Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 21
Found at i:3951836 original size:3 final size:3
Alignment explanation
Indices: 3951828--3951865 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
3951818 GCACAAAAAT
* *
3951828 ATA ATA ATA ATA ACA TTA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3951866 TTTTTTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3952305 original size:43 final size:43
Alignment explanation
Indices: 3952241--3952412 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
3952231 AGTTTCTTAA
* * * *
3952241 TTGTCACCAAGGAACCTCTACATATCATGTTGGTCTCTTAAGC
1 TTGTCATCAAGAAACCCCTACATATCATGATGGTCTCTTAAGC
* * * *
3952284 ATGTCATCAAGAAACCCCTACATATCATGATGGTTTCTCAAAC
1 TTGTCATCAAGAAACCCCTACATATCATGATGGTCTCTTAAGC
*
3952327 TTGTCATCAA-AGAACCCCTACATATCACGATGGTC-CTTCAAGC
1 TTGTCATCAAGA-AACCCCTACATATCATGATGGTCTCTT-AAGC
* * * *
3952370 TTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGC
1 TTGTCATCAAGAAACCCCTACATATCATGATGGTCTCTTAAGC
3952413 GAGGCGTCAC
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.03
43 103 0.94
44 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (43 bp):
TTGTCATCAAGAAACCCCTACATATCATGATGGTCTCTTAAGC
Found at i:3952386 original size:86 final size:86
Alignment explanation
Indices: 3952241--3952410 Score: 252
Period size: 86 Copynumber: 2.0 Consensus size: 86
3952231 AGTTTCTTAA
* * * *
3952241 TTGTCACCAAGGAACCTCTACATATCATGTTGGTCTCTTAAGCATGTCATCAAGAAACCCCTACA
1 TTGTCACCAAAGAACCCCTACATATCACGATGGTCTCTTAAGCATGTCATCAAGAAACCCCTACA
*
3952306 TATCATGATGGTTTCTCAAAC
66 TATCACGATGGTTTCTCAAAC
* * *
3952327 TTGTCATCAAAGAACCCCTACATATCACGATGGTC-CTTCAAGCTTTTCATCAAGAAACCCCTAC
1 TTGTCACCAAAGAACCCCTACATATCACGATGGTCTCTT-AAGCATGTCATCAAGAAACCCCTAC
3952391 ATATCACGATGGTTTCTCAA
65 ATATCACGATGGTTTCTCAA
3952411 GCGAGGCGTC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
85 3 0.04
86 72 0.96
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (86 bp):
TTGTCACCAAAGAACCCCTACATATCACGATGGTCTCTTAAGCATGTCATCAAGAAACCCCTACA
TATCACGATGGTTTCTCAAAC
Found at i:3952623 original size:19 final size:17
Alignment explanation
Indices: 3952571--3952624 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
3952561 TGAAAGGAAC
3952571 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* * *
3952588 AACTTTTTC-CTTTATG
1 AAGTTCTTCTCATTATG
3952604 ACGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
3952623 AA
1 AA
3952625 CTCTTCTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:3952631 original size:19 final size:18
Alignment explanation
Indices: 3952574--3952632 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
3952564 AAGGAACAAG
3952574 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
* *
3952592 TT-TTC-CTTTATG-ACGAG
1 TTCTTCTCATTATGAAC--T
3952609 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
3952627 CTTCTT
1 -TTCTT
3952633 GAAATGTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 5 0.16
18 5 0.16
19 11 0.35
20 2 0.06
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:3952856 original size:91 final size:92
Alignment explanation
Indices: 3952695--3952870 Score: 293
Period size: 91 Copynumber: 1.9 Consensus size: 92
3952685 AGTGATAGGC
3952695 CGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTATCATTATGAAC
1 CGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTATCATTATGAAC
3952760 TCTCCATTGGAAACACTGATGCGAGAT
66 TCTCCATTGGAAACACTGATGCGAGAT
* * * *
3952787 CGAACAAGTTCTTCTCATTATGAACTTCTT-T-TCTCTTGTTGGATGAGTTCTTCTCATTATGAA
1 CGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTT-TCGGATGAGTTCTTATCATTATGAA
3952850 CTCTCCATTGGAAACACTGAT
65 CTCTCCATTGGAAACACTGAT
3952871 CCATCTCCTT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
90 5 0.06
91 45 0.57
92 29 0.37
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (92 bp):
CGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTATCATTATGAAC
TCTCCATTGGAAACACTGATGCGAGAT
Found at i:3953564 original size:62 final size:65
Alignment explanation
Indices: 3953498--3953640 Score: 168
Period size: 66 Copynumber: 2.2 Consensus size: 65
3953488 AGACAACTTT
*
3953498 TTTCAAGAGAAACTATCTCAAAA-ACT-TATTTCAAAAGAAAC-AT-TCAAGGGAGACAAAAATC
1 TTTCAAGGGAAACT-TCTCAAAATACTGTATTTCAAAAGAAACTATCTCAAGGGAGACAAAAATC
3953559 A
65 A
** * * * *
3953560 TTTCAAGGGAAACGTTCTCAAAATTTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAAC-TTCTCAAAATACTGTATTTCAAAAGAAACTATCTCAAGGGAGACAAAAATC
*
3953625 G
65 A
3953626 TTTCAAGGGAAACTT
1 TTTCAAGGGAAACTT
3953641 GTCTCAAGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
62 20 0.29
63 2 0.03
64 13 0.19
65 4 0.06
66 29 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (65 bp):
TTTCAAGGGAAACTTCTCAAAATACTGTATTTCAAAAGAAACTATCTCAAGGGAGACAAAAATCA
Found at i:3953631 original size:36 final size:36
Alignment explanation
Indices: 3953588--3954025 Score: 504
Period size: 36 Copynumber: 12.4 Consensus size: 36
3953578 CAAAATTTTG
* *
3953588 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
3953624 TGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAAC-TGTCTCAAGGGAGACAAAATT
* ** *
3953661 TGTCTCAAGGGAAACTGTCTCAATAGAGAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * ** *
3953697 TGTTTTAAGGGAAACTGCCTCAAGAAAGACAAAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAATT
* * *
3953734 T-TTTCATGGGAAACAGTCTCAAGGGAGACAAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
** *
3953769 CATTTCAAGGGAAAC-GT-TC-------TCAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
3953796 GTGTTTCAAGAGAAACTATCTCAAGGGAGAC--AATT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
3953831 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
3953867 GGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * *
3953903 GGTTTCAAGGGAAAATATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
3953939 CGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
3953975 CGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
3954011 CGTTTCAAGAGAAAC
1 TGTTTCAAGGGAAAC
3954026 GTTTTCAAAG
Statistics
Matches: 350, Mismatches: 37, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.02
28 12 0.03
29 1 0.00
30 2 0.01
34 30 0.09
35 12 0.03
36 247 0.71
37 40 0.11
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:3953633 original size:21 final size:21
Alignment explanation
Indices: 3953605--3953672 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
3953595 AGAGAAACTA
3953605 TCTCAAGGGAGACAAAATTTG
1 TCTCAAGGGAGACAAAATTTG
* *
3953626 TTTCAA-GG-G---AAACTTG
1 TCTCAAGGGAGACAAAATTTG
*
3953642 TCTCAAGAGAGACAAAATTTG
1 TCTCAAGGGAGACAAAATTTG
3953663 TCTCAAGGGA
1 TCTCAAGGGA
3953673 AACTGTCTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
16 11 0.31
17 1 0.03
18 1 0.03
19 1 0.03
20 2 0.06
21 20 0.56
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (21 bp):
TCTCAAGGGAGACAAAATTTG
Found at i:3953848 original size:170 final size:170
Alignment explanation
Indices: 3953617--3953961 Score: 448
Period size: 170 Copynumber: 2.0 Consensus size: 170
3953607 TCAAGGGAGA
* *
3953617 CAAAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATTTGTCTCAAGGGAAACTGTCTC
1 CAAAATTTGTTTCAAGAGAAACTTATCTCAAGAGAGAC-AAATTTGTCTCAAGGGAAACTGTCTC
* * * *
3953682 AATAGAGAAAAAATTTGTTTTAAGGGAAACTGCCTCAAGAAAGACAAAAAATT-TTTCATGGGAA
65 AAGAGAGAAAAAATTGGTTTCAAGGGAAACTGCCTCAAGAAAGAC--AAAATTGTTTCAAGGGAA
*
3953746 ACA-GTCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGT-TCT
128 A-ATATCTCAAGGGAGACAAAAATCATTTCAAGGGAAAC-TATCT
* *
3953789 CAAAATTGTGTTTCAAGAGAAAC-TATCTCAAGGGAGAC-AATTTGTTTCAAGGGAAACTGTCTC
1 CAAAATT-TGTTTCAAGAGAAACTTATCTCAAGAGAGACAAATTTGTCTCAAGGGAAACTGTCTC
* * * **
3953852 AAGGGAGACAAAATTGGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTGGTTTCAAGGGAAA
65 AAGAGAGAAAAAATTGGTTTCAAGGGAAACTGCCTCAAGAAAGACAAAATT-GTTTCAAGGGAAA
* *
3953917 ATATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTATCT
129 ATATCTCAAGGGAGACAAAAATCATTTCAAGGGAAACTATCT
3953959 CAA
1 CAA
3953962 GGGAGACAAA
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
168 6 0.04
169 2 0.01
170 110 0.72
172 20 0.13
173 14 0.09
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (170 bp):
CAAAATTTGTTTCAAGAGAAACTTATCTCAAGAGAGACAAATTTGTCTCAAGGGAAACTGTCTCA
AGAGAGAAAAAATTGGTTTCAAGGGAAACTGCCTCAAGAAAGACAAAATTGTTTCAAGGGAAAAT
ATCTCAAGGGAGACAAAAATCATTTCAAGGGAAACTATCT
Found at i:3953876 original size:21 final size:20
Alignment explanation
Indices: 3953850--3954019 Score: 74
Period size: 21 Copynumber: 9.2 Consensus size: 20
3953840 GGAAACTGTC
3953850 TCAAGGGAGACAAAATTGGTT
1 TCAAGGGAGACAAAATT-GTT
* *
3953871 TCAA-GG-G---AAACTGTC
1 TCAAGGGAGACAAAATTGTT
3953886 TCAAGGGAGACAAAATTGGTT
1 TCAAGGGAGACAAAATT-GTT
* *
3953907 TCAA-GG-G--AAAA-TATC
1 TCAAGGGAGACAAAATTGTT
3953922 TCAAGGGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATT-GTT
* * *
3953943 TCAA-GG-G---AAACTATC
1 TCAAGGGAGACAAAATTGTT
3953958 TCAAGGGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATT-GTT
* *
3953979 TCAA-GG-G---AAACTGTC
1 TCAAGGGAGACAAAATTGTT
3953994 TCAAGGGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATT-GTT
3954015 TCAAG
1 TCAAG
3954020 AGAAACGTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 48
0.62 0.10 0.28
Matches are distributed among these distances:
15 22 0.21
16 21 0.20
17 8 0.07
19 8 0.07
20 21 0.20
21 27 0.25
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (20 bp):
TCAAGGGAGACAAAATTGTT
Found at i:3953915 original size:206 final size:207
Alignment explanation
Indices: 3953534--3953997 Score: 670
Period size: 206 Copynumber: 2.2 Consensus size: 207
3953524 TATTTCAAAA
3953534 GAAACAT-TCAAGGGAGACAAAAATCATTTCAAGGGAAACGTTCTCAAAATTTTGTGTTTCAAGA
1 GAAACATCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGTTCTCAAAA-TTTGTGTTTCAAGA
*
3953598 GAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATTTG
65 GAAACTATCTCAAGGGAGAC-AAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATTGG
* * * * *
3953663 TCTCAAGGGAAACTGTCTCAATAGAGAAAAAATTTGTTTTAAGGGAAACTGCCTCAAGAAAGACA
129 TCTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTGGTTTCAAGGGAAAATACCTCAAGAAAGAC-
*
3953728 AAAAATT-TTTCATGG
193 -AAAATTCTTTCAAGG
3953743 GAAACAGTCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGTTCTCAAAA-TTGTGTTTCAAGA
1 GAAACA-TCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGTTCTCAAAATTTGTGTTTCAAGA
*
3953807 GAAACTATCTCAAGGGAGAC-AATTTGTTTCAAGGGAAAC-TGTCTCAAGGGAGACAAAATTGGT
65 GAAACTATCTCAAGGGAGACAAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATTGGT
* * * * **
3953870 TTCAAGGGAAACTGTCTCAAGGGAGACAAAATTGGTTTCAAGGGAAAATATCTCAAGGGAGACAA
130 CTCAAGGGAAACTGTCTCAAGAGAGAAAAAATTGGTTTCAAGGGAAAATACCTCAAGAAAGACAA
3953935 AATTCGTTTCAAGG
195 AATTC-TTTCAAGG
* *
3953949 GAAACTATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAAC-TGTCTCAA
1 GAAAC-ATCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGT-TCTCAA
3953998 GGGAGACAAA
Statistics
Matches: 233, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
204 6 0.03
205 1 0.00
206 124 0.53
207 20 0.09
209 39 0.17
210 1 0.00
211 42 0.18
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (207 bp):
GAAACATCTCAAGGGAGACAAAAATCATTTCAAGGGAAACGTTCTCAAAATTTGTGTTTCAAGAG
AAACTATCTCAAGGGAGACAAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAGACAAAATTGGTC
TCAAGGGAAACTGTCTCAAGAGAGAAAAAATTGGTTTCAAGGGAAAATACCTCAAGAAAGACAAA
ATTCTTTCAAGG
Found at i:3954019 original size:242 final size:243
Alignment explanation
Indices: 3953588--3954071 Score: 659
Period size: 242 Copynumber: 2.0 Consensus size: 243
3953578 CAAAATTTTG
*
3953588 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTGGTTTCAAGGGAAACTTGTCTCAAGAGAG
* * * * * * *
3953653 ACAAAATTTGTCTCAAGGGAAACTGTCTCAATAGAGAAAAAATTTGTTTTAAGGGAAACTGCCTC
66 ACAAAATTGGTCTCAAGGGAAAATATCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACTACCTC
* *
3953718 AAGAAAGACAAAAAATTTTTCATGGGAAACAGTCTCAAGGGAGACAAAAATCATTTCAAGGGAAA
131 AAGAAAGAC-AAAAATTTTTCAAGGGAAACAGTCTCAAGGGAGACAAAAATCATTTCAAGAGAAA
* *
3953783 CGTTCTCAAAAT-TGTGTTTCAAGAGAAACTATCTCAAGGGAGACAATT
195 CGTTCTCAAAATATATGTTTCAAAAGAAACTATCTCAAGGGAGACAATT
* * *
3953831 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTGGTTTCAAGGGAAAC-TGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTGGTTTCAAGGGAAACTTGTCTCAAGAGAG
* * * *
3953895 ACAAAATTGGTTTCAAGGGAAAATATCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTATCTC
66 ACAAAATTGGTCTCAAGGGAAAATATCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACTACCTC
** * * *
3953960 AAGGGAGAC-AAAATTCGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAA
131 AAGAAAGACAAAAATT--TTTCAAGGGAAACAGTCTCAAGGGAGACAAAAATCATTTCAAGAGAA
* * * * *
3954024 ACGTTTTCAAAGTATATGTTTCAAAAGCAATTGTCTCAAGGGAGACAA
194 ACGTTCTCAAAATATATGTTTCAAAAGAAACTATCTCAAGGGAGACAA
3954072 AATTTTGTTT
Statistics
Matches: 209, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
240 6 0.03
242 126 0.60
243 77 0.37
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (243 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTGGTTTCAAGGGAAACTTGTCTCAAGAGAG
ACAAAATTGGTCTCAAGGGAAAATATCTCAAGAGAGAAAAAATTCGTTTCAAGGGAAACTACCTC
AAGAAAGACAAAAATTTTTCAAGGGAAACAGTCTCAAGGGAGACAAAAATCATTTCAAGAGAAAC
GTTCTCAAAATATATGTTTCAAAAGAAACTATCTCAAGGGAGACAATT
Found at i:3954437 original size:34 final size:34
Alignment explanation
Indices: 3954398--3954513 Score: 169
Period size: 34 Copynumber: 3.4 Consensus size: 34
3954388 AGAGAAAAAA
*
3954398 TGTCTCAAGCGAGACGAAATTTGTTTTGAGAAAT
1 TGTCTCAAGTGAGACGAAATTTGTTTTGAGAAAT
* * *
3954432 TGTCTCATGTGAGACGAAATTTGCTTTGATAAAT
1 TGTCTCAAGTGAGACGAAATTTGTTTTGAGAAAT
* *
3954466 TGTCTCAAGTGAGACAAAATTTTTTTTGAGAAAT
1 TGTCTCAAGTGAGACGAAATTTGTTTTGAGAAAT
*
3954500 TGTCTCAATTGAGA
1 TGTCTCAAGTGAGA
3954514 TTTTTTTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (34 bp):
TGTCTCAAGTGAGACGAAATTTGTTTTGAGAAAT
Found at i:3954654 original size:32 final size:32
Alignment explanation
Indices: 3954618--3954784 Score: 244
Period size: 32 Copynumber: 5.2 Consensus size: 32
3954608 AGGATATTGA
* * *
3954618 ATGCCCCAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
3954650 ATGCCCCAACATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
* *
3954683 ATGTCCCAACATTTGATGATGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
3954715 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * * *
3954747 ATGCCTCAACATTTAATGTCGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
3954779 ATGCCC
1 ATGCCC
3954785 TCTATTGCTT
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
32 93 0.76
33 29 0.24
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:3955838 original size:6 final size:6
Alignment explanation
Indices: 3955827--3955885 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
3955817 ATTTCTTTAC
* * *
3955827 TTTCTT TTTCTT TTTCTT TTTGCTC TTTGTT GCTTT-TT TTTCTT TTTCCT
1 TTTCTT TTTCTT TTTCTT TTT-CTT TTTCTT --TTTCTT TTTCTT TTTCTT
3955877 TTTCTT TTT
1 TTTCTT TTT
3955886 GCTCTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 3 0.07
6 31 0.70
7 7 0.16
8 3 0.07
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:3955853 original size:21 final size:21
Alignment explanation
Indices: 3955829--3955894 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
3955819 TTCTTTACTT
3955829 TCTTTTTCTTTTTCTTTTTGC
1 TCTTTTTCTTTTTCTTTTTGC
* **
3955850 TCTTTGT-TGCTT-TTTTT--
1 TCTTTTTCTTTTTCTTTTTGC
*
3955867 TCTTTTTCCTTTTCTTTTTGC
1 TCTTTTTCTTTTTCTTTTTGC
3955888 TCTTTTT
1 TCTTTTT
3955895 TTCATTTTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 10 0.29
20 3 0.09
21 13 0.38
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (21 bp):
TCTTTTTCTTTTTCTTTTTGC
Found at i:3955882 original size:29 final size:30
Alignment explanation
Indices: 3955826--3955902 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 30
3955816 TATTTCTTTA
*
3955826 CTTTCTTTTTCTTTTTCTTTTTGCTCTTTGTTG
1 CTTT-TTTTTCTTTTTCTCTTT-CTCTTT-TTG
3955859 CTTTTTTTTCTTTTTC-CTTT-TCTTTTTG
1 CTTTTTTTTCTTTTTCTCTTTCTCTTTTTG
*
3955887 CTCTTTTTTTCATTTT
1 CT-TTTTTTTCTTTTT
3955903 GTTTGATTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 5 0.12
29 17 0.41
31 3 0.07
32 12 0.29
33 4 0.10
ACGTcount: A:0.01, C:0.18, G:0.05, T:0.75
Consensus pattern (30 bp):
CTTTTTTTTCTTTTTCTCTTTCTCTTTTTG
Found at i:3955896 original size:17 final size:18
Alignment explanation
Indices: 3955833--3955903 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
3955823 TTACTTTCTT
3955833 TTTCTTTTTCTTTTTGCTC
1 TTTC-TTTTCTTTTTGCTC
* * *
3955852 TTTGTTGCTT-TTTTTTCTT
1 TTTCTT--TTCTTTTTGCTC
3955871 TTTCCTTTTCTTTTTGCTC
1 TTT-CTTTTCTTTTTGCTC
*
3955890 TTT-TTTTCATTTTG
1 TTTCTTTTCTTTTTG
3955904 TTTGATTGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 10 0.24
18 4 0.10
19 23 0.56
20 4 0.10
ACGTcount: A:0.01, C:0.17, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTCTTTTCTTTTTGCTC
Found at i:3957105 original size:27 final size:27
Alignment explanation
Indices: 3957063--3957212 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
3957053 TTTAAAAATG
*
3957063 AAATGCAAATGC-AAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
* * *
3957089 AAATGCAGATGCAAAATGAAAATATAT
1 AAATGCAGATGCAAAATGCAAAGATGT
*
3957116 AAATGCAGATGTAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
* **
3957143 AAATGCATATGCAAAATAAAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGT
* *
3957170 AAATGCATATGCAAAATGCAAAGATGC
1 AAATGCAGATGCAAAATGCAAAGATGT
3957197 AAATGCAGATGCAAAA
1 AAATGCAGATGCAAAA
3957213 ATGTTGATCC
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 11 0.10
27 96 0.90
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGCAGATGCAAAATGCAAAGATGT
Found at i:3957196 original size:21 final size:20
Alignment explanation
Indices: 3957172--3957211 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3957162 AAAGATGTAA
*
3957172 ATGCATATGCAAAATGCAAAG
1 ATGCAAATGC-AAATGCAAAG
*
3957193 ATGCAAATGCAGATGCAAA
1 ATGCAAATGCAAATGCAAA
3957212 AATGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (20 bp):
ATGCAAATGCAAATGCAAAG
Found at i:3957198 original size:8 final size:7
Alignment explanation
Indices: 3957063--3957212 Score: 54
Period size: 6 Copynumber: 22.4 Consensus size: 7
3957053 TTTAAAAATG
3957063 AAATGC-
1 AAATGCA
3957069 AAATGC-
1 AAATGCA
3957075 AAATGCA
1 AAATGCA
*
3957082 AAGATG-T
1 AA-ATGCA
3957089 AAATGC-
1 AAATGCA
*
3957095 AGATGCA
1 AAATGCA
3957102 AAATG-A
1 AAATGCA
**
3957108 AAATATA
1 AAATGCA
3957115 TAAATGC-
1 -AAATGCA
* *
3957122 AGATGTA
1 AAATGCA
3957129 AAATGCA
1 AAATGCA
*
3957136 AAGATG-T
1 AA-ATGCA
3957143 AAATGC-
1 AAATGCA
*
3957149 ATATGCA
1 AAATGCA
**
3957156 AAATAAA
1 AAATGCA
*
3957163 AAGATG-T
1 AA-ATGCA
3957170 AAATGC-
1 AAATGCA
*
3957176 ATATGCA
1 AAATGCA
3957183 AAATGCA
1 AAATGCA
3957190 AAGATGC-
1 AA-ATGCA
3957197 AAATGC-
1 AAATGCA
*
3957203 AGATGCA
1 AAATGCA
3957210 AAA
1 AAA
3957213 ATGTTGATCC
Statistics
Matches: 108, Mismatches: 21, Indels: 29
0.68 0.13 0.18
Matches are distributed among these distances:
6 54 0.50
7 38 0.35
8 16 0.15
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (7 bp):
AAATGCA
Found at i:3957215 original size:14 final size:13
Alignment explanation
Indices: 3957063--3957212 Score: 67
Period size: 14 Copynumber: 11.2 Consensus size: 13
3957053 TTTAAAAATG
*
3957063 AAATGCAAATGC-
1 AAATGCAGATGCA
*
3957075 AAATGCAAAGATG-T
1 AAATGC--AGATGCA
3957089 AAATGCAGATGCA
1 AAATGCAGATGCA
* * **
3957102 AAATGAAAATATA
1 AAATGCAGATGCA
*
3957115 TAAATGCAGATGTA
1 -AAATGCAGATGCA
*
3957129 AAATGCAAAGATG-T
1 AAATGC--AGATGCA
*
3957143 AAATGCATATGCA
1 AAATGCAGATGCA
** *
3957156 AAATAAAAAGATG-T
1 AAAT--GCAGATGCA
*
3957170 AAATGCATATGCA
1 AAATGCAGATGCA
3957183 AAATGCAAAGATGC-
1 AAATGC--AGATGCA
3957197 AAATGCAGATGCA
1 AAATGCAGATGCA
3957210 AAA
1 AAA
3957213 ATGTTGATCC
Statistics
Matches: 103, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
12 25 0.24
13 28 0.27
14 36 0.35
15 14 0.14
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (13 bp):
AAATGCAGATGCA
Found at i:3961975 original size:3 final size:3
Alignment explanation
Indices: 3961967--3962004 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
3961957 GCACAAAAAT
* *
3961967 ATA ATA ATA ATA ACA TTA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3962005 TTTTTTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3970788 original size:22 final size:22
Alignment explanation
Indices: 3970763--3970825 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
3970753 ATAAATGGTT
*
3970763 AAAATGAATTAAATAAAAATTGA
1 AAAATAAATTAAA-AAAAATTGA
3970786 AAAATAAATTAAAAAAAA-T-A
1 AAAATAAATTAAAAAAAATTGA
* *
3970806 AAACTGAAATTATAAAAAAT
1 AAAAT-AAATTAAAAAAAAT
3970826 ATAAGGATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 5 0.14
23 12 0.34
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAATAAATTAAAAAAAATTGA
Found at i:3972461 original size:2 final size:2
Alignment explanation
Indices: 3972454--3972486 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3972444 TTTAAAAATC
3972454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3972487 AAATATTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3972878 original size:34 final size:33
Alignment explanation
Indices: 3972770--3972900 Score: 102
Period size: 34 Copynumber: 3.8 Consensus size: 33
3972760 GCGAGACAAC
* * *
3972770 AATTGTTTCAAAAGAAACTATCACAAGTGAGAT
1 AATTTTTTCAAGAGAAACTATCTCAAGTGAGAT
* * * *
3972803 AAACTTTTTGTTTCAATAGAAAC-GTCTCAAGCGAGAC
1 -AA---TTT-TTTCAAGAGAAACTATCTCAAGTGAGAT
*
3972840 AATTTATTTCAAGAGAAACTATCTCAAGTTAGAT
1 AATTT-TTTCAAGAGAAACTATCTCAAGTGAGAT
* *
3972874 AATTTTTTTAATGAGAAACGATCTCAA
1 AATTTTTTCAA-GAGAAACTATCTCAA
3972901 TTTTTATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
33 20 0.26
34 31 0.40
36 2 0.03
37 12 0.16
38 12 0.16
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (33 bp):
AATTTTTTCAAGAGAAACTATCTCAAGTGAGAT
Found at i:3972950 original size:36 final size:36
Alignment explanation
Indices: 3972907--3973136 Score: 101
Period size: 37 Copynumber: 6.4 Consensus size: 36
3972897 TCAATTTTTA
* *
3972907 TGTTTCAAGTGAAAATATATCGAGCGAGACAAAATT
1 TGTTTCAAGAGAAAATATATCAAGCGAGACAAAATT
* * *
3972943 TGTTTCAAGAGAAACTATATCAAGTGAGATAAAATTT
1 TGTTTCAAGAGAAAATATATCAAGCGAGACAAAA-TT
* * * * * * *
3972980 TGTTAT-GAGGGAAACTATCTCGAGTGAAACAAAATTT
1 TGTT-TCAAGAGAAAATATATCAAGCGAGACAAAA-TT
* ** * * * * * **
3973017 TATTTTGAGGGAAACTATCTCGAGTGAGATGAAATT
1 TGTTTCAAGAGAAAATATATCAAGCGAGACAAAATT
* * * * *
3973053 TGTCTT-AA-A-AAATTATCTTAAGTGAGATAAAATTT
1 TGT-TTCAAGAGAAAATATATCAAGCGAGACAAAA-TT
** **
3973088 TGTTTCAAG-GAACTTATATCAAATGAGACAAAATT
1 TGTTTCAAGAGAAAATATATCAAGCGAGACAAAATT
3973123 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
3973137 TTATGTAACA
Statistics
Matches: 157, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
34 21 0.13
35 18 0.11
36 56 0.36
37 61 0.39
38 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (36 bp):
TGTTTCAAGAGAAAATATATCAAGCGAGACAAAATT
Found at i:3972994 original size:37 final size:37
Alignment explanation
Indices: 3972953--3973053 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
3972943 TGTTTCAAGA
* * *
3972953 GAAACTATATCAAGTGAGATAAAATTTTGTTATGAGG
1 GAAACTATCTCGAGTGAGATAAAATTTTATTATGAGG
* * *
3972990 GAAACTATCTCGAGTGAAACAAAATTTTATTTTGAGG
1 GAAACTATCTCGAGTGAGATAAAATTTTATTATGAGG
*
3973027 GAAACTATCTCGAGTGAGATGAAATTT
1 GAAACTATCTCGAGTGAGATAAAATTT
3973054 GTCTTAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (37 bp):
GAAACTATCTCGAGTGAGATAAAATTTTATTATGAGG
Found at i:3973809 original size:20 final size:21
Alignment explanation
Indices: 3973766--3973824 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
3973756 AACACAAAGC
* *
3973766 AAAGGGATCGATCCGTTTTAG
1 AAAGGGATAGATCCTTTTTAG
*
3973787 AAAGGGATAGAT-CTTTTTTG
1 AAAGGGATAGATCCTTTTTAG
*
3973807 AAAGGGATTGATCCTTTT
1 AAAGGGATAGATCCTTTT
3973825 CCACAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (21 bp):
AAAGGGATAGATCCTTTTTAG
Found at i:3974871 original size:16 final size:17
Alignment explanation
Indices: 3974818--3974872 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
3974808 TTCATAGAAG
*
3974818 AATAAATTGAATTTTCAAA
1 AATAAATTGAATCTT--AA
3974837 AATAAATTGAATCTT-A
1 AATAAATTGAATCTTAA
3974853 AATAAATTGAA-CTTAA
1 AATAAATTGAATCTTAA
3974869 AATA
1 AATA
3974873 GATAGAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 3 0.09
16 17 0.50
19 14 0.41
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (17 bp):
AATAAATTGAATCTTAA
Found at i:3975197 original size:1 final size:1
Alignment explanation
Indices: 3975193--3975241 Score: 62
Period size: 1 Copynumber: 49.0 Consensus size: 1
3975183 TTGACCCCCC
* * * *
3975193 TTTTTTTTTTCTTTTTCTTCTTTTTTTTTTTTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3975242 CTTCTCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:3975220 original size:24 final size:23
Alignment explanation
Indices: 3975193--3975241 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
3975183 TTGACCCCCC
3975193 TTTTTTTTTTCTTTTTCTTCTTTT
1 TTTTTTTTTTCTTTTTCTT-TTTT
*
3975217 TTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTCTTTTTCTTTTTT
3975240 TT
1 TT
3975242 CTTCTCTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (23 bp):
TTTTTTTTTTCTTTTTCTTTTTT
Found at i:3981266 original size:9 final size:9
Alignment explanation
Indices: 3981249--3981306 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
3981239 GAAGAGAAGA
3981249 AAAAGAAAAG
1 AAAA-AAAAG
3981259 AAAAAAAAG
1 AAAAAAAAG
*
3981268 -AAAGAAA-
1 AAAAAAAAG
*
3981275 AAAAGAAAG
1 AAAAAAAAG
3981284 AAAAAAAAG
1 AAAAAAAAG
*
3981293 AAGAAAAAG
1 AAAAAAAAG
3981302 AAAAA
1 AAAAA
3981307 GAAATAAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 13 0.31
9 25 0.60
10 4 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:3981273 original size:24 final size:24
Alignment explanation
Indices: 3981240--3981310 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 24
3981230 ATTATGCTTG
3981240 AAGAGAAGAAAAAGAAAAGAAAAAA
1 AAGA-AAGAAAAAGAAAAGAAAAAA
*
3981265 AAGAAAGAAAAAAAGAAAGAAAAAA
1 AAGAAAGAAAAAGA-AAAGAAAAAA
3981290 AAG-AAGAAAAAGAAAAAGAAA
1 AAGAAAGAAAAAG-AAAAGAAA
3981311 TAAAGGGGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 24 0.57
25 18 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAAAAGAAAAGAAAAAA
Found at i:3981275 original size:12 final size:12
Alignment explanation
Indices: 3981243--3981315 Score: 78
Period size: 12 Copynumber: 5.8 Consensus size: 12
3981233 ATGCTTGAAG
3981243 AGAAGAAAAAGAAA
1 AGAA-AAAAAG-AA
3981257 AGAAAAAAAAGAA
1 AG-AAAAAAAGAA
3981270 AGAAAAAAAGAA
1 AGAAAAAAAGAA
3981282 AGAAAAAAA-AGA
1 AGAAAAAAAGA-A
3981294 AGAAAAAGAA-AA
1 AGAAAAA-AAGAA
*
3981306 AGAAATAAAG
1 AGAAAAAAAG
3981316 GGGGGTCAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
11 3 0.06
12 34 0.63
13 7 0.13
14 8 0.15
15 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:3981658 original size:15 final size:16
Alignment explanation
Indices: 3981638--3981671 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3981628 TTCTATCTAT
3981638 TTTAAG-TTCAATTTA
1 TTTAAGATTCAATTTA
3981653 TTTAAGATTCAATTTA
1 TTTAAGATTCAATTTA
3981669 TTT
1 TTT
3981672 TTGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGATTCAATTTA
Found at i:3984142 original size:3 final size:3
Alignment explanation
Indices: 3984113--3984174 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
3984103 TTGGGTTTTT
* * * * * *
3984113 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TTA TTA TTA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
3984160 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
3984175 ATTTTAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (3 bp):
TAA
Found at i:3984530 original size:121 final size:122
Alignment explanation
Indices: 3984382--3984605 Score: 310
Period size: 121 Copynumber: 1.8 Consensus size: 122
3984372 GACCTATTTC
* * * * * *
3984382 CTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGTTCTTCTTATTTTGAACTTATTTCTT-T-T
1 CTTCTGTGATAGAATCATTCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTT-CTTCTTCTCT
* * *
3984445 TCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
65 TCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
*
3984503 CTTCTGTGATAGAATTATGT-AAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTC
1 CTTCTGTGATAGAATCAT-TCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTT-CTC
3984567 TTCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAA
64 TTCAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAA
3984606 TGTTGATCTA
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
120 5 0.06
121 46 0.52
122 2 0.02
123 36 0.40
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (122 bp):
CTTCTGTGATAGAATCATTCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCTCTT
CAAATAAGTTCTTCTTATTACGAACTTTCTCTGGAAAGGTTTATGCTAATCTATCTG
Found at i:3984845 original size:116 final size:113
Alignment explanation
Indices: 3984523--3985007 Score: 555
Period size: 113 Copynumber: 4.3 Consensus size: 113
3984513 AGAATTATGT
** * * * *
3984523 AAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAAATAAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
3984587 TACGAACTTTCTCTGGAAATGTTGATCTATCAAGTGATGAATTTGAAC
66 TATGAACTTACTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAAC
* * * *
3984635 AAAAGGTTAAACAAGTTCCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCA
1 AAAAGGTTGAACAAATT-CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
3984700 TTATGAACTCGA-ACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
65 TTATGAACT-TACTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAAC
* * * *
3984749 ATAAGGTTGAACAAATTATTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AG--ATGAGTTCTTCT
*** * * **
3984814 CATTATGAACTCTAC-CTGGAAATTTTAATCCATCAAATGATGAATTCAAAC
63 CATTATGAACT-TACTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAAC
* *
3984865 AAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
3984930 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT-AGGC
66 TATGAACTTACTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGA-AC
*
3984978 AAAAGGTTGACCAAATTCTTCTCATTATGA
1 AAAAGGTTGAACAAATTCTTCTCATTATGA
3985008 TGACGAGTTA
Statistics
Matches: 312, Mismatches: 52, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
112 18 0.06
113 126 0.40
114 72 0.23
115 2 0.01
116 94 0.30
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTACTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAAC
Found at i:3985666 original size:83 final size:83
Alignment explanation
Indices: 3985527--3985837 Score: 469
Period size: 83 Copynumber: 3.6 Consensus size: 83
3985517 AACAAATGCC
3985527 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGTCAATC
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGTCAATC
3985592 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
* *
3985610 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGTCAATC
3985675 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
*
3985693 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T---A-A-A
* * *
3985758 GAACCAGTTATTGAATTTGGAAGAGGA
59 G--TCAATCATTGAATTTGGAAGAGGA
* *
3985785 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTTGGTTTG
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
3985838 ATATAAAACC
Statistics
Matches: 210, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
83 135 0.64
85 1 0.00
88 1 0.00
89 1 0.00
90 1 0.00
92 71 0.34
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (83 bp):
ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGTCAATC
ATTGAATTTGGAAGAGGA
Found at i:3985822 original size:175 final size:166
Alignment explanation
Indices: 3985527--3985837 Score: 478
Period size: 175 Copynumber: 1.8 Consensus size: 166
3985517 AACAAATGCC
*
3985527 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGTCAATC
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGCCAATC
*
3985592 ATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
3985657 GGTTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
131 GGTTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
*
3985693 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T---A-A-A
* *
3985758 GAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
59 G--CCAATCATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* *
3985823 CTCTGATTTGGTTTG
122 ATCTGATCTGGTTTG
3985838 ATATAAAACC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
166 53 0.41
168 1 0.01
171 1 0.01
172 1 0.01
173 2 0.02
175 71 0.55
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (166 bp):
ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAGCCAATC
ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGTAAAATCAATCATTGAATTTGGAAGAGGA
Found at i:3986281 original size:52 final size:52
Alignment explanation
Indices: 3986214--3986318 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
3986204 TATCGATATC
*
3986214 TGTGGAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
3986266 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
3986318 T
1 T
3986319 TAACATGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (52 bp):
TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
Found at i:3986867 original size:95 final size:95
Alignment explanation
Indices: 3986698--3986883 Score: 239
Period size: 95 Copynumber: 2.0 Consensus size: 95
3986688 AAGAATAAGT
* * * * * * * * *
3986698 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATTATTTGATGGATTAACATTGCTA
1 TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCAACATTGCAA
*
3986763 GGTAGAGTTCATAATGAGAAGAACTCGTCA
66 GGTAAAGTTCATAATGAGAAGAACTCGTCA
* * *
3986793 TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCATCTTTTCAA
1 TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCAACATTGCAA
3986858 GAG-AAAGTTCATAATGAGAAGAACTC
66 G-GTAAAGTTCATAATGAGAAGAACTC
3986884 ATCTGAAGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 76 0.99
96 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (95 bp):
TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCAACATTGCAA
GGTAAAGTTCATAATGAGAAGAACTCGTCA
Found at i:3986991 original size:113 final size:113
Alignment explanation
Indices: 3986793--3987401 Score: 585
Period size: 113 Copynumber: 5.3 Consensus size: 113
3986783 GAACTCGTCA
* * * * * *
3986793 TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCATCTTTTCAA
1 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCA
3986858 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
66 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * ** * * * *
3986906 TCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATTTGATGGATTAAAATTTCCA
1 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCA
* * *
3986971 G-GTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
66 GAG-AAAGTTCATAATGAGAAGAACTCA-T-C-TGAAGAAGGAAGAAGAAGT
* * * *
3987022 TCATAATGAGAATAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
1 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCA
**** * *
3987087 GTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGT
66 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * *
3987135 TCATAATGAGAAGAACTTGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCA
1 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCA
* * * *
3987200 GAGAAAGTTCGTAATAAGAAGAACTTATTTGAAG-AGGAAGAAGAAGT
66 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* ** * * * *
3987247 TCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGCAGATAGATTAGCA
1 TCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAA----ATC-C---ATCA-CTTGA-T-GGA
* * * * * *
3987311 TAAACCTTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGT
54 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * *
3987371 TCAAAATAAGAAGAACTTATTCAACCTTTTG
1 TCATAATGAGAAGAATTTGTTCAACCTTTTG
3987402 AATGACTCTA
Statistics
Matches: 406, Mismatches: 72, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
112 43 0.11
113 176 0.43
114 2 0.00
115 2 0.00
116 95 0.23
117 1 0.00
120 3 0.01
121 3 0.01
122 1 0.00
123 41 0.10
124 39 0.10
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (113 bp):
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCA
GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
Found at i:3987199 original size:229 final size:225
Alignment explanation
Indices: 3986793--3987401 Score: 673
Period size: 229 Copynumber: 2.6 Consensus size: 225
3986783 GAACTCGTCA
* * * *
3986793 TCATAATGAGAAGAATTTGGTCAACCTTTTGCTTAAATCCATCACTTGATAGATCATCTTTTCAA
1 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATAGATCAGCTTTTCAA
* *
3986858 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
66 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
** * * * *
3986923 TGTTTAACCTTTTGTTTGAATTCATCATTTGATGGATTAAAATTTCCAG-GTAGAGTTCATAATG
131 TGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAGAG-AAAGTTCATAATA
3986987 AGAAGAACTCATTACTTGAAGGAGGAAGAAGAAAT
195 AGAAGAA--C-TTACTTGAA-GAGGAAGAAGAAAT
* * *
3987022 TCATAATGAGAATAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
1 TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATAGATCAGCTTTTCAA
**** *
3987087 GTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
66 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
* *
3987152 TGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCGTAATAA
131 TGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAGAGAAAGTTCATAATAA
* *
3987217 GAAGAACTTATTTGAAGAGGAAGAAGAAGT
196 GAAGAACTTACTTGAAGAGGAAGAAGAAAT
* ** * * * ** *
3987247 TCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT-AATTCTATCACAGAAGCAGATAGATTAGCA
1 TCATAATGAGAAGAATTTGTTCAACCTTATGC-TCAAATCCATCAC-----TTGATAGATCAGC-
* * * * * *
3987311 TAAACCTTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAA
59 T-----TTTCAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATA
* * *
3987376 ATAAGAAGAACTTATTCAACCTTTTG
119 ATGAGAAGAACTTGTTTAACCTTTTG
3987402 AATGACTCTA
Statistics
Matches: 318, Mismatches: 49, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
225 49 0.15
226 9 0.03
227 1 0.00
229 177 0.56
230 10 0.03
231 1 0.00
236 71 0.22
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (225 bp):
TCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATAGATCAGCTTTTCAA
GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
TGTTTAACCTTTTGTTCAAATTCATCACTTGATGGATCAAAATTTCCAGAGAAAGTTCATAATAA
GAAGAACTTACTTGAAGAGGAAGAAGAAAT
Found at i:3987346 original size:123 final size:124
Alignment explanation
Indices: 3987194--3987420 Score: 330
Period size: 124 Copynumber: 1.8 Consensus size: 124
3987184 TGGATCAACA
* * * * * * *
3987194 TTTCCAGAGAAAGTTCGTAATAAGAAGAACTTATTTG-AAGAGGAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
* * * *
3987258 AGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAGATAGATTAGCATAAACC
*
3987317 TTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
*
3987382 AGAACTTATTCAACCTTTTGAATGACTCTATCACAGAAG
66 AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAG
3987421 GAAATAGGTC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 33 0.37
124 57 0.63
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCAAAATAAGA
AGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAGATAGATTAGCATAAACC
Found at i:3987636 original size:3 final size:3
Alignment explanation
Indices: 3987628--3987678 Score: 66
Period size: 3 Copynumber: 16.0 Consensus size: 3
3987618 ATTTTAAAAT
*
3987628 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TATA TTA TTTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA -TTA TTA TTA
3987676 TTA
1 TTA
3987679 AAAAACCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 34 0.77
4 10 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3994241 original size:21 final size:21
Alignment explanation
Indices: 3994215--3994257 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3994205 TGGAACAATA
*
3994215 CCTCATTCGTCTATAAGAATG
1 CCTCATTCGTCCATAAGAATG
3994236 CCTCATTCGTCCATAAGAATG
1 CCTCATTCGTCCATAAGAATG
3994257 C
1 C
3994258 GAGGATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (21 bp):
CCTCATTCGTCCATAAGAATG
Found at i:3996768 original size:16 final size:16
Alignment explanation
Indices: 3996743--3996773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3996733 ATAAATAGTG
*
3996743 AAAATGAAATAAAAAT
1 AAAATAAAATAAAAAT
3996759 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
3996774 GAGGGTGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:3999623 original size:63 final size:63
Alignment explanation
Indices: 3999524--3999649 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
3999514 AGACTTTGTT
3999524 CAAGGGGCGGGTCTCATGGAGCTCCCCTTAACTGAACTTTCATACACTTGGTCAAACAACCAC
1 CAAGGGGCGGGTCTCATGGAGCTCCCCTTAACTGAACTTTCATACACTTGGTCAAACAACCAC
3999587 CAAGGGGCGGGTCTCATGGAGCTCCCCTTAACTGAACTTTCATACACTTGGTCAAACAACCAC
1 CAAGGGGCGGGTCTCATGGAGCTCCCCTTAACTGAACTTTCATACACTTGGTCAAACAACCAC
3999650 AATCCTTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (63 bp):
CAAGGGGCGGGTCTCATGGAGCTCCCCTTAACTGAACTTTCATACACTTGGTCAAACAACCAC
Found at i:4012421 original size:21 final size:19
Alignment explanation
Indices: 4012394--4012469 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
4012384 CTATATACAT
4012394 AATATTTATTAATTATATA
1 AATATTTATTAATTATATA
4012413 ACCATATTTA-TAATT-TATA
1 A--ATATTTATTAATTATATA
* * * *
4012432 ATTATCTACT-A-TATACA
1 AATATTTATTAATTATATA
4012449 TAATATTTATTAATTATATA
1 -AATATTTATTAATTATATA
4012469 A
1 A
4012470 CCATATTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
16 1 0.02
17 9 0.21
18 8 0.19
19 8 0.19
20 10 0.23
21 7 0.16
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTTATTAATTATATA
Found at i:4012431 original size:56 final size:56
Alignment explanation
Indices: 4012369--4012485 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
4012359 AAATAGTGTT
4012369 ATTTATAATTATATACTATATACATAATATTTATTAATTATATAACCATATTT-ATA
1 ATTTATAATTATATACTATATACATAATATTTATTAATTATATAACCATATTTGA-A
*
4012425 ATTTATAATTATCTACTATATACATAATATTTATTAATTATATAACCATATTTGAA
1 ATTTATAATTATATACTATATACATAATATTTATTAATTATATAACCATATTTGAA
4012481 ATTTA
1 ATTTA
4012486 ACATAACTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 58 0.98
57 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.48
Consensus pattern (56 bp):
ATTTATAATTATATACTATATACATAATATTTATTAATTATATAACCATATTTGAA
Found at i:4013851 original size:29 final size:27
Alignment explanation
Indices: 4013731--4013997 Score: 168
Period size: 29 Copynumber: 9.4 Consensus size: 27
4013721 GTTATGGTTG
* *
4013731 TATTTTGTAAATATTGTTAAAAAA-TGT
1 TATTTTGTAATTATT-TTAAAAAAGTGA
** * *
4013758 TAGTTTCATAAATATTGTTAAAAAAATGA
1 TA-TTTTGTAATTATT-TTAAAAAAGTGA
* * * *
4013787 TAGTTTCGTAAATATTGTT-AAGAAGATGT
1 TA-TTTTGTAATTATT-TTAAAAAAG-TGA
*
4013816 TAGTTTTGTAAATATTTTGAGAAAAAGTGA
1 TA-TTTTGTAATTATTTT-A-AAAAAGTGA
4013846 TATTTTGGTAATTA-TTTAGAAAAAGTGA
1 TATTTT-GTAATTATTTTA-AAAAAGTGA
* *
4013874 TATTATGGTAATTATTTTGAAAAAAATGA
1 TATT-TTGTAATTATTTT-AAAAAAGTGA
*
4013903 TATTTTGGTAATTA-TTTAGAAAAGTGA
1 TATTTT-GTAATTATTTTAAAAAAGTGA
*
4013930 TATTTTGCTAATTATTTCGAAAAAAGGTGA
1 TATTTTG-TAATTATTT-TAAAAAA-GTGA
* *
4013960 TATTTTGGTAATTA--TTAAAAAAATGT
1 TATTTT-GTAATTATTTTAAAAAAGTGA
4013986 TATTTTCGTAAT
1 TATTTT-GTAAT
4013998 AGTTGAATGT
Statistics
Matches: 202, Mismatches: 22, Indels: 33
0.79 0.09 0.13
Matches are distributed among these distances:
26 14 0.07
27 28 0.14
28 55 0.27
29 72 0.36
30 27 0.13
31 6 0.03
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (27 bp):
TATTTTGTAATTATTTTAAAAAAGTGA
Found at i:4013867 original size:28 final size:28
Alignment explanation
Indices: 4013835--4013997 Score: 206
Period size: 29 Copynumber: 5.8 Consensus size: 28
4013825 AAATATTTTG
4013835 AGAAAAAGTGATATTTTGGTAATTATTT
1 AGAAAAAGTGATATTTTGGTAATTATTT
*
4013863 AGAAAAAGTGATATTATGGTAATTATTT
1 AGAAAAAGTGATATTTTGGTAATTATTT
* *
4013891 TGAAAAAAATGATATTTTGGTAATTATTT
1 AG-AAAAAGTGATATTTTGGTAATTATTT
*
4013920 AG-AAAAGTGATATTTTGCTAATTATTT
1 AGAAAAAGTGATATTTTGGTAATTATTT
*
4013947 CGAAAAAAGGTGATATTTTGGTAATTA-TT
1 AG-AAAAA-GTGATATTTTGGTAATTATTT
* * *
4013976 A-AAAAAATGTTATTTTCGTAAT
1 AGAAAAAGTGATATTTTGGTAAT
4013998 AGTTGAATGT
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.11
27 29 0.25
28 28 0.24
29 31 0.26
30 17 0.14
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (28 bp):
AGAAAAAGTGATATTTTGGTAATTATTT
Found at i:4013917 original size:57 final size:56
Alignment explanation
Indices: 4013823--4013975 Score: 234
Period size: 57 Copynumber: 2.7 Consensus size: 56
4013813 TGTTAGTTTT
*
4013823 GTAAATATTTTGAGAAAAAGTGATATTTTGGTAATTATTTAGAAAAAGTGATATTATG
1 GTAATTATTTTGA-AAAAAGTGATATTTTGGTAATTATTTAG-AAAAGTGATATTATG
* *
4013881 GTAATTATTTTGAAAAAAATGATATTTTGGTAATTATTTAGAAAAGTGATATTTTG
1 GTAATTATTTTGAAAAAAGTGATATTTTGGTAATTATTTAGAAAAGTGATATTATG
* *
4013937 CTAATTATTTCGAAAAAAGGTGATATTTTGGTAATTATT
1 GTAATTATTTTGAAAAAA-GTGATATTTTGGTAATTATT
4013976 AAAAAAATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
56 30 0.34
57 46 0.52
58 12 0.14
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (56 bp):
GTAATTATTTTGAAAAAAGTGATATTTTGGTAATTATTTAGAAAAGTGATATTATG
Found at i:4013990 original size:56 final size:55
Alignment explanation
Indices: 4013819--4013997 Score: 225
Period size: 56 Copynumber: 3.2 Consensus size: 55
4013809 AAGATGTTAG
* *
4013819 TTTTGTAAATATTTTGAGAAAAAGTGATATTTTGGTAATTATTTAGAAAAAGTGATA
1 TTTTGTAATTATTTTGA-AAAAAGTGATATTTTGGTAATTATTTA-AAAAAATGATA
* * * *
4013876 TTATGGTAATTATTTTGAAAAAAATGATATTTTGGTAATTATTTAGAAAAGTGATA
1 TT-TTGTAATTATTTTGAAAAAAGTGATATTTTGGTAATTATTTAAAAAAATGATA
* *
4013932 TTTTGCTAATTATTTCGAAAAAAGGTGATATTTTGGTAATTA-TTAAAAAAATGTTA
1 TTTTG-TAATTATTTTGAAAAAA-GTGATATTTTGGTAATTATTTAAAAAAATGATA
4013988 TTTTCGTAAT
1 TTTT-GTAAT
4013998 AGTTGAATGT
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
55 2 0.02
56 47 0.44
57 46 0.43
58 13 0.12
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (55 bp):
TTTTGTAATTATTTTGAAAAAAGTGATATTTTGGTAATTATTTAAAAAAATGATA
Found at i:4016816 original size:29 final size:29
Alignment explanation
Indices: 4016774--4016868 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
4016764 GTGGTATTTT
4016774 GTAAATATTGTTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
*
4016803 GTAAATATTGTT-AAAAAATGATAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
* * * *
4016831 GTAAGTATTGTTAAGAAGATGTTAGTTTT
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
4016860 GTAAATATT
1 GTAAATATT
4016869 TTGAGAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 26 0.45
29 32 0.55
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (29 bp):
GTAAATATTGTTAAAAAAATGTTAGTTTC
Found at i:4016912 original size:28 final size:27
Alignment explanation
Indices: 4016875--4017067 Score: 260
Period size: 28 Copynumber: 6.9 Consensus size: 27
4016865 TATTTTGAGA
4016875 AAAAGTGATATTTTGGTAATTATTTCG
1 AAAAGTGATATTTTGGTAATTATTTCG
* *
4016902 AATAACTGATATTTTGGTAATTAATTCG
1 AA-AAGTGATATTTTGGTAATTATTTCG
*
4016930 AAAAAGTGATATTTTAGTAATTATTTCG
1 -AAAAGTGATATTTTGGTAATTATTTCG
*
4016958 AAAAGGTGATATTTTGGTAATTATTTTG
1 AAAA-GTGATATTTTGGTAATTATTTCG
* *
4016986 AAAACGCGATATTTTGGTAATTATTTTG
1 AAAA-GTGATATTTTGGTAATTATTTCG
4017014 AAAAGTGATATTTTGGTAATTATTTCG
1 AAAAGTGATATTTTGGTAATTATTTCG
*
4017041 AAAAAAGGTGATATTTTCGTAATTATT
1 --AAAA-GTGATATTTTGGTAATTATT
4017068 AGAAAAATGT
Statistics
Matches: 148, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
27 27 0.18
28 96 0.65
29 6 0.04
30 19 0.13
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (27 bp):
AAAAGTGATATTTTGGTAATTATTTCG
Found at i:4021237 original size:28 final size:27
Alignment explanation
Indices: 4021178--4021389 Score: 173
Period size: 28 Copynumber: 7.6 Consensus size: 27
4021168 GTTATGGTGG
*
4021178 TATTTT-GTAAATATTGTTAAAAAATTGT
1 TATTTTGGTAAATATT-TTAAAAAA-TGA
* *
4021206 TAGTTTCGTAAATATTGTTAAAAAATGA
1 TATTTTGGTAAATATT-TTAAAAAATGA
* *
4021234 TAGTTTT-GTAAATATTGTT--AAGATGT
1 TA-TTTTGGTAAATATT-TTAAAAAATGA
4021260 TAGTTTT-GTAAATATTTTGAGAAAAAGTGA
1 TA-TTTTGGTAAATATTTT-A-AAAAA-TGA
* *
4021290 TATTTTGGTAATTATTTCAAAAAAGTGA
1 TATTTTGGTAAATATTTTAAAAAA-TGA
* *
4021318 TATTTTGGTAATTATTTCAAAAAAATGA
1 TATTTTGGTAAATATTT-TAAAAAATGA
* * *
4021346 TATTTTGGTAATTATTTTGAAAAGTGA
1 TATTTTGGTAAATATTTTAAAAAATGA
*
4021373 TATTTTGGTAATTATTT
1 TATTTTGGTAAATATTT
4021390 CAAAGAGAGG
Statistics
Matches: 162, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 24 0.15
28 67 0.41
29 35 0.22
30 13 0.08
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.46
Consensus pattern (27 bp):
TATTTTGGTAAATATTTTAAAAAATGA
Found at i:4021270 original size:26 final size:27
Alignment explanation
Indices: 4021180--4021275 Score: 131
Period size: 26 Copynumber: 3.5 Consensus size: 27
4021170 TATGGTGGTA
4021180 TTTTGTAAATATTGTTAAAAAATTGTTAG
1 TTTTGTAAATATTGTT-AAAAA-TGTTAG
* *
4021209 TTTCGTAAATATTGTTAAAAAATGATAG
1 TTTTGTAAATATTGTT-AAAAATGTTAG
*
4021237 TTTTGTAAATATTGTT-AAGATGTTAG
1 TTTTGTAAATATTGTTAAAAATGTTAG
4021263 TTTTGTAAATATT
1 TTTTGTAAATATT
4021276 TTGAGAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (27 bp):
TTTTGTAAATATTGTTAAAAATGTTAG
Found at i:4021312 original size:27 final size:27
Alignment explanation
Indices: 4021281--4021439 Score: 187
Period size: 28 Copynumber: 5.8 Consensus size: 27
4021271 ATATTTTGAG
4021281 AAAAAGTGATATTTTGGTAATTATTTC
1 AAAAAGTGATATTTTGGTAATTATTTC
4021308 AAAAAAGTGATATTTTGGTAATTATTTC
1 -AAAAAGTGATATTTTGGTAATTATTTC
* *
4021336 AAAAAAATGATATTTTGGTAATTATTTT
1 -AAAAAGTGATATTTTGGTAATTATTTC
*
4021364 GAAAAGTGATATTTTGGTAATTATTTC
1 AAAAAGTGATATTTTGGTAATTATTTC
* *
4021391 AAAGAGAGGTAATATTTTCGTAATTA-TT-
1 AAA-A-A-GTGATATTTTGGTAATTATTTC
* * *
4021419 AAAAAATGTTATTTTCGTAAT
1 AAAAAGTGATATTTTGGTAAT
4021440 AGTTGAATCT
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
25 13 0.11
26 1 0.01
27 27 0.23
28 57 0.49
29 3 0.03
30 16 0.14
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (27 bp):
AAAAAGTGATATTTTGGTAATTATTTC
Found at i:4021324 original size:83 final size:82
Alignment explanation
Indices: 4021178--4021393 Score: 210
Period size: 83 Copynumber: 2.6 Consensus size: 82
4021168 GTTATGGTGG
* * * * * *
4021178 TATTTTGTAAATATTGTTA-AAAAATTGTTAGTTTCGTAAATATTGTTAAAAAATGATAGTTTT-
1 TATTTTGTAAATATT-TTAGAAAAAGTGATATTTTGGTAATTATT-TCAAAAAATGATAGTTTTG
* * *
4021241 GTAAATATTGT-TAAGATGT
64 GTAAATATT-TAAAAAATGA
4021260 TAGTTTTGTAAATATTTTGAGAAAAAGTGATATTTTGGTAATTATTTCAAAAAAGTGATA-TTTT
1 TA-TTTTGTAAATATTTT-AGAAAAAGTGATATTTTGGTAATTATTTCAAAAAA-TGATAGTTTT
*
4021324 GGTAATTATTTCAAAAAAATGA
63 GGTAAATATTT--AAAAAATGA
*
4021346 TATTTTGGTAATTATTTT-G-AAAAGTGATATTTTGGTAATTATTTCAAA
1 TATTTT-GTAAATATTTTAGAAAAAGTGATATTTTGGTAATTATTTCAAA
4021394 GAGAGGTAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
82 4 0.04
83 55 0.48
84 34 0.30
85 4 0.04
86 17 0.15
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (82 bp):
TATTTTGTAAATATTTTAGAAAAAGTGATATTTTGGTAATTATTTCAAAAAATGATAGTTTTGGT
AAATATTTAAAAAATGA
Found at i:4021340 original size:55 final size:55
Alignment explanation
Indices: 4021281--4021439 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 55
4021271 ATATTTTGAG
4021281 AAAAAGTGATATTTTGGTAATTATTTCAAAAAAGTGATATTTTGGTAATTATTTCA
1 AAAAAGTGATATTTTGGTAATTATTT-AAAAAAGTGATATTTTGGTAATTATTTCA
* **
4021337 AAAAAATGATATTTTGGTAATTATTTTGAAAAGTGATATTTTGGTAATTATTTCA
1 AAAAAGTGATATTTTGGTAATTATTTAAAAAAGTGATATTTTGGTAATTATTTCA
* * * * *
4021392 AAGAGAGGTAATATTTTCGTAATTA-TTAAAAAA-TGTTATTTTCGTAAT
1 AA-A-AAGTGATATTTTGGTAATTATTTAAAAAAGTGATATTTTGGTAAT
4021440 AGTTGAATCT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
55 42 0.47
56 32 0.36
57 16 0.18
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (55 bp):
AAAAAGTGATATTTTGGTAATTATTTAAAAAAGTGATATTTTGGTAATTATTTCA
Found at i:4021423 original size:83 final size:82
Alignment explanation
Indices: 4021282--4021439 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 82
4021272 TATTTTGAGA
* *
4021282 AAAAGTGATATTTTGGTAATTATTTCAAAAAAGTGATATTTTGGTAATTATTTCAAAAAAATGAT
1 AAAAGTGATATTTTGGTAATTATTTCAAAAAAGTAATATTTTCGTAATTATTTC-AAAAAATGAT
*
4021347 ATTTTGGTAATTATTTTG
65 ATTTTCGTAATTATTTTG
* *
4021365 AAAAGTGATATTTTGGTAATTATTTCAAAGAGAGGTAATATTTTCGTAATTA-TT-AAAAAATGT
1 AAAAGTGATATTTTGGTAATTATTTCAAA-A-AAGTAATATTTTCGTAATTATTTCAAAAAATGA
4021428 TATTTTCGTAAT
64 TATTTTCGTAAT
4021440 AGTTGAATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
82 19 0.28
83 29 0.43
84 3 0.04
85 17 0.25
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.44
Consensus pattern (82 bp):
AAAAGTGATATTTTGGTAATTATTTCAAAAAAGTAATATTTTCGTAATTATTTCAAAAAATGATA
TTTTCGTAATTATTTTG
Found at i:4024240 original size:7 final size:7
Alignment explanation
Indices: 4024240--4024288 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
4024230 TTTTCTCTTT
4024240 TTTTCTA
1 TTTTCTA
4024247 TTTTC--
1 TTTTCTA
4024252 TTTTCTA
1 TTTTCTA
4024259 TTTTCTA
1 TTTTCTA
4024266 TTTTCTA
1 TTTTCTA
*
4024273 TTTTAT-
1 TTTTCTA
4024279 TTTTCT-
1 TTTTCTA
4024285 TTTT
1 TTTT
4024289 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
5 5 0.13
6 9 0.24
7 24 0.63
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTA
Found at i:4024240 original size:10 final size:10
Alignment explanation
Indices: 4024225--4024319 Score: 53
Period size: 10 Copynumber: 9.7 Consensus size: 10
4024215 CCTTTTATTT
4024225 TATTTTTTTC
1 TATTTTTTTC
*
4024235 TCTTTTTTTC
1 TATTTTTTTC
4024245 TATTTTCTTTTC
1 TA-TTT-TTTTC
4024257 TA---TTTTC
1 TATTTTTTTC
*
4024264 TATTTTCTATTT
1 TATTTT-T-TTC
4024276 TATTTTTCTT-
1 TATTTTT-TTC
4024286 T-TTATTTTT-
1 TATT-TTTTTC
*
4024295 T-TTTTTTTT
1 TATTTTTTTC
4024304 TATTTTTTTC
1 TATTTTTTTC
4024314 T-TTTTT
1 TATTTTT
4024320 CTTAAAGTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.10
8 5 0.07
9 13 0.19
10 23 0.33
11 7 0.10
12 15 0.21
ACGTcount: A:0.08, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TATTTTTTTC
Found at i:4024242 original size:12 final size:12
Alignment explanation
Indices: 4024237--4024312 Score: 79
Period size: 12 Copynumber: 6.4 Consensus size: 12
4024227 TTTTTTTCTC
4024237 TTTTTTTCTATT
1 TTTTTTTCTATT
*
4024249 TTCTTTTCTATT
1 TTTTTTTCTATT
4024261 TTCTATTTTCTATT
1 TT-T-TTTTCTATT
4024275 TTATTTTTCT-TT
1 TT-TTTTTCTATT
*
4024287 TTATTTT-T-TT
1 TTTTTTTCTATT
4024297 TTTTTTT-TATT
1 TTTTTTTCTATT
4024308 TTTTT
1 TTTTT
4024313 CTTTTTTCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
10 10 0.18
11 11 0.20
12 17 0.30
13 6 0.11
14 12 0.21
ACGTcount: A:0.09, C:0.08, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTATT
Found at i:4024262 original size:19 final size:19
Alignment explanation
Indices: 4024240--4024321 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
4024230 TTTTCTCTTT
4024240 TTTTCTATTTTCT-TTTCTA
1 TTTTCTATTTTCTATTT-TA
4024259 TTTTCTATTTTCTATTTTA
1 TTTTCTATTTTCTATTTTA
*
4024278 TTTT-TCTTTT-TATTTT-
1 TTTTCTATTTTCTATTTTA
*
4024294 TTTT-T-TTTTTTA-TTT-
1 TTTTCTATTTTCTATTTTA
*
4024309 TTTTCTTTTTTCT
1 TTTTCTATTTTCT
4024322 TAAAGTATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.19
16 8 0.14
17 11 0.19
18 5 0.09
19 19 0.33
20 3 0.05
ACGTcount: A:0.09, C:0.10, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTATTTTCTATTTTA
Found at i:4024317 original size:7 final size:7
Alignment explanation
Indices: 4024238--4024322 Score: 59
Period size: 7 Copynumber: 12.3 Consensus size: 7
4024228 TTTTTTCTCT
4024238 TTTTTTC
1 TTTTTTC
*
4024245 TATTTTC
1 TTTTTTC
4024252 --TTTTC
1 TTTTTTC
*
4024257 TATTTTC
1 TTTTTTC
*
4024264 TATTTTC
1 TTTTTTC
*
4024271 TATTTT-
1 TTTTTTC
*
4024277 ATTTTTC
1 TTTTTTC
*
4024284 TTTTTATT
1 TTTTT-TC
*
4024292 TTTTTTT
1 TTTTTTC
*
4024299 TTTTTTAT
1 TTTTTT-C
4024307 TTTTTTC
1 TTTTTTC
4024314 TTTTTTC
1 TTTTTTC
4024321 TT
1 TT
4024323 AAAGTATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
5 5 0.07
6 4 0.06
7 45 0.67
8 13 0.19
ACGTcount: A:0.08, C:0.09, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:4029730 original size:20 final size:20
Alignment explanation
Indices: 4029681--4029731 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4029671 TTAAAGGTGT
*
4029681 TCTTACTTCATCAATCCTTC
1 TCTTACTTCTTCAATCCTTC
* *
4029701 TTTTACTTCTTCAATCTTTC
1 TCTTACTTCTTCAATCCTTC
*
4029721 TCTTAATTCTT
1 TCTTACTTCTT
4029732 TGACTTTCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (20 bp):
TCTTACTTCTTCAATCCTTC
Found at i:4031070 original size:76 final size:75
Alignment explanation
Indices: 4030909--4031053 Score: 202
Period size: 76 Copynumber: 1.9 Consensus size: 75
4030899 ATTTTAAATA
* * * *
4030909 TTATATTTCATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTGATTAAGTTTTA
1 TTATATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
*
4030974 GGATATAATTT
66 AGATAT-ATTT
* *
4030985 TTATATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTT
1 TTATATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTT
4031049 AAGAT
65 AAGAT
4031054 GTTTTAGCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 5 0.08
76 56 0.92
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (75 bp):
TTATATTTTATCTTTGTTTTAGGTACTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
AGATATATTT
Found at i:4037369 original size:5 final size:5
Alignment explanation
Indices: 4037361--4037448 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
4037351 ATATTTTTGT
****
4037361 TTTTA TTTTCA TTTTA TTTTTCA TTTTA TTTTCA TTTTA TTTTTA CCGAA
1 TTTTA TTTT-A TTTTA -TTTT-A TTTTA TTTT-A TTTTA -TTTTA TTTTA
* * *
4037411 CTTTA TTTCA TTCTA TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4037449 TCTCTGAACA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.06
5 37 0.57
6 23 0.35
7 1 0.02
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:4037369 original size:11 final size:11
Alignment explanation
Indices: 4037361--4037403 Score: 77
Period size: 11 Copynumber: 3.8 Consensus size: 11
4037351 ATATTTTTGT
4037361 TTTTATTTTCA
1 TTTTATTTTCA
4037372 TTTTATTTTTCA
1 TTTTA-TTTTCA
4037384 TTTTATTTTCA
1 TTTTATTTTCA
4037395 TTTTATTTT
1 TTTTATTTT
4037404 TACCGAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:4037379 original size:23 final size:23
Alignment explanation
Indices: 4037352--4037450 Score: 91
Period size: 23 Copynumber: 4.3 Consensus size: 23
4037342 CATTTTGTTA
**
4037352 TATTTTTGTTTTTATTTTCATTT
1 TATTTTTCATTTTATTTTCATTT
4037375 TATTTTTCATTTTATTTTCATTT
1 TATTTTTCATTTTATTTTCATTT
* *
4037398 TATTTTTACCGAACTTTA-TTTCATTC
1 TATTTTT--C--ATTTTATTTTCATTT
4037424 TA-TTTT-A-TTTATTTT-ATTT
1 TATTTTTCATTTTATTTTCATTT
4037443 TATTTTTC
1 TATTTTTC
4037451 TCTGAACAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
19 9 0.14
20 8 0.12
23 28 0.44
25 5 0.08
26 9 0.14
27 5 0.08
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTTTTCATTTTATTTTCATTT
Found at i:4037436 original size:19 final size:19
Alignment explanation
Indices: 4037412--4037448 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4037402 TTTACCGAAC
4037412 TTTATTTCATTCTATTTTA
1 TTTATTTCATTCTATTTTA
* *
4037431 TTTATTTTATTTTATTTT
1 TTTATTTCATTCTATTTT
4037449 TCTCTGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTCATTCTATTTTA
Found at i:4037443 original size:14 final size:15
Alignment explanation
Indices: 4037412--4037447 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4037402 TTTACCGAAC
4037412 TTTATTTCATTCTAT
1 TTTATTTCATTCTAT
*
4037427 TTTATTT-ATTTTAT
1 TTTATTTCATTCTAT
4037441 TTTATTT
1 TTTATTT
4037448 TTCTCTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTCATTCTAT
Found at i:4046526 original size:18 final size:19
Alignment explanation
Indices: 4046505--4046562 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
4046495 TATTAAAACT
4046505 ATATTA-TAAAATTATAAA
1 ATATTACTAAAATTATAAA
*
4046523 ATA-TACTAATATTATAACTA
1 ATATTACTAAAATTATAA--A
*
4046543 ATATTATTAAAA-TATAAA
1 ATATTACTAAAATTATAAA
4046561 AT
1 AT
4046563 GGAAAACATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 16 0.48
20 9 0.27
21 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATTACTAAAATTATAAA
Found at i:4055586 original size:24 final size:24
Alignment explanation
Indices: 4055554--4055602 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4055544 CTTCAGAACA
4055554 ACTTTTATATTGAAACAAAGTTTT
1 ACTTTTATATTGAAACAAAGTTTT
4055578 ACTTTTATATTGAAACAAAGTTTT
1 ACTTTTATATTGAAACAAAGTTTT
4055602 A
1 A
4055603 TTACAAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (24 bp):
ACTTTTATATTGAAACAAAGTTTT
Found at i:4065980 original size:133 final size:132
Alignment explanation
Indices: 4065653--4066430 Score: 859
Period size: 133 Copynumber: 5.8 Consensus size: 132
4065643 TTCACTCCAC
* * * *
4065653 TGTCACTTAGAGAATATTGAATCGGGGTAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCT
1 TGTCACTCAG-GAAGATTGAATC-GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCT
*** ** * * *
4065718 T-GAAAGAGAATGATTTGTTTCGCTTCTTCTGAAGTGAATATCAGATCTTGAGGGAGTTGATCCA
64 TGGAAA-AGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGA-GGAGTTGATCCA
*
4065782 TTC-CT
127 TTCAGT
* *
4065787 CTTTCACTCAAGGAAGATTGAATGGGGACAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATC
1 -TGTCACTC-AGGAAGATTGAATCGGG-CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATC
* * * * * *
4065852 TTAGAAAAGTGGGACATGTTCCGCTTCTTCTAAAGGGAACATTAGATTTGGAAGAGTTGATCCAT
63 TTGGAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAGGAGTTGATCCAT
4065917 TCAGT
128 TCAGT
* * **
4065922 TGTCACTCAGGAAAGATTGAATCGGGCAGACTTGTTCCGGTGTCACTTATTGAATATCAAATCTT
1 TGTCACTCAGG-AAGATTGAATCGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTT
* *
4065987 GGAAAAGTGGGACATGTT---CTTCTTCTGAAGGCAATATCATATCTGG-GGAAGTTGATCCATT
65 GGAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAGG-AGTTGATCCATT
*
4066048 TAGT
129 CAGT
* * **
4066052 TGTCACTCAGGAAAGATTGAATCGGGCAGACTTGTTCCGCCGTCACTTATTGAATATCAAATC-T
1 TGTCACTCAGG-AAGATTGAATCGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTT
* * * *
4066116 AGAAAAGTGGGACATGTTCTGCTTCTTCTGAAGGGAATATCAGATCTGGGGGAGTAGATCCATTC
65 GGAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAGGAGTTGATCCATTC
*
4066181 GGT
130 AGT
* * *
4066184 TGTCACTTTAGGGAAGATTGAATCGGGGCAGACTTGTTCCGTTGTCACTCAGGGAATATCAAGTC
1 TGTCAC-TCA-GGAAGATTGAATC-GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATC
* * * * ** *
4066249 TTGGAAAAGGGGGACATGTTTCGCTTCTTCTAAAGGGAATATCATATCTACAGGAATTGATCCAT
63 TTGGAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAGGAGTTGATCCAT
* *
4066314 TCCGC
128 TCAGT
* * * * *
4066319 TGTCACTCAGTGAAGATTTAATCGGGTAGATTTGTTCCGCTGTCACTAAGGGAATATCAAGTCTT
1 TGTCACTCAG-GAAGATTGAATCGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTT
* ** *
4066384 GGAAAAGAGGGGTATGTTCCGCTTATTCTGAAGGGAATATCAGATCT
65 GGAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCT
4066431 ACAAATTAAA
Statistics
Matches: 552, Mismatches: 76, Indels: 32
0.84 0.12 0.05
Matches are distributed among these distances:
129 19 0.03
130 98 0.18
132 45 0.08
133 149 0.27
134 86 0.16
135 149 0.27
136 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (132 bp):
TGTCACTCAGGAAGATTGAATCGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTG
GAAAAGTGGGACATGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGAGGAGTTGATCCATTCA
GT
Found at i:4069014 original size:65 final size:65
Alignment explanation
Indices: 4068910--4069040 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
4068900 TTTTCACTGG
4068910 CAGCATCCTGCTAGATTCTCCTCCATCCAGCTTCCTACTCCTGATTGCCATCTCGATCATTTCTC
1 CAGCATCCTGCTAGATTCTCCTCCATCCAGCTTCCTACTCCTGATTGCCATCTCGATCATTTCTC
4068975 CAGCATCCTGCTAGATTCTCCTCCATCCAGCTTCCTACTCCTGATTGCCATCTCGATCATTTCTC
1 CAGCATCCTGCTAGATTCTCCTCCATCCAGCTTCCTACTCCTGATTGCCATCTCGATCATTTCTC
4069040 C
1 C
4069041 TACTATGACC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.34
Consensus pattern (65 bp):
CAGCATCCTGCTAGATTCTCCTCCATCCAGCTTCCTACTCCTGATTGCCATCTCGATCATTTCTC
Found at i:4069042 original size:31 final size:31
Alignment explanation
Indices: 4068942--4069044 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
4068932 CCATCCAGCT
4068942 TCCTACTCCTGATTGCCATCTCGATCATTTC
1 TCCTACTCCTGATTGCCATCTCGATCATTTC
* * * * **
4068973 TCC-AGCATCCTGCTAGATTC-TCCTCCATCCAGCT-
1 TCCTA-C-TCCTGATTG--CCAT-CTCGAT-CATTTC
4069007 TCCTACTCCTGATTGCCATCTCGATCATTTC
1 TCCTACTCCTGATTGCCATCTCGATCATTTC
4069038 TCCTACT
1 TCCTACT
4069045 ATGACCGCCT
Statistics
Matches: 51, Mismatches: 12, Indels: 18
0.63 0.15 0.22
Matches are distributed among these distances:
30 4 0.08
31 17 0.33
32 8 0.16
33 8 0.16
34 10 0.20
35 4 0.08
ACGTcount: A:0.17, C:0.38, G:0.10, T:0.36
Consensus pattern (31 bp):
TCCTACTCCTGATTGCCATCTCGATCATTTC
Found at i:4078505 original size:5 final size:6
Alignment explanation
Indices: 4078489--4078571 Score: 58
Period size: 6 Copynumber: 13.0 Consensus size: 6
4078479 GAGGAAACCC
* * * *
4078489 ATTTTT ATTTTT ATTTTT CGTTTGCTCA ATTTTT ATTTTT ATTTTC AATTTT
1 ATTTTT ATTTTT ATTTTT -ATTT--T-T ATTTTT ATTTTT ATTTTT ATTTTT
* * *
4078541 ATTTTT CTGATTT ATTTTT CTTTTT ATTTTT
1 ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT
4078572 CTTTGAATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
6 46 0.79
7 8 0.14
9 4 0.07
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:4078523 original size:22 final size:20
Alignment explanation
Indices: 4078495--4078547 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
4078485 ACCCATTTTT
*
4078495 ATTTTTATTTTTCGTTTGCTCA
1 ATTTTTATTTTTCATTT--TCA
4078517 ATTTTTATTTTT-ATTTTCA
1 ATTTTTATTTTTCATTTTCA
4078536 A-TTTTATTTTTC
1 ATTTTTATTTTTC
4078548 TGATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
21 3 0.10
22 12 0.41
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTTTCATTTTCA
Found at i:4078554 original size:25 final size:25
Alignment explanation
Indices: 4078526--4078573 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4078516 AATTTTTATT
4078526 TTTA-TTTTCAATTTTATTTTTCTGA
1 TTTATTTTTC-ATTTTATTTTTCTGA
*
4078551 TTTATTTTTCTTTTTATTTTTCT
1 TTTATTTTTCATTTTATTTTTCT
4078574 TTGAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTATTTTTCATTTTATTTTTCTGA
Found at i:4078572 original size:12 final size:12
Alignment explanation
Indices: 4078489--4078575 Score: 68
Period size: 12 Copynumber: 6.8 Consensus size: 12
4078479 GAGGAAACCC
*
4078489 ATTTTTATTTTT
1 ATTTTTCTTTTT
*
4078501 ATTTTTCGTTTGCTCA
1 ATTTTTC-TTT--T-T
*
4078517 ATTTTTATTTTT
1 ATTTTTCTTTTT
*
4078529 A-TTTTCAATTTT
1 ATTTTTC-TTTTT
*
4078541 ATTTTTCTGATTT
1 ATTTTTCT-TTTT
4078554 ATTTTTCTTTTT
1 ATTTTTCTTTTT
4078566 ATTTTTCTTT
1 ATTTTTCTTT
4078576 GAATTTTCAG
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
11 4 0.07
12 25 0.42
13 20 0.34
15 4 0.07
16 6 0.10
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTCTTTTT
Found at i:4086668 original size:43 final size:43
Alignment explanation
Indices: 4086606--4086894 Score: 325
Period size: 43 Copynumber: 6.7 Consensus size: 43
4086596 GCTCCTTTAC
* *
4086606 TGTGTGCAAGGGTACGCCTTACAGTTTCCCCATGTTCGTTTGT
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
* *
4086649 TGTGTGCACGAGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
* *
4086692 TGTGTGAAAGGGTAAGCCTTACAGTTTCCCCATGTTTCTTTGT
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
* * *
4086735 TGTGTGCAAGGGTAAGCCTCACAGTTTCCCCAGGTTCCTTTGC
1 TGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
* * * * *
4086778 TGTATGCAAGGGTAAGCCTTACAGTTTTCCCTAGGTTTCTTTGA
1 TGTGTGCAAGGGTAAGCCTTACAG-TTTCCCCATGTTCCTTTGT
* * * * *
4086822 TGTGTGCAATGGTAAGACCTTATAG-CT-CCCAAGCTCCTTTCG-
1 TGTGTGCAAGGGTAAG-CCTTACAGTTTCCCCATGTTCCTTT-GT
*
4086864 TATGTGCAAGGGTAAGACCTTATC-GTTTCCC
1 TGTGTGCAAGGGTAAG-CCTTA-CAGTTTCCC
4086895 ATGCTCTTTT
Statistics
Matches: 210, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
42 30 0.14
43 141 0.67
44 32 0.15
45 7 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (43 bp):
TGTGTGCAAGGGTAAGCCTTACAGTTTCCCCATGTTCCTTTGT
Found at i:4086921 original size:43 final size:42
Alignment explanation
Indices: 4086832--4086921 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
4086822 TGTGTGCAAT
* *
4086832 GGTAAGACCTTATAGCTCCCAAGCTCCTTTCGTATGTGCAAG
1 GGTAAGACCTTATAGCTCCCAAGCTCCTTTCGTATGTACAAA
* * * *
4086874 GGTAAGACCTTATCGTTTCCCATGCTCTTTTTC-TATGTACAAA
1 GGTAAGACCTTATAG-CTCCCAAGCTC-CTTTCGTATGTACAAA
4086917 GGTAA
1 GGTAA
4086922 TTCCTTACCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 14 0.35
43 22 0.55
44 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (42 bp):
GGTAAGACCTTATAGCTCCCAAGCTCCTTTCGTATGTACAAA
Found at i:4088861 original size:11 final size:11
Alignment explanation
Indices: 4088840--4088879 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4088830 TTTTCAATGG
*
4088840 CATTTACCGAC
1 CATTGACCGAC
*
4088851 CGTTGACCGAC
1 CATTGACCGAC
4088862 CATTGACCGAC
1 CATTGACCGAC
*
4088873 CTTTGAC
1 CATTGAC
4088880 TTTTTCCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (11 bp):
CATTGACCGAC
Found at i:4091448 original size:44 final size:43
Alignment explanation
Indices: 4091310--4091462 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
4091300 TACCGTATGA
* * *
4091310 TCCTTTGCTGTGTGCAAGGGTAAGCCATACTGTTTCCCCATGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
**
4091353 TCCTTTATTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
** *
4091396 TCCTTTGCTGTGACCAAGGGTAAGCCTTACAGTTTTCCTCAGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCCCAGGT
* * *
4091440 TTCTTTGCTATGTGCAAAGGTAA
1 TCCTTTGCTGTGTGCAAGGGTAA
4091463 TACCTTACTG
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 66 0.70
44 28 0.30
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (43 bp):
TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
Found at i:4093211 original size:23 final size:21
Alignment explanation
Indices: 4093181--4093222 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4093171 AGGAAGTTAA
4093181 AGTTTCTGACGTTTCAAAATCG
1 AGTTTCTGACG-TTCAAAATCG
*
4093203 AGTTCTCTGCCGTTCAAAAT
1 AGTT-TCTGACGTTCAAAAT
4093223 TGTGAATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (21 bp):
AGTTTCTGACGTTCAAAATCG
Found at i:4093402 original size:11 final size:11
Alignment explanation
Indices: 4093386--4093425 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4093376 TTTTCAATGG
*
4093386 CATTGACCGGC
1 CATTGACCGAC
*
4093397 CATTGACTGAC
1 CATTGACCGAC
4093408 CATTGACCGAC
1 CATTGACCGAC
*
4093419 CGTTGAC
1 CATTGAC
4093426 TTTTTCCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.23
Consensus pattern (11 bp):
CATTGACCGAC
Found at i:4096041 original size:44 final size:43
Alignment explanation
Indices: 4095846--4096041 Score: 248
Period size: 43 Copynumber: 4.5 Consensus size: 43
4095836 TATCGTATGA
* *
4095846 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACTGTTTCCCCAGGT
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
4095889 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
* * *
4095932 TCCTTTGTTGTGTGCAAGGATAAGACTTACAGTTTCCCCTGGT
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
* * ** * *
4095975 TTCTTTGCTGTGACCAAGGGTAAGCCTTACAATTTTCCTCAGGT
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTAC-AGTTTCCCCAGGT
* * * *
4096019 TTCTTTGATATGTGCAAAGGTAA
1 TCCTTTGTTGTGTGCAAGGGTAA
4096042 TACCTTACCG
Statistics
Matches: 133, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 105 0.79
44 28 0.21
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (43 bp):
TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGT
Found at i:4098007 original size:78 final size:79
Alignment explanation
Indices: 4097878--4098034 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 79
4097868 TTTTTTGGAG
4097878 CTCCTAGGCCACCACACCACCCCCACGTGCCGCCCCTGCACGTGGGGAAGGCATGGC-CGTGTGG
1 CTCCTAGGCCACCACACCACCCCCACGTGCCGCCCCTGCACGTGGGGAAGGCATGGCACGTGTGG
4097942 CCAGCTTAAAAAAA
66 CCAGCTTAAAAAAA
4097956 CTCCTAGGCCACCAC-CGCACCCCCACGTGCCGCCCCTGCACGTGGGGAAGGCATGGCACGTGTG
1 CTCCTAGGCCACCACAC-CACCCCCACGTGCCGCCCCTGCACGTGGGGAAGGCATGGCACGTGTG
4098020 GCCAGCTTAAAAAAA
65 GCCAGCTTAAAAAAA
4098035 TCAATTTGAC
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
77 1 0.01
78 55 0.71
79 21 0.27
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13
Consensus pattern (79 bp):
CTCCTAGGCCACCACACCACCCCCACGTGCCGCCCCTGCACGTGGGGAAGGCATGGCACGTGTGG
CCAGCTTAAAAAAA
Found at i:4100031 original size:58 final size:59
Alignment explanation
Indices: 4099941--4100059 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
4099931 TGTATTTTGT
4099941 TTTATATCTGAGTAAGAAAATCTGTTTTATTTCTACATACTGAT-AATCATTTTATGAG
1 TTTATATCTGAGTAAGAAAATCTGTTTTATTTCTACATACTGATAAATCATTTTATGAG
4099999 TTTATATCTGAGTAAGAAAATCTGTTTTATTTCTACATACTGATAAATCATTTTATGAG
1 TTTATATCTGAGTAAGAAAATCTGTTTTATTTCTACATACTGATAAATCATTTTATGAG
4100058 TT
1 TT
4100060 ACATGTTTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 44 0.73
59 16 0.27
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (59 bp):
TTTATATCTGAGTAAGAAAATCTGTTTTATTTCTACATACTGATAAATCATTTTATGAG
Found at i:4103078 original size:22 final size:19
Alignment explanation
Indices: 4103053--4103096 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
4103043 CTTATTTTAA
*
4103053 TTTTTATTTCTTTTTAATCTTC
1 TTTTTAATT-TTTTT-AT-TTC
4103075 TTTTTAATTTTTTTATTTC
1 TTTTTAATTTTTTTATTTC
4103094 TTT
1 TTT
4103097 GATTCTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 5 0.24
22 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTAATTTTTTTATTTC
Found at i:4103496 original size:5 final size:6
Alignment explanation
Indices: 4103480--4103563 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 6
4103470 GAGGAATCCC
* *
4103480 ATTTTT ATTTTT ATTTTT CGTTTGTT CAATTTTT ATTTTT ATTTTCA ATTTTT
1 ATTTTT ATTTTT ATTTTT -ATTT-TT --ATTTTT ATTTTT ATTTT-T ATTTTT
* * *
4103533 TTTTTT CTAATTT ATTTTT CA-TTTT ATTTTT
1 ATTTTT AT-TTTT ATTTTT -ATTTTT ATTTTT
4103564 CTTTGAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 1 0.02
6 40 0.66
7 13 0.21
8 4 0.07
9 3 0.05
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:4103514 original size:22 final size:20
Alignment explanation
Indices: 4103486--4103539 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
4103476 TCCCATTTTT
*
4103486 ATTTTTATTTTTCGTTTGTTCA
1 ATTTTTATTTTTC-ATT-TTCA
4103508 ATTTTTATTTTT-ATTTTCA
1 ATTTTTATTTTTCATTTTCA
*
4103527 ATTTTTTTTTTTC
1 ATTTTTATTTTTC
4103540 TAATTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 15 0.52
20 2 0.07
22 12 0.41
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTTCATTTTCA
Found at i:4103564 original size:12 final size:13
Alignment explanation
Indices: 4103516--4103564 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
4103506 CAATTTTTAT
4103516 TTTTA-TTTTCAA
1 TTTTATTTTTCAA
*
4103528 TTTTTTTTTTTCTAA
1 -TTTTATTTTTC-AA
4103543 -TTTATTTTTC-A
1 TTTTATTTTTCAA
4103554 TTTTATTTTTC
1 TTTTATTTTTC
4103565 TTTGAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 1 0.03
12 10 0.32
13 13 0.42
14 5 0.16
15 2 0.06
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCAA
Found at i:4108705 original size:45 final size:45
Alignment explanation
Indices: 4108657--4108877 Score: 342
Period size: 45 Copynumber: 4.9 Consensus size: 45
4108647 AATGATATAA
*
4108657 AATAT-CTTA-CATTTATCCCATAAGCTTGTAAGCTTATTTTACC
1 AATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
* *
4108700 AAAATACTTACCATTTAAT-CCATAAACTCGTAAGCTTATTTTACC
1 AATATACTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACC
4108745 AATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
1 AATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
4108790 AATATACTTACCATTTATCCCATAAGCTCGTAAGCAGCTTATTTTACC
1 AATATACTTACCATTTATCCCATAAGCTCGT-A--AGCTTATTTTACC
*
4108838 AATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 AATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
4108878 ACATGGTTAT
Statistics
Matches: 165, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
43 4 0.02
44 15 0.09
45 100 0.61
46 4 0.02
47 16 0.10
48 26 0.16
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (45 bp):
AATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACC
Found at i:4109085 original size:59 final size:59
Alignment explanation
Indices: 4108997--4109112 Score: 178
Period size: 59 Copynumber: 2.0 Consensus size: 59
4108987 CCCTAGTATG
* * **
4108997 ACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTATAGTCCCGAATATGAC
1 ACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAATATGAC
* *
4109056 ACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTATATTCCCGAATATG
1 ACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAATATG
4109113 CAGCCTGCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (59 bp):
ACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTATAGTCCCGAATATGAC
Found at i:4114246 original size:22 final size:24
Alignment explanation
Indices: 4114186--4114266 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
4114176 TAAACCAAGG
*
4114186 AAATAAATGAAA-TCAATAATAATA
1 AAATAAATGAAATTGAATAA-AATA
* *
4114210 AACATAAA--ATAATTGGATGAAA-A
1 AA-ATAAATGA-AATTGAATAAAATA
4114233 AAA-AAATGAAATTGAATAAAATA
1 AAATAAATGAAATTGAATAAAATA
4114256 AAATAAATGAA
1 AAATAAATGAA
4114267 GATAAAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 3 0.07
22 11 0.24
23 9 0.20
24 13 0.29
25 9 0.20
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (24 bp):
AAATAAATGAAATTGAATAAAATA
Found at i:4114369 original size:21 final size:22
Alignment explanation
Indices: 4114345--4114489 Score: 90
Period size: 22 Copynumber: 6.5 Consensus size: 22
4114335 GCAAAGAAAC
4114345 TAAAAATATAATG-AAAATAAA
1 TAAAAATATAATGTAAAATAAA
* *
4114366 TAAATAGTATAA-ATAAAAT-AA
1 TAAA-AATATAATGTAAAATAAA
*
4114387 TAAAAATATATATATAAAA-AATA
1 TAAAAATATA-ATGTAAAATAA-A
*
4114410 TAAAAATAT-ATGTATAATATAA
1 TAAAAATATAATGTAAAATA-AA
4114432 T-AAAATACTAAATAGTAATAAT-AA
1 TAAAAATA-T-AAT-GTAA-AATAAA
*
4114456 TAATAAATA-AATGAAAAATAAA
1 TAA-AAATATAATGTAAAATAAA
* *
4114478 TATACATATAAT
1 TAAAAATATAAT
4114490 ATTAACTAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
20 5 0.05
21 30 0.31
22 32 0.33
23 14 0.14
24 5 0.05
25 4 0.04
26 8 0.08
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (22 bp):
TAAAAATATAATGTAAAATAAA
Found at i:4114434 original size:66 final size:65
Alignment explanation
Indices: 4114345--4114475 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 65
4114335 GCAAAGAAAC
* *
4114345 TAAAAATATAATGAAAATAAATAAATAGTA-TAAATA-AAATAATAAAAATATATATATAAAAAA
1 TAAAAATATAATGAAAATAAATAAA-A-TACTAAATAGAAATAATAAAAATAAATAAATAAAAAA
4114408 TA
64 TA
* * * *
4114410 TAAAAATAT-ATGTATAATATAATAAAATACTAAATAGTAATAATAATAATAAATAAATGAAAAA
1 TAAAAATATAATG-AAAATA-AATAAAATACTAAATAGAAATAATAAAAATAAATAAATAAAAAA
4114474 TA
64 TA
4114476 AATATACATA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
64 5 0.09
65 21 0.38
66 30 0.54
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (65 bp):
TAAAAATATAATGAAAATAAATAAAATACTAAATAGAAATAATAAAAATAAATAAATAAAAAATA
Found at i:4114619 original size:2 final size:2
Alignment explanation
Indices: 4114614--4114644 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4114604 AAAAATAATA
4114614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4114645 GGAAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4115231 original size:37 final size:37
Alignment explanation
Indices: 4115190--4115282 Score: 89
Period size: 37 Copynumber: 2.5 Consensus size: 37
4115180 ATGCTTGTGG
** *
4115190 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATCTTTAGGAGTTTAAATAATAACAAAACTCT
* * ** *
4115227 ATCCTA-CTTTTAAGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATC-TTTAGGAGTTTAAATAATAACAAAACTCT
*
4115264 ATCCTATTTTTAGGAGTTT
1 ATCCTATCTTTAGGAGTTT
4115283 GAATCCTAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (37 bp):
ATCCTATCTTTAGGAGTTTAAATAATAACAAAACTCT
Found at i:4116198 original size:106 final size:106
Alignment explanation
Indices: 4116013--4117183 Score: 1696
Period size: 106 Copynumber: 11.0 Consensus size: 106
4116003 AGCATCGTTC
* * * * * * *
4116013 CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
4116078 ACCAGCCGTCCCTTCATTGTGAAGTTTAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
4116119 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTATTTGTTGAAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
4116184 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** *
4116225 CGAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATCCGGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
4116290 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
4116331 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
4116396 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
4116437 GGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGGTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
4116502 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
4116543 GGAGCCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
4116608 ACCAGTGGTCTCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
4116649 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
4116714 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
4116755 GGAGTCCGATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
4116820 ACCAGCAGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * *
4116861 TGAGTCCAATATCCTTCCCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
4116926 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
4116967 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
4117032 ACCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
4117073 AGAGTCCAATATCCTTCGTTGTGAAGTTGAAATAGACTTTGAATTTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
4117138 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
4117179 CGAGT
1 CGAGT
4117184 GGCACGATAT
Statistics
Matches: 969, Mismatches: 95, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
106 968 1.00
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:4118147 original size:22 final size:22
Alignment explanation
Indices: 4118121--4118175 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4118111 TTGTGTTTGG
*
4118121 TCAAAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
4118143 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
4118165 ACAAAGGTTTG
1 TCAAAGGTTTG
4118176 ATGGGGTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:4118819 original size:32 final size:31
Alignment explanation
Indices: 4118783--4118845 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
4118773 TTTTATCCCC
4118783 TTTTCTT-TTTGATT-TTTGTTCTTTCTTTTTTG
1 TTTTCTTCTTT-ATTCTTT-TT-TTTCTTTTTTG
4118815 TTTTCTTCTTTATTGCTTTTTTTTCTTTTTT
1 TTTTCTTCTTTATT-CTTTTTTTTCTTTTTT
4118846 TCTTTTTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
32 20 0.71
33 5 0.18
34 3 0.11
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.79
Consensus pattern (31 bp):
TTTTCTTCTTTATTCTTTTTTTTCTTTTTTG
Found at i:4118843 original size:25 final size:24
Alignment explanation
Indices: 4118808--4118854 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
4118798 TTGTTCTTTC
*
4118808 TTTTTTGTTTTCTTCTTTATTGCTT
1 TTTTTTCTTTTCTTCTTT-TTGCTT
*
4118833 TTTTTTCTTTTTTTCTTTTTGC
1 TTTTTTCTTTTCTTCTTTTTGC
4118855 CCTTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (24 bp):
TTTTTTCTTTTCTTCTTTTTGCTT
Found at i:4122240 original size:19 final size:19
Alignment explanation
Indices: 4122207--4122243 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4122197 TGCAGATGAT
4122207 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
4122226 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
4122244 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:4123500 original size:6 final size:6
Alignment explanation
Indices: 4123454--4123501 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
4123444 AAATAAATAG
* * *
4123454 TATAAA TA-AAA TATTAAA TATATA TATATA TATATA TATAAA TATAAA
1 TATAAA TATAAA TA-TAAA TATAAA TATAAA TATAAA TATAAA TATAAA
4123502 AATGTATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (6 bp):
TATAAA
Found at i:4123690 original size:29 final size:30
Alignment explanation
Indices: 4123648--4123704 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
4123638 TAACGTTAGG
*
4123648 AAAATATAGTAAAAAAATAGTAA-ATAAGT
1 AAAATATAGTAAAAAAATAATAATATAAGT
4123677 AAAA-ATAGATAAAAAAATAATAATATAA
1 AAAATATAG-TAAAAAAATAATAATATAA
4123705 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (30 bp):
AAAATATAGTAAAAAAATAATAATATAAGT
Found at i:4123787 original size:2 final size:2
Alignment explanation
Indices: 4123780--4123816 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4123770 TAATAAATAA
4123780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4123817 CACATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4124314 original size:37 final size:37
Alignment explanation
Indices: 4124273--4124362 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
4124263 ATGCTTGTGG
* * *
4124273 ATCCTATCTTTAGGAGGTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGGTTAAATAATAGCAAAACTCT
* * ** *
4124310 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGGTTAAATAATAGCAAAACTCT
4124347 ATCCTATTTTTAGGAG
1 ATCCTATTTTTAGGAG
4124363 TTTGAATCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGGTTAAATAATAGCAAAACTCT
Found at i:4151257 original size:62 final size:57
Alignment explanation
Indices: 4151183--4151302 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 57
4151173 ACTATATTAG
* *
4151183 TAGTAAAAACGAACGGCTATACCAAATAAAATTTAAGTTTAGATATAAATTTTAGGTCTAA
1 TAGTAAAAACGAACGGCTAGAACAAATAAAATTTAAGTTT---T-TAAATTTTAGGTCTAA
* *
4151244 TAGTAAAAAACGAACGGCTAGAAGAAATAAATTTTAAGTTTTTAAATTTTAGGTCTAA
1 TAGT-AAAAACGAACGGCTAGAACAAATAAAATTTAAGTTTTTAAATTTTAGGTCTAA
4151302 T
1 T
4151303 GATATTTTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
58 17 0.31
59 1 0.02
61 4 0.07
62 32 0.59
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (57 bp):
TAGTAAAAACGAACGGCTAGAACAAATAAAATTTAAGTTTTTAAATTTTAGGTCTAA
Found at i:4152327 original size:2 final size:2
Alignment explanation
Indices: 4152320--4152351 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4152310 AATAAAAATA
4152320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4152352 TAAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4152675 original size:18 final size:19
Alignment explanation
Indices: 4152654--4152697 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4152644 ACAAATAATA
*
4152654 TATTTATTAAAAATA-TTT
1 TATTTAATAAAAATAGTTT
*
4152672 TATTCAATAAAAATAGTTT
1 TATTTAATAAAAATAGTTT
*
4152691 CATTTAA
1 TATTTAA
4152698 GAGAATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTTAATAAAAATAGTTT
Found at i:4153268 original size:22 final size:22
Alignment explanation
Indices: 4153243--4153284 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4153233 ATTTTCATTT
*
4153243 AATATATATAAATAGATAATTA
1 AATATATATAAATAAATAATTA
*
4153265 AATATATATTAATAAATAAT
1 AATATATATAAATAAATAAT
4153285 ATTTTTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATATATAAATAAATAATTA
Found at i:4155286 original size:13 final size:13
Alignment explanation
Indices: 4155270--4155296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4155260 CCTTTTCTTA
4155270 TTTCATTTTAATT
1 TTTCATTTTAATT
4155283 TTTCATTTTAATT
1 TTTCATTTTAATT
4155296 T
1 T
4155297 GTTTTAAATT
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:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTCATTTTAATT
Done.