Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 366 of 378
Found at i:109667574 original size:15 final size:15
Alignment explanation
Indices: 109667528--109667574 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
109667518 ACTTGTTTCA
*
109667528 AACATGAGTTGTTTT
1 AACAAGAGTTGTTTT
*
109667543 GAAC-ATAGTTGTTTTT
1 -AACAAGAGTTG-TTTT
109667559 AACAAGAGTTGTTTT
1 AACAAGAGTTGTTTT
109667574 A
1 A
109667575 TGGTGATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (15 bp):
AACAAGAGTTGTTTT
Found at i:109668026 original size:55 final size:55
Alignment explanation
Indices: 109667960--109668070 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
109667950 GTCTGTATTA
109667960 CCTCTTTACCTCCAAATGAATTCATCAATGTCTCCTTGAACGAGATGTACTCCCC
1 CCTCTTTACCTCCAAATGAATTCATCAATGTCTCCTTGAACGAGATGTACTCCCC
109668015 CCTCTTTACCTCCAAATGAATTCATCAATGTCTCCTTGAACGAGATGTACTCCCC
1 CCTCTTTACCTCCAAATGAATTCATCAATGTCTCCTTGAACGAGATGTACTCCCC
109668070 C
1 C
109668071 TCTGAGGAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (55 bp):
CCTCTTTACCTCCAAATGAATTCATCAATGTCTCCTTGAACGAGATGTACTCCCC
Found at i:109689045 original size:19 final size:19
Alignment explanation
Indices: 109689021--109689059 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
109689011 CCAAGTCCAA
109689021 AAACACATTGCTTGAAAAT
1 AAACACATTGCTTGAAAAT
109689040 AAACACATTGCTTGAAAAT
1 AAACACATTGCTTGAAAAT
109689059 A
1 A
109689060 CTGATCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (19 bp):
AAACACATTGCTTGAAAAT
Found at i:109693484 original size:131 final size:129
Alignment explanation
Indices: 109693250--109693579 Score: 468
Period size: 131 Copynumber: 2.6 Consensus size: 129
109693240 CTATTCATTC
* * *
109693250 AAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGGAATCGTGCCATATCGTG
1 AAAAATTC-TTAAAACGAAGGAAATGTTCGATGTTTGACAATTCAGGGAATCGTGCCCTACCGTG
* **
109693315 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT-TT
109693380 T
129 T
* **
109693381 AAAAATTCTTCAAAACGAAGGAAATGTTCGGTGTTTGACAATTTGGGGAATCGTGCCCTACCGTG
1 AAAAATTCTT-AAAACGAAGGAAATGTTCGATGTTTGACAATTCAGGGAATCGTGCCCTACCGTG
109693446 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
** * * * *
109693511 CTAAATTC-TAAAAC-AAAGCAATGTTCAATGTTTGGA-AATTCCGGGAATCGTGCCCTACCGTG
1 AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTT-GACAATTCAGGGAATCGTGCCCTACCGTG
109693573 CTGGGTT
65 CTGGGTT
109693580 TTGATTTTTC
Statistics
Matches: 180, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
127 46 0.26
128 7 0.04
129 1 0.01
130 11 0.06
131 115 0.64
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGAAATGTTCGATGTTTGACAATTCAGGGAATCGTGCCCTACCGTGC
TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:109695950 original size:16 final size:15
Alignment explanation
Indices: 109695929--109695959 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
109695919 GTTATTTTTG
109695929 TTTTACTCATGTTATA
1 TTTTACTCAT-TTATA
109695945 TTTTACTCATTTATA
1 TTTTACTCATTTATA
109695960 CTTGAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTTACTCATTTATA
Found at i:109696786 original size:7 final size:7
Alignment explanation
Indices: 109696776--109696826 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
109696766 CTTCAAATGG
109696776 TAAATTT
1 TAAATTT
109696783 TAAA-TT
1 TAAATTT
*
109696789 TAATTTTT
1 TAA-ATTT
109696797 TATAATTT
1 TA-AATTT
109696805 ATAAAATTT
1 -T-AAATTT
109696814 TAAATTT
1 TAAATTT
109696821 TAAATT
1 TAAATT
109696827 AATAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 5 0.14
7 16 0.43
8 8 0.22
9 7 0.19
10 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:109697640 original size:15 final size:15
Alignment explanation
Indices: 109697620--109697652 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
109697610 AAGACTGTGA
109697620 AAAATAAA-ATAGAAT
1 AAAATAAATA-AGAAT
109697635 AAAATAAATAAGAAT
1 AAAATAAATAAGAAT
109697650 AAA
1 AAA
109697653 GAACACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAGAAT
Found at i:109702102 original size:9 final size:9
Alignment explanation
Indices: 109702077--109702107 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
109702067 AATTTGTGAA
109702077 AAATAAAAT
1 AAATAAAAT
109702086 AGAATAAAAT
1 A-AATAAAAT
109702096 AAATAAAAT
1 AAATAAAAT
109702105 AAA
1 AAA
109702108 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:109708214 original size:24 final size:25
Alignment explanation
Indices: 109708187--109708243 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
109708177 TAATTGGAAG
109708187 GTTTTTAGTCTGCT-GTTTTGGCAC
1 GTTTTTAGTCTGCTAGTTTTGGCAC
* *
109708211 GTTTAT-GTCTGCTATTTTTGGCAC
1 GTTTTTAGTCTGCTAGTTTTGGCAC
109708235 GTTTCTTAG
1 GTTT-TTAG
109708244 GATTTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 1 0.04
26 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (25 bp):
GTTTTTAGTCTGCTAGTTTTGGCAC
Found at i:109710709 original size:14 final size:14
Alignment explanation
Indices: 109710687--109710722 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
109710677 GTTTTGTTTC
109710687 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
109710702 ATTATTTTATTTAT
1 ATTATTTTATATAT
109710716 ATTATTT
1 ATTATTT
109710723 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:109710758 original size:23 final size:20
Alignment explanation
Indices: 109710742--109710789 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
109710732 TATATATAAA
109710742 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
109710762 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
109710779 TTTTATTATAT
1 TTTTATTATAT
109710790 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:109710767 original size:20 final size:18
Alignment explanation
Indices: 109710693--109710797 Score: 86
Period size: 18 Copynumber: 5.5 Consensus size: 18
109710683 TTTCATTACT
* *
109710693 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
109710711 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
* *
109710734 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
109710752 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
109710772 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
109710789 TTTTTATAT
1 TTTATATAT
109710798 GTAAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.14
18 25 0.36
19 9 0.13
20 11 0.16
21 1 0.01
22 4 0.06
23 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:109710796 original size:25 final size:28
Alignment explanation
Indices: 109710744--109710797 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
109710734 TATATAAATT
*
109710744 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
109710772 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
109710797 T
1 T
109710798 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:109722828 original size:18 final size:18
Alignment explanation
Indices: 109722807--109722843 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
109722797 TTTATTTTCA
*
109722807 GCACAAAATTTTTAACTT
1 GCACAAAACTTTTAACTT
109722825 GCACAAAACTTTTAACTT
1 GCACAAAACTTTTAACTT
109722843 G
1 G
109722844 TTCCTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (18 bp):
GCACAAAACTTTTAACTT
Found at i:109732910 original size:1 final size:1
Alignment explanation
Indices: 109732904--109732935 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
109732894 TTGGTTGGAA
109732904 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
109732936 GCAAGGAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:109736735 original size:31 final size:31
Alignment explanation
Indices: 109736700--109736759 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
109736690 TATTTTATTA
109736700 TTAATTTTACTACTATTTTAGAAGTATTTGT
1 TTAATTTTACTACTATTTTAGAAGTATTTGT
**
109736731 TTAATTTTGTTACTATTTTAGAAGTATTT
1 TTAATTTTACTACTATTTTAGAAGTATTT
109736760 ACTTATTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (31 bp):
TTAATTTTACTACTATTTTAGAAGTATTTGT
Found at i:109738432 original size:25 final size:25
Alignment explanation
Indices: 109738398--109738447 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
109738388 TTCATGGGTC
*
109738398 GGATTCGGTTGATATTAATAGATTT
1 GGATTCGGTTGATATTAACAGATTT
109738423 GGATTCGGTTGATATTAACAGATTT
1 GGATTCGGTTGATATTAACAGATTT
109738448 TATGTTTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (25 bp):
GGATTCGGTTGATATTAACAGATTT
Found at i:109739186 original size:121 final size:121
Alignment explanation
Indices: 109738971--109739188 Score: 305
Period size: 121 Copynumber: 1.8 Consensus size: 121
109738961 CTTATGCATT
* * * * *
109738971 TGAAATTTCAAAAGGATATTTGGCTATCTGGTCAAACGGTAAGTCGAAACCTAGCACGATTGGGT
1 TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGGC
* **
109739036 ACGATTTCTCGAATTTCTAAATGCAAAATATTGCCTCAAATTTAAGAAAACATGAA
66 ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
* *
109739092 TGAAACTTCAAAAGGATATTTAGTTAT-TCGGTCAAACGGAAAATCGAAACTTAGCACG-TTAGG
1 TGAAACTTCAAAAGGATATTTAGCTATCT-GGTCAAACGGAAAATCGAAACCTAGCACGATT-GG
*
109739155 GCACGATTTCTCGAATTTCCAAACACGAAATATT
64 GCACGATTTCTCGAATTTCCAAACACAAAATATT
109739189 TTCTTATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
120 3 0.04
121 81 0.96
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (121 bp):
TGAAACTTCAAAAGGATATTTAGCTATCTGGTCAAACGGAAAATCGAAACCTAGCACGATTGGGC
ACGATTTCTCGAATTTCCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGAA
Found at i:109740036 original size:14 final size:14
Alignment explanation
Indices: 109740017--109740049 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
109740007 AAAACAGAAT
109740017 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
109740031 GAAAATAACAACAA
1 GAAAATAACAACAA
109740045 GAAAA
1 GAAAA
109740050 AAAAAGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:109740535 original size:24 final size:24
Alignment explanation
Indices: 109740506--109740551 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
109740496 GGAGTGGTTT
*
109740506 AGTGGGGTGATGGAGTTAGTGGCA
1 AGTGGGGTGACGGAGTTAGTGGCA
109740530 AGTGGGGTGACGGAGTTAGTGG
1 AGTGGGGTGACGGAGTTAGTGG
109740552 TCGGTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.52, T:0.24
Consensus pattern (24 bp):
AGTGGGGTGACGGAGTTAGTGGCA
Found at i:109742524 original size:177 final size:176
Alignment explanation
Indices: 109742215--109742604 Score: 654
Period size: 177 Copynumber: 2.2 Consensus size: 176
109742205 GAGATACTTC
*
109742215 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* *
109742280 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCGAAATTGAATTCTTTAAGTGACCCAAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
109742345 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * *
109742392 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCCACTGACTTAG
1 AGCTTTCTCTGG-CTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAG
* * *
109742457 TAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGTG
65 TAGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
*
109742522 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
130 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
*
109742569 AGCTTTCTCTGGTTTTCCATTGTATGTTTCACCAAC
1 AGCTTTCTCTGGCTTT-CATTGTATGTTTCACCAAC
109742605 TCTACATACA
Statistics
Matches: 199, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 3 0.02
177 196 0.98
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (176 bp):
AGCTTTCTCTGGCTTTCATTGTATGTTTCACCAACACGACATTCATAAGTTTCCACCGACTTAGT
AGCATTTTCTTCTATCTCGCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTGA
TGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:109742634 original size:177 final size:175
Alignment explanation
Indices: 109742215--109742654 Score: 639
Period size: 177 Copynumber: 2.5 Consensus size: 175
109742205 GAGATACTTC
* *
109742215 AGCTTTCTCTGGTCTTTCATTGTATGTTTCACCAACACGACATTCATGAGTTTCCACCGACTTAG
1 AGCTTTCTCTGGT-TTTCATTGTATGTTTCACCAACACGACATTCA-GAATTTCCAACGACTTAG
** *
109742280 TAGCATTTTCTTCTATCTCGGCATTAACATTGTCGAAATTGAATTCTTTAAGTGACCCAAGAGTG
64 TAGCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTG
109742345 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
129 ATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * *
109742392 AGCTTGCTCTGGCCTTTCATTGTATGTTTCACCAACACGACCTTCATAAGTTTCC-ACTGACTTA
1 AGCTTTCTCTGG-TTTTCATTGTATGTTTCACCAACACGACATTCAGAA-TTTCCAAC-GACTTA
* *
109742456 GTAGCATTTTCTTCTATCTCTCCATTAATATTGTCGAAATTGAATTCTTTAACTGACCCGAGAGT
63 GTAGCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGT
*
109742521 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCTATCTGCTGG
128 GATGGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
* * * *
109742569 AGCTTTCTCTGGTTTTCCATTGTATGTTTCACCAACTCTACATACAGAATTATCCAACAACTTAG
1 AGCTTTCTCTGGTTTT-CATTGTATGTTTCACCAACACGACATTCAGAATT-TCCAACGACTTAG
* * *
109742634 TGGCGTTTTCTTCTCTCTCTC
64 TAGCATTTTCTTCTATCTCTC
109742655 TTGCTGCTTC
Statistics
Matches: 234, Mismatches: 23, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
176 7 0.03
177 225 0.96
178 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (175 bp):
AGCTTTCTCTGGTTTTCATTGTATGTTTCACCAACACGACATTCAGAATTTCCAACGACTTAGTA
GCATTTTCTTCTATCTCTCCATTAACATTGTCGAAATTGAATTCTTTAACTGACCCAAGAGTGAT
GGATCGGTTCTTATGGTGCTGTGGTTTGCCTTCCCCATCTGCTGG
Found at i:109748140 original size:69 final size:69
Alignment explanation
Indices: 109748067--109748205 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
109748057 TCTCTAACTG
109748067 AATGAAGCAAACTGTATTATTTTAAAAGTATTTTTATTCTTATATATTTTTATATTAAAAAATAT
1 AATGAAGCAAACTGTATTATTTTAAAAGTATTTTTATTCTTATATATTTTTATATTAAAAAATAT
109748132 ATAT
66 ATAT
*
109748136 AATGAAGTAAACTGTATTATTTTAAAAGTATTTTTATTCTTATATATTTTTATATTAAAAAATAT
1 AATGAAGCAAACTGTATTATTTTAAAAGTATTTTTATTCTTATATATTTTTATATTAAAAAATAT
109748201 ATAT
66 ATAT
109748205 A
1 A
109748206 TACACAAAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (69 bp):
AATGAAGCAAACTGTATTATTTTAAAAGTATTTTTATTCTTATATATTTTTATATTAAAAAATAT
ATAT
Found at i:109752672 original size:20 final size:19
Alignment explanation
Indices: 109752635--109752691 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
109752625 TTTTAAAAAA
*
109752635 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
109752653 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
109752672 TAAAAATTATTTTG-ATTTT
1 TATAAA-TATTTTGAATTTT
109752691 T
1 T
109752692 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 7 0.20
19 21 0.60
20 7 0.20
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:109753082 original size:31 final size:31
Alignment explanation
Indices: 109753047--109753105 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
109753037 GAATAATTAC
109753047 TGAACAATAT-GAAAGTTTTCATTTAAGTAAT
1 TGAACAAT-TCGAAAGTTTTCATTTAAGTAAT
* *
109753078 TGAACTATTCGAAAGTTTTTATTTAAGT
1 TGAACAATTCGAAAGTTTTCATTTAAGT
109753106 TGTTAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (31 bp):
TGAACAATTCGAAAGTTTTCATTTAAGTAAT
Found at i:109764622 original size:29 final size:29
Alignment explanation
Indices: 109764581--109764644 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
109764571 AATGAGTTAT
*
109764581 ATGAC-AGACATCCTTCACATGCGCAATG
1 ATGACAAGACATCCTTCACATGCACAATG
*
109764609 ATGACAAGACATCCTTCTCATGCACAATG
1 ATGACAAGACATCCTTCACATGCACAATG
109764638 ATGACAA
1 ATGACAA
109764645 CACCTCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
ATGACAAGACATCCTTCACATGCACAATG
Found at i:109778423 original size:66 final size:66
Alignment explanation
Indices: 109778353--109778476 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
109778343 CAATTTTGTC
* * *
109778353 TTTTTTAGTCACCAAAATGGAAACATCC-AATATCCAAGATAGTTGGGTGACAAAAAAAAGTTGG
1 TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTT-AGTGACAAAAAAAAGTTGG
109778417 CT
65 CT
* * * *
109778419 TTTTTTGGTCTCCAAAATGGAGACATCCAAAAATCCAAAATAGTTAGTGATAAAAAAA
1 TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTTAGTGACAAAAAAA
109778477 GACAAAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 36 0.72
67 14 0.28
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (66 bp):
TTTTTTAGTCACCAAAATGGAAACATCCAAAAATCCAAAATAGTTAGTGACAAAAAAAAGTTGGC
T
Found at i:109781223 original size:26 final size:26
Alignment explanation
Indices: 109781187--109781239 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
109781177 GGAGAGGAGA
109781187 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
109781213 TTATGACATTTAAGATAGTTGAAGGC
1 TTATGACATTTAAGATAGTTGAAGGC
109781239 T
1 T
109781240 GGGAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TTATGACATTTAAGATAGTTGAAGGC
Found at i:109781421 original size:15 final size:15
Alignment explanation
Indices: 109781401--109781432 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
109781391 GGAGCCTGCT
109781401 CTAATATTCCTTTTG
1 CTAATATTCCTTTTG
109781416 CTAATATTCCTTTTG
1 CTAATATTCCTTTTG
109781431 CT
1 CT
109781433 GAAGTTGTAC
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:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (15 bp):
CTAATATTCCTTTTG
Found at i:109785022 original size:16 final size:16
Alignment explanation
Indices: 109785001--109785032 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
109784991 GTTTGGAATT
109785001 CAAGTTTGGATTTAGG
1 CAAGTTTGGATTTAGG
109785017 CAAGTTTGGATTTAGG
1 CAAGTTTGGATTTAGG
109785033 GCTCAGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
CAAGTTTGGATTTAGG
Found at i:109787545 original size:20 final size:20
Alignment explanation
Indices: 109787520--109787603 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
109787510 AAAATTTTAC
* *
109787520 AAAAACGTATTAAAATTCTT
1 AAAAACTTATTAAAATTATT
*
109787540 AAAAACTTATAAAAAATTATT
1 AAAAACTTAT-TAAAATTATT
*
109787561 TAAAA--TATTAAAATTGA-T
1 AAAAACTTATTAAAATT-ATT
* *
109787579 ATAAACTTATGAAAATTATT
1 AAAAACTTATTAAAATTATT
109787599 AAAAA
1 AAAAA
109787604 AATCATAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
18 10 0.20
19 5 0.10
20 23 0.46
21 12 0.24
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAACTTATTAAAATTATT
Found at i:109787570 original size:39 final size:38
Alignment explanation
Indices: 109787527--109787603 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
109787517 TACAAAAACG
* *
109787527 TATTAAAATTCTTAAAAACTTATAAAAAATTATTTAAAA
1 TATTAAAATTCATAAAAACTTAT-AAAAATTATTAAAAA
* * *
109787566 TATTAAAATTGATATAAACTTATGAAAATTATTAAAAA
1 TATTAAAATTCATAAAAACTTATAAAAATTATTAAAAA
109787604 AATCATAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 13 0.39
39 20 0.61
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (38 bp):
TATTAAAATTCATAAAAACTTATAAAAATTATTAAAAA
Found at i:109787602 original size:9 final size:9
Alignment explanation
Indices: 109787474--109787602 Score: 59
Period size: 10 Copynumber: 13.3 Consensus size: 9
109787464 AAATTCTAAT
109787474 AAATTA-TA
1 AAATTATTA
109787482 AAATTATTTA
1 AAATTA-TTA
*
109787492 AACA-TATTT
1 AA-ATTATTA
109787501 AAATTATTTA
1 AAATTA-TTA
109787511 AAATT-TTACAA
1 AAATTATT---A
*
109787522 AAACGTATTA
1 AAA-TTATTA
*
109787532 AAATTCTTAA
1 AAATTATT-A
*
109787542 AAACTTATAAA
1 AAA-TTAT-TA
109787553 AAATTATTTA
1 AAATTA-TTA
109787563 AAA-TATTA
1 AAATTATTA
109787571 AAATTGATATA
1 AAATT-AT-TA
* *
109787582 AACTTATGA
1 AAATTATTA
109787591 AAATTATTA
1 AAATTATTA
109787600 AAA
1 AAA
109787603 AAATCATAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
8 15 0.16
9 23 0.25
10 32 0.35
11 19 0.21
12 1 0.01
13 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (9 bp):
AAATTATTA
Found at i:109788187 original size:16 final size:16
Alignment explanation
Indices: 109788166--109788199 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
109788156 TCGATATAAT
109788166 TTATATTTTATTAGAA
1 TTATATTTTATTAGAA
*
109788182 TTATATTTTATTATAA
1 TTATATTTTATTAGAA
109788198 TT
1 TT
109788200 TTTATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATATTTTATTAGAA
Found at i:109790316 original size:37 final size:36
Alignment explanation
Indices: 109790267--109790340 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
109790257 TTATACATGA
* *
109790267 AATATTTGAATAATTTAATACAAAGATATTTATAAAT
1 AATATTTAAATAATTTAATACAAAGATATATA-AAAT
* *
109790304 AATATTTAAATAATTTAATATAATGATATATAAAAT
1 AATATTTAAATAATTTAATACAAAGATATATAAAAT
109790340 A
1 A
109790341 TTAATTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 5 0.15
37 28 0.85
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (36 bp):
AATATTTAAATAATTTAATACAAAGATATATAAAAT
Found at i:109790351 original size:32 final size:36
Alignment explanation
Indices: 109790267--109790353 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 36
109790257 TTATACATGA
*
109790267 AATATTTGAATAATTTAATACAAAGATATTTATAAAT
1 AATATTTAAATAATTTAATACAAAGATA-TTATAAAT
* *
109790304 AATATTTAAATAATTTAATATAATGATA-TAT-AA-
1 AATATTTAAATAATTTAATACAAAGATATTATAAAT
*
109790337 AATA-TTAATTAATTTAA
1 AATATTTAAATAATTTAA
109790354 AATTTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 12 0.26
33 4 0.09
34 2 0.04
35 3 0.07
37 25 0.54
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (36 bp):
AATATTTAAATAATTTAATACAAAGATATTATAAAT
Found at i:109790354 original size:17 final size:18
Alignment explanation
Indices: 109790320--109790381 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 18
109790310 TAAATAATTT
* *
109790320 AATA-TAATGATATATAA
1 AATATTAATTATATTTAA
109790337 AATATTAATTA-ATTTAA
1 AATATTAATTATATTTAA
* * *
109790354 AATTTTAAATATTTTTAA
1 AATATTAATTATATTTAA
109790372 AATAATTAAT
1 AAT-ATTAAT
109790382 ATAAAGAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 18 0.51
18 13 0.37
19 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATATTAATTATATTTAA
Found at i:109799340 original size:12 final size:12
Alignment explanation
Indices: 109799323--109799357 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
109799313 TTCTTTCAGC
109799323 TGTTTTTTTTTT
1 TGTTTTTTTTTT
*
109799335 TGTTTTTTTGTT
1 TGTTTTTTTTTT
109799347 TGTTTGTTTTT
1 TGTTT-TTTTT
109799358 ACTATTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TGTTTTTTTTTT
Found at i:109799342 original size:8 final size:8
Alignment explanation
Indices: 109799325--109799357 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
109799315 CTTTCAGCTG
109799325 TTTT-TTT
1 TTTTGTTT
109799332 TTTTGTTT
1 TTTTGTTT
109799340 TTTTGTTT
1 TTTTGTTT
*
109799348 GTTTGTTT
1 TTTTGTTT
109799356 TT
1 TT
109799358 ACTATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTGTTT
Found at i:109805550 original size:133 final size:133
Alignment explanation
Indices: 109805312--109805579 Score: 473
Period size: 133 Copynumber: 2.0 Consensus size: 133
109805302 ATGCACAATG
* *
109805312 TGCTCATAAAAGAAGAGACATTCTTGCCCTAGTATGCAAACCCAAACCAAAAGAAAAACATTTAA
1 TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
* * *
109805377 CACAAATAATTTACAATCACTTTCAAGCTCTGGGGAATCCATAACTACCATTCCTGAGATATTTA
66 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
109805442 GGC
131 GGC
* *
109805445 TGCTCGTAAAAGAAGAGACATTCTTGCCCCAGTATGCAAATCCAAACCAAAAGAAAAACAATTAA
1 TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
109805510 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
66 CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
109805575 GGC
131 GGC
109805578 TG
1 TG
109805580 AGATATGCAG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 128 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (133 bp):
TGCTCATAAAAGAAGAGACATTCTTGCCCCAGTATGCAAACCCAAACCAAAAGAAAAACAATTAA
CACAAATAATTTACAATCACTTTCAAACTCTGGGGAATCCAGAACTACCATTCCTGAAATATTTA
GGC
Found at i:109811016 original size:29 final size:29
Alignment explanation
Indices: 109810967--109811022 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
109810957 ATTCAAGACT
* **
109810967 AGAGTTTGAGGGGAGTTTTTTGGGAGAAA
1 AGAGTTTGAGGAGAGAGTTTTGGGAGAAA
*
109810996 AGAGTTTGAGGAGAGAGTTTTTGGAGA
1 AGAGTTTGAGGAGAGAGTTTTGGGAGA
109811023 GGCTAAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.30
Consensus pattern (29 bp):
AGAGTTTGAGGAGAGAGTTTTGGGAGAAA
Found at i:109811331 original size:3 final size:3
Alignment explanation
Indices: 109811310--109811353 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
109811300 GGGAAGAGTG
* * * *
109811310 TTA TTT TTA TTA CTA TTA TTA TTA TTA TCA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
109811354 TTTAATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:109811484 original size:19 final size:19
Alignment explanation
Indices: 109811461--109811522 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
109811451 TTATATATTT
109811461 TTATTATTGTTATTAACATA
1 TTATTATT-TTATTAACATA
109811481 -TATTA--TTATTAACATA
1 TTATTATTTTATTAACATA
**
109811497 TTATT-TTTTATTAATGTA
1 TTATTATTTTATTAACATA
109811515 TTATTATT
1 TTATTATT
109811523 ATTTGCATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
18 14 0.39
19 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTATTATTTTATTAACATA
Found at i:109811489 original size:16 final size:16
Alignment explanation
Indices: 109811465--109811523 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
109811455 ATATTTTTAT
*
109811465 TATTGTTATTAACATA
1 TATTATTATTAACATA
109811481 TATTATTATTAACATA
1 TATTATTATTAACATA
* *
109811497 TTATTTTTTATT-A-ATG
1 -TA-TTATTATTAACATA
109811513 TATTATTATTA
1 TATTATTATTA
109811524 TTTGCATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 7 0.19
15 2 0.06
16 17 0.47
17 3 0.08
18 7 0.19
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTATTATTAACATA
Found at i:109812275 original size:30 final size:30
Alignment explanation
Indices: 109812236--109812317 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
109812226 AAAACCCTAG
* ** *
109812236 CCACATTGCCTCTGACTTGCACCTATTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
109812266 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
109812296 CCACCTTGCCTCCCACTTGCAC
1 CCACCTTGCCTCCCACTTGCAC
109812318 TTATACCATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.17, C:0.49, G:0.09, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:109812654 original size:16 final size:16
Alignment explanation
Indices: 109812633--109812665 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
109812623 AAAAAAAATA
*
109812633 ATATGTTAATAATAAT
1 ATATGTTAATAACAAT
109812649 ATATGTTAATAACAAT
1 ATATGTTAATAACAAT
109812665 A
1 A
109812666 ATAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATGTTAATAACAAT
Found at i:109812769 original size:21 final size:21
Alignment explanation
Indices: 109812742--109812787 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
109812732 GTGGTAGTAT
*
109812742 AATAAAAA-GATAAAAATAAA
1 AATAAAAATAATAAAAATAAA
**
109812762 AATAAAAATAATAGTAATAAA
1 AATAAAAATAATAAAAATAAA
109812783 AATAA
1 AATAA
109812788 CACTTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AATAAAAATAATAAAAATAAA
Found at i:109812774 original size:15 final size:15
Alignment explanation
Indices: 109812740--109812787 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
109812730 TAGTGGTAGT
* *
109812740 ATAATAAAAAGATAA
1 ATAATAAAAATAAAA
109812755 A-AATAAAAATAAAA
1 ATAATAAAAATAAAA
**
109812769 ATAATAGTAATAAAA
1 ATAATAAAAATAAAA
109812784 ATAA
1 ATAA
109812788 CACTTTTCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
ATAATAAAAATAAAA
Found at i:109813239 original size:30 final size:30
Alignment explanation
Indices: 109813205--109813286 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
109813195 GATGGTGCAA
* *
109813205 GTGCAAGTGAGAGGCAATGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
109813235 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
109813265 GTGCAAGTGGGAGGCAAGGTGG
1 GTGCAAGTGGGAGGCAAGGTGG
109813287 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
Found at i:109813254 original size:18 final size:18
Alignment explanation
Indices: 109813233--109813285 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
109813223 GTGGTGGAGT
109813233 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
109813251 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
109813263 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
109813281 AGGTG
1 AGGTG
109813286 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:109820524 original size:120 final size:119
Alignment explanation
Indices: 109820324--109820564 Score: 412
Period size: 120 Copynumber: 2.0 Consensus size: 119
109820314 TTATTCTATG
109820324 AGAAACTAGACTCAATAATATTTAATTACATATTTTTTCATCTTCTAATTCGATTACTACAATTT
1 AGAAACTAGACTCAATAATATTTAATTACATATTTTTTCATCTTCTAATTCGATTACTACAATTT
* *
109820389 ATGGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCA
66 ATGGTGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
* *
109820443 AGAAACTAGACTCAATAATCA-TTAATTACATATTTTGTTCATCTTGTAATTCGATTCCTACAAT
1 AGAAACTAGACTCAATAAT-ATTTAATTACATATTTT-TTCATCTTCTAATTCGATTACTACAAT
*
109820507 TTATGGTGACTTTTCAAAGTTAGTTTACTGCTGCTGTCAAATATTGTTTTAGTGCA
64 TTATGGTGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
109820563 AG
1 AG
109820565 CTGTTTATTA
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
119 34 0.30
120 81 0.70
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (119 bp):
AGAAACTAGACTCAATAATATTTAATTACATATTTTTTCATCTTCTAATTCGATTACTACAATTT
ATGGTGACTTTTCAAAGTTAGTCTACTGCTGCTGTCAAATATTGTTTTAGTGCA
Found at i:109829903 original size:16 final size:16
Alignment explanation
Indices: 109829860--109829905 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
109829850 AACATTGTTC
109829860 AATAAAGTTT-AAAAA
1 AATAAAGTTTCAAAAA
109829875 AATAAATGTTTTCAAAAA
1 AATAAA-G-TTTCAAAAA
*
109829893 ATTAAAGTTTCAA
1 AATAAAGTTTCAA
109829906 GTAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 4 0.15
18 10 0.37
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (16 bp):
AATAAAGTTTCAAAAA
Found at i:109829914 original size:16 final size:15
Alignment explanation
Indices: 109829860--109829905 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
109829850 AACATTGTTC
*
109829860 AATAAAGTTTAAAAA
1 AATAAAGTTTCAAAA
109829875 AATAAATGTTTTCAAAA
1 AATAAA-G-TTTCAAAA
109829892 AATTAAAGTTTCAA
1 AA-TAAAGTTTCAA
109829906 GTAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 10 0.37
18 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (15 bp):
AATAAAGTTTCAAAA
Found at i:109831107 original size:11 final size:11
Alignment explanation
Indices: 109831091--109831116 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
109831081 TCAATCTCTA
109831091 TTTTGAAGAAT
1 TTTTGAAGAAT
109831102 TTTTGAAGAAT
1 TTTTGAAGAAT
109831113 TTTT
1 TTTT
109831117 CTTTTGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTTGAAGAAT
Found at i:109832285 original size:13 final size:15
Alignment explanation
Indices: 109832257--109832285 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
109832247 CAAAATAAAA
109832257 TCAAGTTAATATTTT
1 TCAAGTTAATATTTT
109832272 TCAAGTTAAT-TTTT
1 TCAAGTTAATATTTT
109832286 AACACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TCAAGTTAATATTTT
Found at i:109832379 original size:12 final size:13
Alignment explanation
Indices: 109832346--109832376 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
109832336 TTTAAAATTT
*
109832346 TAAAAATTAAAAA
1 TAAAAATTTAAAA
109832359 TAAAAATTTAAAA
1 TAAAAATTTAAAA
109832372 TAAAA
1 TAAAA
109832377 TTTGTAGCTT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAATTTAAAA
Found at i:109832680 original size:23 final size:21
Alignment explanation
Indices: 109832653--109832707 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 21
109832643 GAATTTGAAC
109832653 TTATTATTTAAAAAATCAAACAT
1 TTATTATTTAAAAAAT-AAA-AT
* *
109832676 TTATTGTTTAAAAAATATAAT
1 TTATTATTTAAAAAATAAAAT
109832697 TTATTATTTAA
1 TTATTATTTAA
109832708 CGAAGTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.41
22 2 0.07
23 15 0.52
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATTATTTAAAAAATAAAAT
Found at i:109833966 original size:22 final size:22
Alignment explanation
Indices: 109833941--109833987 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
109833931 GGTGTTAAGT
109833941 TTTGGAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
*
109833963 TTTGTAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
109833985 TTT
1 TTT
109833988 TTAACTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTGGAAGGGTTTAATTAAAAA
Found at i:109834710 original size:17 final size:18
Alignment explanation
Indices: 109834688--109834736 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
109834678 TAGACATGAT
109834688 AAAAATATTAAAAA-TAA
1 AAAAATATTAAAAATTAA
* *
109834705 AAAAATA-AAAAAATTTA
1 AAAAATATTAAAAATTAA
109834722 AAAAATATATAAAAA
1 AAAAATAT-TAAAAA
109834737 ATTCATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 16 0.62
19 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATATTAAAAATTAA
Found at i:109834738 original size:11 final size:10
Alignment explanation
Indices: 109834701--109834756 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
109834691 AATATTAAAA
*
109834701 ATAAAAAAAT
1 ATAAAAAATT
109834711 A-AAAAAATT
1 ATAAAAAATT
109834720 -TAAAAAATAT
1 ATAAAAAAT-T
109834730 ATAAAAAATT
1 ATAAAAAATT
*
109834740 CATAAAAACTT
1 -ATAAAAAATT
109834751 A-AAAAA
1 ATAAAAA
109834757 TTAGTATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 19 0.47
10 4 0.10
11 17 0.43
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:109834755 original size:9 final size:9
Alignment explanation
Indices: 109834697--109834756 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 9
109834687 TAAAAATATT
109834697 AAAAA-TAA
1 AAAAATTAA
109834705 AAAAA-TAA
1 AAAAATTAA
*
109834713 AAAAATTTA
1 AAAAATTAA
109834722 AAAAATATATA
1 AAAAAT-TA-A
109834733 AAAAATTCATA
1 AAAAATT-A-A
*
109834744 AAAACTTAA
1 AAAAATTAA
109834753 AAAA
1 AAAA
109834757 TTAGTATGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
8 13 0.29
9 13 0.29
10 3 0.07
11 16 0.36
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATTAA
Found at i:109834913 original size:31 final size:31
Alignment explanation
Indices: 109834846--109834924 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
109834836 AAACAATTCA
* * *
109834846 ACTCTTTTTAAAAGGTTGATGATAAAATTAG
1 ACTCTTTTTATAAGATTGATGACAAAATTAG
*
109834877 ACTCTTTTTATAAGATTGATGGCCAAAATT-G
1 ACTCTTTTTATAAGATTGAT-GACAAAATTAG
*
109834908 TCTCTTTTTATAAGATT
1 ACTCTTTTTATAAGATT
109834925 TTAGGAAGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 35 0.83
32 7 0.17
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (31 bp):
ACTCTTTTTATAAGATTGATGACAAAATTAG
Found at i:109835575 original size:108 final size:108
Alignment explanation
Indices: 109835386--109835610 Score: 371
Period size: 108 Copynumber: 2.1 Consensus size: 108
109835376 ATGTTGCGGA
*
109835386 CCGATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCGTACCAACAACCTTATGCACCT
1 CCGATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCATACCAACAACCTTATGCACCT
*
109835451 GGCTATGTAGTTCAAGATTATCCGCCATCTGTT-CCCCTACCAC
66 CGCTATGTAGTTCAAGATTATCCGCCATCTGTTACCCC-ACCAC
*
109835494 CCGATTATCATCAAAATCCTCCTATGGATGGATATCCACCACCATACCAACAACCTTATGCACCT
1 CCGATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCATACCAACAACCTTATGCACCT
* * *
109835559 CGCTATGTAGTTCAAGATTATCCGTCGTCTGTTACCCCGCCAC
66 CGCTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCAC
*
109835602 CCAATTATC
1 CCGATTATC
109835611 CGTCGTCTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 105 0.96
109 4 0.04
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (108 bp):
CCGATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCATACCAACAACCTTATGCACCT
CGCTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCAC
Found at i:109835611 original size:30 final size:30
Alignment explanation
Indices: 109835575--109835640 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
109835565 GTAGTTCAAG
*
109835575 ATTATCCGTCGTCTGTTACC-CCGCCACCCA
1 ATTATCCGTCGTCTG-TACCTCCACCACCCA
*
109835605 ATTATCCGTCGTCTGTCCCTCCACCACCCA
1 ATTATCCGTCGTCTGTACCTCCACCACCCA
109835635 ATTATC
1 ATTATC
109835641 GACCATCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (30 bp):
ATTATCCGTCGTCTGTACCTCCACCACCCA
Found at i:109837320 original size:30 final size:30
Alignment explanation
Indices: 109837275--109837336 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
109837265 CTTAACAAGC
*
109837275 AAATACCTCTAAAATAATAATAAAATTAAT
1 AAATACCTCTAAAATAATAACAAAATTAAT
* *
109837305 AAATGCCTTTAAAATAATAACAAAATTAAT
1 AAATACCTCTAAAATAATAACAAAATTAAT
109837335 AA
1 AA
109837337 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAT
Found at i:109845240 original size:31 final size:31
Alignment explanation
Indices: 109845202--109845263 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
109845192 GACAGTGGAA
109845202 CATTTGGCTGTTTAGTCCTTGGCTCTCCTCC
1 CATTTGGCTGTTTAGTCCTTGGCTCTCCTCC
109845233 CATTTGGCTGTTTAGTCCTTGGCTCTCCTCC
1 CATTTGGCTGTTTAGTCCTTGGCTCTCCTCC
109845264 AAGCTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.06, C:0.32, G:0.19, T:0.42
Consensus pattern (31 bp):
CATTTGGCTGTTTAGTCCTTGGCTCTCCTCC
Found at i:109847424 original size:27 final size:27
Alignment explanation
Indices: 109847341--109847431 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 27
109847331 CTCGTCATAT
109847341 CCATATTAATCTCCCAATCATCTATAA
1 CCATATTAATCTCCCAATCATCTATAA
* *** * *
109847368 CCATTATTATTAAACATGATTAAACATCTATAT
1 CC---A-TATTAATC-T-CCCAATCATCTATAA
109847401 CCATATTAATCTCCCAATCATCTATAA
1 CCATATTAATCTCCCAATCATCTATAA
109847428 CCAT
1 CCAT
109847432 CTATAACCAA
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
27 16 0.35
28 1 0.02
29 7 0.15
30 2 0.04
31 7 0.15
32 1 0.02
33 12 0.26
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.35
Consensus pattern (27 bp):
CCATATTAATCTCCCAATCATCTATAA
Found at i:109854183 original size:23 final size:23
Alignment explanation
Indices: 109854154--109854201 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
109854144 CTCTTTACAT
109854154 TTTTAAATAAT-ATATTATTATTA
1 TTTTAAATAATAATATT-TTATTA
*
109854177 TTTTAAATATTAATATTTTATTA
1 TTTTAAATAATAATATTTTATTA
109854200 TT
1 TT
109854202 AACATGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAATAATAATATTTTATTA
Found at i:109855285 original size:26 final size:26
Alignment explanation
Indices: 109855249--109855358 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
109855239 TGATACAAAT
109855249 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109855275 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
109855301 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109855327 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109855353 TGATAA
1 TGATAA
109855359 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:109857039 original size:27 final size:27
Alignment explanation
Indices: 109856978--109857064 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
109856968 TGGAGGAAGC
* *
109856978 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
109857005 GATT-TGGTGGCTCTGCCACATATATCT
1 G-TTCTGGTGGCTCTGCCACATATATCT
** *
109857032 GTTCTGGTAACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCACATATATCT
109857058 GTTCTGG
1 GTTCTGG
109857065 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.26
27 37 0.70
28 2 0.04
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACATATATCT
Found at i:109860291 original size:60 final size:61
Alignment explanation
Indices: 109860146--109860273 Score: 170
Period size: 60 Copynumber: 2.1 Consensus size: 61
109860136 CTTTTTTGAA
* * * *
109860146 TTTTAAAATTAGAACTAAATTGATAAATTTTATAAATATTGAGGGATAAATTTATTTAACT
1 TTTTAGAATTAGAACTAAATTGATAAATTTTATAAACATTGAGGGATAAATTTAGTTAAAT
* * *
109860207 TTTTAGAATTAGAACTAAAATGATAAA-TTTGTAAACATTGAGGGCTAAATTT-GTTAAAT
1 TTTTAGAATTAGAACTAAATTGATAAATTTTATAAACATTGAGGGATAAATTTAGTTAAAT
109860266 ATTTTAGA
1 -TTTTAGA
109860274 TTTAAGATCG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 5 0.08
60 29 0.49
61 25 0.42
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAATTGATAAATTTTATAAACATTGAGGGATAAATTTAGTTAAAT
Found at i:109861102 original size:22 final size:22
Alignment explanation
Indices: 109861074--109861118 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
109861064 TGTCGAAACC
109861074 ATTTTTTTGAAAAACAG-GGTCG
1 ATTTTTTTGAAAAAC-GTGGTCG
109861096 ATTTTTTTGAAAAACGTGGTCG
1 ATTTTTTTGAAAAACGTGGTCG
109861118 A
1 A
109861119 CTTTATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
ATTTTTTTGAAAAACGTGGTCG
Found at i:109864251 original size:41 final size:42
Alignment explanation
Indices: 109864154--109864263 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 42
109864144 CTTTAATCCA
*
109864154 CTCTACTGCAACTTCAGAAAAATAATATTTGTAACTTCAACCTG
1 CTCTACTGCAACTTCAGAGAAATAATATTTGT-A-TTCAACCTG
* * * *
109864198 CTCCACTACAACTTCAGAGAAATGATATTTGT-TTTAACCTG
1 CTCTACTGCAACTTCAGAGAAATAATATTTGTATTCAACCTG
* *
109864239 CTCTACTGCAACTCCAGAGAGATAA
1 CTCTACTGCAACTTCAGAGAAATAA
109864264 GATCTATGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 28 0.50
44 28 0.50
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.30
Consensus pattern (42 bp):
CTCTACTGCAACTTCAGAGAAATAATATTTGTATTCAACCTG
Found at i:109864302 original size:51 final size:47
Alignment explanation
Indices: 109864243--109864638 Score: 177
Period size: 51 Copynumber: 8.5 Consensus size: 47
109864233 AACCTGCTCT
*
109864243 ACTGCAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAATCTGTTCC
1 ACTGCAACTCCAGAGAGATAAGA-CT-TG-TTTAT-GCTTCAATCTGTTCC
* * * *
109864294 ACTACAACTCCAG-GGGAATAAGACTTG-CTAT-CTTCAATCCGTTCC
1 ACTGCAACTCCAGAGAG-ATAAGACTTGTTTATGCTTCAATCTGTTCC
* * * * *
109864339 GCTGCAACTTCAGGGAGATAAGACTTGTTT-TG-----ATCTGCTCT
1 ACTGCAACTCCAGAGAGATAAGACTTGTTTATGCTTCAATCTGTTCC
* * *
109864380 ACTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGTTCC
1 ACTGCAACTCCAGAGAGATAAGA-CT-T-GTTTAT-GCTTCAATCTGTTCC
* * * * ** * *
109864431 ACTGCAACTCCAGGGAAATAAGACTTG-CTAT-TTTCAGCCCGCTCC
1 ACTGCAACTCCAGAGAGATAAGACTTGTTTATGCTTCAATCTGTTCC
* * * *
109864476 GCTGCAACTTCAG-GAAGATAAGACTTGTTT-TG-----ATCTGCTCT
1 ACTGCAACTCCAGAG-AGATAAGACTTGTTTATGCTTCAATCTGTTCC
* *
109864517 ACTGTAACTCCAGAGAGATAAGA-TCTGCAATTTATATCTTCAATCTGTTCC
1 ACTGCAACTCCAGAGAGATAAGACT-TG---TTTAT-GCTTCAATCTGTTCC
* * ** * *
109864568 ACTGCAACTCCAGGGAAATAAGACTT-ACTAT-CTTCCAGTCTGCTCC
1 ACTGCAACTCCAGAGAGATAAGACTTGTTTATGCTT-CAATCTGTTCC
* * *
109864614 ACTGCAACTTCAGGGAGATACGACT
1 ACTGCAACTCCAGAGAGATAAGACT
109864639 CGTAACTTCA
Statistics
Matches: 260, Mismatches: 54, Indels: 67
0.68 0.14 0.18
Matches are distributed among these distances:
40 1 0.00
41 51 0.20
42 3 0.01
43 1 0.00
44 7 0.03
45 70 0.27
46 36 0.14
47 9 0.03
49 3 0.01
50 6 0.02
51 72 0.28
52 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (47 bp):
ACTGCAACTCCAGAGAGATAAGACTTGTTTATGCTTCAATCTGTTCC
Found at i:109864367 original size:137 final size:137
Alignment explanation
Indices: 109864226--109864638 Score: 628
Period size: 137 Copynumber: 3.0 Consensus size: 137
109864216 GAAATGATAT
* * * *
109864226 TTGTTTTAACCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAATCTGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * * *
109864291 TCCACTACAACTCCAGGGGAATAAGACTTGCTATCTTCAATCCGTTCCGCTGCAACTTCAGGGAG
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
109864356 ATAAGAC
131 ATAAGAC
* *
109864363 TTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * *
109864428 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATTTTCAGCCCGCTCCGCTGCAACTTCAGGAAG
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
109864493 ATAAGAC
131 ATAAGAC
* ** *
109864500 TTGTTTTGATCTGCTCTACTGTAACTCCAGAGAGATAAGATCTGCAATTTATATCTTCAATCTGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * *
109864565 TCCACTGCAACTCCAGGGAAATAAGACTTACTATCTTCCAGTCTGCTCCACTGCAACTTCAGGGA
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTT-CAGTCCGCTCCGCTGCAACTTCAGGGA
*
109864630 GATACGAC
130 GATAAGAC
109864638 T
1 T
109864639 CGTAACTTCA
Statistics
Matches: 249, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
137 218 0.88
138 31 0.12
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (137 bp):
TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
ATAAGAC
Found at i:109864398 original size:41 final size:41
Alignment explanation
Indices: 109864340--109864539 Score: 123
Period size: 41 Copynumber: 4.5 Consensus size: 41
109864330 ATCCGTTCCG
* *
109864340 CTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTA
1 CTGCAACTTCAGAGAGATAAGACTTGTTTTGATCTGCTCCA
* * *
109864381 CTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGTTCCA
1 CTGCAACTTCAGAGAGATAAGA-CT-T-GTTT-T-G-----ATCTGCTCCA
* * * * * * *
109864432 CTGCAACTCCAGGGAAATAAGACTTGCTATTTTCAGCCCGCTCCG
1 CTGCAACTTCAGAGAGATAAGACTTG---TTTTGA-TCTGCTCCA
*
109864477 CTGCAACTTCAG-GAAGATAAGACTTGTTTTGATCTGCTCTA
1 CTGCAACTTCAGAG-AGATAAGACTTGTTTTGATCTGCTCCA
* *
109864518 CTGTAACTCCAGAGAGATAAGA
1 CTGCAACTTCAGAGAGATAAGA
109864540 TCTGCAATTT
Statistics
Matches: 119, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
41 43 0.36
42 8 0.07
43 1 0.01
44 5 0.04
45 28 0.24
46 1 0.01
49 1 0.01
50 3 0.03
51 29 0.24
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (41 bp):
CTGCAACTTCAGAGAGATAAGACTTGTTTTGATCTGCTCCA
Found at i:109864713 original size:44 final size:44
Alignment explanation
Indices: 109864665--109864891 Score: 189
Period size: 44 Copynumber: 5.1 Consensus size: 44
109864655 TCCATCGTAT
109864665 CTTCAGGGAAATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAA
1 CTTCAGGGAAATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAA
* * * * * *
109864709 CTTCA-GAAAGATAAGATT--CGCCATCTTCAGTCTGCTCCACTGCAA
1 CTTCAGGGAA-ATAAGGTTAGTGGC-T-TTGA-TCTGCTTCACTGCAA
* *
109864754 CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAA
1 CTTCAGGGAAATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAA
* * * * * *
109864798 CTTCA-GGAAGATAAGATT--CGCCATCTTCAGTCTACTCCACTGCAA
1 CTTCAGGGAA-ATAAGGTTAGTGGC-T-TTGA-TCTGCTTCACTGCAA
*
109864843 CTTCAGGGAGATAAGGTTAGTGG-TTTCGATCTGCTTCACTGCAA
1 CTTCAGGGAAATAAGGTTAGTGGCTTT-GATCTGCTTCACTGCAA
109864887 CTTCA
1 CTTCA
109864892 AGAAGTTAAG
Statistics
Matches: 139, Mismatches: 29, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
42 4 0.03
43 8 0.06
44 63 0.45
45 55 0.40
46 6 0.04
47 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTCAGGGAAATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAA
Found at i:109864750 original size:45 final size:45
Alignment explanation
Indices: 109864694--109864906 Score: 209
Period size: 44 Copynumber: 4.8 Consensus size: 45
109864684 GTGGCTTTGA
* *
109864694 TCTGCTTCACTGCAACTTCAGAAAGATAAGATTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
* * * ***
109864739 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTTAG-TGGCTTC-G
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
*
109864782 ATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
1 -TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
* * * * ***
109864828 TCTACTCCACTGCAACTTCAGGGAGATAAGGTTAGTGGT-TTC-G
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
* * *
109864871 ATCTGCTTCACTGCAACTTCAAGAAGTTAAGATTCG
1 -TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCG
109864907 ACGAAATTCG
Statistics
Matches: 134, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
43 2 0.01
44 66 0.49
45 65 0.49
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAG
Found at i:109864769 original size:89 final size:89
Alignment explanation
Indices: 109864665--109864906 Score: 407
Period size: 89 Copynumber: 2.7 Consensus size: 89
109864655 TCCATCGTAT
*
109864665 CTTCAGGGAAATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAACTTCAGAAAGATAAGATTCGC
1 CTTCAGGGAGATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAACTTCAGAAAGATAAGATTCGC
*
109864730 CATCTTCAGTCTGCTCCACTGCAA
66 CATCTTCAGTCTACTCCACTGCAA
* *
109864754 CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAACTTCAGGAAGATAAGATTCGC
1 CTTCAGGGAGATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAACTTCAGAAAGATAAGATTCGC
109864819 CATCTTCAGTCTACTCCACTGCAA
66 CATCTTCAGTCTACTCCACTGCAA
*
109864843 CTTCAGGGAGATAAGGTTAGTGG-TTTCGATCTGCTTCACTGCAACTTCA-AGAAGTTAAGATTC
1 CTTCAGGGAGATAAGGTTAGTGGCTTT-GATCTGCTTCACTGCAACTTCAGA-AAGATAAGATTC
109864906 G
64 G
109864907 ACGAAATTCG
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
88 2 0.01
89 142 0.99
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (89 bp):
CTTCAGGGAGATAAGGTTAGTGGCTTTGATCTGCTTCACTGCAACTTCAGAAAGATAAGATTCGC
CATCTTCAGTCTACTCCACTGCAA
Found at i:109864788 original size:274 final size:272
Alignment explanation
Indices: 109864236--109864768 Score: 573
Period size: 274 Copynumber: 2.0 Consensus size: 272
109864226 TTGTTTTAAC
**
109864236 CTGCTCTACTGCAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAATCTGTTCCACTACAA
1 CTGCTCTACTGCAACTCCAGAGAGATAAGATCTACAATTTATAGATTCAATCTGTTCCACTACAA
* * * * *
109864301 CTCCAGGGGAATAAGACTTGCTATCTTCAATCCGTTCCGCTGCAACTTCAGGGAGATAAGACTTG
66 CTCCAGGGAAATAAGACTTACTATCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTCG
** * * * *
109864366 TTTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGTTCC
131 TTTCAACCTACTCCACTGCAACTTCAGAGAGA-GAGA-CTATAAGTTATAGCTTCAATCTGTTCC
* * * *
109864431 ACTGCAACTCCAGGGAAATAAGACTTGCTATTTTCAGCCCGCTCCGCTGCAACTTCAGGAAGATA
194 ACTGCAACTCCAGGAAAATAAGACTTGCCATCTTCAGCCCGCTCCACTGCAACTTCAGGAAGATA
*
109864496 AGACTTGTTTTGAT
259 AGACTTGTTTCGAT
* * ** *
109864510 CTGCTCTACTGTAACTCCAGAGAGATAAGATCTGCAATTTATATCTTCAATCTGTTCCACTGCAA
1 CTGCTCTACTGCAACTCCAGAGAGATAAGATCTACAATTTATAGATTCAATCTGTTCCACTACAA
* * *
109864575 CTCCAGGGAAATAAGACTTACTATCTTCCAGTCTGCTCCACTGCAACTTCAGGGAGATACGACTC
66 CTCCAGGGAAATAAGACTTACTATCTT-CAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTC
* * * * **
109864640 GTAACTTCAACCTACTCCA-TCGTATCTTCAG-G-GA-A-A-TA-AGGTTAGTGGCTTTGATCTG
130 GT---TTCAACCTACTCCACT-GCAACTTCAGAGAGAGAGACTATAAGTTA-TAGCTTCAATCTG
* * *
109864698 CTT-CACTGCAACTTCA-GAAAGATAAGA-TTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAG
190 -TTCCACTGCAACTCCAGGAAA-ATAAGACTT-GCCATCTTCAGCCCGCTCCACTGCAACTTCAG
*
109864760 GGAGATAAG
252 GAAGATAAG
109864769 GTTAGTGGCT
Statistics
Matches: 215, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
270 9 0.04
271 65 0.30
272 2 0.01
273 1 0.00
274 84 0.39
275 33 0.15
276 2 0.01
277 2 0.01
278 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (272 bp):
CTGCTCTACTGCAACTCCAGAGAGATAAGATCTACAATTTATAGATTCAATCTGTTCCACTACAA
CTCCAGGGAAATAAGACTTACTATCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTCG
TTTCAACCTACTCCACTGCAACTTCAGAGAGAGAGACTATAAGTTATAGCTTCAATCTGTTCCAC
TGCAACTCCAGGAAAATAAGACTTGCCATCTTCAGCCCGCTCCACTGCAACTTCAGGAAGATAAG
ACTTGTTTCGAT
Found at i:109866646 original size:20 final size:20
Alignment explanation
Indices: 109866610--109866652 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
109866600 AGCCTTTTAC
*
109866610 AAAAATAAACCATTACAACT
1 AAAAATAAACCATTACAAAT
*
109866630 AAAATTAAACCCA-TACAAAT
1 AAAAATAAA-CCATTACAAAT
109866650 AAA
1 AAA
109866653 CCCAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAACCATTACAAAT
Found at i:109867957 original size:24 final size:24
Alignment explanation
Indices: 109867914--109867976 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
109867904 TTCTAATATG
109867914 TATATATTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
109867937 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
109867962 TATATATTACGTATA
1 TATATATTATGTATA
109867977 TATATCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 8 0.23
26 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:109867992 original size:15 final size:14
Alignment explanation
Indices: 109867973--109868010 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
109867963 ATATATTACG
109867973 TATATATATCTTTT
1 TATATATATCTTTT
*
109867987 TA-ATATTATATTTT
1 TATATA-TATCTTTT
109868001 TATATATATC
1 TATATATATC
109868011 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.15
14 14 0.70
15 3 0.15
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATATCTTTT
Found at i:109868005 original size:37 final size:38
Alignment explanation
Indices: 109867974--109868045 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
109867964 TATATTACGT
* *
109867974 ATATATATCTTTTTAATATTATATT-TTTATATATATC
1 ATATATATATTTTTAATACTATATTATTTATATATATC
*
109868011 ATGTATATATTTTTAATACTATATTATTTATATAT
1 ATATATATATTTTTAATACTATATTATTTATATAT
109868046 TTTTTTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 22 0.71
38 9 0.29
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (38 bp):
ATATATATATTTTTAATACTATATTATTTATATATATC
Found at i:109868034 original size:53 final size:54
Alignment explanation
Indices: 109867993--109868137 Score: 146
Period size: 55 Copynumber: 2.8 Consensus size: 54
109867983 TTTTTAATAT
*
109867993 TATATTTTTATATA-TATC-ATGTATATA-TTTTTAAT-ACTATATTATTTATA
1 TATATTTTTACATATTATCTATGTATATATTTTTTAATAACTATATTATTTATA
* * *
109868043 TATTTTTTTACATATTATCTTATGTATATATTTTTTAATAACTATATTATGTATG
1 TATATTTTTACATATTATC-TATGTATATATTTTTTAATAACTATATTATTTATA
* * *
109868098 TAT-TTTTAACGCTA-TAT-TATGTACATA-TTTTTAAT-ACTAT
1 TATATTTTTAC-ATATTATCTATGTATATATTTTTTAATAACTAT
109868138 GTATATACTT
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
50 17 0.21
51 12 0.15
52 9 0.11
53 9 0.11
54 17 0.21
55 18 0.22
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (54 bp):
TATATTTTTACATATTATCTATGTATATATTTTTTAATAACTATATTATTTATA
Found at i:109868042 original size:25 final size:25
Alignment explanation
Indices: 109867993--109868192 Score: 168
Period size: 25 Copynumber: 8.1 Consensus size: 25
109867983 TTTTTAATAT
*
109867993 TATATTTTT-ATA-TATATCATGTA
1 TATATTTTTAATACTATATTATGTA
*
109868016 TATATTTTTAATACTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
* *
109868041 TATATTTTTTTACATATTATCTTATGTA
1 TATA--TTTTTA-ATACTATATTATGTA
109868069 TATATTTTTTAATAACTATATTATGTA
1 TATA-TTTTTAAT-ACTATATTATGTA
* **
109868096 TGTATTTTTAACGCTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
109868121 CATATTTTTAATAC-----TATGTA
1 TATATTTTTAATACTATATTATGTA
* * *
109868141 TATACTTTTTATTCCTATTATTACGTA
1 TATA-TTTTTAATACTA-TATTATGTA
109868168 TATA-TTTTAATAC-ATA-TATGTA
1 TATATTTTTAATACTATATTATGTA
109868190 TAT
1 TAT
109868193 TATTATTATT
Statistics
Matches: 143, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.06
21 8 0.06
22 8 0.06
23 11 0.08
24 4 0.03
25 42 0.29
26 9 0.06
27 36 0.25
28 16 0.11
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:109868044 original size:27 final size:25
Alignment explanation
Indices: 109867989--109868137 Score: 124
Period size: 27 Copynumber: 5.9 Consensus size: 25
109867979 TATCTTTTTA
*
109867989 ATAT-TATATTTTT-ATA-TATATC
1 ATATATATATTTTTAATACTATATT
*
109868011 ATGTATATATTTTTAATACTATATT
1 ATATATATATTTTTAATACTATATT
* * *
109868036 ATTTATATATTTTTTTACATATTATCTT
1 A--TATATATATTTTTA-ATACTATATT
*
109868064 ATGTATATATTTTTTAATAACTATATT
1 ATATATATA-TTTTTAAT-ACTATATT
* * **
109868091 ATGTATGTATTTTTAACGCTATATT
1 ATATATATATTTTTAATACTATATT
* *
109868116 ATGTACATATTTTTAATACTAT
1 ATATATATATTTTTAATACTAT
109868138 GTATATACTT
Statistics
Matches: 102, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.03
23 9 0.09
24 3 0.03
25 31 0.30
26 15 0.15
27 32 0.31
28 9 0.09
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
ATATATATATTTTTAATACTATATT
Found at i:109868286 original size:19 final size:18
Alignment explanation
Indices: 109868237--109868287 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
109868227 TTTTCAATAT
*
109868237 ATATTGTATATATTTTTA
1 ATATAGTATATATTTTTA
*
109868255 ATCTAGTATTATATGTTTTA
1 ATATAGTA-TATAT-TTTTA
109868275 TATATA-TATATAT
1 -ATATAGTATATAT
109868288 ATGTTCACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 7 0.26
21 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
ATATAGTATATATTTTTA
Found at i:109868288 original size:21 final size:22
Alignment explanation
Indices: 109868233--109868292 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
109868223 ACTGTTTTCA
* *
109868233 ATATATATTGTATATAT-TTTT
1 ATATATAGTATATATATGTTTT
*
109868254 A-ATCTAGTAT-TATATGTTTT
1 ATATATAGTATATATATGTTTT
109868274 ATATATA-TATATATATGTT
1 ATATATAGTATATATATGTT
109868293 CACTACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.16
20 14 0.44
21 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
ATATATAGTATATATATGTTTT
Found at i:109871042 original size:31 final size:30
Alignment explanation
Indices: 109870946--109871044 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
109870936 AAAATTAGAA
109870946 CTAAATTGATAAATTTTATAAATATTGAGGG
1 CTAAATTGATAAATTTT-TAAATATTGAGGG
* * * * **
109870977 ATAAATTTATTTAACTTTTTAGA-ATT-AGAA
1 CTAAATTGA--TAAATTTTTAAATATTGAGGG
*
109871007 CTAAAATGATAAATTTTGTAAATATTGAGGG
1 CTAAATTGATAAATTTT-TAAATATTGAGGG
109871038 CTAAATT
1 CTAAATT
109871045 TGTTGAATAA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 7 0.14
29 3 0.06
30 11 0.22
31 18 0.37
32 3 0.06
33 7 0.14
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (30 bp):
CTAAATTGATAAATTTTTAAATATTGAGGG
Found at i:109871078 original size:61 final size:61
Alignment explanation
Indices: 109870933--109871110 Score: 180
Period size: 61 Copynumber: 2.9 Consensus size: 61
109870923 TTTTTTTAAT
* * * * *
109870933 TTTAAAATTAGAACTAAATTGATAAATTTTATAAATATTGAGGGATAAATTTATTTAACTT
1 TTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGGATAAATTTGTTGAACTA
* *
109870994 TTTAGAATTAGAACTAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTGTTGAA-TAA
1 TTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGGATAAATTTGTTGAACT-A
* * * ** * * *
109871055 TTTAGATTTAAGATC-GAATTGATAAAACTTGTAAACATTGAAAGGTTAAATTTGTT
1 TTTAGAATT-AGAACTAAATTGATAAATTTTGTAAATATTG-AGGGATAAATTTGTT
109871111 ATTAGGCTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
60 1 0.01
61 80 0.82
62 17 0.17
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (61 bp):
TTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGGATAAATTTGTTGAACTA
Found at i:109873386 original size:79 final size:79
Alignment explanation
Indices: 109873254--109873411 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 79
109873244 AAAGATGATG
* ** *
109873254 GTTCACAGTGCCCCTGGCTCAACCAGTAAGTTAGGTCAAACTAGAGATCAACCACCCAAAGATCC
1 GTTCACAGTACCCCTGGCTCAACCAGTAAGTTAGAACAAACAAGAGATCAACCACCCAAAGATCC
109873319 GGACCCGAAGTAGC
66 GGACCCGAAGTAGC
* * * *
109873333 GTTCACAGTATCCCTGGCTCACCCAGTAAGTTAGAACGAACAAGAGATGAACCACCCAAAGATCC
1 GTTCACAGTACCCCTGGCTCAACCAGTAAGTTAGAACAAACAAGAGATCAACCACCCAAAGATCC
109873398 GGACCCGAAGTAGC
66 GGACCCGAAGTAGC
109873412 CAAACCAGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.16
Consensus pattern (79 bp):
GTTCACAGTACCCCTGGCTCAACCAGTAAGTTAGAACAAACAAGAGATCAACCACCCAAAGATCC
GGACCCGAAGTAGC
Found at i:109880267 original size:14 final size:14
Alignment explanation
Indices: 109880248--109880291 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
109880238 AACACTCGAC
109880248 GATTGGTTATAGAT
1 GATTGGTTATAGAT
109880262 GATTGGTTAT--A-
1 GATTGGTTATAGAT
109880273 GA-TGGTTATAGAT
1 GATTGGTTATAGAT
109880286 GATTGG
1 GATTGG
109880292 GAGATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 2 0.08
13 2 0.08
14 13 0.50
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (14 bp):
GATTGGTTATAGAT
Found at i:109886414 original size:49 final size:49
Alignment explanation
Indices: 109886339--109886436 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
109886329 CATGCAAACT
*
109886339 TATTAACTGATAATTAATGCGTACAATGGAGTG-TGTTGCTGTAAATTAG
1 TATTAACTGATAATTAATGCGCACAATGGAGTGCT-TTGCTGTAAATTAG
*
109886388 TATTAACTGCTAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
1 TATTAACTGATAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
109886437 AAGCCTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 45 0.98
50 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (49 bp):
TATTAACTGATAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
Found at i:109899531 original size:6 final size:6
Alignment explanation
Indices: 109899520--109899546 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
109899510 ATATATCTGA
109899520 TTTTGG TTTTGG TTTTGG TTTTGG TTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTT
109899547 GTATTGGAGG
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:0.00, G:0.30, T:0.70
Consensus pattern (6 bp):
TTTTGG
Found at i:109900238 original size:30 final size:31
Alignment explanation
Indices: 109900186--109900261 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
109900176 CACCATTTGA
* * *
109900186 AAAGTATATTTTTAT-AATTTTTAAAGGATT
1 AAAGTAAAATTTTATCAATTTTTAAAGGACT
*
109900216 AAA-TCAAAATTTTATCAA-TTTTAAGGGACT
1 AAAGT-AAAATTTTATCAATTTTTAAAGGACT
*
109900246 AAAGTATAATTTTATC
1 AAAGTAAAATTTTATC
109900262 TTTATTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.03
30 34 0.89
31 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (31 bp):
AAAGTAAAATTTTATCAATTTTTAAAGGACT
Found at i:109902521 original size:31 final size:30
Alignment explanation
Indices: 109902450--109902526 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
109902440 TCAACCGGCT
* *
109902450 AATAGCTTAGTGACTTAAATGATAAGTTTC
1 AATAGTTTAGTGACTTAAATGAAAAGTTTC
* * *
109902480 ACATAATTTAGTGACTTAAATGAAAATTTTTG
1 A-ATAGTTTAGTGACTTAAATGAAAA-GTTTC
109902512 AATAGTTTAGTGACT
1 AATAGTTTAGTGACT
109902527 ATTTTATAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 1 0.03
31 34 0.87
32 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (30 bp):
AATAGTTTAGTGACTTAAATGAAAAGTTTC
Found at i:109910401 original size:85 final size:85
Alignment explanation
Indices: 109910301--109910471 Score: 297
Period size: 85 Copynumber: 2.0 Consensus size: 85
109910291 CTATTAGATA
* *
109910301 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTTATCTAAGTTTCGTATAGAAGCTTTAT
1 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
109910366 CCTTTACCCCAAACAAATCT
66 CCTTTACCCCAAACAAATCT
* *
109910386 TATGATGAAATTTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
1 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
*
109910451 CCTTTACCCCGAACAAATCT
66 CCTTTACCCCAAACAAATCT
109910471 T
1 T
109910472 GTCATAAGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (85 bp):
TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
CCTTTACCCCAAACAAATCT
Found at i:109912186 original size:22 final size:23
Alignment explanation
Indices: 109912143--109912184 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
109912133 CAAGAAATTT
109912143 TAAAATATTATTATGTTTAAATA
1 TAAAATATTATTATGTTTAAATA
109912166 TAAAA-ATTATTAT-TTTAAA
1 TAAAATATTATTATGTTTAAA
109912185 ATTCACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAAATATTATTATGTTTAAATA
Found at i:109913812 original size:43 final size:43
Alignment explanation
Indices: 109913752--109914044 Score: 466
Period size: 43 Copynumber: 6.9 Consensus size: 43
109913742 GTTTATTGAA
*
109913752 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
109913795 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT-TGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
109913837 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
109913880 -AAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
109913922 AAAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* **
109913965 AAAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
109914008 -TAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT
109914045 TTACACAAAC
Statistics
Matches: 235, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
42 115 0.49
43 120 0.51
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:109913926 original size:85 final size:85
Alignment explanation
Indices: 109913752--109914044 Score: 464
Period size: 85 Copynumber: 3.4 Consensus size: 85
109913742 GTTTATTGAA
*
109913752 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCAAG
* *
109913817 GCTTTTAGCGGCGTTT-TGGT
65 TCTTTTAGCGGCGTTTGTGGG
109913837 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGT
*
109913902 CTTTTAGCGGCATTTGTGGG
66 CTTTTAGCGGCGTTTGTGGG
* *
109913922 AAAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCAAG
**
109913987 TCTTTTAGCGGCGTTTGTATG
65 TCTTTTAGCGGCGTTTGTGGG
* *
109914008 -TAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT
109914045 TTACACAAAC
Statistics
Matches: 194, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
84 35 0.18
85 120 0.62
86 39 0.20
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGT
CTTTTAGCGGCGTTTGTGGG
Found at i:109914058 original size:42 final size:42
Alignment explanation
Indices: 109913753--109914063 Score: 369
Period size: 42 Copynumber: 7.3 Consensus size: 42
109913743 TTTATTGAAA
**
109913753 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
*
109913795 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTTGGTA-
1 AAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTTAG
* **
109913838 AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
* * * **
109913880 AAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCATTTGTGGG
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
*
109913922 AAAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTGTGGTA-
1 AAAA-CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT--TAG
* *
109913966 AAAGCGCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTG-TATG
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTA-G
* * * *
109914008 TAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTT-TTAC
1 AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
109914049 ACAAACGCCGCTAAA
1 A-AAACGCCGCTAAA
109914064 TTTGGCAGAT
Statistics
Matches: 239, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.01
41 4 0.02
42 125 0.52
43 101 0.42
44 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
AAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
Found at i:109914148 original size:31 final size:31
Alignment explanation
Indices: 109914113--109914193 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
109914103 CTTCCTGCAT
* *
109914113 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
109914144 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
109914175 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
109914194 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:109914463 original size:21 final size:21
Alignment explanation
Indices: 109914439--109914484 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
109914429 GCTCGTGCCT
*
109914439 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
109914460 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
109914481 CTGC
1 CTGC
109914485 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:109920130 original size:9 final size:9
Alignment explanation
Indices: 109920116--109920341 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
109920106 TATTTAAGTA
109920116 TTATGTAAG
1 TTATGTAAG
*
109920125 TTATGTAAT
1 TTATGTAAG
*
109920134 TTATGATATG
1 TTATG-TAAG
* * *
109920144 ATATAT-AT
1 TTATGTAAG
*
109920152 TTATGTAAA
1 TTATGTAAG
* *
109920161 TTATAT-AT
1 TTATGTAAG
*
109920169 TTATCTAAG
1 TTATGTAAG
*
109920178 TTATATAAG
1 TTATGTAAG
109920187 TTATGTAAG
1 TTATGTAAG
*
109920196 TTATGTAAA
1 TTATGTAAG
*
109920205 TTATGATATAAAA
1 TTATG---T-AAG
*
109920218 TATATTTAAG
1 T-TATGTAAG
109920228 CATTATGTAAG
1 --TTATGTAAG
109920239 TTATGTAAG
1 TTATGTAAG
* *
109920248 TTATAT-AT
1 TTATGTAAG
*
109920256 TTATCTAAG
1 TTATGTAAG
*
109920265 TTATATAAG
1 TTATGTAAG
*
109920274 TTATATAAG
1 TTATGTAAG
*
109920283 TTATGTAGG
1 TTATGTAAG
*
109920292 TTATATAAG
1 TTATGTAAG
109920301 TTATGTAAG
1 TTATGTAAG
* *
109920310 TTATATATG
1 TTATGTAAG
*
109920319 TTATATAAG
1 TTATGTAAG
*
109920328 TTATGTAAA
1 TTATGTAAG
109920337 TTATG
1 TTATG
109920342 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:109920195 original size:18 final size:18
Alignment explanation
Indices: 109920116--109920341 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
109920106 TATTTAAGTA
* *
109920116 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
109920134 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
109920152 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
109920169 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
109920187 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
109920205 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
109920228 CATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
109920248 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
109920265 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
109920283 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
109920301 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
109920319 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
109920337 TTATG
1 TTATG
109920342 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:109920208 original size:27 final size:27
Alignment explanation
Indices: 109920169--109920341 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
109920159 AATTATATAT
*
109920169 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
109920196 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
109920228 CATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
109920256 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
109920283 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
109920310 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
109920337 TTATG
1 TTATG
109920342 ATATCAAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 58 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:109920226 original size:114 final size:114
Alignment explanation
Indices: 109920092--109920313 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
109920082 ACTAGTTATG
* * * * *
109920092 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGCATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
109920156 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
109920206 TATGATATAAAATATATTTAAGCATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGCATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
109920271 AAGTTATATAAGTTATGTAGGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
109920314 ATATGTTATA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 72 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGCATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:109921470 original size:372 final size:372
Alignment explanation
Indices: 109920456--109922174 Score: 3368
Period size: 372 Copynumber: 4.6 Consensus size: 372
109920446 ATTAAATAAT
*
109920456 ATAAATTAAGGTTATATAAATATTCGATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
1 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
109920521 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
66 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
109920586 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
131 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
109920651 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
196 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
109920716 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
261 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
*
109920781 TAATAT-AAAAAAGAATCATAGTTTAATTTTTATAAGTAAATTGGAA
326 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
109920827 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
1 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
109920892 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
66 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
109920957 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
131 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
109921022 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
196 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
109921087 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
261 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
109921152 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
326 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
109921199 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
1 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
109921264 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
66 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
109921329 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
131 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
109921394 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
196 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
109921459 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
261 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
109921524 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
326 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
109921571 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
1 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
*
109921636 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACATCTAGGGAGGATCCATTATATCTTGCA
66 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
*
109921701 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCTTATATACTTTGAATCTTTAAAATATTTAAAA
131 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
*
109921766 TAAGGTTTGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
196 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
109921831 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
261 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
*
109921896 TAATATGAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
326 TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
109921943 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
1 ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
*
109922008 TGAATTTTTTAAGATTCATCATATGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
66 TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
109922073 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
131 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
109922138 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
196 TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
109922175 AATGGACAAG
Statistics
Matches: 1337, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
371 330 0.25
372 1007 0.75
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.36
Consensus pattern (372 bp):
ATAAATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATACAACTTTTTTCAAGTCTTTT
TGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
TAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
TAATATAAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAA
Found at i:109924381 original size:10 final size:10
Alignment explanation
Indices: 109924366--109924406 Score: 82
Period size: 10 Copynumber: 4.1 Consensus size: 10
109924356 AGATTGCAAC
109924366 CCATTTCAAA
1 CCATTTCAAA
109924376 CCATTTCAAA
1 CCATTTCAAA
109924386 CCATTTCAAA
1 CCATTTCAAA
109924396 CCATTTCAAA
1 CCATTTCAAA
109924406 C
1 C
109924407 AAAAAAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (10 bp):
CCATTTCAAA
Found at i:109925611 original size:2 final size:2
Alignment explanation
Indices: 109925606--109925633 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109925596 ACACACACAC
109925606 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
109925634 GTTTATATTC
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:109926223 original size:41 final size:41
Alignment explanation
Indices: 109926161--109926417 Score: 356
Period size: 41 Copynumber: 6.3 Consensus size: 41
109926151 GTTCTATGAC
109926161 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
109926202 TTTTAGCTGCATTTTAACGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
109926243 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
109926284 TTTTAGCTGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * *
109926325 TTTTAGCGGCATTTTACCTAAAGCGCCGCTAATGATC-CGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* ** * **
109926365 TTTTAGAGGCGTTTTACTAAAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTAC-CGAAAGCGCCGCTAATGCTCTGGT
*
109926406 TTTTTGCGGCGT
1 TTTTAGCGGCGT
109926418 CTCTGTATTT
Statistics
Matches: 192, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.09
41 175 0.91
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:109926471 original size:13 final size:13
Alignment explanation
Indices: 109926453--109926479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109926443 GTTTGTTGAT
109926453 AAAACGCCGCTAA
1 AAAACGCCGCTAA
109926466 AAAACGCCGCTAA
1 AAAACGCCGCTAA
109926479 A
1 A
109926480 GCCCTATTTT
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:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAACGCCGCTAA
Found at i:109931253 original size:24 final size:23
Alignment explanation
Indices: 109931219--109931266 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
109931209 AAATGTGTTT
109931219 TTTTCTTTTAATCTAAGTGAAAATA
1 TTTTCTTTTAATCTAA-T-AAAATA
*
109931244 TTTT-TTTTAATTTAATAAAATA
1 TTTTCTTTTAATCTAATAAAATA
109931266 T
1 T
109931267 CATGTCAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 10 0.45
25 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTCTTTTAATCTAATAAAATA
Found at i:109933556 original size:29 final size:30
Alignment explanation
Indices: 109933523--109933591 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
109933513 ATTAGTAAGT
*
109933523 TTACATTTTGGTCACTTAA-T-TTCAAAAA
1 TTACATTTTGGTCACTGAACTATTCAAAAA
***
109933551 GTTACAAAATGGTCACTGAACTATTCAAAAA
1 -TTACATTTTGGTCACTGAACTATTCAAAAA
109933582 TTATCATTTT
1 TTA-CATTTT
109933592 CACAAAGCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
29 15 0.50
30 4 0.13
31 11 0.37
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (30 bp):
TTACATTTTGGTCACTGAACTATTCAAAAA
Found at i:109937397 original size:38 final size:37
Alignment explanation
Indices: 109937347--109937439 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
109937337 ATATATGTAA
* *
109937347 ATATTATGTATATAT-TTTTAAATACTATATT-GTAT
1 ATATTATATATATATATTTTTAATACTATATTAGTAT
* * *
109937382 ATGTATATATATATATATTCTTAGTACTATATTACGTAT
1 ATAT-TATATATATATATTTTTAATACTATATTA-GTAT
*
109937421 ATATTATGTATATATATTT
1 ATATTATATATATATATTT
109937440 ATTTTTACCC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
35 3 0.07
36 10 0.22
37 13 0.28
38 13 0.28
39 7 0.15
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (37 bp):
ATATTATATATATATATTTTTAATACTATATTAGTAT
Found at i:109937534 original size:2 final size:2
Alignment explanation
Indices: 109937527--109937559 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
109937517 TAAATATTGT
*
109937527 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109937560 TATGTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109938352 original size:109 final size:109
Alignment explanation
Indices: 109938217--109938447 Score: 419
Period size: 109 Copynumber: 2.1 Consensus size: 109
109938207 AAAGGATCGG
* *
109938217 TGGCGACTCC-CTGTTTATTTCAAAATCAAACGTCAAATTTTAAACTTTTTTCCATAAATCGCCA
1 TGGCGACTCCACTGTTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
*
109938281 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTATAGC
66 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
109938325 TGGCGACTCCACTGTTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
1 TGGCGACTCCACTGTTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
109938390 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
66 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
*
109938434 TGGCGACCCCACTG
1 TGGCGACTCCACTG
109938448 GGGACCATTT
Statistics
Matches: 118, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 10 0.08
109 108 0.92
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (109 bp):
TGGCGACTCCACTGTTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
Found at i:109950835 original size:20 final size:20
Alignment explanation
Indices: 109950810--109950856 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
109950800 ATGTCTATTT
109950810 TTTTTTTGGGTAAATGTCTG
1 TTTTTTTGGGTAAATGTCTG
*
109950830 TTTTTTTGTGTAAATGTCTG
1 TTTTTTTGGGTAAATGTCTG
109950850 TTTTTTT
1 TTTTTTT
109950857 TTTTGTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.04, G:0.19, T:0.64
Consensus pattern (20 bp):
TTTTTTTGGGTAAATGTCTG
Found at i:109952854 original size:18 final size:18
Alignment explanation
Indices: 109952819--109952852 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
109952809 GTACAAGAGT
109952819 CTCAACGTAAGGACAAAG
1 CTCAACGTAAGGACAAAG
*
109952837 CTCAAC-TAAGGGCAAA
1 CTCAACGTAAGGACAAA
109952853 AGAGTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.12
Consensus pattern (18 bp):
CTCAACGTAAGGACAAAG
Done.