Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 15 of 91
Found at i:4782044 original size:71 final size:72
Alignment explanation
Indices: 4781889--4782044 Score: 217
Period size: 71 Copynumber: 2.2 Consensus size: 72
4781879 TTTGACTTGT
* * * *
4781889 CAAGGTCAACTATATCTTTTCTATAGTTGACTATGGCTATTCCTCAACTTGATTTTCTTGATCTT
1 CAAGGTCAACTATATCTTCTCTATAGTAGACTATGGCTATTCATCAACTTGATTTTCTTGACCTT
4781954 TCTAGAA
66 TCTAGAA
* * *
4781961 CAGGGTCAACTATAT-TTCCTCTATAGTAGACTATGGCTGTT-ATGAACTTGATTTTCTTGACCT
1 CAAGGTCAACTATATCTT-CTCTATAGTAGACTATGGCTATTCATCAACTTGATTTTCTTGACCT
4782024 TTCTAGAA
65 TTCTAGAA
*
4782032 CAAGGTCGACTAT
1 CAAGGTCAACTAT
4782045 GCTTATTCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
71 40 0.54
72 34 0.46
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (72 bp):
CAAGGTCAACTATATCTTCTCTATAGTAGACTATGGCTATTCATCAACTTGATTTTCTTGACCTT
TCTAGAA
Found at i:4782064 original size:71 final size:69
Alignment explanation
Indices: 4781889--4782075 Score: 214
Period size: 71 Copynumber: 2.6 Consensus size: 69
4781879 TTTGACTTGT
* * * *
4781889 CAAGGTCAACTATATCTTTTCTATAGTTGACTATGGCTATTCCTCAACTTGATTTTCTTGATCTT
1 CAAGGTCAACTATA-CTTTTCTATAGTAGACTATGGCT-TT-ATGAACTTGATTTTCTTGACCTT
4781954 TCTAGAA
63 TCTAGAA
*
4781961 CAGGGTCAACTATA-TTTCCTCTATAGTAGACTATGGCTGTTATGAACTTGATTTTCTTGACCTT
1 CAAGGTCAACTATACTTT--TCTATAGTAGACTATGGCT-TTATGAACTTGATTTTCTTGACCTT
4782025 TCTAGAA
63 TCTAGAA
* * * * *
4782032 CAAGGTCGACTATGCTTATTCTCTAGTCGACTAAGGCTTTATGA
1 CAAGGTCAACTATACTT-TTCTATAGTAGACTATGGCTTTATGA
4782076 TTTTTGAGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
70 9 0.09
71 54 0.55
72 35 0.35
73 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (69 bp):
CAAGGTCAACTATACTTTTCTATAGTAGACTATGGCTTTATGAACTTGATTTTCTTGACCTTTCT
AGAA
Found at i:4791340 original size:25 final size:25
Alignment explanation
Indices: 4791312--4791368 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4791302 ATGGACTTCT
4791312 CCCATTTCTT-TTTGATTGGACCATG
1 CCCATTTCTTCTTT-ATTGGACCATG
4791337 CCCA-TTCTTCCTTTATTGGACCATG
1 CCCATTTCTT-CTTTATTGGACCATG
*
4791362 TCCATTT
1 CCCATTT
4791369 TTCCTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 5 0.18
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (25 bp):
CCCATTTCTTCTTTATTGGACCATG
Found at i:4791372 original size:25 final size:25
Alignment explanation
Indices: 4791326--4791375 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4791316 TTTCTTTTTG
4791326 ATTGGACCATGCCCATTCTTCCTTT
1 ATTGGACCATGCCCATTCTTCCTTT
* *
4791351 ATTGGACCATGTCCATTTTTCCTTT
1 ATTGGACCATGCCCATTCTTCCTTT
4791376 CTTGTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTGGACCATGCCCATTCTTCCTTT
Found at i:4791409 original size:15 final size:15
Alignment explanation
Indices: 4791366--4791410 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4791356 ACCATGTCCA
* *
4791366 TTTTTCCTTTCTTGT
1 TTTTTCTTTTCTTTT
* *
4791381 TATTTATTTTCTTTT
1 TTTTTCTTTTCTTTT
4791396 TTTTTCTTTTCTTTT
1 TTTTTCTTTTCTTTT
4791411 CTTTCTTTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTCTTTT
Found at i:4791625 original size:35 final size:34
Alignment explanation
Indices: 4791577--4791647 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 34
4791567 TATTGGCTCC
*
4791577 AAAATCAACAGCTAAGCTGCACTATT-TTTCCTCA
1 AAAATCAACAGCTAAGCTGCACT-TTCTTTCCACA
*
4791611 AAAATTCAGCAGCTAAGCTGCACTTTCTTTCCACA
1 AAAA-TCAACAGCTAAGCTGCACTTTCTTTCCACA
4791646 AA
1 AA
4791648 TCAGCAGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 6 0.18
35 27 0.82
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (34 bp):
AAAATCAACAGCTAAGCTGCACTTTCTTTCCACA
Found at i:4791867 original size:16 final size:16
Alignment explanation
Indices: 4791848--4791882 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4791838 CTCTTTTCCT
4791848 TTTGTTTTTCTTTCTC
1 TTTGTTTTTCTTTCTC
* *
4791864 TTTGTTTTTGTTTTTC
1 TTTGTTTTTCTTTCTC
4791880 TTT
1 TTT
4791883 CTCTCGGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (16 bp):
TTTGTTTTTCTTTCTC
Found at i:4791972 original size:12 final size:12
Alignment explanation
Indices: 4791955--4791980 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4791945 CACAACTGAC
4791955 CTTTGTCTTCTT
1 CTTTGTCTTCTT
4791967 CTTTGTCTTCTT
1 CTTTGTCTTCTT
4791979 CT
1 CT
4791981 CTTAACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.08, T:0.65
Consensus pattern (12 bp):
CTTTGTCTTCTT
Found at i:4792003 original size:2 final size:2
Alignment explanation
Indices: 4791996--4792038 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4791986 CTCATTCAAT
4791996 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4792038 T
1 T
4792039 TTTTTTTNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4793291 original size:60 final size:60
Alignment explanation
Indices: 4793198--4793375 Score: 218
Period size: 60 Copynumber: 3.0 Consensus size: 60
4793188 TGATTGTAAA
* ** *
4793198 AAAGGGAAACCTGAAGTGTCGATTTATATTGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAGGGAGACCTGAAGCCTCGATTTATAATGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * * *
4793258 AAAGGGAGACCTGAAGCCCCGATTTATAATGGGTGGCGTGGGTAATTTCAACGAGTAGGT
1 AAAGGGAGACCTGAAGCCTCGATTTATAATGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * * *
4793318 AAA-GGAGGACCTGAAGCCTCGATTCAT-AT-GGTGGCGTGGGCAGTTCTCACAAGTAGGT
1 AAAGGGA-GACCTGAAGCCTCGATTTATAATGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
4793376 GATGATGTTT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
58 23 0.23
59 5 0.05
60 73 0.72
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (60 bp):
AAAGGGAGACCTGAAGCCTCGATTTATAATGGGTGGCGTGGGTAGTTCCCACGAGTAGGT
Found at i:4797613 original size:28 final size:29
Alignment explanation
Indices: 4797566--4797629 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
4797556 GATCAAGCAG
* *
4797566 AACCTATATGCCTTGTCAAGTAGCAGACAT
1 AACCT-TATGCCTTGTCAAGGAGCAGACAA
* *
4797596 AACCTTA-GCCTTTTCAAGGATCAGACAA
1 AACCTTATGCCTTGTCAAGGAGCAGACAA
4797624 AACCTT
1 AACCTT
4797630 TACAACACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.77
29 2 0.07
30 5 0.17
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (29 bp):
AACCTTATGCCTTGTCAAGGAGCAGACAA
Found at i:4798366 original size:21 final size:23
Alignment explanation
Indices: 4798328--4798369 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
4798318 TATCTAAGTA
*
4798328 TTCCATTTTGCAAGAATTGATGT
1 TTCCATTTTGCAACAATTGATGT
4798351 TTCC-TTTT-CAACAATTGAT
1 TTCCATTTTGCAACAATTGAT
4798370 TCATTTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (23 bp):
TTCCATTTTGCAACAATTGATGT
Found at i:4798506 original size:19 final size:19
Alignment explanation
Indices: 4798471--4798507 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4798461 AGCACATCAA
4798471 AAGCATTTAAGGATCACTC
1 AAGCATTTAAGGATCACTC
4798490 AAGCTATTTAAGG-TCACT
1 AAGC-ATTTAAGGATCACT
4798508 TAGACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (19 bp):
AAGCATTTAAGGATCACTC
Found at i:4800976 original size:28 final size:29
Alignment explanation
Indices: 4800935--4800994 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
4800925 GTCTATGGGC
*
4800935 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
4800963 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
4800993 AA
1 AA
4800995 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:4805029 original size:22 final size:21
Alignment explanation
Indices: 4804982--4805037 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
4804972 AAGTAATATT
* *
4804982 ATTAGTAATTAAATTATTAAT
1 ATTATTAATTAAATTATTAAA
*
4805003 TTTATATAATTAAA-TATATAAA
1 ATTAT-TAATTAAATTAT-TAAA
4805025 ATTATTAAATTAA
1 ATTATT-AATTAA
4805038 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTATTAATTAAATTATTAAA
Found at i:4818469 original size:20 final size:20
Alignment explanation
Indices: 4818444--4818482 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4818434 TTTTCAGAAA
*
4818444 CTAAATTTATCAATACATTC
1 CTAAATGTATCAATACATTC
*
4818464 CTAAATGTATCCATACATT
1 CTAAATGTATCAATACATT
4818483 TCGTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
CTAAATGTATCAATACATTC
Found at i:4823207 original size:19 final size:19
Alignment explanation
Indices: 4823185--4823222 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4823175 CTATTTGACT
4823185 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
4823204 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
4823223 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:4824482 original size:13 final size:13
Alignment explanation
Indices: 4824464--4824488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4824454 GGAGAAATTG
4824464 TGATTTTATAAAA
1 TGATTTTATAAAA
4824477 TGATTTTATAAA
1 TGATTTTATAAA
4824489 TTTTCTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:4828317 original size:19 final size:19
Alignment explanation
Indices: 4828295--4828332 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4828285 CTATTTGACT
4828295 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
4828314 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
4828333 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:4843602 original size:194 final size:191
Alignment explanation
Indices: 4843318--4843744 Score: 617
Period size: 194 Copynumber: 2.2 Consensus size: 191
4843308 AATTATCCGA
* * *
4843318 GAAATTCACCTTCGCAA-ATTTGACGAATAAATCCCATCATCGGGGTTATCATACACCTTTTAAA
1 GAAA-TCACCTTCGCAAGATTT-TCGAA-AAATCCCATCATCGAGATTATCATACACCTTTTAAA
*
4843382 AAAAATTATATTTTCATGAATGTAAACTTATTACGAGTAATAGCCTTTTTATTAAAGATGTTTCC
63 AAAAATTATATTTTCATGAATGTAAACTTATTACGAGTAATAACCTTTTTATTAAAGATGTTTCC
* * *
4843447 TGAGCACTCCCATTGTACTGGTGGGA-TCTAGGGACAT-CTTATCACCTAGGGAACTTTTCGAGA
128 CGAGCACTCCCATCGTACTGGTGGGACTC-AGGGACATCCTT-TCACCTAGGAAACTTTTCGAGA
4843510 G
191 G
* *
4843511 GAAATCACCTTCGCAAGATTTTCGAAAAATCCCAACATCGAGATTATCATACGCCTTTTAGAAAC
1 GAAATCACCTTCGCAAGATTTTCGAAAAATCCCATCATCGAGATTATCATACACCTTTT--AAA-
*
4843576 AAAAATTATATTTTCATGAATGTAAACTTATTATGAGTAATAACCTTTTTATTAAAGATGTTTCC
63 AAAAATTATATTTTCATGAATGTAAACTTATTACGAGTAATAACCTTTTTATTAAAGATGTTTCC
* *
4843641 CGAGCCCTCCCATCGTACTGGTGGGACTCCGGGACATCCTTTCACCTAGGAAACTTTTCGAGAG
128 CGAGCACTCCCATCGTACTGGTGGGACTCAGGGACATCCTTTCACCTAGGAAACTTTTCGAGAG
* * * *
4843705 GTACTCGCCTTCGCAAGATTTTCAAAAAATCCCATCATCG
1 GAAATCACCTTCGCAAGATTTTCGAAAAATCCCATCATCG
4843745 GGACTTGTAC
Statistics
Matches: 211, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
191 29 0.14
192 16 0.08
193 11 0.05
194 150 0.71
195 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (191 bp):
GAAATCACCTTCGCAAGATTTTCGAAAAATCCCATCATCGAGATTATCATACACCTTTTAAAAAA
AATTATATTTTCATGAATGTAAACTTATTACGAGTAATAACCTTTTTATTAAAGATGTTTCCCGA
GCACTCCCATCGTACTGGTGGGACTCAGGGACATCCTTTCACCTAGGAAACTTTTCGAGAG
Found at i:4847989 original size:41 final size:41
Alignment explanation
Indices: 4847943--4848020 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
4847933 TTGTGTTAAC
*
4847943 ATAGTTGAAACATCTTTTGATTATACATTTGAATGTTGAGT
1 ATAGTTGAAACAACTTTTGATTATACATTTGAATGTTGAGT
4847984 ATAGTTGAAACAACTTTTGATTATACATTTGAATGTT
1 ATAGTTGAAACAACTTTTGATTATACATTTGAATGTT
4848021 AACTATGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (41 bp):
ATAGTTGAAACAACTTTTGATTATACATTTGAATGTTGAGT
Found at i:4850994 original size:2 final size:2
Alignment explanation
Indices: 4850987--4851028 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4850977 TTTTGCTTGC
4850987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4851029 TGTGTGTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4851034 original size:2 final size:2
Alignment explanation
Indices: 4851029--4851071 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4851019 ATATATATAT
*
4851029 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4851071 T
1 T
4851072 AGCATTCTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:4853980 original size:2 final size:2
Alignment explanation
Indices: 4853975--4854007 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4853965 GATATATATA
4853975 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4854008 TGGGCATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4854509 original size:42 final size:42
Alignment explanation
Indices: 4854448--4854673 Score: 371
Period size: 42 Copynumber: 5.4 Consensus size: 42
4854438 TGTTGATTTG
*
4854448 GACCCGGCTAAGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
**
4854490 GACCCGGCTATGTTTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
4854532 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
4854574 GACCCGGCTATGTGCCAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
4854616 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
4854658 GACCCGGATATATGCG
1 GACCCGGCTATGTGCG
4854674 CATAAGCCGT
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 170 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:4854729 original size:26 final size:26
Alignment explanation
Indices: 4854693--4854754 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
4854683 TTGCATATGA
4854693 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
* *
4854719 GATGATGATGATGGGGTGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
4854745 GTTGATGATG
1 GATGATGATG
4854755 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:4856688 original size:37 final size:37
Alignment explanation
Indices: 4856644--4856789 Score: 231
Period size: 37 Copynumber: 3.9 Consensus size: 37
4856634 TTCATCGTCA
* *
4856644 TGTGCACTCTCTAGTCGCACACTTCAACATCATCATG
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
* *
4856681 TATGCACTCCCTACTCGTACAC-TCTAACATCATCATG
1 TGTGCACTCCCTACTCGCACACTTC-AACATCATCATG
*
4856718 TGTTCACTCCCTACTCGCACACTTCAACATCATCATG
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
4856755 TGTGCACTCCCTACTCGCACACTTCAACATCATCA
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCA
4856790 CGCAACATTA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
36 2 0.02
37 95 0.96
38 2 0.02
ACGTcount: A:0.25, C:0.36, G:0.10, T:0.29
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
Found at i:4857810 original size:24 final size:24
Alignment explanation
Indices: 4857778--4857825 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4857768 GCATTCTCAT
4857778 GAATGAATTTTTTTTCTGCAGCGA
1 GAATGAATTTTTTTTCTGCAGCGA
*
4857802 GAATGAATTTTTTTTTTGCAGCGA
1 GAATGAATTTTTTTTCTGCAGCGA
4857826 CACTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (24 bp):
GAATGAATTTTTTTTCTGCAGCGA
Found at i:4861906 original size:20 final size:20
Alignment explanation
Indices: 4861881--4861920 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4861871 AAAAGAACAA
4861881 GAAGCTGCTAGAAAAATGAG
1 GAAGCTGCTAGAAAAATGAG
* *
4861901 GAAGCTGCTGGAGAAATGAG
1 GAAGCTGCTAGAAAAATGAG
4861921 ATATTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (20 bp):
GAAGCTGCTAGAAAAATGAG
Found at i:4863047 original size:36 final size:36
Alignment explanation
Indices: 4863007--4863102 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
4862997 TGATCCTATT
*
4863007 AAAAAGCCAATGTAAGGGTTATCACTTAATCTTGAG
1 AAAAAGCCAATGTAAGGGTTATCACTTAATCTCGAG
* * ** * *
4863043 AAAAAGCCAGTGTAAAGGTTATTGCTTGATCTCGTG
1 AAAAAGCCAATGTAAGGGTTATCACTTAATCTCGAG
* *
4863079 AAAAAACCAATTGTGAGGGTTATC
1 AAAAAGCCAA-TGTAAGGGTTATC
4863103 GTTTAATCAC
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 37 0.79
37 10 0.21
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (36 bp):
AAAAAGCCAATGTAAGGGTTATCACTTAATCTCGAG
Found at i:4865464 original size:2 final size:2
Alignment explanation
Indices: 4865457--4865488 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4865447 AGGTCCATAC
4865457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4865489 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4866880 original size:30 final size:31
Alignment explanation
Indices: 4866840--4866934 Score: 142
Period size: 30 Copynumber: 3.1 Consensus size: 31
4866830 TATTAGTAAT
*
4866840 AAAGGCTTATTTGACTCAAAATAAAAATA-A
1 AAAGACTTATTTGACTCAAAATAAAAATATA
*
4866870 AAAGACTTATTTGACTTAAAATAAAAATATA
1 AAAGACTTATTTGACTCAAAATAAAAATATA
4866901 AAA-ACTTATTT-AGCTCAAAATAAAAATATA
1 AAAGACTTATTTGA-CTCAAAATAAAAATATA
4866931 AAAG
1 AAAG
4866935 TTTAATCGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 54 0.92
31 4 0.07
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.28
Consensus pattern (31 bp):
AAAGACTTATTTGACTCAAAATAAAAATATA
Found at i:4869160 original size:42 final size:42
Alignment explanation
Indices: 4869036--4869161 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
4869026 GTAATGATAT
* * * *
4869036 TGACCCGGCTATGTGCGAGTAGGAGTACACATAAGCCGTTAC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
* ** * *
4869078 TGACCCAGCTATGCACGAGTGAGAATGCGCATAAGCCGTTGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
*
4869120 TGACCCGGCTGTGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
4869162 ATATGAGCTG
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.25, G:0.33, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGTTGC
Found at i:4869215 original size:2 final size:2
Alignment explanation
Indices: 4869202--4869251 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
4869192 ATGATGATTG
* * *
4869202 AT AT AC AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4869244 AC AT AT AT
1 AT AT AT AT
4869252 GGTAAATGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4875558 original size:16 final size:17
Alignment explanation
Indices: 4875537--4875570 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4875527 TCACACAATG
4875537 GTTAAAT-ATATAAATA
1 GTTAAATAATATAAATA
4875553 GTTAAATAATATAAATA
1 GTTAAATAATATAAATA
4875570 G
1 G
4875571 AAAGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
GTTAAATAATATAAATA
Found at i:4875760 original size:18 final size:18
Alignment explanation
Indices: 4875733--4875775 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4875723 GTAAAAATAA
*
4875733 AAAGACAAAA-GACAAAAG
1 AAAGAAAAAAGGA-AAAAG
4875751 AAAGAAAAAAGGAAAAAG
1 AAAGAAAAAAGGAAAAAG
*
4875769 AGAGAAA
1 AAAGAAA
4875776 GAGGTGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAGGAAAAAG
Found at i:4878476 original size:2 final size:2
Alignment explanation
Indices: 4878469--4878501 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4878459 CAAACTTAAA
4878469 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4878502 AAATATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4878711 original size:69 final size:69
Alignment explanation
Indices: 4878600--4878860 Score: 296
Period size: 69 Copynumber: 3.8 Consensus size: 69
4878590 ATGAAATGCT
* * *
4878600 TGTATGCTAAGTTGCTATTGTTTGTGATGATGG-TTCCACATACCATATGAAATAAGAATGGGCG
1 TGTATGCTATGTTGCTATTGTATGTGATGA-GGATTCCACATACCATATGAGATAAGAATGGGCG
4878664 CATGA
65 CATGA
* * * *
4878669 TGTATGATATGTTGCTATTGTATGCGACGAGGATTCCACATACCATATGAGATAAGAATGGGCAC
1 TGTATGCTATGTTGCTATTGTATGTGATGAGGATTCCACATACCATATGAGATAAGAATGGGCGC
4878734 ATGA
66 ATGA
* ** * * * *
4878738 TGTACGCTACATTGATATTGTATGTGATGAAGATTCCACATACCATACGAGATAAGAAT--ACGC
1 TGTATGCTATGTTGCTATTGTATGTGATGAGGATTCCACATACCATATGAGATAAGAATGGGCGC
4878801 AGTGA
66 A-TGA
* * * * * *
4878806 TGTATGCCATGTTGC-AATGTATATGATGATGATTCCACATACTAAATGAGATAAG
1 TGTATGCTATGTTGCTATTGTATGTGATGAGGATTCCACATACCATATGAGATAAG
4878861 TCTGAGTACA
Statistics
Matches: 161, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
67 37 0.23
68 15 0.09
69 109 0.68
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (69 bp):
TGTATGCTATGTTGCTATTGTATGTGATGAGGATTCCACATACCATATGAGATAAGAATGGGCGC
ATGA
Found at i:4878888 original size:2 final size:2
Alignment explanation
Indices: 4878881--4878910 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4878871 TGATTAAATG
4878881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4878911 GATGATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4878917 original size:3 final size:3
Alignment explanation
Indices: 4878909--4878943 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
4878899 ATATATATAT
*
4878909 ATG ATG ATG ATG ATG ATG ATG CATG ATT ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG A
4878944 ATAGAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:4883820 original size:42 final size:42
Alignment explanation
Indices: 4883759--4884147 Score: 616
Period size: 42 Copynumber: 9.3 Consensus size: 42
4883749 ATTTGAACCT
* *
4883759 GGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACTC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
4883801 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
4883843 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
* *
4883885 GGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCT
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
* * * *
4883927 GACTATGTGTGAGTGGGAGTGCACATAAGCTGTTGCTGAGCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
* * *
4883969 GGCTATGTGAGAGTAGGAGTGCACATCAGCCGTTGCTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
* *
4884011 GGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGTTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
*
4884053 GGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
* * *
4884095 AGCTATGTGTGAGTGGGAGTGCGCATAAGCCGTTGCTGACCC
1 GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
*
4884137 GGCTATATGCG
1 GGCTATGTGCG
4884148 CATAAGCCAT
Statistics
Matches: 317, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 317 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (42 bp):
GGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCC
Found at i:4890387 original size:42 final size:41
Alignment explanation
Indices: 4890254--4890418 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 41
4890244 TGTGGACCTG
* ** *
4890254 GCTATGTGCGAGTAGGAGTGTGCATAAGTTGATGATAACCC
1 GCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCC
*
4890295 GGTTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCC
1 -GCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCC
* *
4890337 GACTATGTGCGAGTGGGAGTGCGCATAAACCGATGATGACCC
1 G-CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCC
* * * * * *
4890379 AGCCATGTGCTAGTGGGGAGTGCACATGAGCTGATGATGA
1 -GCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGATGA
4890419 TGGGAGAGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.78
43 22 0.21
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (41 bp):
GCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCC
Found at i:4890387 original size:84 final size:85
Alignment explanation
Indices: 4890255--4890418 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 85
4890245 GTGGACCTGG
* *** * ** *
4890255 CTATGTGCGAGTAGGAGTGTGCATAAGTTGATGATAACCCGGTTATGTGCGAGT-AGGAGTGCGC
1 CTATGTGCGAGTAGGAGTGCGCATAAACCGATGATAACCCAGCCATGTGCGAGTGAGGAGTGCAC
4890319 ATAAGCCGATGATGACCCGA
66 ATAAGCCGATGATGACCCGA
* * * *
4890339 CTATGTGCGAGTGGGAGTGCGCATAAACCGATGATGACCCAGCCATGTGCTAGTGGGGAGTGCAC
1 CTATGTGCGAGTAGGAGTGCGCATAAACCGATGATAACCCAGCCATGTGCGAGTGAGGAGTGCAC
* *
4890404 ATGAGCTGATGATGA
66 ATAAGCCGATGATGA
4890419 TGGGAGAGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
84 44 0.68
85 21 0.32
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.23
Consensus pattern (85 bp):
CTATGTGCGAGTAGGAGTGCGCATAAACCGATGATAACCCAGCCATGTGCGAGTGAGGAGTGCAC
ATAAGCCGATGATGACCCGA
Found at i:4908825 original size:2 final size:2
Alignment explanation
Indices: 4908820--4908852 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4908810 TATATATATA
4908820 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4908853 CATGATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4909056 original size:40 final size:38
Alignment explanation
Indices: 4908963--4909068 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
4908953 ATAGTGCCCG
* * *
4908963 TGTGCATGATGTGGGGGGATGTACATAATGGCAATGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCAACGAT
* *
4909001 TGTGCACGATGTGGGGGGATGCACATGATGGCACCCGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCA-ACGAT
4909040 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
4909069 ACCGGGTGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 30 0.50
39 3 0.05
40 27 0.45
ACGTcount: A:0.24, C:0.13, G:0.39, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCAACGAT
Found at i:4915883 original size:15 final size:16
Alignment explanation
Indices: 4915865--4915894 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4915855 TTATGATAAA
4915865 AGAAAAA-AAAAGAAG
1 AGAAAAATAAAAGAAG
4915880 AGAAAAATAAAAGAA
1 AGAAAAATAAAAGAA
4915895 TAAGTGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AGAAAAATAAAAGAAG
Found at i:4929824 original size:93 final size:93
Alignment explanation
Indices: 4929711--4929903 Score: 368
Period size: 93 Copynumber: 2.1 Consensus size: 93
4929701 ATTTATATTT
4929711 TTCATCCTATCATGAAACCATCTTCAATTAACTCACATCTTAATACATTTTTACTAAAATTACTT
1 TTCATCCTATCATGAAACCATCTTCAATTAACTCACATCTTAATACATTTTTACTAAAATTACTT
4929776 ATATCCATTGCTTACGTAATTCCTTAAA
66 ATATCCATTGCTTACGTAATTCCTTAAA
*
4929804 TTCATCCTATCGTGAAACCATCTTCAATTAACTCACATCTTAATACATTTTTACTAAAATTACTT
1 TTCATCCTATCATGAAACCATCTTCAATTAACTCACATCTTAATACATTTTTACTAAAATTACTT
4929869 ATATCCATTGCTTACGTAATTCCTTAAA
66 ATATCCATTGCTTACGTAATTCCTTAAA
4929897 TTACATC
1 TT-CATC
4929904 ACCGGTAACT
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 94 0.96
94 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (93 bp):
TTCATCCTATCATGAAACCATCTTCAATTAACTCACATCTTAATACATTTTTACTAAAATTACTT
ATATCCATTGCTTACGTAATTCCTTAAA
Found at i:4931390 original size:32 final size:32
Alignment explanation
Indices: 4931354--4931502 Score: 122
Period size: 35 Copynumber: 4.5 Consensus size: 32
4931344 TTTACCGGGA
*
4931354 TCAACTAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
* *
4931386 TCAACCACAACCTTTCACAA-TGGTTTTTCACAA-GC
1 TCAACCAAAACC---CA-AAGTGATTTTTCA-AAGGC
* *
4931421 TTAACCAAAACCCAAAGTAATTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
* * * *
4931453 TCAACCACAACCTACAACAATGGTTTTTCAAAGGA
1 TCAACCAAAACC--CAA-AGTGATTTTTCAAAGGC
*
4931488 TCAACTAAAACCCAA
1 TCAACCAAAACCCAA
4931503 CACGTAACTT
Statistics
Matches: 92, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
31 4 0.04
32 32 0.35
33 3 0.03
34 3 0.03
35 46 0.50
36 4 0.04
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.24
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
Found at i:4931498 original size:67 final size:68
Alignment explanation
Indices: 4931327--4931517 Score: 237
Period size: 67 Copynumber: 2.8 Consensus size: 68
4931317 GTATTATAAA
* * ** *
4931327 AACCTTTCACAATAGTTTTT-ACCGGGATCAACTAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
1 AACCTTACACAATGGTTTTTCACAAGGATCAACTAAAACCCAAAGTAATTTTTCAAAGGCTCAAC
4931391 CAC
66 CAC
* * * *
4931394 AACCTTTCACAATGGTTTTTCACAA-GCTTAACCAAAACCCAAAGTAATTTTTCAAAGGCTCAAC
1 AACCTTACACAATGGTTTTTCACAAGGATCAACTAAAACCCAAAGTAATTTTTCAAAGGCTCAAC
4931458 CAC
66 CAC
*
4931461 AACC-TACAACAATGGTTTTTCA-AAGGATCAACTAAAACCCAACACGTAACTTTTCAA
1 AACCTTAC-ACAATGGTTTTTCACAAGGATCAACTAAAACCCAA-A-GTAATTTTTCAA
4931518 GACTAAGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
66 4 0.04
67 89 0.83
68 3 0.03
69 11 0.10
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (68 bp):
AACCTTACACAATGGTTTTTCACAAGGATCAACTAAAACCCAAAGTAATTTTTCAAAGGCTCAAC
CAC
Found at i:4935216 original size:294 final size:293
Alignment explanation
Indices: 4934687--4935273 Score: 1075
Period size: 294 Copynumber: 2.0 Consensus size: 293
4934677 AATGAAGACA
4934687 TAGTTAACATTTAAATGCATATTCAAAATAAATTTCAACTATGTCAACTCACAACATATGCCATG
1 TAGTTAACATTTAAATGCATATTCAAAATAAATTTCAACTATGTCAACTCACAACATATGCCATG
* *
4934752 ATCAAACTTGACAATTAAATTCATATTCAAATGCATAGCTCAAGTCAAGTTTTAGATTTCAAACC
66 ATCAAACTTGACAAGTAAATTAATATTCAAATGCATAGCTCAAGTCAAGTTTTAGATTTCAAACC
4934817 TTAAGGTCAAGCATAAAGAAAAATCATATAAGCATGTGTCTTGACCAAATAGTAGATAAACCAAG
131 TTAAGGTCAAGCATAAAGAAAAATCATATAAGCATGTGTCTTGACCAAATAGTAGATAAACCAAG
4934882 AATATTTTCATTAAGTTTGATGAGTTCATCTTAATCAAGTTTGTATGCACAATCAAGAAATCAAT
196 AATATTTTCATTAAGTTTGATGAGTTCATCTTAATCAAGTTTGTATGCACAATCAAGAAATCAAT
*
4934947 TTTGAAACAATCATTTAAGCACAAACTTAAAAT
261 TTTAAAACAATCATTTAAGCACAAACTTAAAAT
* * * **
4934980 NTAGTTAATATTTAAATGCATATTCAAAATAGATTTCAACTATGTCAACTCACTATTTATGCCAT
1 -TAGTTAACATTTAAATGCATATTCAAAATAAATTTCAACTATGTCAACTCACAACATATGCCAT
*
4935045 GATCAAACTTGACAAGTAATTTAATATTCAAATGCATAGCTCAAGTCAAGTTTTAGATTTCAAAC
65 GATCAAACTTGACAAGTAAATTAATATTCAAATGCATAGCTCAAGTCAAGTTTTAGATTTCAAAC
4935110 CTTAAGGTCAAGCATAAAGAAAAATCATATAAGCATGTGTCTTGACCAAATAGTAGATAAACCAA
130 CTTAAGGTCAAGCATAAAGAAAAATCATATAAGCATGTGTCTTGACCAAATAGTAGATAAACCAA
*
4935175 GAATATTTTCATTAAGTTTGATGAGTTCATCTTAATCAAGTTTGTATGCACAATCAAGAAATCGA
195 GAATATTTTCATTAAGTTTGATGAGTTCATCTTAATCAAGTTTGTATGCACAATCAAGAAATCAA
4935240 TTTTAAAACAATCATTTAAGCACAAACTTAAAAT
260 TTTTAAAACAATCATTTAAGCACAAACTTAAAAT
4935274 ATGTTTCAAG
Statistics
Matches: 283, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
294 283 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (293 bp):
TAGTTAACATTTAAATGCATATTCAAAATAAATTTCAACTATGTCAACTCACAACATATGCCATG
ATCAAACTTGACAAGTAAATTAATATTCAAATGCATAGCTCAAGTCAAGTTTTAGATTTCAAACC
TTAAGGTCAAGCATAAAGAAAAATCATATAAGCATGTGTCTTGACCAAATAGTAGATAAACCAAG
AATATTTTCATTAAGTTTGATGAGTTCATCTTAATCAAGTTTGTATGCACAATCAAGAAATCAAT
TTTAAAACAATCATTTAAGCACAAACTTAAAAT
Found at i:4937268 original size:14 final size:14
Alignment explanation
Indices: 4937222--4937278 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4937212 CATGAGGAAA
4937222 TTTCATAGAAACAAT
1 TTTCATA-AAACAAT
4937237 TTTCCATAATCAATCAAT
1 TTT-CATAA--AA-CAAT
*
4937255 CTTCATAAAACAAT
1 TTTCATAAAACAAT
*
4937269 TTTCTTAAAA
1 TTTCATAAAA
4937279 TAAGGATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 12 0.34
15 6 0.17
16 4 0.11
17 7 0.20
18 6 0.17
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (14 bp):
TTTCATAAAACAAT
Found at i:4939804 original size:35 final size:33
Alignment explanation
Indices: 4939743--4939888 Score: 124
Period size: 35 Copynumber: 4.4 Consensus size: 33
4939733 TTTACCGGGA
*
4939743 TCAACTAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCACAA-TGGTTTTTCAAAGGC
* *
4939775 TCAACCACAACCTTTCACAATAGG-TTTTC-ACGAGC
1 TCAACCAAAACC--TCACAAT-GGTTTTTCAAAG-GC
4939810 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCACAA-TGGTTTTTCAAAGGC
* * *
4939842 TCAACCACAACCTACAACAATGGTTTTTCAAAAGA
1 TCAACCAAAACCT-C-ACAATGGTTTTTCAAAGGC
4939877 TCAACCAAAACC
1 TCAACCAAAACC
4939889 CAACACCTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.04
32 31 0.34
33 2 0.02
34 3 0.03
35 46 0.50
36 6 0.07
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (33 bp):
TCAACCAAAACCTCACAATGGTTTTTCAAAGGC
Found at i:4939814 original size:67 final size:67
Alignment explanation
Indices: 4939716--4939891 Score: 223
Period size: 67 Copynumber: 2.6 Consensus size: 67
4939706 GCTTAGCCAA
* * * *
4939716 AACCTTTCATAATAGTTTTTACCGGGATCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATAGTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
4939781 AC
66 AC
*
4939783 AACCTTTCACAATAGGTTTTCA-CGAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATA-GTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
4939847 CAC
65 CAC
* * **
4939850 AACC-TACAACAATGGTTTTTCA-AAAGATCAACCAAAACCCAA
1 AACCTTTC-ACAATAG-TTTTCACCGAGATCAACCAAAACCCAA
4939892 CACCTAAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
66 3 0.03
67 87 0.91
68 6 0.06
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (67 bp):
AACCTTTCACAATAGTTTTCACCGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:4940366 original size:13 final size:13
Alignment explanation
Indices: 4940345--4940377 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4940335 GGCAAAGAGC
*
4940345 ACTTAGTCGACTA
1 ACTTGGTCGACTA
4940358 ACTTGGTCGACTA
1 ACTTGGTCGACTA
4940371 ACTTGGT
1 ACTTGGT
4940378 TCTATTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (13 bp):
ACTTGGTCGACTA
Found at i:4943831 original size:11 final size:11
Alignment explanation
Indices: 4943797--4943832 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
4943787 TACCTAGGGT
4943797 TTTGTTCTTCC
1 TTTGTTCTTCC
4943808 TTT-TTCTTCC
1 TTTGTTCTTCC
*
4943818 TTTGTTCTTGC
1 TTTGTTCTTCC
4943829 TTTG
1 TTTG
4943833 GCCGGCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.00, C:0.22, G:0.11, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:4945124 original size:9 final size:9
Alignment explanation
Indices: 4945110--4945134 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4945100 ACATACAAGC
4945110 TCAAATTCT
1 TCAAATTCT
4945119 TCAAATTCT
1 TCAAATTCT
4945128 TCAAATT
1 TCAAATT
4945135 ATTTACCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (9 bp):
TCAAATTCT
Found at i:4957083 original size:2 final size:2
Alignment explanation
Indices: 4957076--4957116 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4957066 ATTCTTTATT
4957076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4957117 NAACATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4957187 original size:2 final size:2
Alignment explanation
Indices: 4957175--4957211 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
4957165 ATCCAATGTT
4957175 TA TA T- TA TA TA TA T- TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4957212 ATTGGGGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4957189 original size:9 final size:9
Alignment explanation
Indices: 4957175--4957211 Score: 65
Period size: 9 Copynumber: 4.0 Consensus size: 9
4957165 ATCCAATGTT
4957175 TATATTATA
1 TATATTATA
4957184 TATATTATA
1 TATATTATA
4957193 TATATATATA
1 TATAT-TATA
4957203 TATATTATA
1 TATATTATA
4957212 ATTGGGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TATATTATA
Found at i:4958466 original size:35 final size:35
Alignment explanation
Indices: 4958414--4958539 Score: 173
Period size: 35 Copynumber: 3.6 Consensus size: 35
4958404 GTTATTCCAT
* *
4958414 GTGAAGTAGAGCATCACTTGTTCTAATTGTTCTGC
1 GTGAAGTAGTGCTTCACTTGTTCTAATTGTTCTGC
*
4958449 GTGAAGTAGTGCTTCACTTGTTCTAATTGTTCTAC
1 GTGAAGTAGTGCTTCACTTGTTCTAATTGTTCTGC
* *
4958484 GTGAAGTAGTGCTTCACTTGTTATAATTGTTCTGT
1 GTGAAGTAGTGCTTCACTTGTTCTAATTGTTCTGC
* *
4958519 ATGAAGTA-TAGCTTGACTTGT
1 GTGAAGTAGT-GCTTCACTTGT
4958540 AATGGTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
34 1 0.01
35 81 0.99
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (35 bp):
GTGAAGTAGTGCTTCACTTGTTCTAATTGTTCTGC
Found at i:4959344 original size:28 final size:30
Alignment explanation
Indices: 4959308--4959364 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4959298 ATATTAAAAT
*
4959308 TTTTCTATT-AT-TTATATTG-ATATAATA
1 TTTTCTATTGATGTAATATTGAATATAATA
4959335 TTTTCTTATTGATGTAATATTGAATATAAT
1 TTTTC-TATTGATGTAATATTGAATATAAT
4959365 CATCTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 4 0.16
29 2 0.08
30 7 0.28
31 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTTCTATTGATGTAATATTGAATATAATA
Found at i:4962469 original size:11 final size:11
Alignment explanation
Indices: 4962453--4962483 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
4962443 CTGCAAAGCG
4962453 AGTAATTTGCT
1 AGTAATTTGCT
4962464 AGTAATTTGCT
1 AGTAATTTGCT
4962475 AGTAATTTG
1 AGTAATTTG
4962484 AACTTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (11 bp):
AGTAATTTGCT
Found at i:4963190 original size:28 final size:28
Alignment explanation
Indices: 4963148--4963204 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
4963138 GACAGGCCGC
*
4963148 AAGATAAATGGAAATTAACTCAAATCTT
1 AAGATAAATGAAAATTAACTCAAATCTT
*
4963176 AAGATAGATGAAAATTAACTCAAATCTT
1 AAGATAAATGAAAATTAACTCAAATCTT
4963204 A
1 A
4963205 TTTGGTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (28 bp):
AAGATAAATGAAAATTAACTCAAATCTT
Found at i:4966080 original size:2 final size:2
Alignment explanation
Indices: 4966073--4966108 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4966063 GTGAAAAATA
4966073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4966109 GAAATTACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4983648 original size:44 final size:44
Alignment explanation
Indices: 4983555--4983666 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
4983545 TTATCAACTC
* *
4983555 AGGTTACATGCCCCTTAGGATGTTCAATTCATTATCATCACTAG
1 AGGTTACATGCCCCTTAGCATGTTCAATTCATCATCATCACTAG
* * * * * *
4983599 CGGTTACATGCCCCTTAACATGTTCAGTTTATCA-CTATCATTAT
1 AGGTTACATGCCCCTTAGCATGTTCAATTCATCATC-ATCACTAG
*
4983643 AGGTTAGATGCCCC-TAGCATGTTC
1 AGGTTACATGCCCCTTAGCATGTTC
4983667 CATACTACCA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 10 0.18
44 46 0.82
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (44 bp):
AGGTTACATGCCCCTTAGCATGTTCAATTCATCATCATCACTAG
Found at i:4985284 original size:44 final size:44
Alignment explanation
Indices: 4985190--4985302 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
4985180 CTTATCAACT
* * *
4985190 CAGGTTACATGCCCCTTAGTATGTTCAGTTCATTATCATCACTA
1 CAGGTTACATGCCCCTTAGCATGTTCAATTCATCATCATCACTA
* * * *
4985234 CCGGTTACATGCCCCTTAACATGTTCAATTTATCA-CTATCATTA
1 CAGGTTACATGCCCCTTAGCATGTTCAATTCATCATC-ATCACTA
* *
4985278 TAGGTTAGATGCCCC-TAGCATGTTC
1 CAGGTTACATGCCCCTTAGCATGTTC
4985303 CATAATACCA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
43 10 0.18
44 47 0.82
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (44 bp):
CAGGTTACATGCCCCTTAGCATGTTCAATTCATCATCATCACTA
Found at i:4985675 original size:22 final size:22
Alignment explanation
Indices: 4985647--4985688 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4985637 TAGAGACTAA
*
4985647 TGAATGAGATATCGGTACCTCT
1 TGAATGAGATATCGATACCTCT
*
4985669 TGAATGAGGTATCGATACCT
1 TGAATGAGATATCGATACCT
4985689 AACATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (22 bp):
TGAATGAGATATCGATACCTCT
Found at i:4999930 original size:13 final size:13
Alignment explanation
Indices: 4999912--4999936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4999902 AGCAAATATA
4999912 AATTGAACCGAAC
1 AATTGAACCGAAC
4999925 AATTGAACCGAA
1 AATTGAACCGAA
4999937 TTGAAATGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (13 bp):
AATTGAACCGAAC
Found at i:5002903 original size:14 final size:15
Alignment explanation
Indices: 5002879--5002909 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5002869 TAAATTTTTA
5002879 AATTAATAATTAATT
1 AATTAATAATTAATT
5002894 AATT-ATAATTAATT
1 AATTAATAATTAATT
5002908 AA
1 AA
5002910 AATATTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATAATTAATT
Found at i:5010458 original size:2 final size:2
Alignment explanation
Indices: 5010451--5010475 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5010441 CCCACACTGC
5010451 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
5010476 CATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5011501 original size:23 final size:23
Alignment explanation
Indices: 5011475--5011521 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5011465 AAAAACAGTA
5011475 ATTTTAAAATTAATATAATATTT
1 ATTTTAAAATTAATATAATATTT
5011498 ATTTTAAAATTAATATAATATTT
1 ATTTTAAAATTAATATAATATTT
5011521 A
1 A
5011522 AATAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTTAAAATTAATATAATATTT
Found at i:5011533 original size:23 final size:23
Alignment explanation
Indices: 5011479--5011527 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
5011469 ACAGTAATTT
**
5011479 TAAAATTAATATAATATTTATTT
1 TAAAATTAATATAATATTTATAA
5011502 TAAAATTAATATAATATTTA-AA
1 TAAAATTAATATAATATTTATAA
5011524 TAAA
1 TAAA
5011528 TTTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAATTAATATAATATTTATAA
Found at i:5012430 original size:2 final size:2
Alignment explanation
Indices: 5012423--5012447 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5012413 TTTAAGGGAG
5012423 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
5012448 GTGTTTGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5012625 original size:2 final size:2
Alignment explanation
Indices: 5012618--5012668 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
5012608 ACATTAACTT
* *
5012618 TA TA TA TA TA TA TG TT TA TA TA TA TA TA TA T- TA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5012657 TA TA TA TA TA TA
1 TA TA TA TA TA TA
5012669 AAATTTTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:5017851 original size:9 final size:9
Alignment explanation
Indices: 5017837--5017862 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5017827 TGTCCCGGTT
5017837 GCTGCAGCA
1 GCTGCAGCA
5017846 GCTGCAGCA
1 GCTGCAGCA
5017855 GCTGCAGC
1 GCTGCAGC
5017863 TGTTGTTGCA
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:0.19, C:0.35, G:0.35, T:0.12
Consensus pattern (9 bp):
GCTGCAGCA
Found at i:5020895 original size:2 final size:2
Alignment explanation
Indices: 5020888--5020913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5020878 AATCCTTTAT
5020888 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
5020914 TCAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5020955 original size:20 final size:20
Alignment explanation
Indices: 5020927--5020973 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
5020917 AAATTCAGGC
*
5020927 TTAATGAATGGTCTTGGTTT
1 TTAAAGAATGGTCTTGGTTT
5020947 TTAAAGAATGGTCTTGGTTT
1 TTAAAGAATGGTCTTGGTTT
5020967 TTAAAGA
1 TTAAAGA
5020974 TCAAGTTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (20 bp):
TTAAAGAATGGTCTTGGTTT
Found at i:5022371 original size:100 final size:100
Alignment explanation
Indices: 5022198--5022398 Score: 366
Period size: 100 Copynumber: 2.0 Consensus size: 100
5022188 AACTGGGTTG
* *
5022198 TAAAGGTTGCGTTTTATCTCTTCACTATGATTTCTGGTCCTGTTAGAAATTTCTTTTATAATAAC
1 TAAAGGTTGCATTTTATCTCTTCACTATGATTTCTGATCCTGTTAGAAATTTCTTTTATAATAAC
*
5022263 TCTGCCTAGGATGAAATTTTGATTTAGGTTTGTGA
66 TCTGCCTAGGATGAAACTTTGATTTAGGTTTGTGA
*
5022298 TAAAGGTTGCATTTTATCTCTTCATTATGATTTCTGATCCTGTTAGAAATTTCTTTTATAATAAC
1 TAAAGGTTGCATTTTATCTCTTCACTATGATTTCTGATCCTGTTAGAAATTTCTTTTATAATAAC
5022363 TCTGCCTAGGATGAAACTTTGATTTAGGTTTGTGA
66 TCTGCCTAGGATGAAACTTTGATTTAGGTTTGTGA
5022398 T
1 T
5022399 TTTGGGTTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (100 bp):
TAAAGGTTGCATTTTATCTCTTCACTATGATTTCTGATCCTGTTAGAAATTTCTTTTATAATAAC
TCTGCCTAGGATGAAACTTTGATTTAGGTTTGTGA
Found at i:5031989 original size:3 final size:3
Alignment explanation
Indices: 5031981--5032017 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
5031971 TATAAATTAC
*
5031981 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5032018 AGAACGTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5036944 original size:57 final size:53
Alignment explanation
Indices: 5036880--5037039 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 53
5036870 TATTAAATGA
* *
5036880 TGTCGCATTCATTTTAAGGAATGGACGAATTTATAATTTTTTTATTAGTAGCTCGTT
1 TGTCGCATTCATTTCAAGGAATGGAC--ATTCATAA--TTTTTATTAGTAGCTCGTT
* * * *
5036937 TGTCGCATTTATTTCAGGGAATGAACATTCATAATTTTTATTAGTAGCTTGTT
1 TGTCGCATTCATTTCAAGGAATGGACATTCATAATTTTTATTAGTAGCTCGTT
** * ** *
5036990 TGTCATATTCACTTCAAGGAATGGACATTCATGGTTTTTCATTAATAGCT
1 TGTCGCATTCATTTCAAGGAATGGACATTCATAATTTTT-ATTAGTAGCT
5037040 ATATAATAGC
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
53 49 0.56
54 9 0.10
55 7 0.08
57 22 0.25
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (53 bp):
TGTCGCATTCATTTCAAGGAATGGACATTCATAATTTTTATTAGTAGCTCGTT
Found at i:5038903 original size:19 final size:19
Alignment explanation
Indices: 5038879--5038916 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5038869 CCATTTAACT
*
5038879 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
5038898 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
5038917 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:5048003 original size:36 final size:36
Alignment explanation
Indices: 5047955--5048024 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
5047945 CTTATTAAAT
*
5047955 GATTCAATTTAGTCAAGATGCAATTTTGCAATTACC
1 GATTCAAGTTAGTCAAGATGCAATTTTGCAATTACC
5047991 GATTCAAGTTAGTCAAGATGCAATTTTGCAATTA
1 GATTCAAGTTAGTCAAGATGCAATTTTGCAATTA
5048025 ACATAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (36 bp):
GATTCAAGTTAGTCAAGATGCAATTTTGCAATTACC
Found at i:5050405 original size:13 final size:13
Alignment explanation
Indices: 5050387--5050411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5050377 TTCTAGAAAA
5050387 TTTATAAAATCAT
1 TTTATAAAATCAT
5050400 TTTATAAAATCA
1 TTTATAAAATCA
5050412 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:5052608 original size:35 final size:34
Alignment explanation
Indices: 5052546--5052715 Score: 140
Period size: 35 Copynumber: 5.1 Consensus size: 34
5052536 GAAAAGTTAG
* * **
5052546 TTGTTG-GGTTTTGGTTGATCCCGTGAAAAACCA
1 TTGTTGAGGTTGTGGTTGAGCCTTTGAAAAACCA
*
5052579 TTGTTGTAGGTTGTGGTTAAGCCTTTGAAAAACCA
1 TTGTTG-AGGTTGTGGTTGAGCCTTTGAAAAACCA
* *
5052614 CT-TTG-GGTT-TGGTTGAGCCTGTGAAAAACCA
1 TTGTTGAGGTTGTGGTTGAGCCTTTGAAAAACCA
*
5052645 TTG-TGAAAGGTCGTGGTTGAGCCTTTGAAAAACCA
1 TTGTTG--AGGTTGTGGTTGAGCCTTTGAAAAACCA
* * * *
5052680 CT-TTG-GGTTTTGGTTGATCCTGCT-AAAAACCA
1 TTGTTGAGGTTGTGGTTGAGCCT-TTGAAAAACCA
5052712 TTGT
1 TTGT
5052716 GAAAGGTTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 20
0.75 0.12 0.14
Matches are distributed among these distances:
31 23 0.21
32 26 0.24
33 8 0.07
34 6 0.05
35 47 0.43
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (34 bp):
TTGTTGAGGTTGTGGTTGAGCCTTTGAAAAACCA
Found at i:5052638 original size:66 final size:68
Alignment explanation
Indices: 5052549--5052722 Score: 259
Period size: 66 Copynumber: 2.6 Consensus size: 68
5052539 AAGTTAGTTG
* * *
5052549 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTGTGGTTAAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCTGTGAAAAACCATTGTTGAAAGGTCGTGGTTAAGCCTTTGAAAAACC
5052613 ACT
66 ACT
* *
5052616 TTGGG-TTTGGTTGAGCCTGTGAAAAACCATTG-TGAAAGGTCGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCTGTGAAAAACCATTGTTGAAAGGTCGTGGTTAAGCCTTTGAAAAACC
5052679 ACT
66 ACT
5052682 TTGGGTTTTGGTTGATCCTGCT-AAAAACCATTG-TGAAAGGT
1 TTGGGTTTTGGTTGATCCTG-TGAAAAACCATTGTTGAAAGGT
5052723 TTTGGCTAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
65 2 0.02
66 58 0.59
67 37 0.38
68 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCTGTGAAAAACCATTGTTGAAAGGTCGTGGTTAAGCCTTTGAAAAACC
ACT
Found at i:5053235 original size:30 final size:30
Alignment explanation
Indices: 5053201--5053314 Score: 149
Period size: 30 Copynumber: 3.8 Consensus size: 30
5053191 GTTATAAGGA
5053201 CTTATTTGACTCAAAATAAAAGTACTAGGG
1 CTTATTTGACTCAAAATAAAAGTACTAGGG
*
5053231 CTTATTTGACTCAAAATAAAAGTACCAGGG
1 CTTATTTGACTCAAAATAAAAGTACTAGGG
* * *
5053261 CTTATTTGGCTCAAAATAAAAATA-TAAAGG
1 CTTATTTGACTCAAAATAAAAGTACT-AGGG
* **
5053291 TTTATTTGGTTCAAAATAAAAGTA
1 CTTATTTGACTCAAAATAAAAGTA
5053315 TAAAGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (30 bp):
CTTATTTGACTCAAAATAAAAGTACTAGGG
Found at i:5053317 original size:30 final size:30
Alignment explanation
Indices: 5053196--5053322 Score: 148
Period size: 30 Copynumber: 4.2 Consensus size: 30
5053186 AATTAGTTAT
5053196 AAGGACTTATTTGACTCAAAATAAAAGTACT-
1 AAGG-CTTATTTGACTCAAAATAAAAGTA-TA
* **
5053227 AGGGCTTATTTGACTCAAAATAAAAGTACC
1 AAGGCTTATTTGACTCAAAATAAAAGTATA
* * *
5053257 AGGGCTTATTTGGCTCAAAATAAAAATATA
1 AAGGCTTATTTGACTCAAAATAAAAGTATA
* **
5053287 AAGGTTTATTTGGTTCAAAATAAAAGTATA
1 AAGGCTTATTTGACTCAAAATAAAAGTATA
5053317 AAGGCT
1 AAGGCT
5053323 AGATTGATTG
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
30 81 0.96
31 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (30 bp):
AAGGCTTATTTGACTCAAAATAAAAGTATA
Found at i:5054320 original size:60 final size:60
Alignment explanation
Indices: 5054210--5054329 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
5054200 AACCCTAACC
**
5054210 ATTAAATTGTGTTAGCTTTAGATGGATATAACATAATAGAAGGTTAAGTTTA-GGCATATG
1 ATTAAATTGTGTTAGCTTTAGATGGATATAACATAATAGAAGCATAAGTTTATGG-ATATG
5054270 ATTAAATTGTG-TATGCTTTA-ATTGGATATAACATAATAGAAGCCAT-AGTTTATGGATATG
1 ATTAAATTGTGTTA-GCTTTAGA-TGGATATAACATAATAGAAG-CATAAGTTTATGGATATG
5054330 GTTTACTGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
59 3 0.06
60 48 0.89
61 3 0.06
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.38
Consensus pattern (60 bp):
ATTAAATTGTGTTAGCTTTAGATGGATATAACATAATAGAAGCATAAGTTTATGGATATG
Found at i:5055580 original size:19 final size:19
Alignment explanation
Indices: 5055533--5055572 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5055523 TGTCGAAGCA
5055533 ATGGACGAAGCGTCAAATC
1 ATGGACGAAGCGTCAAATC
*
5055552 ATGGACGAAGCGTCAGATC
1 ATGGACGAAGCGTCAAATC
5055571 AT
1 AT
5055573 TGTTGAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (19 bp):
ATGGACGAAGCGTCAAATC
Found at i:5058749 original size:22 final size:22
Alignment explanation
Indices: 5058686--5058750 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
5058676 CAAATACGAC
*
5058686 AATGAATCTTCGCTGCAGCGAA
1 AATGAATTTTCGCTGCAGCGAA
* * * * *
5058708 AAGGCATTCTCGCTGTAGCGAG
1 AATGAATTTTCGCTGCAGCGAA
*
5058730 AATGAATTTTCGTTGCAGCGA
1 AATGAATTTTCGCTGCAGCGA
5058751 CATTGGAATT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (22 bp):
AATGAATTTTCGCTGCAGCGAA
Found at i:5059013 original size:39 final size:40
Alignment explanation
Indices: 5058955--5059053 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
5058945 AGTGAGATTC
* * * *
5058955 TTTCTCGTTGCAGCAAAATTGTAACCC-AAAAACAGAAGG
1 TTTCTCGCTGCAGCGAAATTGCAACCCAAAAAACAGAAAG
5058994 TTTCTCGCTGCAGCGAAATTGCAACCCAAAAAACAGAAAG
1 TTTCTCGCTGCAGCGAAATTGCAACCCAAAAAACAGAAAG
5059034 TTTCTCGCTGCAGCGAAATT
1 TTTCTCGCTGCAGCGAAATT
5059054 TCGCTGATGA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 24 0.44
40 31 0.56
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
TTTCTCGCTGCAGCGAAATTGCAACCCAAAAAACAGAAAG
Found at i:5059551 original size:38 final size:39
Alignment explanation
Indices: 5059456--5059558 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 39
5059446 ACCCGGCTCA
*
5059456 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* * *
5059496 TGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCATTG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCATCG
5059534 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
5059559 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.51
39 3 0.05
40 25 0.44
ACGTcount: A:0.22, C:0.41, G:0.17, T:0.20
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:5066949 original size:60 final size:60
Alignment explanation
Indices: 5066876--5067025 Score: 205
Period size: 60 Copynumber: 2.5 Consensus size: 60
5066866 AGATAGGAGA
* *
5066876 CAAAAACAAAAGGTTT-TTCGCTACAGTGAGATTCTTTCTCGTTGCAGCGAAATTGTAACC
1 CAAAAACAAAAGGTTTCTT-GCTACAGTGAGATTCTTTCTCATTGCAGCGAAATTGCAACC
** * *
5066936 CAAAAACAAAAGGTTTCTTGCTACAACGAGATTCTTTCTCATTGCAGTGCAATTGCAACC
1 CAAAAACAAAAGGTTTCTTGCTACAGTGAGATTCTTTCTCATTGCAGCGAAATTGCAACC
5066996 CAAAAAACAGAAA-GTTTCTTGCTACAGTGA
1 C-AAAAACA-AAAGGTTTCTTGCTACAGTGA
5067026 AATTTCGCTG
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
60 52 0.66
61 24 0.30
62 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (60 bp):
CAAAAACAAAAGGTTTCTTGCTACAGTGAGATTCTTTCTCATTGCAGCGAAATTGCAACC
Found at i:5072698 original size:19 final size:19
Alignment explanation
Indices: 5072674--5072711 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5072664 CCATATGACT
*
5072674 TATTGGAGTATGCTTTGAG
1 TATTGGAGTATGATTTGAG
5072693 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
5072712 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:5072879 original size:16 final size:16
Alignment explanation
Indices: 5072858--5072888 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5072848 AATGGCTAAA
*
5072858 GATGGAATAGAGGTGT
1 GATGGAATAAAGGTGT
5072874 GATGGAATAAAGGTG
1 GATGGAATAAAGGTG
5072889 CCACGTGTCA
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:0.00, G:0.42, T:0.23
Consensus pattern (16 bp):
GATGGAATAAAGGTGT
Found at i:5075265 original size:38 final size:39
Alignment explanation
Indices: 5075179--5075281 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 39
5075169 NNNNNNCTCA
5075179 TGTACATCCCCCCACATCGTGCAC-ATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAG-CGG-ACCATCG
* *
5075219 TGTGCATCCCCCCACATCGTGCACAATTAG-TG-CCATCG
1 TGTACATCCCCCCACATCGTGCACAA-TAGCGGACCATCG
*
5075257 TGTACATCCCCCCACATTGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
5075282 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 29 0.51
40 24 0.42
41 1 0.02
42 3 0.05
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAATAGCGGACCATCG
Found at i:5078137 original size:14 final size:14
Alignment explanation
Indices: 5078116--5078150 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5078106 AAGAAGGTAT
5078116 AAAG-AAAACTAAA
1 AAAGAAAAACTAAA
*
5078129 GAAGAAAAACTAAA
1 AAAGAAAAACTAAA
5078143 AAAGAAAA
1 AAAGAAAA
5078151 GAAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (14 bp):
AAAGAAAAACTAAA
Found at i:5078157 original size:18 final size:18
Alignment explanation
Indices: 5078134--5078168 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5078124 CTAAAGAAGA
5078134 AAAACTAAAAAAGAAAAG
1 AAAACTAAAAAAGAAAAG
*
5078152 AAAACTAAAGAAGAAAA
1 AAAACTAAAAAAGAAAA
5078169 TTTGGTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAACTAAAAAAGAAAAG
Found at i:5085055 original size:19 final size:20
Alignment explanation
Indices: 5085026--5085065 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5085016 TCACTTCTAA
*
5085026 ACTTCAAATCATAGTCCAAT
1 ACTTCAAATCATACTCCAAT
5085046 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
5085065 A
1 A
5085066 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:5085586 original size:13 final size:13
Alignment explanation
Indices: 5085568--5085592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5085558 GGAGAAATTG
5085568 TGATTTTATAAAA
1 TGATTTTATAAAA
5085581 TGATTTTATAAA
1 TGATTTTATAAA
5085593 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:5093465 original size:16 final size:16
Alignment explanation
Indices: 5093423--5093467 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
5093413 AAATTTAGAC
*
5093423 TTTGATTCTTATGGAA
1 TTTGATTCTTTTGGAA
5093439 TTTGATTCTTTTGGAA
1 TTTGATTCTTTTGGAA
5093455 TTTGATTCTTTTG
1 TTTGATTCTTTTG
5093468 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTGATTCTTTTGGAA
Found at i:5093473 original size:16 final size:15
Alignment explanation
Indices: 5093423--5093473 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 15
5093413 AAATTTAGAC
*
5093423 TTTGATTCTTATGGAA
1 TTTGATTCTT-TTGAA
5093439 TTTGATTCTTTTGGAA
1 TTTGATTCTTTT-GAA
5093455 TTTGATTCTTTTGATA
1 TTTGATTCTTTTGA-A
5093471 TTT
1 TTT
5093474 TTATTGAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 3 0.09
16 29 0.91
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.59
Consensus pattern (15 bp):
TTTGATTCTTTTGAA
Found at i:5095060 original size:64 final size:64
Alignment explanation
Indices: 5094977--5095133 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 64
5094967 CTAGAACTTT
* ** * * * *
5094977 CACACAGTGTGAAATAACATTCCA-ACCGTGGTGAATTGCATCTAGTATGATGATCATAGCGGTC
1 CACACGGTGTGAGGTAACATTCCACA-CATGGTAAATTGCACCTAGTATGATGATCATAGCAGTC
* * * *
5095041 CACACGTTGTGAGGTAACATTCCACACATGTTAAATTGCACCTAGTATGATGATGATAGCATTC
1 CACACGGTGTGAGGTAACATTCCACACATGGTAAATTGCACCTAGTATGATGATCATAGCAGTC
* * *
5095105 CATATGGTGTGAGGTAACATTTCACACAT
1 CACACGGTGTGAGGTAACATTCCACACAT
5095134 AGTGCCAATG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
64 76 0.99
65 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (64 bp):
CACACGGTGTGAGGTAACATTCCACACATGGTAAATTGCACCTAGTATGATGATCATAGCAGTC
Found at i:5117377 original size:3 final size:3
Alignment explanation
Indices: 5117369--5117403 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5117359 CATGAACTGA
*
5117369 ATT ATT ATT ATT ATG ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
5117404 AAGATAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:5121029 original size:407 final size:406
Alignment explanation
Indices: 5120263--5121079 Score: 1427
Period size: 407 Copynumber: 2.0 Consensus size: 406
5120253 CCAAATATGG
* *
5120263 ATTTCTTGAGCTTGCACACCAAATACTCACCATCAATAGAGGAGAATCCTTCTGGTTATTTGATA
1 ATTTCTTGAGCTTGCACACCAAATACTCACCATCAATAGAGGAGAATCCTTCTAGTTATTCGATA
5120328 TAAACCTCCTCCTCTAAGTTCCATTAAGGAACGTTGTTTTCACATCCATTTGATACAGTTTCAAA
66 TAAACCTCCTCCTCTAAGTTCCATTAAGGAACGTTGTTTTCACATCCATTTGATACAGTTTCAAA
*
5120393 TCAAGATAGGCAACTAATATCATAATGACACAAAAAGAATCTTTCTTAGATATAAGAGAGAAAGT
131 TCAAGATAGGCAACTAATATCATAATGACACAAAAAGAATATTTCTTAGATATAAGAGAGAAAGT
*
5120458 CTCTGTATAATCGATTCACTTCTTTCGAATGAAACCCTTAACAACAAGTCTTACTTTATATCTCT
196 CTCTGTATAATCAATTCACTTCTTTCGAATGAAACCCTTAACAACAAGTCTTACTTTATATCTCT
* *
5120523 CAATGTTGCTTAATGAATCCATTTTTGTTTTTAAGATCCATTTACATCAATGGCCTTTGCACCAT
261 CAATGTTGCTTAATGAATCCATTTTTGTTTTAAAGACCCATTTACATCAATGGCCTTTGCACCAT
* * *
5120588 TAAGTAACTTAACAAGATTCTAAGCTCCGTTAGATGCCATAGAATTCATTTCATCTTTCATGGCA
326 TAAGTAACTTAACAAGATTCCAAACTCCGTTAGATGCCATAGAATTCATTTCATCTTTCATAGCA
5120653 TTGTACCACAATTCAGA
391 TTGTACCACAATTCA-A
5120670 ATTTCTTGAGCTTGCACACCAAATACTCACCATCAATAGAGGAGAATCCTTCTAGTTATTCGATA
1 ATTTCTTGAGCTTGCACACCAAATACTCACCATCAATAGAGGAGAATCCTTCTAGTTATTCGATA
* * * *
5120735 TAAACCTCTTCTTCTAGGTTCCATTAAGGAACGTTGTTTTCACATCCATTTGATGCAGTTTCAAA
66 TAAACCTCCTCCTCTAAGTTCCATTAAGGAACGTTGTTTTCACATCCATTTGATACAGTTTCAAA
* * **
5120800 TCAAGATAGGCAACTAATGTCATAATGACACGAAGGGAATATTTCTTAGATATAAGAGAGAAAGT
131 TCAAGATAGGCAACTAATATCATAATGACACAAAAAGAATATTTCTTAGATATAAGAGAGAAAGT
* * * *
5120865 CTCTGTGTAATCAATTCCCTTCTTTCGAATGAAACCCTTAACAACAAGTTTTACTTTATGTCTCT
196 CTCTGTATAATCAATTCACTTCTTTCGAATGAAACCCTTAACAACAAGTCTTACTTTATATCTCT
5120930 CAATGTTGCTTAATGAATCCATTTTTGTTTTAAAGACCCATTTACATCAATGGCCTTTGCACCAT
261 CAATGTTGCTTAATGAATCCATTTTTGTTTTAAAGACCCATTTACATCAATGGCCTTTGCACCAT
*
5120995 TAAGTAACTTAACAAGATTCCAAACTCTGTTAGATGCCATAGAATTCATTTCATCTTTCATAGCA
326 TAAGTAACTTAACAAGATTCCAAACTCCGTTAGATGCCATAGAATTCATTTCATCTTTCATAGCA
5121060 TTGTACCACAATTCAA
391 TTGTACCACAATTCAA
5121076 ATTT
1 ATTT
5121080 TTTGCAACTC
Statistics
Matches: 388, Mismatches: 22, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
406 5 0.01
407 383 0.99
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (406 bp):
ATTTCTTGAGCTTGCACACCAAATACTCACCATCAATAGAGGAGAATCCTTCTAGTTATTCGATA
TAAACCTCCTCCTCTAAGTTCCATTAAGGAACGTTGTTTTCACATCCATTTGATACAGTTTCAAA
TCAAGATAGGCAACTAATATCATAATGACACAAAAAGAATATTTCTTAGATATAAGAGAGAAAGT
CTCTGTATAATCAATTCACTTCTTTCGAATGAAACCCTTAACAACAAGTCTTACTTTATATCTCT
CAATGTTGCTTAATGAATCCATTTTTGTTTTAAAGACCCATTTACATCAATGGCCTTTGCACCAT
TAAGTAACTTAACAAGATTCCAAACTCCGTTAGATGCCATAGAATTCATTTCATCTTTCATAGCA
TTGTACCACAATTCAA
Found at i:5122974 original size:60 final size:60
Alignment explanation
Indices: 5122894--5123075 Score: 204
Period size: 60 Copynumber: 3.0 Consensus size: 60
5122884 AGACATCATC
* ** * * * *
5122894 ACCTACTCGTGGGAACTGCCCACGTTA-CTATATATAAATTGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGCGAACTGCCCACGCCACCCA-ATATAAATCGAGACTTCAGGTCCCCCTTT
*
5122954 ACCTACTCGTGCGAATTGCCCACGCCACCCAATATAAATCGAGACTTCAGGTCCCCCTTT
1 ACCTACTCGTGCGAACTGCCCACGCCACCCAATATAAATCGAGACTTCAGGTCCCCCTTT
* * * * * * * *
5123014 ACCTACTTGTGGGAACTGTCCACGCCATCCAATATGAATGGAGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGCGAACTGCCCACGCCACCCAATATAAATCGAGACTTCAGGTCCCCCTTT
5123074 AC
1 AC
5123076 AATCAAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
60 102 0.98
61 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (60 bp):
ACCTACTCGTGCGAACTGCCCACGCCACCCAATATAAATCGAGACTTCAGGTCCCCCTTT
Found at i:5123802 original size:7 final size:6
Alignment explanation
Indices: 5123785--5123815 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
5123775 GGCGTTTCTC
5123785 CTTTTT CTTTTT CTTTTT CTTTCTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTT-TT CTTTTT
5123816 TCCCCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:5123811 original size:13 final size:13
Alignment explanation
Indices: 5123779--5123815 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
5123769 TCAGTCGGCG
*
5123779 TTTCTCCTTTTTC
1 TTTCTTCTTTTTC
5123792 TTT-TTCTTTTTC
1 TTTCTTCTTTTTC
5123804 TTTCTTCTTTTT
1 TTTCTTCTTTTT
5123816 TCCCCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCTTCTTTTTC
Found at i:5123920 original size:62 final size:63
Alignment explanation
Indices: 5123821--5123952 Score: 187
Period size: 62 Copynumber: 2.1 Consensus size: 63
5123811 TTTTTTCCCC
* * *
5123821 TTTCTCCTCCGACACCGTCACTGCTCTCCTTCTCTCTTCCTTCTTCTTTTTTTTTCTCT-TTTT
1 TTTCTCCTCCGACACCGTCACTGCTCTCCCTCTCTCTTCCTTCTTC-CTTTTCTTCTCTATTTT
* *
5123884 TTTCTCCTCCGGCA-CGTCGCTGCTCTCCCTCTCTCTTCCTTCTTCCTTTTCTTCTCTATTTT
1 TTTCTCCTCCGACACCGTCACTGCTCTCCCTCTCTCTTCCTTCTTCCTTTTCTTCTCTATTTT
5123946 TATTCTC
1 T-TTCTC
5123953 TTCCAATCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
61 10 0.16
62 34 0.55
63 18 0.29
ACGTcount: A:0.05, C:0.38, G:0.06, T:0.52
Consensus pattern (63 bp):
TTTCTCCTCCGACACCGTCACTGCTCTCCCTCTCTCTTCCTTCTTCCTTTTCTTCTCTATTTT
Found at i:5127158 original size:8 final size:8
Alignment explanation
Indices: 5127120--5127174 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
5127110 CTGATTTTCT
*
5127120 TATATACA
1 TATATATA
5127128 TATATATA
1 TATATATA
*
5127136 TAAATATA
1 TATATATA
5127144 TATATATA
1 TATATATA
*
5127152 TATATATT
1 TATATATA
5127160 TATATATA
1 TATATATA
*
5127168 TCTATAT
1 TATATAT
5127175 CGTCTTCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (8 bp):
TATATATA
Found at i:5127166 original size:10 final size:10
Alignment explanation
Indices: 5127120--5127174 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
5127110 CTGATTTTCT
*
5127120 TATATACATA
1 TATATATATA
*
5127130 TATATATAAA
1 TATATATATA
5127140 TATATATATA
1 TATATATATA
*
5127150 TATATATATT
1 TATATATATA
*
5127160 TATATATATC
1 TATATATATA
5127170 TATAT
1 TATAT
5127175 CGTCTTCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATATATA
Found at i:5127175 original size:6 final size:6
Alignment explanation
Indices: 5127120--5127174 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
5127110 CTGATTTTCT
* * *
5127120 TATATA CATATA TATATA AATATA TATATA TATATA TATTTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
5127168 TCTATA T
1 TATATA T
5127175 CGTCTTCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:5128627 original size:30 final size:30
Alignment explanation
Indices: 5128587--5128643 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
5128577 AATCAAGCCC
* *
5128587 TTATATTTTTACTTTGGGCCAAATAAGCTA
1 TTATACTTTTACTTTGAGCCAAATAAGCTA
* *
5128617 TTATACTTTTATTTTGAGTCAAATAAG
1 TTATACTTTTACTTTGAGCCAAATAAG
5128644 TCCTTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (30 bp):
TTATACTTTTACTTTGAGCCAAATAAGCTA
Found at i:5128651 original size:30 final size:29
Alignment explanation
Indices: 5128585--5128651 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
5128575 TCAATCAAGC
* *
5128585 CCTTATATTTTTACTTTGGGCCAAATAAG
1 CCTTATACTTTTACTTTGAGCCAAATAAG
* * *
5128614 CTATTATACTTTTATTTTGAGTCAAATAAG
1 C-CTTATACTTTTACTTTGAGCCAAATAAG
5128644 TCCTTATA
1 -CCTTATA
5128652 ATTAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.03
30 28 0.93
31 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (29 bp):
CCTTATACTTTTACTTTGAGCCAAATAAG
Found at i:5136614 original size:44 final size:42
Alignment explanation
Indices: 5136454--5136704 Score: 139
Period size: 44 Copynumber: 5.5 Consensus size: 42
5136444 CCTTACTCAT
* *
5136454 AAATATTATTAAATTATAATAAAAGGTATTTCTTTTATTTTACTGA
1 AAATATTATTAAATTATAATAAAGGGTA--T-TTTTATTTT-GTGA
* * * * *
5136500 AAATATTGTTAAA-TATTATAAAGGCTAATTTTATCTTGTGACA
1 AAATATTATTAAATTATAATAAAGGGTATTTTTATTTTGTG--A
* *
5136543 TAAATTGTAATTGTTAGATTATAATAAAGGGTATTTTGTATTTTGGTGA
1 -AAA---T-ATTATTAAATTATAATAAAGGGTATTTT-TATTTT-GTGA
* * * * *
5136592 AAATATTATTAAATTATTATAAAAGGAAATTTCATCTTT-TGA
1 AAATATTATTAAATTATAATAAAGGGTATTTTTAT-TTTGTGA
*
5136634 CATAATATTATTAAATTATAATAAAGGGTGTTTTTAGTATTT-TGGTA
1 -A-AATATTATTAAATTATAATAAAGGGTATTTTTA-T-TTTGT-G-A
* *
5136681 AACATATTATCAAATTATCATAAA
1 AA-ATATTATTAAATTATAATAAA
5136705 AGGTGGAGAC
Statistics
Matches: 160, Mismatches: 28, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.01
42 11 0.07
43 4 0.03
44 55 0.34
45 18 0.11
46 33 0.21
47 2 0.01
48 11 0.07
49 16 0.10
50 5 0.03
51 3 0.02
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.44
Consensus pattern (42 bp):
AAATATTATTAAATTATAATAAAGGGTATTTTTATTTTGTGA
Found at i:5136696 original size:46 final size:45
Alignment explanation
Indices: 5136560--5136709 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 45
5136550 TAATTGTTAG
*
5136560 ATTATAATAAAGGGT-ATTTT-GTATTTTGGTGAAAATATTATTAA
1 ATTATAATAAAAGGTGATTTTAGTATTTTGGT-AAAATATTATTAA
* ** * * ** *
5136604 ATTATTATAAAAGGAAATTTCA-TCTTTTGACATAATATTATTAA
1 ATTATAATAAAAGGTGATTTTAGTATTTTGGTAAAATATTATTAA
* * *
5136648 ATTATAATAAAGGGTGTTTTTAGTATTTTGGTAAACATATTATCAA
1 ATTATAATAAAAGGTGATTTTAGTATTTTGGTAAA-ATATTATTAA
*
5136694 ATTATCATAAAAGGTG
1 ATTATAATAAAAGGTG
5136710 GAGACTCTGT
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
44 40 0.49
45 18 0.22
46 23 0.28
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (45 bp):
ATTATAATAAAAGGTGATTTTAGTATTTTGGTAAAATATTATTAA
Found at i:5136696 original size:90 final size:90
Alignment explanation
Indices: 5136451--5136707 Score: 281
Period size: 90 Copynumber: 2.8 Consensus size: 90
5136441 TCCCCTTACT
* * ** *
5136451 CATAAATATTATTAAATTATAATAAAAGGTATTTCTTTTATTTTACTGAAAATATTGTTAAA-TA
1 CATAAATATTATTAAATTATAATAAAGGGT-TTT-TTGTATTTTGGTGAAAATATTATTAAATTA
* *
5136515 TTAT-AAAGGCTAATTTTATCTTGTGA
64 TTATAAAAGGCAAATTTCATCTTGTGA
* * *
5136541 CATAAATTGTAATTGTTAGATTATAATAAAGGGTATTTTGTATTTTGGTGAAAATATTATTAAAT
1 CATAAA---T-ATTATTAAATTATAATAAAGGGTTTTTTGTATTTTGGTGAAAATATTATTAAAT
*
5136606 TATTATAAAAGG-AAATTTCATCTTTTGA
62 TATTATAAAAGGCAAATTTCATCTTGTGA
*
5136634 CAT-AATATTATTAAATTATAATAAAGGGTGTTTTTAGTATTTTGGT-AAACATATTATCAAATT
1 CATAAATATTATTAAATTATAATAAAGGGT-TTTTT-GTATTTTGGTGAAA-ATATTATTAAATT
*
5136697 ATCATAAAAGG
63 ATTATAAAAGG
5136708 TGGAGACTCT
Statistics
Matches: 142, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
88 21 0.15
89 8 0.06
90 38 0.27
92 25 0.18
93 25 0.18
94 25 0.18
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (90 bp):
CATAAATATTATTAAATTATAATAAAGGGTTTTTTGTATTTTGGTGAAAATATTATTAAATTATT
ATAAAAGGCAAATTTCATCTTGTGA
Found at i:5142979 original size:14 final size:15
Alignment explanation
Indices: 5142959--5143000 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
5142949 ATTTGTTCAA
5142959 AAACAAACACATAAC
1 AAACAAACACATAAC
*
5142974 -AACAAAAACAATAAC
1 AAACAAACAC-ATAAC
*
5142989 AAATAAACACAT
1 AAACAAACACAT
5143001 TATATTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.36
15 7 0.32
16 7 0.32
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (15 bp):
AAACAAACACATAAC
Found at i:5146209 original size:20 final size:20
Alignment explanation
Indices: 5146184--5146229 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
5146174 TTTTGGCTTC
* *
5146184 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
5146204 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
5146224 ATTTGA
1 ATTTGA
5146230 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:5146230 original size:20 final size:20
Alignment explanation
Indices: 5146193--5146230 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5146183 CATTTGACTT
*
5146193 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
5146213 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
5146231 GTTTAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Done.