Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 300 of 322
Found at i:99681179 original size:24 final size:23
Alignment explanation
Indices: 99681124--99681180 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
99681114 TCTTCTAAAA
*
99681124 TTCAAATTATTTATAAAATATATT
1 TTCAAAAT-TTTATAAAATATATT
99681148 TTCCAAAATTTTATAAAAATATATAT
1 TT-CAAAATTTTAT-AAAATATAT-T
*
99681174 TTAAAAA
1 TTCAAAA
99681181 ATTAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.25
25 18 0.64
26 3 0.11
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
TTCAAAATTTTATAAAATATATT
Found at i:99681180 original size:25 final size:24
Alignment explanation
Indices: 99681133--99681183 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
99681123 ATTCAAATTA
*
99681133 TTTATAAAATATATTTTCCAAAAT
1 TTTATAAAATATATTTTCAAAAAT
*
99681157 TTTATAAAAATATATATTTAAAAAAT
1 TTTAT-AAAATATAT-TTTCAAAAAT
99681183 T
1 T
99681184 AAAATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 9 0.39
26 9 0.39
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTATAAAATATATTTTCAAAAAT
Found at i:99682699 original size:6 final size:6
Alignment explanation
Indices: 99682690--99682718 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
99682680 ATATTTATAT
99682690 AAATTA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATT
99682719 TATATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:99684472 original size:23 final size:24
Alignment explanation
Indices: 99684420--99684474 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
99684410 TATAGAGATT
*
99684420 AATTTTTAATAATAAAAATAGTTA
1 AATTTTTAATAATAAAAATAATTA
* *
99684444 AATTTTTAATAA-AAAATTAATTT
1 AATTTTTAATAATAAAAATAATTA
*
99684467 ATTTTTTA
1 AATTTTTA
99684475 TTTATTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTTTAATAATAAAAATAATTA
Found at i:99684973 original size:7 final size:7
Alignment explanation
Indices: 99684950--99684994 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
99684940 ATAAATATGT
99684950 ATAAA-A
1 ATAAATA
99684956 ATAATATA
1 ATAA-ATA
99684964 ATAAATA
1 ATAAATA
99684971 ATAAATA
1 ATAAATA
99684978 ATAAATA
1 ATAAATA
*
99684985 ATAAAAA
1 ATAAATA
99684992 ATA
1 ATA
99684995 TTTCAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
6 4 0.11
7 27 0.75
8 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:99688744 original size:16 final size:17
Alignment explanation
Indices: 99688723--99688754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99688713 CGGCAAGGTT
99688723 AGGAAT-GATGAAATGG
1 AGGAATGGATGAAATGG
99688739 AGGAATGGATGAAATG
1 AGGAATGGATGAAATG
99688755 TGATTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.19
Consensus pattern (17 bp):
AGGAATGGATGAAATGG
Found at i:99690650 original size:20 final size:21
Alignment explanation
Indices: 99690627--99690681 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
99690617 TTTTGCAATT
*
99690627 AGAGGA-ATCGAAGTGCAAAC
1 AGAGGATACCGAAGTGCAAAC
99690647 AGA-GATACCGAAGTGCAAAC
1 AGAGGATACCGAAGTGCAAAC
*
99690667 AGA-GACACCGAAGTG
1 AGAGGATACCGAAGTG
99690682 AAATCTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.44, C:0.18, G:0.29, T:0.09
Consensus pattern (21 bp):
AGAGGATACCGAAGTGCAAAC
Found at i:99700421 original size:17 final size:18
Alignment explanation
Indices: 99700399--99700444 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
99700389 TCAGGAACAC
*
99700399 CTTGATGACTAAA-GGAG
1 CTTGATGACTAAATGAAG
99700416 CTTGATGACTAAATGAAG
1 CTTGATGACTAAATGAAG
99700434 CTTGATGACTA
1 CTTGATGACTA
99700445 GCTTCTGGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (18 bp):
CTTGATGACTAAATGAAG
Found at i:99705278 original size:28 final size:28
Alignment explanation
Indices: 99705244--99705342 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
99705234 TAGCCCTTTT
** *
99705244 AGGCCCAATTTCATTCATATGACCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
99705272 GGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
99705300 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
99705328 AGGCCCAATCACATT
1 AGGCCCAATCACATT
99705343 TATAGTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:99705602 original size:16 final size:16
Alignment explanation
Indices: 99705565--99705595 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
99705555 CAAACTTCTG
99705565 GCTTTTCGGCATTTCA
1 GCTTTTCGGCATTTCA
99705581 GCTTTTCGGCATTTC
1 GCTTTTCGGCATTTC
99705596 GGGTTTTGCC
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:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:99705883 original size:21 final size:21
Alignment explanation
Indices: 99705854--99705893 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99705844 ACTAAAAAAC
*
99705854 AAGTGACTCACAAATCATCTT
1 AAGTCACTCACAAATCATCTT
**
99705875 AAGTCACTCTTAAATCATC
1 AAGTCACTCACAAATCATC
99705894 CATGAAGATT
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:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTCACTCACAAATCATCTT
Found at i:99728897 original size:40 final size:40
Alignment explanation
Indices: 99728813--99728996 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
99728803 TTGAATGCTG
* * * *
99728813 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
99728852 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
99728893 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
99728933 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
99728973 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
99728997 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:99728950 original size:80 final size:81
Alignment explanation
Indices: 99728813--99728993 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
99728803 TTGAATGCTG
* *
99728813 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
99728877 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
99728893 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
99728954 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
99728973 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
99728994 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:99733397 original size:17 final size:17
Alignment explanation
Indices: 99733375--99733411 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
99733365 TTCATCAATG
99733375 TAAAAACCCTAAACCTT
1 TAAAAACCCTAAACCTT
99733392 TAAAAACCCTAAACCTT
1 TAAAAACCCTAAACCTT
99733409 TAA
1 TAA
99733412 CAATTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAACCCTAAACCTT
Found at i:99734891 original size:14 final size:15
Alignment explanation
Indices: 99734872--99734901 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
99734862 AAAATGAAAG
99734872 AAGGAGGA-GAAGAA
1 AAGGAGGAGGAAGAA
99734886 AAGGAGGAGGAAGAA
1 AAGGAGGAGGAAGAA
99734901 A
1 A
99734902 CTTTTTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
AAGGAGGAGGAAGAA
Found at i:99735035 original size:17 final size:17
Alignment explanation
Indices: 99735013--99735045 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99735003 ATAAATATAC
*
99735013 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
99735030 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
99735046 CGTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:99743302 original size:42 final size:42
Alignment explanation
Indices: 99743238--99743484 Score: 230
Period size: 42 Copynumber: 5.7 Consensus size: 42
99743228 TCGGTATGTA
* * *
99743238 ATTTCATGTAAGACCATATCTGGGATATGGCATTGATATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
99743280 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
99743322 ATTT--TGTATTAGACCATGTCTGGGACATGGCATCGATATGAG
1 ATTTCATGTA--AGACCATGTCTGGGACATGGCATCGATATGAG
* ** * *
99743364 GTTTTGTATAAGACCATGTCTGGGACATGGCATCGGCACCAACATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATC-G-----ATATGAG
* * * * * * *
99743412 ACTCCGTATAAGACCATATTTGGGATATGGCATCGATATGTAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATG-AG
** *
99743455 A-CCCATGTAAGACCATGTCGGGGACATGGC
1 ATTTCATGTAAGACCATGTCTGGGACATGGC
99743485 TTTGACATTT
Statistics
Matches: 173, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.02
42 128 0.74
43 4 0.02
44 3 0.02
47 1 0.01
48 33 0.19
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
Found at i:99748369 original size:40 final size:39
Alignment explanation
Indices: 99748245--99748396 Score: 191
Period size: 40 Copynumber: 3.9 Consensus size: 39
99748235 TTCGGATGAT
99748245 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
* * * *
99748284 ATTCC-GGCTAAG-CCCGAAGGCATTTGTGTGAATTACCA
1 A-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
99748322 AATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
1 AA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
* * *
99748362 TAACCGGGCTATGTCCCGAATGCATTTGAGCGAGT
1 -AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
99748397 AGCTATATCT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
38 26 0.27
39 15 0.16
40 52 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
Found at i:99750099 original size:37 final size:37
Alignment explanation
Indices: 99750038--99750116 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
99750028 TTATTACGAA
* * *
99750038 GTCTTACCCAGACATAATCTCCACACGGAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
* *
99750075 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
99750112 GTCTT
1 GTCTT
99750117 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
Found at i:99750380 original size:47 final size:47
Alignment explanation
Indices: 99750235--99750402 Score: 248
Period size: 47 Copynumber: 3.6 Consensus size: 47
99750225 CCCTTCGGGA
* * * * * * *
99750235 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
99750282 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
99750328 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
99750375 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
99750403 CCAACCCTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 40 0.37
47 69 0.63
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:99750697 original size:39 final size:40
Alignment explanation
Indices: 99750626--99750767 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
99750616 GCTACTCGTT
* * *
99750626 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
99750666 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * * *
99750705 CAAATGCCTTC-GGATCTTAGTCCGAAAATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
99750746 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
99750768 AGACATCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.36
40 41 0.48
41 11 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:99768273 original size:39 final size:40
Alignment explanation
Indices: 99768178--99768335 Score: 211
Period size: 39 Copynumber: 4.0 Consensus size: 40
99768168 TTGAATGATG
* *
99768178 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
99768216 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
99768257 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
99768296 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
99768335 T
1 T
99768336 AGGTCAGTGT
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
39 85 0.78
40 12 0.11
41 11 0.10
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:99774100 original size:48 final size:48
Alignment explanation
Indices: 99774045--99774143 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
99774035 TTTTCCTAGG
* *
99774045 TAATTTAACCTAAAGGTATTTTCGTCATTTTACCACCTATGGTAAAAC
1 TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
* *
99774093 TAATTTAACCTAAGGGTATTTTCATTATTTTACCACCTATGGCAAAAC
1 TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
99774141 TAA
1 TAA
99774144 CCCGATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (48 bp):
TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
Found at i:99791268 original size:20 final size:18
Alignment explanation
Indices: 99791218--99791327 Score: 66
Period size: 19 Copynumber: 5.9 Consensus size: 18
99791208 CTACAAGATA
99791218 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
99791235 AATATTAAGA-TAATCTCTT
1 AATATTAA-ATTAATAT-TT
**
99791254 CAATATTAAATTAATAAAAT
1 -AATATTAAATTAAT-ATTT
*
99791274 ACTATTAAGA-TAAGTATTT
1 AATATTAA-ATTAA-TATTT
* *
99791293 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
*
99791310 AATTATTAAAATAATATT
1 AA-TATTAAATTAATATT
99791328 ATTTTTGGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 20
0.69 0.12 0.20
Matches are distributed among these distances:
17 17 0.24
18 10 0.14
19 28 0.40
20 15 0.21
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:99796118 original size:9 final size:9
Alignment explanation
Indices: 99796104--99796129 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
99796094 AATAAACTTG
99796104 AATGTGGAT
1 AATGTGGAT
99796113 AATGTGGAT
1 AATGTGGAT
99796122 AATGTGGA
1 AATGTGGA
99796130 AAACAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (9 bp):
AATGTGGAT
Found at i:99800878 original size:29 final size:31
Alignment explanation
Indices: 99800829--99800887 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
99800819 AATGTGTATT
99800829 TATTTATTTAATAGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
* *
99800858 TATTTATTTTATTAG-TTAAATGTGGAGATA
1 TATTTA-TTTAATAGATGAAATGTGGAGATA
99800888 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 11 0.44
30 8 0.32
31 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:99802614 original size:26 final size:27
Alignment explanation
Indices: 99802557--99802625 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
99802547 CTATATCTGG
* * *
99802557 CACTTAGTGTGTGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGATATC-AGTATGA
*
99802585 CACTTAGTGTGCGAGATAT-TGTATGA
1 CACTTAGTGTGCGAGATATCAGTATGA
*
99802611 CACTTAGTGTACGAG
1 CACTTAGTGTGCGAG
99802626 GCATTGAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 18 0.50
28 18 0.50
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (27 bp):
CACTTAGTGTGCGAGATATCAGTATGA
Found at i:99805106 original size:17 final size:17
Alignment explanation
Indices: 99805061--99805109 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
99805051 TATAAAGGAT
99805061 AAATAGATTGAAT-T-TG
1 AAAT-GATTGAATGTATG
*
99805077 -AATGA-TGATTGTATG
1 AAATGATTGAATGTATG
99805092 AAATGATTGAATGTATG
1 AAATGATTGAATGTATG
99805109 A
1 A
99805110 GAAAAGCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 5 0.19
16 5 0.19
17 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (17 bp):
AAATGATTGAATGTATG
Found at i:99808365 original size:48 final size:48
Alignment explanation
Indices: 99808309--99808400 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
99808299 GCGTTAATAA
* *
99808309 CATAGCTGGATTTTCATTTCCTTTGTTT-TTTCTCACTCATTTGGCTGC
1 CATAGCTGGATTATCATTTCCTTTGTTTCTTGC-CACTCATTTGGCTGC
**
99808357 CATAGCTGGATTATCATTTTTTTTGTTTCTTGCCACTCATTTGG
1 CATAGCTGGATTATCATTTCCTTTGTTTCTTGCCACTCATTTGG
99808401 TTAGGACTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 36 0.92
49 3 0.08
ACGTcount: A:0.14, C:0.21, G:0.15, T:0.50
Consensus pattern (48 bp):
CATAGCTGGATTATCATTTCCTTTGTTTCTTGCCACTCATTTGGCTGC
Found at i:99819246 original size:25 final size:25
Alignment explanation
Indices: 99819195--99819267 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
99819185 AAAATATTAC
**
99819195 ATTAATATTTTTA-TTTT-TTTAAT
1 ATTAATATAATTATTTTTATTTAAT
*
99819218 ATTAATATGATTATTTTTATTTAAT
1 ATTAATATAATTATTTTTATTTAAT
* *
99819243 ATTAATATAAAT-TTTTTAATTAAT
1 ATTAATATAATTATTTTTATTTAAT
99819267 A
1 A
99819268 AGATTTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.26
24 16 0.37
25 16 0.37
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTAATATAATTATTTTTATTTAAT
Found at i:99823723 original size:138 final size:138
Alignment explanation
Indices: 99823475--99823751 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
99823465 TGAGCTTACT
99823475 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
1 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
*
99823540 CTCGTTAGAGACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
66 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
99823605 ATAATGGC
131 ATAATGGC
99823613 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
1 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
99823678 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
66 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
99823743 ATAATGGC
131 ATAATGGC
99823751 A
1 A
99823752 TGTATAGGGT
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (138 bp):
AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
ATAATGGC
Found at i:99827970 original size:7 final size:7
Alignment explanation
Indices: 99827958--99827987 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
99827948 TTACGATCCC
99827958 CCCTTCA
1 CCCTTCA
99827965 CCCTTCA
1 CCCTTCA
99827972 CCCTTCA
1 CCCTTCA
99827979 CCCTTCA
1 CCCTTCA
99827986 CC
1 CC
99827988 TTACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.60, G:0.00, T:0.27
Consensus pattern (7 bp):
CCCTTCA
Found at i:99829042 original size:15 final size:15
Alignment explanation
Indices: 99829022--99829051 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99829012 TATTTCAAAT
*
99829022 GTTTAATTACTTTTA
1 GTTTAATTAATTTTA
99829037 GTTTAATTAATTTTA
1 GTTTAATTAATTTTA
99829052 ATTTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (15 bp):
GTTTAATTAATTTTA
Found at i:99838206 original size:18 final size:18
Alignment explanation
Indices: 99838183--99838261 Score: 72
Period size: 18 Copynumber: 4.3 Consensus size: 18
99838173 CTTTTATTTC
99838183 AAAAAAAAAGGAAAAAAG
1 AAAAAAAAAGGAAAAAAG
*
99838201 AAAAAAAAAGGGAAAAAG
1 AAAAAAAAAGGAAAAAAG
**
99838219 AATTGAAAAA-GAAAAAA-
1 AA-AAAAAAAGGAAAAAAG
* *
99838236 AAAGAAAACGAGAAAAAGAG
1 AAAAAAAAAG-GAAAAA-AG
99838256 AAAAAA
1 AAAAAA
99838262 GAAAAAAGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
16 5 0.10
17 2 0.04
18 31 0.63
19 6 0.12
20 5 0.10
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGGAAAAAAG
Found at i:99839323 original size:44 final size:44
Alignment explanation
Indices: 99839170--99839793 Score: 277
Period size: 44 Copynumber: 14.2 Consensus size: 44
99839160 CAAGATTTGA
*
99839170 CATCCCTGTGTTTATAGGGAACATA-TCGAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACA-AGTCGAAGATAGCAGATCTGG
* * * ** * **
99839214 CA-CTCTTGTGCTTACAACGAAGC-AGATCAAAGATTTCAG--CATGG
1 CATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC-TGG
* *
99839258 CATCCCTGTGTTTATAAGGAACAAGTCG-AGAATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAG-ATAGCAGATCTGG
* *
99839302 CATCCCTGTGTTTATAGGGAAC-AGATCAAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGATCTGG
* * * * * **
99839346 CATTCCTATGCTTACAGCGAAGC-AGATCGAAGATTTC--ATCATGG
1 CATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC-TGG
* * * * *
99839390 CATCCCTATATTTATAGAGAAC-AGATCAAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGATCTGG
* * * * ** * * **
99839434 CATTCATGTGCTTACAGCAAAGCAAATTGAAGATTTCAG--CATGG
1 CATCCCTGTGTTTATAGGGAA-CAAGTCGAAGATAGCAGATC-TGG
* * * *
99839478 CATCCCTGAGTTTATAGGGAACAAGTTGAAGATAACAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGG
* * *
99839522 CATCCCTGTGTTTATAGGGAATATA-TC-AAAATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACA-AGTCGAAGATAGCAGATCTGG
* * * * * **
99839565 CATTCCTGTGCTTACAGCGAAGC-AGATTGAAGATTTCAG--CATGG
1 CATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC-TGG
* *
99839609 CATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGG
* ** * *
99839653 CATCCCTATGTTTATAGGGAAC-AGATTAAAGATAACAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGATCTGG
* * * ** * **
99839697 CA-CTCCTATGCTTACAATGAAGC-AGATCGAGGATTTCAG--CATGG
1 CATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC-TGG
* * *
99839741 CATCCCTGTGTTTATAGGAAACAAGTTGAAGATAGCAGATTTGG
1 CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGG
*
99839785 CATCTCTGT
1 CATCCCTGT
99839794 ATTGTCAGAG
Statistics
Matches: 427, Mismatches: 115, Indels: 76
0.69 0.19 0.12
Matches are distributed among these distances:
42 3 0.01
43 99 0.23
44 264 0.62
45 60 0.14
46 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
CATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGG
Found at i:99839412 original size:132 final size:132
Alignment explanation
Indices: 99839162--99839405 Score: 389
Period size: 132 Copynumber: 1.8 Consensus size: 132
99839152 CAAAGAAACA
* * * *
99839162 AGATTTGACATCCCTGTGTTTATAGGGAACATATCGAAGATAGCAGATCTGACACTCTTGTGCTT
1 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCCTATGCTT
* *
99839227 ACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTCGAGAATA
66 ACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATAAGGAACAAGTCGAGAATA
99839292 GC
131 GC
* *
99839294 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCCTATGCTT
* * *
99839359 ACAGCGAAGCAGATCGAAGATTTCATCATGGCATCCCTATATTTATA
66 ACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATA
99839406 GAGAACAGAT
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 101 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (132 bp):
AGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCCTATGCTT
ACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATAAGGAACAAGTCGAGAATA
GC
Found at i:99839425 original size:132 final size:132
Alignment explanation
Indices: 99839148--99839436 Score: 388
Period size: 132 Copynumber: 2.2 Consensus size: 132
99839138 GGGACAATGT
* * *
99839148 AGATCAAAGA-AACAAGATTTGACATCCCTGTGTTTATAGGGAACATATCGAAGATAGCAGATCT
1 AGATCAAAGATAGC-AGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCT
* * * *
99839212 GACACTCTTGTGCTTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGG
65 GACACTCCTATGCTTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATAAGG
99839277 AAC
130 AAC
* *
99839280 A-AGTC-GAGAATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATC
1 AGA-TCAAAG-ATAGCAGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATC
* * * *
99839343 TGACATTCCTATGCTTACAGCGAAGCAGATCGAAGATTTCATCATGGCATCCCTATATTTAT-AG
64 TGACACTCCTATGCTTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATAAG
99839407 AGAAC
129 -GAAC
*
99839412 AGATCAAAGATAGCAGATCTGACAT
1 AGATCAAAGATAGCAGATTTGACAT
99839437 TCATGTGCTT
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
131 5 0.04
132 125 0.93
133 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (132 bp):
AGATCAAAGATAGCAGATTTGACATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTG
ACACTCCTATGCTTACAACGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATATTTATAAGGA
AC
Found at i:99839608 original size:131 final size:132
Alignment explanation
Indices: 99839387--99839788 Score: 626
Period size: 132 Copynumber: 3.1 Consensus size: 132
99839377 GATTTCATCA
* * *
99839387 TGGCATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATTCATGTGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
* * * *
99839452 AAAGCAAATTGAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTTGAAGATAACAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99839517 TT
131 TT
* * *
99839519 TGGCATCCCTGTGTTTATAGGGAATATATCAAA-ATAGCAGATCTGACATTCCTGTGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
99839583 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99839648 TT
131 TT
* * * * **
99839650 TGGCATCCCTATGTTTATAGGGAACAGATTAAAGATAACAGATCTGACACTCCTATGCTTACAAT
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
* * *
99839715 GAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGAAACAAGTTGAAGATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99839780 TT
131 TT
99839782 TGGCATC
1 TGGCATC
99839789 TCTGTATTGT
Statistics
Matches: 247, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 122 0.49
132 125 0.51
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (132 bp):
TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:99839744 original size:219 final size:219
Alignment explanation
Indices: 99839170--99839780 Score: 551
Period size: 220 Copynumber: 2.8 Consensus size: 219
99839160 CAAGATTTGA
* * * * * * * * *
99839170 CATCCCTGTGTTTATAGGGAACATATCGAAGATAGCAGATCTGACA-CTCTTGTGCTTACAACGA
1 CATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATC-CATATGCTTACAGCAA
* * ** * * * * *
99839234 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTCG-AGAATAGCAGAT
65 AGCAAATTAAAGATAACAGCATGACATCCCTGAGCTTACAAGGAACAAGTCGAAG-ATAACAGA-
99839298 TTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAG
128 TTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAG
*
99839363 CGAAGCAGATCGAAGATTTCATCATGG
193 CGAAGCAGATCGAAGATTTCAGCATGG
* *
99839390 CATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATTCATGTGCTTACAGCAAA
1 CATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATCCATATGCTTACAGCAAA
* ** * * * * *
99839455 GCAAATTGAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTTGAAGATAACAGATTT
66 GCAAATTAAAGATAACAGCATGACATCCCTGAGCTTACAAGGAACAAGTCGAAGATAACAGA-TT
* * *
99839520 GGCATCCCTGTGTTTATAGGGAATATATCAAA-ATAGCAGATCTGACATTCCTGTGCTTACAGCG
130 GGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGCG
*
99839584 AAGCAGATTGAAGATTTCAGCATGG
195 AAGCAGATCGAAGATTTCAGCATGG
* * * ** * * * * * **
99839609 CATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGA
1 CATCCCTATATTTATAGAGAACAGA-TCAAAGATAGCAGATCTGACATCCATATGCTTACAGCAA
* * * **
99839673 A-CAGATTAAAGATAACAG-ATCTGACA-CTCCT-ATGCTTACAATGAAGC-AGATCGAGGATTT
65 AGCAAATTAAAGATAACAGCA--TGACATC-CCTGA-GCTTACAAGGAA-CAAG-TCGAAGATAA
* **
99839733 CAGCA-TGGCATCCCTGTGTTTATAGGAAACA-AGTTGAAGATAGCAGAT
124 CAG-ATTGGCATCCCTGTGTTTATAGGGAACAGA-TCAAAGATAGCAGAT
99839781 TTGGCATCTC
Statistics
Matches: 327, Mismatches: 52, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
217 1 0.00
218 17 0.05
219 147 0.45
220 159 0.49
221 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (219 bp):
CATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATCCATATGCTTACAGCAAA
GCAAATTAAAGATAACAGCATGACATCCCTGAGCTTACAAGGAACAAGTCGAAGATAACAGATTG
GCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGCGA
AGCAGATCGAAGATTTCAGCATGG
Found at i:99839755 original size:88 final size:87
Alignment explanation
Indices: 99839299--99839780 Score: 345
Period size: 88 Copynumber: 5.5 Consensus size: 87
99839289 ATAGCAGATT
* *
99839299 TGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATTAAAGATAGCAGATCTGACA-TCCTGTGCTTACAGC
*
99839364 GAAGCAGATCGAAGATTTCATCA
65 GAAGCAGATCGAAGATTTCAGCA
* * * * *
99839387 TGGCATCCCTATATTTATAGAGAACAGATCAAAGATAGCAGATCTGACATTCATGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATTAAAGATAGCAGATCTGACA-TCCTGTGCTTACAGC
* * *
99839452 AAAGCAAATTGAAGATTTCAGCA
65 GAAGCAGATCGAAGATTTCAGCA
* * * * * * *
99839475 TGGCATCCCTGAGTTTATAGGGAACA-AGTTGAAGATAACAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TTAAAGATAGCAGATCTGACAT-CCTGTGCTTACAG
* * * * **
99839539 GGAA-TATATC-AAAATAGCAG-A
64 CGAAGCAGATCGAAGATTTCAGCA
* * * * * * ** * *
99839560 TCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTCAG--CATGGCATCCCTGTGTTTA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAGATTAAAGATAGCAGATC-TGACAT-CCTGTGCTTA
* * * **
99839623 TAGGGAA-CA-AGTTGAAGATAGCAG-A
61 CAGCGAAGCAGA-TCGAAGATTTCAGCA
* * *
99839648 TTTGGCATCCCTATGTTTATAGGGAACAGATTAAAGATAACAGATCTGACACTCCTATGCTTACA
1 --TGGCATCCCTGTGTTTATAGGGAACAGATTAAAGATAGCAGATCTGACA-TCCTGTGCTTACA
** *
99839713 ATGAAGCAGATCGAGGATTTCAGCA
63 GCGAAGCAGATCGAAGATTTCAGCA
* *
99839738 TGGCATCCCTGTGTTTATAGGAAACA-AGTTGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TTAAAGATAGCAGAT
99839781 TTGGCATCTC
Statistics
Matches: 313, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
85 1 0.00
86 8 0.03
87 64 0.20
88 224 0.72
89 14 0.04
90 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (87 bp):
TGGCATCCCTGTGTTTATAGGGAACAGATTAAAGATAGCAGATCTGACATCCTGTGCTTACAGCG
AAGCAGATCGAAGATTTCAGCA
Found at i:99839816 original size:44 final size:44
Alignment explanation
Indices: 99839768--99840006 Score: 188
Period size: 44 Copynumber: 5.4 Consensus size: 44
99839758 GAAACAAGTT
99839768 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
* * *
99839812 GAAGATACCAGATTTGACATCTCTGTATTGGT-GGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATC
* * * * *
99839856 GAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGTTA-A-AGCAAATC
1 GAAG--ATAGCAGATTTGGC-ATCTC-TGTATT--GTCAGAGAGCAGATC
* * * *
99839903 TAAGAT----GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
* * * *
99839943 GAAGATAACATATTTGGCATCTTTGTATTGGCAGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
*
99839987 GAAGCCATAGCTGATTTGGC
1 GAAG--ATAGCAGATTTGGC
99840007 TTTCACGTGT
Statistics
Matches: 153, Mismatches: 26, Indels: 30
0.73 0.12 0.14
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 17 0.11
41 8 0.05
44 76 0.50
45 4 0.03
46 22 0.14
47 15 0.10
48 6 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
Found at i:99839922 original size:131 final size:131
Alignment explanation
Indices: 99839778--99840072 Score: 475
Period size: 131 Copynumber: 2.3 Consensus size: 131
99839768 GAAGATAGCA
*
99839778 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATACCAGATTTGACATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGG
**
99839843 TGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGA
66 CAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGA
99839908 T
131 T
* * * * * *
99839909 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACATATTTGGCATCTTTGTATTGG
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGG
* *
99839974 CAGAGAGCAGATCGAAGCCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGA
66 CAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGA
99840039 T
131 T
99840040 GATTTGGCATCTCTGTATTAGT-AGAGAGCAGAT
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGAT
99840073 AAAAAAATAC
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
131 148 0.99
132 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (131 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTATTGG
CAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGA
T
Found at i:99841659 original size:12 final size:12
Alignment explanation
Indices: 99841591--99841676 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
99841581 TTTTTGTTTA
99841591 TATATATTTCAT
1 TATATATTTCAT
99841603 TATATTATTT-ATT
1 TATA-TATTTCA-T
* *
99841616 TGTATATTTTAT
1 TATATATTTCAT
*
99841628 CTATAAATTAT-ATTT
1 -TATATATT-TCA--T
99841643 TATATATTTCAT
1 TATATATTTCAT
*
99841655 TATATATTTCCT
1 TATATATTTCAT
99841667 TATATTATTT
1 TATA-TATTT
99841677 TTGTGTATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 27 0.45
13 23 0.38
14 9 0.15
15 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (12 bp):
TATATATTTCAT
Found at i:99841918 original size:21 final size:21
Alignment explanation
Indices: 99841899--99841956 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
99841889 ATACTTTATC
*
99841899 TATAATACAATTTATATTATTA
1 TATATTAC-ATTTATATTATTA
*
99841921 TATATTACATTTATA-AATT-
1 TATATTACATTTATATTATTA
99841940 T-TATTACATATTATATT
1 TATATTACAT-TTATATT
99841957 TTACCATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 3 0.10
21 7 0.23
22 7 0.23
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTACATTTATATTATTA
Found at i:99843509 original size:46 final size:47
Alignment explanation
Indices: 99843403--99843524 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
99843393 TGTCTTCGAC
** * *
99843403 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
99843453 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
99843499 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
99843525 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:99845466 original size:24 final size:26
Alignment explanation
Indices: 99845410--99845467 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
99845400 AATCCTTTTC
*
99845410 TCTCTTCTTCTTCCTCCTCCTCTTCTT
1 TCTCTTCTTCTTCCTCCT-CTCTTCCT
* *
99845437 TTTCTTCTTCTTCCTCGT-TC-TCCT
1 TCTCTTCTTCTTCCTCCTCTCTTCCT
99845461 TCTCTTC
1 TCTCTTC
99845468 AACTTCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.33
25 2 0.07
27 16 0.59
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.57
Consensus pattern (26 bp):
TCTCTTCTTCTTCCTCCTCTCTTCCT
Found at i:99846090 original size:7 final size:7
Alignment explanation
Indices: 99846073--99846109 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
99846063 AAATATGGAC
99846073 TAAATTAT
1 TAAA-TAT
99846081 TAAATAT
1 TAAATAT
99846088 TAAATAT
1 TAAATAT
99846095 TAAATAT
1 TAAATAT
99846102 TAAATAT
1 TAAATAT
99846109 T
1 T
99846110 TAAGTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAAATAT
Found at i:99846462 original size:21 final size:21
Alignment explanation
Indices: 99846438--99846479 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
99846428 CCCTAAAAAT
*
99846438 CTAACACTTAACCCCTAACCC
1 CTAACACTTAAACCCTAACCC
*
99846459 CTAACCCTTAAACCCTAACCC
1 CTAACACTTAAACCCTAACCC
99846480 TTAAACCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAACACTTAAACCCTAACCC
Found at i:99846463 original size:14 final size:14
Alignment explanation
Indices: 99846446--99846486 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
99846436 ATCTAACACT
*
99846446 TAACCCCTAACCCC
1 TAACCCCTAAACCC
*
99846460 TAACCCTTAAACCC
1 TAACCCCTAAACCC
*
99846474 TAACCCTTAAACC
1 TAACCCCTAAACC
99846487 GTAATCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCCCTAAACCC
Found at i:99846502 original size:22 final size:22
Alignment explanation
Indices: 99846474--99846527 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
99846464 CCTTAAACCC
*
99846474 TAACCCTTAAA-CCGTAATCCA
1 TAACCCTTAAACCCATAATCCA
99846495 TAATCCC-TAAACCCATAATCCA
1 TAA-CCCTTAAACCCATAATCCA
*
99846517 TAAACCTTAAA
1 TAACCCTTAAA
99846528 ATAGTAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (22 bp):
TAACCCTTAAACCCATAATCCA
Found at i:99846512 original size:15 final size:15
Alignment explanation
Indices: 99846492--99846522 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99846482 AAACCGTAAT
*
99846492 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
99846507 CCATAATCCATAAAC
1 CCATAATCCATAAAC
99846522 C
1 C
99846523 TTAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:99846558 original size:21 final size:21
Alignment explanation
Indices: 99846532--99846577 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
99846522 CTTAAAATAG
**
99846532 TAAATCATACACTTTAAACCC
1 TAAATCATACACCCTAAACCC
*
99846553 TAAATCATATACCCTAAACCC
1 TAAATCATACACCCTAAACCC
99846574 TAAA
1 TAAA
99846578 CTATAAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAATCATACACCCTAAACCC
Found at i:99846718 original size:22 final size:20
Alignment explanation
Indices: 99846676--99846737 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 20
99846666 ACTAATTAAT
* *
99846676 CTAAACCTTAAACTCTTAATCC
1 CTAAACCATAAAC-CTGAAT-C
*
99846698 CTAAACCCTAAACCATGAATC
1 CTAAACCATAAACC-TGAATC
*
99846719 CTAAAACATAAACCCTGAA
1 CTAAACCATAAA-CCTGAA
99846738 CCATGAACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.23
Consensus pattern (20 bp):
CTAAACCATAAACCTGAATC
Found at i:99846723 original size:14 final size:14
Alignment explanation
Indices: 99846701--99846751 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
99846691 TTAATCCCTA
99846701 AACCCTAAACCATG
1 AACCCTAAACCATG
* * *
99846715 AATCCTAAAACATA
1 AACCCTAAACCATG
*
99846729 AACCCTGAACCATG
1 AACCCTAAACCATG
99846743 AACCACTAA
1 AACC-CTAA
99846752 CCCTTAACCC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.47, C:0.31, G:0.06, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCATG
Found at i:99846723 original size:21 final size:21
Alignment explanation
Indices: 99846697--99846737 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
99846687 ACTCTTAATC
* *
99846697 CCTAAACCCTAAACCATGAAT
1 CCTAAAACATAAACCATGAAT
*
99846718 CCTAAAACATAAACCCTGAA
1 CCTAAAACATAAACCATGAA
99846738 CCATGAACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.17
Consensus pattern (21 bp):
CCTAAAACATAAACCATGAAT
Found at i:99846772 original size:21 final size:21
Alignment explanation
Indices: 99846729--99846803 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
99846719 CTAAAACATA
* * * *
99846729 AACCCTGAACCATGAACCACT
1 AACCCTTAACCCTTAACCCCT
99846750 AACCCTTAACCCTTAACCCCT
1 AACCCTTAACCCTTAACCCCT
*
99846771 AACACCTAAACGACCTTAAACCCC-
1 AAC-CCTTAAC--CCTT-AACCCCT
99846795 AACCCTTAA
1 AACCCTTAA
99846804 ACCACCCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 20 0.45
22 6 0.14
23 5 0.11
24 7 0.16
25 6 0.14
ACGTcount: A:0.37, C:0.41, G:0.04, T:0.17
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCCT
Found at i:99846812 original size:25 final size:26
Alignment explanation
Indices: 99846758--99846817 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
99846748 CTAACCCTTA
*
99846758 ACCCTT-AACCCCTAACACCTAAACG
1 ACCCTTAAACCCCTAACACCTAAACC
99846783 A-CCTTAAACCCC-AAC-CCTTAAACC
1 ACCCTTAAACCCCTAACACC-TAAACC
99846807 ACCCTTAAACC
1 ACCCTTAAACC
99846818 ATAATCCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 13 0.42
25 16 0.52
ACGTcount: A:0.37, C:0.45, G:0.02, T:0.17
Consensus pattern (26 bp):
ACCCTTAAACCCCTAACACCTAAACC
Found at i:99847299 original size:79 final size:81
Alignment explanation
Indices: 99847196--99847345 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 81
99847186 TTAATTTTTT
* * *
99847196 GCGGCGTTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGTGGTGCTTTTCA-AAAAACGCCGC
1 GCGGCATTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGCGGTGCTTTTCATAAAAACGCCAC
99847260 TAAAAATGAACCTATA
66 TAAAAATGAACCTATA
* * * * **
99847276 GCGGCATTTTTTGAAA-GCGCCGCTAGTGCTTGATCTTTAGCGGTGTTTTTCATTCAAACGCCAC
1 GCGGCATTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGCGGTGCTTTTCATAAAAACGCCAC
99847340 TAAAAA
66 TAAAAA
99847346 CGCCGCTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 32 0.53
80 28 0.47
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (81 bp):
GCGGCATTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGCGGTGCTTTTCATAAAAACGCCAC
TAAAAATGAACCTATA
Found at i:99849479 original size:22 final size:22
Alignment explanation
Indices: 99849427--99849480 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
99849417 GCCAATTATT
* *
99849427 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTACGCCAAC
* *
99849449 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTACGCCAAC
99849471 CTGATTATGG
1 CTGATTATGG
99849481 TTGTGTGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTACGCCAAC
Found at i:99850645 original size:10 final size:10
Alignment explanation
Indices: 99850626--99850657 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
99850616 AATTATTTCA
*
99850626 AAAAGGTTTG
1 AAAAGATTTG
99850636 AAAAGATTTG
1 AAAAGATTTG
99850646 AAAAGATTTG
1 AAAAGATTTG
99850656 AA
1 AA
99850658 GTATTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (10 bp):
AAAAGATTTG
Found at i:99852434 original size:27 final size:27
Alignment explanation
Indices: 99852372--99852469 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
99852362 GTAGGCTAGT
* *
99852372 ATTACTGAAATACCCTTGAAGG-GT-A
1 ATTACTGAAATACCCTTGTAGGATTGA
*
99852397 AGTTACTGAAATGCCCTTGTAGGATTGA
1 A-TTACTGAAATACCCTTGTAGGATTGA
* * *
99852425 ATTACTGAAATGCCCCTGTA-GAGTAGA
1 ATTACTGAAATACCCTTGTAGGA-TTGA
99852452 ATTACTGAAATACCCTTG
1 ATTACTGAAATACCCTTG
99852470 GTTTACAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.34
27 38 0.61
28 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGTAGGATTGA
Found at i:99852481 original size:27 final size:27
Alignment explanation
Indices: 99852451--99852798 Score: 215
Period size: 27 Copynumber: 12.9 Consensus size: 27
99852441 TGTAGAGTAG
* *
99852451 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGCAA
* *
99852478 AATTGCT-AAATACCCTTTG-TTTACAA
1 AATTACTGAAATACCC-TTGATTTGCAA
** * * *
99852504 AATTACCAAAATACCCTCGATTAGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
** **
99852531 AATTACCAAAATATCCC-TGATTTGTGA
1 AATTACTGAAATA-CCCTTGATTTGCAA
* * * *
99852558 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
* * *
99852585 AATTTCTGAAATA-CCTTCGAATTGTAA
1 AATTACTGAAATACCCTT-GATTTGCAA
** * *
99852612 AATTTTTGAAATACCCTTAATTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
* * * *
99852639 AATTAC-CAGAATACCCCTAATTTGGAA
1 AATTACTGA-AATACCCTTGATTTGCAA
** * *
99852666 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGCAA
*** *
99852693 AATTAAAAAAATACCCTTGATTTACAA
1 AATTACTGAAATACCCTTGATTTGCAA
*
99852720 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTACTGAAATACCCTTGA-TTTGC-AA
* * *
99852748 AATTACAGAAATACCTTTGGTTTGCAA
1 AATTACTGAAATACCCTTGATTTGCAA
*
99852775 AATTA-TCGAAATACCCTTGGTTTG
1 AATTACT-GAAATACCCTTGATTTG
99852799 TAGATTTTCC
Statistics
Matches: 267, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
26 29 0.11
27 206 0.77
28 32 0.12
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGCAA
Found at i:99853104 original size:41 final size:41
Alignment explanation
Indices: 99853057--99853181 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
99853047 GGAGGAAGAA
*
99853057 ATTGAGGATCACATGGTTGCTTGATGACCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
** *
99853098 ATTGAGGATTGCATGGTTTCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
*
99853139 ATTAAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
99853180 AT
1 AT
99853182 GGCTTTTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:99855305 original size:15 final size:16
Alignment explanation
Indices: 99855285--99855315 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99855275 TTTAACTAAG
99855285 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
99855300 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
99855316 GCTCCAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:99855312 original size:6 final size:5
Alignment explanation
Indices: 99855285--99855315 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
99855275 TTTAACTAAG
99855285 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
99855316 GCTCCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:99857677 original size:39 final size:39
Alignment explanation
Indices: 99857614--99857692 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
99857604 TTTATGAAAA
* *
99857614 CTTAAAGACAATTAGGAGACAAGTGATGGCTAAAAATTG
1 CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
*
99857653 CTTAAAGATAATTAAGAGAAAAGTGATGGCTAAAAATTG
1 CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
99857692 C
1 C
99857693 AAAGGTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (39 bp):
CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
Found at i:99858957 original size:6 final size:6
Alignment explanation
Indices: 99858946--99859118 Score: 171
Period size: 6 Copynumber: 28.8 Consensus size: 6
99858936 AACCAAAATG
*
99858946 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
99858994 AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAA-C AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
99859042 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC A-ATATC AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
99859090 AGAATC AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT
99859119 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 14, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
5 12 0.09
6 119 0.86
7 6 0.04
8 2 0.01
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:99858998 original size:30 final size:30
Alignment explanation
Indices: 99858946--99859108 Score: 256
Period size: 30 Copynumber: 5.4 Consensus size: 30
99858936 AACCAAAATG
*
99858946 AGAATCAGAATCAGA-ATCAGTAACAGAATC
1 AGAATCAGAATCA-ATATTAGTAACAGAATC
99858976 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* *
99859006 AGAATCAAAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
* *
99859036 AAAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
*
99859066 AGAATCAGAATCAATATCAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
99859096 AGAATCAGAATCA
1 AGAATCAGAATCA
99859109 GAATCAGAAT
Statistics
Matches: 124, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 1 0.01
30 123 0.99
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:99862650 original size:6 final size:6
Alignment explanation
Indices: 99862523--99862631 Score: 116
Period size: 6 Copynumber: 18.0 Consensus size: 6
99862513 NNATTAGTAA
* *
99862523 CAGAAT CAGAAT CAGAAT CAGAAT TAG-GT GACAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * *
99862572 CAGTAA- CAGAAT CAGAAT CAGAAT CAGTAT TAGTAA- CATAAT CAGAAT
1 CAG-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAG-AAT CAGAAT CAGAAT
99862620 CAGAAT CAGAAT
1 CAGAAT CAGAAT
99862632 TAGGTGACAG
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.06
6 75 0.87
7 5 0.06
8 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:99862811 original size:27 final size:26
Alignment explanation
Indices: 99862774--99862839 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
99862764 AGCATGGCTG
*
99862774 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
99862800 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
99862827 CCAGAATCAGATA
1 CCAGAA-CAGATA
99862840 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:99862844 original size:27 final size:27
Alignment explanation
Indices: 99862774--99862847 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
99862764 AGCATGGCTG
* *
99862774 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
99862800 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
99862827 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
99862848 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:99862854 original size:27 final size:27
Alignment explanation
Indices: 99862798--99862855 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
99862788 GTGACAGAGT
* * *
99862798 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
99862825 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
99862852 CACC
1 CACC
99862856 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:99864092 original size:39 final size:39
Alignment explanation
Indices: 99864029--99864107 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
99864019 TTTATGAAAA
* *
99864029 CTTAAAGACAATTAGGAGACAAGTGATGGCTAAAAATTG
1 CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
*
99864068 CTTAAAGATAATTAAGAGAAAAGTGATGGCTAAAAATTG
1 CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
99864107 C
1 C
99864108 AAAGGTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (39 bp):
CTTAAAGACAATTAAGAGAAAAGTGATGGCTAAAAATTG
Found at i:99872900 original size:16 final size:16
Alignment explanation
Indices: 99872881--99872911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99872871 CTTCTTCACT
99872881 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
99872897 TACTTACTTACTTAA
1 TACTCACTTACTTAA
99872912 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:99872917 original size:20 final size:20
Alignment explanation
Indices: 99872878--99872917 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
99872868 AAACTTCTTC
* *
99872878 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
99872898 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
99872918 TTATTAACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:99873293 original size:55 final size:53
Alignment explanation
Indices: 99873103--99873357 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
99873093 ACACGGGTAC
* * * * *
99873103 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
99873152 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
99873205 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
99873260 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
99873313 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
99873358 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:99873294 original size:108 final size:110
Alignment explanation
Indices: 99873150--99873350 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
99873140 ATCCTTTTGA
* *
99873150 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
99873213 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
99873258 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
99873323 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
99873351 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:99895237 original size:21 final size:21
Alignment explanation
Indices: 99895181--99895238 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
99895171 ATATTGTTAT
* *
99895181 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
99895202 ACATGATACT-TTATGAGATGC
1 ACATGATA-TGCTATGAGATGC
99895223 ACATGATATGCTATGA
1 ACATGATATGCTATGA
99895239 TATACTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:99895321 original size:25 final size:25
Alignment explanation
Indices: 99895287--99895358 Score: 126
Period size: 25 Copynumber: 2.9 Consensus size: 25
99895277 GGAGGAAGTG
99895287 CGAAAAGGGCATTGCCCCAGTTTAC
1 CGAAAAGGGCATTGCCCCAGTTTAC
99895312 CGAAAAGGGCATTGCCCCAGTTTAC
1 CGAAAAGGGCATTGCCCCAGTTTAC
* *
99895337 CAAAAAGGGCTTTGCCCCAGTT
1 CGAAAAGGGCATTGCCCCAGTT
99895359 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (25 bp):
CGAAAAGGGCATTGCCCCAGTTTAC
Found at i:99898009 original size:62 final size:62
Alignment explanation
Indices: 99897908--99898032 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
99897898 CAGGTTCATC
* * *
99897908 TTTTACATGCCTGTTGAACCATTTTGAATAATATTATATACACGGAAAGCTCACACATAGTG
1 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
* *
99897970 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGGAAGCTCACACCTAGTG
1 TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
99898032 T
1 T
99898033 GCTAACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (62 bp):
TTTTACATGCCCGTTGAACCATTTAGAATAATATCATATACACGGAAAGCTCACACATAGTG
Found at i:99902598 original size:29 final size:29
Alignment explanation
Indices: 99902566--99902624 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
99902556 TAAAAGCTAC
99902566 ATGAATG-CATG-AAATAGATAAAAATCAAA
1 ATGAATGACATGAAAATAG--AAAAATCAAA
99902595 ATGAATGATCATGAAAATAGAAAAATCAAA
1 ATGAATGA-CATGAAAATAGAAAAATCAAA
99902625 GCTTGTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 10 0.37
31 4 0.15
32 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAATAGAAAAATCAAA
Found at i:99903533 original size:38 final size:38
Alignment explanation
Indices: 99903491--99903568 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
99903481 TATGTTTGGA
*
99903491 TCATTTCTAATTCTCTCCATTTCCCTTAACTATTTTCT
1 TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
* *
99903529 TCATTTCTAATCCTCTCCATTTCCTTTAACTCTTTTCT
1 TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
99903567 TC
1 TC
99903569 TCTGCATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.53
Consensus pattern (38 bp):
TCATTTCTAATCCTCTCCATTTCCCTTAACTATTTTCT
Found at i:99904840 original size:19 final size:19
Alignment explanation
Indices: 99904795--99904841 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
99904785 TAAATATTAA
*
99904795 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
99904814 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
99904833 AATAAAAAT
1 AATAAAAAT
99904842 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:99921240 original size:16 final size:14
Alignment explanation
Indices: 99921208--99921260 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
99921198 ATCGATACCT
99921208 TTTGCATTCATGCA
1 TTTGCATTCATGCA
99921222 TTTGCATCTCATAGCA
1 TTTGCAT-TCAT-GCA
99921238 TTT-CATTGCAT-CA
1 TTTGCATT-CATGCA
99921251 TTTGCATTCA
1 TTTGCATTCA
99921261 AGATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:99921683 original size:286 final size:289
Alignment explanation
Indices: 99921167--99921738 Score: 1078
Period size: 286 Copynumber: 2.0 Consensus size: 289
99921157 TCTTTTTCTA
99921167 AATAAAGTTTTCTAAATGAGATTGAATCGAGATCGATACCTTTTGCATTCATGCATTTGCATCTC
1 AATAAAGTTTTCTAAATGAGATTGAATCGAGATCGATACCTTTTGCATT-ATGCATTTGCATCTC
*
99921232 ATAGCATTTCATTGCATCATTTGCATTCAAGATTATAAAAAGACCCTAATTAGTTAAAGTTATTA
65 ATAGCATTTCATTGCATCATTTGCATTCAAAATTATAAAAAGACCCTAATTAGTTAAAGTTATTA
99921297 AAAAGATAAGGAAAAAGAGAGAGAGAGAAGAGGGCCACGGCTGAGTGAAAAAGAAGTTGAATGGG
130 AAAAGATAAGGAAAAAGAGAGAGAGAGAAGAGGGCCACGGCTGAGTGAAAAAGAAGTTGAATGGG
99921362 AATTAACGACGTTCCCTTACATATCCCTGACTTTTGTGTCAGGAGGGATAGCTTACCCGGAGAAG
195 AATTAACGACGTTCCCTTACATATCCCTGACTTTTGTGTCAGGAGGGATAGCTTACCCGGAGAAG
*
99921427 GGGGTGTCTGGAAATGAAAATCATCCTATT
260 GGGGGGTCTGGAAATGAAAATCATCCTATT
*
99921457 AATAAAGTTTTCTAAATGAGATTGAATCGAGATCGATACCTTTTGCA-T-T-CATTTGCATCTTA
1 AATAAAGTTTTCTAAATGAGATTGAATCGAGATCGATACCTTTTGCATTATGCATTTGCATCTCA
99921519 TAGCATTTCATTGCATCATTTGCATTCAAAATTATAAAAAGACCCTAATTAGTTAAAGTTATTAA
66 TAGCATTTCATTGCATCATTTGCATTCAAAATTATAAAAAGACCCTAATTAGTTAAAGTTATTAA
99921584 AAAGATAAGGAAAAAGAGAGAGAGAGAAGAGGGCCACGGCTGAGTGAAAAAGAAGTTGAATGGGA
131 AAAGATAAGGAAAAAGAGAGAGAGAGAAGAGGGCCACGGCTGAGTGAAAAAGAAGTTGAATGGGA
99921649 ATTAACGACGTTCCCTTACATATCCCTGACTTTTGTGTCAGGAGGGATAGCTTACCCGGAGAAGG
196 ATTAACGACGTTCCCTTACATATCCCTGACTTTTGTGTCAGGAGGGATAGCTTACCCGGAGAAGG
*
99921714 GGGGGTTTGGAAATGAAAATCATCC
261 GGGGGTCTGGAAATGAAAATCATCC
99921739 CATCAATGTC
Statistics
Matches: 278, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
286 229 0.82
287 1 0.00
289 1 0.00
290 47 0.17
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (289 bp):
AATAAAGTTTTCTAAATGAGATTGAATCGAGATCGATACCTTTTGCATTATGCATTTGCATCTCA
TAGCATTTCATTGCATCATTTGCATTCAAAATTATAAAAAGACCCTAATTAGTTAAAGTTATTAA
AAAGATAAGGAAAAAGAGAGAGAGAGAAGAGGGCCACGGCTGAGTGAAAAAGAAGTTGAATGGGA
ATTAACGACGTTCCCTTACATATCCCTGACTTTTGTGTCAGGAGGGATAGCTTACCCGGAGAAGG
GGGGGTCTGGAAATGAAAATCATCCTATT
Found at i:99922656 original size:8 final size:8
Alignment explanation
Indices: 99922643--99922672 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
99922633 ATTCATTTCA
99922643 AAAAAAAT
1 AAAAAAAT
99922651 AAAAAAAT
1 AAAAAAAT
99922659 AAAAAAAT
1 AAAAAAAT
99922667 AAAAAA
1 AAAAAA
99922673 GAAGAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:99924157 original size:8 final size:7
Alignment explanation
Indices: 99924144--99924228 Score: 61
Period size: 7 Copynumber: 12.0 Consensus size: 7
99924134 CTATTTCAAA
99924144 AAAAAAGG
1 AAAAAA-G
99924152 AAAAAAG
1 AAAAAAG
99924159 --AAAAG
1 AAAAAAG
*
99924164 AAAAAGG
1 AAAAAAG
*
99924171 GAAAAAG
1 AAAAAAG
99924178 AAATGAAA-
1 AAA--AAAG
*
99924186 AAGAAA-
1 AAAAAAG
99924192 AAAAAAG
1 AAAAAAG
99924199 AAAAAGAG
1 AAAAA-AG
99924207 AAAAAGAG
1 AAAAA-AG
99924215 AAAAAAG
1 AAAAAAG
*
99924222 ATAAAAG
1 AAAAAAG
99924229 GAAACTGGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
5 5 0.08
6 8 0.12
7 25 0.39
8 23 0.36
9 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:99924162 original size:6 final size:6
Alignment explanation
Indices: 99924153--99924210 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 6
99924143 AAAAAAAGGA
*
99924153 AAAAAG -AAAAG AAAAAGGG AAAAAG -AAATG AAAAAG -AAAA- AAAAAG
1 AAAAAG AAAAAG AAAAA--G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
99924199 AAAAAG AGAAAA
1 AAAAAG A-AAAA
99924211 AGAGAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
5 17 0.40
6 16 0.37
7 4 0.09
8 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:99924227 original size:16 final size:16
Alignment explanation
Indices: 99924162--99924232 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
99924152 AAAAAAGAAA
*
99924162 AGAAAAAGGGAAAAAG
1 AGAAAAAGAGAAAAAG
* *
99924178 AAATGAAAAAGAAAAAAAA
1 --A-GAAAAAGAGAAAAAG
99924197 AGAAAAAGAGAAAAAG
1 AGAAAAAGAGAAAAAG
99924213 AGAAAAA-AGATAAAAG
1 AGAAAAAGAGA-AAAAG
99924229 -GAAA
1 AGAAA
99924233 CTGGAGAGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.15
16 25 0.54
17 1 0.02
18 1 0.02
19 12 0.26
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AGAAAAAGAGAAAAAG
Found at i:99925296 original size:44 final size:44
Alignment explanation
Indices: 99925107--99925752 Score: 342
Period size: 44 Copynumber: 14.7 Consensus size: 44
99925097 GGGACAATGT
*
99925107 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * ** * * * *
99925151 AGATCGAAGATAGCAGATCTGACA-CTTTTGTGCTTACAGCGAAGT
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
**
99925196 AGATCAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
* *
99925239 A-AGTC-GAGAATAGCAGATTTGGCATCCCTGTTTTTATAGGGAAC
1 AGA-TCAAAG-ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
99925283 AGATCAAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGC
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
* *** *
99925328 AGATCGAAGATTTTAGCA--TGGCATCCCTATGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** * * * * * **
99925371 AGATCAAAGATAGCAGATCAGACA-CTCATGAGCTTACAGCAAAGC
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* ** * *
99925416 AGATCGAAGATTTCAGCA--TGGCATCCTTGAGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
**
99925459 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * *
99925503 AGATCAAA-ATAGCAGATTTGACATTCCTGTGCTTACAGCGAAGC
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
* **
99925547 AGATTAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** *
99925590 A-AGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
** * * * * * * **
99925634 AGATTGAAGATAACAGATCTGACA-CTCTTGTGCTTACAATGAAGC
1 AGATCAAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-C
* * **
99925679 AGATCGAGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
** * *
99925722 A-AGTTGAAGATAGTAGATTTGGCATCTCTGT
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGT
99925753 ATTGTCAGAG
Statistics
Matches: 451, Mismatches: 114, Indels: 74
0.71 0.18 0.12
Matches are distributed among these distances:
42 11 0.02
43 87 0.19
44 280 0.62
45 68 0.15
46 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
Found at i:99925361 original size:132 final size:132
Alignment explanation
Indices: 99925121--99925371 Score: 405
Period size: 132 Copynumber: 1.9 Consensus size: 132
99925111 CAAAGAAACA
* * *
99925121 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTTTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTTCTATGCTT
* *
99925186 ACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAGAATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTCGAGAATA
99925251 GC
131 GC
*
99925253 AGATTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATCTGACA-TTCCTATGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTT-CTATGCT
* * *
99925317 TACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTATGTTTATAGGGAACA
65 TACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACA
99925372 GATCAAAGAT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 2 0.02
132 107 0.98
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTTCTATGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTCGAGAATA
GC
Found at i:99925384 original size:132 final size:132
Alignment explanation
Indices: 99925107--99925388 Score: 401
Period size: 132 Copynumber: 2.1 Consensus size: 132
99925097 GGGACAATGT
* *
99925107 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCT
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCT
* * * *
99925171 GACACTTTTGTGCTTACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGG
65 GACACTTCTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGG
99925236 AAC
130 AAC
* *
99925239 A-AGTC-GAGAATAGCAGATTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATC
1 AGA-TCAAAG-ATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATC
* * *
99925302 TGACA-TTCCTATGCTTACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTATGTTTATAG
64 TGACACTT-CTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAG
99925366 GGAAC
128 GGAAC
99925371 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
99925389 CAGACACTCA
Statistics
Matches: 132, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
131 5 0.04
132 122 0.92
133 5 0.04
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTG
ACACTTCTATGCTTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAGGGA
AC
Found at i:99925482 original size:132 final size:132
Alignment explanation
Indices: 99925346--99925747 Score: 626
Period size: 132 Copynumber: 3.1 Consensus size: 132
99925336 GATTTTAGCA
* *
99925346 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCAGACACTCATGAGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
* * *
99925411 AAAGCAGATCGAAGATTTCAGCATGGCATCCTTGAGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99925476 TT
131 TT
* * * *
99925478 TGGCATCCCTGTGTTTATAGGGAACAGATCAAA-ATAGCAGATTTGACATTCCTGTGCTTACAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
**
99925542 GAAGCAGATTAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99925607 TT
131 TT
** * * **
99925609 TGGCATCCCTATGTTTATAGGGAACAGATTGAAGATAACAGATCTGACACTCTTGTGCTTACAAT
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
* *
99925674 GAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
99925739 TT
131 TT
99925741 TGGCATC
1 TGGCATC
99925748 TCTGTATTGT
Statistics
Matches: 245, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 118 0.48
132 127 0.52
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCATGTGCTTACAGC
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:99925508 original size:220 final size:219
Alignment explanation
Indices: 99925126--99925607 Score: 743
Period size: 220 Copynumber: 2.2 Consensus size: 219
99925116 AAACAAGATT
* ** *
99925126 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTTTTGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
* * *
99925191 GAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTCGAGAATAGCAGA
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGAATAGCAGA
*
99925256 TTTGGCATCCCTGTTTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTATGCTTACA
131 TTTGGCATCCCTGTGTTTATAGGGAACAGATCAAA-ATAGCAGATCTGACATTCCTATGCTTACA
* * *
99925321 GTGAAGCAGATCGAAGATTTTAGCA
195 GCGAAGCAGATCAAAGATTTCAGCA
* *
99925346 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAGATCAGACACTCATGAGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
* * *
99925411 AAAGCAGATCGAAGATTTCAGCATGGCATCCTTGAGTTTATAGGGAACAAGTTGA-AGATAGCAG
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGA-ATAGCAG
* *
99925475 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATTTGACATTCCTGTGCTTACA
130 ATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATCTGACATTCCTATGCTTACA
*
99925540 GCGAAGCAGATTAAAGATTTCAGCA
195 GCGAAGCAGATCAAAGATTTCAGCA
*
99925565 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
99925608 TTGGCATCCC
Statistics
Matches: 238, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
218 1 0.00
219 87 0.37
220 150 0.63
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (219 bp):
TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACACTCATGAGCTTACAGC
AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGAGTTTATAGGGAACAAGTCGAGAATAGCAGA
TTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAATAGCAGATCTGACATTCCTATGCTTACAG
CGAAGCAGATCAAAGATTTCAGCA
Found at i:99925775 original size:44 final size:44
Alignment explanation
Indices: 99925727--99925819 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
99925717 GGAACAAGTT
** * *
99925727 GAAGATAGTAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTATGTATTGGT-AGAGAGCAGATC
*
99925771 GAAGATACCAGATTTGACATCTATGTATTGGTGGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTATGTATTGGTAGAGAGCAGATC
99925815 GAAGA
1 GAAGA
99925820 CATAGCTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (44 bp):
GAAGATACCAGATTTGACATCTATGTATTGGTAGAGAGCAGATC
Found at i:99925881 original size:131 final size:130
Alignment explanation
Indices: 99925737--99926046 Score: 467
Period size: 131 Copynumber: 2.4 Consensus size: 130
99925727 GAAGATAGTA
99925737 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
1 GATTTGGCATCTCTGTATTG-CAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
* *
99925802 TGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
65 CGCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
99925867 T
130 T
* * * * * *
99925868 GATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAACATATTTGGCATCTTTGTATTGG
1 GATTTGGCATCTCTGTATT-GCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGG
* * *
99925933 CGCAGAGCAGATCGAAGCCATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGA
65 CGCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGA
99925998 T
130 T
* * *
99925999 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCAAAAATACTAGATT
1 GATTTGGCATCTCTGTATT-GCAGAGAGCAGATCGAAGATACCAGATT
99926047 AGTGTTCCTA
Statistics
Matches: 159, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 158 0.99
132 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (130 bp):
GATTTGGCATCTCTGTATTGCAGAGAGCAGATCGAAGATACCAGATTTGACATCTATGTATTGGC
GCAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTAAAACAAATCTAAGAT
Found at i:99927576 original size:12 final size:12
Alignment explanation
Indices: 99927508--99927593 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
99927498 TTTTTGTTTA
99927508 TATATATTTCAT
1 TATATATTTCAT
99927520 TATATTATTT-ATT
1 TATA-TATTTCA-T
* *
99927533 TGTATATTTTAT
1 TATATATTTCAT
*
99927545 CTATAAATTAT-ATTT
1 -TATATATT-TCA--T
99927560 TATATATTTCAT
1 TATATATTTCAT
*
99927572 TATATATTTCCT
1 TATATATTTCAT
99927584 TATATTATTT
1 TATA-TATTT
99927594 TTGTGTATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 27 0.45
13 23 0.38
14 9 0.15
15 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (12 bp):
TATATATTTCAT
Found at i:99927835 original size:21 final size:21
Alignment explanation
Indices: 99927816--99927873 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
99927806 ATACTTTATC
*
99927816 TATAATACAATTTATATTATTA
1 TATATTAC-ATTTATATTATTA
*
99927838 TATATTACATTTATA-AATT-
1 TATATTACATTTATATTATTA
99927857 T-TATTACATATTATATT
1 TATATTACAT-TTATATT
99927874 TTACCATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 3 0.10
21 7 0.23
22 7 0.23
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTACATTTATATTATTA
Found at i:99929418 original size:46 final size:48
Alignment explanation
Indices: 99929314--99929433 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
99929304 TGTCTTCGAC
** * * *
99929314 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGATT
*
99929362 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-ACT-GA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATA-TAGATT
*
99929408 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
99929434 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 25 0.40
47 2 0.03
48 36 0.57
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGATT
Found at i:99931930 original size:3 final size:3
Alignment explanation
Indices: 99931917--99931986 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
99931907 CATAATCCTT
* * * *
99931917 TTC TCTC TTC TTC TTC CTC CTC CTC CTC TTC TTC TTC TTC TTC TTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
99931963 TTC TTC CTC GTTC TCC TTC -TC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC
99931987 AACTTCCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (3 bp):
TTC
Found at i:99932928 original size:7 final size:7
Alignment explanation
Indices: 99932918--99932951 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
99932908 ATCTAACACT
99932918 TAACCCC
1 TAACCCC
99932925 TAACCCC
1 TAACCCC
*
99932932 TAACCCT
1 TAACCCC
*
99932939 TAAACCC
1 TAACCCC
99932946 TAACCC
1 TAACCC
99932952 TTAAATCGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:99932934 original size:21 final size:21
Alignment explanation
Indices: 99932910--99932951 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
99932900 CCCTAAAAAT
*
99932910 CTAACACTTAACCCCTAACCC
1 CTAACACTTAAACCCTAACCC
*
99932931 CTAACCCTTAAACCCTAACCC
1 CTAACACTTAAACCCTAACCC
99932952 TTAAATCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAACACTTAAACCCTAACCC
Found at i:99932935 original size:14 final size:14
Alignment explanation
Indices: 99932918--99932956 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
99932908 ATCTAACACT
*
99932918 TAACCCCTAACCCC
1 TAACCCCTAAACCC
*
99932932 TAACCCTTAAACCC
1 TAACCCCTAAACCC
*
99932946 TAACCCTTAAA
1 TAACCCCTAAA
99932957 TCGTAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (14 bp):
TAACCCCTAAACCC
Found at i:99932984 original size:15 final size:15
Alignment explanation
Indices: 99932964--99932994 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99932954 AAATCGTAAT
*
99932964 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
99932979 CCATAATCCATAAAC
1 CCATAATCCATAAAC
99932994 C
1 C
99932995 TTAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:99933190 original size:22 final size:20
Alignment explanation
Indices: 99933148--99933204 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 20
99933138 ACTAATTAAT
* *
99933148 CTAAACCTTAAACTCTTAATCC
1 CTAAACCATAAAC-CTAAAT-C
*
99933170 CTAAACCGTAAACCATAAATC
1 CTAAACCATAAACC-TAAATC
*
99933191 CTAAAACATAAACC
1 CTAAACCATAAACC
99933205 CTGAACCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.23
Consensus pattern (20 bp):
CTAAACCATAAACCTAAATC
Found at i:99933195 original size:14 final size:14
Alignment explanation
Indices: 99933148--99933223 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
99933138 ACTAATTAAT
*
99933148 CTAAACCTTAAACTC
1 CTAAACCATAAAC-C
* * *
99933163 TTAATCCCTAAACC
1 CTAAACCATAAACC
* *
99933177 GTAAACCATAAATC
1 CTAAACCATAAACC
*
99933191 CTAAAACATAAACC
1 CTAAACCATAAACC
* *
99933205 CTGAACCATGAACC
1 CTAAACCATAAACC
99933219 ACTAA
1 -CTAA
99933224 CCCTTAACCC
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
14 33 0.72
15 13 0.28
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:99933244 original size:21 final size:21
Alignment explanation
Indices: 99933201--99933275 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
99933191 CTAAAACATA
* * * *
99933201 AACCCTGAACCATGAACCACT
1 AACCCTTAACCCTTAACCCCT
99933222 AACCCTTAACCCTTAACCCCT
1 AACCCTTAACCCTTAACCCCT
*
99933243 AACACCTAAACGACCTTAAACCCC-
1 AAC-CCTTAAC--CCTT-AACCCCT
99933267 AACCCTTAA
1 AACCCTTAA
99933276 ACCACCCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 20 0.45
22 6 0.14
23 5 0.11
24 7 0.16
25 6 0.14
ACGTcount: A:0.37, C:0.41, G:0.04, T:0.17
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCCT
Found at i:99933284 original size:25 final size:26
Alignment explanation
Indices: 99933230--99933289 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
99933220 CTAACCCTTA
*
99933230 ACCCTT-AACCCCTAACACCTAAACG
1 ACCCTTAAACCCCTAACACCTAAACC
99933255 A-CCTTAAACCCC-AAC-CCTTAAACC
1 ACCCTTAAACCCCTAACACC-TAAACC
99933279 ACCCTTAAACC
1 ACCCTTAAACC
99933290 ATAATCCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 13 0.42
25 16 0.52
ACGTcount: A:0.37, C:0.45, G:0.02, T:0.17
Consensus pattern (26 bp):
ACCCTTAAACCCCTAACACCTAAACC
Found at i:99933734 original size:80 final size:80
Alignment explanation
Indices: 99933630--99933780 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
99933620 TTAATTTTTT
* * *
99933630 GCGGCGTTTTTTAAAAGGCGCCGCTAATACTTGATCTTTAGTGGTGCTTTTCA-AAAAACGCCGC
1 GCGGCATTTTTTAAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCATAAAAA-GCCGC
99933694 TAAAAATGAACCTATA
65 TAAAAATGAACCTATA
* * * *
99933710 GCGGCATTTTTTGAAAA-GCGCCGCTAGTGCTCGATCTTTAGCGGTGTTTTTCATTCAAAAGCCG
1 GCGGCATTTTTT-AAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCA-TAAAAAGCCG
99933774 CTAAAAA
64 CTAAAAA
99933781 CCTGTTTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
80 42 0.69
81 15 0.25
82 4 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (80 bp):
GCGGCATTTTTTAAAAGGCGCCGCTAATACTCGATCTTTAGCGGTGCTTTTCATAAAAAGCCGCT
AAAAATGAACCTATA
Found at i:99935799 original size:334 final size:334
Alignment explanation
Indices: 99935190--99935856 Score: 1289
Period size: 334 Copynumber: 2.0 Consensus size: 334
99935180 AGAAGTCCTG
*
99935190 GGTTCAAACTTGGGCTTTTGCTAGCCTTGATGTTAGTGGGTAGGCTTTAAGAATATTTTTGATGA
1 GGTTCAAACCTGGGCTTTTGCTAGCCTTGATGTTAGTGGGTAGGCTTTAAGAATATTTTTGATGA
99935255 ATTTATAAAACAGAAAGAGCCTATGGTGGATGGCAAGATGGCGTGTTGTGTAACTGTGAGGTCTG
66 ATTTATAAAACAGAAAGAGCCTATGGTGGATGGCAAGATGGCGTGTTGTGTAACTGTGAGGTCTG
99935320 AGGTTCAAGTCTTGGGATAGGCAATGGAGTATTTATTTTGCTATTTGAGTTGTGTAGGAGGTAGA
131 AGGTTCAAGTCTTGGGATAGGCAATGGAGTATTTATTTTGCTATTTGAGTTGTGTAGGAGGTAGA
99935385 GTTGGACTTGAACTCTGTGGTTGAAGTGGTCATAAAAAAATAAGGAATTTTCCTAACGGTTGAAA
196 GTTGGACTTGAACTCTGTGGTTGAAGTGGTCATAAAAAAATAAGGAATTTTCCTAACGGTTGAAA
99935450 GTAATCCCACATCGGGAAGCTAACATGAGTATTGGTGAGAAGCTGGCTTTAAATAGAGCAAACCA
261 GTAATCCCACATCGGGAAGCTAACATGAGTATTGGTGAGAAGCTGGCTTTAAATAGAGCAAACCA
99935515 GATGAGTTT
326 GATGAGTTT
99935524 GGTTCAAACCTGGGCTTTTGCTAGCCTTGATGTTAGTGGGTAGGCTTTAAGAATATTTTTGATGA
1 GGTTCAAACCTGGGCTTTTGCTAGCCTTGATGTTAGTGGGTAGGCTTTAAGAATATTTTTGATGA
* * * *
99935589 ATTTATAACACAGAAAGAGCTTGTGGTGGATGGCAAGGTGGCGTGTTGTGTAACTGTGAGGTCTG
66 ATTTATAAAACAGAAAGAGCCTATGGTGGATGGCAAGATGGCGTGTTGTGTAACTGTGAGGTCTG
99935654 AGGTTCAAGTCTTGGGATAGGCAATGGAGTATTTATTTTGCTATTTGAGTTGTGTAGGAGGTAGA
131 AGGTTCAAGTCTTGGGATAGGCAATGGAGTATTTATTTTGCTATTTGAGTTGTGTAGGAGGTAGA
99935719 GTTGGACTTGAACTCTGTGGTTGAAGTGGTCATAAAAAAATAAGGAATTTTCCTAACGGTTGAAA
196 GTTGGACTTGAACTCTGTGGTTGAAGTGGTCATAAAAAAATAAGGAATTTTCCTAACGGTTGAAA
99935784 GTAATCCCACATCGGGAAGCTAACATGAGTATTGGTGAGAAGCTGGCTTTAAATAGAGCAAACCA
261 GTAATCCCACATCGGGAAGCTAACATGAGTATTGGTGAGAAGCTGGCTTTAAATAGAGCAAACCA
99935849 GATGAGTT
326 GATGAGTT
99935857 GGGAGGAAGA
Statistics
Matches: 328, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
334 328 1.00
ACGTcount: A:0.28, C:0.11, G:0.29, T:0.32
Consensus pattern (334 bp):
GGTTCAAACCTGGGCTTTTGCTAGCCTTGATGTTAGTGGGTAGGCTTTAAGAATATTTTTGATGA
ATTTATAAAACAGAAAGAGCCTATGGTGGATGGCAAGATGGCGTGTTGTGTAACTGTGAGGTCTG
AGGTTCAAGTCTTGGGATAGGCAATGGAGTATTTATTTTGCTATTTGAGTTGTGTAGGAGGTAGA
GTTGGACTTGAACTCTGTGGTTGAAGTGGTCATAAAAAAATAAGGAATTTTCCTAACGGTTGAAA
GTAATCCCACATCGGGAAGCTAACATGAGTATTGGTGAGAAGCTGGCTTTAAATAGAGCAAACCA
GATGAGTTT
Found at i:99936327 original size:41 final size:40
Alignment explanation
Indices: 99936263--99936342 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
99936253 GGGGGAAGAA
*
99936263 ATTGAGGACACAAGGTTGATTGACGACCGTGGATCCACCG
1 ATTGAGGACACAAGGTTGATTGACAACCGTGGATCCACCG
* * *
99936303 ATTGAGGATCGCATGGTTGGTTGACAACCGTGGATCCACC
1 ATTGAGGA-CACAAGGTTGATTGACAACCGTGGATCCACC
99936343 AATGGCTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 8 0.23
41 27 0.77
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
ATTGAGGACACAAGGTTGATTGACAACCGTGGATCCACCG
Found at i:99936480 original size:22 final size:22
Alignment explanation
Indices: 99936428--99936481 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
99936418 GCCAATTATT
* *
99936428 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTACGCCAAC
* *
99936450 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTACGCCAAC
99936472 CTGATTATGG
1 CTGATTATGG
99936482 TTGTGTGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTACGCCAAC
Found at i:99940554 original size:40 final size:40
Alignment explanation
Indices: 99940496--99940802 Score: 551
Period size: 40 Copynumber: 7.7 Consensus size: 40
99940486 AGCATTGGAT
99940496 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
99940536 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
99940576 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
99940616 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
99940656 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
99940696 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
99940736 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
99940776 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
99940803 ATGTGTTTGC
Statistics
Matches: 255, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:99949350 original size:40 final size:40
Alignment explanation
Indices: 99949294--99949647 Score: 591
Period size: 40 Copynumber: 8.8 Consensus size: 40
99949284 TGAGCATTGG
99949294 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
99949334 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
99949374 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
99949414 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
99949454 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
99949494 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
99949534 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
99949574 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
99949614 GATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATG
99949648 TTTGCGGCTG
Statistics
Matches: 299, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 299 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:99953012 original size:27 final size:27
Alignment explanation
Indices: 99952981--99953087 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
99952971 AATCTCATAT
* *
99952981 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
99953008 TTGTAGGGTA-AGTTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
99953034 CTGTAGGATTGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
99953061 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
99953088 TTAGTTTACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 20 0.30
27 47 0.70
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:99953355 original size:55 final size:55
Alignment explanation
Indices: 99953258--99953387 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
99953248 CTTAATTTGT
* **
99953258 AAAATTACCA-AAATACCCCTGATTTGGAAAATTACAGAAATACCATTGATTTAC
1 AAAATTACCAGAAATACCCTTGATTTCAAAAATTACAGAAATACCATTGATTTAC
* * *
99953312 AAAATTA-CAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCCTTGGTTTGC
1 AAAATTACCAGAAATACCCTTGA-TTTCAAAAATTACAGAAATACCATTGATTTAC
*
99953367 AAAATTATC-GAAATACCCTTG
1 AAAATTACCAGAAATACCCTTG
99953388 GTTTGTAGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.03
54 18 0.27
55 46 0.69
56 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (55 bp):
AAAATTACCAGAAATACCCTTGATTTCAAAAATTACAGAAATACCATTGATTTAC
Found at i:99953392 original size:27 final size:26
Alignment explanation
Indices: 99953072--99953392 Score: 168
Period size: 27 Copynumber: 11.9 Consensus size: 26
99953062 TGTAGGGTAG
*
99953072 AATTACTGAAATACCCTT-AGTTTACAA
1 AATTAC-GAAATACCCTTGA-TTTGCAA
* *
99953099 AATTGCTG-AATACCCTTTG-TTTACAA
1 AATTAC-GAAATACCC-TTGATTTGCAA
* * *
99953125 AATTACCAAAATACCCTCG-TTTAGTAA
1 AATTA-CGAAATACCCTTGATTT-GCAA
* * **
99953152 AATTACCAAAATACCCCTGATTTGTGA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * * * *
99953179 AATTATTGTAATACCATTGACTTGTAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* **
99953206 AATTACTGAAATA-CCTTCGAATTATAA
1 AATTAC-GAAATACCCTT-GATTTGCAA
** * * *
99953233 AATTTTTGAAATATCCTTAATTTGTAA
1 AA-TTACGAAATACCCTTGATTTGCAA
* * *
99953260 AATTACCAAAATACCCCTGATTTGGAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* *
99953287 AATTACAGAAATACCATTGATTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
99953314 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTAC-GAAATACCCTTGA-TTTGC-AA
*
99953342 AATTACAGAAATACCCTTGGTTTGCAA
1 AATTAC-GAAATACCCTTGATTTGCAA
*
99953369 AATTATCGAAATACCCTTGGTTTG
1 AATTA-CGAAATACCCTTGATTTG
99953393 TAGATTTTTG
Statistics
Matches: 237, Mismatches: 41, Indels: 32
0.76 0.13 0.10
Matches are distributed among these distances:
26 29 0.12
27 173 0.73
28 35 0.15
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (26 bp):
AATTACGAAATACCCTTGATTTGCAA
Found at i:99953699 original size:41 final size:41
Alignment explanation
Indices: 99953652--99953776 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
99953642 GGAGGAAGAA
99953652 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
** * *
99953693 ATTGAGGATTGCATGGTTTCTTGACGACCGTGGATCCATCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
*
99953734 ATTAAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
99953775 AT
1 AT
99953777 GGCTTTTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:99955900 original size:15 final size:16
Alignment explanation
Indices: 99955880--99955910 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99955870 TTTAACTAAG
99955880 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
99955895 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
99955911 GCTCCAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:99955907 original size:6 final size:5
Alignment explanation
Indices: 99955880--99955910 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
99955870 TTTAACTAAG
99955880 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
99955911 GCTCCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Done.