTAGCAAGACATGTA
1 CGGGTGTAGTGTAGCAAGACATGTA
7916643 TTATGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.35, T:0.25
Consensus pattern (27 bp):
CGGGTGTAGTGTAGCAAGACATGTACT
Found at i:7922598 original size:3 final size:3
Alignment explanation
Indices: 7922590--7922614 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7922580 CCCTTCGCTT
7922590 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7922615 ATATAAAATT
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:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7925599 original size:27 final size:28
Alignment explanation
Indices: 7925559--7925613 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
7925549 CCCGAACCAG
7925559 TTTACCTTAAACAAG-CCCAAAATCCTC
1 TTTACCTTAAACAAGACCCAAAATCCTC
* *
7925586 TTTACTTTATACAAGACCCAAAATCCTC
1 TTTACCTTAAACAAGACCCAAAATCCTC
7925614 ATTTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (28 bp):
TTTACCTTAAACAAGACCCAAAATCCTC
Found at i:7925752 original size:2 final size:2
Alignment explanation
Indices: 7925745--7925775 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7925735 GCAGAGGAGC
*
7925745 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7925776 ACGAGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7942697 original size:2 final size:2
Alignment explanation
Indices: 7942692--7942730 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7942682 TTTTTTTCTT
7942692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7942731 TGTGGAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7946138 original size:84 final size:84
Alignment explanation
Indices: 7945991--7946210 Score: 345
Period size: 84 Copynumber: 2.6 Consensus size: 84
7945981 GGGTATAGTT
7945991 TTGCTGCCACTGTTTCAAGGGTTGGTTGGTCCAGTTACACTTACGAAGTTTGGAAAGAAAGGAAC
1 TTGCTGCCACTGTTTCAAGGGTTGGTTGGT-CAGTTACACTTACGAAGTTTGGAAAGAAAGGAAC
7946056 T-CTAGAAAGCACTATAACAA
65 TCCT-GAAAGCACTATAACAA
* * *
7946076 TTGCTGCTACTGTTTCAA-GGTTGGTTGGTACAGTTACACATACGAAGTTTGGAAAGACAGGAAC
1 TTGCTGCCACTGTTTCAAGGGTTGGTTGGT-CAGTTACACTTACGAAGTTTGGAAAGAAAGGAAC
*
7946140 TCCTGGAAGCACTATAACAA
65 TCCTGAAAGCACTATAACAA
*
7946160 TTGCTGCCACTGTTTCAAGGGTTGGTTGGTCGAGTTACACTTAAGAAGTTT
1 TTGCTGCCACTGTTTCAAGGGTTGGTTGGTC-AGTTACACTTACGAAGTTT
7946211 CATACAAAAT
Statistics
Matches: 124, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 77 0.62
85 47 0.38
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (84 bp):
TTGCTGCCACTGTTTCAAGGGTTGGTTGGTCAGTTACACTTACGAAGTTTGGAAAGAAAGGAACT
CCTGAAAGCACTATAACAA
Found at i:7948498 original size:35 final size:35
Alignment explanation
Indices: 7948422--7948515 Score: 91
Period size: 35 Copynumber: 2.6 Consensus size: 35
7948412 TAGTCTTAGG
* * * **
7948422 ACAAGATTAAAGCAAAGAATAGCCTAAAGATTAAA
1 ACAAGATTAAAGCAAAGAATAACCCAAACAAGAAA
*
7948457 ACAAGATTAAAGCAAAGCATAACCCAAACAAGAACA
1 ACAAGATTAAAGCAAAGAATAACCCAAACAAGAA-A
7948493 A-AAGATAATTAAAGCAAAGAATA
1 ACAAG---ATTAAAGCAAAGAATA
7948516 TATGCCTTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 31 0.65
36 2 0.04
38 15 0.31
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.14
Consensus pattern (35 bp):
ACAAGATTAAAGCAAAGAATAACCCAAACAAGAAA
Found at i:7956777 original size:16 final size:17
Alignment explanation
Indices: 7956750--7956782 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7956740 GGTGCCGATC
7956750 AAGAGAAAGAAGAAAGA
1 AAGAGAAAGAAGAAAGA
7956767 AAGAG-AAGAAGAAAGA
1 AAGAGAAAGAAGAAAGA
7956783 GAGTGGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AAGAGAAAGAAGAAAGA
Found at i:7956862 original size:6 final size:6
Alignment explanation
Indices: 7956829--7956865 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
7956819 GGAAGGAAGA
7956829 AGAAAG A-AAA- AGAAAG AGAAAG AGAAAG AGAAAG AGA
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG AGA
7956866 GAGGAAGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 6 0.21
6 22 0.76
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:7956926 original size:20 final size:19
Alignment explanation
Indices: 7956887--7956935 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
7956877 AACGGTGCCG
*
7956887 GAGAAAA-AAGAGGAAGAA
1 GAGAAAAGAAGAGGAAAAA
7956905 GAGAAAAGAAGAAGGAAAAA
1 GAGAAAAGAAG-AGGAAAAA
7956925 GAGAAAGAGAA
1 GAGAAA-AGAA
7956936 ACGCTTGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 3 0.11
20 13 0.48
21 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAGAAAAGAAGAGGAAAAA
Found at i:7957683 original size:61 final size:61
Alignment explanation
Indices: 7957581--7957825 Score: 316
Period size: 61 Copynumber: 4.0 Consensus size: 61
7957571 TATTTGATTG
* * * *
7957581 AAAAAGGAGACCTAAAGCTTCGATTTATATTGGGTGGCGTGGACAGTTCCCACGAGTAGGT
1 AAAAAGGAGACCTGAAGCCTCGATTTATATTGGGTGGCATGGGCAGTTCCCACGAGTAGGT
* * * * *
7957642 AAAAAGGGGACCTGAAGCCTCGATTTATATTGAGTGACGTGGGCAATTCCCACGAGTAGGT
1 AAAAAGGAGACCTGAAGCCTCGATTTATATTGGGTGGCATGGGCAGTTCCCACGAGTAGGT
* * * *
7957703 AAAAAAGATACCTGAAACCTCGATTTATATTGGGTGGCATGGGCAGATCCCACGAGTAGGT
1 AAAAAGGAGACCTGAAGCCTCGATTTATATTGGGTGGCATGGGCAGTTCCCACGAGTAGGT
* *
7957764 --AAAGGAGAACCTGTAGCCCCGATTTATATTGGGTGGCATGGGCAGATT-CCACGAGTAGGT
1 AAAAAGGAG-ACCTGAAGCCTCGATTTATATTGGGTGGCATGGGCAG-TTCCCACGAGTAGGT
7957824 AA
1 AA
7957826 TGTCGTAACG
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
59 5 0.03
60 46 0.29
61 107 0.68
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (61 bp):
AAAAAGGAGACCTGAAGCCTCGATTTATATTGGGTGGCATGGGCAGTTCCCACGAGTAGGT
Found at i:7957813 original size:122 final size:120
Alignment explanation
Indices: 7957600--7957825 Score: 328
Period size: 121 Copynumber: 1.9 Consensus size: 120
7957590 ACCTAAAGCT
* * * *
7957600 TCGATTTATATTGGGTGGCGTGGACAGTTCCCACGAGTAGGTAAAAAGGGGACCTGAAGCCTCGA
1 TCGATTTATATTGGGTGGCATGGACAGATCCCACGAGTAGGT-AAAAGGGAACCTGAAGCCCCGA
*
7957665 TTTATATTGAGTGACGTGGGCAATTCCCACGAGTAGGTAAAAAAGATACCTGAAACC
65 TTTATATTGAGTGACATGGGCAATT-CCACGAGTAGGTAAAAAAGATACCTGAAACC
* *
7957722 TCGATTTATATTGGGTGGCATGGGCAGATCCCACGAGTAGGT-AAAGGAGAACCTGTAGCCCCGA
1 TCGATTTATATTGGGTGGCATGGACAGATCCCACGAGTAGGTAAAAGG-GAACCTGAAGCCCCGA
* *
7957786 TTTATATTGGGTGGCATGGGCAGATTCCACGAGTAGGTAA
65 TTTATATTGAGTGACATGGGCA-ATTCCACGAGTAGGTAA
7957826 TGTCGTAACG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
120 5 0.05
121 46 0.49
122 42 0.45
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (120 bp):
TCGATTTATATTGGGTGGCATGGACAGATCCCACGAGTAGGTAAAAGGGAACCTGAAGCCCCGAT
TTATATTGAGTGACATGGGCAATTCCACGAGTAGGTAAAAAAGATACCTGAAACC
Found at i:7958559 original size:16 final size:16
Alignment explanation
Indices: 7958521--7958551 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7958511 TTTTATGGAT
7958521 TATTTTTTATTTTTTA
1 TATTTTTTATTTTTTA
7958537 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
7958552 TCTGTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TATTTTTTATTTTTTA
Found at i:7960672 original size:20 final size:20
Alignment explanation
Indices: 7960647--7960693 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
7960637 AATGAGTATA
7960647 ATTTCTTGCTTAATTAGTTT
1 ATTTCTTGCTTAATTAGTTT
7960667 ATTTCTTGCTTAATTAGTTT
1 ATTTCTTGCTTAATTAGTTT
7960687 ATTTCTT
1 ATTTCTT
7960694 TTACCAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.62
Consensus pattern (20 bp):
ATTTCTTGCTTAATTAGTTT
Found at i:7969481 original size:10 final size:10
Alignment explanation
Indices: 7969461--7969529 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
7969451 GCTTGCTTTG
7969461 TCTTCTTTTTT
1 TCTT-TTTTTT
7969472 TCTTTTTTTT
1 TCTTTTTTTT
*
7969482 TCTTTCTTTT
1 TCTTTTTTTT
* *
7969492 CCTTTTTCTT
1 TCTTTTTTTT
7969502 TCTTTCCTTTCTT
1 TCTTT--TTT-TT
* *
7969515 TCTCTTTCTT
1 TCTTTTTTTT
7969525 TCTTT
1 TCTTT
7969530 CTCTCCCAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
10 32 0.70
11 6 0.13
12 2 0.04
13 6 0.13
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:7969487 original size:4 final size:4
Alignment explanation
Indices: 7969463--7969531 Score: 67
Period size: 4 Copynumber: 18.0 Consensus size: 4
7969453 TTGCTTTGTC
* *
7969463 TTCT TTTT TTCT TT-T TT-T TTCT TTCTT TTCC TT-T TTCT TTCT TTCCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT TT-CT
7969510 TTCT TTC- -TCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT
7969532 CTCCCAGCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 2 0.04
3 8 0.15
4 37 0.67
5 8 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:7969497 original size:19 final size:19
Alignment explanation
Indices: 7969463--7969529 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
7969453 TTGCTTTGTC
*
7969463 TTCTTT-TTTTCTTTTTTT
1 TTCTTTCTTTTCCTTTTTT
7969481 TTCTTTCTTTTCCTTTTTCT
1 TTCTTTCTTTTCCTTTTT-T
* *
7969501 TTCTTTCCTTT-CTTTCTCT
1 TTCTTTCTTTTCCTTT-TTT
7969520 TTCTTTCTTT
1 TTCTTTCTTT
7969530 CTCTCCCAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 6 0.14
19 24 0.57
20 12 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTCTTTTCCTTTTTT
Found at i:7969571 original size:17 final size:17
Alignment explanation
Indices: 7969549--7969582 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7969539 CCGCTCCCCC
7969549 TTTCTTCTCTCTTTCTT
1 TTTCTTCTCTCTTTCTT
*
7969566 TTTCTTTTCTCTTTCTT
1 TTTCTTCTCTCTTTCTT
7969583 CTCCTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTCTCTCTTTCTT
Found at i:7969582 original size:21 final size:21
Alignment explanation
Indices: 7969549--7969622 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
7969539 CCGCTCCCCC
*
7969549 TTTCTTCTCTCTTTCTTTTTCT
1 TTTC-TCTTTCTTTCTTTTTCT
*
7969571 TTTCTCTTTC-TTCTCCTTTCT
1 TTTCTCTTTCTTTCT-TTTTCT
* *
7969592 TTCCTCTTTCTTTCTTTCTC-
1 TTTCTCTTTCTTTCTTTTTCT
*
7969612 CTTCTCTTTCT
1 TTTCTCTTTCT
7969623 CTCCTTTCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 13 0.30
21 22 0.51
22 8 0.19
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTCTCTTTCTTTCTTTTTCT
Found at i:7969589 original size:17 final size:17
Alignment explanation
Indices: 7969556--7969589 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7969546 CCCTTTCTTC
* *
7969556 TCTCTTTCTTTTTCTTT
1 TCTCTTTCTTCTCCTTT
7969573 TCTCTTTCTTCTCCTTT
1 TCTCTTTCTTCTCCTTT
7969590 CTTTCCTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TCTCTTTCTTCTCCTTT
Found at i:7969629 original size:29 final size:25
Alignment explanation
Indices: 7969483--7969631 Score: 88
Period size: 26 Copynumber: 5.7 Consensus size: 25
7969473 CTTTTTTTTT
*
7969483 CTTTCTTTTCCTTTTTCTTTCTT-TC
1 CTTTC-TTTCCTCTTTCTTTCTTCTC
7969508 CTTTCTTT-CTCTTTCTTTCTT-TC
1 CTTTCTTTCCTCTTTCTTTCTTCTC
** *** ***
7969531 TCTCCCAGCCGCTCCCCCTTTCTTCTC
1 -CTTTCTTTC-CTCTTTCTTTCTTCTC
* *
7969558 TCTTTCTTTTTCTTTTCTCTTTCTTCTC
1 -CTTTC-TTTCCTCTT-TCTTTCTTCTC
7969586 CTTTCTTTCCTCTTTCTTTCTTTCTC
1 CTTTCTTTCCTCTTTCTTTC-TTCTC
7969612 CTTCTCTTTCTCTCCTTTCT
1 CTT-TCTTTC-CT-CTTTCT
7969632 CCCTGCTGGC
Statistics
Matches: 93, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
23 14 0.15
24 6 0.06
25 11 0.12
26 25 0.27
27 19 0.20
28 12 0.13
29 6 0.06
ACGTcount: A:0.01, C:0.36, G:0.01, T:0.62
Consensus pattern (25 bp):
CTTTCTTTCCTCTTTCTTTCTTCTC
Found at i:7969631 original size:21 final size:21
Alignment explanation
Indices: 7969572--7969633 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
7969562 TCTTTTTCTT
7969572 TTCTCTTTCTTCTCCTTTCT--
1 TTCTCTTTC-TCTCCTTTCTCC
*
7969592 TTCCTCTTTCT-TTCTTTCTCC
1 TT-CTCTTTCTCTCCTTTCTCC
7969613 TTCTCTTTCTCTCCTTTCTCC
1 TTCTCTTTCTCTCCTTTCTCC
7969634 CTGCTGGCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.19
20 11 0.31
21 18 0.50
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTCTTTCTCTCCTTTCTCC
Found at i:7996140 original size:25 final size:22
Alignment explanation
Indices: 7996096--7996144 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 22
7996086 ATAAATATTT
7996096 ATTTTTTATTATATTTAATTAA
1 ATTTTTTATTATATTTAATTAA
*
7996118 ATTTTTATATTTTATTTTAAATTAA
1 ATTTTT-TATTATA-TTT-AATTAA
7996143 AT
1 AT
7996145 AAAATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 6 0.26
24 3 0.13
25 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTTATTATATTTAATTAA
Found at i:7996229 original size:9 final size:9
Alignment explanation
Indices: 7996209--7996257 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
7996199 TTAAATAATA
7996209 AAATATTTTT
1 AAATA-TTTT
7996219 AAATATTTT
1 AAATATTTT
*
7996228 AAATAATTTA
1 AAAT-ATTTT
*
7996238 AAAAATTTT
1 AAATATTTT
7996247 AAAGTATTTT
1 AAA-TATTTT
7996257 A
1 A
7996258 TTTTTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (9 bp):
AAATATTTT
Found at i:7996245 original size:19 final size:19
Alignment explanation
Indices: 7996209--7996249 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7996199 TTAAATAATA
* * *
7996209 AAATATTTTTAAATATTTT
1 AAATAATTTAAAAAATTTT
7996228 AAATAATTTAAAAAATTTT
1 AAATAATTTAAAAAATTTT
7996247 AAA
1 AAA
7996250 GTATTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATTTAAAAAATTTT
Found at i:7997316 original size:23 final size:22
Alignment explanation
Indices: 7997255--7997326 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
7997245 TTTTCGTAGA
*
7997255 AAATGTTTTATATATTTTTATTTT
1 AAAT-TTTTATATATTTTT-TTTG
* *
7997279 ATAATTATAAT-TATTTTTTTATG
1 A-AATTTTTATATATTTTTTT-TG
*
7997302 AAATTTTTATATA-TTGTTTTG
1 AAATTTTTATATATTTTTTTTG
7997323 AAAT
1 AAAT
7997327 GAAGTATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 6 0.15
22 14 0.36
23 11 0.28
24 5 0.13
25 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (22 bp):
AAATTTTTATATATTTTTTTTG
Found at i:7998463 original size:11 final size:12
Alignment explanation
Indices: 7998440--7998469 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
7998430 TTAATTTTTT
7998440 AAAATTTTGATA
1 AAAATTTTGATA
7998452 AAAATTTT-ATA
1 AAAATTTTGATA
7998463 AAAATTT
1 AAAATTT
7998470 ATTAGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
AAAATTTTGATA
Found at i:7998565 original size:19 final size:20
Alignment explanation
Indices: 7998536--7998582 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7998526 AATAAAAAAA
*
7998536 TTAAAATATTTTTTATTA-AT
1 TTAAAA-ATTTATTATTATAT
*
7998556 TTAAAAATTTATTGTTATAT
1 TTAAAAATTTATTATTATAT
7998576 TTAAAAA
1 TTAAAAA
7998583 ATAAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAAAAATTTATTATTATAT
Found at i:7998582 original size:21 final size:20
Alignment explanation
Indices: 7998536--7998584 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7998526 AATAAAAAAA
* *
7998536 TTAAAATATTTTTTATTAAT
1 TTAAAAAATTTATTATTAAT
*
7998556 TT-AAAAATTTATTGTTATAT
1 TTAAAAAATTTATTATTA-AT
7998576 TTAAAAAAT
1 TTAAAAAAT
7998585 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.50
20 6 0.25
21 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAAAAAATTTATTATTAAT
Found at i:8006889 original size:6 final size:6
Alignment explanation
Indices: 8006874--8006904 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8006864 TCACTTGGAC
*
8006874 CATCTA CATCTG CATCTA CATCTA CATCTA C
1 CATCTA CATCTA CATCTA CATCTA CATCTA C
8006905 TGACTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.03, T:0.32
Consensus pattern (6 bp):
CATCTA
Found at i:8007889 original size:17 final size:18
Alignment explanation
Indices: 8007856--8007890 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8007846 CAAAATGAAA
8007856 GATAAATGAACTAAAATG
1 GATAAATGAACTAAAATG
*
8007874 GATAAAT-AATTAAAATG
1 GATAAATGAACTAAAATG
8007891 TAACACCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.57, C:0.03, G:0.14, T:0.26
Consensus pattern (18 bp):
GATAAATGAACTAAAATG
Found at i:8008671 original size:61 final size:61
Alignment explanation
Indices: 8008576--8008698 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 61
8008566 AAATGAATTC
* *
8008576 CTCCATGTCAACATGTTCAAAGCATATCCATGATAAATCCTTGTCCACGTTTCGAGCTTCA
1 CTCCATGCCAACATGTTCAAAGCATATCCATGATAAATCCTTGTCCACGTTCCGAGCTTCA
* * * **
8008637 CTCCATGCCAATATGTTCAAGGCATA-CTTATGATACGTCCTTGTCCACGTTCCGAGCTTCA
1 CTCCATGCCAACATGTTCAAAGCATATC-CATGATAAATCCTTGTCCACGTTCCGAGCTTCA
8008698 C
1 C
8008699 CAGTGAAGCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (61 bp):
CTCCATGCCAACATGTTCAAAGCATATCCATGATAAATCCTTGTCCACGTTCCGAGCTTCA
Found at i:8008927 original size:2 final size:2
Alignment explanation
Indices: 8008920--8008953 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8008910 AAAAACAAAT
8008920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8008954 TCAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8017877 original size:21 final size:20
Alignment explanation
Indices: 8017843--8017881 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8017833 TAATTTTGTG
8017843 AAAATTTTACTAACCAAAAAT
1 AAAATTTTACTAA-CAAAAAT
8017864 AAAATATTTA-TAACAAAA
1 AAAAT-TTTACTAACAAAA
8017882 GAATGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTTTACTAACAAAAAT
Found at i:8020902 original size:6 final size:6
Alignment explanation
Indices: 8020897--8020928 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8020887 AATTTTAAAA
*
8020897 CCAAAA CCAAAT CCAAAT CCAAAT CCAAAT CC
1 CCAAAT CCAAAT CCAAAT CCAAAT CCAAAT CC
8020929 CACCCTCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (6 bp):
CCAAAT
Found at i:8023553 original size:23 final size:23
Alignment explanation
Indices: 8023508--8023553 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8023498 AAATTGCTTG
*
8023508 TATTGATATTCATGGGTATAAAA
1 TATTGATATTCATGAGTATAAAA
*
8023531 TATTGATATTGATCGAGTA-AAAA
1 TATTGATATTCAT-GAGTATAAAA
8023554 CGACAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (23 bp):
TATTGATATTCATGAGTATAAAA
Found at i:8047445 original size:29 final size:29
Alignment explanation
Indices: 8047413--8047477 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8047403 GTCAATATTC
* * *
8047413 TTTTATTGCATTCAATAAAGTCTTTATAT
1 TTTTATTGCATTAAAAAAAATCTTTATAT
***
8047442 TTTTATTTTTTTAAAAAAAATCTTTATAT
1 TTTTATTGCATTAAAAAAAATCTTTATAT
8047471 TTTTATT
1 TTTTATT
8047478 TTAGATCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTTATTGCATTAAAAAAAATCTTTATAT
Found at i:8047855 original size:28 final size:29
Alignment explanation
Indices: 8047803--8047857 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8047793 TTTAATTTAA
*
8047803 AATAAAAATACAAGAGCTTGATTTAAAGT
1 AATAAAAATACAAAAGCTTGATTTAAAGT
*
8047832 AATAAAAGTACAAAAGCTT-ATTTAAA
1 AATAAAAATACAAAAGCTTGATTTAAA
8047858 TTTATCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (29 bp):
AATAAAAATACAAAAGCTTGATTTAAAGT
Found at i:8050140 original size:34 final size:33
Alignment explanation
Indices: 8050097--8050187 Score: 139
Period size: 34 Copynumber: 2.7 Consensus size: 33
8050087 GATAAACATT
8050097 TTGTATGGCAATGTCAATAGGGAAGCTAAATATC
1 TTGTATGGCAATGTCAATAGGGAAGCTAAAT-TC
8050131 TTGTATGGCAATGTCAATAGGAGAAGCTAAATTC
1 TTGTATGGCAATGTCAATAGG-GAAGCTAAATTC
**
8050165 TTGTACAGCAATGTCAAT-GGGAA
1 TTGTATGGCAATGTCAATAGGGAA
8050188 ACTACATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 3 0.06
33 2 0.04
34 39 0.72
35 10 0.19
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (33 bp):
TTGTATGGCAATGTCAATAGGGAAGCTAAATTC
Found at i:8058228 original size:21 final size:21
Alignment explanation
Indices: 8058203--8058247 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8058193 TTTAAAACTT
*
8058203 TTTAAAAATAAATATTTATAA
1 TTTAAAAATAAATATTTAAAA
**
8058224 TTTAAAAATATTTATTTAAAA
1 TTTAAAAATAAATATTTAAAA
8058245 TTT
1 TTT
8058248 TACTTTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAAATAAATATTTAAAA
Found at i:8058228 original size:31 final size:30
Alignment explanation
Indices: 8058173--8058230 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
8058163 TTATTATTTA
*
8058173 TTTAATAAATAATTTTTTAATTTAAAACTT
1 TTTAATAAATAATTTTATAATTTAAAACTT
8058203 TTTAA-AAATAAATATTTATAATTTAAAA
1 TTTAATAAAT-AAT-TTTATAATTTAAAA
8058231 ATATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 8 0.32
31 13 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTAATAAATAATTTTATAATTTAAAACTT
Found at i:8059264 original size:24 final size:24
Alignment explanation
Indices: 8059232--8059312 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
8059222 TGTGACATGA
8059232 TTGTGACACGACAGGGTTTAAAGT
1 TTGTGACACGACAGGGTTTAAAGT
* **
8059256 TTGTGACACGACATGGTTGGAA-T
1 TTGTGACACGACAGGGTTTAAAGT
* * * *
8059279 GTGTGACATGGCAGGGTTTACAGT
1 TTGTGACACGACAGGGTTTAAAGT
8059303 TTGTGACACG
1 TTGTGACACG
8059313 CAATGGAGGG
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 16 0.36
24 28 0.64
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30
Consensus pattern (24 bp):
TTGTGACACGACAGGGTTTAAAGT
Found at i:8059325 original size:47 final size:47
Alignment explanation
Indices: 8059232--8059474 Score: 247
Period size: 47 Copynumber: 5.2 Consensus size: 47
8059222 TGTGACATGA
* * * * **
8059232 TTGTGACACGACAGGGTTTAAAGTTTGTGACACG-ACATGGTTGGAAT
1 TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCA-ATGGAGGGAAT
* * * * * *
8059279 GTGTGACATGGCAGGGTTTACAGTTTGTGACACGCAATGGAGGGAAT
1 TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCAATGGAGGGAAT
* * *
8059326 TTGTGACACGTCAACGTTCAGAGTTCGTGACACGTAATGGAGGGAAT
1 TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCAATGGAGGGAAT
* * *
8059373 TTGTGACACGTCAGCGTTCAGAGTTTGTGACACCCCATGAAGGGAAT
1 TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCAATGGAGGGAAT
* * * * *
8059420 CTT-TGACACGCCAGCATTCAGAGTTCGTGACACGCCATGGAAGGAAT
1 -TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCAATGGAGGGAAT
8059467 TTGTGACA
1 TTGTGACA
8059475 TGCCTGTGTT
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
46 2 0.01
47 161 0.97
48 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
TTGTGACACGTCAGCGTTCAGAGTTTGTGACACGCAATGGAGGGAAT
Found at i:8059360 original size:24 final size:24
Alignment explanation
Indices: 8059325--8059405 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
8059315 ATGGAGGGAA
8059325 TTTGTGACACGTCAACGTTCAGAG
1 TTTGTGACACGTCAACGTTCAGAG
* * **** *
8059349 TTCGTGACACGT-AATGGAGGGAA
1 TTTGTGACACGTCAACGTTCAGAG
*
8059372 TTTGTGACACGTCAGCGTTCAGAG
1 TTTGTGACACGTCAACGTTCAGAG
8059396 TTTGTGACAC
1 TTTGTGACAC
8059406 CCCATGAAGG
Statistics
Matches: 41, Mismatches: 15, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
23 16 0.39
24 25 0.61
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (24 bp):
TTTGTGACACGTCAACGTTCAGAG
Found at i:8059383 original size:23 final size:23
Alignment explanation
Indices: 8059302--8059383 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
8059292 GGGTTTACAG
*
8059302 TTTGTGACACGCAATGGAGGGAA
1 TTTGTGACACGTAATGGAGGGAA
* **** *
8059325 TTTGTGACACGTCAACGTTCAGAG
1 TTTGTGACACGT-AATGGAGGGAA
*
8059349 TTCGTGACACGTAATGGAGGGAA
1 TTTGTGACACGTAATGGAGGGAA
8059372 TTTGTGACACGT
1 TTTGTGACACGT
8059384 CAGCGTTCAG
Statistics
Matches: 43, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
23 27 0.63
24 16 0.37
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (23 bp):
TTTGTGACACGTAATGGAGGGAA
Found at i:8059505 original size:94 final size:94
Alignment explanation
Indices: 8059300--8059505 Score: 234
Period size: 94 Copynumber: 2.2 Consensus size: 94
8059290 CAGGGTTTAC
* * * * * * *
8059300 AGTTTGTGACACGCAATGGAGGGAATTTGTGACACGTCAACGTTCAGAGTTCGTGACACGTAATG
1 AGTTTGTCACACCCCATGAAGGGAATTTGTGACACGCCAACATTCAGAGTTCGTGACACGCAATG
* * *
8059365 GAGGGAATTTGTGACACGTCAGCGTTCAG
66 GAAGGAATTTGTGACACGCCAGCGTTCAA
* * *
8059394 AGTTTGTGACACCCCATGAAGGGAATCTT-TGACACGCCAGCATTCAGAGTTCGTGACACGCCAT
1 AGTTTGTCACACCCCATGAAGGGAAT-TTGTGACACGCCAACATTCAGAGTTCGTGACACGCAAT
* * *
8059458 GGAAGGAATTTGTGACATGCCTGTGTTCAA
65 GGAAGGAATTTGTGACACGCCAGCGTTCAA
* *
8059488 AGTTTGTCAGACTCCATG
1 AGTTTGTCACACCCCATG
8059506 GAGATCCGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 92 0.98
95 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (94 bp):
AGTTTGTCACACCCCATGAAGGGAATTTGTGACACGCCAACATTCAGAGTTCGTGACACGCAATG
GAAGGAATTTGTGACACGCCAGCGTTCAA
Found at i:8060235 original size:31 final size:31
Alignment explanation
Indices: 8060165--8060392 Score: 323
Period size: 31 Copynumber: 7.4 Consensus size: 31
8060155 ATGTTAGCGT
* * *
8060165 TGGCGTGTTATAACATTTGAC-TTGATACGCA
1 TGGCGTGTTACAACATTTTACGTT-ATATGCA
* *
8060196 TGGTGTGTTACAATATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
8060227 TCGCGTGTTACAATATTTTACGTTATATGTA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
8060258 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
8060289 TGACGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
8060320 TGGCGTGTTACCACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* * *
8060351 AGACGTGTTGCAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
8060382 TGGCGTGTTAC
1 TGGCGTGTTAC
8060393 GTTATATGCA
Statistics
Matches: 175, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
31 173 0.99
32 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:8060392 original size:21 final size:21
Alignment explanation
Indices: 8060368--8060412 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8060358 TTGCAACATT
8060368 TTACGTTATATGCATGGCGTG
1 TTACGTTATATGCATGGCGTG
*
8060389 TTACGTTATATGCATGGTGTG
1 TTACGTTATATGCATGGCGTG
8060410 TTA
1 TTA
8060413 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (21 bp):
TTACGTTATATGCATGGCGTG
Found at i:8060419 original size:52 final size:52
Alignment explanation
Indices: 8060337--8060440 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
8060327 TTACCACATT
*
8060337 TTACGTTATATGCAAGACGTGTTGCAACATTTTACGTTATATGCATGGCGTG
1 TTACGTTATATGCAAGACGTGTTGCAACATTTTACATTATATGCATGGCGTG
* ** *
8060389 TTACGTTATATGCATGGTGTGTTATC-ACATTTTACATTATATGCATGGCGTG
1 TTACGTTATATGCAAGACGTGTT-GCAACATTTTACATTATATGCATGGCGTG
8060441 CTACCACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (52 bp):
TTACGTTATATGCAAGACGTGTTGCAACATTTTACATTATATGCATGGCGTG
Found at i:8060432 original size:31 final size:31
Alignment explanation
Indices: 8060389--8060450 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
8060379 GCATGGCGTG
* * * *
8060389 TTACGTTATATGCATGGTGTGTTATCACATT
1 TTACATTATATGCATGGCGTGCTACCACATT
8060420 TTACATTATATGCATGGCGTGCTACCACATT
1 TTACATTATATGCATGGCGTGCTACCACATT
8060451 ATGGGTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (31 bp):
TTACATTATATGCATGGCGTGCTACCACATT
Found at i:8062103 original size:145 final size:145
Alignment explanation
Indices: 8061865--8062126 Score: 355
Period size: 145 Copynumber: 1.8 Consensus size: 145
8061855 GTTTTAAAGG
* **
8061865 TTTGTGTTCAACAATTGCATATGTGATTATCGAATAATATATCTGTGTTTGTAGTTGGACCATGC
1 TTTGTGTTCAACAATTGCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCATGC
* * * * * *
8061930 AACGACAACTTCACAACTACTGATAGGTCTTTC-TCAGACTCACAATGCTAACGAGGAGCATGTA
66 AACGACAACTCCACAACCACTAAGAGGTC-CTCATCAGACACACAATGCTAACGAGGAGCATGTA
8061994 AGGATGGTTATAACGA
130 AGGATGGTTATAACGA
* * *
8062010 TTTGTGTTTAACAATTTCATATGTGATTATCGAATAACATATTTGTGTTTACAGTTGGACCATGC
1 TTTGTGTTCAACAATTGCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCATGC
* * * * *
8062075 AACGATAGCTCCTCAACCATTAAGAGGTCCTCATCAGACACACAGTGCTAAC
66 AACGACAACTCCACAACCACTAAGAGGTCCTCATCAGACACACAATGCTAAC
8062127 AACCCATCGA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
144 2 0.02
145 97 0.98
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (145 bp):
TTTGTGTTCAACAATTGCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCATGC
AACGACAACTCCACAACCACTAAGAGGTCCTCATCAGACACACAATGCTAACGAGGAGCATGTAA
GGATGGTTATAACGA
Found at i:8062159 original size:145 final size:143
Alignment explanation
Indices: 8061864--8062193 Score: 339
Period size: 145 Copynumber: 2.3 Consensus size: 143
8061854 GGTTTTAAAG
* * **
8061864 GTTTGTGTTCAACAATTGCATATGTGATTATCGAATAATATATCTGTGTTTGTAGTTGGACCATG
1 GTTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCATG
* * * * * * *
8061929 CAACGACAACTTCACAACTACTGATAGGTCTTTCTCAGACTCACAATGCTAACGAGGAGCATGTA
66 CAACGACAACTCCACAACCACTAAGAGGTCTCTCTCAGACACACAATGCTAACGA-GACCATGTA
8061994 AGGATGGTTATAAC
130 AGGATGGTTATAAC
* *
8062008 GATTTGTGTTTAACAATTTCATATGTGATTATCGAATAACATATTTGTGTTTACAGTTGGACCAT
1 G-TTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCAT
* * * * *
8062073 GCAACGATAGCTCCTCAACCATTAAGAGGTC-CTCATCAGACACACAGTGCTAAC-A-ACCCATC
65 GCAACGACAACTCCACAACCACTAAGAGGTCTCTC-TCAGACACACAATGCTAACGAGA-CCAT-
*
8062135 GATAA-GATCGGTTCTAAC
127 G-TAAGGAT-GGTTATAAC
* *
8062153 AGTTTGTGTTCAACATTTCTACATATGT--TTATCGAGTAACA
1 -GTTTGTGTTCAACAATT-T-CATATGTGATTATCGAATAACA
8062194 CATTAATTTT
Statistics
Matches: 155, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 8 0.05
145 134 0.86
146 2 0.01
147 7 0.05
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (143 bp):
GTTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGACCATG
CAACGACAACTCCACAACCACTAAGAGGTCTCTCTCAGACACACAATGCTAACGAGACCATGTAA
GGATGGTTATAAC
Found at i:8064526 original size:117 final size:117
Alignment explanation
Indices: 8064261--8064678 Score: 552
Period size: 117 Copynumber: 3.6 Consensus size: 117
8064251 CCACTCAACG
* * * * *
8064261 TGTCACCCCATAATACAGCAAAAAGTAAGCATGTCACCATAG-AATCTGCATGCACTCAACGTGT
1 TGTCACCCCACAATACTGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAACGTGT
*
8064325 CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGACTTGCCA
66 CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGG-CATGCCA
* * * * * * *
8064378 TGTCAGCCCACAACACTGCAAGAAGTTAGCGTGTCACCACAGAAATCTGAATACACTCAGCGTGT
1 TGTCACCCCACAATACTGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAACGTGT
* *
8064443 CACGCCAACTATCTGCTTCCACTCAGCTTG-CACCACAAGATAGGGCATGCCG
66 CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGAT-GGGCATGCCA
* * * *
8064495 TGTCACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATTTGTATGCACTCAGCGTGT
1 TGTCACCCCACAATACTGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAACGTGT
* * * *
8064560 CACGCCAACTATCTACTTCCACTTAGCGTGTCACCATAAGATGGGGCGTGCCA
66 CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGAT-GGGCATGCCA
* * * *
8064613 TGTCACCTCATAATAATGCAAAAAGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAACGTGT
1 TGTCACCCCACAATACTGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAACGTGT
8064678 C
66 C
8064679 CGCTTAACAT
Statistics
Matches: 263, Mismatches: 35, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
117 136 0.52
118 127 0.48
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (117 bp):
TGTCACCCCACAATACTGCAAAAAGTCAGCGTGTCACCACAGAAATCTGCATGCACTCAACGTGT
CACGCCAACTATCTGCTTCCACTCAGCGTGTCACCACAAGATGGGCATGCCA
Found at i:8064938 original size:3 final size:3
Alignment explanation
Indices: 8064930--8064954 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8064920 CTTGGTACAA
8064930 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8064955 TTGTTAAGTG
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:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8068524 original size:31 final size:31
Alignment explanation
Indices: 8068486--8068655 Score: 225
Period size: 31 Copynumber: 5.5 Consensus size: 31
8068476 ATTGTCAATC
*
8068486 ATGTTGTAACACGGCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
8068517 ATGTTGTAACACGCCAAGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * * *
8068548 ATGTTGCAACATGCCATGTAGATAACGT-AA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
** * *
8068578 ATGTTGTAACACATCATCCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
8068609 ATGTTGTAACATGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
8068640 ATGTTCTAACACGCCA
1 ATGTTGTAACACGCCA
8068656 ACGCTGACAC
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
30 22 0.19
31 94 0.81
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:8068600 original size:61 final size:62
Alignment explanation
Indices: 8068486--8068657 Score: 211
Period size: 61 Copynumber: 2.8 Consensus size: 62
8068476 ATTGTCAATC
* * * * * * *
8068486 ATGTTGTAACACGGCATGCATATAACGTAAAATGTTGTAACACGCCAAGCATATAACGTAAA
1 ATGTTGCAACATGCCATGCAGATAACGTAAAATGTTGTAACACACCAACCATATAACATAAA
* * *
8068548 ATGTTGCAACATGCCATGTAGATAACGT-AAATGTTGTAACACATCATCCATATAACATAAA
1 ATGTTGCAACATGCCATGCAGATAACGTAAAATGTTGTAACACACCAACCATATAACATAAA
* * * *
8068609 ATGTTGTAACATGCCATGCATATAACGTAAAATGTTCTAACACGCCAAC
1 ATGTTGCAACATGCCATGCAGATAACGTAAAATGTTGTAACACACCAAC
8068658 GCTGACACGC
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 53 0.58
62 39 0.42
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (62 bp):
ATGTTGCAACATGCCATGCAGATAACGTAAAATGTTGTAACACACCAACCATATAACATAAA
Found at i:8069107 original size:63 final size:63
Alignment explanation
Indices: 8069002--8069124 Score: 183
Period size: 63 Copynumber: 2.0 Consensus size: 63
8068992 CCACAACCCA
* *
8069002 ATGACGATGGTGCTCAACAGAGAGTTTACAGAGCTCACACAGTTCAGAGAGCTGAGAGAGTTG
1 ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAAACAGTTCAGAGAGCTGAGAGAGTTG
* * * * *
8069065 ATGACGATGGTGCTCAATAGAGGGTTGACAGAGTTGAAACAGTTCAGAGAGTTGAGAGAG
1 ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAAACAGTTCAGAGAGCTGAGAGAG
8069125 AAAAATGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (63 bp):
ATGACGATGGTGCTCAACAGAGAGTTGACAGAGCTCAAACAGTTCAGAGAGCTGAGAGAGTTG
Found at i:8069499 original size:29 final size:29
Alignment explanation
Indices: 8069444--8069499 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
8069434 AAAGTTATAT
*
8069444 TAAATCAAGTTAAGAGAAAAAGGTGTACA
1 TAAATCAAGTTAAGAGAAAAAGCTGTACA
* *
8069473 TAAA-CAAGTGTAAGATAATAAGCTGTA
1 TAAATCAAGT-TAAGAGAAAAAGCTGTA
8069500 TATGAACAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (29 bp):
TAAATCAAGTTAAGAGAAAAAGCTGTACA
Found at i:8069973 original size:35 final size:35
Alignment explanation
Indices: 8069934--8070042 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 35
8069924 ACTCTAGTTA
* * *
8069934 TTCTGCATGAAACATTGCTTCACTTGTTTTAATTG
1 TTCTGCATGAAATACTGCTTCACTTATTTTAATTG
* * *
8069969 TTCTGCAT-AAAGTAGTGTTTCACTTATTCTAATTG
1 TTCTGCATGAAA-TACTGCTTCACTTATTTTAATTG
* * * *
8070004 TTCTACATGAAGTACTGCTTTACTTCTTTTAATTG
1 TTCTGCATGAAATACTGCTTCACTTATTTTAATTG
8070039 TTCT
1 TTCT
8070043 TATTATTATT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 3 0.05
35 55 0.92
36 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.48
Consensus pattern (35 bp):
TTCTGCATGAAATACTGCTTCACTTATTTTAATTG
Found at i:8070911 original size:9 final size:8
Alignment explanation
Indices: 8070898--8070955 Score: 71
Period size: 8 Copynumber: 6.9 Consensus size: 8
8070888 AAGGAGGAAA
8070898 AAAAAAAG
1 AAAAAAAG
*
8070906 ACAAAAAG
1 AAAAAAAG
*
8070914 AAAAAAGGG
1 AAAAAA-AG
8070923 AAAAAAAG
1 AAAAAAAG
8070931 AAAAAAAGG
1 AAAAAAA-G
8070940 AAAAAAGAG
1 AAAAAA-AG
8070949 AAAAAAA
1 AAAAAAA
8070956 TTCATTCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 21 0.49
9 21 0.49
10 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8070919 original size:18 final size:16
Alignment explanation
Indices: 8070897--8070954 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
8070887 AAAGGAGGAA
*
8070897 AAAAAAAAGACAAAAAG
1 AAAAAAAGGA-AAAAAG
*
8070914 AAAAAAGGGAAAAAAAG
1 AAAAAAAGG-AAAAAAG
8070931 AAAAAAAGGAAAAAAG
1 AAAAAAAGGAAAAAAG
8070947 AGAAAAAA
1 A-AAAAAA
8070955 ATTCATTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 8 0.22
17 27 0.75
18 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAGGAAAAAAG
Found at i:8070937 original size:26 final size:25
Alignment explanation
Indices: 8070898--8070955 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
8070888 AAGGAGGAAA
* *
8070898 AAAAAAAGACAAAAAGAAAAAAGGG
1 AAAAAAAGAAAAAAAGAAAAAAGAG
8070923 AAAAAAAGAAAAAAAGGAAAAAAGAG
1 AAAAAAAGAAAAAAA-GAAAAAAGAG
8070949 AAAAAAA
1 AAAAAAA
8070956 TTCATTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAGAAAAAAGAG
Found at i:8071053 original size:19 final size:19
Alignment explanation
Indices: 8071016--8071054 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8071006 GTATACTTAT
* *
8071016 AAAGGAGGAAAAAGGAAAA
1 AAAGGAGAAAAAAAGAAAA
*
8071035 AAAGGAGAAAAAAATAAAA
1 AAAGGAGAAAAAAAGAAAA
8071054 A
1 A
8071055 GGTTTAGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (19 bp):
AAAGGAGAAAAAAAGAAAA
Found at i:8071122 original size:25 final size:23
Alignment explanation
Indices: 8071073--8071138 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
8071063 ATATAATAGA
* *
8071073 AAAAAAAGTAAAAAAAAAGGTAGG
1 AAAAAAAG-AGAAAAAAAGGAAGG
8071097 ATAAAAAAGAGAAAAAAAGGAAAGG
1 A-AAAAAAGAGAAAAAAAGG-AAGG
8071122 AAAAGAGAAG-GAAAAAA
1 AAAA-A-AAGAGAAAAAA
8071139 TGAAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 14 0.39
25 19 0.53
26 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (23 bp):
AAAAAAAGAGAAAAAAAGGAAGG
Found at i:8071126 original size:35 final size:35
Alignment explanation
Indices: 8071072--8071152 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
8071062 TATATAATAG
* *
8071072 AAAAAAAAGTAAAAAAAAAG-GTAGGATAAAAAAGA
1 AAAAAAAAGGAAAAAAAAAGAGAAGGA-AAAAAAGA
* ** *
8071107 GAAAAAAAGGAAAGGAAAAGAGAAGGAAAAAATGA
1 AAAAAAAAGGAAAAAAAAAGAGAAGGAAAAAAAGA
8071142 AAAATAAAAGG
1 AAAA-AAAAGG
8071153 GTTTAATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 26 0.70
36 11 0.30
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (35 bp):
AAAAAAAAGGAAAAAAAAAGAGAAGGAAAAAAAGA
Found at i:8071969 original size:18 final size:20
Alignment explanation
Indices: 8071943--8071984 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
8071933 GAAGAAAAAC
*
8071943 TTTTGAGCA-TTTGGAGC-A
1 TTTTAAGCATTTTGGAGCAA
8071961 TTTTAAGCATTTTGGAGCAA
1 TTTTAAGCATTTTGGAGCAA
8071981 TTTT
1 TTTT
8071985 TGATACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTTAAGCATTTTGGAGCAA
Found at i:8071997 original size:60 final size:60
Alignment explanation
Indices: 8071899--8072022 Score: 167
Period size: 60 Copynumber: 2.1 Consensus size: 60
8071889 AACTTTTATA
* * ** * *
8071899 CATTTTGAGCATTTTGGGGTTATTTTTTATACAAGAAGAAAAACTTTTGAGCATTTGGAG
1 CATTTTAAGCATTTTGGAGCAATTTTTGATACAAGAAGAAAAACTTTTAAGCATTTGGAG
* * *
8071959 CATTTTAAGCATTTTGGAGCAATTTTTGATACATGAAGAAAACCTTTTAAGCATTTTGAG
1 CATTTTAAGCATTTTGGAGCAATTTTTGATACAAGAAGAAAAACTTTTAAGCATTTGGAG
8072019 CATT
1 CATT
8072023 ATTCGCCAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (60 bp):
CATTTTAAGCATTTTGGAGCAATTTTTGATACAAGAAGAAAAACTTTTAAGCATTTGGAG
Found at i:8072170 original size:22 final size:22
Alignment explanation
Indices: 8072142--8072277 Score: 85
Period size: 22 Copynumber: 6.1 Consensus size: 22
8072132 GTATTACGAA
*
8072142 ATTAGTTTTTGGGCATTGCGTG
1 ATTAGTTTTTAGGCATTGCGTG
* *
8072164 ATTAGTTTTTAAGCATTGAGTG
1 ATTAGTTTTTAGGCATTGCGTG
* * *
8072186 ACTAATTTTTAGGTATTGCGTG
1 ATTAGTTTTTAGGCATTGCGTG
* ** * *
8072208 ACT-GATTGATATGACATTGCGTT
1 ATTAG-TTTTTA-GGCATTGCGTG
* * ** *
8072231 ACTAATTGATAGGTATTGCGTG
1 ATTAGTTTTTAGGCATTGCGTG
* *
8072253 ACTAGTTTTTAGGCATTGTGTG
1 ATTAGTTTTTAGGCATTGCGTG
8072275 ATT
1 ATT
8072278 TAAACATTGT
Statistics
Matches: 87, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
22 70 0.80
23 17 0.20
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (22 bp):
ATTAGTTTTTAGGCATTGCGTG
Found at i:8082061 original size:17 final size:17
Alignment explanation
Indices: 8082035--8082074 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8082025 TAAAAACGTG
*
8082035 TTTTTT-TTTAAATTAA
1 TTTTTTATTTAAAATAA
*
8082051 TTTTTTATTTAAAATCA
1 TTTTTTATTTAAAATAA
8082068 TTTTTTA
1 TTTTTTA
8082075 ATCCCAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATTTAAAATAA
Found at i:8082101 original size:55 final size:57
Alignment explanation
Indices: 8082012--8082128 Score: 166
Period size: 56 Copynumber: 2.1 Consensus size: 57
8082002 GAATGAGGTT
* * * * *
8082012 TTTTTTAATCCCATAAAAACGTGTTTTTTTTTAAATTAATTTTTTATTTA-AAATCA
1 TTTTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTAGAAATCA
8082068 TTTTTTAATCCCAGAAAAAAG-CTTTTTTTTTAAATCAATTTTTTACTTAGAAATCA
1 TTTTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTAGAAATCA
*
8082124 ATTTT
1 TTTTT
8082129 AATGTGTTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 25 0.46
56 29 0.54
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (57 bp):
TTTTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTAGAAATCA
Found at i:8082129 original size:55 final size:56
Alignment explanation
Indices: 8082014--8082131 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 56
8082004 ATGAGGTTTT
* * * * * *
8082014 TTTTAATCCCATAAAAACGTGTTTTTTTTTAAATTAATTTTTTATTTAAAATCATT
1 TTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTAAAATCATA
8082070 TTTTAATCCCAGAAAAAAG-CTTTTTTTTTAAATCAATTTTTTACTTAGAAATCA-A
1 TTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTA-AAATCATA
8082125 TTTTAAT
1 TTTTAAT
8082132 GTGTTCCTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
55 32 0.58
56 23 0.42
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (56 bp):
TTTTAATCCCAGAAAAAAGTCTTTTTTTTTAAATCAATTTTTTACTTAAAATCATA
Found at i:8082381 original size:8 final size:8
Alignment explanation
Indices: 8082368--8082402 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8082358 ATTATATTAT
8082368 AAAATTTA
1 AAAATTTA
8082376 AAAATTTA
1 AAAATTTA
*
8082384 AAAAATTA
1 AAAATTTA
*
8082392 AAATTTTA
1 AAAATTTA
8082400 AAA
1 AAA
8082403 CATAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTTA
Found at i:8085191 original size:56 final size:55
Alignment explanation
Indices: 8085101--8085213 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 55
8085091 TATGAACGAT
* *
8085101 AAAACTTACGTAAATGAATAATAATTGAATATAATATTAAAAAATAATATACAAA
1 AAAACTTACGTAAATGAATAATAATTAAAGATAATATTAAAAAATAATATACAAA
* * * * *
8085156 AAAATCTTATGTAAATGAATGATTATTAAAGATAATATTTAAAATTAATATACAAA
1 AAAA-CTTACGTAAATGAATAATAATTAAAGATAATATTAAAAAATAATATACAAA
8085212 AA
1 AA
8085214 GATACGGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (55 bp):
AAAACTTACGTAAATGAATAATAATTAAAGATAATATTAAAAAATAATATACAAA
Done.