Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 17 of 438
Found at i:4753642 original size:31 final size:31
Alignment explanation
Indices: 4753607--4753699 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 31
4753597 ACACCTTAAT
4753607 AAAATCCAAATTTAAGGATCAAATTGAAAAA
1 AAAATCCAAATTTAAGGATCAAATTGAAAAA
* *
4753638 AAAAT-CAAGTCTT-AGGAT-TAATGTGAAAAA
1 AAAATCCAAAT-TTAAGGATCAAAT-TGAAAAA
* * *
4753668 AAAATCAAATATTTAAGGACCAAACTGAAAAA
1 AAAATCCAA-ATTTAAGGATCAAATTGAAAAA
4753700 TTGTCATGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
29 3 0.06
30 21 0.43
31 11 0.22
32 12 0.24
33 2 0.04
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAATCCAAATTTAAGGATCAAATTGAAAAA
Found at i:4753957 original size:12 final size:12
Alignment explanation
Indices: 4753940--4753978 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
4753930 CAAAATATTT
4753940 TATATTAAAAAA
1 TATATTAAAAAA
4753952 TATATTTATAAAAA
1 TATA-TTA-AAAAA
*
4753966 TATATTAATAAA
1 TATATTAAAAAA
4753978 T
1 T
4753979 GATTATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 9 0.38
13 6 0.25
14 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATTAAAAAA
Found at i:4753966 original size:14 final size:14
Alignment explanation
Indices: 4753947--4753977 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4753937 TTTTATATTA
*
4753947 AAAAATATATTTAT
1 AAAAATATATTAAT
4753961 AAAAATATATTAAT
1 AAAAATATATTAAT
4753975 AAA
1 AAA
4753978 TGATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATATATTAAT
Found at i:4756707 original size:33 final size:33
Alignment explanation
Indices: 4756670--4756734 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4756660 CTTATGTATT
4756670 GTTAGAATGTATCTAAGTAAAGTATTATGAAGA
1 GTTAGAATGTATCTAAGTAAAGTATTATGAAGA
*
4756703 GTTAGAATGTATCTAAGTAAAGTATTTTGAAG
1 GTTAGAATGTATCTAAGTAAAGTATTATGAAG
4756735 GCTTTTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (33 bp):
GTTAGAATGTATCTAAGTAAAGTATTATGAAGA
Found at i:4757761 original size:26 final size:26
Alignment explanation
Indices: 4757732--4757841 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
4757722 TGATACAAAT
4757732 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4757758 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4757784 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4757810 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4757836 TGATAA
1 TGATAA
4757842 GAAATTCATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4759871 original size:136 final size:136
Alignment explanation
Indices: 4759627--4759911 Score: 507
Period size: 136 Copynumber: 2.1 Consensus size: 136
4759617 GAGTAGTCTC
* *
4759627 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
4759692 GTTATCTGAATAAGTGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
4759757 CTGTTA
131 CTGTTA
4759763 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
4759828 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
4759893 CTGTTA
131 CTGTTA
**
4759899 CCTGAATGGGCTT
1 CCCAAATGGGCTT
4759912 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 142 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:4763670 original size:27 final size:26
Alignment explanation
Indices: 4763569--4763679 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
4763559 TGATACAAAT
4763569 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4763595 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4763621 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4763647 TGATAATGGTTTAAGGTAAATGTTTCA
1 TGATAATGGGTT-AGGTAAATGTTCCA
4763674 TGATAA
1 TGATAA
4763680 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 58 0.74
27 20 0.26
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4765657 original size:138 final size:136
Alignment explanation
Indices: 4765463--4765749 Score: 502
Period size: 138 Copynumber: 2.1 Consensus size: 136
4765453 GAGTAGTCTC
* * *
4765463 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
4765528 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAGAAGGGCTCTGGCCCAGTACC
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAA-AAGGGCTCTGGCCCAGTACC
4765593 ACTGTTA
130 ACTGTTA
4765600 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
*
4765665 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4765730 ACTGTTA
130 ACTGTTA
**
4765737 CCTGAATGGGCTT
1 CCCAAATGGGCTT
4765750 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 57 0.40
138 86 0.60
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:4771218 original size:3 final size:3
Alignment explanation
Indices: 4771210--4771239 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4771200 AAACTCAGAC
4771210 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4771240 AAATTTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4771232 original size:114 final size:114
Alignment explanation
Indices: 4770996--4771212 Score: 434
Period size: 114 Copynumber: 1.9 Consensus size: 114
4770986 ACAGAAAATA
4770996 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
1 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
4771061 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
66 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
4771110 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
1 ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
4771175 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTAT
66 ACTAAATTCTCTATTAAAAATACATAAACTCAGACTAT
4771213 TATTATTATT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.34
Consensus pattern (114 bp):
ATAATATTACAATAAATTTGAATTCATAAAAGTATATGATGAAATTCATATAAATAAAATACAAA
ACTAAATTCTCTATTAAAAATACATAAACTCAGACTATATTTTAACTTT
Found at i:4774795 original size:2 final size:2
Alignment explanation
Indices: 4774783--4774841 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
4774773 AAAGTAGATA
*
4774783 AT AT GT 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
4774825 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
4774842 AAGTATGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4778478 original size:16 final size:16
Alignment explanation
Indices: 4778436--4778493 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
4778426 ATTTGCCCGG
4778436 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
4778452 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
4778469 CCCAAAACCCAAC-AG
1 CCCAAAACCCAACTAT
4778484 CCCAAAACCC
1 CCCAAAACCC
4778494 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:4779621 original size:21 final size:21
Alignment explanation
Indices: 4779603--4779656 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
4779593 TTATTATTTG
4779603 TATTATTATTTAC-ACTATTAT
1 TATTATTA-TTACTACTATTAT
*
4779624 TATTATTATTACTACTATTGT
1 TATTATTATTACTACTATTAT
4779645 TAATATATTATT
1 T-AT-TATTATT
4779657 TTCTACTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 16 0.55
22 2 0.07
23 7 0.24
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTATTATTACTACTATTAT
Found at i:4780005 original size:3 final size:3
Alignment explanation
Indices: 4779732--4779987 Score: 117
Period size: 3 Copynumber: 85.7 Consensus size: 3
4779722 TATTATTTAC
* ** * * ** * *
4779732 ATT ATT GTT ATT ACA ATT ATT ATT TTT ATT ACT ATT AAC ATT AGT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4779780 ATT ATC ATT -TT ATT -TT ATT ATT ACT ATC ATT TTT GTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4779826 ACT ATT ATT ATT ATGT TTT CTCT -TT TTT ATT ACT ATT ACT ATT ATT
1 ATT ATT ATT ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
4779872 ATT -TT ATT ATT TTCT ATT ACT ATT ATC ATT ATT ATT AAT ACT AAT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
4779917 ATT AAT ATT CTT ATT ATT ACTT -TT ATT ATC ATC ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4779962 ATT TTT ACT ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4779988 CAACATTGTT
Statistics
Matches: 184, Mismatches: 60, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
2 9 0.05
3 168 0.91
4 7 0.04
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4780515 original size:128 final size:128
Alignment explanation
Indices: 4780287--4780612 Score: 571
Period size: 128 Copynumber: 2.5 Consensus size: 128
4780277 GCAAGCTTCG
* * * *
4780287 TATTTAGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
*
4780352 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAATGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
* *
4780415 TATTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCGATTTCCTGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
4780480 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
* *
4780543 TATTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCAATTTCTTGTTTGTTCAAAATA
1 TATTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
4780608 ATCGA
66 ATCGA
4780613 TGTTGTAGGC
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 188 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (128 bp):
TATTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAATA
ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTCTAAAACAAGGTAATGTTTGA
Found at i:4780805 original size:19 final size:19
Alignment explanation
Indices: 4780783--4780836 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 19
4780773 ACACCCCAAA
*
4780783 CCCAATACAAAACCCTTAG
1 CCCAATACAAAACCCTAAG
*
4780802 CCC-A-ACTAAA-CCTAAG
1 CCCAATACAAAACCCTAAG
4780818 CCCAATAACAGAAACCCTA
1 CCCAAT-ACA-AAACCCTA
4780837 GCTACCCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 5 0.19
20 3 0.11
21 4 0.15
ACGTcount: A:0.44, C:0.37, G:0.06, T:0.13
Consensus pattern (19 bp):
CCCAATACAAAACCCTAAG
Found at i:4781430 original size:16 final size:16
Alignment explanation
Indices: 4781400--4781441 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
4781390 GTGACCGGAG
4781400 CTCTCCCTT-TCCCCT
1 CTCTCCCTTCTCCCCT
*
4781415 CTCTTCCTTCTCCCCT
1 CTCTCCCTTCTCCCCT
4781431 CTCTCCCTTCT
1 CTCTCCCTTCT
4781442 TTCTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (16 bp):
CTCTCCCTTCTCCCCT
Found at i:4782397 original size:17 final size:16
Alignment explanation
Indices: 4782366--4782403 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
4782356 TTGATATTAG
*
4782366 TATATGTTTATATATA
1 TATATCTTTATATATA
4782382 TATATCTTTAATATATA
1 TATATCTTT-ATATATA
4782399 TATAT
1 TATAT
4782404 AGGCATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATCTTTATATATA
Found at i:4782509 original size:21 final size:21
Alignment explanation
Indices: 4782483--4782524 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4782473 ATTTTAACAT
* *
4782483 TATATTATATATGTATTTATA
1 TATATTACATATGTATATATA
*
4782504 TATATTACGTATGTATATATA
1 TATATTACATATGTATATATA
4782525 CCTTTTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (21 bp):
TATATTACATATGTATATATA
Found at i:4782515 original size:17 final size:18
Alignment explanation
Indices: 4782482--4782524 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4782472 TATTTTAACA
*
4782482 TTATAT-TATATATGTAT
1 TTATATATATATACGTAT
4782499 TTATATATAT-TACGTAT
1 TTATATATATATACGTAT
*
4782516 GTATATATA
1 TTATATATA
4782525 CCTTTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (18 bp):
TTATATATATATACGTAT
Found at i:4795163 original size:72 final size:71
Alignment explanation
Indices: 4795044--4795234 Score: 238
Period size: 72 Copynumber: 2.6 Consensus size: 71
4795034 AAGCCTTTTT
* * * * *
4795044 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGT
*
4795109 ATTTTCA
65 AATTTCA
**
4795116 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGT
1 ATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGT
4795181 AATTTCA
65 AATTTCA
* * *
4795188 ATTTCTGTTTGTCAAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-T-TAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
4795235 ACCTTTTAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 2 0.02
72 67 0.66
73 6 0.06
74 27 0.26
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTA
ATTTCA
Found at i:4795419 original size:117 final size:117
Alignment explanation
Indices: 4795210--4795430 Score: 318
Period size: 117 Copynumber: 1.9 Consensus size: 117
4795200 CAAAGAATCA
* * *
4795210 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTACAAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
* *
4795275 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTCAAAAATTG
66 GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTCAAAAATTG
* * **
4795327 ACTCATATTACAAGAGGTGAGTT-AAGCCTTTTTATTTTTTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTACAAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
4795391 CTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTT
65 CGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTT
4795431 CAATTTTTGT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 2 0.02
117 89 0.98
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (117 bp):
ACTCATATTACAAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTCAAAAATTG
Found at i:4795550 original size:73 final size:71
Alignment explanation
Indices: 4795369--4795550 Score: 247
Period size: 72 Copynumber: 2.5 Consensus size: 71
4795359 TATTTTTTGT
* * * * *
4795369 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
*
4795434 TTTTTG
66 TTTCTG
* **
4795440 TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCA
1 T-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCA
4795505 ATTTCTG
65 ATTTCTG
*
4795512 TTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
4795551 ACCTTTTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 65 0.68
73 27 0.28
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (71 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
TTTCTG
Found at i:4795570 original size:316 final size:316
Alignment explanation
Indices: 4794935--4795629 Score: 1257
Period size: 317 Copynumber: 2.2 Consensus size: 316
4794925 TTAATTGTTG
*
4794935 TTTTCAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTA
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTTA
*** * *
4795000 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAA
65 GTCAAAAATTGACTCATATTACAAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAA
4795065 CTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTA
130 CTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTA
4795130 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTG
195 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTG
4795195 TTTGTCAAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
260 TTTGTCAAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
4795252 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
4795317 TCAAAAATTGACTCATATTACAAGAGGTGAGTTAAGCCTTTTTATTTTTTGTTTTTCAAAATCAA
66 TCAAAAATTGACTCATATTACAAGAGGTGAGTTAAGCCTTTTTA-TTTTTGTTTTTCAAAATCAA
4795382 CTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTA
130 CTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTA
*
4795447 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTG
195 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTG
4795512 TTTGTC-AAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
260 TTTGTCAAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
* * * * *
4795568 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
4795630 CAATTTCTGT
Statistics
Matches: 365, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
316 153 0.42
317 212 0.58
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (316 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
TCAAAAATTGACTCATATTACAAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:4795872 original size:170 final size:170
Alignment explanation
Indices: 4795573--4796163 Score: 761
Period size: 169 Copynumber: 3.4 Consensus size: 170
4795563 CTACTTTTTC
* * * *
4795573 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTCC
* *
4795638 GTTT-TCATTATTATGTTTTTGAAAGAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
64 GTTTGTCA--ATT-TATTTTTCAAA-AATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
4795701 ACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAA
125 ACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAA
4795747 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGT
4795812 TTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
66 TTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
4795877 TGAGGTATTTTAAATTTCTGTCTTTCAAACAAAAAAAAAATCAA
131 TGAGGTATTTTCAATTTCTGTCTTT----CAAAAAAAAAATCAA
4795921 AAAATCAACTCATATTGCGAGA---G-G-TGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGT
* * *
4795981 TTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGCTGAGCCTC-GGCTCACG
66 TTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACG
*** ****
4796045 TGCTGAGGTATTTTCAATTTCTG-CTTTTCAATTTCTACTTTTCAA
130 T--TGAGGTATTTTCAATTTCTGTC-TTTCAA--AAAAAAAATCAA
* *
4796090 AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACGCTGAGGTATTTTCAATTTC
*
4796155 TG-TTGTCAA
63 CGTTTGTCAA
4796164 AAAAATCAAC
Statistics
Matches: 376, Mismatches: 21, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
167 3 0.01
168 1 0.00
169 106 0.28
170 96 0.26
171 26 0.07
172 25 0.07
173 4 0.01
174 76 0.20
175 9 0.02
176 7 0.02
177 23 0.06
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (170 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGT
TTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCAA
Found at i:4796074 original size:14 final size:14
Alignment explanation
Indices: 4796055--4796089 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4796045 TGCTGAGGTA
*
4796055 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
4796069 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
4796083 TTTTCAA
1 TTTTCAA
4796090 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:4796118 original size:260 final size:256
Alignment explanation
Indices: 4795553--4796168 Score: 691
Period size: 260 Copynumber: 2.4 Consensus size: 256
4795543 TGGGTTGAAC
* *
4795553 CTTTT-AATTTCTACTTTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 CTTTTCAATTTCTAC-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* ** ** ****** * *
4795616 CGCCGAGGTATTTTCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGA
65 CGCTGAGGTATTTTCAATTTCTGTTTTCAACAAAAAAAAAATCAAAAAATCAACTCATATTGCGA
* *
4795681 GAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATCA
130 GA-G-GAGTTGAGCCTCAAGA-ACGCTGAGGTATTTTCAATTTCCGTCTTTCAAAAAAAAAATCA
*
4795746 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCG
192 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCG
* *
4795811 -TTTGTCAA-TT-TATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 CTTT-TCAATTTCTACTTTTCAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
4795873 ACGTTGAGGTATTTTAAATTTCTGTCTTTCAAACAAAAAAAAAATCAAAAAATCAACTCATATTG
64 ACGCTGAGGTATTTTCAATTTCTGT-TTTC-AACAAAAAAAAAATCAAAAAATCAACTCATATTG
*** ****
4795938 CGAGA-G-G-TGAGCCTCAAG-ACGCTGAGGTATTTTCAATTTCCGT-TTGTCAATTTATTTTTC
127 CGAGAGGAGTTGAGCCTCAAGAACGCTGAGGTATTTTCAATTTCCGTCTT-TCAAAAAAAAAATC
*
4795998 -AAAAATCCAACTCATATTGCGAGAGGTGAGCTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCA
191 AAAAAAT-CAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAG---AC--GCTGAGGTATTTTCA
*
4796061 ATTTCTG
250 ATTTCCG
4796068 CTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 CTTTTCAATTTCTACTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
4796133 ACGCTGAGGTAATTTCAATTTCTGTTGTCAA-AAAAA
64 ACGCTGAGGTATTTTCAATTTCTGTTTTCAACAAAAA
4796169 TCAACTCGTA
Statistics
Matches: 303, Mismatches: 37, Indels: 37
0.80 0.10 0.10
Matches are distributed among these distances:
252 9 0.03
253 61 0.20
255 13 0.04
256 6 0.02
257 41 0.14
258 66 0.22
259 16 0.05
260 88 0.29
261 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (256 bp):
CTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTCAACAAAAAAAAAATCAAAAAATCAACTCATATTGCGAG
AGGAGTTGAGCCTCAAGAACGCTGAGGTATTTTCAATTTCCGTCTTTCAAAAAAAAAATCAAAAA
ATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCG
Found at i:4796463 original size:109 final size:109
Alignment explanation
Indices: 4796267--4796464 Score: 272
Period size: 109 Copynumber: 1.8 Consensus size: 109
4796257 TATACTTTCC
* * *
4796267 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACATGCCGAGCTATTTTCAAAT
* * * **
4796332 TCTGTTTTTAGTTTCTTTTTTTAATTTCTGTGTTTTTTTAAAAA
66 TCTATTTTTAATGTCTAGTTTTAATTTCTGTGTTTTTTTAAAAA
* * * *
4796376 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC-CACATGCCGAGCTATTTTCAAA
4796440 TTCTATTTTTAATGTCTAGTTTTAA
65 TTCTATTTTTAATGTCTAGTTTTAA
4796465 AGAGTCATTC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
108 3 0.04
109 73 0.96
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (109 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACATGCCGAGCTATTTTCAAAT
TCTATTTTTAATGTCTAGTTTTAATTTCTGTGTTTTTTTAAAAA
Found at i:4797766 original size:16 final size:16
Alignment explanation
Indices: 4797737--4797779 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4797727 GTGGCCGGAG
4797737 CTCTC-CCCTT-TCCC
1 CTCTCTCCCTTCTCCC
*
4797751 CTCTCTTCCTTCTCCC
1 CTCTCTCCCTTCTCCC
4797767 CTCTCTCCCTTCT
1 CTCTCTCCCTTCT
4797780 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCTCCCTTCTCCC
Found at i:4798033 original size:73 final size:73
Alignment explanation
Indices: 4797914--4798061 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
4797904 GGGTCGGGTC
* *
4797914 CACCCGACCTGCCCCAGCAAGGATCCACGTGTTTCTAAAAGCGGAAGGGCTATTTGTGCAATCGG
1 CACCCAACCCGCCCCAGCAAGGATCCACGTGTTTCTAAAAGCGGAAGGGCTATTTGTGCAATCGG
4797979 CCCTTCCG
66 CCCTTCCG
*
4797987 CACCCAACCCGCCCCAGCAAGGATCCGCGTGTTTCTAAAAGCGGAAGGGCTATTTGTGCAATCGG
1 CACCCAACCCGCCCCAGCAAGGATCCACGTGTTTCTAAAAGCGGAAGGGCTATTTGTGCAATCGG
4798052 CCCTTCCG
66 CCCTTCCG
4798060 CA
1 CA
4798062 TTTTTAGTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (73 bp):
CACCCAACCCGCCCCAGCAAGGATCCACGTGTTTCTAAAAGCGGAAGGGCTATTTGTGCAATCGG
CCCTTCCG
Found at i:4798474 original size:2 final size:2
Alignment explanation
Indices: 4798467--4798498 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4798457 TTACTATTAC
4798467 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
4798499 GTATTTACTA
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:4798889 original size:2 final size:2
Alignment explanation
Indices: 4798823--4798880 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
4798813 TAGTATATGT
*
4798823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4798865 TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
4798881 GGCATATATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4799062 original size:2 final size:2
Alignment explanation
Indices: 4799055--4799099 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4799045 TACTGTATTG
4799055 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
4799097 TA T
1 TA T
4799100 CCTTAGTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4805345 original size:26 final size:26
Alignment explanation
Indices: 4805289--4805395 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
4805279 TGAAATGCCC
4805289 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
4805314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
4805340 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
4805366 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4805392 ATCA
1 ATCA
4805396 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 20 0.26
26 57 0.74
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4809651 original size:16 final size:16
Alignment explanation
Indices: 4809626--4809657 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4809616 CATTCTTTAT
*
4809626 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
4809642 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
4809658 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:4809812 original size:29 final size:29
Alignment explanation
Indices: 4809779--4809838 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4809769 GTTCAAAACA
4809779 TTTTATATTGTTGATCTAGAAAAACCTAC
1 TTTTATATTGTTGATCTAGAAAAACCTAC
4809808 TTTTATATTGTTGATCTAGAAAAACCTAC
1 TTTTATATTGTTGATCTAGAAAAACCTAC
4809837 TT
1 TT
4809839 AGTGTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (29 bp):
TTTTATATTGTTGATCTAGAAAAACCTAC
Found at i:4812109 original size:26 final size:26
Alignment explanation
Indices: 4812078--4812185 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
4812068 TGAAATACCC
4812078 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4812104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
4812130 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4812156 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4812182 ATCA
1 ATCA
4812186 ATTTGTACCG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4817038 original size:25 final size:27
Alignment explanation
Indices: 4817001--4817054 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
4816991 TCAAACATGC
*
4817001 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
4817027 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
4817053 AT
1 AT
4817055 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:4818575 original size:26 final size:26
Alignment explanation
Indices: 4818539--4818648 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
4818529 CATGAAATTC
4818539 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4818565 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4818591 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4818617 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4818643 TTATCA
1 TTATCA
4818649 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4824842 original size:68 final size:68
Alignment explanation
Indices: 4824668--4825265 Score: 776
Period size: 68 Copynumber: 8.9 Consensus size: 68
4824658 AAATTACAAC
* * * * * *
4824668 TCTCTTCTCCCTGAAATAGTATTGAAACGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
4824733 -GA
66 AGA
* * * * * *
4824735 -ATCTTCTCCCTGAAATAGCATTGGTGTGACTAGAAGCCACAACAGATCTCCTTAAAGTTTTAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
4824799 AGA
66 AGA
* * * *
4824802 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
4824867 -GA
66 AGA
* * * *
4824869 -ATCTTCTCCCTGAAATGGCATTGGTGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
4824933 AGA
66 AGA
*
4824936 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
*
4825001 GGA
66 AGA
* * *
4825004 TCTCTTCTCCTTGAAATGGCGTTGGAGAGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAG-
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
*
4825068 TGA
66 AGA
* * * * * *
4825071 -ATCTTCTCCCTAAAATGGCGTTGGAGCTGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
*
4825135 GGA
66 AGA
**
4825138 TCTCTTCTCCCTGAAATGGTGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
*
4825203 AAA
66 AGA
* ** * * *
4825206 TCTCTTCTCTCTGAAATGGTGTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAAGTT
1 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTT
4825266 AGAGAGGCTA
Statistics
Matches: 466, Mismatches: 59, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
66 166 0.36
67 10 0.02
68 290 0.62
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (68 bp):
TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
AGA
Found at i:4824908 original size:134 final size:136
Alignment explanation
Indices: 4824668--4825265 Score: 830
Period size: 134 Copynumber: 4.4 Consensus size: 136
4824658 AAATTACAAC
* * * * * *
4824668 TCTCTTCTCCCTGAAATAGTATTGAAACGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
* * *
4824733 -GA-ATCTTCTCCCTGAAATAGCATTGGTGTGACTAGAAGCCACAACAGATCTCCTTAAAGTTTT
66 GGATATCTTCTCCCTGAAATGGCATTGGAGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
4824796 AGCAGA
131 AGCAGA
* *
4824802 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
*
4824867 -GA-ATCTTCTCCCTGAAATGGCATTGGTGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
66 GGATATCTTCTCCCTGAAATGGCATTGGAGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
4824930 AGCAGA
131 AGCAGA
*
4824936 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
1 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
* * * * *
4825001 GGATCTCTTCTCCTTGAAATGGCGTTGGAGAGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTT
66 GGATATCTTCTCCCTGAAATGGCATTGGAGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
*
4825066 AG-TGA
131 AGCAGA
* * * *
4825071 -ATCTTCTCCCTAAAATGGCGTTGGAGCTGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
* ** * *
4825135 GGATCTCTTCTCCCTGAAATGGTGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTT
66 GGATATCTTCTCCCTGAAATGGCATTGGAGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
*
4825200 AGCAAA
131 AGCAGA
* * ** * * *
4825206 TCTCTTCTCTCTGAAATGGTGTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAAGTT
1 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTT
4825266 AGAGAGGCTA
Statistics
Matches: 421, Mismatches: 39, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
134 309 0.73
135 5 0.01
136 107 0.25
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (136 bp):
TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC
GGATATCTTCTCCCTGAAATGGCATTGGAGTGACTAGAAGCCACAACAGATCTCCTTGAAGTTTT
AGCAGA
Found at i:4825023 original size:202 final size:201
Alignment explanation
Indices: 4824670--4825265 Score: 820
Period size: 202 Copynumber: 3.0 Consensus size: 201
4824660 ATTACAACTC
* * * * * * *
4824670 TCTTCTCCCTGAAATAGTATTGAAACGGCTAGAAGCCACAATAGATCTCCTTGAAGTTTCAGCGA
1 TCTTCTCCCTAAAATGGCATTGGAGCTGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGA
* * * * * *
4824735 -ATCTTCTCCCTGAAATAGCATTGGTGTGACTAGAAGCCACAACAGATCTCCTTAAAGTTTTAGC
66 TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
* * * * *
4824799 AGATCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTC
131 AGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTC
4824864 AGCGAA
196 AGCGAA
* * *
4824870 TCTTCTCCCTGAAATGGCATTGGTG-TGACTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGCA
1 TCTTCTCCCTAAAATGGCATTGGAGCTG-CTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC-
*
4824934 GATCTCTTCTCCCTAAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTA
64 GATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTA
* *
4824999 GCGGATCTCTTCTCCTTGAAATGGCGTTGGAGAGGCTAGAAGCCACAACAGATCTCCTTGAAGTT
129 GCAGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTT
* *
4825064 TTAGTGAA
194 TCAGCGAA
* *
4825072 TCTTCTCCCTAAAATGGCGTTGGAGCTGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGG
1 TCTTCTCCCTAAAATGGCATTGGAGCTGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGC-G
**
4825137 ATCTCTTCTCCCTGAAATGGTGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAG
65 ATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAG
* * * * *
4825202 CAAATCTCTTCT-CTCTGAAATGGTGTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAAGTT
130 CAGATCTCTTCTCCT-TGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTT
4825266 AGAGAGGCTA
Statistics
Matches: 351, Mismatches: 40, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
199 1 0.00
200 53 0.15
201 4 0.01
202 291 0.83
203 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (201 bp):
TCTTCTCCCTAAAATGGCATTGGAGCTGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGA
TCTCTTCTCCCTGAAATGGCATTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGC
AGATCTCTTCTCCTTGAAATGGCGTTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTC
AGCGAA
Found at i:4825276 original size:37 final size:37
Alignment explanation
Indices: 4825226--4825302 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
4825216 CTGAAATGGT
*
4825226 GTTAGAGCGGCTAGAACCCACAACAGATCTCCTTAAA
1 GTTAGAGAGGCTAGAACCCACAACAGATCTCCTTAAA
4825263 GTTAGAGAGGCTAGAACCCACAACAGATCTCCTTAAA
1 GTTAGAGAGGCTAGAACCCACAACAGATCTCCTTAAA
4825300 GTT
1 GTT
4825303 TCAACGGATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (37 bp):
GTTAGAGAGGCTAGAACCCACAACAGATCTCCTTAAA
Found at i:4825352 original size:105 final size:105
Alignment explanation
Indices: 4825166--4825370 Score: 241
Period size: 105 Copynumber: 2.0 Consensus size: 105
4825156 GTGTTGGAGC
* * * * * * *
4825166 GGCTAGAAGCCACAACAGATCTCCTTGAAGTTTTAGCAAATCTCTTCTCTCTGAAATGGTGTTAG
1 GGCTAGAACCCACAACAGATCTCCTTAAAGTTTCAACAAATCTCTTCTCCCTAAAATGGCGTTAG
* *
4825231 AGCGGCTAGAACCCACAACAGATCTCCTTAAAGTTAGAGA
66 AACGGCTAGAACCCACAACAAATCTCCTTAAAGTTAGAGA
** * *
4825271 GGCTAGAACCCACAACAGATCTCCTTAAAGTTTCAACGGATCTCTTTTCCCTAAAATGGCGTTGG
1 GGCTAGAACCCACAACAGATCTCCTTAAAGTTTCAACAAATCTCTTCTCCCTAAAATGGCGTTAG
* * * *
4825336 AACGGCTCA-AAGCCACAGCAAATCTCTTTGAAGTT
66 AACGGCT-AGAACCCACAACAAATCTCCTTAAAGTT
4825371 TCAGCGGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
105 81 0.99
106 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (105 bp):
GGCTAGAACCCACAACAGATCTCCTTAAAGTTTCAACAAATCTCTTCTCCCTAAAATGGCGTTAG
AACGGCTAGAACCCACAACAAATCTCCTTAAAGTTAGAGA
Found at i:4825634 original size:16 final size:18
Alignment explanation
Indices: 4825603--4825636 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4825593 TAGGCTGAAC
4825603 GAGGCTACCTAAAGAAGT
1 GAGGCTACCTAAAGAAGT
4825621 GAGGC-ACC-AAAGAAGT
1 GAGGCTACCTAAAGAAGT
4825637 CAAGACTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.29, T:0.12
Consensus pattern (18 bp):
GAGGCTACCTAAAGAAGT
Found at i:4825790 original size:16 final size:16
Alignment explanation
Indices: 4825748--4825805 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
4825738 ATTTGCCCGG
4825748 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
4825764 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
4825781 CCCAAAACCCAAC-AG
1 CCCAAAACCCAACTAT
4825796 CCCAAAACCC
1 CCCAAAACCC
4825806 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.41, C:0.47, G:0.02, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:4826907 original size:3 final size:3
Alignment explanation
Indices: 4826899--4827225 Score: 166
Period size: 3 Copynumber: 110.0 Consensus size: 3
4826889 TAAATTAATG
*
4826899 TAT TAT TAT TAT TAT T-T GTAT TAT TAT T-T ACAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * * *
4826944 TAT TAT TAC TAC TAT TGT TAT TAC AAT TAT TAT TTT TAT TAC TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
4826992 CAT TAG TGT TAT TAT CAT T-T TAT T-T TTT TAT TAC TAT CAT TTT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
4827038 AAT TAT TAT TAC TAT TAT TAT TAT GTTT TCT T-T T-T TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
4827082 TAC TAT TAT TAT T-T TAT TAT TTT CTAT TAC TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
4827127 TAA TAC TAA TAT TAA AAT TCT TAT TAT TACT T-T TAT TAT CAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * * *
4827172 TAG TAT TAT TAT TTT TAC TAC TAC TAT TAT TAT TAT CAA CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4827220 TAT TAT
1 TAT TAT
4827226 CGTTTTCATC
Statistics
Matches: 242, Mismatches: 70, Indels: 24
0.72 0.21 0.07
Matches are distributed among these distances:
2 14 0.06
3 220 0.91
4 8 0.03
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:4826907 original size:21 final size:19
Alignment explanation
Indices: 4826883--4826944 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
4826873 TATTACTTTG
4826883 TTATTGTAAATTAATGTATTA
1 TTATT-TAAATT-ATGTATTA
*
4826904 TTA-TTATTATT-TGTATTA
1 TTATTTA-AATTATGTATTA
*
4826922 TTATTTACATTAT-TATTA
1 TTATTTAAATTATGTATTA
4826940 TTATT
1 TTATT
4826945 ATTATTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 23 0.64
19 6 0.17
20 4 0.11
21 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (19 bp):
TTATTTAAATTATGTATTA
Found at i:4827735 original size:128 final size:128
Alignment explanation
Indices: 4827507--4827944 Score: 608
Period size: 128 Copynumber: 3.4 Consensus size: 128
4827497 GCAAGCTTCG
* * * * * *
4827507 TATTTAGAAATCCGAGGAATTGTGCCCTATCGTGCTGGGTTTTGATTTCCCGTTTGTTCAAAATA
1 TATTTGGAAATTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* * * *
4827572 ATCGAATATTGCTTTAGAATTTCACCCTTATTTTTCTAAATTCTAAAACAATGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
*
4827635 TATTTGGAAATTCGGGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
1 TATTTGGAAATTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* *
4827700 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTACAACAAGGTAATGTTTGA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
* * * *
4827763 TATTTGGAAATTCGAGGAATCGTGTCCTATCGTGCTAGGTTTCGATTTTTCGTTTGTTCAAAATA
1 TATTTGGAAATTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
* * * * *
4827828 ATCGAATATTCTTTTAGAATTTCATTCGTATTCTT-TAAATTCTAAAACAAAGCAATGTTCGAA
66 ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTG-A
* * * * * *
4827891 TTTTTGGAAGTTTGAGGAATCATGCCCTACCATGCTGGGTTTCGATTTTTCGTT
1 TATTTGGAAATTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTT
4827945 GGACTAAGTA
Statistics
Matches: 277, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
127 22 0.08
128 255 0.92
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (128 bp):
TATTTGGAAATTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTCTCGTTTGTTCAAAATA
ATCGAATATTCCTTTAGAATTTCACTCGTATTTTTCTAAATTCTAAAACAAAGTAATGTTTGA
Found at i:4828471 original size:2 final size:2
Alignment explanation
Indices: 4828464--4828490 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4828454 TAATCTACAT
4828464 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
4828491 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4830982 original size:46 final size:46
Alignment explanation
Indices: 4830949--4831149 Score: 206
Period size: 46 Copynumber: 4.3 Consensus size: 46
4830939 CTGCTAGTAT
4830949 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATA-
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * ** * * * *
4830994 TATGAAGACGAGTTACTAGTAACGATGATGTAGATAAACTACCAATAG
1 TGTG--GACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * *
4831042 TGTGGACAAGTCACCAGTAACAGTAATGCAGATAAACTATCAATAG
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* * * * * *
4831088 TGTGGACAAACCACCAGTAACGATAATGCAGTTAAATTGCCAATAA
1 TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
* *
4831134 TATAGACAAGCCACCA
1 TGTGGACAAGCCACCA
4831150 ATAATGCAGT
Statistics
Matches: 124, Mismatches: 29, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
45 3 0.02
46 84 0.68
47 34 0.27
48 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (46 bp):
TGTGGACAAGCCACCAGTAACGGTAATGCAGATAAACTACCAATAG
Found at i:4831170 original size:20 final size:20
Alignment explanation
Indices: 4831110--4831176 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
4831100 ACCAGTAACG
* *
4831110 ATAATGCAGTTAAATTGCCA
1 ATAATGCAGTCAAGTTGCCA
** * ***
4831130 ATAATATAGACAAGCCACCA
1 ATAATGCAGTCAAGTTGCCA
4831150 ATAATGCAGTCAAGTTGCCA
1 ATAATGCAGTCAAGTTGCCA
4831170 ATAATGC
1 ATAATGC
4831177 GATTAAAAAT
Statistics
Matches: 33, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (20 bp):
ATAATGCAGTCAAGTTGCCA
Found at i:4835265 original size:15 final size:14
Alignment explanation
Indices: 4835229--4835267 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4835219 TTTTAAATTT
4835229 ATTTTAATATAAAA
1 ATTTTAATATAAAA
**
4835243 ATAATAATATAAAAA
1 ATTTTAATAT-AAAA
4835258 ATTTTAATAT
1 ATTTTAATAT
4835268 GGGCAAGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTTAATATAAAA
Found at i:4837881 original size:27 final size:26
Alignment explanation
Indices: 4837840--4837893 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
4837830 TTTCTACTCA
4837840 AGTATTTAAAGTTTTTTTTAAATAGT
1 AGTATTTAAAGTTTTTTTTAAATAGT
4837866 AGTATTTAAAGTTTTTTTTTAAATAGT
1 AGTATTTAAAG-TTTTTTTTAAATAGT
4837893 A
1 A
4837894 TTGTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (26 bp):
AGTATTTAAAGTTTTTTTTAAATAGT
Found at i:4842308 original size:15 final size:15
Alignment explanation
Indices: 4842288--4842318 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4842278 TATCTACTTA
*
4842288 TTTTATTCAACATTT
1 TTTTATTCAAAATTT
4842303 TTTTATTCAAAATTT
1 TTTTATTCAAAATTT
4842318 T
1 T
4842319 GAATTAAGTG
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:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATTCAAAATTT
Found at i:4845021 original size:14 final size:15
Alignment explanation
Indices: 4844995--4845023 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4844985 ATTTAAAGGG
4844995 TATTTTCTTTTTCTT
1 TATTTTCTTTTTCTT
4845010 TATTTT-TTTTTCTT
1 TATTTTCTTTTTCTT
4845024 CTTTCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTCTTTTTCTT
Found at i:4845030 original size:21 final size:21
Alignment explanation
Indices: 4844997--4845042 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4844987 TTAAAGGGTA
4844997 TTTTCTTTTTCTTTATTTT-T
1 TTTTCTTTTTCTTTATTTTCT
4845017 TTTTCTTCTTTCTTTATTTTCT
1 TTTTCTT-TTTCTTTATTTTCT
4845039 TTTT
1 TTTT
4845043 TACCTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTTTTCTTTATTTTCT
Found at i:4845955 original size:33 final size:33
Alignment explanation
Indices: 4845865--4845966 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
4845855 TTTTAAGTAT
* *
4845865 TATAAATATGTATATATTTAT-A-TACT-TTATG
1 TATATATATTTATATATTTATAAATA-TATTATG
* *
4845896 TATATATCTTTATATTTTTATAAATATCA-TATG
1 TATATATATTTATATATTTATAAATAT-ATTATG
4845929 TATATATATATATATATATTT-T-AATATATTATG
1 TATATATAT-T-TATATATTTATAAATATATTATG
4845962 TATAT
1 TATAT
4845967 TGTGTACATA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
31 17 0.29
32 3 0.05
33 28 0.48
34 2 0.03
35 8 0.14
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (33 bp):
TATATATATTTATATATTTATAAATATATTATG
Found at i:4846543 original size:20 final size:20
Alignment explanation
Indices: 4846502--4846543 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4846492 TTCGTTGTCA
*
4846502 TTGTCATTTTTATTTTTATT
1 TTGTCATTTTTATTTATATT
4846522 TTGTCATGTTTTATTTAT-TT
1 TTGTCAT-TTTTATTTATATT
4846542 TT
1 TT
4846544 TATTCGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (20 bp):
TTGTCATTTTTATTTATATT
Found at i:4857541 original size:3 final size:3
Alignment explanation
Indices: 4857533--4857607 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
4857523 ACTTCGCCTA
*
4857533 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AA- AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4857579 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4857608 AGAGGAAGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 4 0.06
3 65 0.94
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4858780 original size:44 final size:44
Alignment explanation
Indices: 4858726--4858875 Score: 130
Period size: 44 Copynumber: 3.4 Consensus size: 44
4858716 TACAGATCTT
*
4858726 AACCCTCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGCCTTA
1 AACCC-CTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTA
* * * ** *
4858771 AACCCCTAAGCAGTAGGGTAACAG-GCTAAACTTACA-GA-TCTT-
1 AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTA-ATGAGCCTTA
* *
4858813 ATCACCCTAAGCAGTAGGGAAACAGATCG-AGGATAATGAGCTTTA
1 AAC-CCCTAAGCAGTAGGGAAACAGATCGAAGG-TAATGAGCCTTA
*
4858858 ACCCCCTAAGCAGTAGGG
1 AACCCCTAAGCAGTAGGG
4858876 TAACGAGCTA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
42 4 0.05
43 28 0.35
44 41 0.51
45 8 0.10
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTA
Found at i:4858823 original size:87 final size:85
Alignment explanation
Indices: 4858715--4858909 Score: 277
Period size: 87 Copynumber: 2.2 Consensus size: 85
4858705 GATTGAAAAT
*
4858715 TTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGATCGAAGG-TGATGAGCCTTAAACCCCTA
1 TTACAGATCTTAACCC-CTAAGCAGTAGGGAAACAGATCG-AGGATAATGAGCCTTAAACCCCTA
4858779 AGCAGTAGGGTAAC-AGGCTAAA
64 AGCAGTAGGGTAACGA-GCTAAA
* * *
4858801 CTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAGGATAATGAGCTTTAACCCCCTA
1 -TTACAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAGGATAATGAGCCTTAAACCCCTA
4858866 AGCAGTAGGGTAACGAGCTAAA
64 AGCAGTAGGGTAACGAGCTAAA
*
4858888 TTCACAGACCTTAACCCCTAAG
1 TT-ACAGATCTTAACCCCTAAG
4858910 TAATAGGGTA
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
86 12 0.12
87 83 0.85
88 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (85 bp):
TTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAGGATAATGAGCCTTAAACCCCTAAG
CAGTAGGGTAACGAGCTAAA
Found at i:4859249 original size:87 final size:86
Alignment explanation
Indices: 4859073--4859315 Score: 233
Period size: 86 Copynumber: 2.8 Consensus size: 86
4859063 TTCATAAGAT
* * * * *
4859073 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTACAGATCTTATCTCTCTAAGCAGTAGTGA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGA
* *
4859138 AGCAGATCGAAGACGAAGAAC
66 AACAGATCAAAGACGAAGAAC
*** * *
4859159 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGGTCTTAACCCCCTAAGTAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAA-TTACAGATCTTAACCCCCTAAGCAGTAGGG
* *
4859224 AAACAGATCAAAGGC-AATGAGC
65 AAACAGATCAAAGACGAA-GAAC
* * * * *
4859246 CTT-AAGCCC-AAGCAGTAGGGTAACAGATCAATGATGACA-AGCCTTAACCCCTTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAA--ATTACAGA-TCTTAACCCCCTAAGCAGTAG
*
4859308 GGTAACAG
63 GGAAACAG
4859316 GATGAAAATC
Statistics
Matches: 129, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
85 20 0.16
86 66 0.51
87 43 0.33
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTAACCCCCTAAGCAGTAGGGA
AACAGATCAAAGACGAAGAAC
Found at i:4860150 original size:14 final size:15
Alignment explanation
Indices: 4860124--4860152 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4860114 ATTTAAAGGG
4860124 TATTTTCTTTTTCTT
1 TATTTTCTTTTTCTT
4860139 TATTTT-TTTTTCTT
1 TATTTTCTTTTTCTT
4860153 CTTTCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTCTTTTTCTT
Found at i:4860159 original size:21 final size:21
Alignment explanation
Indices: 4860126--4860171 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4860116 TTAAAGGGTA
4860126 TTTTCTTTTTCTTTATTTT-T
1 TTTTCTTTTTCTTTATTTTCT
4860146 TTTTCTTCTTTCTTTATTTTCT
1 TTTTCTT-TTTCTTTATTTTCT
4860168 TTTT
1 TTTT
4860172 TACCTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTTTTCTTTATTTTCT
Found at i:4861059 original size:33 final size:29
Alignment explanation
Indices: 4861017--4861088 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 29
4861007 TATATATACT
*
4861017 TTATGTATATATCTTTATATTTTTATAA-ATA
1 TTATGTATATA--TATATATTTTT-TAATATA
4861048 TCATATGTATATATATATATTTTTTAATATA
1 T--TATGTATATATATATATTTTTTAATATA
4861079 TTATGTATAT
1 TTATGTATAT
4861089 TGTGTACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
29 9 0.24
30 3 0.08
31 15 0.41
33 10 0.27
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (29 bp):
TTATGTATATATATATATTTTTTAATATA
Found at i:4861660 original size:20 final size:20
Alignment explanation
Indices: 4861619--4861660 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4861609 TTCGTTGTCA
*
4861619 TTGTCATTTTTATTTTTATT
1 TTGTCATTTTTATTTATATT
4861639 TTGTCATGTTTTATTTAT-TT
1 TTGTCAT-TTTTATTTATATT
4861659 TT
1 TT
4861661 TATTCGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (20 bp):
TTGTCATTTTTATTTATATT
Found at i:4863233 original size:17 final size:17
Alignment explanation
Indices: 4863194--4863244 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
4863184 ATACACCTAA
4863194 AAAAGAAAATATAA-TAT
1 AAAAG-AAATATAATTAT
**
4863211 TTAAGAAATATAATTAT
1 AAAAGAAATATAATTAT
*
4863228 AAAAGAAGATATTATTA
1 AAAAGAA-ATATAATTA
4863245 GCAGAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 8 0.30
17 11 0.41
18 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AAAAGAAATATAATTAT
Found at i:4869799 original size:28 final size:28
Alignment explanation
Indices: 4869759--4869813 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4869749 CACTACAAGT
4869759 ACAGACCTAATGATAATATAATATAAGA
1 ACAGACCTAATGATAATATAATATAAGA
4869787 ACAGACCTAATGATAATATAATATAAG
1 ACAGACCTAATGATAATATAATATAAG
4869814 TTTGAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
ACAGACCTAATGATAATATAATATAAGA
Found at i:4874032 original size:46 final size:47
Alignment explanation
Indices: 4873808--4874025 Score: 318
Period size: 46 Copynumber: 4.7 Consensus size: 47
4873798 TTATCTTTGA
* * * * *
4873808 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
*
4873854 CATGTTACCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* *
4873900 CACGTTGCCATGGTATCTTTCAACCATGATCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* *
4873946 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
4873992 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
4874026 CACATTTCAT
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.03
46 150 0.95
47 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
Found at i:4879530 original size:13 final size:14
Alignment explanation
Indices: 4879512--4879542 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4879502 ATGTATGAAT
4879512 ATATACATATA-TA
1 ATATACATATATTA
4879525 ATATACATATATTA
1 ATATACATATATTA
4879539 ATAT
1 ATAT
4879543 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:4880114 original size:15 final size:16
Alignment explanation
Indices: 4880096--4880129 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
4880086 AAAAAGAAGA
4880096 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
4880111 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
4880126 GAGA
1 GAGA
4880130 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:4881576 original size:15 final size:16
Alignment explanation
Indices: 4881546--4881594 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
4881536 TTTTCTATTA
*
4881546 CAATTACAATTAAAAT
1 CAATTACAATCAAAAT
* *
4881562 CAA-TACATTCTAAAT
1 CAATTACAATCAAAAT
4881577 -AATTACAATCAAAAT
1 CAATTACAATCAAAAT
4881592 CAA
1 CAA
4881595 CATTATCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 2 0.08
15 19 0.73
16 5 0.19
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
CAATTACAATCAAAAT
Found at i:4882230 original size:44 final size:46
Alignment explanation
Indices: 4882157--4882248 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
4882147 ACCCTGTGAC
* *
4882157 TCGAGTTTGATTCCCAGAAATGAAATTTAAGTTAAATTAAGTGAAAA
1 TCGAGTTTGATT-CCAGAAATAAAATTTAAATTAAATTAAGTGAAAA
*
4882204 TCGAGTTTGATT-C-GAAATAAAATTTAAATTAAATTGAGTGAAAA
1 TCGAGTTTGATTCCAGAAATAAAATTTAAATTAAATTAAGTGAAAA
4882248 T
1 T
4882249 TCAGTGAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 29 0.69
45 1 0.02
47 12 0.29
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (46 bp):
TCGAGTTTGATTCCAGAAATAAAATTTAAATTAAATTAAGTGAAAA
Found at i:4882271 original size:44 final size:44
Alignment explanation
Indices: 4882173--4882259 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
4882163 TTGATTCCCA
* * ***
4882173 GAAATGAAATTTAAGTTAAATTAAGTGAAAATCGAGTTTGATTC
1 GAAATAAAATTTAAATTAAATTAAGTGAAAATCGAGTGAAATTC
*
4882217 GAAATAAAATTTAAATTAAATTGAGTGAAAATTC-AGTGAAATT
1 GAAATAAAATTTAAATTAAATTAAGTGAAAA-TCGAGTGAAATT
4882260 GTAAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 34 0.94
45 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.33
Consensus pattern (44 bp):
GAAATAAAATTTAAATTAAATTAAGTGAAAATCGAGTGAAATTC
Found at i:4882527 original size:20 final size:19
Alignment explanation
Indices: 4882443--4882532 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
4882433 TTCTTTATAT
*
4882443 TTTTTTAAAATT-TTTATAA
1 TTTTTTAAAATTATTT-GAA
4882462 TTTTTTAAAAAATATAAATTTGAAA
1 TTTTTT--AAAAT-T--ATTTG-AA
* *
4882487 TTTTTAAAAATTATTTTAA
1 TTTTTTAAAATTATTTGAA
4882506 TTTTTTAAAATTATTTCGAA
1 TTTTTTAAAATTATTT-GAA
4882526 TTCTTTT
1 TT-TTTT
4882533 TTGTAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
19 23 0.40
20 8 0.14
21 9 0.16
22 2 0.04
23 5 0.09
25 10 0.18
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAAAATTATTTGAA
Found at i:4890473 original size:4 final size:4
Alignment explanation
Indices: 4890464--4890489 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4890454 GCAACTATAT
4890464 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
4890490 GATGATTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:4895645 original size:22 final size:21
Alignment explanation
Indices: 4895619--4895672 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
4895609 CATCAAACAC
* *
4895619 AGAGAAAGAAAGAAAATGGGAG
1 AGAGAAAGAAAGAAAA-AGGAA
* *
4895641 AGAGAGAGGAGAGAAAAAGGAA
1 AGAGA-AAGAAAGAAAAAGGAA
4895663 AGAGAAAGAA
1 AGAGAAAGAA
4895673 TAAACTAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (21 bp):
AGAGAAAGAAAGAAAAAGGAA
Found at i:4897161 original size:20 final size:19
Alignment explanation
Indices: 4897136--4897196 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
4897126 TTAAAATAAA
4897136 ATTAAAATATTAAATCATTT
1 ATTAAAATATTAAAT-ATTT
* *
4897156 ATTAAAATAATAAAT-TAT
1 ATTAAAATATTAAATATTT
*
4897174 ATTAATATATT-AATAATTT
1 ATTAAAATATTAAAT-ATTT
4897193 ATTA
1 ATTA
4897197 TATGACTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 6 0.18
20 14 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAAAATATTAAATATTT
Found at i:4897280 original size:22 final size:22
Alignment explanation
Indices: 4897236--4897278 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4897226 ATGTTTAATA
4897236 ATATTAATATATATAATATTTT
1 ATATTAATATATATAATATTTT
*
4897258 ATATTAATATTTA-AATATTTT
1 ATATTAATATATATAATATTTT
4897279 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTAATATATATAATATTTT
Found at i:4897771 original size:15 final size:15
Alignment explanation
Indices: 4897753--4897826 Score: 60
Period size: 15 Copynumber: 4.6 Consensus size: 15
4897743 GAAATTAAAT
*
4897753 TAAATTAAATTTATA
1 TAAATTAATTTTATA
4897768 TAAAATATAATTTTACAGTA
1 T-AAAT-TAATTTT--A-TA
*
4897788 AATAATTAATTTTATA
1 TA-AATTAATTTTATA
*
4897804 TAAATTAATTTTATG
1 TAAATTAATTTTATA
4897819 T-AATTAAT
1 TAAATTAAT
4897827 AATATTTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 7 0.14
15 14 0.29
16 7 0.14
17 7 0.14
19 9 0.18
20 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTAATTTTATA
Found at i:4899762 original size:26 final size:28
Alignment explanation
Indices: 4899733--4899784 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
4899723 CCGACTCAAA
4899733 TTTAATTAAA-TAAATT-TTAAAATATT
1 TTTAATTAAATTAAATTATTAAAATATT
* *
4899759 TTTATTTAAATTTAATTATTAAAATA
1 TTTAATTAAATTAAATTATTAAAATA
4899785 CATAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 5 0.23
28 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTAATTAAATTAAATTATTAAAATATT
Found at i:4907673 original size:13 final size:13
Alignment explanation
Indices: 4907655--4907683 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4907645 AGCAAAAAGT
4907655 AAAGATGAAATAA
1 AAAGATGAAATAA
4907668 AAAGATGAAATAA
1 AAAGATGAAATAA
4907681 AAA
1 AAA
4907684 TAAATAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAATAA
Found at i:4907696 original size:18 final size:19
Alignment explanation
Indices: 4907662--4907698 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4907652 AGTAAAGATG
4907662 AAATAAAAAGATGAAATAA
1 AAATAAAAAGATGAAATAA
*
4907681 AAATAAATAG-TGAAATAA
1 AAATAAAAAGATGAAATAA
4907699 TTTAAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (19 bp):
AAATAAAAAGATGAAATAA
Found at i:4908606 original size:16 final size:16
Alignment explanation
Indices: 4908576--4908623 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
4908566 GAAAATTAAT
4908576 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
4908591 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
4908608 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
4908623 A
1 A
4908624 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:4908622 original size:11 final size:11
Alignment explanation
Indices: 4908567--4908637 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
4908557 ATAGCTTAAG
*
4908567 AAAATTAATAT
1 AAAATTAAAAT
4908578 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
4908590 AATAA-T-AATT
1 AA-AATTAAAAT
*
4908600 AAAAAT-AAAT
1 AAAATTAAAAT
4908610 AAAATTAAAAT
1 AAAATTAAAAT
*
4908621 AAACTTAAAAT
1 AAAATTAAAAT
*
4908632 AGAATT
1 AAAATT
4908638 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:4909643 original size:19 final size:19
Alignment explanation
Indices: 4909614--4909659 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4909604 TCAGATGTAC
*
4909614 TATTGATAAAAATATATAAA
1 TATT-ATAAAAATATAAAAA
*
4909634 TATTATAAAAATGTAAAAA
1 TATTATAAAAATATAAAAA
*
4909653 TTTTATA
1 TATTATA
4909660 CACGAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TATTATAAAAATATAAAAA
Found at i:4911482 original size:47 final size:47
Alignment explanation
Indices: 4911388--4911483 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
4911378 TAATTAGCTC
* * * * *
4911388 AACAAGTAAGAAACTCTTTAAAATTAAAATTGAAACTTAATCAAATT
1 AACAAGCAAGAAACTCTTGAAAATTAAAACTGAAAATGAATCAAATT
*
4911435 AACAAGCAAGAAACTCTTGAAAATT-AAACTGAAAAATGAATCCAATT
1 AACAAGCAAGAAACTCTTGAAAATTAAAACTG-AAAATGAATCAAATT
4911482 AA
1 AA
4911484 TTGATACTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (47 bp):
AACAAGCAAGAAACTCTTGAAAATTAAAACTGAAAATGAATCAAATT
Found at i:4914564 original size:13 final size:13
Alignment explanation
Indices: 4914546--4914574 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4914536 AAGCAATCCC
4914546 TACAACAATTTTA
1 TACAACAATTTTA
4914559 TACAACAATTTTA
1 TACAACAATTTTA
4914572 TAC
1 TAC
4914575 TGGATATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (13 bp):
TACAACAATTTTA
Found at i:4915125 original size:20 final size:20
Alignment explanation
Indices: 4915100--4915141 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4915090 AAATAAACAC
**
4915100 ATAATTATTTATTTAATATT
1 ATAATTATTTAAATAATATT
4915120 ATAATTATTTAAATAATATT
1 ATAATTATTTAAATAATATT
4915140 AT
1 AT
4915142 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTATTTAAATAATATT
Found at i:4915140 original size:14 final size:15
Alignment explanation
Indices: 4915108--4915148 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
4915098 ACATAATTAT
*
4915108 TTATTTAATATTATAA
1 TTATTTAA-ATAATAA
4915124 TTATTTAAATAAT-A
1 TTATTTAAATAATAA
4915138 TTATTTAAATA
1 TTATTTAAATA
4915149 GTTATAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 4 0.17
16 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTAAATAATAA
Found at i:4916273 original size:16 final size:17
Alignment explanation
Indices: 4916238--4916273 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4916228 CATCATTCGC
4916238 AAAAATCATTTTAAGTA
1 AAAAATCATTTTAAGTA
*
4916255 AAAAATTATTTTAAG-A
1 AAAAATCATTTTAAGTA
4916271 AAA
1 AAA
4916274 GGCTGAGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAAATCATTTTAAGTA
Found at i:4919100 original size:73 final size:73
Alignment explanation
Indices: 4918980--4919125 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
4918970 TTTGTTTTTT
* ** * *
4918980 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTG
1 AAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
4919045 TTTGTCAA
66 TTTGTCAA
* * *
4919053 AAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTCTG
1 AAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
*
4919118 TTTTTCAA
66 TTTGTCAA
4919126 TTTATGTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (73 bp):
AAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTACTG
TTTGTCAA
Found at i:4919240 original size:74 final size:74
Alignment explanation
Indices: 4919119--4919283 Score: 237
Period size: 74 Copynumber: 2.2 Consensus size: 74
4919109 CGATTTCTGT
* *
4919119 TTTTCAATTTATGTTTTCAAAAATCAATTTATATTGCTAAAGGTGAATTGAGCCTCGGGTCGCAT
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGT--CAT
4919184 A-G-CGAGGTA
64 ATGCCGAGGTA
*
4919193 TTTTCAATTT-TGGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATA
1 TTTTCAATTTAT-GTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATA
4919257 TGCCGAGGTA
65 TGCCGAGGTA
**
4919267 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
4919284 TTTCAATTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
72 4 0.05
73 2 0.02
74 75 0.91
75 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAT
GCCGAGGTA
Found at i:4922793 original size:2 final size:2
Alignment explanation
Indices: 4922786--4922817 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4922776 ATTATACTAA
4922786 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
4922818 TTGCTTTTTC
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:4926052 original size:18 final size:18
Alignment explanation
Indices: 4926029--4926066 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4926019 GTGAAGAAGA
* *
4926029 AGAAGAAGGAGGAGGAGG
1 AGAAGAAGAAGAAGGAGG
4926047 AGAAGAAGAAGAAGGAGG
1 AGAAGAAGAAGAAGGAGG
4926065 AG
1 AG
4926067 GAGGAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (18 bp):
AGAAGAAGAAGAAGGAGG
Found at i:4926052 original size:21 final size:21
Alignment explanation
Indices: 4926026--4926069 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4926016 ACAGTGAAGA
*
4926026 AGAAGAAGAAGGAGGAGGAGG
1 AGAAGAAGAAGAAGGAGGAGG
4926047 AGAAGAAGAAGAAGGAGGAGG
1 AGAAGAAGAAGAAGGAGGAGG
4926068 AG
1 AG
4926070 GAATATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (21 bp):
AGAAGAAGAAGAAGGAGGAGG
Found at i:4926055 original size:24 final size:24
Alignment explanation
Indices: 4926023--4926071 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4926013 TGTACAGTGA
4926023 AGAAGAAGAAGAAGGAGGAGGAGG
1 AGAAGAAGAAGAAGGAGGAGGAGG
4926047 AGAAGAAGAAGAAGGAGGAGGAGG
1 AGAAGAAGAAGAAGGAGGAGGAGG
4926071 A
1 A
4926072 ATATAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAGAAGGAGGAGGAGG
Found at i:4927319 original size:14 final size:14
Alignment explanation
Indices: 4927300--4927352 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
4927290 GGTTTATACC
4927300 TTTTATTAATTTAA
1 TTTTATTAATTTAA
*
4927314 TTTTATTCATTTTATA
1 TTTTATT-AATTTA-A
4927330 CCTTTTATTAATTTAA
1 --TTTTATTAATTTAA
4927346 TTTTATT
1 TTTTATT
4927353 CGTTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 14 0.42
15 5 0.15
16 2 0.06
17 5 0.15
18 7 0.21
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTATTAATTTAA
Found at i:4927333 original size:32 final size:32
Alignment explanation
Indices: 4927292--4927358 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
4927282 TATAATGAGG
4927292 TTTATACCTTTTATTAATTTAATTTTATTCAT
1 TTTATACCTTTTATTAATTTAATTTTATTCAT
*
4927324 TTTATACCTTTTATTAATTTAATTTTATTCGT
1 TTTATACCTTTTATTAATTTAATTTTATTCAT
4927356 TTT
1 TTT
4927359 TTAACTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTATACCTTTTATTAATTTAATTTTATTCAT
Found at i:4927435 original size:20 final size:21
Alignment explanation
Indices: 4927407--4927445 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4927397 AATTTAACCA
*
4927407 TTAATTTTTCAAA-AAAAAGT
1 TTAAATTTTCAAACAAAAAGT
*
4927427 TTAAATTTTTAAACAAAAA
1 TTAAATTTTCAAACAAAAA
4927446 TTGACTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAATTTTCAAACAAAAAGT
Found at i:4927549 original size:24 final size:23
Alignment explanation
Indices: 4927507--4927557 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
4927497 TCATGCTAAT
4927507 TATTATTTTTTAAAATTTT-AAA
1 TATTATTTTTTAAAATTTTAAAA
*
4927529 TATTATATTTTTATAATTTTTAAAA
1 TATTAT-TTTTTA-AAATTTTAAAA
4927554 TATT
1 TATT
4927558 TGTTAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 6 0.24
25 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTTTTTAAAATTTTAAAA
Found at i:4928057 original size:21 final size:21
Alignment explanation
Indices: 4928033--4928092 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
4928023 TAAAATATTT
4928033 AAAATTTATATTTTATATATC
1 AAAATTTATATTTTATATATC
** * *
4928054 AAAATATTA-ATAATAAATTTC
1 AAAAT-TTATATTTTATATATC
4928075 AATAATTTAT-TTTTATAT
1 AA-AATTTATATTTTATAT
4928093 TTTTACTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTTATATTTTATATATC
Found at i:4941468 original size:14 final size:15
Alignment explanation
Indices: 4941441--4941469 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4941431 AATTTTATGA
4941441 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
4941456 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
4941470 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:4941718 original size:31 final size:31
Alignment explanation
Indices: 4941675--4941828 Score: 236
Period size: 31 Copynumber: 5.0 Consensus size: 31
4941665 CAATGACAAA
* * *
4941675 TGATAAGTGAAAAGTGGTAGCTTCAGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
*
4941706 TGATCAGTGAAAAGTGGTAGTTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
*
4941737 TGATCAGTGAAAAGTGATAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
* *
4941768 TGATCTGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
*
4941799 TGATCAGTGAAAAATGGTAGCTCCGGCTAC
1 TGATCAGTGAAAAGTGGTAGCTCCGGCTAC
4941829 AAGTGACAAG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTCCGGCTACC
Found at i:4941923 original size:47 final size:46
Alignment explanation
Indices: 4941853--4942017 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
4941843 AAGTGATTTC
* *
4941853 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
4941899 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
4941946 CGTGTAAGAACATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
4941988 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
4942018 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 30 0.29
46 26 0.25
47 41 0.39
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:4942003 original size:42 final size:43
Alignment explanation
Indices: 4941947--4942061 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
4941937 TATGTGATTC
* *
4941947 GTGTAAGAACATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
4941989 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
4942031 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
4942062 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:4943155 original size:31 final size:29
Alignment explanation
Indices: 4943080--4943156 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
4943070 TATTAAAGCC
*
4943080 AAACTTAGGTACCAAATTGAAGCAAAAAT
1 AAACTTAAGTACCAAATTGAAGCAAAAAT
* *
4943109 AAA-TTCAAATACCAAATT-AAGCATTAACACT
1 AAACTT-AAGTACCAAATTGAAGCA--AA-AAT
4943140 AAACTTAAGTACCAAAT
1 AAACTTAAGTACCAAAT
4943157 AGTATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 7 0.18
29 13 0.33
30 2 0.05
31 15 0.38
32 2 0.05
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (29 bp):
AAACTTAAGTACCAAATTGAAGCAAAAAT
Found at i:4943821 original size:94 final size:94
Alignment explanation
Indices: 4943720--4943903 Score: 341
Period size: 94 Copynumber: 2.0 Consensus size: 94
4943710 CTCTTATTCA
4943720 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
1 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
4943785 TACGCTAGATCTACTCTTAAACAGATTTG
66 TACGCTAGATCTACTCTTAAACAGATTTG
* * *
4943814 ATTTGACTTTAATCCGGCAGATTTATGTCGTCTTATTTTTAGGATTGTATACAACTCCACTCAAA
1 ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
4943879 TACGCTAGATCTACTCTTAAACAGA
66 TACGCTAGATCTACTCTTAAACAGA
4943904 GTCTATTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (94 bp):
ATTTGACTCTAATCAGGCAGATTTATGTCGTCTTATTTCTAGGATTGTATACAACTCCACTCAAA
TACGCTAGATCTACTCTTAAACAGATTTG
Found at i:4948394 original size:27 final size:28
Alignment explanation
Indices: 4948357--4948496 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
4948347 AGCATGGCTG
* *
4948357 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4948383 CCAGATACAGATA-ATCATGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
4948411 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4948438 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4948465 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4948492 CCAGA
1 CCAGA
4948497 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.80
28 16 0.15
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4950153 original size:25 final size:25
Alignment explanation
Indices: 4950110--4950216 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
4950100 CATGAAATTC
4950110 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
4950136 TTATCATGAACATTTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCA
*
4950160 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
4950186 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
4950211 TTATCA
1 TTATCA
4950217 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
24 10 0.13
25 51 0.65
26 17 0.22
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:4950189 original size:50 final size:51
Alignment explanation
Indices: 4950110--4950216 Score: 189
Period size: 50 Copynumber: 2.1 Consensus size: 51
4950100 CATGAAATTC
4950110 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
* *
4950160 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
4950211 TTATCA
1 TTATCA
4950217 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
Found at i:4954205 original size:27 final size:28
Alignment explanation
Indices: 4954168--4954306 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
4954158 AGCATGGCTG
* *
4954168 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4954194 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
4954222 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4954249 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4954276 CCAGAT-CA-ATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4954302 CCAGA
1 CCAGA
4954307 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
26 27 0.26
27 61 0.58
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4955987 original size:26 final size:25
Alignment explanation
Indices: 4955918--4956025 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 25
4955908 ACATAAATTC
*
4955918 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
4955944 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
4955969 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
4955995 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
4956020 TTATCA
1 TTATCA
4956026 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 47 0.59
26 33 0.41
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:4955998 original size:51 final size:51
Alignment explanation
Indices: 4955918--4956025 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 51
4955908 ACATAAATTC
4955918 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
* *
4955969 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
4956020 TTATCA
1 TTATCA
4956026 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCTA
Found at i:4961731 original size:30 final size:30
Alignment explanation
Indices: 4961697--4961756 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4961687 TATTTTATTA
* *
4961697 TTAATTTTGTTATTCTTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
*
4961727 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
4961757 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTG
Found at i:4962966 original size:24 final size:24
Alignment explanation
Indices: 4962938--4962996 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
4962928 AATAATATAT
4962938 ATACCATGATTGATGAACTCATCA
1 ATACCATGATTGATGAACTCATCA
4962962 ATACCATGATTGATGAACTCATCA
1 ATACCATGATTGATGAACTCATCA
4962986 ATACCATGATT
1 ATACCATGATT
4962997 TCCATTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (24 bp):
ATACCATGATTGATGAACTCATCA
Found at i:4970651 original size:13 final size:13
Alignment explanation
Indices: 4970635--4970667 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4970625 ATATATATAT
*
4970635 AAAGAAAATAAAG
1 AAAGAAAACAAAG
4970648 AAAGAAAACAAAG
1 AAAGAAAACAAAG
4970661 AAAGAAA
1 AAAGAAA
4970668 CAGAATGCTC
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:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGAAAACAAAG
Found at i:4972566 original size:69 final size:69
Alignment explanation
Indices: 4972455--4972594 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
4972445 GCAGGTTAAA
4972455 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
1 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
4972520 AAGC
66 AAGC
* * * *
4972524 TTAGCCACACGGGCGTTTGATACTGTTCAGAAGAAGAAAATTTAAAATTTCACGAAAAATTTACT
1 TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
4972589 AAGC
66 AAGC
4972593 TT
1 TT
4972595 TAGGATCGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (69 bp):
TTAGCCACACGGGCGTGTGATACTGTTCAGAAAAAGAAAATTTAAAATTTCACAAAAAAATTACT
AAGC
Found at i:4976651 original size:31 final size:32
Alignment explanation
Indices: 4976610--4976672 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
4976600 TATTAAGTAA
*
4976610 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
4976641 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
4976673 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Done.