Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
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: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 26
Found at i:4050402 original size:10 final size:10
Alignment explanation
Indices: 4050387--4050439 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
4050377 GTCTCCAGCA
4050387 TTTATGTTCG
1 TTTATGTTCG
4050397 TTTATGTTCG
1 TTTATGTTCG
*
4050407 TGTTCAT-TTATG
1 T-TT-ATGTT-CG
*
4050419 TTTGTGTTCG
1 TTTATGTTCG
4050429 TTTATGTTCG
1 TTTATGTTCG
4050439 T
1 T
4050440 GTTCGTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 23 0.66
11 8 0.23
12 4 0.11
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.60
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:4050416 original size:16 final size:16
Alignment explanation
Indices: 4050391--4050449 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
4050381 CCAGCATTTA
4050391 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
4050407 TGTTCATTTATGTTTG
1 TGTTCGTTTATGTTCG
4050423 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
4050439 TGTTCGTTTAT
1 TGTTCGTTTAT
4050450 TTATTAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.08, C:0.10, G:0.22, T:0.59
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:4050723 original size:18 final size:19
Alignment explanation
Indices: 4050688--4050723 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4050678 AAAAATAAAT
4050688 ATAAAAATACTAATAATAA
1 ATAAAAATACTAATAATAA
*
4050707 ATAAAATTACTAA-AATA
1 ATAAAAATACTAATAATA
4050724 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAAATACTAATAATAA
Found at i:4050723 original size:21 final size:21
Alignment explanation
Indices: 4050668--4050730 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
4050658 TTTAAAATTT
* *
4050668 AAAATATTAAAAAAATAAATATA
1 AAAATACTAAAATAAT-AA-ATA
4050691 AAAATACT--AATAATAAATA
1 AAAATACTAAAATAATAAATA
* *
4050710 AAATTACTAAAATAGTAAATA
1 AAAATACTAAAATAATAAATA
4050731 TATATTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 15 0.44
23 7 0.21
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATACTAAAATAATAAATA
Found at i:4050730 original size:28 final size:27
Alignment explanation
Indices: 4050691--4050749 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
4050681 AATAAATATA
4050691 AAAATACTAATA-ATAAATAAAATTACT
1 AAAATACTAATATATAAATAAAATT-CT
* **
4050718 AAAATAGTAAATATATATTTAAAATTCT
1 AAAATACT-AATATATAAATAAAATTCT
4050746 AAAA
1 AAAA
4050750 ATATTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 10 0.37
29 10 0.37
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATACTAATATATAAATAAAATTCT
Found at i:4050773 original size:22 final size:22
Alignment explanation
Indices: 4050726--4050773 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4050716 CTAAAATAGT
* **
4050726 AAATATATATTTAAAATTCTAA
1 AAATATATATTAAAAATTAGAA
4050748 AAATAT-TATTAAAAATTAGAA
1 AAATATATATTAAAAATTAGAA
4050769 GAAAT
1 -AAAT
4050774 GAAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATATATATTAAAAATTAGAA
Found at i:4053067 original size:17 final size:18
Alignment explanation
Indices: 4053026--4053068 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4053016 GCTCATCCGG
* *
4053026 TTTTTCGGCATCGTTTTCC
1 TTTTTCTGCATCGTTGT-C
4053045 TTTTTCTGCATCGTTGT-
1 TTTTTCTGCATCGTTGTC
4053062 TTTTTCT
1 TTTTTCT
4053069 TTACCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.05, C:0.21, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTTTCTGCATCGTTGTC
Found at i:4055496 original size:19 final size:19
Alignment explanation
Indices: 4055472--4055509 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4055462 TTTTTAAATA
4055472 GCATTCAAAATAAATTACT
1 GCATTCAAAATAAATTACT
4055491 GCATTCAAAATAAATTACT
1 GCATTCAAAATAAATTACT
4055510 ATATTCAAGA
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:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
GCATTCAAAATAAATTACT
Found at i:4055515 original size:19 final size:19
Alignment explanation
Indices: 4055473--4055517 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
4055463 TTTTAAATAG
*
4055473 CATTCAAAATAAATTACTG
1 CATTCAAAATAAATTACTA
4055492 CATTCAAAATAAATTACTA
1 CATTCAAAATAAATTACTA
*
4055511 TATTCAA
1 CATTCAA
4055518 GATTGAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (19 bp):
CATTCAAAATAAATTACTA
Found at i:4056818 original size:26 final size:26
Alignment explanation
Indices: 4056763--4056823 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
4056753 AATCGTCCCC
* * *
4056763 TAAAATTTTATAAGTTCGTTCCCTCC
1 TAAAATTTTATAAGTTCGCTCCCACA
4056789 TAAAATTTTATAAGTTCGC-CTCCACA
1 TAAAATTTTATAAGTTCGCTC-CCACA
4056815 TAAAATTTT
1 TAAAATTTT
4056824 GCGTCGGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.41
Consensus pattern (26 bp):
TAAAATTTTATAAGTTCGCTCCCACA
Found at i:4062228 original size:14 final size:14
Alignment explanation
Indices: 4062198--4062241 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
4062188 GATGTGTGTC
4062198 TTAGAATTTAGGG-T
1 TTAG-ATTTAGGGAT
4062212 TTAGATTTAGGGAT
1 TTAGATTTAGGGAT
*
4062226 TTAGGTTTAGGGAT
1 TTAGATTTAGGGAT
4062240 TT
1 TT
4062242 TGGGGATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 8 0.29
14 20 0.71
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (14 bp):
TTAGATTTAGGGAT
Found at i:4064959 original size:22 final size:22
Alignment explanation
Indices: 4064934--4064995 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
4064924 GTCAAATGAT
*
4064934 AGAAAATA-TGTCATAAAGCCAG
1 AGAAAA-AGTGTCATAAAGACAG
*
4064956 AGAAAAATTGTGCCATAAAGACAG
1 AGAAAAA--GTGTCATAAAGACAG
4064980 A-AAAAAGTGTCATAAA
1 AGAAAAAGTGTCATAAA
4064996 TGTATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 10 0.29
22 6 0.18
23 5 0.15
24 13 0.38
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (22 bp):
AGAAAAAGTGTCATAAAGACAG
Found at i:4065159 original size:38 final size:38
Alignment explanation
Indices: 4065129--4065206 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
4065119 AACGTATAAC
4065129 ATATAATTTTT-AAAAAA-CGGTTATTGAAAACATATA
1 ATATAATTTTTAAAAAAATCGGTTATTGAAAACATATA
* *
4065165 ATATATTTTTTAAAAAAATCGGTTTTTGAAAA-ATATA
1 ATATAATTTTTAAAAAAATCGGTTATTGAAAACATATA
4065202 TATAT
1 -ATAT
4065207 TATATAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 10 0.27
37 11 0.30
38 16 0.43
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (38 bp):
ATATAATTTTTAAAAAAATCGGTTATTGAAAACATATA
Found at i:4065176 original size:36 final size:36
Alignment explanation
Indices: 4065129--4065207 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
4065119 AACGTATAAC
*
4065129 ATATAATTTTT-AAAAAA-CGGTTATTGAAAACATAT
1 ATATATTTTTTAAAAAAATCGGTTATTGAAAA-ATAT
*
4065164 AATATATTTTTTAAAAAAATCGGTTTTTGAAAAATAT
1 -ATATATTTTTTAAAAAAATCGGTTATTGAAAAATAT
4065201 ATATATT
1 ATATATT
4065208 ATATAGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 17 0.44
37 10 0.26
38 12 0.31
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (36 bp):
ATATATTTTTTAAAAAAATCGGTTATTGAAAAATAT
Found at i:4065383 original size:13 final size:14
Alignment explanation
Indices: 4065355--4065383 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4065345 AAATATATAT
4065355 AATAATTTTTGAAA
1 AATAATTTTTGAAA
4065369 AATAATTTTTGAAA
1 AATAATTTTTGAAA
4065383 A
1 A
4065384 CATATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AATAATTTTTGAAA
Found at i:4065456 original size:38 final size:37
Alignment explanation
Indices: 4065187--4065454 Score: 233
Period size: 38 Copynumber: 7.1 Consensus size: 37
4065177 AAAAAATCGG
* *
4065187 TTTTTGAAAAATATATATATTATATAGTTTTGAAAA-CA
1 TTTTTG-AAAACATATATA-TATATAGTTTTGAAAATAA
* * *
4065225 GTTTTGAAAAACATATAT-TATATAGTTTTGGAAATGA
1 TTTTTG-AAAACATATATATATATAGTTTTGAAAATAA
* * *
4065262 TTTTTGAATATATATAT-TATATAGTTTTGAAAA-CA
1 TTTTTGAAAACATATATATATATAGTTTTGAAAATAA
* * * * *
4065297 TTTTGGAAATATATATATAATAAATAGTTTTTGAAAACATG
1 TTTTTGAAA-ACATATAT-ATATATAG-TTTTGAAAATA-A
* *
4065338 TTTTTGAAAATATATATA-ATA-ATTTTTGAAAAATAA
1 TTTTTGAAAACATATATATATATAGTTTTG-AAAATAA
*
4065374 TTTTTGAAAACATATATATTATATAGTTTCGAAAATAA
1 TTTTTGAAAACATATATA-TATATAGTTTTGAAAATAA
* * *
4065412 TTTTTTAAAACATATATCATATATAGTTTTAAAAATTA
1 TTTTTGAAAACATATAT-ATATATAGTTTTGAAAATAA
4065450 TTTTT
1 TTTTT
4065455 TATTATTATA
Statistics
Matches: 192, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
35 8 0.04
36 69 0.36
37 12 0.06
38 71 0.37
39 16 0.08
40 8 0.04
41 8 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAACATATATATATATAGTTTTGAAAATAA
Found at i:4066916 original size:37 final size:36
Alignment explanation
Indices: 4066854--4066933 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
4066844 ATATAACATT
*
4066854 TTTATTT-TATTTTTTTAATATTTCCTTCTTGATTTA
1 TTTATTTATATTATTTTAATATTTCCTT-TTGATTTA
* *
4066890 TTTATTTATATTATTTT-ATTTGTTCCTTTTTATTTA
1 TTTATTTATATTATTTTAATAT-TTCCTTTTGATTTA
*
4066926 ATT-TTTAT
1 TTTATTTAT
4066934 TTGATATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 5 0.13
36 19 0.50
37 14 0.37
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (36 bp):
TTTATTTATATTATTTTAATATTTCCTTTTGATTTA
Found at i:4071067 original size:85 final size:85
Alignment explanation
Indices: 4070918--4071274 Score: 423
Period size: 85 Copynumber: 4.2 Consensus size: 85
4070908 CCTTTATGAA
* * *
4070918 TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATACCTCAAGGTGAGAAGGGCTATCT
1 TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGCTATCT
* *
4070983 GCCAACGAAAACCTTCGAGT
66 GTCAACAAAAACCTTCGAGT
* * * *
4071003 TCTATTACATTCAGCTCAATGGCATATCAAATTTACAATATAACTCAAGGCGAGAAGGGTTATCT
1 TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGCTATCT
4071068 GTCAACAAAAACCTTCGAGT
66 GTCAACAAAAACCTTCGAGT
* * * * *
4071088 TCGATT-CTATTCAGCTCAAGGGCATATTAAATTTATAGCATAGCTCAAGGCGAGAAGTGCTATC
1 TCGATTAC-ATTCAGCTCAAGGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGCTATC
**
4071152 TGTCAACAAAAACCTTTAAGT
65 TGTCAACAAAAACCTTCGAGT
* * * * * * *
4071173 TCGATTCCATTTATCTCAAGGGCATATCAAATTTACTACATATCTCATA-ACGATG-AGGGTTAT
1 TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACTCA-AGGCGA-GAAGGGCTAT
* *
4071236 ATGTCAACAAAAGCCTTCGAGT
64 CTGTCAACAAAAACCTTCGAGT
* *
4071258 TCAATTCCATTCAGCTC
1 TCGATTACATTCAGCTC
4071275 GACGACAGCG
Statistics
Matches: 231, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
84 1 0.00
85 227 0.98
86 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (85 bp):
TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGCTATCT
GTCAACAAAAACCTTCGAGT
Found at i:4071208 original size:170 final size:169
Alignment explanation
Indices: 4070918--4071274 Score: 466
Period size: 170 Copynumber: 2.1 Consensus size: 169
4070908 CCTTTATGAA
*
4070918 TCGATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATACCTCAAGGTGAGAAGGGCTATCT
1 TCGATT-CATTCAGCTCAAGGGCATATCAAATTTACAGCATACCTCAAGGCGAGAAGGGCTATCT
* * * * *
4070983 GCCAACGAAAACCTTCGAGTTCTATTACATTCAGCTCAATGGCATATCAAATTTACAATATAACT
65 GCCAACAAAAACCTTCAAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACT
* *
4071048 CA-AGGCGA-GAAGGGTTATCTGTCAACAAAAACCTTCGAGT
130 CATA-ACGATG-AGGGTTATATGTCAACAAAAACCTTCGAGT
* * * *
4071088 TCGATTCTATTCAGCTCAAGGGCATATTAAATTTATAGCATAGCTCAAGGCGAGAAGTGCTATCT
1 TCGATTC-ATTCAGCTCAAGGGCATATCAAATTTACAGCATACCTCAAGGCGAGAAGGGCTATCT
* * * * * * *
4071153 GTCAACAAAAACCTTTAAGTTCGATTCCATTTATCTCAAGGGCATATCAAATTTACTACATATCT
65 GCCAACAAAAACCTTCAAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACT
*
4071218 CATAACGATGAGGGTTATATGTCAACAAAAGCCTTCGAGT
130 CATAACGATGAGGGTTATATGTCAACAAAAACCTTCGAGT
*
4071258 TCAATTCCATTCAGCTC
1 TCGATT-CATTCAGCTC
4071275 GACGACAGCG
Statistics
Matches: 162, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
169 1 0.01
170 158 0.98
171 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (169 bp):
TCGATTCATTCAGCTCAAGGGCATATCAAATTTACAGCATACCTCAAGGCGAGAAGGGCTATCTG
CCAACAAAAACCTTCAAGTTCGATTACATTCAGCTCAAGGGCATATCAAATTTACAACATAACTC
ATAACGATGAGGGTTATATGTCAACAAAAACCTTCGAGT
Found at i:4071966 original size:37 final size:35
Alignment explanation
Indices: 4071901--4072059 Score: 131
Period size: 37 Copynumber: 4.3 Consensus size: 35
4071891 AACATATAAT
* *
4071901 TTTTAGAAAACGGTTATTGAAAACATATAATATATAG
1 TTTTA-AAAACGGTTTTTG-AAATATATAATATATAG
4071938 TTTTAAAAAAATCGGTTTTTGAATATATATATATTATATAG
1 TTTT--AAAAA-CGGTTTTTGAA-ATATATA-A-TATATAG
* * *
4071979 TTTTGAAAACGGTTTTTGAAAAACATATATTATATAG
1 TTTTAAAAACGGTTTTTG--AAATATATAATATATAG
* * * *
4072016 TTTTGAAAGCGATTTTTG-AATATATATTATATAG
1 TTTTAAAAACGGTTTTTGAAATATATAATATATAG
*
4072050 TTTTGAAAAC
1 TTTTAAAAAC
4072060 ATATTGGAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
34 24 0.23
37 27 0.26
38 15 0.14
39 25 0.24
40 3 0.03
41 11 0.10
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (35 bp):
TTTTAAAAACGGTTTTTGAAATATATAATATATAG
Found at i:4072156 original size:109 final size:109
Alignment explanation
Indices: 4071959--4072156 Score: 260
Period size: 110 Copynumber: 1.8 Consensus size: 109
4071949 TCGGTTTTTG
* **
4071959 AATATATATATATTATATAGTTTTGAAAACGGTTTTTGAAAAACATATATTATATAGTTTTGAAA
1 AATATATATATAATATATAGTTTTGAAAACAATTTTTGAAAAACATATATTATATAGTTTTGAAA
* * * *
4072024 GCGATTTTTGAATATATATTATATAGTTTTGAAAACATATTGGA
66 ACAATTTTTGAAAACATATTATATAGTTTTGAAAACATATTGGA
4072068 AATATATATATAATATATAGTTTTTGAAAACAATTTTTGGAAAAA-ATATA-TA-ATAGTTTTTG
1 AATATATATATAATATATAG-TTTTGAAAACAATTTTT-GAAAAACATATATTATATAG-TTTTG
*
4072130 AAAAATAATTTTTGAAAACATA-TATAT
63 -AAAACAATTTTTGAAAACATATTATAT
4072157 TATATAGTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
108 4 0.05
109 31 0.40
110 36 0.47
111 6 0.08
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (109 bp):
AATATATATATAATATATAGTTTTGAAAACAATTTTTGAAAAACATATATTATATAGTTTTGAAA
ACAATTTTTGAAAACATATTATATAGTTTTGAAAACATATTGGA
Found at i:4072173 original size:38 final size:37
Alignment explanation
Indices: 4071852--4072210 Score: 240
Period size: 38 Copynumber: 9.6 Consensus size: 37
4071842 ATATATAATA
* * *
4071852 ATATATTATA-ATTTTTGAAAAC-ATTTTCGAAAAAC
1 ATATATTATATAGTTTTGAAAACAATTTTTGAAAAAT
* ** * ** *
4071887 GTATAACATATAATTTTTAGAAAACGGTTATTGAAAACAT
1 ATATATTATAT-AGTTTT-GAAAACAATTTTTGAAAA-AT
* *
4071927 ATA-A-TATATAGTTTT-AAAAAAATCGGTTTTTGAATATAT
1 ATATATTATATAGTTTTGAAAACAA----TTTTTGAA-AAAT
** *
4071966 ATATATTATATAGTTTTGAAAACGGTTTTTGAAAAAC
1 ATATATTATATAGTTTTGAAAACAATTTTTGAAAAAT
* *
4072003 ATATATTATATAGTTTTGAAAGCGATTTTTG---AAT
1 ATATATTATATAGTTTTGAAAACAATTTTTGAAAAAT
* *
4072037 ATATATTATATAGTTTTGAAAAC-ATATTGGAAATATAT
1 ATATATTATATAGTTTTGAAAACAATTTTTGAAA-A-AT
*
4072075 ATATAATATATAGTTTTTGAAAACAATTTTTGGAAAAA-
1 ATATATTATATAG-TTTTGAAAACAATTTTT-GAAAAAT
*
4072113 ATATA-TA-ATAGTTTTTGAAAAATAATTTTTGAAAACAT
1 ATATATTATATAG-TTTTG-AAAACAATTTTTGAAAA-AT
* * *
4072151 ATATATTATATAGTTTCGAAAATAATTTTTGAAAGCAT
1 ATATATTATATAGTTTTGAAAACAATTTTTGAAA-AAT
* *
4072189 CTAT-TATATATAGTTTTAAAAA
1 ATATAT-TATATAGTTTTGAAAA
4072211 TGGTTTTTTA
Statistics
Matches: 261, Mismatches: 35, Indels: 53
0.75 0.10 0.15
Matches are distributed among these distances:
33 5 0.02
34 24 0.09
35 11 0.04
36 15 0.06
37 58 0.22
38 77 0.30
39 38 0.15
40 14 0.05
41 15 0.06
42 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (37 bp):
ATATATTATATAGTTTTGAAAACAATTTTTGAAAAAT
Found at i:4073095 original size:17 final size:16
Alignment explanation
Indices: 4073073--4073111 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
4073063 AGAGTTGAAA
4073073 GGTTTTTTTAGAGGTTT
1 GGTTTTTTTAG-GGTTT
*
4073090 GGTTTTTTTTTGGGTTT
1 GG-TTTTTTTAGGGTTT
4073107 GGTTT
1 GGTTT
4073112 AAAAATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 8 0.40
ACGTcount: A:0.05, C:0.00, G:0.31, T:0.64
Consensus pattern (16 bp):
GGTTTTTTTAGGGTTT
Found at i:4073665 original size:18 final size:18
Alignment explanation
Indices: 4073625--4073667 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4073615 TCCTTCTTGA
* *
4073625 TTTATTTATTTTTTCCTT
1 TTTATTTAGTTTTTCATT
4073643 TTTATTTAGTTTTT-ATT
1 TTTATTTAGTTTTTCATT
4073660 TGTTATTT
1 T-TTATTT
4073668 CTTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATTTAGTTTTTCATT
Found at i:4074608 original size:22 final size:20
Alignment explanation
Indices: 4074583--4074626 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
4074573 ATTTAAATCC
*
4074583 TTAAATTCTTTCTAAGTTTGTA
1 TTAAATACTTT-TAAGTTT-TA
*
4074605 TTAAGTACTTTTAAGTTTTA
1 TTAAATACTTTTAAGTTTTA
4074625 TT
1 TT
4074627 TTTTTGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (20 bp):
TTAAATACTTTTAAGTTTTA
Found at i:4075424 original size:201 final size:201
Alignment explanation
Indices: 4075097--4075616 Score: 627
Period size: 201 Copynumber: 2.6 Consensus size: 201
4075087 GTAGATGTGC
* * * * * *
4075097 AGTATTGCAACTTGTCTTTAATTTGAGCCTAATATCGCCACATTCGATACATTCTAAACGGGGTA
1 AGTATTGCAACTTATCTTTAAGTTGAGCCAAATATCGCCACATTCGAGACATTCTAAGCGGGATA
* * * *
4075162 AAAATTG-ACCTGAAAATGGTTC-GAAGGCATGATTTTGTGCATCAAGTACAATGTGAAATGGCT
66 AAAATTGCA-TTGAAAATGGTTCGGAA-GCATGCTTTTGTGCATCAAGTACAAGGTAAAATGGCT
* *
4075225 TCATAGGCATGTTTGAATGTTA-TTTCCGGGTTGTAAATA-AAAACGTTCTT-GTAATTTATAAG
129 TCATAGGCATGTTCGAATGTTACTTT-CAGGTTGTAAATAGAAAA--TTCTTCGTAATTTATAAG
*
4075287 CATAGAAGCGT
191 CATAGAAGCCT
** * *
4075298 AGTATTGCAACTTATCTTTAAGTTGAGCCAAATATCATCACATTCGAGCCATTCTAAGTGGGATA
1 AGTATTGCAACTTATCTTTAAGTTGAGCCAAATATCGCCACATTCGAGACATTCTAAGCGGGATA
*
4075363 AAAATTGCATTGAAAATGGTTCGGAAGCATGCTTTTGTGCATCAAGTATAAGGTAAAATGGCTTC
66 AAAATTGCATTGAAAATGGTTCGGAAGCATGCTTTTGTGCATCAAGTACAAGGTAAAATGGCTTC
* * * * *
4075428 ATAGGCATGTTCGAGTGTTACTTTCAGGTTGTAAATAGCATATTTTTCGTAATTTATAAGCTTAG
131 ATAGGCATGTTCGAATGTTACTTTCAGGTTGTAAATAGAAAATTCTTCGTAATTTATAAGCATAG
*
4075493 ATGCCT
196 AAGCCT
* * * * *
4075499 AATATTACTACTTATCTTTAAGTTGAGCACCGAATATCGCCACATTCGAGACAGTCTAAGCGGGA
1 AGTATTGCAACTTATCTTTAAGTTGAG--CCAAATATCGCCACATTCGAGACATTCTAAGCGGGA
* * * * * *
4075564 TAAAAATCGCGTTGAAAATAGTTTGGAAACATGCTTTTGTGCATCAATTACAA
64 TAAAAATTGCATTGAAAATGGTTCGGAAGCATGCTTTTGTGCATCAAGTACAA
4075617 TGGAAGATTA
Statistics
Matches: 272, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
200 4 0.01
201 183 0.67
202 9 0.03
203 76 0.28
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (201 bp):
AGTATTGCAACTTATCTTTAAGTTGAGCCAAATATCGCCACATTCGAGACATTCTAAGCGGGATA
AAAATTGCATTGAAAATGGTTCGGAAGCATGCTTTTGTGCATCAAGTACAAGGTAAAATGGCTTC
ATAGGCATGTTCGAATGTTACTTTCAGGTTGTAAATAGAAAATTCTTCGTAATTTATAAGCATAG
AAGCCT
Found at i:4075945 original size:21 final size:21
Alignment explanation
Indices: 4075919--4075965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4075909 AGATGAACAA
** *
4075919 CATCAGCGGGTGGTTGGACTC
1 CATCAGCGGGTGCATCGACTC
*
4075940 CATCAGTGGGTGCATCGACTC
1 CATCAGCGGGTGCATCGACTC
4075961 CATCA
1 CATCA
4075966 ACAAGGGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (21 bp):
CATCAGCGGGTGCATCGACTC
Found at i:4077920 original size:14 final size:13
Alignment explanation
Indices: 4077895--4077935 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
4077885 TTTTTCTACG
*
4077895 TATTTTATTTATT
1 TATTTTAGTTATT
4077908 TATTTTTAGTTATT
1 TA-TTTTAGTTATT
4077922 TATTTT-GTTATT
1 TATTTTAGTTATT
4077934 TA
1 TA
4077936 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 12 0.46
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (13 bp):
TATTTTAGTTATT
Found at i:4083008 original size:14 final size:14
Alignment explanation
Indices: 4082989--4083018 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4082979 TCGACTACCG
4082989 ACGTCGTTAGAACC
1 ACGTCGTTAGAACC
4083003 ACGTCGTTAGAACC
1 ACGTCGTTAGAACC
4083017 AC
1 AC
4083019 TAACCTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (14 bp):
ACGTCGTTAGAACC
Found at i:4091974 original size:201 final size:199
Alignment explanation
Indices: 4091448--4091950 Score: 573
Period size: 201 Copynumber: 2.5 Consensus size: 199
4091438 TAATTGATAC
* * * * * *
4091448 ACAAAAGCAAGCTTTCGAACCACTTTCAA-CATAATTTTTATCCCACTTACAATGTCTAGAATGT
1 ACAAAAGCATGCTTTCAAACAATTTTCAAGC-T-ATTTTTAT-CCGCTTAGAATGTCTAGAATGT
* *
4091512 GGCGATATTATGCTCAACTTAAACATAAGTTGCAATACTAGGCCTCTAAGCTTATAAATTACGAA
63 GGCGATATTAGGCTCAACTTAAAGATAAGTTGCAATACTAGGCCTCTAAGCTTATAAATTACGAA
* * *
4091577 AAATATACTATTTACAACCCAGAAATAACACTCGAACATGCATATGAAGCCATTTTACCTTAAAC
128 AAATACACTATTTACAACCCAGAAATAACACTCGAACACGCATATGAAGCCATTTTACATTAAAC
*
4091642 TTAATGC
193 TTAATGA
* * * * *
4091649 ACAAAAGCATTCTTTCAAACCATTTTCAAGGTGTTTTT-TACCGCATTTAGAATGTCTCA-AATA
1 ACAAAAGCATGCTTTCAAACAATTTTCAAGCTATTTTTAT-CCGC--TTAGAATGTCT-AGAATG
* * **
4091712 TGGTGATATTAGGCTCAACTTAAAGATAAGTTGCAATACTAGGCCTTTGTGCTTATAAATTACGA
62 TGGCGATATTAGGCTCAACTTAAAGATAAGTTGCAATACTAGGCCTCTAAGCTTATAAATTACGA
* * **
4091777 GGAAAT-CACTATTTACAACCCAGAAATAACACTCGAACACGCCTATGAAGCCATTTTACATTGT
127 -AAAATACACTATTTACAACCCAGAAATAACACTCGAACACGCATATGAAGCCATTTTACATTAA
*
4091841 ACTTGATGA
191 ACTTAATGA
* * * * * *
4091850 ACAAAATCATGCTTTCGATCAATTTTCATGCCTATTTTTATCCTGCTTAGAATGGCTTGAATGTG
1 ACAAAAGCATGCTTTCAAACAATTTTCAAG-CTATTTTTATCC-GCTTAGAATGTCTAGAATGTG
* * *
4091915 ACGATATTAGGCTCAAATTAAAGACAAGTTGCAATA
64 GCGATATTAGGCTCAACTTAAAGATAAGTTGCAATA
4091951 TTGTACATCT
Statistics
Matches: 253, Mismatches: 40, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
199 4 0.02
200 5 0.02
201 228 0.90
202 13 0.05
203 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (199 bp):
ACAAAAGCATGCTTTCAAACAATTTTCAAGCTATTTTTATCCGCTTAGAATGTCTAGAATGTGGC
GATATTAGGCTCAACTTAAAGATAAGTTGCAATACTAGGCCTCTAAGCTTATAAATTACGAAAAA
TACACTATTTACAACCCAGAAATAACACTCGAACACGCATATGAAGCCATTTTACATTAAACTTA
ATGA
Found at i:4097641 original size:15 final size:16
Alignment explanation
Indices: 4097609--4097645 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4097599 AGGTAAAATT
4097609 ATAAAATTATAAATAA
1 ATAAAATTATAAATAA
4097625 ATAAAA-TA-AAATAAA
1 ATAAAATTATAAAT-AA
4097640 ATAAAA
1 ATAAAA
4097646 CAATTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 10 0.50
16 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAATTATAAATAA
Found at i:4098374 original size:2 final size:2
Alignment explanation
Indices: 4098362--4098400 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4098352 ATTTCATCTT
*
4098362 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4098401 TGGATGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4098462 original size:12 final size:12
Alignment explanation
Indices: 4098441--4098501 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 12
4098431 TGAAATGCAC
4098441 ATAT-TATATAT
1 ATATATATATAT
4098452 ATATATATATAT
1 ATATATATATAT
** * *
4098464 AGGTCTGTAT-T
1 ATATATATATAT
4098475 ATATAT-TATAT
1 ATATATATATAT
4098486 AT-TATAT-TAT
1 ATATATATATAT
4098496 ATATAT
1 ATATAT
4098502 TTTCTCACGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 11 0.28
11 15 0.38
12 13 0.33
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (12 bp):
ATATATATATAT
Found at i:4098521 original size:2 final size:2
Alignment explanation
Indices: 4098441--4098501 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
4098431 TGAAATGCAC
* * * *
4098441 AT AT -T AT AT AT AT AT AT AT AT AT AG GT CT GT AT -T 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
4098481 -T AT AT AT -T AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
4098502 TTTCTCACGA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
1 5 0.10
2 43 0.90
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4098948 original size:65 final size:64
Alignment explanation
Indices: 4098877--4099062 Score: 207
Period size: 65 Copynumber: 2.9 Consensus size: 64
4098867 GAATAAATTG
*
4098877 AACATCGAATGCATTTTATGCATCGATGCACATATCATGCATCGATGCACTCAGGGT-TTTATGA
1 AACATCGAATGCATTTAATGCATCGATGCACATATCATGCATCGATGCACTCAGGGTATTT-TG-
4098941 A
64 A
* * *
4098942 AACATCGAATGCATTTAATGCATCGATACACA-AGCCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTAATGCATCGATGCACATA-TCATGCATCGATGCACTCAGGGTATTTTGA
* * * * * * * *
4099006 AATATCGAATGCACTTCATGCATCGAGGCAC-TCTTAGTGCACCGATGCACTAAGGGT
1 AACATCGAATGCATTTAATGCATCGATGCACATATCA-TGCATCGATGCACTCAGGGT
4099063 CCAACGGTCA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 45 0.44
65 53 0.52
66 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTAATGCATCGATGCACATATCATGCATCGATGCACTCAGGGTATTTTGA
Found at i:4104368 original size:20 final size:21
Alignment explanation
Indices: 4104343--4104403 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
4104333 TTGTGCTTAA
4104343 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
4104363 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
*
4104385 TGCATCGATACACCATGAA
1 TGCATCGATACACCTTGAA
4104404 GGTAAACCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 8 0.24
22 13 0.38
23 2 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:4104437 original size:23 final size:23
Alignment explanation
Indices: 4104362--4104442 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 23
4104352 ACACCTAACA
*
4104362 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
4104384 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
** * *
4104405 GTAAACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
4104428 GTGCATCGATGCACA
1 GTGCATCGATGCACA
4104443 AGGTCATGCA
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 10 0.23
23 19 0.44
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:4106807 original size:18 final size:18
Alignment explanation
Indices: 4106784--4106818 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4106774 AGGGGGAGTA
4106784 ATTTC-AAATTTGATTTTT
1 ATTTCAAAATTT-ATTTTT
4106802 ATTTCAAAATTTATTTT
1 ATTTCAAAATTTATTTT
4106819 CAAAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTCAAAATTTATTTTT
Found at i:4107241 original size:65 final size:64
Alignment explanation
Indices: 4107168--4107324 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 64
4107158 GAATAAATTG
* * *
4107168 AACATCGAATGCATTTTATGCATCGATGAACATA-TCATGCATCAATGCACTCAGGGT-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGAACA-AGCCATGCATCAATGCACTCAGGCTATTT-TG
4107231 AA
64 -A
* *
4107233 AACATCGAATGCATTTGATGCATCGATGTACAAGCCATGCATCAATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGAACAAGCCATGCATCAATGCACTCAGGCTATTTTGA
* *
4107297 AACATCGAATGCACTTCATGCATTGATG
1 AACATCGAATGCATTTCATGCATCGATG
4107325 CACTCTTAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
64 27 0.33
65 53 0.64
66 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGAACAAGCCATGCATCAATGCACTCAGGCTATTTTGA
Found at i:4107343 original size:19 final size:19
Alignment explanation
Indices: 4107321--4107385 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
4107311 TTCATGCATT
4107321 GATGCACTCTTAGTGCACC
1 GATGCACTCTTAGTGCACC
4107340 GATGCACTCTTAGTGCACC
1 GATGCACTCTTAGTGCACC
* *
4107359 AATGTACTCTTAGTGCACC
1 GATGCACTCTTAGTGCACC
4107378 GATGCACT
1 GATGCACT
4107386 AAGGGTCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (19 bp):
GATGCACTCTTAGTGCACC
Found at i:4108289 original size:37 final size:37
Alignment explanation
Indices: 4108239--4108347 Score: 209
Period size: 37 Copynumber: 2.9 Consensus size: 37
4108229 ATAAAGTTAG
4108239 AGTTTTACTATGATTCAAACTCCTAAAAATAGGATAA
1 AGTTTTACTATGATTCAAACTCCTAAAAATAGGATAA
*
4108276 AGTTTTACTATGATTCAAACTCCTAAAAATAGGATAG
1 AGTTTTACTATGATTCAAACTCCTAAAAATAGGATAA
4108313 AGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
1 AGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
4108348 CCATAAGCAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
AGTTTTACTATGATTCAAACTCCTAAAAATAGGATAA
Found at i:4109024 original size:10 final size:10
Alignment explanation
Indices: 4109009--4109035 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4108999 ATCCTTCTAT
4109009 TTTTATTTTC
1 TTTTATTTTC
4109019 TTTTATTTTC
1 TTTTATTTTC
4109029 TTTTATT
1 TTTTATT
4109036 ACTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:4109058 original size:3 final size:3
Alignment explanation
Indices: 4109031--4109077 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
4109021 TTATTTTCTT
* * *
4109031 TTA TTA CTA TTT TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4109078 CTATTTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4109312 original size:26 final size:25
Alignment explanation
Indices: 4109282--4109339 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
4109272 CGTATTCATT
*
4109282 TTTATCTTCACTCTTTTTTTTATTCC
1 TTTAT-TTCACTCATTTTTTTATTCC
** *
4109308 TTTATTTCGGTCATTTTTTTATTTTC
1 TTTATTTCACTCATTTTTTTA-TTCC
4109334 TTTATT
1 TTTATT
4109340 CTATTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTATTTCACTCATTTTTTTATTCC
Found at i:4112402 original size:13 final size:13
Alignment explanation
Indices: 4112378--4112444 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 13
4112368 AGATCCAACC
*
4112378 AGAACAAAAAAAG
1 AGAAAAAAAAAAG
*
4112391 AGAAAAAAAAAAC
1 AGAAAAAAAAAAG
4112404 A-AAGGAAAAAGCAAAG
1 AGAA--AAAAA--AAAG
4112420 AGAAAATAAAAAAG
1 AGAAAA-AAAAAAG
4112434 AGAAACAAAAA
1 AGAAA-AAAAA
4112445 CCAAGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.05
13 12 0.27
14 18 0.41
15 3 0.07
16 7 0.16
17 2 0.05
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.01
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:4112412 original size:12 final size:13
Alignment explanation
Indices: 4112397--4112438 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
4112387 AAAGAGAAAA
4112397 AAAAAACAAAG-G
1 AAAAAACAAAGAG
*
4112409 AAAAAGCAAAGAG
1 AAAAAACAAAGAG
*
4112422 AAAATAAAAAAGAG
1 AAAA-AACAAAGAG
4112436 AAA
1 AAA
4112439 CAAAAACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 10 0.40
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAACAAAGAG
Found at i:4113600 original size:32 final size:32
Alignment explanation
Indices: 4113530--4113601 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
4113520 GTACCTTTGA
* * *
4113530 AGATTCAACATCAAATGTTGGGGCATTTTTGG
1 AGATTCAACATCAAATATTGGGGCATCTTCGG
* * *
4113562 AAATTCAACATCGATTATTGGGGCATCTTCGG
1 AGATTCAACATCAAATATTGGGGCATCTTCGG
*
4113594 GGATTCAA
1 AGATTCAA
4113602 AATCCTGATG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATCTTCGG
Found at i:4114318 original size:110 final size:110
Alignment explanation
Indices: 4114133--4114528 Score: 663
Period size: 110 Copynumber: 3.6 Consensus size: 110
4114123 AGCTGACTCC
* * *
4114133 CAACAAACAACTTTTCAGTTTCATTCATAGTCAATTTCAACTTCACAACGAAAGATATTAGACTC
1 CAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTC
*
4114198 GAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTAT
66 GAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
* * * *
4114243 TAACAAACAACTTTTCAGTATT-ATTTAGAGTTAATTTCAACTTCACAGCGAATGATATTAGACT
1 CAACAAACAACTTTTCAGT-TTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACT
4114307 CGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
65 CGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
* *
4114353 CAACAAACAACTTTTCAGTTTTATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 CAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTC
4114418 GAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
66 GAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
4114463 CAACAAACAAC-TTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATT-GAACT
1 CAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAG-ACT
4114526 CGA
65 CGA
4114529 AGTGACACAA
Statistics
Matches: 270, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
108 1 0.00
109 54 0.20
110 213 0.79
111 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (110 bp):
CAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTC
GAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT
Found at i:4115726 original size:37 final size:37
Alignment explanation
Indices: 4115668--4115739 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
4115658 AACATAACGT
4115668 TAGAGTTTTACTACGACTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTACGACTCAAACTCCTAAAAATAGGA
* *
4115705 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAG
1 TAGAGTTTTACTACGACTCAAACTCCTAAAAATAG
4115740 TATCCATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTACGACTCAAACTCCTAAAAATAGGA
Found at i:4116102 original size:3 final size:3
Alignment explanation
Indices: 4116096--4116172 Score: 113
Period size: 3 Copynumber: 25.3 Consensus size: 3
4116086 TTTTTCTTAC
4116096 TAT TAT TAT TA- TAT ATACT TCAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TA-T T-AT TAT TAT TAT TAT TAT TAT TAT TAT
4116143 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4116173 TATTTTGTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.06
3 58 0.84
4 5 0.07
5 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4116317 original size:17 final size:17
Alignment explanation
Indices: 4116297--4116347 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
4116287 TTTTTCTCTC
* *
4116297 TATTATTTATCTATATG
1 TATTATATATATATATG
*
4116314 TATTATATATATATATA
1 TATTATATATATATATG
4116331 TATATATATATATATAT
1 TAT-TATATATATATAT
4116348 ATATAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTATATATATATATG
Found at i:4116324 original size:2 final size:2
Alignment explanation
Indices: 4116308--4116352 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
4116298 ATTATTTATC
*
4116308 TA TA TG TA T- 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
4116349 TA TA
1 TA TA
4116353 GATTTTCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4116491 original size:12 final size:12
Alignment explanation
Indices: 4116474--4116498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4116464 CTTTACTTAC
4116474 TGTTATTATTAT
1 TGTTATTATTAT
4116486 TGTTATTATTAT
1 TGTTATTATTAT
4116498 T
1 T
4116499 ATTCTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:4116734 original size:26 final size:26
Alignment explanation
Indices: 4116705--4116762 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
4116695 CGTATTCATT
*
4116705 TTTATCTTCACTCTTTTTTTTA-TTTC
1 TTTAT-TTCACTCGTTTTTTTATTTTC
**
4116731 TTTATTTCGGTCGTTTTTTTATTTTC
1 TTTATTTCACTCGTTTTTTTATTTTC
4116757 TTTATT
1 TTTATT
4116763 CTATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTATTTCACTCGTTTTTTTATTTTC
Found at i:4117748 original size:2 final size:2
Alignment explanation
Indices: 4117741--4117770 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4117731 CATAGGTTTG
*
4117741 TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4117771 CATGATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4117763 original size:14 final size:14
Alignment explanation
Indices: 4117744--4117778 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
4117734 AGGTTTGTAT
4117744 ATATATATATATAC
1 ATATATATATATAC
4117758 ATATATATATATAC
1 ATATATATATATAC
4117772 ATGATAT
1 AT-ATAT
4117779 TATGTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:4119364 original size:13 final size:13
Alignment explanation
Indices: 4119346--4119372 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4119336 CATAGATTAA
4119346 CAGTCTTCATATG
1 CAGTCTTCATATG
4119359 CAGTCTTCATATG
1 CAGTCTTCATATG
4119372 C
1 C
4119373 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:4121699 original size:20 final size:20
Alignment explanation
Indices: 4121676--4121765 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
4121666 ACAGGTTCCA
* *
4121676 AAATCGCAACGGGAATAGGT
1 AAATCGCAACGCGAATATGT
**
4121696 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
4121716 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATATGT
* *
4121736 AAATTGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
4121756 AAATCGCAAC
1 AAATCGCAAC
4121766 ACATAAGTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:4122054 original size:14 final size:15
Alignment explanation
Indices: 4122035--4122072 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4122025 TCCCTATCTC
*
4122035 TAATTTTTTT-TATA
1 TAATTTTTTTCAATA
4122049 TAATTTTATTTCAATA
1 TAATTTT-TTTCAATA
4122065 TAATTTTT
1 TAATTTTT
4122073 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCAATA
Found at i:4122678 original size:12 final size:12
Alignment explanation
Indices: 4122657--4122690 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4122647 GCCACATTTC
*
4122657 CAATACCAAACA
1 CAATATCAAACA
4122669 CAATATCAAACA
1 CAATATCAAACA
*
4122681 CAATCTCAAA
1 CAATATCAAA
4122691 ACCCATAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:4122843 original size:24 final size:24
Alignment explanation
Indices: 4122816--4122869 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4122806 GTATTCGAAA
4122816 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * * *
4122840 TTTGATCTTGGTCATTACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
4122864 TTTGAT
1 TTTGAT
4122870 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:4125525 original size:20 final size:20
Alignment explanation
Indices: 4125502--4125552 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4125492 AATCAAATTT
*
4125502 GCAATGCGAAAGTCAAAATC
1 GCAACGCGAAAGTCAAAATC
4125522 GCAACGCGAAAGTCAAAATC
1 GCAACGCGAAAGTCAAAATC
4125542 GCAACGCGAAA
1 GCAACGCGAAA
4125553 ATCGCATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.22, T:0.10
Consensus pattern (20 bp):
GCAACGCGAAAGTCAAAATC
Found at i:4126054 original size:61 final size:61
Alignment explanation
Indices: 4125989--4126157 Score: 268
Period size: 61 Copynumber: 2.8 Consensus size: 61
4125979 AATATTCACA
* * * * *
4125989 TTGCGATTTACATATTTGCGCTACGATTTTGGAAAATCGCATTGCGATTTACATATTATCG
1 TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATTTACATATTATCG
*
4126050 TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCGCGTTGCGATTTACATATTATCG
1 TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATTTACATATTATCG
4126111 TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCG-AGTTGCGA
1 TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCGCA-TTGCGA
4126158 ATTTGGAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 100 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (61 bp):
TTGCGATTTACCTATTCGCGTTGCGAATTTGGAAAATCGCATTGCGATTTACATATTATCG
Found at i:4126055 original size:20 final size:20
Alignment explanation
Indices: 4126025--4126136 Score: 116
Period size: 20 Copynumber: 5.5 Consensus size: 20
4126015 TTTTGGAAAA
*
4126025 TCGCATTGCGATTTACATAT
1 TCGCGTTGCGATTTACATAT
** *
4126045 TATCGTTGCGATTTACCTAT
1 TCGCGTTGCGATTTACATAT
** * *
4126065 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCG-ATTTACATAT
4126086 TCGCGTTGCGATTTACATAT
1 TCGCGTTGCGATTTACATAT
** *
4126106 TATCGTTGCGATTTACCTAT
1 TCGCGTTGCGATTTACATAT
4126126 TCGCGTTGCGA
1 TCGCGTTGCGA
4126137 ATTTGGAAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
20 56 0.79
21 15 0.21
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTACATAT
Found at i:4126089 original size:21 final size:21
Alignment explanation
Indices: 4126065--4126186 Score: 104
Period size: 21 Copynumber: 5.9 Consensus size: 21
4126055 ATTTACCTAT
4126065 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
** * *
4126086 TCGCGTTGCG-ATTTACATAT
1 TCGCGTTGCGAATTTGGAAAA
** **** *
4126106 TATCGTTGCG-ATTTACCTAT
1 TCGCGTTGCGAATTTGGAAAA
4126126 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
*
4126147 TCGAGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
* *
4126168 TCCCGTTGCGATTTTGGAA
1 TCGCGTTGCGAATTTGGAA
4126187 CTTATGTTGC
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 31 0.38
21 51 0.62
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:4128595 original size:21 final size:21
Alignment explanation
Indices: 4128571--4128610 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4128561 ATATGGTGGG
4128571 CACGACCTTATGTGTCATATT
1 CACGACCTTATGTGTCATATT
4128592 CACGACCTTATGTGTCATA
1 CACGACCTTATGTGTCATA
4128611 CTCAGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (21 bp):
CACGACCTTATGTGTCATATT
Found at i:4128833 original size:46 final size:45
Alignment explanation
Indices: 4128712--4128865 Score: 204
Period size: 45 Copynumber: 3.4 Consensus size: 45
4128702 TGGTATATGG
* * *
4128712 TTATGGAA-AAATGGCAAGTGTATTGGTAAAATAAGCTTACAAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
4128756 TTATGGAA-ATAATGGTAAGTATATTGATAAAATAAGATTACGAGC
1 TTATGGAATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
4128801 TTATGGAATTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
4128847 TTATGGGATAAATTGTAAG
1 TTATGGAATAAATGGTAAG
4128866 AGATTTTATA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.09
45 48 0.49
46 39 0.40
47 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:4129517 original size:37 final size:37
Alignment explanation
Indices: 4129475--4129575 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
4129465 AGGTAATCAA
* * *
4129475 TCCATATGTCCTGAAGAACATAGGTAATCTATTATTG
1 TCCATATGTCCCGAAGAACATAGGTAATCTATAACTG
* *
4129512 TCCATATGTCCCGATGAACATAGGTAATCTGTAACTG
1 TCCATATGTCCCGAAGAACATAGGTAATCTATAACTG
*
4129549 TCCATATGCCCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAGGTAA
4129576 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (37 bp):
TCCATATGTCCCGAAGAACATAGGTAATCTATAACTG
Found at i:4136475 original size:75 final size:75
Alignment explanation
Indices: 4136375--4136565 Score: 247
Period size: 75 Copynumber: 2.5 Consensus size: 75
4136365 CGTTGAACAT
* * ** * *
4136375 GGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAA
1 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAACAA
** *
4136440 AAATGTTTAG
66 AAACATTCAG
* * *
4136450 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCAGAGCCA
1 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAACAA
*
4136515 AACCATTCAG
66 AAACATTCAG
4136525 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTC
1 GGGGGAATCGGTTCCTCCTAT--GGGGGAATCGGTTCCCTC
4136566 TGAGTAATCT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 83 0.82
77 18 0.18
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCAGAACAA
AAACATTCAG
Found at i:4139207 original size:21 final size:21
Alignment explanation
Indices: 4139181--4139220 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4139171 CAGAACCCCA
*
4139181 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4139202 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4139221 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:4139255 original size:20 final size:21
Alignment explanation
Indices: 4139201--4139263 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
4139191 GATTCCCCTG
4139201 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
4139225 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
4139245 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
4139264 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:4145116 original size:74 final size:75
Alignment explanation
Indices: 4145017--4145206 Score: 247
Period size: 74 Copynumber: 2.5 Consensus size: 75
4145007 CGTTGAACAT
* * ** *
4145017 GGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAA
1 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAA
** *
4145082 AAATGTTTA-
66 AAACATTCAG
* * *
4145091 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCA
1 GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAA
*
4145156 AACCATTCAG
66 AAACATTCAG
4145166 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTC
1 GGGGGAATCGGTTCCTCCTAT--GGGGGAATCGGTTCCCTC
4145207 TGAGTAATCT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
74 62 0.61
75 21 0.21
77 18 0.18
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACAA
AAACATTCAG
Found at i:4145961 original size:20 final size:20
Alignment explanation
Indices: 4145936--4145975 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4145926 AGACCCTTCA
*
4145936 AAGGGGGAATCGGTTCCCTC
1 AAGGGGGAATCGATTCCCTC
*
4145956 AAGGGGGGATCGATTCCCTC
1 AAGGGGGAATCGATTCCCTC
4145976 TGCACCAAAA
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:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
AAGGGGGAATCGATTCCCTC
Found at i:4154182 original size:19 final size:19
Alignment explanation
Indices: 4154158--4154208 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
4154148 CTATTATTAC
4154158 TGCCATGAAGGGGACAGAT
1 TGCCATGAAGGGGACAGAT
*
4154177 TGCCATGCAGGGGACAGAT
1 TGCCATGAAGGGGACAGAT
*
4154196 TGCCATGTAGGGG
1 TGCCATGAAGGGG
4154209 CAACTTCTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.39, T:0.18
Consensus pattern (19 bp):
TGCCATGAAGGGGACAGAT
Found at i:4161930 original size:22 final size:22
Alignment explanation
Indices: 4161899--4161956 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
4161889 TCAACATGAA
4161899 TTTCATCTGAGTTAATACCTATG
1 TTTC-TCTGAGTTAATACCTATG
4161922 TTTCTCTGAGTTAATACCTATG
1 TTTCTCTGAGTTAATACCTATG
4161944 TTTCTCTGAGTTA
1 TTTCTCTGAGTTA
4161957 TTGTTTAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (22 bp):
TTTCTCTGAGTTAATACCTATG
Found at i:4164915 original size:21 final size:21
Alignment explanation
Indices: 4164871--4164916 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4164861 GATTTATGGG
* *
4164871 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCACT
*
4164892 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
4164913 CAAG
1 CAAG
4164917 CGAACCAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:4167500 original size:22 final size:19
Alignment explanation
Indices: 4167450--4167503 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
4167440 TGCAAAAATG
4167450 GTATCGATACCATAATAGA
1 GTATCGATACCATAATAGA
**
4167469 GTATTAATACCATAGTATAGTA
1 GTATCGATACCATA--ATAG-A
4167491 GTATCGATACCAT
1 GTATCGATACCAT
4167504 GGTAGGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:4167933 original size:55 final size:55
Alignment explanation
Indices: 4167855--4168246 Score: 520
Period size: 55 Copynumber: 7.1 Consensus size: 55
4167845 CTATAGGCAT
* * * *
4167855 TATGTGTACAAATTCACGGAATTCATCACGAGTTGATGAATAACCGTACAGGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
* *
4167910 TATGTGTGCAAATCTACGGAATTCATCATGAGTTGATGAACT-ACCGTACAAGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACATGCAC
* * * ** *
4167965 TATATGTGTAAATCAACGGAATTCATCACAAGTTGATGAATATCCGTACATGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
* *
4168020 TATGTGTACAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
* * *
4168075 TATGTGTGCAAATCCACAGAATTCATCATGAGTTAATGAATAACCGTACATGCAT
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
** *
4168130 TATGTGTGCAAATCCACAAAATTCATCATGAGTTGATGAATAACTGTACATGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
* * * *
4168185 TATGTGTGC-AACCCACGAAATTCATCATGAGTTGATGAACT-ACCGTATAGGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACATGCAC
*
4168239 TACGTGTG
1 TATGTGTG
4168247 GATCTTAATA
Statistics
Matches: 301, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
54 46 0.15
55 254 0.84
56 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (55 bp):
TATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCAC
Found at i:4174881 original size:55 final size:55
Alignment explanation
Indices: 4174797--4175191 Score: 500
Period size: 55 Copynumber: 7.2 Consensus size: 55
4174787 TACTATAGGA
* * * *
4174797 ACTATCTGTGCAAATTCACGGATTTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGC
* **
4174852 ACTATGTGTGCAAATCCACAGAATTCATCATGATTTGATGAACT-ACCGTATGTGC
1 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTACATGC
4174907 ACTATGTGTGCAAATCCA-AGGAATTCATCATGAGTTGATGAATAACCGTACATGC
1 ACTATGTGTGCAAATCCACA-GAATTCATCATGAGTTGATGAATAACCGTACATGC
* * *
4174962 ACTATGTGTG-AAATCCACAGATTTCATCATGAGTTGATGAATATCCGTACATAC
1 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGC
* *
4175016 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCGTACA-GAC
1 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATG-C
* * ** *
4175071 ACTATGTGTGCATATCCACAGAATTTATCATGAGTTGATGAATAATTGTACTTGC
1 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGC
* *
4175126 ACTATGTGTGC-AA-CCTACGGAATTCATCATGAGTTGATGAACT-ACCGTATA-GAC
1 ACTATGTGTGCAAATCC-ACAGAATTCATCATGAGTTGATGAA-TAACCGTACATG-C
*
4175180 ACTACGTGTGCA
1 ACTATGTGTGCA
4175192 TCTTAATAAA
Statistics
Matches: 296, Mismatches: 33, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
53 3 0.01
54 90 0.30
55 201 0.68
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (55 bp):
ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGC
Found at i:4175031 original size:109 final size:110
Alignment explanation
Indices: 4174797--4175191 Score: 529
Period size: 109 Copynumber: 3.6 Consensus size: 110
4174787 TACTATAGGA
* * *
4174797 ACTATCTGTGCAAATTCACGGATTTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
* * **
4174862 CAAATCCACAGAATTCATCATGATTTGATGAACTA-CCGTATGTGC
66 CAAATCCACAGATTTCATCATGAGTTGATGAA-TATCCGTACATGC
*
4174907 ACTATGTGTGCAAATCCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
*
4174972 -AAATCCACAGATTTCATCATGAGTTGATGAATATCCGTACATAC
66 CAAATCCACAGATTTCATCATGAGTTGATGAATATCCGTACATGC
*
4175016 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCGTACA-GACACTATGTGT
1 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-CACTATGTGT
* * *
4175080 GCATATCCACAGAATTT-ATCATGAGTTGATGAATAAT-TGTACTTGC
65 GCAAATCCACAG-ATTTCATCATGAGTTGATGAAT-ATCCGTACATGC
* *
4175126 ACTATGTGTGC-AA-CCTACGGAATTCATCATGAGTTGATGAACT-ACCGTATA-GACACTACGT
1 ACTATGTGTGCAAATCC-ACGGAATTCATCATGAGTTGATGAA-TAACCGTACATG-CACTATGT
4175187 GTGCA
63 GTGCA
4175192 TCTTAATAAA
Statistics
Matches: 260, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
108 5 0.02
109 144 0.55
110 105 0.40
111 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (110 bp):
ACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
CAAATCCACAGATTTCATCATGAGTTGATGAATATCCGTACATGC
Found at i:4175103 original size:164 final size:163
Alignment explanation
Indices: 4174797--4175191 Score: 519
Period size: 164 Copynumber: 2.4 Consensus size: 163
4174787 TACTATAGGA
* * *
4174797 ACTATCTGTGCAAATTCACGGATTTCATCATGAGTTGATGAATAACCGTACATGCACTATGTGTG
1 ACTATGTGTG-AAATCCACGGATTTCATCATGAGTTGATGAAT-ACCGTACATACACTATGTGTG
* * * *
4174862 CAAATCCACAGAATTCATCATGATTTGATGAACTACCGTATGTGCACTATGTGTGCAAATCCAAG
64 CAAATCCACAGAATTCATCATGAGTTAATGAACTACCGTAAGTACACTATGTGTGCAAATCCAAG
4174927 GAATTCATCATGAGTTGATGAATAACCGTACATGC
129 GAATTCATCATGAGTTGATGAATAACCGTACATGC
*
4174962 ACTATGTGTGAAATCCACAGATTTCATCATGAGTTGATGAATATCCGTACATACACTATGTGTGC
1 ACTATGTGTGAAATCCACGGATTTCATCATGAGTTGATGAATA-CCGTACATACACTATGTGTGC
* *
4175027 AAATCCACGGAATTCATCATGAGTTAATGAA-TAACCGTACAG-ACACTATGTGTGCATATCCAC
65 AAATCCACAGAATTCATCATGAGTTAATGAACT-ACCGTA-AGTACACTATGTGTGCAAATCCA-
* ** *
4175090 A-GAATTTATCATGAGTTGATGAATAATTGTACTTGC
127 AGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * * *
4175126 ACTATGTGTGCAA-CCTACGGAATTCATCATGAGTTGATGAACTACCGTATAGACACTACGTGTG
1 ACTATGTGTGAAATCC-ACGGATTTCATCATGAGTTGATGAA-TACCGTACATACACTATGTGTG
4175190 CA
64 CA
4175192 TCTTAATAAA
Statistics
Matches: 204, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
163 4 0.02
164 187 0.92
165 13 0.06
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (163 bp):
ACTATGTGTGAAATCCACGGATTTCATCATGAGTTGATGAATACCGTACATACACTATGTGTGCA
AATCCACAGAATTCATCATGAGTTAATGAACTACCGTAAGTACACTATGTGTGCAAATCCAAGGA
ATTCATCATGAGTTGATGAATAACCGTACATGC
Found at i:4196390 original size:19 final size:19
Alignment explanation
Indices: 4196354--4196391 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4196344 TGAAAATGAT
**
4196354 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAAAAAAAG
4196373 TTGATTTTGAAAAAAAAAG
1 TTGATTTTGAAAAAAAAAG
4196392 AATTTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAAAAAAAG
Found at i:4203066 original size:16 final size:15
Alignment explanation
Indices: 4203032--4203076 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
4203022 ACTTTATATT
4203032 TAAATTAA-ATAATAA
1 TAAATTAATATAA-AA
4203047 -AAATTAATTATAAAA
1 TAAATTAA-TATAAAA
4203062 TAAATTAATATAAAA
1 TAAATTAATATAAAA
4203077 AATTATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.26
15 9 0.33
16 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATTAATATAAAA
Found at i:4203432 original size:3 final size:3
Alignment explanation
Indices: 4203424--4203452 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4203414 ATTACACTAT
4203424 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4203453 TAATTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4203778 original size:17 final size:16
Alignment explanation
Indices: 4203737--4203778 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
4203727 AAATACATTT
4203737 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
4203753 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
4203770 TAAAA-AATT
1 TAAAATAATT
4203779 GATTTGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:4205855 original size:22 final size:24
Alignment explanation
Indices: 4205817--4205872 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
4205807 ATGCTTGGTT
4205817 TGTGAT-GTAGGGCAT-G-GGCAC
1 TGTGATGGTAGGGCATGGTGGCAC
*
4205838 TGTGATGGTAGGGTATGGTGGCAC
1 TGTGATGGTAGGGCATGGTGGCAC
*
4205862 AGTGATGGTAG
1 TGTGATGGTAG
4205873 TGGCTTCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 1 0.03
24 15 0.50
ACGTcount: A:0.20, C:0.09, G:0.45, T:0.27
Consensus pattern (24 bp):
TGTGATGGTAGGGCATGGTGGCAC
Found at i:4206522 original size:132 final size:134
Alignment explanation
Indices: 4206289--4206726 Score: 580
Period size: 133 Copynumber: 3.3 Consensus size: 134
4206279 AGATCGAGAA
* * * * * *
4206289 ATGTTGATTCATTCCACTGTTCTTCAAGAAAGATTGAATTGAGGCAGACTTGTTCCACTGTTACT
1 ATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTCACT
* * *
4206354 -AAGGGAATATCAAATCTGAAAGGAGAGTGATATGTTCCGCTTCTTCTTAAGGGAAAATCAGATA
66 CAA-GGAATATCAAATCTGAAAAGAGAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATA
4206418 TGGGG
130 TGGGG
* *
4206423 ATGTTGATTCATTCCACTGTTCCTCAGGGAATATTGAATCGAGG-A-ACTTGTTCCACTGTCATT
1 ATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTCACT
* * ** *
4206486 CAAGGAATATAAAATCTGAAAAGAGAGGGACCTGTTCCGCTTCTTCTTGATGGAAAATCAGATAT
66 CAAGGAATATCAAATCTGAAAAGAGAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATAT
4206551 GGGG
131 GGGG
* * *
4206555 -GGTTGATTCATTCCACT-TTCACTTAGGGAAGATTTAATCGAGGAAGACTTGTTCCACTGTCAC
1 ATGTTGATTCATTCCACTGTTC-CTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTCAC
* * ** * * *
4206618 TCAGGGAATGTCAAATCTGAAAAGAGAGAGATATGTTTTGTTTCTTCTCGAGGGAAAATCAGATC
65 TCAAGGAATATCAAATCTGAAAAGAGAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATA
4206683 TGGGG
130 TGGGG
*
4206688 ATGTTGATTCATTCCACTATTCCTCAGGGAAGATTGAAT
1 ATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAAT
4206727 TGAGTTTGAT
Statistics
Matches: 264, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
130 3 0.01
131 35 0.13
132 76 0.29
133 77 0.29
134 70 0.27
135 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (134 bp):
ATGTTGATTCATTCCACTGTTCCTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTCACT
CAAGGAATATCAAATCTGAAAAGAGAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATAT
GGGG
Found at i:4207474 original size:232 final size:232
Alignment explanation
Indices: 4207006--4207546 Score: 707
Period size: 232 Copynumber: 2.3 Consensus size: 232
4206996 AAAATTATAG
* *
4207006 ATTTAAATGAGAAACTTTTCTCGTTTTTTGAAAAATCATGTGAAAACATCCTA----AAGGTCTT
1 ATTTAAATGAGAAACCTTTCTC-ATTTTTGAAAAA-CATGTGAAAACATCCTACCTGAAGGTCTT
* * * * * * * **
4207067 AGGGATAGCCAGAATGACTTATCATCTTGCATGAAAGGCTTATAGATGATTCAAAGGATTTATTC
64 ATGGATAGCCCGAAGGACTTATCATCTTACATGAAAGACTTACAGATGACTCAAAGGATTTAAAC
* * **
4207132 ATCATGCTCGAAAGACTTACTGATGGTTCGAAGGACTTACCAACTTTGGAAACAGTTTACTAGGT
129 ATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAACTTTGGAAACAGTTTACTAGGT
* * * * *
4207197 AAGAATCCTTTCTTACTTTCCTAAAATTTCAATTTTCAG
194 AAGAAACCATTCTTACTTTCCAAAAATTTCAAATTTCAA
*
4207236 ATTTAAATGAGAAACCTTTCTCATTTTTCAAAAACATGTGAAAACATCCTACCTGAAGGTCTTAT
1 ATTTAAATGAGAAACCTTTCTCATTTTTGAAAAACATGTGAAAACATCCTACCTGAAGGTCTTAT
* * *
4207301 GGATGGCCCGAAGGACTTATCATCTTAC-TCGAAATACTTACAGATGAC-CTGAAGGATTTAAAC
66 GGATAGCCCGAAGGACTTATCATCTTACAT-GAAAGACTTACAGATGACTC-AAAGGATTTAAAC
* *
4207364 ATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAACAGTTTACTAGGT
129 ATCAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAACTTTGGAAACAGTTTACTAGGT
*
4207429 AAGAAACCATTCTTACTTTTCAAAAATTTCAAATTTCAA
194 AAGAAACCATTCTTACTTTCCAAAAATTTCAAATTTCAA
* * * *
4207468 ATTTAAATGAGAAACCTTTCTCATTTTTTGAAAAAAATATGAAAACATCTTGCCTGAAGGTCTTA
1 ATTTAAATGAGAAACCTTTCTCA-TTTTTGAAAAACATGTGAAAACATCCTACCTGAAGGTCTTA
*
4207533 TGGATTGCCCGAAG
65 TGGATAGCCCGAAG
4207547 AATTTAAACA
Statistics
Matches: 271, Mismatches: 33, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
228 17 0.06
229 10 0.04
230 21 0.08
231 2 0.01
232 172 0.63
233 49 0.18
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (232 bp):
ATTTAAATGAGAAACCTTTCTCATTTTTGAAAAACATGTGAAAACATCCTACCTGAAGGTCTTAT
GGATAGCCCGAAGGACTTATCATCTTACATGAAAGACTTACAGATGACTCAAAGGATTTAAACAT
CAAGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAACTTTGGAAACAGTTTACTAGGTAA
GAAACCATTCTTACTTTCCAAAAATTTCAAATTTCAA
Found at i:4210796 original size:8 final size:8
Alignment explanation
Indices: 4210770--4210872 Score: 59
Period size: 8 Copynumber: 12.6 Consensus size: 8
4210760 TTCTTTCTCA
4210770 TTTTTC-T
1 TTTTTCTT
* *
4210777 TTTTCCTC
1 TTTTTCTT
4210785 TTTTTCTT
1 TTTTTCTT
4210793 TTTTTCCTT
1 TTTTT-CTT
*
4210802 TTTTTGTT
1 TTTTTCTT
*
4210810 ATTTTTATAT
1 -TTTTTCT-T
* *
4210820 CTTTTCTC
1 TTTTTCTT
4210828 TTTTTCTAT
1 TTTTTCT-T
*
4210837 CTTTTT-TC
1 -TTTTTCTT
*
4210845 TTTTTCTC
1 TTTTTCTT
4210853 TTTTTC-T
1 TTTTTCTT
*
4210860 TTCTTCTT
1 TTTTTCTT
4210868 TTTTT
1 TTTTT
4210873 ATATTTTTTA
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
7 15 0.21
8 32 0.44
9 20 0.27
10 6 0.08
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:4210798 original size:17 final size:17
Alignment explanation
Indices: 4210776--4210861 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 17
4210766 CTCATTTTTC
4210776 TTTTTCCTCTTTTTCTT
1 TTTTTCCTCTTTTTCTT
* *
4210793 TTTTTCCTTTTTTTGTT
1 TTTTTCCTCTTTTTCTT
* * *
4210810 ATTTTT-ATATCTTTTCTC
1 -TTTTTCCTCT-TTTTCTT
* *
4210828 TTTTTCTATCTTTTT-TC
1 TTTTTC-CTCTTTTTCTT
4210845 TTTTT-CTCTTTTTCTT
1 TTTTTCCTCTTTTTCTT
4210861 T
1 T
4210862 CTTCTTTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 7 0.13
16 2 0.04
17 29 0.53
18 14 0.25
19 3 0.05
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTTCCTCTTTTTCTT
Found at i:4210831 original size:25 final size:25
Alignment explanation
Indices: 4210821--4210869 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4210811 TTTTTATATC
4210821 TTTTCTCTTTTTCTATCTTTTTTCT
1 TTTTCTCTTTTTCTATCTTTTTTCT
*
4210846 TTTTCTCTTTTTCTTTCTTCTTTT
1 TTTTCTCTTTTTCTATCTT-TTTT
4210870 TTTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCTCTTTTTCTATCTTTTTTCT
Found at i:4210886 original size:26 final size:27
Alignment explanation
Indices: 4210853--4210936 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 27
4210843 TCTTTTTCTC
4210853 TTTT-TCTTTCTTCTTTTTT-TATATT
1 TTTTATCTTTCTTCTTTTTTATATATT
* *
4210878 TTTTATC-TTCTATATTTTTTCTATATT
1 TTTTATCTTTCT-TCTTTTTTATATATT
* * * *
4210905 TTCTCTCTCTC-CCTTTTTTATATATT
1 TTTTATCTTTCTTCTTTTTTATATATT
4210931 TTTTAT
1 TTTTAT
4210937 GAATTTATTG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
25 8 0.17
26 25 0.54
27 11 0.24
28 2 0.04
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTATCTTTCTTCTTTTTTATATATT
Found at i:4210921 original size:65 final size:68
Alignment explanation
Indices: 4210784--4210922 Score: 153
Period size: 65 Copynumber: 2.1 Consensus size: 68
4210774 TCTTTTTCCT
* * * * * * *
4210784 CTTTTTCTTTTTTTCCTTTTTTTGTTATTTTTATATCTTTTCTCTTTTTCTATCTTTTTTCTTTT
1 CTTTTTCTTTTCTTCCTTTTTTTGATATTTTTATATCTTTTATCTTTTTCTATATTTTCTCTCTC
*
4210849 TCT
66 TCC
4210852 CTTTTTC-TTTCTT-CTTTTTTT-ATATTTTT-TATCTTCTATAT-TTTTTCTATATTTTCTCTC
1 CTTTTTCTTTTCTTCCTTTTTTTGATATTTTTATATCTT-T-TATCTTTTTCTATATTTTCTCTC
4210912 TCTCC
64 TCTCC
4210917 CTTTTT
1 CTTTTT
4210923 TATATATTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
64 6 0.10
65 33 0.54
66 10 0.16
67 5 0.08
68 7 0.11
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.73
Consensus pattern (68 bp):
CTTTTTCTTTTCTTCCTTTTTTTGATATTTTTATATCTTTTATCTTTTTCTATATTTTCTCTCTC
TCC
Found at i:4210933 original size:27 final size:26
Alignment explanation
Indices: 4210867--4210933 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
4210857 TCTTTCTTCT
*
4210867 TTTTTTATAT-TTTTTATCTTCTATA
1 TTTTTTATATATTTTTATCTTCTACA
* * * *
4210892 TTTTTTCTATA-TTTTCTCTCTCTCCC
1 TTTTTTATATATTTTTATCT-TCTACA
4210918 TTTTTTATATATTTTT
1 TTTTTTATATATTTTT
4210934 TATGAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 16 0.48
26 13 0.39
27 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTTATATATTTTTATCTTCTACA
Found at i:4214663 original size:3 final size:3
Alignment explanation
Indices: 4214655--4214700 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
4214645 AGGTTATTTA
*
4214655 TAT TAT TAT TATT TAA TATT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
4214701 CAAGTTTCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4216527 original size:292 final size:294
Alignment explanation
Indices: 4215993--4216581 Score: 1040
Period size: 292 Copynumber: 2.0 Consensus size: 294
4215983 ATTGATGGTT
4215993 GTTAAATTATAATTCCAGTCCCTAGCTTGCGTATTGTTCTTGTTTATGGCCATGATTTTTTATTG
1 GTTAAATTATAATTCCAGTCCCTAGCTTGCGTATTGTTCTTGTTTATGGCCATGATTTTTTATTG
* * *
4216058 TTTTACAGTTTAATCCTCAAGTTTAATTTTTTTTAATTCTGAATAGTGTTATTAGTTTATTTAGG
66 TTTTACAATTTAATCCTCAAGTTTAA-TTTTTTTAATTCTGAATAGTGTTATTAGGTTATTTACG
*
4216123 ATTCTGGTGCCTAATTTTTATAATATTTGCAATTATTACCCTAGTCTTTGTTGTGTTTTTAGTTT
130 ATTCTGGTGCCTAATTTGTATAATATTTGCAATTATTACCCTAGTCTTTGTTGTGTTTTTAGTTT
4216188 GGTCTTTAAAGTTTCTATTTTTTTAGTTATATCTTAATACAACCTATTCGACTTATGTTACGTTG
195 GGTCTTTAAAGTTTCTATTTTTTTAGTTATATCTTAATACAACCTATTCGACTTATGTTACGTTG
*
4216253 TGTTTTAACCTCTCTGGTTTGTTGTACGTTATTAG
260 TGTTTTAACCTCTCTGGTTTATTGTACGTTATTAG
*
4216288 GTTAAATTATAATTCTAGTCCCTAGCTTGCGTATTGTTCTTGTTTATGGCCATGATTTTTGT-TT
1 GTTAAATTATAATTCCAGTCCCTAGCTTGCGTATTGTTCTTGTTTATGGCCATGATTTTT-TATT
*
4216352 GTTTTACAATTTAATCCTCAAGTTT-A-TTTTTTAATTCTGAATAGTGTTATTGGGTTATTTACG
65 GTTTTACAATTTAATCCTCAAGTTTAATTTTTTTAATTCTGAATAGTGTTATTAGGTTATTTACG
* *
4216415 ATTCTGGTGCCTAATTTGTATAATATTTGCACTTATTATCCTAGTCTTTGTTGTGTTTTTAGTTT
130 ATTCTGGTGCCTAATTTGTATAATATTTGCAATTATTACCCTAGTCTTTGTTGTGTTTTTAGTTT
**
4216480 GGTCTTTAAAGTTTCTATTTTTTTAGTTATATCTTAATATGACCTATTCGACTTATGTTACGTTG
195 GGTCTTTAAAGTTTCTATTTTTTTAGTTATATCTTAATACAACCTATTCGACTTATGTTACGTTG
4216545 TGTTTTAACCTCTCTGGTTTATTGTACGTTATTAG
260 TGTTTTAACCTCTCTGGTTTATTGTACGTTATTAG
4216580 GT
1 GT
4216582 AATTATTGAA
Statistics
Matches: 282, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
292 195 0.69
294 1 0.00
295 85 0.30
296 1 0.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.51
Consensus pattern (294 bp):
GTTAAATTATAATTCCAGTCCCTAGCTTGCGTATTGTTCTTGTTTATGGCCATGATTTTTTATTG
TTTTACAATTTAATCCTCAAGTTTAATTTTTTTAATTCTGAATAGTGTTATTAGGTTATTTACGA
TTCTGGTGCCTAATTTGTATAATATTTGCAATTATTACCCTAGTCTTTGTTGTGTTTTTAGTTTG
GTCTTTAAAGTTTCTATTTTTTTAGTTATATCTTAATACAACCTATTCGACTTATGTTACGTTGT
GTTTTAACCTCTCTGGTTTATTGTACGTTATTAG
Found at i:4216967 original size:17 final size:16
Alignment explanation
Indices: 4216938--4216979 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
4216928 ATCACAAATC
4216938 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
4216955 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
4216970 AATTATTTTA
1 AATTATTTTA
4216980 AAAGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:4222219 original size:25 final size:25
Alignment explanation
Indices: 4222190--4222273 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
4222180 AACACCATAC
*
4222190 CCTTCTCTTGCAGGGACCAATATAG
1 CCTTCTCCTGCAGGGACCAATATAG
4222215 CCTTCTCCTGCAGGGACCAATATAG
1 CCTTCTCCTGCAGGGACCAATATAG
*
4222240 CTTTCTCCTGCAGGGACCAATATAG
1 CCTTCTCCTGCAGGGACCAATATAG
4222265 CCTTCTCCT
1 CCTTCTCCT
4222274 CTAATGAGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (25 bp):
CCTTCTCCTGCAGGGACCAATATAG
Found at i:4222798 original size:2 final size:2
Alignment explanation
Indices: 4222787--4222817 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4222777 TAAAGGTGAT
4222787 TA TA -A 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
4222818 CGCACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4224513 original size:20 final size:20
Alignment explanation
Indices: 4224441--4224513 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
4224431 TTCTTACTTA
* * *
4224441 GTAAGTCATTCGGGTCATCA
1 GTAAGTCTTTCGAGTCATCT
*
4224461 GTAAGTCTTTCGAG-CATGAT
1 GTAAGTCTTTCGAGTCAT-CT
*
4224481 GATTAAATCTTTCGAGTCATCT
1 G--TAAGTCTTTCGAGTCATCT
4224503 GTAAGTCTTTC
1 GTAAGTCTTTC
4224514 CAGCAAGATG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.07
20 22 0.52
22 14 0.33
23 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
GTAAGTCTTTCGAGTCATCT
Found at i:4224513 original size:42 final size:41
Alignment explanation
Indices: 4224449--4224535 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 41
4224439 TAGTAAGTCA
* * *
4224449 TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCT
1 TTCGAGTCATCAGTAAGTCTTTCCAGCAAGATGA-TAAATCT
* *
4224491 TTCGAGTCATCTGTAAGTCTTTCCAGCAAGATGATAAGTCT
1 TTCGAGTCATCAGTAAGTCTTTCCAGCAAGATGATAAATCT
4224532 TTCG
1 TTCG
4224536 GGCCATCCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 10 0.25
42 30 0.75
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
TTCGAGTCATCAGTAAGTCTTTCCAGCAAGATGATAAATCT
Found at i:4225654 original size:257 final size:255
Alignment explanation
Indices: 4224943--4225766 Score: 832
Period size: 257 Copynumber: 3.2 Consensus size: 255
4224933 TACTTACTTA
*
4224943 GTAAGTCATTC-GGACCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGT
1 GTAAGTCATTCAGG-CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGT
* * * ** * * * * * *
4225007 AAGTCTTTCAAGAAAGATTATAAGCCCTTCGGGTCATCCGTAAAACCTTTGGGTAGGATATTTTC
65 AAGTCTTTCAAGCAAGATGATAAGTCCTTCAAGCCAT-TGTAAGACCTTTGGGAAAGATGTTTTC
4225072 ACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTTCAGAAAATGA
129 ACATGAATTTG-AAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTA-TTTTCAGAAAATGA
* ** * * *
4225137 AATTTTTGAAAAGTAAGAAAG-TGTTTGCCAAAGTTTCTTACCCAGTAAACTGTTTCCCAAATTG
192 AATTTTTGAAAAATAAGAAAGCAATTT-CCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * *** * *
4225201 GTATGTCCTTCTGG---T-A-TAAGTCTTTCGAGCATGATGATTAAATCCTTTAAGTTATCTATA
1 GTAAGTCATTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTA
* * * * * * *
4225261 AGTCCTTCGAA-CGAGATGATAAGTCCTTCGAA-CCATTCGTAAGACGTTCGAGCATGATGTTTT
66 AGTCTTTC-AAGCAAGATGATAAGTCCTTC-AAGCCATT-GTAAGACCTTTGGGAAAGATGTTTT
* * * * * * *
4225324 CAGATGAAATTGAATAATAAGAAAG-TAGTTTCCAAAGTTTATCAATTAGTACTTTCAGAAAAT-
128 CACATGAATTTGAA-AATGAGAAAGCGA-TTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATG
4225387 AAACTTTTTGAAAAATAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
191 AAA-TTTTTGAAAAATAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
4225452 G
255 G
* * *
4225453 GTAAGTCCTTC-GGACCATCAGTAAGTCATTCAAGCATGATGATTAAATCCTTCGGGTCATCTGT
1 GTAAGTCATTCAGG-CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTG-
* * * *
4225517 TAA-TCTTTCTAGCAAGATGATAAGTTCTTCAAGCCATATATAAGACTTTTGGGAAAGATGTTTT
64 TAAGTCTTTCAAGCAAGATGATAAGTCCTTCAAGCCAT-TGTAAGACCTTTGGGAAAGATGTTTT
* * *
4225581 CACATGATTTTCATAAATGAGAAAGCGATTTTCAAAGTTTCTCATTT-GATATTTTCA-AAGAAT
128 CACATGAATTTGA-AAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAG-TATTTTCAGAA-AAT
* * * * * ** *
4225644 GAAATTTTTGAAAAATAAGAAATCAATTTCCATAGTTCCTTACCTAGTTAATTATTTCCTTACTT
190 GAAATTTTTGAAAAATAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
*
4225709 A
255 G
** *
4225710 GTAAGTCATTCAGGCCATCAGTAAGTCTTTTTAGCATGATGATTAAACCCTTCGGGT
1 GTAAGTCATTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
4225767 TTTCTATCAG
Statistics
Matches: 464, Mismatches: 78, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
251 5 0.01
252 76 0.16
253 124 0.27
254 3 0.01
255 2 0.00
256 7 0.02
257 225 0.48
258 20 0.04
259 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (255 bp):
GTAAGTCATTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTA
AGTCTTTCAAGCAAGATGATAAGTCCTTCAAGCCATTGTAAGACCTTTGGGAAAGATGTTTTCAC
ATGAATTTGAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATT
TTTGAAAAATAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:4227004 original size:212 final size:214
Alignment explanation
Indices: 4226637--4227062 Score: 838
Period size: 212 Copynumber: 2.0 Consensus size: 214
4226627 AGGTTTCCCG
4226637 AACTTTAGCCACCGTGGGTGGCGCCGGAGCGCTCCTATGTGTGGTGGCCGGAGGTTGTCGGCCTC
1 AACTTTAGCCACCGTGGGTGGCGCCGGAGCGCTCCTATGTGTGGTGGCCGGAGGTTGTCGGCCTC
4226702 CCCTCTATGAGAGAAGTTAGAGAGAGGCCAGATAATTCTTTTCTCTCTTCTCTTAAAGAGAGAGT
66 CCCTCTATGAGAGAAGTTAGAGAGAGGCCAGATAATTCTTTTCTCTCTTCTCTTAAAGAGAGAGT
4226767 GATTTGAAGAAATGAGGTATATGGGCCATTTTAGGCCGGTTTTCAGGG-TATATACCCCTTTCGG
131 GATTTGAAGAAATGAGGTATATGGGCCATTTTAGGCCGGTTTTCAGGGTTATATACCCCTTTCGG
4226831 TAAGATGTT-TTTTGGGGA
196 TAAGATGTTATTTTGGGGA
4226849 AACTTTAGCCACCGTGGGTGGCGCCGGAGCGCTCCTATGTGTGGTGGCCGGAGGTTGTCGGCCTC
1 AACTTTAGCCACCGTGGGTGGCGCCGGAGCGCTCCTATGTGTGGTGGCCGGAGGTTGTCGGCCTC
4226914 CCCTCTATGAGAGAAGTTAGAGAGAGGCCAGATAATTCTTTTCTCTCTTCTCTTAAAGAGAGAGT
66 CCCTCTATGAGAGAAGTTAGAGAGAGGCCAGATAATTCTTTTCTCTCTTCTCTTAAAGAGAGAGT
4226979 GATTTGAAGAAATGAGGTATATGGGCCATTTTAGGCCGGTTTTCAGGGTTATATACCCCTTTCGG
131 GATTTGAAGAAATGAGGTATATGGGCCATTTTAGGCCGGTTTTCAGGGTTATATACCCCTTTCGG
4227044 TAAGATGTTATTTTGGGGA
196 TAAGATGTTATTTTGGGGA
4227063 GGGGGTTTCG
Statistics
Matches: 212, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
212 178 0.84
213 25 0.12
214 9 0.04
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (214 bp):
AACTTTAGCCACCGTGGGTGGCGCCGGAGCGCTCCTATGTGTGGTGGCCGGAGGTTGTCGGCCTC
CCCTCTATGAGAGAAGTTAGAGAGAGGCCAGATAATTCTTTTCTCTCTTCTCTTAAAGAGAGAGT
GATTTGAAGAAATGAGGTATATGGGCCATTTTAGGCCGGTTTTCAGGGTTATATACCCCTTTCGG
TAAGATGTTATTTTGGGGA
Found at i:4227613 original size:114 final size:114
Alignment explanation
Indices: 4227413--4227640 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
4227403 AATTATTGAA
4227413 TGTGCATGAGTTCGATCAATATATGTATACTAGTATTTGTAAAATATATATTAAATATAAATTTG
1 TGTGCATGAGTTCGATCAATATATGTATACTAGTATTTGTAAAATATATATTAAATATAAATTTG
4227478 TGCGAATGATTTATAGAAATGTGCCTTAATTGACAAGGAGTGATTTTCC
66 TGCGAATGATTTATAGAAATGTGCCTTAATTGACAAGGAGTGATTTTCC
4227527 TGTGCATGAGTTCGATCAATATATGTATACTAGTATTTGTAAAATATATATTAAATATAAATTTG
1 TGTGCATGAGTTCGATCAATATATGTATACTAGTATTTGTAAAATATATATTAAATATAAATTTG
4227592 TGCGAATGATTTATAGAAATGTGCCTTAATTGACAAGGAGTGATTTTCC
66 TGCGAATGATTTATAGAAATGTGCCTTAATTGACAAGGAGTGATTTTCC
4227641 AAAAATCATT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (114 bp):
TGTGCATGAGTTCGATCAATATATGTATACTAGTATTTGTAAAATATATATTAAATATAAATTTG
TGCGAATGATTTATAGAAATGTGCCTTAATTGACAAGGAGTGATTTTCC
Found at i:4229941 original size:18 final size:18
Alignment explanation
Indices: 4229918--4229974 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
4229908 ATGAAAAAAA
4229918 AAACAAATGACTAAATTC
1 AAACAAATGACTAAATTC
4229936 AAAC-AA-G-CTAACA-T-
1 AAACAAATGACTAA-ATTC
*
4229950 AATAAAAATGACTAAATTC
1 AA-ACAAATGACTAAATTC
4229969 AAACAA
1 AAACAA
4229975 TTACAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 2 0.07
15 6 0.20
16 4 0.13
17 4 0.13
18 12 0.40
19 2 0.07
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (18 bp):
AAACAAATGACTAAATTC
Found at i:4230218 original size:16 final size:16
Alignment explanation
Indices: 4230197--4230236 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
4230187 GTACAAGGAT
4230197 CAAACAATAATTAAAC
1 CAAACAATAATTAAAC
4230213 CAAACAATAATTAAAC
1 CAAACAATAATTAAAC
4230229 CAAA-AATA
1 CAAACAATA
4230237 TATAACATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
CAAACAATAATTAAAC
Found at i:4233867 original size:24 final size:24
Alignment explanation
Indices: 4233840--4233946 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 24
4233830 AAACGGAGAT
* *
4233840 ATCAAAAATGAAAACAGAAATCAG
1 ATCAGAAATCAAAACAGAAATCAG
* * *
4233864 ATCAGATATCAGAATA-AAATCCAG
1 ATCAGAAATCAAAACAGAAAT-CAG
* *
4233888 ATCAGAAATCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAAATCAG
* * * *
4233912 ATCAGAAATCAGAATAGAATTCAA
1 ATCAGAAATCAAAACAGAAATCAG
4233936 ATCAGAAATCA
1 ATCAGAAATCA
4233947 GATAAAACAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.06
24 62 0.90
25 3 0.04
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAAATCAG
Found at i:4233869 original size:12 final size:12
Alignment explanation
Indices: 4233854--4233949 Score: 81
Period size: 12 Copynumber: 8.0 Consensus size: 12
4233844 AAAATGAAAA
4233854 CAGAAATCAGAT
1 CAGAAATCAGAT
*
4233866 CAGATATCAGAAT
1 CAGAAATCAG-AT
4233879 -A-AAATCCAGAT
1 CAGAAAT-CAGAT
* *
4233890 CAGAAATCAAAA
1 CAGAAATCAGAT
* *
4233902 CAGAATTCAAAT
1 CAGAAATCAGAT
4233914 CAGAAATCAGAAT
1 CAGAAATCAG-AT
* *
4233927 -AGAATTCAAAT
1 CAGAAATCAGAT
4233938 CAGAAATCAGAT
1 CAGAAATCAGAT
4233950 AAAACATTCA
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
11 7 0.11
12 51 0.77
13 8 0.12
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (12 bp):
CAGAAATCAGAT
Found at i:4233923 original size:48 final size:48
Alignment explanation
Indices: 4233840--4233946 Score: 142
Period size: 48 Copynumber: 2.2 Consensus size: 48
4233830 AAACGGAGAT
* * * * *
4233840 ATCAAAAATGAAAACAGAAATCAGATCAGATATCAGAATAAAATCCAG
1 ATCAGAAATCAAAACAGAAATCAAATCAGAAATCAGAATAAAATCCAA
* * *
4233888 ATCAGAAATCAAAACAGAATTCAAATCAGAAATCAGAATAGAATTCAA
1 ATCAGAAATCAAAACAGAAATCAAATCAGAAATCAGAATAAAATCCAA
4233936 ATCAGAAATCA
1 ATCAGAAATCA
4233947 GATAAAACAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAAATCAAATCAGAAATCAGAATAAAATCCAA
Found at i:4233947 original size:24 final size:24
Alignment explanation
Indices: 4233855--4233948 Score: 116
Period size: 24 Copynumber: 3.9 Consensus size: 24
4233845 AAATGAAAAC
* * *
4233855 AGAAATCAGATCAGATATCAGAAT
1 AGAATTCAAATCAGAAATCAGAAT
* * * * *
4233879 AAAATCCAGATCAGAAATCAAAAC
1 AGAATTCAAATCAGAAATCAGAAT
4233903 AGAATTCAAATCAGAAATCAGAAT
1 AGAATTCAAATCAGAAATCAGAAT
4233927 AGAATTCAAATCAGAAATCAGA
1 AGAATTCAAATCAGAAATCAGA
4233949 TAAAACATTC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (24 bp):
AGAATTCAAATCAGAAATCAGAAT
Found at i:4238086 original size:256 final size:261
Alignment explanation
Indices: 4237631--4238148 Score: 992
Period size: 256 Copynumber: 2.0 Consensus size: 261
4237621 CTTTACAAAC
4237631 TTCTTATCCAACTTCCAGAATCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAATTTTA
1 TTCTTATCCAACTTCCAGAATCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAATTTTA
4237696 CCTAATCGAAGTATTCTCATGATTTATCATCCAAGTATCCTTAATGAGAAAAATTATAATTTACA
66 CCTAATCGAAGTATTCTCATGATTTATCATCCAAGTATCCTTAATGAGAAAAATTATAATTTACA
4237761 TATTCAGGACTGATTCCTTTATCACTTAATCATAGAACTTGTAATTCAATAGAATCTTAACTAAT
131 TATTCAGGACTGATTCCTTTATCACTTAATCATAGAACTTGTAATTCAATAGAATCTTAACTAAT
4237826 TTAT-CTT-AA-C-TATTTGGTTCGAATCCATCCATAATC-AACAGGCAGAATAGACCAATCATA
196 TTATACTTAAACCTTATTTGGTTCGAATCCATCCATAATCAAACAGGCAGAATAGACCAATCATA
4237886 T
261 T
4237887 TTCTTATCCAACTTCCAGAATCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAATTTTA
1 TTCTTATCCAACTTCCAGAATCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAATTTTA
4237952 CCTAATCGAAGTATTCTCATGATTTATCATCCAAGTATCCTTAATGAGAAAAATTATAATTTACA
66 CCTAATCGAAGTATTCTCATGATTTATCATCCAAGTATCCTTAATGAGAAAAATTATAATTTACA
4238017 TATTCAGGACTGATTCCTTTATCACTTAATCATAGAACTTGTAATTCAATAGAATCTTAACTAAT
131 TATTCAGGACTGATTCCTTTATCACTTAATCATAGAACTTGTAATTCAATAGAATCTTAACTAAT
4238082 TTATCACTTAAACCTTATTTGGTTCGAATCCATCCATAATCAAACAGGCAGAATAGACCAATCAT
196 TTAT-ACTTAAACCTTATTTGGTTCGAATCCATCCATAATCAAACAGGCAGAATAGACCAATCAT
4238147 AT
260 AT
4238149 ACATTCATGC
Statistics
Matches: 256, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
256 199 0.78
258 3 0.01
259 2 0.01
260 1 0.00
261 26 0.10
262 25 0.10
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (261 bp):
TTCTTATCCAACTTCCAGAATCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAATTTTA
CCTAATCGAAGTATTCTCATGATTTATCATCCAAGTATCCTTAATGAGAAAAATTATAATTTACA
TATTCAGGACTGATTCCTTTATCACTTAATCATAGAACTTGTAATTCAATAGAATCTTAACTAAT
TTATACTTAAACCTTATTTGGTTCGAATCCATCCATAATCAAACAGGCAGAATAGACCAATCATA
T
Found at i:4240184 original size:24 final size:24
Alignment explanation
Indices: 4240156--4240216 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4240146 ATTTGATTTA
*
4240156 TGTTCTAATTTTTGCTCTAAATTC
1 TGTTCTAATTTCTGCTCTAAATTC
* * *
4240180 TGTTCTGATTTCTGCTTTGAATTC
1 TGTTCTAATTTCTGCTCTAAATTC
* *
4240204 TGTTATGATTTCT
1 TGTTCTAATTTCT
4240217 TCTATGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.16, C:0.15, G:0.13, T:0.56
Consensus pattern (24 bp):
TGTTCTAATTTCTGCTCTAAATTC
Found at i:4240192 original size:12 final size:12
Alignment explanation
Indices: 4240177--4240241 Score: 80
Period size: 12 Copynumber: 5.4 Consensus size: 12
4240167 TTGCTCTAAA
*
4240177 TTCTGTTCTGAT
1 TTCTGTTATGAT
*
4240189 TTCTGCTT-TGAA
1 TTCTG-TTATGAT
4240201 TTCTGTTATGAT
1 TTCTGTTATGAT
4240213 TTCT-TCTATGAT
1 TTCTGT-TATGAT
4240225 TTCTGTTATGAT
1 TTCTGTTATGAT
4240237 TTCTG
1 TTCTG
4240242 ATATCTCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
11 3 0.06
12 41 0.87
13 3 0.06
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.57
Consensus pattern (12 bp):
TTCTGTTATGAT
Found at i:4240228 original size:24 final size:24
Alignment explanation
Indices: 4240175--4240241 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
4240165 TTTTGCTCTA
* *
4240175 AATTCTGTTCTGATTTCTGCTTTG
1 AATTCTGTTATGATTTCTGCTATG
*
4240199 AATTCTGTTATGATTTCTTCTATG
1 AATTCTGTTATGATTTCTGCTATG
*
4240223 ATTTCTGTTATGATTTCTG
1 AATTCTGTTATGATTTCTG
4240242 ATATCTCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.55
Consensus pattern (24 bp):
AATTCTGTTATGATTTCTGCTATG
Found at i:4240422 original size:31 final size:31
Alignment explanation
Indices: 4240384--4240459 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 31
4240374 TAAGGCAACC
* * *
4240384 CTTGGGTAGGCTCTGTGGCCCTGATATTTTT
1 CTTGGGTAGGCTCTGTGGCCCCGAGAATTTT
4240415 CTTGGGTAGGCCTCTGTGGCCCCGAGAATTTT
1 CTTGGGTAGG-CTCTGTGGCCCCGAGAATTTT
4240447 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
4240460 GCAGGCCCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 13 0.32
32 28 0.68
ACGTcount: A:0.11, C:0.22, G:0.32, T:0.36
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGTGGCCCCGAGAATTTT
Found at i:4241836 original size:22 final size:22
Alignment explanation
Indices: 4241806--4241849 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4241796 CCGACTGTCC
* *
4241806 GACCTGACCATTGATTGCCGTT
1 GACCGGACCATTGACTGCCGTT
*
4241828 GACCGGACCTTTGACTGCCGTT
1 GACCGGACCATTGACTGCCGTT
4241850 AATCGGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.30
Consensus pattern (22 bp):
GACCGGACCATTGACTGCCGTT
Found at i:4244386 original size:12 final size:12
Alignment explanation
Indices: 4244366--4244447 Score: 83
Period size: 12 Copynumber: 6.8 Consensus size: 12
4244356 AATATTTTAC
4244366 CTGATTTCTGCT
1 CTGATTTCTGCT
* *
4244378 CTGAATTCTGTT
1 CTGATTTCTGCT
* *
4244390 CTGATTTTTTCT
1 CTGATTTCTGCT
* * *
4244402 TTGAATTCTGTT
1 CTGATTTCTGCT
*
4244414 CTGATTTCTACT
1 CTGATTTCTGCT
*
4244426 CTGATTTCTGTT
1 CTGATTTCTGCT
4244438 CTGATTTCTG
1 CTGATTTCTG
4244448 ATATCTCTGT
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (12 bp):
CTGATTTCTGCT
Found at i:4244394 original size:24 final size:24
Alignment explanation
Indices: 4244366--4244447 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
4244356 AATATTTTAC
4244366 CTGATTTCTGCTCTGAATTCTGTT
1 CTGATTTCTGCTCTGAATTCTGTT
* * *
4244390 CTGATTTTTTCTTTGAATTCTGTT
1 CTGATTTCTGCTCTGAATTCTGTT
* *
4244414 CTGATTTCTACTCTGATTTCTGTT
1 CTGATTTCTGCTCTGAATTCTGTT
4244438 CTGATTTCTG
1 CTGATTTCTG
4244448 ATATCTCTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (24 bp):
CTGATTTCTGCTCTGAATTCTGTT
Found at i:4244629 original size:31 final size:31
Alignment explanation
Indices: 4244591--4244666 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 31
4244581 TAAGACGACC
**
4244591 CTTGGGTAGGCTCTGCGGCCTTGAGAATTTT
1 CTTGGGTAGGCTCTGCGGCCCCGAGAATTTT
*
4244622 CTTGGGTAGGCCTCTGTGGCCCCGAGAATTTT
1 CTTGGGTAGG-CTCTGCGGCCCCGAGAATTTT
4244654 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
4244667 GTAGGACCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 13 0.32
32 28 0.68
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCGAGAATTTT
Found at i:4246117 original size:17 final size:16
Alignment explanation
Indices: 4246095--4246148 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
4246085 TCAAAGTTAA
4246095 CGGTCAACGGTTTGACT
1 CGGTCAACGGTTT-ACT
* *
4246112 CGGTCAA-AG-TTA-A
1 CGGTCAACGGTTTACT
4246125 CGGTCAACGGTTTAACT
1 CGGTCAACGGTTT-ACT
4246142 CGGTCAA
1 CGGTCAA
4246149 AGTCAACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 7 0.24
14 2 0.07
15 4 0.14
16 2 0.07
17 14 0.48
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (16 bp):
CGGTCAACGGTTTACT
Done.