Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 366 of 444
Found at i:106473631 original size:59 final size:59
Alignment explanation
Indices: 106473539--106473661 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 59
106473529 GGCATATATG
106473539 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
1 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
* *
106473598 TATTAGAATCTAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTATAAT
1 TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
106473657 TATTA
1 TATTA
106473662 ATTAATATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (59 bp):
TATTAGAATATAAGATTTTATTTAGGTTATATATAAATATTATATATAATTATTAGAAT
Found at i:106473654 original size:22 final size:20
Alignment explanation
Indices: 106473624--106473672 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
106473614 TTTATTTAGG
106473624 TTATATATAAATATTATATATAA
1 TTAT-TATAAATATTA-AT-TAA
*
106473647 TTATTATAATTATTAATTAA
1 TTATTATAAATATTAATTAA
106473667 -TATTAT
1 TTATTAT
106473673 GGTTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 2 0.08
22 10 0.40
23 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATAAATATTAATTAA
Found at i:106473665 original size:13 final size:13
Alignment explanation
Indices: 106473624--106473654 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
106473614 TTTATTTAGG
*
106473624 TTATATATAAATA
1 TTATATATAATTA
106473637 TTATATATAATTA
1 TTATATATAATTA
106473650 TTATA
1 TTATA
106473655 ATTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:106474181 original size:22 final size:21
Alignment explanation
Indices: 106474156--106474196 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
106474146 AAAAGCTAAT
*
106474156 TAAATAAAAAGTAAAGGAAATA
1 TAAATAAAAAG-AAACGAAATA
106474178 TAAATAAAAAGAAACGAAA
1 TAAATAAAAAGAAACGAAA
106474197 GAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (21 bp):
TAAATAAAAAGAAACGAAATA
Found at i:106474257 original size:13 final size:13
Alignment explanation
Indices: 106474237--106474269 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
106474227 AAACAGAACC
106474237 AGAGAAAGAAGAAA
1 AGAGAAAGAA-AAA
106474251 A-AGAAAGAAAAA
1 AGAGAAAGAAAAA
106474263 AGAGAAA
1 AGAGAAA
106474270 ATAGGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 13 0.72
14 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAGAAAGAAAAA
Found at i:106475263 original size:41 final size:40
Alignment explanation
Indices: 106475215--106475314 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 40
106475205 TCGACCTCAA
* *
106475215 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
106475255 ATTCGATGAGTTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
106475293 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
106475315 ACTTTGCTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 10 0.22
38 18 0.39
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:106477390 original size:2 final size:2
Alignment explanation
Indices: 106477383--106477413 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
106477373 CGACATGCAA
*
106477383 AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
106477414 CTTTCGCGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:106478351 original size:4 final size:4
Alignment explanation
Indices: 106478342--106478375 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
106478332 GCTATAGTAA
* *
106478342 AACT AACT AACT AACT AACT AACA AAAT AACT AA
1 AACT AACT AACT AACT AACT AACT AACT AACT AA
106478376 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (4 bp):
AACT
Found at i:106484381 original size:33 final size:32
Alignment explanation
Indices: 106484344--106484526 Score: 107
Period size: 33 Copynumber: 5.4 Consensus size: 32
106484334 ATGGCCCTGG
*
106484344 TATGGTCTTACACTCATAATGCCATAACCCAGC
1 TATGGTCTTACACTCA-AATGCCATAGCCCAGC
* *
106484377 TATGGCCTTATCA-TCAAGATGCCATAGCCTAGC
1 TATGGTCTTA-CACTCAA-ATGCCATAGCCCAGC
* * *
106484410 TATGGTCTTACACTTATACATATACTGCCATGGTCCAAC
1 TATGGTCTTACAC---T-CA-A-A-TGCCATAGCCCAGC
* *** ** * *
106484449 CATGGTCTTATGTTCACGGTGCCATAACCCAGT
1 TATGGTCTTACACTCA-AATGCCATAGCCCAGC
* *
106484482 TATGGTCGTTTCACTGAAATGCCATAGCCCAGC
1 TATGGTC-TTACACTCAAATGCCATAGCCCAGC
106484515 TATGGTCTTACA
1 TATGGTCTTACA
106484527 TTTAAATATT
Statistics
Matches: 108, Mismatches: 32, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
32 7 0.06
33 68 0.63
34 6 0.06
35 2 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 19 0.18
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (32 bp):
TATGGTCTTACACTCAAATGCCATAGCCCAGC
Found at i:106484486 original size:105 final size:101
Alignment explanation
Indices: 106484363--106484560 Score: 265
Period size: 105 Copynumber: 1.9 Consensus size: 101
106484353 ACACTCATAA
*
106484363 TGCCATAACCCAGCTATGG-CCTTATCA-TCAAGATGCCATAGCCTAGCTATGGTCTTACACTTA
1 TGCCATAACCCAGCTATGGTCCTT-TCACTCAA-ATGCCATAGCCCAGCTATGGTCTTACA-TT-
106484426 TACATATACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
62 TA-A-ATACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
* * *
106484468 TGCCATAACCCAGTTATGGTCGTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
1 TGCCATAACCCAGCTATGGTCCTTTCACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
* * *
106484533 TATTTCCGTGGTCCAACCATGGTCTTAT
66 TACTGCCATGGTCCAACCATGGTCTTAT
106484561 CCGTCAATTC
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
101 26 0.31
102 1 0.01
103 2 0.02
104 2 0.02
105 47 0.56
106 6 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (101 bp):
TGCCATAACCCAGCTATGGTCCTTTCACTCAAATGCCATAGCCCAGCTATGGTCTTACATTTAAA
TACTGCCATGGTCCAACCATGGTCTTATGTTCACGG
Found at i:106497145 original size:6 final size:6
Alignment explanation
Indices: 106497131--106497160 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
106497121 ACCGCTGTCG
*
106497131 TGCCGC TGCCTC TGCCTC TGCCTC TGCCTC
1 TGCCTC TGCCTC TGCCTC TGCCTC TGCCTC
106497161 CACACCTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.50, G:0.20, T:0.30
Consensus pattern (6 bp):
TGCCTC
Found at i:106501048 original size:14 final size:16
Alignment explanation
Indices: 106501013--106501052 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
106501003 AAATTCTGAC
106501013 AAATATATAACAATTAT
1 AAATATAT-ACAATTAT
106501030 AAATATATA-AATT-T
1 AAATATATACAATTAT
106501044 AAATATATA
1 AAATATATA
106501053 TATAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 1 0.04
17 8 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATACAATTAT
Found at i:106501109 original size:8 final size:9
Alignment explanation
Indices: 106501083--106501130 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
106501073 TTACACACGT
106501083 AAATACATA
1 AAATACATA
*
106501092 AAATAGATA
1 AAATACATA
106501101 AAATA-ATA
1 AAATACATA
106501109 AAATA-AT-
1 AAATACATA
106501116 AAATACATA
1 AAATACATA
106501125 ACAATA
1 A-AATA
106501131 AGAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
7 5 0.14
8 12 0.34
9 14 0.40
10 4 0.11
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATACATA
Found at i:106501109 original size:17 final size:17
Alignment explanation
Indices: 106501083--106501131 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
106501073 TTACACACGT
106501083 AAATACATAAAATAGATA
1 AAATACATAAAATA-ATA
106501101 AAATA-ATAAAATAAT-
1 AAATACATAAAATAATA
106501116 AAATACATAACAATAA
1 AAATACATAA-AATAA
106501132 GAATTTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
17 13 0.45
18 5 0.17
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATACATAAAATAATA
Found at i:106510007 original size:44 final size:44
Alignment explanation
Indices: 106509957--106510044 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
106509947 GATCATGCTT
*
106509957 ACGAATGTGATAAATTTAATGATTTTAATAATATAACTCACCTA
1 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
106510001 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
1 ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
106510045 GATGTGGCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (44 bp):
ACGAATGTGATAAATTTAATGATCTTAATAATATAACTCACCTA
Found at i:106510633 original size:27 final size:27
Alignment explanation
Indices: 106510579--106510633 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
106510569 ACGGGTCGAG
* **
106510579 CCTGTCAGGCAGGCACAACTAGTCGCA
1 CCTGACAGGCAGGCACAACTACCCGCA
106510606 CCTGACAGGCAGGCACAAC-ACCCTGCA
1 CCTGACAGGCAGGCACAACTACCC-GCA
106510633 C
1 C
106510634 ATTTCCCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.27, C:0.38, G:0.24, T:0.11
Consensus pattern (27 bp):
CCTGACAGGCAGGCACAACTACCCGCA
Found at i:106511060 original size:108 final size:108
Alignment explanation
Indices: 106510945--106511161 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
106510935 AAAAAACACG
106510945 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
106511010 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
106511053 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
*
106511118 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
106511161 T
1 T
106511162 ATTTTGTTTA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:106519044 original size:15 final size:16
Alignment explanation
Indices: 106519014--106519055 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
106519004 AAAATTTTGA
106519014 AAAATATATAACAA-TT
1 AAAATATAT-ACAATTT
106519030 ATAAATATATA-AATTT
1 A-AAATATATACAATTT
106519046 AAAATATATA
1 AAAATATATA
106519056 TAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATATACAATTT
Found at i:106519056 original size:17 final size:16
Alignment explanation
Indices: 106519013--106519059 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
106519003 CAAAATTTTG
106519013 AAAAATATATAACAATT
1 AAAAATATATAA-AATT
* *
106519030 ATAAATATATAAATTT
1 AAAAATATATAAAATT
106519046 AAAATATATATAAA
1 AAAA-ATATATAAA
106519060 CACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATATAAAATT
Found at i:106524157 original size:6 final size:6
Alignment explanation
Indices: 106524148--106524172 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
106524138 TTTATTTTTT
106524148 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
106524173 TTTTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:106528772 original size:6 final size:6
Alignment explanation
Indices: 106528758--106528796 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
106528748 CAGCACTAAG
* *
106528758 TTGTGC TTGTAC TTGTGC TTGTGC TTGTGC TTGTAC TTG
1 TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTGTGC TTG
106528797 CGAGAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.05, C:0.15, G:0.28, T:0.51
Consensus pattern (6 bp):
TTGTGC
Found at i:106528775 original size:12 final size:12
Alignment explanation
Indices: 106528758--106528796 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
106528748 CAGCACTAAG
106528758 TTGTGCTTGTAC
1 TTGTGCTTGTAC
*
106528770 TTGTGCTTGTGC
1 TTGTGCTTGTAC
106528782 TTGTGCTTGTAC
1 TTGTGCTTGTAC
106528794 TTG
1 TTG
106528797 CGAGAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.15, G:0.28, T:0.51
Consensus pattern (12 bp):
TTGTGCTTGTAC
Found at i:106530364 original size:22 final size:21
Alignment explanation
Indices: 106530326--106530380 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
106530316 TTACATATAT
* *
106530326 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTAAA
106530347 ATTTTAAATATTATTTTTAAA
1 ATTTTAAATATTATTTTTAAA
106530368 ATATTTAAATATT
1 AT-TTTAAATATT
106530381 TTAAACTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:106530774 original size:14 final size:15
Alignment explanation
Indices: 106530755--106530793 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
106530745 ATCTTTAAAA
106530755 ATAATTTAAAA-ATC
1 ATAATTTAAAATATC
*
106530769 ATAATTTAAAATATT
1 ATAATTTAAAATATC
*
106530784 ATAAATTAAA
1 ATAATTTAAA
106530794 TTAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTTAAAATATC
Found at i:106530883 original size:21 final size:21
Alignment explanation
Indices: 106530846--106530898 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
106530836 GAAAGTTTAA
106530846 AATATTTAAATATTTAAAAAAT
1 AATATTTAAA-ATTTAAAAAAT
106530868 AATATTTAAAATTTAAAAAAT
1 AATATTTAAAATTTAAAAAAT
*
106530889 TA-ATTTAAAA
1 AATATTTAAAA
106530899 ATATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 8 0.27
21 12 0.40
22 10 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:106530898 original size:34 final size:35
Alignment explanation
Indices: 106530857--106530923 Score: 111
Period size: 34 Copynumber: 1.9 Consensus size: 35
106530847 ATATTTAAAT
106530857 ATTTAAAAA-ATAATATTTAAAA-TTTAAAAAATTA
1 ATTTAAAAATAT-ATATTTAAAATTTTAAAAAATTA
106530891 ATTTAAAAATATATATTTAAAATTTTAAAAAAT
1 ATTTAAAAATATATATTTAAAATTTTAAAAAAT
106530924 ATATTAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 19 0.61
35 12 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATTA
Found at i:106530925 original size:23 final size:22
Alignment explanation
Indices: 106530895--106530962 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
106530885 AAATTAATTT
106530895 AAAAATATATATTTAAAATTTTA
1 AAAAATATAT-TTTAAAATTTTA
* *
106530918 AAAAATATATTAATAAAATATTTC
1 AAAAATATATT-TTAAAAT-TTTA
*
106530942 AAATATATATTTTAAAATTTT
1 AAAAATATATTTTAAAATTTT
106530963 TAAATTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 4 0.10
23 22 0.56
24 13 0.33
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATATATTTTAAAATTTTA
Found at i:106530979 original size:47 final size:45
Alignment explanation
Indices: 106530897--106530984 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
106530887 ATTAATTTAA
*
106530897 AAATATATATTTAAAATTTTAAAAAATATATTAATAAAATATTTC
1 AAATATATATTTAAAATTTTAAAAAATATAATAATAAAATATTTC
* **
106530942 AAATATATATTTTAAAATTTTTAAATTTAATAATAATAAAATA
1 AAATATATA-TTTAAAATTTTAAAAAAT-ATAATAATAAAATA
106530985 AGTAAAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 9 0.24
46 15 0.41
47 13 0.35
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (45 bp):
AAATATATATTTAAAATTTTAAAAAATATAATAATAAAATATTTC
Found at i:106534232 original size:19 final size:20
Alignment explanation
Indices: 106534209--106534247 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
106534199 CAAAAATTAA
*
106534209 AAAAAATAAAAATAATTTTC
1 AAAAATTAAAAATAATTTTC
*
106534229 AAAAATTGAAAATAATTTT
1 AAAAATTAAAAATAATTTT
106534248 TAAAGTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTTC
Found at i:106534261 original size:19 final size:20
Alignment explanation
Indices: 106534217--106534283 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
106534207 AAAAAAAATA
*
106534217 AAAATAATTTTCAAAAATTG
1 AAAATAATTTTCAAAAATTC
* *
106534237 AAAATAATTTT-TAAAGTTC
1 AAAATAATTTTCAAAAATTC
106534256 AAAAT-ATTTAT-AAAAATTC
1 AAAATAATTT-TCAAAAATTC
*
106534275 TAAA-AATTT
1 AAAATAATTT
106534284 GGACTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.10
19 24 0.62
20 11 0.28
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (20 bp):
AAAATAATTTTCAAAAATTC
Found at i:106534316 original size:19 final size:17
Alignment explanation
Indices: 106534303--106534354 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
106534293 AAAAAAATTG
106534303 TAAATTTTTTAAAAAAT
1 TAAATTTTTTAAAAAAT
*
106534320 CTAAAGTTTATATAAAAAAGT
1 -TAAA-TTT-TTTAAAAAA-T
106534341 TAAA-TTTTTAAAAA
1 TAAATTTTTTAAAAA
106534355 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 3 0.10
20 12 0.41
21 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (17 bp):
TAAATTTTTTAAAAAAT
Found at i:106536941 original size:23 final size:24
Alignment explanation
Indices: 106536915--106536962 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
106536905 GGAGAAGCAG
* *
106536915 AAGAAAATGAAA-AAAAAAGTTAA
1 AAGAAAATAAAAGAAAAAAATTAA
*
106536938 AAGAATATAAAAGAAAAAAATTAA
1 AAGAAAATAAAAGAAAAAAATTAA
106536962 A
1 A
106536963 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (24 bp):
AAGAAAATAAAAGAAAAAAATTAA
Found at i:106539201 original size:38 final size:36
Alignment explanation
Indices: 106539009--106539483 Score: 200
Period size: 35 Copynumber: 13.0 Consensus size: 36
106538999 TGGTATAGTT
* * * *
106539009 CTTGTCTAAGGTAACTTTTAAGAATAGTTGGGATAGA
1 CTTGTCTAAGGCAACCTTTAA-AAAAGTTGAGATAGA
* * * * *
106539046 -TCCGTCTATGGCAACCTTT-AAAAGGTTGGGATTGA
1 CT-TGTCTAAGGCAACCTTTAAAAAAGTTGAGATAGA
* * * * *
106539081 CTTATTTAAGGCAACC-TTAAAAAGGTTGGGATATGC
1 CTTGTCTAAGGCAACCTTTAAAAAAGTTGAGATA-GA
* * * *
106539117 CTTGTCTAAAGCAATCCTTAAAAAAAATTG-GTATAAA
1 CTTGTCTAAGGCAA-CCTTTAAAAAAGTTGAG-ATAGA
* * *
106539154 CCTTATCTAAAGCAACTTTTTAAAAAAGTTGAGATAGA
1 -CTTGTCTAAGGCAAC-CTTTAAAAAAGTTGAGATAGA
* * * *
106539192 TCTTGTCTAAGGCAACCTTTAGGAAAGGTTGGGATAGG
1 -CTTGTCTAAGGCAACCTTTA-AAAAAGTTGAGATAGA
* * *
106539230 CATGTTTAAGGCAACCTTTTAAAAATGTT-AGAATAGA
1 CTTGTCTAAGGCAACC-TTTAAAAAAGTTGAG-ATAGA
* *
106539267 CATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGA
1 C-TTGTCTAAGGCAACCTTTAAAAAA-GTTGAGATAGA
* * * * *
106539305 CTTGTTTAAAGCAA-CGTTAAAAAGGTTGCGATAGA
1 CTTGTCTAAGGCAACCTTTAAAAAAGTTGAGATAGA
* * * * *
106539340 -TTCTTCTAAAGTAACC-TTAAAAACGTTG-GTATATA
1 CTT-GTCTAAGGCAACCTTTAAAAAAGTTGAG-ATAGA
* * * * * *
106539375 TCTTATCTAAGGCGACTTTTAGCAAAGGTTGAGATTGA
1 -CTTGTCTAAGGCAACCTTTA-AAAAAGTTGAGATAGA
* ** * * *
106539413 CCTGTCTAAGATAA-CGTTAAAAATGTTGAAATAGA
1 CTTGTCTAAGGCAACCTTTAAAAAAGTTGAGATAGA
* * * *
106539448 CTTGTTTACA-GCAACC-CTAAAAAGGTTGGGATAGA
1 CTTGTCTA-AGGCAACCTTTAAAAAAGTTGAGATAGA
106539483 C
1 C
106539484 CTTTTCCAAT
Statistics
Matches: 328, Mismatches: 84, Indels: 54
0.70 0.18 0.12
Matches are distributed among these distances:
34 5 0.02
35 104 0.32
36 37 0.11
37 78 0.24
38 101 0.31
39 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
CTTGTCTAAGGCAACCTTTAAAAAAGTTGAGATAGA
Found at i:106539266 original size:75 final size:75
Alignment explanation
Indices: 106539049--106539319 Score: 227
Period size: 75 Copynumber: 3.7 Consensus size: 75
106539039 GGATAGATCC
* * * * * * * *
106539049 GTCTATGGCAACCTT--TAAAAGGTTGGGATTGACTTATTTAAGGCAACC--TTAAAAAGGTTGG
1 GTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAACCTTTTAAAAAAGTTGA
*
106539110 GATATG-CCTT
66 GATA-GACATT
* * * * * *
106539120 GTCTAAAGCAATCCTTAAAAAAA-ATTGGTATAAACCT-TATCTAAAGCAACTTTTTAAAAAAGT
1 GTCTAAGGCAA-CCTTAAAAAAAGGTTGGGATAGACATGT-T-TAAAGCAACCTTTTAAAAAAGT
106539183 TGAGATAGATC-TT
63 TGAGATAGA-CATT
* ** * * *
106539196 GTCTAAGGCAACCTTTAGGAAAGGTTGGGATAGGCATGTTTAAGGCAACCTTTTAAAAATGTT-A
1 GTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAACCTTTTAAAAAAGTTGA
106539260 GAATAGACATT
66 G-ATAGACATT
*
106539271 GTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACTTGTTTAAAGCAAC
1 GTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAAC
106539320 GTTAAAAAGG
Statistics
Matches: 157, Mismatches: 30, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
71 9 0.06
72 5 0.03
73 10 0.06
74 15 0.10
75 79 0.50
76 37 0.24
77 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (75 bp):
GTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAACCTTTTAAAAAAGTTGA
GATAGACATT
Found at i:106539338 original size:35 final size:35
Alignment explanation
Indices: 106539056--106539483 Score: 239
Period size: 38 Copynumber: 11.7 Consensus size: 35
106539046 TCCGTCTATG
* * * * *
106539056 GCAACCTTTAAAAGGTTGGGATTGACTTATTTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAA
*
106539091 GCAACCTTAAAAAGGTTGGGATATGCCTTGTCTAAA
1 GCAACCTTAAAAAGGTTGGGATA-GACTTGTCTAAA
** * * *
106539127 GCAATCCTTAAAAAAAATTGGTATAAACCTTATCTAAA
1 GCAA-CCTT-AAAAAGGTTGGGATAGA-CTTGTCTAAA
* * * *
106539165 GCAACTTTTTAAAAAAGTTGAGATAGATCTTGTCTAAG
1 GCAAC--CTTAAAAAGGTTGGGATAGA-CTTGTCTAAA
* * * * *
106539203 GCAACCTTTAGGAAAGGTTGGGATAGGCATGTTTAAG
1 GCAACC-TTA-AAAAGGTTGGGATAGACTTGTCTAAA
* * * *
106539240 GCAACCTTTTAAAAATGTTAGAATAGACATTGTCTAAG
1 GCAACC--TTAAAAAGGTTGGGATAGAC-TTGTCTAAA
*
106539278 GCAACCTTAAAAAAAGGTTGGGATAGACTTGTTTAAA
1 GCAACCTT--AAAAAGGTTGGGATAGACTTGTCTAAA
* * *
106539315 GCAACGTTAAAAAGGTTGCGATAGA-TTCTTCTAAA
1 GCAACCTTAAAAAGGTTGGGATAGACTT-GTCTAAA
* * * * * *
106539350 GTAACCTTAAAAACGTTGGTATATATCTTATCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAA
* * * * * *
106539386 GCGACTTTTAGCAAAGGTTGAGATTGACCTGTCT-AA
1 GCAAC-CTTA-AAAAGGTTGGGATAGACTTGTCTAAA
* * * ** * *
106539422 GATAACGTTAAAAATGTTGAAATAGACTTGTTTACA
1 G-CAACCTTAAAAAGGTTGGGATAGACTTGTCTAAA
*
106539458 GCAACCCTAAAAAGGTTGGGATAGAC
1 GCAACCTTAAAAAGGTTGGGATAGAC
106539484 CTTTTCCAAT
Statistics
Matches: 295, Mismatches: 79, Indels: 38
0.72 0.19 0.09
Matches are distributed among these distances:
34 2 0.01
35 97 0.33
36 29 0.10
37 60 0.20
38 105 0.36
39 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (35 bp):
GCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAA
Found at i:106543664 original size:17 final size:17
Alignment explanation
Indices: 106543642--106543674 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
106543632 TGCATATTTG
106543642 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
106543659 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
106543675 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:106548885 original size:26 final size:26
Alignment explanation
Indices: 106548853--106548903 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
106548843 AATATTAAAA
* **
106548853 TAAATAAAATTTATCTTTATGATAAT
1 TAAATAAAATTAAAATTTATGATAAT
*
106548879 TAAATAATATTAAAATTTATGATAA
1 TAAATAAAATTAAAATTTATGATAA
106548904 ATAATATCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TAAATAAAATTAAAATTTATGATAAT
Found at i:106548992 original size:16 final size:16
Alignment explanation
Indices: 106548971--106549003 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
106548961 ACCTAAATCT
*
106548971 AAAAAACAG-AAAGAA
1 AAAAAAAAGAAAAGAA
106548986 AAAAAAAAGAAAAGAA
1 AAAAAAAAGAAAAGAA
106549002 AA
1 AA
106549004 GGTTAACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAGAA
Found at i:106551731 original size:14 final size:14
Alignment explanation
Indices: 106551687--106551746 Score: 68
Period size: 14 Copynumber: 4.2 Consensus size: 14
106551677 CTAAACCTTA
*
106551687 AAACCATACACCCT
1 AAACCATAAACCCT
*
106551701 AAACCCTAAACTCCT
1 AAACCATAAAC-CCT
*
106551716 AAACCATAAATCCT
1 AAACCATAAACCCT
106551730 AAATCC-TAAACCCT
1 AAA-CCATAAACCCT
106551744 AAA
1 AAA
106551747 ACCTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 25 0.64
15 14 0.36
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:106551738 original size:21 final size:21
Alignment explanation
Indices: 106551700--106551754 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
106551690 CCATACACCC
*
106551700 TAAACCCTAAACTCCTAAACCA
1 TAAAACCTAAA-TCCTAAACCA
* *
106551722 TAAATCCTAAATCCTAAACCC
1 TAAAACCTAAATCCTAAACCA
106551743 TAAAACCTAAAT
1 TAAAACCTAAAT
106551755 ATAGAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAAACCTAAATCCTAAACCA
Found at i:106551748 original size:29 final size:29
Alignment explanation
Indices: 106551672--106551754 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
106551662 CAAGACCATA
* * *
106551672 AAATCCTAAACCTTAAAACCATACACCCT
1 AAATCCTAAACCCTAAAACCATAAATCCT
*
106551701 AAACCCTAAACTCCT-AAACCATAAATCCT
1 AAATCCTAAAC-CCTAAAACCATAAATCCT
106551730 AAATCCTAAACCCTAAAACC-TAAAT
1 AAATCCTAAACCCTAAAACCATAAAT
106551755 ATAGAAGCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.17
29 37 0.79
30 2 0.04
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (29 bp):
AAATCCTAAACCCTAAAACCATAAATCCT
Found at i:106551751 original size:7 final size:7
Alignment explanation
Indices: 106551649--106551753 Score: 52
Period size: 7 Copynumber: 14.3 Consensus size: 7
106551639 CTTAAACCAC
*
106551649 AAACCTT
1 AAACCTA
106551656 AAACCTCA
1 AAACCT-A
*
106551664 AGACCATA
1 AAACC-TA
106551672 AAATCCT-
1 AAA-CCTA
106551679 AAACCTTA
1 AAACC-TA
106551687 AAACCATA
1 AAACC-TA
* *
106551695 CACCCTA
1 AAACCTA
*
106551702 AACCCTA
1 AAACCTA
*
106551709 AACTCCT-
1 AA-ACCTA
106551716 AAACCATA
1 AAACC-TA
*
106551724 AATCCTA
1 AAACCTA
*
106551731 AATCCTA
1 AAACCTA
*
106551738 AACCCTA
1 AAACCTA
106551745 AAACCTA
1 AAACCTA
106551752 AA
1 AA
106551754 TATAGAAGCT
Statistics
Matches: 78, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
6 4 0.05
7 46 0.59
8 25 0.32
9 3 0.04
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCTA
Found at i:106551751 original size:14 final size:14
Alignment explanation
Indices: 106551656--106551753 Score: 81
Period size: 15 Copynumber: 6.6 Consensus size: 14
106551646 CACAAACCTT
*
106551656 AAACCTCAAGACCATA
1 AAACCT-AA-ACCCTA
*
106551672 AAATCCTAAACCTTA
1 AAA-CCTAAACCCTA
*
106551687 AAACCATACACCCTA
1 AAACC-TAAACCCTA
*
106551702 AACCCTAAACTCCT-
1 AAACCTAAAC-CCTA
*
106551716 AAACCATAAATCCTA
1 AAACC-TAAACCCTA
*
106551731 AATCCTAAACCCTA
1 AAACCTAAACCCTA
106551745 AAACCTAAA
1 AAACCTAAA
106551754 TATAGAAGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
14 29 0.43
15 30 0.45
16 5 0.07
17 3 0.04
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCTAAACCCTA
Found at i:106551923 original size:7 final size:7
Alignment explanation
Indices: 106551913--106551970 Score: 80
Period size: 7 Copynumber: 8.0 Consensus size: 7
106551903 TCTTAAATCT
106551913 TAAACCC
1 TAAACCC
106551920 TAAACCC
1 TAAACCC
106551927 TAAACCC
1 TAAACCC
*
106551934 TAAATCC
1 TAAACCC
*
106551941 TAAACCT
1 TAAACCC
106551948 TAAACCC
1 TAAACCC
106551955 TAAACACCC
1 T-AA-ACCC
106551964 TAAACCC
1 TAAACCC
106551971 ATTAGGCATG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 36 0.80
8 4 0.09
9 5 0.11
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:106552694 original size:264 final size:266
Alignment explanation
Indices: 106552198--106552802 Score: 853
Period size: 264 Copynumber: 2.3 Consensus size: 266
106552188 AAAATATATA
* *
106552198 TCGTCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTTGGCATGCATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
* * **
106552262 CCTTATACAAAGAGTTGGCTAGAGCATATGTTGGCCAGTCTATCCCAACACTTCAGAAAGTGTCG
66 CCTTATACAAAGAGTTGGCCAAAGCA-A--TT---CAGTCTATCCCAACACTTCAGAAAACGTCG
*
106552327 CACAAAAACTGTTGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTAGCCTTAGGCATA
125 CACAAAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTAGCCTTAGGCATA
*
106552392 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAAGAAAGTGT
190 CATATACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAAGAAA-TGT
106552457 CACCAAAAAAGTG
254 CACCAAAAAAGTG
* * * *
106552470 TCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
106552535 CCTTATACAAAGAGTTGGCCAAAGC-A-T-AGTCTATCCCAACACTT-AGTAAAACGTCGC-CAC
66 CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTCAG-AAAACGTCGCACA-
* * * * * *
106552595 AAAAGTGTCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGGCATACATA
129 AAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTAGCCTTAGGCATACATA
* **
106552660 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTTGCCA
194 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAAGAAATGTCACCA
*
106552725 CAAAAGTG
259 AAAAAGTG
* * * *
106552733 TCATCTTAGGACTAGATAAAAACCAACTCTTATTTAAGCGTTGCTTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
106552798 CCTTA
66 CCTTA
106552803 GGAAAGTGTT
Statistics
Matches: 300, Mismatches: 30, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
263 79 0.26
264 138 0.46
268 1 0.00
271 1 0.00
272 16 0.05
273 65 0.22
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (266 bp):
TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTCAGAAAACGTCGCACAAA
AACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTAGCCTTAGGCATACATATA
CCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAAGAAATGTCACCAAA
AAAGTG
Found at i:106552803 original size:91 final size:91
Alignment explanation
Indices: 106552698--106552893 Score: 313
Period size: 91 Copynumber: 2.2 Consensus size: 91
106552688 AAGCATAGTC
*
106552698 TATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCATCTTAGGACTAGATAAAAACCAACTC
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTAGA-AAAAACCAACTC
106552762 TTATTTAAGCGTTGCTTTAGGCATACA
65 TTATTTAAGCGTTGCTTTAGGCATACA
* * * *
106552789 TATCCCAACCCTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCT
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTAGAAAAAACCAACTCT
*
106552854 TATTTAAGCGTTGCTTTAGGCATGCA
66 TATTTAAGCGTTGCTTTAGGCATACA
*
106552880 TATACCAACCCTTA
1 TATCCCAACCCTTA
106552894 TACAAAGAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
91 67 0.69
92 30 0.31
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCATCTTAGGACTAGAAAAAACCAACTCT
TATTTAAGCGTTGCTTTAGGCATACA
Found at i:106552820 original size:131 final size:132
Alignment explanation
Indices: 106552298--106552802 Score: 764
Period size: 132 Copynumber: 3.8 Consensus size: 132
106552288 TATGTTGGCC
* * * *
106552298 AGTCTATCCCAACACTTCA-GAAAGTGTCG-CACAAAAACTGTTGTCTTAGAACGAGACAAAAGC
1 AGTCTATCCCAACACTT-AGGAAAGTGTCGCCAC-AAAAGTGTCGTCTTAGGACTAGACAAAAGC
*
106552361 CAACTCTTATTCAAGCGTAGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAA
64 CAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAA
106552426 GCAT
129 GCAT
* * * *
106552430 AGTCTATCCCAACACTTAAGAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
106552495 ACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
106552560 AT
131 AT
* ** *
106552562 AGTCTATCCCAACACTTAGTAAAACGTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
106552627 ACTTTTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGC
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
106552692 AT
131 AT
* * * *
106552694 AGTCTATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCATCTTAGGACTAGATAAAAACCA
1 AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
106552758 ACTCTTATTTAAGCGTTGCTTTAGGCATACATATCCCAACCCTTA
66 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
106552803 GGAAAGTGTT
Statistics
Matches: 342, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 77 0.23
132 263 0.77
133 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (132 bp):
AGTCTATCCCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
AT
Found at i:106553025 original size:119 final size:120
Alignment explanation
Indices: 106552811--106553031 Score: 329
Period size: 120 Copynumber: 1.9 Consensus size: 120
106552801 TAGGAAAGTG
* **
106552811 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCTTTAGGCA
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
*
106552876 TGCATATACCAACCCTTATACAAAGAGTTG-CTAAAGTCCAGTCTATACCAACAC
66 TGCATATACCAACACTTATACAAAGAGTTGCCTAAAGTCCAGTCTATACCAACAC
***
106552930 TTGCCCCAAAAGTGTCGTCTTAGGACTAGACTTTTGCCAACTCCTATAAAAGCGTTGCTTTAGGC
1 TTGCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCCTATAAAAGCGTTGCTTTAGGC
* * *
106552995 TTGCATATCCCAACACTTAT-GAAAGAGTTGCCTAAAG
65 ATGCATATACCAACACTTATACAAAGAGTTGCCTAAAG
106553032 CGTATTTTGG
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 40 0.44
120 50 0.56
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (120 bp):
TTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCA
TGCATATACCAACACTTATACAAAGAGTTGCCTAAAGTCCAGTCTATACCAACAC
Found at i:106553243 original size:25 final size:24
Alignment explanation
Indices: 106553191--106553259 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
106553181 ATATGTACGT
* *
106553191 AAAAATAATATAATATAAAGAGGA
1 AAAAATAATATAATATAAAAAAGA
106553215 AAAAATAATGATAATATAATAAAAGA
1 AAAAATAAT-ATAATATAA-AAAAGA
*
106553241 AAATATATATATACATATA
1 AAAAATA-ATATA-ATATA
106553260 CCAAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 9 0.24
25 9 0.24
26 13 0.34
27 7 0.18
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAAATAATATAATATAAAAAAGA
Found at i:106553546 original size:15 final size:15
Alignment explanation
Indices: 106553510--106553547 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
106553500 ACTAGTACTA
*
106553510 ATAATAGTGATAATG
1 ATAATAATGATAATG
106553525 A-ATATAATGATAATG
1 ATA-ATAATGATAATG
106553540 ATAATAAT
1 ATAATAAT
106553548 ATATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (15 bp):
ATAATAATGATAATG
Found at i:106553653 original size:26 final size:26
Alignment explanation
Indices: 106553637--106553693 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
106553627 AGTATGTACG
*
106553637 TAATATAG-TGTTAAAAATACATACA
1 TAATATAGTTATTAAAAATACATACA
*
106553662 TAATATAGTTATTAAAAA-ATATACA
1 TAATATAGTTATTAAAAATACATACA
106553687 TAATATA
1 TAATATA
106553694 ATAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (26 bp):
TAATATAGTTATTAAAAATACATACA
Found at i:106553700 original size:46 final size:46
Alignment explanation
Indices: 106553650--106553745 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
106553640 TATAGTGTTA
106553650 AAAATACAT-ACATAATAT-AGT-TATTAAAAAATATACATAATATAAT
1 AAAATACATGA-ATAATATGA-TATATTAAAAAATATACATAATAT-AT
* *
106553696 AAAATATATGAATAATATGATATTTTAAAAAATATACATAATATAT
1 AAAATACATGAATAATATGATATATTAAAAAATATACATAATATAT
106553742 AAAA
1 AAAA
106553746 ATATAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
46 22 0.49
47 23 0.51
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (46 bp):
AAAATACATGAATAATATGATATATTAAAAAATATACATAATATAT
Found at i:106553770 original size:17 final size:17
Alignment explanation
Indices: 106553721--106553773 Score: 74
Period size: 15 Copynumber: 3.2 Consensus size: 17
106553711 TATGATATTT
106553721 TAAAAAATATACATAATA
1 TAAAAAA-ATACATAATA
*
106553739 TATAAAAAT--ATAATA
1 TAAAAAAATACATAATA
106553754 TAAAAAAATACATAATA
1 TAAAAAAATACATAATA
106553771 TAA
1 TAA
106553774 TATTAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 14 0.45
17 11 0.35
18 6 0.19
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAAATACATAATA
Found at i:106553959 original size:15 final size:16
Alignment explanation
Indices: 106553939--106553993 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
106553929 AATGAAATGC
106553939 TAATAAATAAAAATA-
1 TAATAAATAAAAATAG
*
106553954 TAAT-AATAATAATAG
1 TAATAAATAAAAATAG
*
106553969 TAATAAA-ATATAATAG
1 TAATAAATA-AAAATAG
106553985 T-ATAAATAA
1 TAATAAATAA
106553994 TATTAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 9 0.26
15 15 0.43
16 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
TAATAAATAAAAATAG
Found at i:106553992 original size:25 final size:25
Alignment explanation
Indices: 106553939--106554016 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
106553929 AATGAAATGC
106553939 TAATAAATAAAAATATAATAATAATAA
1 TAAT-AAT-AAAATATAATAATAATAA
* *
106553966 TAGTAATAAAATATAATAGT-ATAAA
1 TAATAATAAAATATAATAATAAT-AA
*
106553991 TAATATTAAAAT-TAA-AATAA-AA
1 TAATAATAAAATATAATAATAATAA
106554013 TAAT
1 TAAT
106554017 GAGAAAAAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 6 0.14
25 24 0.55
26 3 0.07
27 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
TAATAATAAAATATAATAATAATAA
Found at i:106556828 original size:16 final size:18
Alignment explanation
Indices: 106556802--106556854 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 18
106556792 TATAAAATAG
*
106556802 ATTAT-ATAATTTTATTA
1 ATTATAATAATTTTATAA
106556819 A-TA-AATAATTTTGATAA
1 ATTATAATAATTTT-ATAA
106556836 ATTATAATAATTTTATAA
1 ATTATAATAATTTTATAA
106556854 A
1 A
106556855 AAATATCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.32
17 5 0.16
18 7 0.23
19 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTATAATAATTTTATAA
Found at i:106556871 original size:35 final size:34
Alignment explanation
Indices: 106556786--106556872 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
106556776 ACTATTAATT
* *
106556786 AAATATTATAAAATAGATTATATAATTTTATTAAT
1 AAATATTAT-AAATAAATTATATAATTTTATTAAA
**
106556821 AAATAATT-TTGATAAATTATAATAATTTTA-TAAA
1 AAAT-ATTATAAATAAATTAT-ATAATTTTATTAAA
106556855 AAATATCTATAAATAAAT
1 AAATAT-TATAAATAAAT
106556873 AACATATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.05
34 16 0.38
35 21 0.50
36 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (34 bp):
AAATATTATAAATAAATTATATAATTTTATTAAA
Found at i:106558951 original size:31 final size:31
Alignment explanation
Indices: 106558915--106558975 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
106558905 GCCCAGTAGT
* * *
106558915 TTAAATTAAAACTTTCGAATAATTTAATAAC
1 TTAAATAAAAACTTTCAAATAACTTAATAAC
*
106558946 TTAAATAAAAATTTTCAAATAACTTAATAA
1 TTAAATAAAAACTTTCAAATAACTTAATAA
106558976 TTATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAACTTAATAAC
Found at i:106562888 original size:18 final size:18
Alignment explanation
Indices: 106562865--106562953 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
106562855 CGTTTACGGT
106562865 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
* *
106562883 ACTATTCACATATACAGT
1 ACTATTCACGTATACAGC
*
106562901 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * * *
106562919 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
106562937 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
106562954 TAGTTGGGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:106562910 original size:36 final size:36
Alignment explanation
Indices: 106562863--106562953 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 36
106562853 ACCGTTTACG
106562863 GTACTATTCACGTATACAGCACTATTCAC-ATATACA
1 GTACTATTCACGTATACAGCACTATTCACGA-ATACA
* * *
106562899 GTACTATTCACGTATACGGCACTATTTACGAATACG
1 GTACTATTCACGTATACAGCACTATTCACGAATACA
*
106562935 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
106562954 TAGTTGGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
36 48 0.98
37 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGAATACA
Found at i:106583049 original size:3 final size:3
Alignment explanation
Indices: 106583043--106583103 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
106583033 TTTTTTTTTC
* * *
106583043 TCT TCT TCT TCT TC- TCC TAT TCT TTT TCT TCT TCT TCT TCT TCT T-T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
106583089 TCC TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT
106583104 ACTGCCCAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:106583071 original size:20 final size:20
Alignment explanation
Indices: 106583043--106583100 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
106583033 TTTTTTTTTC
*
106583043 TCTTCTTCTTCTTCTCCTAT
1 TCTTTTTCTTCTTCTCCTAT
* *
106583063 TCTTTTTCTTCTTCTTCTTCT
1 TCTTTTTCTTCTTC-TCCTAT
106583084 TCTTTTCCTCTTCTTCT
1 TCTTTT--TCTTCTTCT
106583101 TCTACTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.41
21 10 0.31
22 1 0.03
23 8 0.25
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTTTTCTTCTTCTCCTAT
Found at i:106583079 original size:26 final size:26
Alignment explanation
Indices: 106583038--106583103 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
106583028 GTATATTTTT
106583038 TTTTCTCTTCTTCTTCTTCTCCTATTC
1 TTTT-TCTTCTTCTTCTTCTCCTATTC
* *
106583065 TTTTTCTTCTTCTTCTTCTTCTTTTC
1 TTTTTCTTCTTCTTCTTCTCCTATTC
* *
106583091 CTCTTCTTCTTCT
1 TTTTTCTTCTTCT
106583104 ACTGCCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTTCTTCTTCTTCTTCTCCTATTC
Found at i:106583101 original size:20 final size:20
Alignment explanation
Indices: 106583066--106583103 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
106583056 CTCCTATTCT
*
106583066 TTTTCTTCTTCTTCTTCTTC
1 TTTTCCTCTTCTTCTTCTTC
106583086 TTTTCCTCTTCTTCTTCT
1 TTTTCCTCTTCTTCTTCT
106583104 ACTGCCCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCCTCTTCTTCTTCTTC
Found at i:106585900 original size:5 final size:5
Alignment explanation
Indices: 106585890--106585917 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
106585880 TTTGTAAGAA
106585890 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
106585918 TAAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:106592667 original size:21 final size:21
Alignment explanation
Indices: 106592634--106592673 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
106592624 AAAGCCTCAT
* *
106592634 TTTTTTTTTATTTTATTTTCC
1 TTTTCTTTGATTTTATTTTCC
*
106592655 TTTTCTTTGATTTTTTTTT
1 TTTTCTTTGATTTTATTTT
106592674 ATCTATTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTCTTTGATTTTATTTTCC
Found at i:106593339 original size:20 final size:20
Alignment explanation
Indices: 106593307--106593346 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
106593297 TACGTTTTGG
106593307 ATTACTTTATTATTATTATT
1 ATTACTTTATTATTATTATT
*
106593327 ATTA-TTTATTTATTTTTATT
1 ATTACTTTA-TTATTATTATT
106593347 TATTTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTACTTTATTATTATTATT
Found at i:106593604 original size:26 final size:27
Alignment explanation
Indices: 106593540--106593607 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
106593530 ATCTATTTAA
106593540 TATATATATATATTCTTTTCAAATCTG
1 TATATATATATATTCTTTTCAAATCTG
** * * * *
106593567 T-TACGTAAATATTCTCTTTTAAATTTA
1 TATATATATATATTCT-TTTCAAATCTG
106593594 TATATATATATATT
1 TATATATATATATT
106593608 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
26 11 0.37
27 10 0.33
28 9 0.30
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (27 bp):
TATATATATATATTCTTTTCAAATCTG
Found at i:106606514 original size:177 final size:176
Alignment explanation
Indices: 106605775--106606446 Score: 1013
Period size: 176 Copynumber: 3.8 Consensus size: 176
106605765 TAGCGACATC
* * * * * *
106605775 GTTGAAGATACAAGTCTTATCTTCCTAAAGTTACAAGAAGCAGACTGAAAATTACAAATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATC
* * * *
106605840 TCCATATATCGGCTATGGAGCAAATCAGAA-ATGACGAGTCTTATCTCCATGTATCGGCTATAGA
66 TCCATGTATCGGCTATGGAGCAGATC-GAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
106605904 GCAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGCAGAGAGCAG
130 GCAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGCAGAGAGCAG
*
106605951 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATC
* *
106606016 TCCATGTATCGGTTATGGAGCAGATCAAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
66 TCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
*
106606081 CAAATTTTAGCCACTAACCTTATCTCTCTGAGTTTGCAGAGAGCAG
131 CAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGCAGAGAGCAG
* * * *
106606127 GTTGAAGATACAGGTTTTATCTTCTTGAAGTTGCAGGAAGTAGACTAAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATC
* * *
106606192 TCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAG
66 TCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* * * *
106606257 TAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAG
131 CAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGC-AGAGAGCAG
* * *
106606304 GTTAAAGATATAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATC
* * * * *
106606369 TTCATGTATCAGCTATGGAACAGATCGAAGATGGCGAGTCTTATCTCCATGTATTGGCTATTGAG
66 TCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
*
106606434 CGGATTTTAGCCA
131 CAGATTTTAGCCA
106606447 TCGGCTTTGT
Statistics
Matches: 450, Mismatches: 44, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
175 2 0.00
176 313 0.70
177 135 0.30
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (176 bp):
GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATC
TCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
CAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGCAGAGAGCAG
Found at i:106608547 original size:132 final size:132
Alignment explanation
Indices: 106608101--106608515 Score: 650
Period size: 132 Copynumber: 3.1 Consensus size: 132
106608091 CTACTGCAAA
* * * * * *
106608101 TTCAGGGAGACAAGATCTGTAATCTTTAGCTTAGTTCACTACTACTTAGGGAGATAGGATGGTGG
1 TTCAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
* * * * *
106608166 CTTAAATCTGCTTCACTGTAACTTCAGGAAGGCAATATTCACCTTCTTCGATCTGTTCTACTATA
66 CTTAAATATGCTTCACTGTAACTTCAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTATA
106608231 AC
131 AC
*
106608233 TTCAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATATGATGGTGG
1 TTCAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
* * * * *
106608298 CTTAAATTTACTTCATTGTAACTTTAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTACA
66 CTTAAATATGCTTCACTGTAACTTCAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTATA
106608363 AC
131 AC
*
106608365 TTTAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
1 TTCAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
* *
106608430 CTAAAATATGCTTCACTGTAACTTCAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTGTA
66 CTTAAATATGCTTCACTGTAACTTCAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTATA
106608495 AC
131 AC
106608497 TTCAGGGAGGCAAGATCTG
1 TTCAGGGAGGCAAGATCTG
106608516 TAATTTTCAG
Statistics
Matches: 257, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 257 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (132 bp):
TTCAGGGAGGCAAGATCTGCAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
CTTAAATATGCTTCACTGTAACTTCAGGAAGGCAAGATTCACCGTCTTCGATCTGCTCCACTATA
AC
Found at i:106608589 original size:44 final size:44
Alignment explanation
Indices: 106608526--106608856 Score: 211
Period size: 44 Copynumber: 7.6 Consensus size: 44
106608516 TAATTTTCAG
*
106608526 TCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
* * ** * **
106608570 TCTGTTTCCCTACTACTTA-GGGGTTTAAGATC-TGTAAATTC-A
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGA
* * * * ** *
106608612 GCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTCTTTGA
1 TC-TGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
* *
106608657 TTTGTTTCCCTACTGCTTAGGGGGTT-AAG---ATCTATAATTC-A
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATC-AT-CTTCGA
* * * * * ** *
106608698 GCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTTGA
1 -TCTGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
* *
106608743 TCTGTTTCCCTACTGCTTA-AGGGTT-AAGATCCATCA-CATTCGA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAAG-CCCATCATC-TTCGA
* * * * *
106608786 TCTATTTCTCTACTGCTTAGGGGGTT-AAGATCTATCATCTTCAA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGA
106608830 TCTGTTTCCCTACTGCTTA-GGGGTTAA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAA
106608857 GATCTGTAAA
Statistics
Matches: 215, Mismatches: 54, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 29 0.13
43 69 0.32
44 106 0.49
45 4 0.02
46 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (44 bp):
TCTGTTTCCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
Found at i:106608622 original size:87 final size:86
Alignment explanation
Indices: 106608508--106609326 Score: 761
Period size: 87 Copynumber: 9.5 Consensus size: 86
106608498 TCAGGGAGGC
* * * * *
106608508 AAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCT
1 AAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCT
*
106608573 GTTTCCCTACTACTTAGGGGTTT
65 GTTTCCCTACTGCTTAGGGG-TT
* * * *
106608596 AAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTCTTTGATTTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
106608661 TTTCCCTACTGCTTAGGGGGTT
66 TTTCCCTACTGCTTA-GGGGTT
* * * *
106608683 AAGATCTAT-AATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTTGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
*
106608747 TTTCCCTACTGCTTAAGGGTT
66 TTTCCCTACTGCTTAGGGGTT
** * * * * * * ** * * *
106608768 AAGATCCATCACATTC-GATCTATTTCTCTACTGCTTAGGGGGTTAAGATCTATCATCTTCAATC
1 AAGATCTGT-AAATTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATC
106608832 TGTTTCCCTACTGCTTAGGGGTT
64 TGTTTCCCTACTGCTTAGGGGTT
* * * * *** *
106608855 AAGATCTGTAAATTCAGCCTATTACCCTACTGTTTAGGGGTTTAAGGCTCTTAACCTTTGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
* * **
106608920 -TTCCACCACTGCTTAAGGAGAC
66 TTTCC-CTACTGCTT-AGGGGTT
* * * *
106608942 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCTTCGTCTTCGATTTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
* **
106609007 -CTCCACTACTGCTTAGGGAGAC
66 TTTCC-CTACTGCTTAGGG-GTT
* * *
106609029 AAGATCTGTAAATTCAGCCTGTTACCGTACTACTTAGGGG-TTAAGGCCCTTCGTCTTCGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
* **
106609093 -CTCCACTACTGCTTAGGGAGAC
66 TTTCC-CTACTGCTTAGGG-GTT
* * * * * ** **
106609115 AAGATCTAT-AATTCAACCTGTTACCCTAATACTTAGGGGTTTAAGGTCTGTCACCTTCGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
** * **
106609179 TTTCCCTTTTACTTAGGGAGAC
66 TTTCCCTACTGCTTAGGG-GTT
* * * * * * *
106609201 AAGATCTGTAAATTTATCCTGTTACCCTACTGCTTAGGGGGTTATGGACCTTCGTCTTCGATCTA
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
*
106609266 TTTCCTTACTGCTTAGGGGGTT
66 TTTCCCTACTGCTTA-GGGGTT
* * * *
106609288 AAGATTTGTAAATTTAGTCTGTTACCCTACTGTTTAGGG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
106609327 AGATAAGGCT
Statistics
Matches: 611, Mismatches: 108, Indels: 25
0.82 0.15 0.03
Matches are distributed among these distances:
85 44 0.07
86 210 0.34
87 339 0.55
88 18 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (86 bp):
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTG
TTTCCCTACTGCTTAGGGGTT
Found at i:106608838 original size:173 final size:173
Alignment explanation
Indices: 106608521--106609326 Score: 583
Period size: 173 Copynumber: 4.7 Consensus size: 173
106608511 ATCTGTAATT
* * * * * *
106608521 TTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCCCTACTGC
* ** * * **
106608586 TTAGGGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGT
66 TTAAGGGTTTAAGATCCATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCAT
** *
106608651 CTTTGATTTGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-AA
131 CTTCAATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTATAAA
* *
106608694 TTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTTGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCCCTACTGC
* * * * *
106608759 TTAAGGG-TTAAGATCCATCACATTCGATCTAT-TT-CTCTACTGCTTAGGGGGTTAAGATCTAT
66 TTAAGGGTTTAAGATCCAT-AAATTC-AGCT-TGTTACCCTACTGCTTAGGGGGTTAAGACCCAT
*
106608821 CATCTTCAATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAA
128 CATCTTCAATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTATAAA
* * * * * *
106608867 TTCAGCCTATTACCCTACTGTTTAGGGGTTTAAGGCTCTTAACCTTTGATCTG-TTCCACCACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCC-CTACTG
** ** * * * * * *
106608931 CTTAAGGAG-ACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCTTC
65 CTTAAGG-GTTTAAGATCCATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACCCATC
* * * * ** *
106608995 GTCTTCGATTTG-CTCCACTACTGCTTAGGGAGACAAGATCTGTAAA
129 ATCTTCAATCTGTTTCC-CTACTGCTTAGGG-GTTAAGATCTATAAA
* * * ** * *
106609041 TTCAGCCTGTTACCGTACTACTTAGGGG-TTAAGGCCCTTCGTCTTCGATCTG-CTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCC-CTACTG
*** * * * * * * ** **
106609104 CTT-AGGGAGACAAGATCTAT-AATTCAACCTGTTACCCTAATACTTAGGGGTTTAAGGTCTGTC
65 CTTAAGGG-TTTAAGATCCATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACCCATC
* * ** * ** *
106609167 ACCTTCGATCTGTTTCCCTTTTACTTAGGGAGACAAGATCTGTAAA
129 ATCTTCAATCTGTTTCCCTACTGCTTAGGG-GTTAAGATCTATAAA
* * * * * * ** * * *
106609213 TTTATCCTGTTACCCTACTGCTTAGGGGGTTATGGACCTTCGTCTTCGATCTATTTCCTTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCCCTACTGC
* * *** * *
106609278 TTAGGGGGTTAAGATTTGTAAATTTAG-TCTGTTACCCTACTGTTTAGGG
66 TTAAGGGTTTAAGATCCATAAATTCAGCT-TGTTACCCTACTGCTTAGGG
106609327 AGATAAGGCT
Statistics
Matches: 515, Mismatches: 100, Indels: 35
0.79 0.15 0.05
Matches are distributed among these distances:
171 2 0.00
172 131 0.25
173 303 0.59
174 78 0.15
175 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (173 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTTGATCTGTTTCCCTACTGC
TTAAGGGTTTAAGATCCATAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCAT
CTTCAATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTATAAA
Found at i:106609104 original size:259 final size:256
Alignment explanation
Indices: 106608472--106609326 Score: 841
Period size: 259 Copynumber: 3.3 Consensus size: 256
106608462 CAAGATTCAC
* * * *
106608472 CGTCTTCGATCTGCTCCACT-GTAACTTCAGGGAGGCAAGATCTGTAATTTTCAGTCTGTTACCC
1 CGTCTTCGATCTGCTCCACTACT-GCTT-AGGGAGACAAGATCTGTAA-ATTCAGTCTGTTA-CC
* *
106608536 TACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGTTTAAGAT
62 TACTGCTTAGGGGGTT-AAGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGG-TTAAGAT
* * ** *
106608601 CTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTCTTTGATTTGTTTCC
125 CTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTC-TTACCTTTGATCTGTTTCC
* ** * *
106608666 CTACTGCTTAGGGGGTTAAGATCTAT-AATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGC
189 CTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTT-AGGGTTTAAGGC
*
106608730 CCAT
253 CCTT
* * * * ** ** * * *
106608734 CGCCTTTGATCTGTTTCC-CTACTGCTTAAGG-GTTAAGATCCATCACATTC-GATCTATTTCTC
1 CGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGACAAGATCTGT-AAATTCAG-TCTGTTAC-C
** *
106608796 TACTGCTTAGGGGGTTAAGATCTATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGTTAAGATC
62 TACTGCTTAGGGGGTTAAGCCCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATC
* *
106608861 TGTAAATTCAGCCTATTACCCTACTGTTTAGGGGTTTAAGGCTCTTAACCTTTGATCTG-TTCCA
126 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTT-ACCTTTGATCTGTTTCC-
* *
106608925 CCACTGCTTAAGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGAGTTTAAGGC
189 CTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGG-GTTTAAGGC
106608990 CCTT
253 CCTT
* *
106608994 CGTCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCGTAC
1 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAGTCTGTTACC-TAC
* * * **
106609059 TACTTA-GGGGTTAAGGCCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGACAAGATCT
65 TGCTTAGGGGGTTAA-GCCCTTCATCTTCGATCTGTTTCC-CTACTGCTTAGGG-GTTAAGATCT
* * * * *
106609122 AT-AATTCAACCTGTTACCCTAATACTTAGGGGTTTAAGG-TCTGTCACCTTCGATCTGTTTCCC
127 GTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCT-T-ACCTTTGATCTGTTTCCC
** * * * * *
106609185 TTTTACTTAGGGAGACAAGATCTGTAAATTTATCCTGTTACCCTACTGCTTAGGGGGTTATGGAC
190 TACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGGTTTAAGGCC
106609250 CTT
254 CTT
** * * ** * *
106609253 CGTCTTCGATCTATTTCC-TTACTGCTTAGGGGGTTAAGATTTGTAAATTTAGTCTGTTACCCTA
1 CGTCTTCGATCT-GCTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAGTCTGTTA-CCTA
*
106609317 CTGTTTAGGG
64 CTGCTTAGGG
106609327 AGATAAGGCT
Statistics
Matches: 486, Mismatches: 84, Indels: 48
0.79 0.14 0.08
Matches are distributed among these distances:
258 12 0.02
259 276 0.57
260 165 0.34
261 13 0.03
262 16 0.03
263 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (256 bp):
CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAGTCTGTTACCTACT
GCTTAGGGGGTTAAGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAA
ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCTTACCTTTGATCTGTTTCCCTACTGC
TTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGTTTAAGGCCCTT
Found at i:106609513 original size:63 final size:64
Alignment explanation
Indices: 106609405--106609531 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 64
106609395 TCATGTATCT
*
106609405 ATGTTTATGCCAAATAATTAGGATGCTATGATTGAAATGGATCAAATGCTCCTAACTAAATGTG
1 ATGTTTATGCCAAATAATTAGGATGCTATGATCGAAATGGATCAAATGCTCCTAACTAAATGTG
* * *
106609469 ATGTTTATGTCAAATGATTA-GATGCTATGATCGAAAT-GAGTCAAATGCTCCTAACTAGATGTG
1 ATGTTTATGCCAAATAATTAGGATGCTATGATCGAAATGGA-TCAAATGCTCCTAACTAAATGTG
106609532 TAGAAATGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 2 0.03
63 38 0.66
64 18 0.31
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGTTTATGCCAAATAATTAGGATGCTATGATCGAAATGGATCAAATGCTCCTAACTAAATGTG
Found at i:106616183 original size:15 final size:15
Alignment explanation
Indices: 106616165--106616196 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
106616155 CGAGAATGAT
106616165 AATAATAATAATATA
1 AATAATAATAATATA
*
106616180 AATAATAATAGTATA
1 AATAATAATAATATA
106616195 AA
1 AA
106616197 ACGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:106616428 original size:26 final size:26
Alignment explanation
Indices: 106616378--106616429 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
106616368 TATATGTATT
*
106616378 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
106616404 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
106616430 TTTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:106616605 original size:2 final size:2
Alignment explanation
Indices: 106616600--106616642 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
106616590 GAATAAAGAA
*
106616600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106616642 A
1 A
106616643 CCAAGAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106617147 original size:21 final size:22
Alignment explanation
Indices: 106617121--106617162 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
106617111 ATATATAATA
106617121 AAATAACTTAATATA-AATAAG
1 AAATAACTTAATATAGAATAAG
*
106617142 AAATAATTTAATATAGAATAA
1 AAATAACTTAATATAGAATAA
106617163 TAAAATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (22 bp):
AAATAACTTAATATAGAATAAG
Found at i:106618549 original size:23 final size:23
Alignment explanation
Indices: 106618506--106618549 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
106618496 AAATAAAAAA
*
106618506 AAATTAAAAAATTTAATATATTT
1 AAATTAAAAAATTTAAAATATTT
*
106618529 AAATT-AAATATTTATAAATAT
1 AAATTAAAAAATTTA-AAATAT
106618550 AGATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTAAAAAATTTAAAATATTT
Found at i:106622044 original size:33 final size:31
Alignment explanation
Indices: 106622005--106622067 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
106621995 TGTAATAATG
* * *
106622005 ATATATACACAATATGGTATTAAGAATATAT
1 ATATATATACAATATAGTATTAAAAATATAT
*
106622036 ATATATATACAATATAGTTTTAAAAATATAT
1 ATATATATACAATATAGTATTAAAAATATAT
106622067 A
1 A
106622068 CATAAGATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
ATATATATACAATATAGTATTAAAAATATAT
Found at i:106622253 original size:3 final size:3
Alignment explanation
Indices: 106622245--106622311 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
106622235 ATATATGCAT
106622245 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106622291 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
106622312 TCTACAATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106624098 original size:78 final size:77
Alignment explanation
Indices: 106624010--106624517 Score: 354
Period size: 73 Copynumber: 6.6 Consensus size: 77
106624000 ACGTGAGCAA
* **
106624010 AGGCTCAACTCACTTCTCG-TATATGAGTTGATTTTGAAAACAAATTGAAAAAACATTTTAAAAT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTGAAAACAAATTG-AAAAACAAATTAAAAT
106624074 ACCTCACGTGCCCG
64 ACCTCACGTGCCCG
* *
106624088 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGAAAAGAAATTGAAAAACAAATTGAAATAC
1 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAAATTGAAAAACAAATTAAAATAC
*
106624153 CTCACGTGCCTG
66 CTCACGTGCCCG
* * *
106624165 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--------TTTG-AAAACATAAATGAAAT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACAAATTGAAAAACA-AATTAAAAT
*
106624221 ACCTCAGCGT-CCTG
64 ACCTCA-CGTGCCCG
* * *
106624235 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--------TTTGAAAACAGAAATTGAAAT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACAAATTGAAAA-ACAAATTAAAAT
*
106624292 ACCTCAGCGTGTCCTG
64 ACCTCA-CGTG-CCCG
* * * * *
106624308 AGGCTCAACTCACCTCTCGCAATATGAGCTAATTTT--------TTTGAAAACAGAAATTGAAAT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACAAATTGAAAA-ACAAATTAAAAT
* *
106624365 ACCTCAGCATGTCCTG
64 ACCTCA-CGTG-CCCG
106624381 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAAACAGAAATT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGA-TTTTGAAAAC--AAATTG-AAAAAC--AAATT
* * * *
106624446 GAAAGACCTCAGCATG--TG
59 AAAATACCTCA-CGTGCCCG
*
106624464 AGGCTCAACTCACCTCTCGCTATATGAGTTGATTTTTGAAAACAGAAATTGAAA
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGA-TTTTGAAAAC--AAATTGAAA
106624518 TTACCTCAGC
Statistics
Matches: 389, Mismatches: 19, Indels: 40
0.87 0.04 0.09
Matches are distributed among these distances:
69 6 0.02
70 61 0.16
71 24 0.06
72 2 0.01
73 104 0.27
74 4 0.01
77 43 0.11
78 62 0.16
82 3 0.01
83 52 0.13
84 4 0.01
85 4 0.01
86 20 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (77 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAAATTGAAAAACAAATTAAAATAC
CTCACGTGCCCG
Found at i:106624348 original size:73 final size:73
Alignment explanation
Indices: 106624132--106624560 Score: 526
Period size: 73 Copynumber: 5.9 Consensus size: 73
106624122 TGAAAAGAAA
*
106624132 TTGAAAA-ACAAATTGAAATACCTCA-CGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
106624194 TGATTTTT
66 TGATTTTT
*
106624202 TTGAAAACATAAA-TGAAATACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
106624264 TGATTTTT
66 TGATTTTT
*
106624272 TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
106624337 TAATTTTT
66 TGATTTTT
*
106624345 TTGAAAACAGAAATTGAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
106624410 TGA--TTT
66 TGATTTTT
* * * * *
106624416 TTGAAAACAGAAATTGAAAAAACAGAAATTGAAAGACCTCAG-CATGTGAGGCTCAACTCACCTC
1 TTGAAAACAGAAATTG-AAATAC-----CT--CAG-CGT--GTC--CTGAGGCTCAACTCACCTC
*
106624480 TCGCTATATGAGTTGA--TTT
53 TCGCAATATGAGTTGATTTTT
*
106624499 TTGAAAACAGAAATTGAAATTACCTCAGCGTGT-C-GA-GCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
106624561 ATTTTGACAG
Statistics
Matches: 318, Mismatches: 20, Indels: 43
0.83 0.05 0.11
Matches are distributed among these distances:
69 25 0.08
70 74 0.23
71 38 0.12
72 5 0.02
73 107 0.34
75 2 0.01
76 2 0.01
77 1 0.00
78 1 0.00
79 2 0.01
80 2 0.01
81 1 0.00
82 4 0.01
83 54 0.17
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTT
Found at i:106624439 original size:15 final size:15
Alignment explanation
Indices: 106624419--106624449 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
106624409 TTGATTTTTG
106624419 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
106624434 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
106624449 A
1 A
106624450 GACCTCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAACAGAAATTGAA
Found at i:106624490 original size:83 final size:84
Alignment explanation
Indices: 106624348--106624517 Score: 297
Period size: 83 Copynumber: 2.0 Consensus size: 84
106624338 AATTTTTTTG
*
106624348 AAAACAGAAATTGAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAAACAGAAATTGAAAGACCTCAGCATG--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
106624413 TTTTTGAAAACAGAAATTGAA
64 TTTTTGAAAACAGAAATTGAA
*
106624434 AAAACAGAAATTGAAAGACCTCAGCATG-TGAGGCTCAACTCACCTCTCGCTATATGAGTTGATT
1 AAAACAGAAATTGAAAGACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
106624498 TTTGAAAACAGAAATTGAA
66 TTTGAAAACAGAAATTGAA
106624517 A
1 A
106624518 TTACCTCAGC
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
83 55 0.67
86 27 0.33
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (84 bp):
AAAACAGAAATTGAAAGACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAACAGAAATTGAA
Found at i:106624586 original size:14 final size:14
Alignment explanation
Indices: 106624567--106624593 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106624557 TGAGATTTTG
106624567 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
106624581 ACAGAAATTGAAA
1 ACAGAAATTGAAA
106624594 GTGACTCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
ACAGAAATTGAAAA
Found at i:106624701 original size:18 final size:19
Alignment explanation
Indices: 106624678--106624718 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
106624668 ACAGAAATAA
106624678 CTCAGCACGT-AGCTAAAG
1 CTCAGCACGTGAGCTAAAG
*
106624696 CTCAGCACGTGAGCTAAGG
1 CTCAGCACGTGAGCTAAAG
106624715 CTCA
1 CTCA
106624719 ACTCACTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (19 bp):
CTCAGCACGTGAGCTAAAG
Found at i:106624890 original size:72 final size:74
Alignment explanation
Indices: 106624798--106625121 Score: 396
Period size: 73 Copynumber: 4.4 Consensus size: 74
106624788 CATGTGATCG
* * * * * *
106624798 GAGGCTCCACTCAC-TCTCGCAATATGAGTTGA-TTTTCGAAA-ACGGAGATCAAAATTACCTCA
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATTTTTTGAAAGACAGAAATCAAAATTACCTCA
* *
106624860 GCGTGTCCT
66 ACGTGTCTT
* * * **
106624869 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACA-AAATTGAAATTACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATT-TTTTGAAAGACAGAAATCAAAATTACCTC
106624933 AACGTGTCTT
65 AACGTGTCTT
*
106624943 GAGGCTCAACTCA-TTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAA-TACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTG-ATTTTTTGAAAGACAGAAATCAAAATTACCTC
106625006 AACGTGTCTT
65 AACGTGTCTT
* *
106625016 GA-GCTC-ACTCACTTCTTGCCGTATGAGTTGAATTTTTTGAAAGACAGAAATTGAAAA-TACCT
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTG-ATTTTTTGAAAGACAGAAA-TCAAAATTACCT
106625078 CAACGTGTCTT
64 CAACGTGTCTT
*
106625089 GAGGCTCAACTCACTTCTTGCAGTATGGGTTGA
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
106625122 ATTACGAAAC
Statistics
Matches: 226, Mismatches: 17, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
71 18 0.08
72 59 0.26
73 68 0.30
74 57 0.25
75 24 0.11
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACTTCTTGCAGTATGAGTTGATTTTTTGAAAGACAGAAATCAAAATTACCTCA
ACGTGTCTT
Found at i:106625007 original size:73 final size:75
Alignment explanation
Indices: 106624798--106625124 Score: 422
Period size: 72 Copynumber: 4.5 Consensus size: 75
106624788 CATGTGATCG
* * * * * * *
106624798 GAGGCTCCACTCAC-TCTCGCAATATGAGTTG-A-TTTTCGAAA-ACGGAGATCAAAATTACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAATTACCTC
* *
106624859 AGCGTGTCCT
66 AACGTGTCTT
* * * *
106624869 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTATTTTGAAAGACA-AAATTGAAATTACCT
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATT-TTTTGAAAGACAGAAATCGAAATTACCT
106624932 CAACGTGTCTT
65 CAACGTGTCTT
106624943 GAGGCTCAACTCA-TTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAA-TACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAATTACCTC
106625006 AACGTGTCTT
66 AACGTGTCTT
* * *
106625016 GA-GCTC-ACTCACTTCTTGCCGTATGAGTTGAATTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAATTACCTC
106625079 AACGTGTCTT
66 AACGTGTCTT
*
106625089 GAGGCTCAACTCACTTCTTGCAGTATGGGTTGAATT
1 GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATT
106625125 ACGAAACGGA
Statistics
Matches: 230, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
71 18 0.08
72 64 0.28
73 64 0.28
74 56 0.24
75 28 0.12
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (75 bp):
GAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGACAGAAATCGAAATTACCTC
AACGTGTCTT
Found at i:106625041 original size:145 final size:148
Alignment explanation
Indices: 106624758--106625124 Score: 437
Period size: 145 Copynumber: 2.5 Consensus size: 148
106624748 TGAAACTTAA
* * * * * * *
106624758 TTTGAAA-AGCAGAATTTGAAAATACCTCGACATGTGATC-GGAGGCTCCACTCACTCTCGCAAT
1 TTTGAAAGA-CAGAAATTGAAAATACCTC-A-ACGTG-TCTTGAGGCTCAACTCATTCTTGCAGT
* * *
106624821 ATGAGTTG-A-TTTTCGAAAACGGAGATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
62 ATGAGTTGAATTTTTCGAAAACAGAAATCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACC
106624884 TCTCGCAATATGAGTTG-ATTAT
127 TCTCGCAATATGAGTTGAATT-T
*
106624906 TTTGAAAGACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTCTTGCAGTATGA
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTCTTGCAGTATGA
* * * *
106624970 GTTGAATTTTTTGAAAGACAGAAATCGAAA-TACCTCAACGTGTCTTGA-GCTC-ACTCACTTCT
66 GTTGAATTTTTCGAAA-ACAGAAATCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
* **
106625032 TGCCGTATGAGTTGAATTT
130 CGCAATATGAGTTGAATTT
106625051 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTTGCAGTATG
*
106625116 GGTTGAATT
65 AGTTGAATT
106625125 ACGAAACGGA
Statistics
Matches: 191, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
144 2 0.01
145 63 0.33
146 47 0.25
147 59 0.31
148 19 0.10
149 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (148 bp):
TTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTCTTGCAGTATGA
GTTGAATTTTTCGAAAACAGAAATCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGAATTT
Found at i:106627278 original size:1 final size:1
Alignment explanation
Indices: 106627267--106627332 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
106627257 TTGATCTCTC
* * * * * * * * *
106627267 TTTTTTGTTTTTTTCTTGTCTTTTGTTTTTTTTCTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
106627332 T
1 T
106627333 CATGACTGTC
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:106627280 original size:8 final size:8
Alignment explanation
Indices: 106627267--106627329 Score: 83
Period size: 8 Copynumber: 7.8 Consensus size: 8
106627257 TTGATCTCTC
106627267 TTTTTTGT
1 TTTTTTGT
*
106627275 TTTTTTCT
1 TTTTTTGT
106627283 TGTCTTTTGT
1 T-T-TTTTGT
106627293 TTTTTT-T
1 TTTTTTGT
*
106627300 CTTTTTGT
1 TTTTTTGT
106627308 TTTTTTGT
1 TTTTTTGT
106627316 TTTTTTGT
1 TTTTTTGT
106627324 TTTTTT
1 TTTTTT
106627330 TTTCATGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.12
8 34 0.71
9 2 0.04
10 6 0.12
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:106627333 original size:33 final size:33
Alignment explanation
Indices: 106627268--106627330 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
106627258 TGATCTCTCT
106627268 TTTTTGTTTTTTTCTTGTCTTTTGTTTTTTTTC
1 TTTTTGTTTTTTTCTTGTCTTTTGTTTTTTTTC
*
106627301 TTTTTGTTTTTTTGTT-T-TTTTGTTTTTTTT
1 TTTTTGTTTTTTTCTTGTCTTTTGTTTTTTTT
106627331 TTCATGACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 13 0.45
32 1 0.03
33 15 0.52
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (33 bp):
TTTTTGTTTTTTTCTTGTCTTTTGTTTTTTTTC
Found at i:106631619 original size:35 final size:33
Alignment explanation
Indices: 106631556--106631622 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
106631546 TGTAATAATG
* *
106631556 ATATATACACAATATGGTATTAAGAATATATAT
1 ATATATACACAATATAGTATTAAAAATATATAT
*
106631589 ATATATATACAATATAGTATTTAAAAA-ATATAT
1 ATATATACACAATATAGTA-TTAAAAATATATAT
106631622 A
1 A
106631623 CATAAGATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.37
Consensus pattern (33 bp):
ATATATACACAATATAGTATTAAAAATATATAT
Found at i:106631809 original size:3 final size:3
Alignment explanation
Indices: 106631801--106631884 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
106631791 ATATATGCAT
106631801 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106631849 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106631885 TCTACAATAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106633364 original size:23 final size:23
Alignment explanation
Indices: 106633334--106633383 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
106633324 TGGTATTTCT
106633334 ATAATCCGAATACTTCAAAGGAA
1 ATAATCCGAATACTTCAAAGGAA
*
106633357 ATAATCCGATTACTTCAAAGGAA
1 ATAATCCGAATACTTCAAAGGAA
106633380 ATAA
1 ATAA
106633384 CATTATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (23 bp):
ATAATCCGAATACTTCAAAGGAA
Found at i:106634346 original size:23 final size:25
Alignment explanation
Indices: 106634320--106634368 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
106634310 AATCCTAAAT
106634320 AAAA-TTTATCCTTATTTTC-TTCA
1 AAAATTTTATCCTTATTTTCATTCA
* *
106634343 AAAATTTTTTCTTTATTTTCATTCA
1 AAAATTTTATCCTTATTTTCATTCA
106634368 A
1 A
106634369 CTACTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 13 0.59
25 5 0.23
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (25 bp):
AAAATTTTATCCTTATTTTCATTCA
Found at i:106634985 original size:17 final size:17
Alignment explanation
Indices: 106634956--106634988 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
106634946 TATTTGCACT
106634956 CTTTCATTTTAGTTTTA
1 CTTTCATTTTAGTTTTA
106634973 CTTT-ATTTCTAGTTTT
1 CTTTCATTT-TAGTTTT
106634989 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (17 bp):
CTTTCATTTTAGTTTTA
Found at i:106636410 original size:25 final size:25
Alignment explanation
Indices: 106636376--106636425 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
106636366 TGCATGTGAT
* *
106636376 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
106636401 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
106636426 AGTTACTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:106641136 original size:6 final size:6
Alignment explanation
Indices: 106641125--106641151 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
106641115 ATAATTCTAG
106641125 TGCTGT TGCTGT TGCTGT TGCTGT TGC
1 TGCTGT TGCTGT TGCTGT TGCTGT TGC
106641152 GGCTAACCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.48
Consensus pattern (6 bp):
TGCTGT
Found at i:106641424 original size:25 final size:25
Alignment explanation
Indices: 106641390--106641439 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
106641380 TGCATGTGAT
* *
106641390 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
106641415 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
106641440 AGTTACTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:106649548 original size:15 final size:15
Alignment explanation
Indices: 106649528--106649559 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
106649518 CCGCTAAAGG
106649528 TAACGCCACAAAATT
1 TAACGCCACAAAATT
106649543 TAACGCCACAAAATT
1 TAACGCCACAAAATT
106649558 TA
1 TA
106649560 GCGGCGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (15 bp):
TAACGCCACAAAATT
Found at i:106649769 original size:31 final size:31
Alignment explanation
Indices: 106649725--106649790 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
106649715 AACCCTTCCT
* *
106649725 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATGAAACCCAACCAAAAACAGCAAATATA
* *
106649756 GCATGAAACCCAACCAAAACCAGCAAATGTA
1 GCATGAAACCCAACCAAAAACAGCAAATATA
106649787 GCAT
1 GCAT
106649791 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.26, G:0.11, T:0.14
Consensus pattern (31 bp):
GCATGAAACCCAACCAAAAACAGCAAATATA
Found at i:106649819 original size:13 final size:12
Alignment explanation
Indices: 106649789--106649829 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
106649779 CAAATGTAGC
106649789 ATAAAAAATACA
1 ATAAAAAATACA
106649801 ATAAAAAATACA
1 ATAAAAAATACA
106649813 ATAAAAAA-ACA
1 ATAAAAAATACA
*
106649824 TTAAAA
1 ATAAAA
106649830 TCTAAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAAAATACA
Found at i:106650552 original size:13 final size:14
Alignment explanation
Indices: 106650526--106650554 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106650516 ACTAACGACA
106650526 AATTAAACCATTAT
1 AATTAAACCATTAT
106650540 AATTAAA-CATTAT
1 AATTAAACCATTAT
106650553 AA
1 AA
106650555 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:106655707 original size:9 final size:9
Alignment explanation
Indices: 106655686--106655908 Score: 81
Period size: 9 Copynumber: 25.0 Consensus size: 9
106655676 TATGTATTAC
*
106655686 GTAAGTTAA
1 GTAAGTTAT
106655695 GTAAGCTT-T
1 GTAAG-TTAT
106655704 GTAAGTTAT
1 GTAAGTTAT
106655713 GTAAGTTAT
1 GTAAGTTAT
* *
106655722 GTTA-TGAT
1 GTAAGTTAT
* *
106655730 ATACATTTAT
1 GTA-AGTTAT
*
106655740 GTAAGATAT
1 GTAAGTTAT
106655749 GTAAGTTAT
1 GTAAGTTAT
* *
106655758 GATATGATAT
1 G-TAAGTTAT
* *
106655768 AT-ATTTAT
1 GTAAGTTAT
106655776 GT-A-TTAT
1 GTAAGTTAT
*
106655783 GTAAGTTGT
1 GTAAGTTAT
106655792 GTAAGTTAT
1 GTAAGTTAT
*
106655801 GATAAGATAT
1 G-TAAGTTAT
* *
106655811 AT-ATTTAT
1 GTAAGTTAT
*
106655819 GATATATATTTAT
1 G---TA-AGTTAT
106655832 GT-A-TTAT
1 GTAAGTTAT
* *
106655839 GTTAGTTGT
1 GTAAGTTAT
106655848 GTAAGTTAT
1 GTAAGTTAT
* *
106655857 GATATGATAT
1 G-TAAGTTAT
* *
106655867 AT-ATTTAT
1 GTAAGTTAT
*
106655875 GT-A-TTGT
1 GTAAGTTAT
*
106655882 GTAAGTTTT
1 GTAAGTTAT
106655891 GTAAGTTAT
1 GTAAGTTAT
106655900 GTAAGTTAT
1 GTAAGTTAT
106655909 TATATGATAT
Statistics
Matches: 159, Mismatches: 37, Indels: 36
0.69 0.16 0.16
Matches are distributed among these distances:
7 17 0.11
8 24 0.15
9 83 0.52
10 27 0.17
11 1 0.01
13 7 0.04
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:106655750 original size:36 final size:36
Alignment explanation
Indices: 106655703--106655778 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
106655693 AAGTAAGCTT
* *
106655703 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGATATGTAAGTTATGATATGATATACATTTA
*
106655739 TGTAAGATATGTAAGTTATGATATGATATATATTTA
1 TGTAAGATATGTAAGTTATGATATGATATACATTTA
106655775 TGTA
1 TGTA
106655779 TTATGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (36 bp):
TGTAAGATATGTAAGTTATGATATGATATACATTTA
Found at i:106655824 original size:13 final size:13
Alignment explanation
Indices: 106655806--106655832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106655796 GTTATGATAA
106655806 GATATATATTTAT
1 GATATATATTTAT
106655819 GATATATATTTAT
1 GATATATATTTAT
106655832 G
1 G
106655833 TATTATGTTA
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:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
GATATATATTTAT
Found at i:106655827 original size:56 final size:56
Alignment explanation
Indices: 106655760--106655921 Score: 233
Period size: 56 Copynumber: 3.0 Consensus size: 56
106655750 TAAGTTATGA
*
106655760 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
*
106655816 TATGATATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
* * * * *
106655872 TATG-TAT-TGTGTAAGT-TT-TGTAAGTTATGTAAGTTATTATATGATATATA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATA
106655922 ATAAACATTA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 29 0.30
53 2 0.02
54 6 0.06
55 3 0.03
56 58 0.59
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
Found at i:106655879 original size:43 final size:43
Alignment explanation
Indices: 106655736--106655819 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
106655726 TGATATACAT
* *
106655736 TTATGTAAGATATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
106655779 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATG
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
106655820 ATATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:106655894 original size:43 final size:43
Alignment explanation
Indices: 106655736--106655900 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 43
106655726 TGATATACAT
* *
106655736 TTATGTAAGATATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTTTGTAAGTTATGATATGATATATATTTATGTA
* *
106655779 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATA
1 TTATGTAAGTTTTGTAAGTTATGATATGATATATATTTATG-TA
* * * *
106655823 TATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 T-TATGTAAGT-TT-TGTAAGTTATG--A--TATG-----ATATATATTTATGTA
*
106655878 TTGTGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTTTGTAAGTTATG
106655901 TAAGTTATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 17
0.75 0.11 0.13
Matches are distributed among these distances:
43 38 0.40
44 3 0.03
45 7 0.07
46 1 0.01
47 9 0.09
49 1 0.01
51 3 0.03
52 9 0.09
53 2 0.02
54 6 0.06
55 3 0.03
56 13 0.14
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTTTGTAAGTTATGATATGATATATATTTATGTA
Found at i:106655913 original size:43 final size:43
Alignment explanation
Indices: 106655819--106655913 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
106655809 ATATATTTAT
* *
106655819 GATATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATAT
1 GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
* *
106655862 GATATATATTTATGTATTGTGTAAGTTTTGTAAGTTATG-TAA
1 GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
*
106655904 GTTATTATAT
1 GATA-TATAT
106655914 GATATATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 5 0.11
43 41 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.52
Consensus pattern (43 bp):
GATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAA
Found at i:106656345 original size:10 final size:9
Alignment explanation
Indices: 106656299--106656345 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
106656289 AATTATATTA
106656299 ATTGATAAAT
1 ATTGA-AAAT
106656309 ATTG-AAAT
1 ATTGAAAAT
106656317 ATTGAAATAT
1 ATTGAAA-AT
*
106656327 ATTTAAAAT
1 ATTGAAAAT
106656336 ATTGATAAAT
1 ATTGA-AAAT
106656346 GAAATATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (9 bp):
ATTGAAAAT
Found at i:106656359 original size:26 final size:27
Alignment explanation
Indices: 106656305--106656359 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
106656295 ATTAATTGAT
**
106656305 AAATATTGAAATATTGAAATATATTTA
1 AAATATTGAAATATTGAAATATAAGTA
106656332 AAATATTGATAA-A-TGAAATATAAGTA
1 AAATATTGA-AATATTGAAATATAAGTA
106656358 AA
1 AA
106656360 TCATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATATTGAAATATTGAAATATAAGTA
Found at i:106658257 original size:2 final size:2
Alignment explanation
Indices: 106658252--106658279 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
106658242 TTGTTATTAA
106658252 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
106658280 TTACTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106659733 original size:117 final size:114
Alignment explanation
Indices: 106659468--106659738 Score: 280
Period size: 117 Copynumber: 2.3 Consensus size: 114
106659458 TTAACATTTG
* * * * * *
106659468 CGGCGTTTTAAC-ATAAACGCCACTAAAAAT-CAAACAAAACGACGCCGTTTTGATATAAATAGA
1 CGGCGTTTTACCTA-AAACGCCACT-AAAATCCAAAAAAAACGACGCCATTTTCATATAAACACA
* *
106659531 ATAAACTTTAGTGGCATTTTTCCCCTAGCGCCGCTAAAGGCAAATCAATTA
64 ATAAACTTTAGTGGCATTTTTCCCCAAGCGCCCCTAAAGGCAAATCAATTA
* * * *
106659582 CGGCATTTAAGCCTAAAACGCCACTAAAAGTCCAAAAAAAACGATGGCATTTTCATATAAACACA
1 CGGCGTTTTA-CCTAAAACGCCACTAAAA-TCCAAAAAAAACGACGCCATTTTCATATAAACACA
* * *
106659647 AT-AACATTTAGTGGCATTTTATCTCCAAGCGCCCCTAAAGGCGAAA-CTATTG
64 ATAAAC-TTTAGTGGCATTTT-TCCCCAAGCGCCCCTAAAGGC-AAATCAATTA
* *
106659699 TGGCGTTTTACCTTAAAACGCCACTAAGAATCCAATAAAA
1 CGGCGTTTTACC-TAAAACGCCACTAA-AATCCAAAAAAA
106659739 CTACACTGTT
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
114 12 0.09
115 15 0.12
116 45 0.35
117 52 0.40
118 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (114 bp):
CGGCGTTTTACCTAAAACGCCACTAAAATCCAAAAAAAACGACGCCATTTTCATATAAACACAAT
AAACTTTAGTGGCATTTTTCCCCAAGCGCCCCTAAAGGCAAATCAATTA
Found at i:106659739 original size:116 final size:113
Alignment explanation
Indices: 106659468--106659777 Score: 277
Period size: 116 Copynumber: 2.7 Consensus size: 113
106659458 TTAACATTTG
* * * * *
106659468 CGGCGTTTTAAC-ATAAACGCCACTAAAAAT-CAAACAAAACGACGCCGTTTTGATATAAATAGA
1 CGGCGTTTTACCTA-AAACGCCACT-AAAATCCAAA-AAAACGACGCCATTTTCATATAAACACA
* *
106659531 ATAAACTTTAGTGGCATTTTTCCCCTAGCGCCGCTAAAGGCAAATCAATTA
63 ATAAACTTTAGTGGCATTTTTCCCCAAGCGCCCCTAAAGGCAAATCAATTA
* * * *
106659582 CGGCATTTAAGCCTAAAACGCCACTAAAAGTCCAAAAAAAACGATGGCATTTTCATATAAACACA
1 CGGCGTTTTA-CCTAAAACGCCACTAAAA-TCC-AAAAAAACGACGCCATTTTCATATAAACACA
* * *
106659647 AT-AACATTTAGTGGCATTTTATCTCCAAGCGCCCCTAAAGGCGAAA-CTATTG
63 ATAAAC-TTTAGTGGCATTTT-TCCCCAAGCGCCCCTAAAGGC-AAATCAATTA
* * * * ** * *
106659699 TGGCGTTTTACCTTAAAACGCCACTAAGAATCCAATAAAACTACACTGTTTTGATATAAACAAAA
1 CGGCGTTTTACC-TAAAACGCCACTAA-AATCCAAAAAAACGACGCCATTTTCATATAAACACAA
* *
106659764 TAACCATTAGTGGC
64 TAAACTTTAGTGGC
106659778 GTTTATACCC
Statistics
Matches: 157, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
114 12 0.08
115 15 0.10
116 74 0.47
117 51 0.32
118 5 0.03
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (113 bp):
CGGCGTTTTACCTAAAACGCCACTAAAATCCAAAAAAACGACGCCATTTTCATATAAACACAATA
AACTTTAGTGGCATTTTTCCCCAAGCGCCCCTAAAGGCAAATCAATTA
Found at i:106659870 original size:97 final size:98
Alignment explanation
Indices: 106659713--106659895 Score: 307
Period size: 97 Copynumber: 1.9 Consensus size: 98
106659703 GTTTTACCTT
* *
106659713 AAAACGCCACTAAGAATCCAATAAAACTACACTGTTTTGATATAAACAAAATAACCATTAGTGGC
1 AAAACGCCACTAAAAATCCAATAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGC
106659778 GTTTAT-ACCCTGCGCCGCTAGCGTTTTAACCA
66 GTTTATAACCCTGCGCCGCTAGCGTTTTAACCA
*
106659810 AAAACGCCACTAAAAATCC-ATAAAAACTACACCGTTTTGATATAAACAAAATAACTATTAGTGG
1 AAAACGCCACTAAAAATCCAAT-AAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGG
*
106659874 CGTTTATAACCTTGCGCCGCTA
65 CGTTTATAACCCTGCGCCGCTA
106659896 AATCAAACCT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
96 2 0.03
97 65 0.81
98 13 0.16
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (98 bp):
AAAACGCCACTAAAAATCCAATAAAACTACACCGTTTTGATATAAACAAAATAACCATTAGTGGC
GTTTATAACCCTGCGCCGCTAGCGTTTTAACCA
Found at i:106660005 original size:114 final size:114
Alignment explanation
Indices: 106659801--106660013 Score: 272
Period size: 114 Copynumber: 1.9 Consensus size: 114
106659791 GCCGCTAGCG
** *
106659801 TTTTAACCAAAAACGCCACTAAAAATCCATAAAAACTACACCGTTTTGATATAAACAAAATAACT
1 TTTTAACCAAAAACGCCACTAAAAATCCATAAAAAAAACACCGTCTTGATATAAACAAAATAACT
* *
106659866 ATTAGTGGCGTTTATAACCTTGCGCCGCTAAATCAAACCTATTGCGGCA
66 ATTAGCGGCGTTTATAACCTAGCGCCGCTAAATCAAACCTATTGCGGCA
* * * *
106659915 TTTTAACCTAAAACGCCACTAAAAATCCA-AAAAAAAACGATGTCGTCTTG-TAT-AATAGAATA
1 TTTTAACCAAAAACGCCACTAAAAATCCATAAAAAAAAC-A--CCGTCTTGATATAAACAAAATA
*
106659977 ACCT-TTAGCGGCGTTTATACCCTAGCGCCGCTAAATC
63 A-CTATTAGCGGCGTTTATAACCTAGCGCCGCTAAATC
106660014 CAATGTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
113 7 0.08
114 67 0.79
115 5 0.06
116 6 0.07
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (114 bp):
TTTTAACCAAAAACGCCACTAAAAATCCATAAAAAAAACACCGTCTTGATATAAACAAAATAACT
ATTAGCGGCGTTTATAACCTAGCGCCGCTAAATCAAACCTATTGCGGCA
Done.