Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 49 of 120
Found at i:14307456 original size:14 final size:14
Alignment explanation
Indices: 14307402--14307448 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
14307392 ATTAATTTTG
14307402 TATTTTCT-A-ATT
1 TATTTTCTCATATT
*
14307414 TATTTTTTCATATT
1 TATTTTCTCATATT
*
14307428 TTTTTTCTCATATT
1 TATTTTCTCATATT
14307442 TATTTTC
1 TATTTTC
14307449 GTATATTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 7 0.24
13 1 0.03
14 21 0.72
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTCTCATATT
Found at i:14311346 original size:3 final size:3
Alignment explanation
Indices: 14311340--14311373 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
14311330 GATGGCTAGG
*
14311340 AGA AGA AGA ATGA AGA AGA AGA AAA AGA AGA AGA
1 AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA
14311374 GAATGACATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:14311846 original size:18 final size:18
Alignment explanation
Indices: 14311818--14311861 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14311808 ATAGTTTTCA
14311818 TGCATTTTTATTTTATCAC
1 TGCA-TTTTATTTTATCAC
* *
14311837 TGCATTTTATTTTGTCAT
1 TGCATTTTATTTTATCAC
14311855 TGCATTT
1 TGCATTT
14311862 CTTTTGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (18 bp):
TGCATTTTATTTTATCAC
Found at i:14312493 original size:11 final size:11
Alignment explanation
Indices: 14312470--14312494 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14312460 AAAAAGGAAG
14312470 AAAAAGAAAAA
1 AAAAAGAAAAA
14312481 AAAAAGAAAAA
1 AAAAAGAAAAA
14312492 AAA
1 AAA
14312495 TTGATAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:14316812 original size:24 final size:23
Alignment explanation
Indices: 14316785--14316855 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 23
14316775 TATCTAAAAT
14316785 AAATAAACTAAGTTTAATTGAAAC
1 AAATAAAC-AAGTTTAATTGAAAC
14316809 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACA-AGTTTAATTGAAAC
*
14316833 AAATAAACAAAATTTAATTGAAA
1 AAATAAAC-AAGTTTAATTGAAA
14316856 GATTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 1 0.02
24 42 0.95
25 1 0.02
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (23 bp):
AAATAAACAAGTTTAATTGAAAC
Found at i:14324464 original size:60 final size:57
Alignment explanation
Indices: 14324392--14324526 Score: 137
Period size: 60 Copynumber: 2.3 Consensus size: 57
14324382 GATTCAAAAA
* * * * *
14324392 TTTTTGAACTTTTAAAGG-CTAAAATAATTTTTTACCAACTTTTAAGGGGCCCCAATTTTT
1 TTTTTTAACTTTTAAAGGCCAAAAATAA--TTTCACCAACTTTT-A-GGGACCCAAATTTT
* * **
14324452 TTTTTTAACTTTTGAGGGCCCAAAAATAATTTCACCAACTTTTAGGGACTTAAATTTT
1 TTTTTTAACTTTTAAAGG-CCAAAAATAATTTCACCAACTTTTAGGGACCCAAATTTT
14324510 TTTTTTAACTTTTAAAG
1 TTTTTTAACTTTTAAAG
14324527 AACCTAAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
58 25 0.40
59 1 0.02
60 28 0.45
62 8 0.13
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (57 bp):
TTTTTTAACTTTTAAAGGCCAAAAATAATTTCACCAACTTTTAGGGACCCAAATTTT
Found at i:14327483 original size:47 final size:47
Alignment explanation
Indices: 14327431--14327538 Score: 171
Period size: 47 Copynumber: 2.3 Consensus size: 47
14327421 TTTTATACAT
*
14327431 TTTAATTTTTCCCAATAATTTATTCGCACTTACAATTTGGTCCTTTA
1 TTTAATTTTACCCAATAATTTATTCGCACTTACAATTTGGTCCTTTA
* * * *
14327478 TTTAATTTTGCCCAGTAATTTATTCGCAGTTACAATTTGGTTCTTTA
1 TTTAATTTTACCCAATAATTTATTCGCACTTACAATTTGGTCCTTTA
14327525 TTTAATTTTACCCA
1 TTTAATTTTACCCA
14327539 TTTATTTCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (47 bp):
TTTAATTTTACCCAATAATTTATTCGCACTTACAATTTGGTCCTTTA
Found at i:14327811 original size:36 final size:37
Alignment explanation
Indices: 14327766--14327836 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
14327756 TATCCTTGCC
* *
14327766 TTTATTTAATTTTATTTG-TTC-ATTATTTTTTTCCTT
1 TTTATTTAATTATA-TTGATTCAATTATTATTTTCCTT
14327802 TTTATTTAATTATATTGATTCAATTATTATTTTCC
1 TTTATTTAATTATATTGATTCAATTATTATTTTCC
14327837 ATTATTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 3 0.10
36 16 0.52
37 12 0.39
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTATTTAATTATATTGATTCAATTATTATTTTCCTT
Found at i:14333087 original size:21 final size:21
Alignment explanation
Indices: 14333042--14333094 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14333032 TTGCACTAGT
**
14333042 TCTACCAATACAAGTAAGATT
1 TCTACCAATACAAGTAAGACA
* *
14333063 TCTACCAATACAAGTTATACA
1 TCTACCAATACAAGTAAGACA
*
14333084 TCTACCGATAC
1 TCTACCAATAC
14333095 CAAAAACTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (21 bp):
TCTACCAATACAAGTAAGACA
Found at i:14341599 original size:16 final size:16
Alignment explanation
Indices: 14341548--14341600 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
14341538 CAATATATAT
* *
14341548 TTTTTCTGCTTTTCTA
1 TTTTTCTTCTTCTCTA
* *
14341564 TTTTTCTT-TTGCTTTC
1 TTTTTCTTCTT-CTCTA
14341580 TTTTTCTTCTTCTCTA
1 TTTTTCTTCTTCTCTA
14341596 TTTTT
1 TTTTT
14341601 ATACGTAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTTCTTCTTCTCTA
Found at i:14342161 original size:17 final size:17
Alignment explanation
Indices: 14342136--14342212 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
14342126 TACAAATTAG
*
14342136 AATGGAAATGCAACTAC
1 AATGAAAATGCAACTAC
*
14342153 AATGCAAATG-AACTAAC
1 AATGAAAATGCAACT-AC
*
14342170 AA-GTAAAATGCAACGAC
1 AATG-AAAATGCAACTAC
*
14342187 AACGAAAATGCAA-TGAC
1 AATGAAAATGCAACT-AC
14342204 AAT-AAAATG
1 AATGAAAATG
14342213 AGATAAATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
16 11 0.22
17 35 0.70
18 4 0.08
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (17 bp):
AATGAAAATGCAACTAC
Found at i:14342196 original size:34 final size:33
Alignment explanation
Indices: 14342141--14342212 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
14342131 ATTAGAATGG
* * *
14342141 AAATGCAACTACAATGCAAATG-AACTAACAAGTA
1 AAATGCAACGACAACGAAAATGCAA-TAACAA-TA
*
14342175 AAATGCAACGACAACGAAAATGCAATGACAATA
1 AAATGCAACGACAACGAAAATGCAATAACAATA
14342208 AAATG
1 AAATG
14342213 AGATAAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.21
34 24 0.73
35 2 0.06
ACGTcount: A:0.54, C:0.17, G:0.14, T:0.15
Consensus pattern (33 bp):
AAATGCAACGACAACGAAAATGCAATAACAATA
Found at i:14347182 original size:158 final size:158
Alignment explanation
Indices: 14346894--14347207 Score: 592
Period size: 158 Copynumber: 2.0 Consensus size: 158
14346884 TTATATCCAA
14346894 AGTAGCCATCAAGGAAACAGTAGTAGGCCTTACCAGCTAGCCTATCCAACTTTTGATCAATAAAT
1 AGTAGCCATCAAGGAAACAGTAGTAGGCCTTACCAGCTAGCCTATCCAACTTTTGATCAATAAAT
*
14346959 GGCAATGGGAAATGGTCTTTCTTTGTCACCGCATAAAAACAATAGTAATCCATACATACTCGCCA
66 GGCAATGGGAAATGGTCTTTCTTTGTCACCGCATAAAAACAACAGTAATCCATACATACTCGCCA
14347024 ACCCATAGTAATGTGAGTAGGGATTACC
131 ACCCATAGTAATGTGAGTAGGGATTACC
14347052 AGTAGCCATCAAGGAAACAGTAGTAGGCCTTACCAGCTAGCCTATCCAACTTTTGATCAATAAAT
1 AGTAGCCATCAAGGAAACAGTAGTAGGCCTTACCAGCTAGCCTATCCAACTTTTGATCAATAAAT
* * *
14347117 GGCAATGGGAAATTGTCTTTCTTTGTCACCGCATATAAACAACGGTAATCCATACATACTCGCCA
66 GGCAATGGGAAATGGTCTTTCTTTGTCACCGCATAAAAACAACAGTAATCCATACATACTCGCCA
14347182 ACCCATAGTAATGTGAGTAGGGATTA
131 ACCCATAGTAATGTGAGTAGGGATTA
14347208 GCTCGTTTTC
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (158 bp):
AGTAGCCATCAAGGAAACAGTAGTAGGCCTTACCAGCTAGCCTATCCAACTTTTGATCAATAAAT
GGCAATGGGAAATGGTCTTTCTTTGTCACCGCATAAAAACAACAGTAATCCATACATACTCGCCA
ACCCATAGTAATGTGAGTAGGGATTACC
Found at i:14359357 original size:48 final size:48
Alignment explanation
Indices: 14359296--14359892 Score: 685
Period size: 48 Copynumber: 12.5 Consensus size: 48
14359286 TGGAATGGAG
* * * **
14359296 TGAAGCTATCACATCTAATCTTATACCCCTAAATCTAGAGGGGCGGAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * * *
14359344 TGAAGCCACCACATCCAATCATATACACCTAAATCCAGAGGGGTAGAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * ** * *
14359392 TAAAGCTACCACATGCAATCTTATTCTTCTAAATCTAGAGGGGCATAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* ** * * *
14359440 TGAAGCTACCACATCTAATCTTATACCGTTAAATCCAGAAGGACAGAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * *
14359488 TGAAGCTCCCAAATCCAATCTTATACCCTTAAATCCAGAAGGGCAAAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* *
14359536 TAAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAGAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * *
14359584 TAAAGCTACCACATCTAA-CTTATACCCTTAAATCCAAAGGGGCAAAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
**
14359631 TGAAGCTACCACATCCAA-CTTATACCCCTAAATCCAGAGGGGCGGAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * * *
14359678 TGACGCTACCGCATCCAATCTTATACCCCTAAATCCAAAGAGGCATAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * * **
14359726 TGAAGCTACCATATCTAGTCTTATACCCCTAAATCCAAAAAGGCAAAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * **
14359774 TAAAGCTACCACATCCAATCTTATACCCCTAAATCTAGAGAGAAAAAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
* * * *
14359822 TAAAGCTACCGCATCCAATCTTATACCCCTAAATCTAAAGGGGCAAAT
1 TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
14359870 TGAAGCTACCACATCCAATCTTA
1 TGAAGCTACCACATCCAATCTTA
14359893 AATCCAAAAG
Statistics
Matches: 468, Mismatches: 80, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
47 83 0.18
48 385 0.82
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.24
Consensus pattern (48 bp):
TGAAGCTACCACATCCAATCTTATACCCCTAAATCCAGAGGGGCAAAT
Found at i:14367748 original size:18 final size:18
Alignment explanation
Indices: 14367706--14367745 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14367696 TTAATTTTTT
* *
14367706 TATTTATTCTATTTATTG
1 TATTTATTATATTCATTG
14367724 TATTTATTATATTCA-TG
1 TATTTATTATATTCATTG
14367741 TATTT
1 TATTT
14367746 TATATTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TATTTATTATATTCATTG
Found at i:14367867 original size:36 final size:37
Alignment explanation
Indices: 14367827--14367900 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
14367817 TAACTTTGCC
*
14367827 TTTATTTAATTTTAT-TTG-TTC-ATTATTTTTTTCCTT
1 TTTATTTAA--TTATGTTGATTCAATTATTATTTTCCTT
14367863 TTTATTTAATTATGTTGATTCAATTATTATTTTCCTT
1 TTTATTTAATTATGTTGATTCAATTATTATTTTCCTT
14367900 T
1 T
14367901 ATTGTATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.12
35 3 0.09
36 12 0.35
37 15 0.44
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (37 bp):
TTTATTTAATTATGTTGATTCAATTATTATTTTCCTT
Found at i:14379831 original size:85 final size:85
Alignment explanation
Indices: 14379686--14379852 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
14379676 TCGCTTCATT
*
14379686 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAACCCACTTCTC
*
14379751 TGTATCTCATTAGGAAGGCG
66 TGTATCTCATCAGGAAGGCG
* * * * * * * * *
14379771 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGTTTTATTGCTTTGACCCACTTTTT
1 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAACCCACTTCTC
14379836 TGTATCTCATCAGGAAG
66 TGTATCTCATCAGGAAG
14379853 ATGGGGTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAACCCACTTCTC
TGTATCTCATCAGGAAGGCG
Found at i:14379928 original size:208 final size:208
Alignment explanation
Indices: 14379572--14381308 Score: 2014
Period size: 208 Copynumber: 8.4 Consensus size: 208
14379562 TTCTTGGTCT
* * * * * * *
14379572 ACTTCTCTATATCTTATTAGGAAGATGATCGCTTTATTACTTCGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
* * * * *** *
14379637 CAAGAAAATAAGGGTTTGAAGTCTCATTCTTTTTGAGTTTCGCTTCATTGATTTGGTCTACTTCT
66 CAGGAAGAT-GGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCT
* * * *
14379702 CTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAATCCACTTCTCTGTATCTCATTAGGAA
130 CTATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAA
*
14379767 GGCGGATTTGG-TC
195 GACGGATTTGGTTC
* * ** * * *
14379780 TACTTCTCTGTATCTCATCAGGAAGATGATCGTTTTATTGCTTTGACCCACTTTTTTGTATCTCA
1 -ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCA
* ** **
14379845 TCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTCATTGATTTGGTCTACTTCT
65 TCAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCT
* * *
14379910 CTATATCTCATTAGGAAGATGACTGCCTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAA
130 CTATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAA
*
14379975 GGCGGATTTGG-TC
195 GACGGATTTGGTTC
* * *
14379988 TACTTATCTGTATCTCATCAAGAAAATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCA
1 -ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCA
* * * *
14380053 TGAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTAATTGATTTGGTCCACTTCT
65 TCAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCT
* * *
14380118 CAATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTTTGTATCTCATGAGGAA
130 CTATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAA
14380183 GGA-GGATTTGG-TC
195 -GACGGATTTGGTTC
* * ** * **
14380196 TGCTTCTTTGTATCTCATCAAGAAGATGACTGCTTTATTGCTTTGATGCACTTCTCTGTATCTCA
1 -ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCA
* * *
14380261 TCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGACCTTCGCTTCATTCATTTGGTCTACTTCT
65 TCAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCT
* * *
14380326 -TAGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCATTTCTCTGTATCTAATCAGGA
130 CTA-TATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
*
14380390 AGACAGATTTGGTTC
194 AGACGGATTTGGTTC
* * * *
14380405 ACTTCTCTGTATCTCATCAAGAAGGTGACCATTTTATTTCTTTGATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
* * * * * *
14380470 CAGGAAGAT-GAG---G--CT-TCACTCACATTGAGCTTTGTTTCATTGATTTAGTCTAATTCT-
66 CAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
* * * *
14380527 TAGTATCTCATCAAGAAGATGATCACCTCATTGTTTTAATCTACTTCTCTGTATCTCATCAGGAA
131 TA-TATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAA
* *
14380592 GACAGATTTGATTC
195 GACGGATTTGGTTC
* * * * * * * *
14380606 ACTTTTTTTTGTCTCGTCAGGAAGATGACCACTTTATTTCTTCGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
* * * **
14380671 TAGGAAGATGGGGTTTGAATTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
66 CAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
* * * *
14380736 TGTATCTCATCAGGAAGATGATCGCCTCATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAG
131 TATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAG
**
14380801 ATAGATTTGGTTC
196 ACGGATTTGGTTC
*** * ** *
14380814 ACTTCTCTACGTCTCGTCAAGAAGATGACCGTTTTATTACTTTGACCCATTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
* * * * *
14380879 CAGGATGATGGGGATTGAAGTTTCACTCACATTGAGC-TCTACTTCATTGAATTT-ATCTACTTC
66 CAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTC-GCTTCATTG-ATTTGGTCTACTTC
* * * * *
14380942 TCTATATCTTATCAGGAAGATGACCACTTCATT-TTTCTAATTCACTTCTTTGTATCTCATCAGG
129 TCTATATCTCATCAGGAAGATGACCGCCTCATTGTTT-TAATCCACTTCTCTGTATCTCATCAGG
*
14381006 AAGATGGATTTGGTTC
193 AAGACGGATTTGGTTC
* * * *
14381022 AC-TCTTCTGCATCTCATCAGGAAGATGACCACTTTATTACTTCGACCCACTTCTCTATATCTCA
1 ACTTC-TCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCA
* * * * * *
14381086 TCAGGAAGATGGGGGTTTGAAGTTTCACACACATTGAGCTCCGATTCATTGAATTGATCTACTTC
65 TCAGGAAGAT-GGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTC
* * * * * *
14381151 TCTGTATCTCATCAGGATGATGATCACTTCATTGTTTTAATCCACTTCTCTGTATTTCATCAGGA
129 TCTATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGA
14381216 AGACGGATTTGGTTC
194 AGACGGATTTGGTTC
* * * * * **
14381231 ACTTCTCTGCATCTCGTTATGAAGATGACCACTTTATTATTTTGACTTACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
*
14381296 CAGAAAGATGGGG
66 CAGGAAGATGGGG
14381309 GATTGATCTA
Statistics
Matches: 1330, Mismatches: 177, Indels: 43
0.86 0.11 0.03
Matches are distributed among these distances:
201 172 0.13
202 3 0.00
204 1 0.00
205 1 0.00
207 13 0.01
208 890 0.67
209 244 0.18
210 6 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (208 bp):
ACTTCTCTGTATCTCATCAAGAAGATGACCACTTTATTACTTTGACCCACTTCTCTGTATCTCAT
CAGGAAGATGGGGTTTGAAGTCTCACTCACATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
TATATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAG
ACGGATTTGGTTC
Found at i:14380039 original size:85 final size:85
Alignment explanation
Indices: 14379894--14380060 Score: 217
Period size: 85 Copynumber: 2.0 Consensus size: 85
14379884 TCATTTCATT
* * * * ** *
14379894 GATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGACTGCCTCATTGATTTAATCCACTTCTC
1 GATTTGGTCTACTTATCTATATCTCATCAAGAAAATGACCACCTCATTGATTTAACCCACTTCTC
14379959 TGTATCTCATCAGGAAGGCG
66 TGTATCTCATCAGGAAGGCG
* * * * *
14379979 GATTTGGTCTACTTATCTGTATCTCATCAAGAAAATGACCACTTTATTGCTTTGACCCACTTCTC
1 GATTTGGTCTACTTATCTATATCTCATCAAGAAAATGACCACCTCATTGATTTAACCCACTTCTC
*
14380044 TGTATCTCATGAGGAAG
66 TGTATCTCATCAGGAAG
14380061 ATGGGGTTTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACTTATCTATATCTCATCAAGAAAATGACCACCTCATTGATTTAACCCACTTCTC
TGTATCTCATCAGGAAGGCG
Found at i:14380836 original size:617 final size:616
Alignment explanation
Indices: 14379565--14381308 Score: 2060
Period size: 617 Copynumber: 2.8 Consensus size: 616
14379555 GCTTCATTTC
* * * * *
14379565 TTGGTCTACTTCTCTATATCTTATTAGGAAGATGA-TCGCTTTATTACTTCGACCCACTTCTCTG
1 TTGGTCTACTTCTCTACATCTCATCAAGAAGATGACT-GCTTTATTACTTTGACCCACTTCTCTG
* * * * * *** * *
14379629 TATCTCATCAAGAAAATAAGGGTTTGAAGTCTCATTCTTTTTGAGTTTCGCTTCATTGATTTGGT
65 TATCTCATCAGGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGT
* *
14379694 CTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAATGATTTAATCCACTTCTCTGTATCTC
129 CTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTGTATCTC
* * * * *
14379759 ATTAGGAAGGCGGATTTGG-TCTACTTCTCTGTATCTCATCAGGAAGATGATCGTTTTATTGCTT
194 ATCAGGAAGACGGATTTGGTTC-ACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTACTT
* * * * *
14379823 TGACCCACTTTTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCAT
258 TGACCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTT-CA--CTCA--C--ATTGAGCTTCGT
* * *
14379888 TTCATTGATTTGGTCTACTTCTCTA-TATCTCATTAGGAAGATGA-CTGCCTCATTGATTTAATC
316 TTCATTGATTT-GTCTACTTCTCTAGTATCTCATCAGGAAGATGATC-ACCTCATTGTTTTAATC
* * * *
14379951 CACTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCTACTTATCTGTATCTCATCAAGAAAATG
379 CACTTCTCTGTATCTCATCAGGAAGACGGATTTGTTC-ACTTATCTGTATCTCGTCAAGAAGATG
* *
14380016 ACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATGAGGAAGATGGGGTTTGAAGTTTCACT
443 ACCACTTTATTTCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACT
14380081 CACATTGAGCTTCGCTTAATTGATTTGGTCCACTTCTCAATATCTCATCAGGAAGATGACCGCCT
508 CACATTGAGCTTCGCTTAATTGATTTGGTCCACTTCTCAATATCTCATCAGGAAGATGACCGCCT
* * * * *
14380146 CATTGTTTTAATCCACTTCTTTGTATCTCATGAGGAAGGAGGAT
573 CATTATTTTAATCCACTTCTCTGTATCTCATCAAGAAGGAAGAT
* * ** * **
14380190 TTGGTCTGCTTCTTTGTATCTCATCAAGAAGATGACTGCTTTATTGCTTTGATGCACTTCTCTGT
1 TTGGTCTACTTCTCTACATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGT
* *
14380255 ATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGACCTTCGCTTCATTCATTTGGTCT
66 ATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGTCT
* * * *
14380320 ACTTCT-TAGTATCTCATCAGGAAGATGATCGCCTCATTGTTTTAATCCATTTCTCTGTATCTAA
131 ACTTCTCTA-TATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTGTATCTCA
* * * *
14380384 TCAGGAAGACAGATTTGGTTCACTTCTCTGTATCTCATCAAGAAGGTGACCATTTTATTTCTTTG
195 TCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTACTTTG
* * *
14380449 ATCCACTTCTCTGTATCTCATCAGGAAGATGAGGCTTCACTCACATTGAGCTTTGTTTCATTGAT
260 ACCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTCACTCACATTGAGCTTCGTTTCATTGAT
* * *
14380514 TTAGTCTAATTCT-TAGTATCTCATCAAGAAGATGATCACCTCATTGTTTTAATCTACTTCTCTG
325 TT-GTCTACTTCTCTAGTATCTCATCAGGAAGATGATCACCTCATTGTTTTAATCCACTTCTCTG
* * * * * *
14380578 TATCTCATCAGGAAGACAGATTTGATTCACTTTTTTTTGTCTCGTCAGGAAGATGACCACTTTAT
389 TATCTCATCAGGAAGACGGATTTG-TTCACTTATCTGTATCTCGTCAAGAAGATGACCACTTTAT
* * * **
14380643 TTCTTCGACCCACTTCTCTGTATCTCATTAGGAAGATGGGGTTTGAA-TTCTCATTCGTATTGAG
453 TTCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTT-TCACTCACATTGAG
* * ** *
14380707 CTTCGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTATTTT
517 CTTCGCTTAATTGATTTGGTCCACTTCTCAATATCTCATCAGGAAGATGACCGCCTCATTATTTT
14380772 AATCCACTTCTCTGTATCTCATCAAGAA-GATAGAT
582 AATCCACTTCTCTGTATCTCATCAAGAAGGA-AGAT
* * * * *
14380807 TTGGT-TCACTTCTCTACGTCTCGTCAAGAAGATGACCGTTTTATTACTTTGACCCATTTCTCTG
1 TTGGTCT-ACTTCTCTACATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTG
* * * *
14380871 TATCTCATCAGGATGATGGGGATTGAAGTTTCACTCACATTGAGC-TCTACTTCATTGAATTT-A
65 TATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC-GCTTCATT-AATTTGG
* * * *
14380934 TCTACTTCTCTATATCTTATCAGGAAGATGACCACTTCATT-TTTCTAATTCACTTCTTTGTATC
128 TCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTT-TAATCCACTTCTCTGTATC
* * *
14380998 TCATCAGGAAGATGGATTTGGTTCAC-TCTTCTGCATCTCATCAGGAAGATGACCACTTTATTAC
192 TCATCAGGAAGACGGATTTGGTTCACTTC-TCTGTATCTCATCAGGAAGATGACCATTTTATTAC
* * * * *
14381062 TTCGACCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACACACATTGAGCTC
256 TTTGACCCACTTCTCTGTATCTCATCAGGAAGA--------TGAGGTTTCACTCACATTGAGCTT
* * * *
14381127 CGATTCATTGAATTGATCTACTTCTCT-GTATCTCATCAGGATGATGATCACTTCATTGTTTTAA
313 CGTTTCATTGATTTG-TCTACTTCTCTAGTATCTCATCAGGAAGATGATCACCTCATTGTTTTAA
* * * * *
14381191 TCCACTTCTCTGTATTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGCATCTCGTTATGAAGA
377 TCCACTTCTCTGTATCTCATCAGGAAGACGGATTT-GTTCACTTATCTGTATCTCGTCAAGAAGA
** *
14381256 TGACCACTTTATTAT-TTTGACTTACTTCTCTGTATCTCATCAGAAAGATGGGG
441 TGACCACTTTATT-TCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGG
14381309 GATTGATCTA
Statistics
Matches: 955, Mismatches: 138, Indels: 52
0.83 0.12 0.05
Matches are distributed among these distances:
616 14 0.01
617 497 0.52
618 9 0.01
619 1 0.00
621 4 0.00
623 3 0.00
624 182 0.19
625 241 0.25
626 4 0.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (616 bp):
TTGGTCTACTTCTCTACATCTCATCAAGAAGATGACTGCTTTATTACTTTGACCCACTTCTCTGT
ATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTAATTTGGTCT
ACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCCACTTCTCTGTATCTCAT
CAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCATTTTATTACTTTGA
CCCACTTCTCTGTATCTCATCAGGAAGATGAGGTTTCACTCACATTGAGCTTCGTTTCATTGATT
TGTCTACTTCTCTAGTATCTCATCAGGAAGATGATCACCTCATTGTTTTAATCCACTTCTCTGTA
TCTCATCAGGAAGACGGATTTGTTCACTTATCTGTATCTCGTCAAGAAGATGACCACTTTATTTC
TTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC
GCTTAATTGATTTGGTCCACTTCTCAATATCTCATCAGGAAGATGACCGCCTCATTATTTTAATC
CACTTCTCTGTATCTCATCAAGAAGGAAGAT
Found at i:14381383 original size:45 final size:45
Alignment explanation
Indices: 14381314--14381410 Score: 158
Period size: 45 Copynumber: 2.2 Consensus size: 45
14381304 TGGGGGATTG
* *
14381314 ATCTACCCCTTTTGACTAGGGGTAAAAGATCGAAATGTGGCTACA
1 ATCTGCCCCTTTTGACTAGGGGTAAAAGATCAAAATGTGGCTACA
* *
14381359 ATCTGCCCCTTTTGACTATGGGTAAAAGATTAAAATGTGGCTACA
1 ATCTGCCCCTTTTGACTAGGGGTAAAAGATCAAAATGTGGCTACA
14381404 ATCTGCC
1 ATCTGCC
14381411 TCATGATCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (45 bp):
ATCTGCCCCTTTTGACTAGGGGTAAAAGATCAAAATGTGGCTACA
Found at i:14381442 original size:42 final size:42
Alignment explanation
Indices: 14381396--14381546 Score: 196
Period size: 42 Copynumber: 3.5 Consensus size: 42
14381386 GATTAAAATG
14381396 TGGCTACAATCTGCCTCATGATCGGGGTAAGAGATTGGATGA
1 TGGCTACAATCTGCCTCATGATCGGGGTAAGAGATTGGATGA
* * *
14381438 TGGCTACAATCTGTGC-CATGATCGGGGTAAGGGATTGGATGG
1 TGGCTACAATCTG-CCTCATGATCGGGGTAAGAGATTGGATGA
* **
14381480 TGGCTATAATCTGCCTCATGATTAGGGTAAGAGATTGGATGATGA
1 TGGCTACAATCTGCCTCATGATCGGGGTAAGAGATT-G--GATGA
*
14381525 TGGCTGCAATCTGCCTCATGAT
1 TGGCTACAATCTGCCTCATGAT
14381547 TAGGAATAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 66 0.71
43 2 0.02
45 24 0.26
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (42 bp):
TGGCTACAATCTGCCTCATGATCGGGGTAAGAGATTGGATGA
Found at i:14381543 original size:45 final size:45
Alignment explanation
Indices: 14381396--14381563 Score: 188
Period size: 42 Copynumber: 3.8 Consensus size: 45
14381386 GATTAAAATG
*
14381396 TGGCTACAATCTGCCTCATGATCGGGGTAAGAGATT-G--GATGA
1 TGGCTACAATCTGCCTCATGATCAGGGTAAGAGATTGGATGATGA
* * *
14381438 TGGCTACAATCTGTGC-CATGATCGGGGTAAGGGATTGGATG--G-
1 TGGCTACAATCTG-CCTCATGATCAGGGTAAGAGATTGGATGATGA
* *
14381480 TGGCTATAATCTGCCTCATGATTAGGGTAAGAGATTGGATGATGA
1 TGGCTACAATCTGCCTCATGATCAGGGTAAGAGATTGGATGATGA
* * *
14381525 TGGCTGCAATCTGCCTCATGATTAGGAATAAGAGATTGG
1 TGGCTACAATCTGCCTCATGATCAGG-GTAAGAGATTGG
14381564 TGTGTCTTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 66 0.62
43 3 0.03
44 1 0.01
45 25 0.23
46 11 0.10
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (45 bp):
TGGCTACAATCTGCCTCATGATCAGGGTAAGAGATTGGATGATGA
Found at i:14381612 original size:87 final size:86
Alignment explanation
Indices: 14381395--14381613 Score: 234
Period size: 84 Copynumber: 2.5 Consensus size: 86
14381385 AGATTAAAAT
* * *
14381395 GTGGCTACAATCTGCCTCATGA-TCGGGGTAAGAGATTGG-ATGATGGCTACAATCTGTGCCATG
1 GTGGCTATAATCTGCCTCATGATTAGGGGTAAGAGATTGGAATGATGGCTACAATCTGTCCCATG
* ** *
14381458 ATCGGGGTAAGGGATTGGATG
66 ATAGGAATAAGAGATTGGATG
*
14381479 GTGGCTATAATCTGCCTCATGATTA-GGGTAAGAGATTGGATGATGATGGCTGCAATCTG-CCTC
1 GTGGCTATAATCTGCCTCATGATTAGGGGTAAGAGATTGGA--ATGATGGCTACAATCTGTCC-C
14381542 ATGATTAGGAATAAGAGATTGG-T-
63 ATGA-TAGGAATAAGAGATTGGATG
* * * *
14381565 GTGTCTTTAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGAATGATG
1 GTGGCTATAATCTG--CCTCATGATTAGGGGTAAGAGATTGGAATGATG
14381614 TAGTTTTAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
84 35 0.31
85 1 0.01
86 13 0.11
87 28 0.25
88 23 0.20
89 14 0.12
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (86 bp):
GTGGCTATAATCTGCCTCATGATTAGGGGTAAGAGATTGGAATGATGGCTACAATCTGTCCCATG
ATAGGAATAAGAGATTGGATG
Found at i:14382101 original size:49 final size:49
Alignment explanation
Indices: 14381866--14382091 Score: 226
Period size: 49 Copynumber: 4.6 Consensus size: 49
14381856 GTCTTTGAGA
* * * * *
14381866 CCTCAACCTTTTCCTTCA-ACTCCTCATGGTATCGGGTTCACCGTTGCGG
1 CCTCAACCTTTCCCTTCACA-TCTTCATGGTACCGGGTTCGCCATTGCGG
* * * * * * *
14381915 CCTTAACCTTTCCCATCACAT-TTCATGGAAACGGATTCACCATTGCAG
1 CCTCAACCTTTCCCTTCACATCTTCATGGTACCGGGTTCGCCATTGCGG
* * *
14381963 CCTCAATCC-TCCCCATCACATCTT-ATAAGGTACCGGGTTCGCCATTACGG
1 CCTCAA-CCTTTCCCTTCACATCTTCAT--GGTACCGGGTTCGCCATTGCGG
* *
14382013 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTTGCGG
1 CCTCAACCTTTCCCTTCACATCTTCATGGTACCGGGTTCGCCATTGCGG
*
14382062 CCTCAACCTTTCCCTTCATATCTTCATGGT
1 CCTCAACCTTTCCCTTCACATCTTCATGGT
14382092 GTTGGGTTCG
Statistics
Matches: 147, Mismatches: 23, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
48 39 0.27
49 71 0.48
50 35 0.24
51 2 0.01
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCACATCTTCATGGTACCGGGTTCGCCATTGCGG
Found at i:14389209 original size:21 final size:20
Alignment explanation
Indices: 14389169--14389210 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
14389159 ACATTTGGTA
*
14389169 TTTTTTTGCTTGTCTTTTTG
1 TTTTTTTGCTTGTCTCTTTG
14389189 TTTTTGTTGCCTTG-CTCTTTG
1 TTTTT-TTG-CTTGTCTCTTTG
14389210 T
1 T
14389211 CGTTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.00, C:0.14, G:0.17, T:0.69
Consensus pattern (20 bp):
TTTTTTTGCTTGTCTCTTTG
Found at i:14389743 original size:138 final size:137
Alignment explanation
Indices: 14389489--14389868 Score: 535
Period size: 138 Copynumber: 2.8 Consensus size: 137
14389479 GGGCTCCAAC
* * *
14389489 ATATATATTTTACCGAATTTGTTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAAA
1 ATATATATTTTACCGAATTTATTAATATAAAAAATTATATTAATTAATTTCAATCAAAATATAAA
* * *
14389554 AGACATTGAAACTAATATTCTTCTAAAAAGAATATAATTAATATATAAATTTGATTCATAAAAAA
66 AGACA-TGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATAAATTTGATTCATAAAAAA
14389619 TATTAATT
130 TATTAATT
* * * * *
14389627 ATATTTATTTTATCGAATTTATTAATATAAAAAATTATACTAATTAATTTCAATCAACATGTAAA
1 ATATATATTTTACCGAATTTATTAATATAAAAAATTATATTAATTAATTTCAATCAAAATATAAA
* * * *
14389692 AGACATGAAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTTATTTATACAAAA
66 AGACATG-AAATTAATATTCTTTTAGAAAGAATATAATTAATATATAAATTTGATTCATAAAAAA
14389757 TATTAATT
130 TATTAATT
* * * * * *
14389765 GTATATATTTTACCGAATTTATTAATATAGATAGTTATATTAATTTATTTCAATCAAGATATAAA
1 ATATATATTTTACCGAATTTATTAATATAAAAAATTATATTAATTAATTTCAATCAAAATATAAA
*
14389830 AGACATGGAAATTAATATTCTTTTGGAAAGAATATAATT
66 AGACAT-GAAATTAATATTCTTTTAGAAAGAATATAATT
14389869 CATTTTTCTA
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
137 2 0.01
138 211 0.99
139 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (137 bp):
ATATATATTTTACCGAATTTATTAATATAAAAAATTATATTAATTAATTTCAATCAAAATATAAA
AGACATGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATAAATTTGATTCATAAAAAAT
ATTAATT
Found at i:14393356 original size:30 final size:30
Alignment explanation
Indices: 14393305--14393375 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
14393295 TTCTCACAAA
*
14393305 TTGATTATTTTATTTCATATTATATATAACT
1 TTGATT-TTTTAATTCATATTATATATAACT
* * *
14393336 TTTATTTTTTAATTCGTATTATATCTAACT
1 TTGATTTTTTAATTCATATTATATATAACT
14393366 TTGATTTTTT
1 TTGATTTTTT
14393376 GTTTTTGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (30 bp):
TTGATTTTTTAATTCATATTATATATAACT
Found at i:14393533 original size:23 final size:23
Alignment explanation
Indices: 14393479--14393533 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
14393469 TTTATGTATG
* *
14393479 TTATGTATATTATGTATGTATAA
1 TTATGTATGTTATGTATATATAA
* *
14393502 CTATGTATGTTCTGTATATATAA
1 TTATGTATGTTATGTATATATAA
14393525 TTATGTATG
1 TTATGTATG
14393534 ATACAAGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.51
Consensus pattern (23 bp):
TTATGTATGTTATGTATATATAA
Found at i:14404815 original size:25 final size:26
Alignment explanation
Indices: 14404787--14404844 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
14404777 AAAGTTGGTA
* *
14404787 AAAAAATATTTGG-CCTTTAAAAGTT
1 AAAAAATATTTGGACCCTTAAAAATT
14404812 AAAAAA-ATTTGGACCCTTAAAAATT
1 AAAAAATATTTGGACCCTTAAAAATT
*
14404837 GAAAAATA
1 AAAAAATA
14404845 ATATTTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 21 0.75
26 1 0.04
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAAAATATTTGGACCCTTAAAAATT
Found at i:14405300 original size:12 final size:12
Alignment explanation
Indices: 14405283--14405444 Score: 131
Period size: 12 Copynumber: 14.1 Consensus size: 12
14405273 ATAATATCCA
*
14405283 AACAACCAAAAT
1 AACAACAAAAAT
* *
14405295 AACAACCAAAAC
1 AACAACAAAAAT
* *
14405307 AGCAGCAAAAAT
1 AACAACAAAAAT
* *
14405319 AATAGC-AAAAT
1 AACAACAAAAAT
14405330 AAC-A-AAAAA-
1 AACAACAAAAAT
14405339 AACAACAAAAAT
1 AACAACAAAAAT
** *
14405351 AGTAACAAAAAC
1 AACAACAAAAAT
*
14405363 AGCAACAAAAAT
1 AACAACAAAAAT
14405375 AACAACAAAAAT
1 AACAACAAAAAT
*
14405387 AGCAAC--AAA-
1 AACAACAAAAAT
14405396 AACAACAAAAAT
1 AACAACAAAAAT
*
14405408 AACAGCAAAAAT
1 AACAACAAAAAT
* *
14405420 AGCAACAAAAAC
1 AACAACAAAAAT
*
14405432 AACAACACAAAT
1 AACAACAAAAAT
14405444 A
1 A
14405445 GTAAAAAAAG
Statistics
Matches: 119, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
9 8 0.07
10 8 0.07
11 15 0.13
12 88 0.74
ACGTcount: A:0.69, C:0.19, G:0.05, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:14405379 original size:33 final size:33
Alignment explanation
Indices: 14405325--14405507 Score: 145
Period size: 33 Copynumber: 5.5 Consensus size: 33
14405315 AAATAATAGC
* * *
14405325 AAAATAACAAAAAAAACAACAAAAATAGTAACA
1 AAAACAACAACAAAAACAACAAAAATAGCAACA
*
14405358 AAAACAGCAACAAAAATAACAACAAAAATAGCAACA
1 AAAACAACAAC--AAA-AACAACAAAAATAGCAACA
*
14405394 AAAACAACAA-AAATAACAGCAAAAATAGCAACA
1 AAAACAACAACAAA-AACAACAAAAATAGCAACA
* * ** * *
14405427 AAAACAACAACACAAATAGTAAAAAAAGC-ACC
1 AAAACAACAACAAAAACAACAAAAATAGCAACA
** * * * *
14405459 AAAACAGTAACCAAAACAGCAAAAAAAGCAACC
1 AAAACAACAACAAAAACAACAAAAATAGCAACA
* *
14405492 AAAACAATAAAAAAAA
1 AAAACAACAACAAAAA
14405508 TCAAAACAAC
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
32 25 0.20
33 68 0.54
34 2 0.02
35 3 0.02
36 27 0.22
ACGTcount: A:0.70, C:0.18, G:0.05, T:0.06
Consensus pattern (33 bp):
AAAACAACAACAAAAACAACAAAAATAGCAACA
Found at i:14405471 original size:12 final size:12
Alignment explanation
Indices: 14405456--14405497 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
14405446 TAAAAAAAGC
*
14405456 ACCAAAACAGTA
1 ACCAAAACAGCA
14405468 ACCAAAACAGCA
1 ACCAAAACAGCA
14405480 A--AAAA-AGCA
1 ACCAAAACAGCA
14405489 ACCAAAACA
1 ACCAAAACA
14405498 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 4 0.15
12 13 0.50
ACGTcount: A:0.64, C:0.26, G:0.07, T:0.02
Consensus pattern (12 bp):
ACCAAAACAGCA
Found at i:14405503 original size:21 final size:21
Alignment explanation
Indices: 14405467--14405506 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14405457 CCAAAACAGT
*
14405467 AACCAAAACAGCAAAAAAAGC
1 AACCAAAACAACAAAAAAAGC
*
14405488 AACCAAAACAATAAAAAAA
1 AACCAAAACAACAAAAAAA
14405507 ATCAAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.72, C:0.20, G:0.05, T:0.03
Consensus pattern (21 bp):
AACCAAAACAACAAAAAAAGC
Found at i:14410531 original size:3 final size:3
Alignment explanation
Indices: 14410525--14410550 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14410515 TGTGGTGGGA
14410525 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14410551 ACATTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14413799 original size:6 final size:6
Alignment explanation
Indices: 14413788--14413830 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
14413778 TGATCAAAAT
* * *
14413788 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TAAAAT TGAAAG T
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG T
14413831 TATATGAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:14413811 original size:18 final size:18
Alignment explanation
Indices: 14413783--14413830 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
14413773 ATTTGTGATC
*
14413783 AAAATTGAAAGTGAAAGT
1 AAAAGTGAAAGTGAAAGT
* *
14413801 GAAAGTGAAAGTGAAATT
1 AAAAGTGAAAGTGAAAGT
*
14413819 AAAATTGAAAGT
1 AAAAGTGAAAGT
14413831 TATATGAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (18 bp):
AAAAGTGAAAGTGAAAGT
Found at i:14425259 original size:15 final size:15
Alignment explanation
Indices: 14425239--14425273 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14425229 TAAAATTGAA
*
14425239 ATAAATACTTAAAAT
1 ATAAATAATTAAAAT
14425254 ATAAATAATTAAAAT
1 ATAAATAATTAAAAT
14425269 -TAAAT
1 ATAAAT
14425274 CATGAACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAATAATTAAAAT
Found at i:14426573 original size:28 final size:29
Alignment explanation
Indices: 14426515--14426573 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
14426505 AATGGCTCAA
* *
14426515 AATTTTTTTTACAAACTTTTAAGAGATCT
1 AATTTTTTTTACAAACTTTTAAGAAACCT
*
14426544 AATTTTTTTT-CTAACTTTTAAGAAACCT
1 AATTTTTTTTACAAACTTTTAAGAAACCT
14426572 AA
1 AA
14426574 AACCCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (29 bp):
AATTTTTTTTACAAACTTTTAAGAAACCT
Found at i:14432763 original size:14 final size:14
Alignment explanation
Indices: 14432725--14432755 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14432715 CCAGAAAAGT
14432725 AAATCATTTTCCAA
1 AAATCATTTTCCAA
14432739 AAATCATTTTCCAA
1 AAATCATTTTCCAA
14432753 AAA
1 AAA
14432756 CTATTTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:14435520 original size:14 final size:14
Alignment explanation
Indices: 14435501--14435528 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14435491 TATATTAGTA
14435501 TTTTCTATTCTATT
1 TTTTCTATTCTATT
14435515 TTTTCTATTCTATT
1 TTTTCTATTCTATT
14435529 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:14435982 original size:2 final size:2
Alignment explanation
Indices: 14435969--14436016 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
14435959 ATTTTGAGGT
* *
14435969 CA CA CA CG CA CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14436011 CA CA CA
1 CA CA CA
14436017 TATCAGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.50, G:0.04, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14441214 original size:18 final size:17
Alignment explanation
Indices: 14441191--14441232 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
14441181 ATTTAAGGCG
14441191 TAATTAATTTAAAATT-TT
1 TAATTAATTT--AATTATT
14441209 TAATTAATTTAATTATT
1 TAATTAATTTAATTATT
14441226 TAATTAA
1 TAATTAA
14441233 AAACTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTAATTTAATTATT
Found at i:14443021 original size:18 final size:18
Alignment explanation
Indices: 14442998--14443039 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
14442988 TTTTCAATTG
14442998 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
14443016 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
14443034 TAATTA
1 TAATTA
14443040 GAAATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:14448802 original size:24 final size:26
Alignment explanation
Indices: 14448752--14448804 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
14448742 CTCATTTGAT
14448752 TTTATTTTGTATTATTTCCTTATTTA
1 TTTATTTTGTATTATTTCCTTATTTA
*
14448778 TTTATTTT-TATT-TTTGCTTATTTA
1 TTTATTTTGTATTATTTCCTTATTTA
14448802 TTT
1 TTT
14448805 TTTATGCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 14 0.54
25 4 0.15
26 8 0.31
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTATTTTGTATTATTTCCTTATTTA
Found at i:14448809 original size:27 final size:25
Alignment explanation
Indices: 14448745--14448805 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
14448735 TCAGTCCCTC
14448745 ATTTGATTTTATTTTGTATTATTTCCTT
1 ATTT-ATTTTATTTT-TATT-TTTCCTT
*
14448773 ATTTA-TTTATTTTTATTTTTGCTT
1 ATTTATTTTATTTTTATTTTTCCTT
14448797 ATTTATTTT
1 ATTTATTTT
14448806 TTATGCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 8 0.26
27 1 0.03
28 4 0.13
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (25 bp):
ATTTATTTTATTTTTATTTTTCCTT
Found at i:14448814 original size:17 final size:16
Alignment explanation
Indices: 14448779--14448823 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
14448769 CCTTATTTAT
14448779 TTATTT-TTATTTTTGC
1 TTATTTATT-TTTTTGC
14448795 TTATTTATTTTTTATGC
1 TTATTTATTTTTT-TGC
14448812 TTATTTTATTTT
1 TTA-TTTATTTT
14448824 ATTTTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
17 8 0.31
18 8 0.31
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (16 bp):
TTATTTATTTTTTTGC
Found at i:14450314 original size:13 final size:13
Alignment explanation
Indices: 14450279--14450317 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14450269 CCTCATTTTT
14450279 TTTATTTTGTATTA
1 TTTATTTT-TATTA
**
14450293 TTTCCTTTTATTA
1 TTTATTTTTATTA
14450306 TTTATTTTTATT
1 TTTATTTTTATT
14450318 TTTGCTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:14450335 original size:33 final size:32
Alignment explanation
Indices: 14450273--14450355 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 32
14450263 TCAATCCCTC
*
14450273 ATTTTTTTTATTTTGTATTATTTCCTTTTATT
1 ATTTTTTTTATTTTGTATTATTTACTTTTATT
* *
14450305 ATTTATTTTTATTTT-TGCTTATTTATTTTTATGCTT
1 ATTT-TTTTTATTTTGT-ATTATTTACTTTTA---TT
14450341 ATTTTATTTTATTTT
1 ATTTT-TTTTATTTT
14450356 CTAATATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 5 0.12
33 21 0.50
35 1 0.02
36 15 0.36
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.75
Consensus pattern (32 bp):
ATTTTTTTTATTTTGTATTATTTACTTTTATT
Found at i:14450351 original size:16 final size:16
Alignment explanation
Indices: 14450311--14450352 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14450301 TATTATTTAT
14450311 TTTTATTTT-TGCTTA
1 TTTTATTTTATGCTTA
14450326 -TTTATTTTTATGCTTA
1 TTTTA-TTTTATGCTTA
14450342 TTTTATTTTAT
1 TTTTATTTTAT
14450353 TTTCTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 12 0.50
17 4 0.17
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTATTTTATGCTTA
Found at i:14454861 original size:20 final size:20
Alignment explanation
Indices: 14454848--14454886 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14454838 TTAAATAGGT
*
14454848 TTAATTAAAGTTAAAAATGG
1 TTAATTAAACTTAAAAATGG
*
14454868 TTAATTAAACTTAATAATG
1 TTAATTAAACTTAAAAATG
14454887 AAAGTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTAAACTTAAAAATGG
Found at i:14461684 original size:20 final size:20
Alignment explanation
Indices: 14461671--14461709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14461661 TTAAATAGGT
*
14461671 TTAATTAAAGTTAAAAATGG
1 TTAATTAAACTTAAAAATGG
*
14461691 TTAATTAAACTTAATAATG
1 TTAATTAAACTTAAAAATG
14461710 AAAGTCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTAAACTTAAAAATGG
Found at i:14462764 original size:17 final size:16
Alignment explanation
Indices: 14462744--14462791 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
14462734 GAATTATTAA
*
14462744 TGTCATTGCATTTTTAT
1 TGTCATTGCATTTCT-T
* *
14462761 TGTCGTTGCATATACTT
1 TGTCATTGCAT-TTCTT
14462778 TGTCATTGCATTTC
1 TGTCATTGCATTTC
14462792 CATATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (16 bp):
TGTCATTGCATTTCTT
Found at i:14467829 original size:40 final size:40
Alignment explanation
Indices: 14467717--14467829 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
14467707 GAGAATATTT
* *
14467717 ACTGAACTGGCAGTGACACTGTAAACACTACAAGATTACA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAAATTACA
* * * *
14467757 ACTAAATTGACAGTGACACTGTACACACTGCAAAATTACA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAAATTACA
* *
14467797 ACTGAACTGGCAGTGAAACTGTAAACATTGCAA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAA
14467830 TGTGTCAAAC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTGTAAACACTGCAAAATTACA
Found at i:14468833 original size:17 final size:17
Alignment explanation
Indices: 14468810--14468853 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
14468800 CCAAACCCAT
14468810 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
14468828 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
14468844 TTTAAATTTA
1 TTTAAATTTA
14468854 AATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14468847 original size:6 final size:6
Alignment explanation
Indices: 14468838--14468872 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
14468828 TTAAATTTGT
*
14468838 TTTAAA TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14468873 ATTATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:14468854 original size:23 final size:23
Alignment explanation
Indices: 14468828--14468872 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14468818 TATTTTAAGA
*
14468828 TTAAATTTGTTTTAAATTTAAAT
1 TTAAATTTATTTTAAATTTAAAT
14468851 TTAAATTTATTTTAAATTTAAA
1 TTAAATTTATTTTAAATTTAAA
14468873 ATTATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAAATTTATTTTAAATTTAAAT
Found at i:14468854 original size:40 final size:40
Alignment explanation
Indices: 14468810--14468888 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
14468800 CCAAACCCAT
* * *
14468810 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAATTTAAA
1 TTTAAATTTATTTTAA-ATTTAAAATTATTATAAATTTAAA
14468850 TTTAAATTTATTTTAAATTTAAAATTATTATAAATTTAA
1 TTTAAATTTATTTTAAATTTAAAATTATTATAAATTTAA
14468889 TAAAAAGTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (40 bp):
TTTAAATTTATTTTAAATTTAAAATTATTATAAATTTAAA
Found at i:14468864 original size:17 final size:17
Alignment explanation
Indices: 14468844--14468888 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
14468834 TTGTTTTAAA
*
14468844 TTTAAATTTAAATTTAT
1 TTTAAATTTAAAATTAT
14468861 TTTAAATTTAAAATTAT
1 TTTAAATTTAAAATTAT
*
14468878 TATAAATTTAA
1 TTTAAATTTAA
14468889 TAAAAAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAAATTAT
Found at i:14468910 original size:14 final size:14
Alignment explanation
Indices: 14468887--14468921 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14468877 TTATAAATTT
14468887 AATA-AAAAGTCCA
1 AATACAAAAGTCCA
14468900 AATACAAAAGTCCA
1 AATACAAAAGTCCA
*
14468914 ATTACAAA
1 AATACAAA
14468922 CTGGGGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (14 bp):
AATACAAAAGTCCA
Found at i:14469605 original size:15 final size:15
Alignment explanation
Indices: 14469585--14469645 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
14469575 AAATGAATTT
14469585 TTAATAATAATAATA
1 TTAATAATAATAATA
14469600 TTAATAATAATAA-A
1 TTAATAATAATAATA
* * *
14469614 TGTAATACTAATGACA
1 T-TAATAATAATAATA
14469630 TTAATTAATAATAATA
1 TTAA-TAATAATAATA
14469646 ATAAGTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.05
15 26 0.68
16 10 0.26
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAATAATAATAATA
Found at i:14470748 original size:29 final size:30
Alignment explanation
Indices: 14470716--14470849 Score: 109
Period size: 29 Copynumber: 4.6 Consensus size: 30
14470706 TGATTTTTCC
**
14470716 AAAATTACCATTTTACCCCT-GGATGTCTA
1 AAAATTACCATTTTACCCCTCAAATGTCTA
* * *
14470745 AAAATT-CCATTTTAACCCT-AAACTTTCCA
1 AAAATTACCATTTTACCCCTCAAA-TGTCTA
*
14470774 AAAATTATCATTTTA-CCCTCAAATGTCTA
1 AAAATTACCATTTTACCCCTCAAATGTCTA
* ** * *
14470803 AAAATT-TCATTTTTTCCCTCGAATGTC-C
1 AAAATTACCATTTTACCCCTCAAATGTCTA
*
14470831 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
14470850 CGGGTATCCA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
28 26 0.30
29 50 0.58
30 10 0.12
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATTACCATTTTACCCCTCAAATGTCTA
Found at i:14470755 original size:58 final size:58
Alignment explanation
Indices: 14470686--14470849 Score: 163
Period size: 58 Copynumber: 2.8 Consensus size: 58
14470676 TAAACTATCC
* * **
14470686 AAAAATTCCATTTTTGACCTTGATTTTTCCAAAATTACCATTTTACCCCT-GGATGTCT
1 AAAAATTCCATTTTTAACCTTGA-ATTTCCAAAATTACCATTTTACCCCTCAAATGTCT
* * *
14470744 AAAAATTCCA-TTTTAACCCTAAACTTTCCAAAAATTATCATTTTA-CCCTCAAATGTCT
1 AAAAATTCCATTTTTAACCTTGAA-TTTCC-AAAATTACCATTTTACCCCTCAAATGTCT
* ** * * *
14470802 AAAAATTTCATTTTTTCCCTCGAATGTCCAAAATTACCATTTTGCCCC
1 AAAAATTCCATTTTTAACCTTGAATTTCCAAAATTACCATTTTACCCC
14470850 CGGGTATCCA
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
57 31 0.36
58 46 0.54
59 8 0.09
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAAATTCCATTTTTAACCTTGAATTTCCAAAATTACCATTTTACCCCTCAAATGTCT
Found at i:14475191 original size:22 final size:22
Alignment explanation
Indices: 14475165--14475216 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
14475155 TCAATGAACA
*
14475165 AAGAAAAAAGAAAAAGAAGAAG
1 AAGAAAAAAGAAAAAGAAAAAG
**
14475187 AAGAAAAAAGCCAAAGAAAAAG
1 AAGAAAAAAGAAAAAGAAAAAG
*
14475209 AGGAAAAA
1 AAGAAAAA
14475217 CAAGAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAGAAAAAGAAAAAG
Found at i:14476261 original size:49 final size:48
Alignment explanation
Indices: 14476199--14476901 Score: 368
Period size: 49 Copynumber: 14.4 Consensus size: 48
14476189 GAAGATTTGA
14476199 AGGGAAAGATTTAAG-CTGCAACGGTGAATCCAGTACCATGAAGACACAG
1 AGGGAAAGATTTAAGTC-GCAACGGTGAATCCAGTACCATGAAGACA-AG
* * * * * *
14476248 AGGGAAGGGTTTAAGTCGTAACGGTGAA-CCTTGTACC-TCAGAGACATG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCATGA-AGACAAG
* * *
14476296 AAGGGAAAGATTTAAGTTGCAACGGCGAATCTAGTACCATGAAGACACAG
1 -AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCATGAAGACA-AG
* * * *
14476346 AGGGAAAGGTTTAAGTCGCAACGGTGAA-CCTTGTACC-TCAGAGACATG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCATGA-AGACAAG
* **** *
14476394 AAGGGAAAGATTTAAGCCGCAATAACGAATCCAGTACCACGAAGACATAG
1 -AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCATGAAGACA-AG
* * * * * *
14476444 AGGGGAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACC-TCAAAGACAGG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCAT-GAAGACAAG
* ** *
14476492 AAGGGAAAGATTTAAGCCGTTACGGTGAATCCAGTACCACGAAGACACAG
1 -AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCATGAAGACA-AG
* * * *
14476542 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACC-T-AGAGACATG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCATGA-AGACAAG
* * * * *
14476589 AAGGGAAAGATCTAAGTCGCGATGG-CAGATCCAGTACCACGAAGACACA-
1 -AGGGAAAGATTTAAGTCGCAACGGTGA-ATCCAGTACCATGAAGACA-AG
* * * * *
14476638 AGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACC-TCAGAGACATG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCATGA-AGACAAG
* * * * ** *
14476686 AAGGGAAAGATCTAAGCCGCGACGGCGGTTCCAGTACCACGAAGACACA-
1 -AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCATGAAGACA-AG
* * * * * *
14476735 AGGGAAAGGTTTAAGTCGCAATGG-CAAACCTAGTACC-TCAGAGACATG
1 AGGGAAAGATTTAAGTCGCAACGGTGAATCC-AGTACCATGA-AGACAAG
* * ** *
14476783 AAGGGAAAGATTTAAGCCACAACGGTGAATGTAGTATCGCA--AAGACATG
1 -AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTA-C-CATGAAGACAAG
* ** *
14476832 AAGGGAAAGATTTAAG-CTACAACGGAAAATCCAGTACCACGAAGACATA-
1 -AGGGAAAGATTTAAGTC-GCAACGGTGAATCCAGTACCATGAAGACA-AG
* * *
14476881 AAGGAAAGGTTTAAGTAGCAA
1 AGGGAAAGATTTAAGTCGCAA
14476902 TGGCGAACCT
Statistics
Matches: 492, Mismatches: 114, Indels: 97
0.70 0.16 0.14
Matches are distributed among these distances:
47 11 0.02
48 126 0.26
49 334 0.68
50 20 0.04
51 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (48 bp):
AGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCATGAAGACAAG
Found at i:14476829 original size:97 final size:98
Alignment explanation
Indices: 14476196--14476812 Score: 873
Period size: 98 Copynumber: 6.3 Consensus size: 98
14476186 CATGAAGATT
* * * *
14476196 TGAAGGGAAAGATTTAAGCTGCAACGGTGAATCCAGTACCATGAAGACACAGAGGGAAGGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
* *
14476261 AGTCGTAACGGTGAACCTTGTACCTCAGAGACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
** * *
14476294 TGAAGGGAAAGATTTAAGTTGCAACGGCGAATCTAGTACCATGAAGACACAGAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
*
14476359 AGTCGCAACGGTGAACCTTGTACCTCAGAGACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
*** * *
14476392 TGAAGGGAAAGATTTAAGCCGCAATAACGAATCCAGTACCACGAAGACATAGAGGGGAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
*
14476457 AGTCGCAACGGCGAACCTTGTACCTCAAAGACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
* ** *
14476490 GGAAGGGAAAGATTTAAGCCGTTACGGTGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
14476555 AGTCGCAACGGCGAACCTTGTACCT-AGAGACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
* * * *
14476587 TGAAGGGAAAGATCTAAGTCGCGATGGC-AGATCCAGTACCACGAAGACACA-AGGGAAAGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGA-ATCCAGTACCACGAAGACACAGAGGGAAAGGTTT
* *
14476650 AAGTCGCAATGGCGAACCTAGTACCTCAGAGACA
65 AAGTCGCAACGGCGAACCTTGTACCTCAGAGACA
* * **
14476684 TGAAGGGAAAGATCTAAGCCGCGACGGCGGTTCCAGTACCACGAAGACACA-AGGGAAAGGTTTA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
* * *
14476748 AGTCGCAATGGCAAACCTAGTACCTCAGAGACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
* *
14476781 TGAAGGGAAAGATTTAAGCCACAACGGTGAAT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAAT
14476813 GTAGTATCGC
Statistics
Matches: 470, Mismatches: 46, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
96 37 0.08
97 172 0.37
98 261 0.56
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (98 bp):
TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAGAGGGAAAGGTTTA
AGTCGCAACGGCGAACCTTGTACCTCAGAGACA
Found at i:14476936 original size:146 final size:144
Alignment explanation
Indices: 14476679--14476943 Score: 343
Period size: 146 Copynumber: 1.8 Consensus size: 144
14476669 AGTACCTCAG
* * **** *
14476679 AGACATGAAGGGAAAGATCTAAGCCGCGACGGCGGTTCCAGTACCACGAAGACACAAGGGAAAGG
1 AGACATGAAGGGAAAGATCTAAGCCACAACGGAAAATCCAGTACCACGAAGACACAAAGGAAAGG
* * *
14476744 TTTAAGTCGCAATGGCAAACCTAGTACCTCAGAGACATGAAGGGAAAGATTTAAGCCACAACGGT
66 TTTAAGTAGCAATGGCAAACCTAGTAACTCAGAGACATGAAAGG-AA-ATTTAAGCCACAACGGT
14476809 GAATGTAGTATCGCAA
129 GAATGTAGTATCGCAA
* * *
14476825 AGACATGAAGGGAAAGATTTAAGCTACAACGGAAAATCCAGTACCACGAAGACATAAAGGAAAGG
1 AGACATGAAGGGAAAGATCTAAGCCACAACGGAAAATCCAGTACCACGAAGACACAAAGGAAAGG
* * * *
14476890 TTTAAGTAGCAATGGCGAACCTCA-TAACTTAGAGGCTTGAAAGGAAATTTAAGC
66 TTTAAGTAGCAATGGCAAACCT-AGTAACTCAGAGACATGAAAGGAAATTTAAGC
14476944 AACGGCGGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
144 8 0.08
145 2 0.02
146 90 0.89
147 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.17
Consensus pattern (144 bp):
AGACATGAAGGGAAAGATCTAAGCCACAACGGAAAATCCAGTACCACGAAGACACAAAGGAAAGG
TTTAAGTAGCAATGGCAAACCTAGTAACTCAGAGACATGAAAGGAAATTTAAGCCACAACGGTGA
ATGTAGTATCGCAA
Found at i:14477382 original size:17 final size:17
Alignment explanation
Indices: 14477359--14477414 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
14477349 CCAAACCCAT
14477359 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
14477377 -TTAAATTTCTTTTAAA
1 TTTAAATTTATTTTAAA
* *
14477393 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
14477410 TTTAA
1 TTTAA
14477415 TAAAAAGTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.03
17 32 0.97
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14477436 original size:14 final size:14
Alignment explanation
Indices: 14477413--14477447 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14477403 TTATAAATTT
14477413 AATA-AAAAGTCCA
1 AATACAAAAGTCCA
14477426 AATACAAAAGTCCA
1 AATACAAAAGTCCA
*
14477440 ATTACAAA
1 AATACAAA
14477448 TTGGGGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (14 bp):
AATACAAAAGTCCA
Found at i:14479200 original size:28 final size:29
Alignment explanation
Indices: 14479168--14479368 Score: 142
Period size: 29 Copynumber: 6.9 Consensus size: 29
14479158 TTTTGACCCT
* *
14479168 AAACTTTTCAAAATTATA-TTTTACCCCC
1 AAACTTTCCAAAATTACATTTTTACCCCC
**
14479196 AAACTTTCCAAAATTACATTTTTACCCTT
1 AAACTTTCCAAAATTACATTTTTACCCCC
* * * *
14479225 GAACTTTCTAAAATTCCATTTTTGA--CCT
1 AAACTTTCCAAAATTACATTTTT-ACCCCC
* * *
14479253 TAATTTTCCAAAAATTACATTTTTACCCCTTT
1 AAACTTTCC-AAAATTACATTTTTACCCC--C
*
14479285 AAAC-TTCTAAAATTACATTTTTACCCCC
1 AAACTTTCCAAAATTACATTTTTACCCCC
* * * * *
14479313 AAACTCTCTAAAATTCCATTTTTAACCTC
1 AAACTTTCCAAAATTACATTTTTACCCCC
* **
14479342 GATTTTTCCAAAATTACCA-TTTTACCC
1 AAACTTTCCAAAATTA-CATTTTTACCC
14479369 TTGGATGTCT
Statistics
Matches: 137, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
28 29 0.21
29 78 0.57
30 24 0.18
31 3 0.02
32 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.01, T:0.41
Consensus pattern (29 bp):
AAACTTTCCAAAATTACATTTTTACCCCC
Found at i:14479326 original size:88 final size:85
Alignment explanation
Indices: 14479148--14479368 Score: 248
Period size: 88 Copynumber: 2.5 Consensus size: 85
14479138 TAACTATGCA
* *
14479148 AAAATTCAATTTTTGACCCTAAACTTTT-CAAAATTATATTTTACCCCCAAACTTTCCAAAATTA
1 AAAATTCCATTTTTGA-CCTAAA-TTTTCCAAAATTACATTTTACCCCCAAACTTTCCAAAATTA
*** *
14479212 CATTTTTACCCTTGAACTTTCT
64 CATTTTTACCCCCAAACTCTCT
* * *
14479234 AAAATTCCATTTTTGACCTTAATTTTCCAAAAATTACATTTTTACCCCTTTAAAC-TTCTAAAAT
1 AAAATTCCATTTTTGACCTAAATTTTCC-AAAATTACA-TTTTACCCC--CAAACTTTCCAAAAT
14479298 TACATTTTTACCCCCAAACTCTCT
62 TACATTTTTACCCCCAAACTCTCT
* * *
14479322 AAAATTCCATTTTTAACCTCGATTTTTCCAAAATTACCATTTTACCC
1 AAAATTCCATTTTTGACCT-AAATTTTCCAAAATTA-CATTTTACCC
14479369 TTGGATGTCT
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
84 4 0.03
85 6 0.05
86 23 0.20
87 9 0.08
88 61 0.53
89 13 0.11
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (85 bp):
AAAATTCCATTTTTGACCTAAATTTTCCAAAATTACATTTTACCCCCAAACTTTCCAAAATTACA
TTTTTACCCCCAAACTCTCT
Found at i:14479384 original size:58 final size:59
Alignment explanation
Indices: 14479322--14479452 Score: 210
Period size: 59 Copynumber: 2.2 Consensus size: 59
14479312 CAAACTCTCT
** * *
14479322 AAAATTCCATTTTTAACCTCGATTTTTCC-AAAATTACCATTTTACCCTTGGATGTCTA
1 AAAATTCCATTTTTAACCTCGAACTTTCCAAAAATTACCATTTTACCCCTAGATGTCTA
*
14479380 AAAATTCCATTTTAAACCTCGAACTTTCCAAAAATTACCATTTTACCCCTAGATGTCTA
1 AAAATTCCATTTTTAACCTCGAACTTTCCAAAAATTACCATTTTACCCCTAGATGTCTA
14479439 AAAATTCCATTTTT
1 AAAATTCCATTTTT
14479453 GCCCCTAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
58 26 0.39
59 40 0.61
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCTCGAACTTTCCAAAAATTACCATTTTACCCCTAGATGTCTA
Found at i:14479452 original size:29 final size:30
Alignment explanation
Indices: 14479205--14479459 Score: 106
Period size: 29 Copynumber: 8.7 Consensus size: 30
14479195 CAAACTTTCC
* * *
14479205 AAAATTACATTTTTA-CCCTTGAACTTTCT-
1 AAAATTCCATTTTTACCCCTAG-ACTGTCTA
* * * *
14479234 AAAATTCCATTTTTGA-CCTTA-ATTTTCCA
1 AAAATTCCATTTTT-ACCCCTAGACTGTCTA
* *
14479263 AAAATTACATTTTTACCCCTTTAAACT-TCT-
1 AAAATTCCATTTTTACCCC--TAGACTGTCTA
* * * *
14479293 AAAATTACATTTTTACCCCCAAACTCTCT-
1 AAAATTCCATTTTTACCCCTAGACTGTCTA
* * * * *
14479322 AAAATTCCATTTTTA-ACCTCGA-TTTTTCC
1 AAAATTCCATTTTTACCCCTAGACTGTCT-A
* *
14479351 AAAATTACCA-TTTTACCCTTGGA-TGTCTA
1 AAAATT-CCATTTTTACCCCTAGACTGTCTA
** * * *
14479380 AAAATTCCA-TTTTAAACCTCGAACTTTCCA
1 AAAATTCCATTTTTACCCCTAG-ACTGTCTA
14479410 AAAATTACCA-TTTTACCCCTAGA-TGTCTA
1 AAAATT-CCATTTTTACCCCTAGACTGTCTA
*
14479439 AAAATTCCATTTTTGCCCCTA
1 AAAATTCCATTTTTACCCCTA
14479460 AGTGTCCAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
27 3 0.02
28 28 0.16
29 83 0.47
30 44 0.25
31 16 0.09
32 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (30 bp):
AAAATTCCATTTTTACCCCTAGACTGTCTA
Found at i:14479465 original size:29 final size:29
Alignment explanation
Indices: 14479351--14479485 Score: 107
Period size: 29 Copynumber: 4.7 Consensus size: 29
14479341 CGATTTTTCC
* * *
14479351 AAAATTACCATTTTACCCTTGGATGTCTA
1 AAAATTACCATTTTACCCCTAGATGTCCA
** * *
14479380 AAAATT-CCATTTTAAACCTCGAACTTTCCA
1 AAAATTACCATTTTACCCCTAG-A-TGTCCA
*
14479410 AAAATTACCATTTTACCCCTAGATGTCTA
1 AAAATTACCATTTTACCCCTAGATGTCCA
*
14479439 AAAATT-CCATTTTTGCCCCTA-AGTGTCC-
1 AAAATTACCA-TTTTACCCCTAGA-TGTCCA
* *
14479467 AAAATTAACATTTTGCCCC
1 AAAATTACCATTTTACCCC
14479486 CGGGTATCCA
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
28 30 0.35
29 33 0.38
30 11 0.13
31 12 0.14
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAGATGTCCA
Found at i:14482483 original size:19 final size:19
Alignment explanation
Indices: 14482443--14482485 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14482433 TTAATGCCTT
*
14482443 AAGTATAATATTTTCATTC
1 AAGTATAATATTTTCATCC
* *
14482462 AAGTATAGTATTTTCGTCC
1 AAGTATAATATTTTCATCC
14482481 AAGTA
1 AAGTA
14482486 CATTTGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (19 bp):
AAGTATAATATTTTCATCC
Found at i:14490434 original size:53 final size:53
Alignment explanation
Indices: 14490322--14490513 Score: 266
Period size: 51 Copynumber: 3.6 Consensus size: 53
14490312 TTCACATTTG
*
14490322 ATAACTCACGATGACACA-AAGTTATCAGACCTTTTAAT-TCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAA-TCATCAGACC-TTTAATCT-GTAATAGGATTCAT
*
14490376 ATAACTCACGATAACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
* * *
14490429 ATAACTCATGATGACATAG--TCATCAGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
* *
14490480 ATAACTCACGATGACACAGAGTCATCGGACCTTT
1 ATAACTCACGATGACACAGAATCATCAGACCTTT
14490514 TTGCATTTAT
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
51 48 0.38
53 48 0.38
54 27 0.22
55 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (53 bp):
ATAACTCACGATGACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
Found at i:14490470 original size:51 final size:52
Alignment explanation
Indices: 14490322--14490513 Score: 253
Period size: 53 Copynumber: 3.6 Consensus size: 52
14490312 TTCACATTTG
* *
14490322 ATAACTCACGATGACACAAAGTTATCAGACCTTTTAATTCGTAATAGGATTCAT
1 ATAACTCACGATGA-ACAAAGTCATCAGACC-TTTAATCCGTAATAGGATTCAT
* *
14490376 ATAACTCACGAT-AACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
1 ATAACTCACGATGAACA-A-AGTCATCAGACCTTTAATCCGTAATAGGATTCAT
* *
14490429 ATAACTCATGATG-ACATAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGAACAAAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
* *
14490480 ATAACTCACGATGACACAGAGTCATCGGACCTTT
1 ATAACTCACGATGA-ACAAAGTCATCAGACCTTT
14490514 TTGCATTTAT
Statistics
Matches: 122, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
51 44 0.36
52 3 0.02
53 53 0.43
54 22 0.18
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (52 bp):
ATAACTCACGATGAACAAAGTCATCAGACCTTTAATCCGTAATAGGATTCAT
Found at i:14490505 original size:104 final size:106
Alignment explanation
Indices: 14490322--14490513 Score: 298
Period size: 104 Copynumber: 1.8 Consensus size: 106
14490312 TTCACATTTG
* *
14490322 ATAACTCACGATGACACAAAGTTATCAGACCTTTTAATTCGTAATAGGATTCATATAACTCACGA
1 ATAACTCACGATGA-ACAAAGTCATCAGACCTTTTAATCCGTAATAGGATTCATATAACTCACGA
14490387 TAACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
65 TAACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
* *
14490429 ATAACTCATGATG-ACATAGTCATCAGACC-TTTAATCCGTAATAGGATTCATATAACTCACGAT
1 ATAACTCACGATGAACAAAGTCATCAGACCTTTTAATCCGTAATAGGATTCATATAACTCACGAT
* * *
14490492 GACACAGAGTCATCGGACCTTT
66 AACACAGAATCATCAGACCTTT
14490514 TTGCATTTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 52 0.67
105 14 0.18
107 12 0.15
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (106 bp):
ATAACTCACGATGAACAAAGTCATCAGACCTTTTAATCCGTAATAGGATTCATATAACTCACGAT
AACACAGAATCATCAGACCTTTAATCTGTAATAGGATTCAT
Found at i:14493267 original size:21 final size:21
Alignment explanation
Indices: 14493241--14493290 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
14493231 TAGTACAAAT
*
14493241 TTCTACCGATACAAGTGACAG
1 TTCTACCGATACAAGTGACAC
*
14493262 TTCTACCGATACAAGTGACTC
1 TTCTACCGATACAAGTGACAC
14493283 TTCTACCG
1 TTCTACCG
14493291 TAATAAGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAC
Found at i:14498738 original size:12 final size:12
Alignment explanation
Indices: 14498721--14498759 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
14498711 GGGTATTGAG
14498721 GAAGAGAAAGAA
1 GAAGAGAAAGAA
*
14498733 GAAGAGAAGGAA
1 GAAGAGAAAGAA
14498745 GAAGA-AAAGGAA
1 GAAGAGAAA-GAA
14498757 GAA
1 GAA
14498760 TGAGGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
GAAGAGAAAGAA
Found at i:14507194 original size:32 final size:29
Alignment explanation
Indices: 14507146--14507213 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
14507136 ATTTTCGAGG
*
14507146 AATTTGGGGATCAAAATTGAAACTTTTTTGGAA
1 AATTT-GGGATCAAAA-TCAAAC--TTTTGGAA
*
14507179 AATTTGGGATTAAAATCAAACTTTTGGAA
1 AATTTGGGATCAAAATCAAACTTTTGGAA
14507208 AATTTG
1 AATTTG
14507214 AGGTCGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 14 0.42
31 5 0.15
32 9 0.27
33 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (29 bp):
AATTTGGGATCAAAATCAAACTTTTGGAA
Found at i:14507260 original size:29 final size:27
Alignment explanation
Indices: 14507228--14507317 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 27
14507218 CGAAAATATG
* *
14507228 TTTTTGAAATTTGGGGGCAAAATGGTGAT
1 TTTTAGAAATTTGGGGG-AAAATGGT-AA
* **
14507257 TTTTGGATGTTTGGGGGTAAAATGGTAA
1 TTTTAGAAATTTGGGGG-AAAATGGTAA
14507285 TTTTAGAGAAGTTTGGGGGAAAAT-GTAA
1 TTTTAGA-AA-TTTGGGGGAAAATGGTAA
14507313 TTTTA
1 TTTTA
14507318 AAGGAGTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.31
29 27 0.53
30 8 0.16
ACGTcount: A:0.29, C:0.01, G:0.31, T:0.39
Consensus pattern (27 bp):
TTTTAGAAATTTGGGGGAAAATGGTAA
Found at i:14507301 original size:30 final size:29
Alignment explanation
Indices: 14507237--14507447 Score: 151
Period size: 30 Copynumber: 7.1 Consensus size: 29
14507227 GTTTTTGAAA
* * * *
14507237 TTTGGGGGCAAAATGGTGATTTTTG-GATG
1 TTTGGGGGTAAAAT-GTAATTTTAGAGAAG
14507266 TTTGGGGGTAAAATGGTAATTTTAGAGAAG
1 TTTGGGGGTAAAAT-GTAATTTTAGAGAAG
* *
14507296 TTTGGGGG-AAAATGTAATTTTAAAGGAG
1 TTTGGGGGTAAAATGTAATTTTAGAGAAG
*
14507324 TTTGAGGGTCAAAATGTTAATTTT-GAGAAG
1 TTTGGGGGT-AAAATG-TAATTTTAGAGAAG
* ** * *
14507354 TTTAGCAGTCAAAATGTAATTTTGGAAAAG
1 TTTGGGGGT-AAAATGTAATTTTAGAGAAG
** *
14507384 TTTGAGGGACCAAAATGTAATTTTAGAAAAG
1 TTTG-GGG-GTAAAATGTAATTTTAGAGAAG
* * *
14507415 TTTGAGGGTTAAAATATGATTTTTAGA-AAG
1 TTTG-GGGGTAAAATGT-AATTTTAGAGAAG
14507445 TTT
1 TTT
14507448 AGGGACCTAT
Statistics
Matches: 150, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
28 20 0.13
29 34 0.23
30 53 0.35
31 43 0.29
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
TTTGGGGGTAAAATGTAATTTTAGAGAAG
Found at i:14507386 original size:60 final size:57
Alignment explanation
Indices: 14507265--14507421 Score: 167
Period size: 60 Copynumber: 2.7 Consensus size: 57
14507255 ATTTTTGGAT
* * *
14507265 GTTTGGGGGT-AAAATGGTAATTTTAGAGAAGTTTGGGGGAAAATGTAATTTTAAAGGA
1 GTTTGAGGGTCAAAAT-GTAATTTTAGAGAAGTTTGAGGCAAAATGTAATTTTAAA-GA
*
14507323 GTTTGAGGGTCAAAATGTTAATTTT-GAGAAGTTTAGCAGTCAAAATGTAATTTTGGAAA-A
1 GTTTGAGGGTCAAAATG-TAATTTTAGAGAAGTTT-G-AGGCAAAATGTAATTTT--AAAGA
* *
14507383 GTTTGAGGGACCAAAATGTAATTTTAGAAAAGTTTGAGG
1 GTTTGAGGG-TCAAAATGTAATTTTAGAGAAGTTTGAGG
14507422 GTTAAAATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
58 19 0.23
59 15 0.18
60 32 0.38
61 15 0.18
62 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (57 bp):
GTTTGAGGGTCAAAATGTAATTTTAGAGAAGTTTGAGGCAAAATGTAATTTTAAAGA
Found at i:14507439 original size:31 final size:31
Alignment explanation
Indices: 14507275--14507453 Score: 128
Period size: 31 Copynumber: 6.0 Consensus size: 31
14507265 GTTTGGGGGT
* *
14507275 AAAATGGTAATTTTAGAGAAGTTTG-GGG--G
1 AAAAT-GTAATTTTAGAAAAGTTTGAGGGACA
* *
14507304 AAAATGTAATTTTA-AAGGAGTTTGAGGGTC-
1 AAAATGTAATTTTAGAA-AAGTTTGAGGGACA
* * *
14507334 AAAATGTTAATTTT-GAGAAGTTT-AGCAGTC-
1 AAAATG-TAATTTTAGAAAAGTTTGAG-GGACA
* *
14507364 AAAATGTAATTTTGGAAAAGTTTGAGGGACC
1 AAAATGTAATTTTAGAAAAGTTTGAGGGACA
**
14507395 AAAATGTAATTTTAGAAAAGTTTGAGGGTTA
1 AAAATGTAATTTTAGAAAAGTTTGAGGGACA
*
14507426 AAATATG-ATTTTTAG-AAAGTTT-AGGGAC
1 AAA-ATGTAATTTTAGAAAAGTTTGAGGGAC
14507454 CTATCTGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.01
28 15 0.12
29 21 0.17
30 37 0.30
31 47 0.38
32 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (31 bp):
AAAATGTAATTTTAGAAAAGTTTGAGGGACA
Found at i:14507596 original size:34 final size:33
Alignment explanation
Indices: 14507509--14507604 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 33
14507499 GCCTTAAGAA
* *
14507509 AATTAAGGGACTAAATTAAAAAATAATTAAAA-TT
1 AATTAA-GGACTAAATTGAAATA-AATTAAAATTT
* * *
14507543 -ATT-ACG-CTAATTTGTAATAAATTAAAATTTT
1 AATTAAGGACTAAATTGAAATAAATTAAAA-TTT
*
14507574 AATTAAGGACTAAATTGAAATAAATAAAAAT
1 AATTAAGGACTAAATTGAAATAAATTAAAAT
14507605 AAGAAAGGGC
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
29 8 0.17
30 9 0.19
31 3 0.06
32 4 0.08
33 6 0.12
34 18 0.38
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (33 bp):
AATTAAGGACTAAATTGAAATAAATTAAAATTT
Found at i:14507766 original size:161 final size:161
Alignment explanation
Indices: 14507467--14507763 Score: 363
Period size: 161 Copynumber: 1.9 Consensus size: 161
14507457 TCTGTTAATA
** *
14507467 AAACCAAAAATTGACACGTGGCAGCATCCTAGGCCTTAAGAAAATTAAGGGACTAAATTAAAAAA
1 AAACCAAAAAGGGACACGTGGCAACATCCTAGGCCTTAAGAAAATTAAGGGACTAAATTAAAAAA
* ** * * *
14507532 TAATTAAAATTATTACGCTAATTTGTAATAAATTAAAATTTTAATTAAGGACTAAATTGAAATAA
66 GAATTAAAATTATTACGCTAATTTAAAATAAATTAAAATTGTAATAAAGGACTAAATTGAAAGAA
14507597 ATAAAAATAAGAAAGGGCTAATTGCAGAAAT
131 ATAAAAATAAGAAAGGGCTAATTGCAGAAAT
* * *
14507628 AAACCAAAAAGGGACACGTGGCAACTTCCTAGTCCTTAAGAAAGTTAAGGGACTAAA-TAAAAAA
1 AAACCAAAAAGGGACACGTGGCAACATCCTAGGCCTTAAGAAAATTAAGGGACTAAATTAAAAAA
* * * *
14507692 GGAGA-TAAAATTGTT-GGGTAAATTTAAAATAAATTAAAATTGTAA-AAAGGA-TGAAATT-AT
66 -GA-ATTAAAATTATTACGCT-AATTTAAAATAAATTAAAATTGTAATAAAGGACT-AAATTGAA
14507752 AGAAATCAAAAA
127 AGAAAT-AAAAA
14507764 ATACGGAAGG
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
159 7 0.06
160 24 0.21
161 83 0.72
162 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.25
Consensus pattern (161 bp):
AAACCAAAAAGGGACACGTGGCAACATCCTAGGCCTTAAGAAAATTAAGGGACTAAATTAAAAAA
GAATTAAAATTATTACGCTAATTTAAAATAAATTAAAATTGTAATAAAGGACTAAATTGAAAGAA
ATAAAAATAAGAAAGGGCTAATTGCAGAAAT
Found at i:14509297 original size:39 final size:39
Alignment explanation
Indices: 14509254--14509670 Score: 320
Period size: 39 Copynumber: 10.7 Consensus size: 39
14509244 GATGGTTGCA
** *
14509254 ATCTGCCCCAAGCTCAAGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
14509293 ATCTGCCCC-AGACTCGAGGTAAGAGA-T--CGGATGGCTG
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATTGGCTGATGG-TG
* *
14509330 CAATCTGCCCTAAGCTCGGGGTAAGAGATTGTCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
*
14509371 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * ** * *
14509410 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGCT-GTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCT-GATGGTG
* *
14509449 ATCTGCCCTAAGCTCGGGGTAAGAGATTAGCTGACT-GTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* * * * *
14509488 ATCTACCCCAGGCTCGAGGTAAAAGA-T--CAGATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG
*
14509525 CAATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* ** * * *
14509566 ATCTACCTTAGGCTCGGGGTAAAAGA-T--CGGATGGCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG
** *
14509603 CAATCTATCCCAGGCTCGGGGTAAGAGATTGGCTGACT-GTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* * *
14509644 ATCTGCCTCAGGCTCGGGGTAAAAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
14509671 CAGAATCTTT
Statistics
Matches: 302, Mismatches: 52, Indels: 48
0.75 0.13 0.12
Matches are distributed among these distances:
35 1 0.00
36 15 0.05
37 6 0.02
38 6 0.02
39 244 0.81
40 7 0.02
41 6 0.02
42 16 0.05
43 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:14509444 original size:117 final size:117
Alignment explanation
Indices: 14509254--14509676 Score: 399
Period size: 117 Copynumber: 3.6 Consensus size: 117
14509244 GATGGTTGCA
* * * * * *
14509254 ATCTGCCCCAAGCTCAAGGTAAGAGATTGGTTGATGGTGATCTGCCCC-AGACTCGAGGTAAGAG
1 ATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG-CTCGGGGTAAAAG
*
14509318 ATC-GGATGGCTGCAATCTGCCCTAAGCTCGGGGTAAGAGATTGTCTGATGGTG
65 ATCAGAATGGCTG-AATCTGCCCTAAGCTCGGGGTAAGAGATTGTCTGATGGTG
* *
14509371 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
1 ATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
14509436 TC-GAATGGCTGTAATCTGCCCTAAGCTCGGGGTAAGAGATTAG-CTGACT-GTG
66 TCAGAATGGCTG-AATCTGCCCTAAGCTCGGGGTAAGAGATT-GTCTGA-TGGTG
* * * *
14509488 ATCTACCCCAGGCTCGAGGTAAAAGA-T--CAGATGGCTGCAATCTGCCCCAAGCTCGGGATAAG
1 ATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCCAAGCTCGGGGTAAA
* * * * * *
14509550 AGATTGGCTG-ATGG-TG-ATCTACCTTAGGCTCGGGGTAAAAGA---TCGGATGGCTG
63 AGA-T--CAGAATGGCTGAATCTGCCCTAAGCTCGGGGTAAGAGATTGTCTGATGG-TG
* * * *
14509603 CAATCTATCCCAGGCTCGGGGTAAGAGATTGGCTGACT-GTGATCTGCCTCAGGCTCGGGGTAAA
1 --ATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAAA
14509667 AGATCAGAAT
63 AGATCAGAAT
14509677 CTTTATTCTG
Statistics
Matches: 258, Mismatches: 28, Indels: 42
0.79 0.09 0.13
Matches are distributed among these distances:
113 1 0.00
114 12 0.05
115 6 0.02
116 2 0.01
117 216 0.84
118 6 0.02
119 4 0.02
120 9 0.03
121 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (117 bp):
ATCTACCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
TCAGAATGGCTGAATCTGCCCTAAGCTCGGGGTAAGAGATTGTCTGATGGTG
Found at i:14509453 original size:78 final size:78
Alignment explanation
Indices: 14509371--14509676 Score: 411
Period size: 78 Copynumber: 3.9 Consensus size: 78
14509361 TCTGATGGTG
*
14509371 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
*
14509436 TCGAATGGCTGTA
66 TCGAATGGCTGCA
* * * * *
14509449 ATCTGCCCTAAGCTCGGGGTAAGAGATTAGCTGACT-GTGATCTACCCCAGGCTCGAGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAGGCTCGGGGTAAAAG
14509513 ATC-AGATGGCTGCA
65 ATCGA-ATGGCTGCA
* * * **
14509527 ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTGATCTACCTTAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
*
14509592 TCGGATGGCTGCA
66 TCGAATGGCTGCA
** *
14509605 ATCTATCCCAGGCTCGGGGTAAGAGATTGGCTGACT-GTGATCTGCCTCAGGCTCGGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAGGCTCGGGGTAAAAG
14509669 ATCAGAAT
65 ATC-GAAT
14509677 CTTTATTCTG
Statistics
Matches: 201, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
77 2 0.01
78 194 0.97
79 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGA
TCGAATGGCTGCA
Found at i:14509531 original size:156 final size:156
Alignment explanation
Indices: 14509371--14509674 Score: 466
Period size: 156 Copynumber: 1.9 Consensus size: 156
14509361 TCTGATGGTG
* * *
14509371 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGA
*
14509436 TCGAATGGCTGTAATCT-GCCCTAAGCTCGGGGTAAGAGATTAGCTGACTGTGATCTACCCCAGG
66 TCGAATGGCTGCAATCTAGCCC-AAGCTCGGGGTAAGAGATTAGCTGACTGTGATCTACCCCAGG
14509500 CTCGAGGTAAAAGATCAGATGGCTGCA
130 CTCGAGGTAAAAGATCAGATGGCTGCA
** *
14509527 ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTGATCTACCTTAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGA
* * * * * *
14509592 TCGGATGGCTGCAATCTATCCCAGGCTCGGGGTAAGAGATTGGCTGACTGTGATCTGCCTCAGGC
66 TCGAATGGCTGCAATCTAGCCCAAGCTCGGGGTAAGAGATTAGCTGACTGTGATCTACCCCAGGC
*
14509657 TCGGGGTAAAAGATCAGA
131 TCGAGGTAAAAGATCAGA
14509675 ATCTTTATTC
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
156 130 0.98
157 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (156 bp):
ATCTGCCCCAAGCTCGGGATAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGA
TCGAATGGCTGCAATCTAGCCCAAGCTCGGGGTAAGAGATTAGCTGACTGTGATCTACCCCAGGC
TCGAGGTAAAAGATCAGATGGCTGCA
Found at i:14509710 original size:41 final size:40
Alignment explanation
Indices: 14509661--14509750 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
14509651 TCAGGCTCGG
* * *
14509661 GGTAAAAGATCAGAATCTTTATTCTG-CCTTTCTTGATTAA
1 GGTAAAAGATCAGAATCTTCAATCTGTCC-CTCTTGATTAA
*
14509701 GGATAAAAGATTAGAATCTTCAATCTGTCCCTCTTGATTAA
1 GG-TAAAAGATCAGAATCTTCAATCTGTCCCTCTTGATTAA
14509742 GGTAAAAGA
1 GGTAAAAGA
14509751 CTGAATGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 9 0.20
41 33 0.75
42 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (40 bp):
GGTAAAAGATCAGAATCTTCAATCTGTCCCTCTTGATTAA
Found at i:14510047 original size:50 final size:50
Alignment explanation
Indices: 14509988--14510575 Score: 498
Period size: 49 Copynumber: 11.9 Consensus size: 50
14509978 CCATCTTGTT
* * *
14509988 TTCTAAGGTACCGGGTTCGTCATTGCGGCCTCAACCTTTCCCTTCATATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
** * * *
14510038 TTCTAAGGTACTAGGTTCGTCGTTGCGTCCTCAACCTTT-TCTGTCACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATC
* * * *
14510088 TTTTAAGGTATCGGGTTCACTGTTGCGGCCTCAACCTTTCCCTTCAACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTC-ACATC
* * ** *
14510139 TTTTAAGGTACCGGGTTCACCGTTGCAACCTCAACCTTTCCCTTCAAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * *
14510189 TTC-ATGGTACTGGGTTCGCTGTTGCGGCCTCAACCTTTCCCATCACAT-
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * *
14510237 TTC-ATGGTACCGGATTCACCGTTG-GGCCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * * *
14510285 TTCTGAGGTACCGGATTTGCCGTCGCGACCTCAATCC-TTCCCTTTAAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATC
* * * * ** *
14510335 TT-TATGGTACCAGGTTTGCCCTTGCGATCTCAACCTTTCCCATCACATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * ** *
14510384 TTCTAAGGTACCAGGTTCGCCGTTGCGACCTCAATATTTCCCTTCAAATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * ** * * **
14510434 TTC-ATGGTATCGGGTTCATCGTTGTGGCCTTAACCTTTCCAATCACAT-
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * **
14510482 TTC-ATGGTACCGGATTCGCCATTACGGCCTCAACCTTTCCCTTTGCATC
1 TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * *
14510531 TTC-ATGGTACCGGGTTCG-TGATTGCGGCCTCAACCGTTCCCTTCA
1 TTCTAAGGTACCGGGTTCGCCG-TTGCGGCCTCAACCTTTCCCTTCA
14510576 TATTTTCATA
Statistics
Matches: 433, Mismatches: 94, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
47 22 0.05
48 61 0.14
49 160 0.37
50 141 0.33
51 49 0.11
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (50 bp):
TTCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
Found at i:14510334 original size:146 final size:146
Alignment explanation
Indices: 14510016--14510436 Score: 434
Period size: 146 Copynumber: 2.8 Consensus size: 146
14510006 GTCATTGCGG
* * * * *
14510016 CCTCAACCTTTCCCTTCATATCTTCTAAGGTACTAGGTTCG-TCGTTGCGTCCTCAACCTTTTCT
1 CCTCAACCTTTCCCTTCAAATCTTC-ATGGTACTAGGTTCGCT-GTTGCGACCTCAACCTTTCCC
* * * * * *
14510080 GTCACATCTTTTAAGGTATCGGGTTCACTGTTGCGGCCTCAACCTTTCCCTTCAACATCTTTTAA
64 ATCACA--TTTCAAGGTA-CCGGTTCACCGTTGCGGCCTCAATCTTTCCCTTC-ACATCTTCTAA
* *
14510145 GGTACCGGGTTCACCGTTGCAA
125 GGTACCGGATTCACCGTCGCAA
* *
14510167 CCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGGTTCGCTGTTGCGGCCTCAACCTTTCCCAT
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGGTTCGCTGTTGCGACCTCAACCTTTCCCAT
* * *
14510232 CACATTTCATGGTACCGGATTCACCGTTG-GGCCTCAATCTTTCCCATCACATCTTCTGAGGTAC
66 CACATTTCAAGGTACCGG-TTCACCGTTGCGGCCTCAATCTTTCCCTTCACATCTTCTAAGGTAC
** *
14510296 CGGATTTGCCGTCGCGA
130 CGGATTCACCGTCGCAA
* * * * ** *
14510313 CCTCAATCC-TTCCCTTTAAATCTTTATGGTACCAGGTTTGCCCTTGCGATCTCAACCTTTCCCA
1 CCTCAA-CCTTTCCCTTCAAATCTTCATGGTACTAGGTTCGCTGTTGCGACCTCAACCTTTCCCA
* * * *
14510377 TCACATCTTCTAAGGTACCAGGTTCGCCGTTGCGACCTCAATATTTCCCTTCAAATCTTC
65 TCACAT-TTC-AAGGTACC-GGTTCACCGTTGCGGCCTCAATCTTTCCCTTCACATCTTC
14510437 ATGGTATCGG
Statistics
Matches: 228, Mismatches: 35, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
146 84 0.37
147 25 0.11
148 33 0.14
149 25 0.11
150 36 0.16
151 25 0.11
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (146 bp):
CCTCAACCTTTCCCTTCAAATCTTCATGGTACTAGGTTCGCTGTTGCGACCTCAACCTTTCCCAT
CACATTTCAAGGTACCGGTTCACCGTTGCGGCCTCAATCTTTCCCTTCACATCTTCTAAGGTACC
GGATTCACCGTCGCAA
Found at i:14510379 original size:99 final size:99
Alignment explanation
Indices: 14509988--14510442 Score: 273
Period size: 100 Copynumber: 4.6 Consensus size: 99
14509978 CCATCTTGTT
* * * * * * * * *
14509988 TTCTAAGGTACCGGGTTCGTCATTGCGGCCTCAA-CCTTTCCCTTCATATCTTCTAAGGTACTAG
1 TTCTAAGGTACCAGGTTCGCCGTCGCGACCTCAATAC-TTCCCTTCAAATCTTC-ATGGTACCAG
* * * * **
14510052 GTTCGTCGTTGCG-TCCTCAACCTTTTCTGTCACATC
64 GTTTGCCCTTGCGAT-CTCAACCTTTCCCATCACATC
* * * * * * * * * * *
14510088 TTTTAAGGTATCGGGTTCACTGTTGCGGCCTCAA-CCTTTCCCTTCAACATCTTTTAAGGTACCG
1 TTCTAAGGTACCAGGTTCGCCGTCGCGACCTCAATAC-TTCCCTTCAA-ATC-TTCATGGTACCA
** * * * * *
14510152 GGTTCACCGTTGCAACCTCAACCTTTCCCTTCAAATC
63 GGTTTGCCCTTGCGATCTCAACCTTTCCCATCACATC
* ** * * * * * *
14510189 TTC-ATGGTACTGGGTTCGCTGTTGCGGCCTCAA-CCTTTCCCATCACAT-TTCATGGTACC-GG
1 TTCTAAGGTACCAGGTTCGCCGTCGCGACCTCAATAC-TTCCCTTCAAATCTTCATGGTACCAGG
* ** *
14510250 ATT-CACCGTTG-GGCCTCAATCTTTCCCATCACATC
65 TTTGC-CC-TTGCGATCTCAACCTTTCCCATCACATC
* * * * *
14510285 TTCTGAGGTACC-GGATTTGCCGTCGCGACCTCAATCCTTCCCTTTAAATCTTTATGGTACCAGG
1 TTCTAAGGTACCAGG-TTCGCCGTCGCGACCTCAATACTTCCCTTCAAATCTTCATGGTACCAGG
14510349 TTTGCCCTTGCGATCTCAACCTTTCCCATCACATC
65 TTTGCCCTTGCGATCTCAACCTTTCCCATCACATC
* *
14510384 TTCTAAGGTACCAGGTTCGCCGTTGCGACCTCAATATTTCCCTTCAAATCTTCATGGTA
1 TTCTAAGGTACCAGGTTCGCCGTCGCGACCTCAATACTTCCCTTCAAATCTTCATGGTA
14510443 TCGGGTTCAT
Statistics
Matches: 285, Mismatches: 57, Indels: 27
0.77 0.15 0.07
Matches are distributed among these distances:
95 1 0.00
96 28 0.10
97 41 0.14
98 15 0.05
99 78 0.27
100 80 0.28
101 40 0.14
102 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (99 bp):
TTCTAAGGTACCAGGTTCGCCGTCGCGACCTCAATACTTCCCTTCAAATCTTCATGGTACCAGGT
TTGCCCTTGCGATCTCAACCTTTCCCATCACATC
Found at i:14511553 original size:7 final size:6
Alignment explanation
Indices: 14511542--14511621 Score: 60
Period size: 6 Copynumber: 13.3 Consensus size: 6
14511532 TTTTTCCCAT
* *
14511542 TTTTTC TATTTTC TTTTTCC TTTTTC TTTTTT TCTTTTC TTTTT- TCTTTC
1 TTTTTC T-TTTTC TTTTT-C TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC
* *
14511592 -TTTTC TTTCT- TTTTTA TTTATT- TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTT-TTC TTTTTC TT
14511622 CATTGAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
5 14 0.23
6 27 0.45
7 19 0.32
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:14511560 original size:13 final size:12
Alignment explanation
Indices: 14511542--14511621 Score: 60
Period size: 13 Copynumber: 6.7 Consensus size: 12
14511532 TTTTTCCCAT
14511542 TTTTTCTATTTTC
1 TTTTTCT-TTTTC
14511555 TTTTTCCTTTTTC
1 TTTTT-CTTTTTC
*
14511568 TTTTTTTCTTTTC
1 TTTTTCT-TTTTC
*
14511581 TTTTT-TCTTTC
1 TTTTTCTTTTTC
*
14511592 -TTTTCTTTCT-
1 TTTTTCTTTTTC
*
14511602 TTTTTATTTATT-
1 TTTTTCTTT-TTC
14511614 TTTTTCTT
1 TTTTTCTT
14511622 CATTGAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
10 4 0.07
11 14 0.25
12 10 0.18
13 25 0.45
14 2 0.04
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:14511587 original size:33 final size:33
Alignment explanation
Indices: 14511543--14511606 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
14511533 TTTTCCCATT
14511543 TTTTCTATTTTCTTT-TTCCTT-TTTCTTTTTTTC
1 TTTTCTATTTTCTTTCTT--TTCTTTCTTTTTTTC
*
14511576 TTTTCTTTTTTCTTTCTTTTCTTTCTTTTTT
1 TTTTCTATTTTCTTTCTTTTCTTTCTTTTTT
14511607 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 2 0.07
33 24 0.86
34 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTCTATTTTCTTTCTTTTCTTTCTTTTTTTC
Found at i:14511589 original size:20 final size:20
Alignment explanation
Indices: 14511541--14511621 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
14511531 CTTTTTCCCA
*
14511541 TTTTTTC-TATTTTCTTTTTC
1 TTTTTTCTTTTTTTC-TTTTC
*
14511561 CTTTTTCTTTTTTTCTTTTC
1 TTTTTTCTTTTTTTCTTTTC
14511581 TTTTTTCTTTCTTTTC-TTTC
1 TTTTTTCTTT-TTTTCTTTTC
* *
14511601 TTTTTTATTTATTT-TTTTC
1 TTTTTTCTTTTTTTCTTTTC
14511620 TT
1 TT
14511622 CATTGAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
19 9 0.17
20 33 0.62
21 11 0.21
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTTC
Found at i:14511591 original size:16 final size:15
Alignment explanation
Indices: 14511541--14511606 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 15
14511531 CTTTTTCCCA
* *
14511541 TTTTTTCTATT-TTC
1 TTTTTTCTTTTCTTT
* *
14511555 TTTTTCCTTTT-TCT
1 TTTTTTCTTTTCTTT
14511569 TTTTTTCTTTTCTTT
1 TTTTTTCTTTTCTTT
14511584 TTTCTTTCTTTTCTTT
1 TTT-TTTCTTTTCTTT
14511600 CTTTTTT
1 -TTTTTT
14511607 ATTTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.47
15 5 0.12
16 15 0.35
17 3 0.07
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:14512475 original size:15 final size:15
Alignment explanation
Indices: 14512455--14512484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14512445 TTGACTTTCC
*
14512455 TTTCTTTTTTTCCTT
1 TTTCTTTTTTCCCTT
14512470 TTTCTTTTTTCCCTT
1 TTTCTTTTTTCCCTT
14512485 GGGTTTCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTTTCCCTT
Found at i:14517125 original size:29 final size:28
Alignment explanation
Indices: 14517084--14517302 Score: 131
Period size: 29 Copynumber: 7.5 Consensus size: 28
14517074 TTTGAGGTCG
** *
14517084 AAAATGTGTTTTTTAGAAATTTGAGGGT
1 AAAATGTAATTTTTAGAAGTTTGAGGGT
* * * *
14517112 AAAATGATAATTTTTGGATG-TTCAGGGGC
1 AAAATG-TAATTTTTAGAAGTTTGA-GGGT
*
14517141 AAAATGGTAATTTTTGAGAAGTTCGAGGGT
1 AAAAT-GTAATTTTT-AGAAGTTTGAGGGT
* *
14517171 AAAATGTAATTTTGAAGAAGTTTGGGGGT
1 AAAATGTAATTTT-TAGAAGTTTGAGGGT
* *
14517200 CAAATGTTATTTTTGAGAAGTTTG-GGGCT
1 AAAATGTAATTTTT-AGAAGTTTGAGGG-T
* * *
14517229 CAAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 -AAAATGTAATTTT-TAGAAGTTTGAGGG-T
*
14517260 AAAATGCAA-TTTTAGAAAAGTTT-AGGGGTT
1 AAAATGTAATTTTTAG--AAGTTTGA-GGG-T
*
14517290 AAAATGTGATTTT
1 AAAATGTAATTTT
14517303 AGGAAAGTTT
Statistics
Matches: 147, Mismatches: 29, Indels: 27
0.72 0.14 0.13
Matches are distributed among these distances:
28 13 0.09
29 69 0.47
30 56 0.38
31 9 0.06
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTTAGAAGTTTGAGGGT
Found at i:14517235 original size:30 final size:29
Alignment explanation
Indices: 14517074--14517302 Score: 157
Period size: 30 Copynumber: 7.8 Consensus size: 29
14517064 TTTTGGAATA
* * * *
14517074 TTTGAGGTCGAAAATGT-GTTTTTTAGAAA
1 TTTGGGGTC-AAAATGTAATTTTTGAGAAG
*
14517103 TTTGAGGGT-AAAATGATAATTTTTG-GATG
1 TTTG-GGGTCAAAATG-TAATTTTTGAGAAG
*
14517132 TTCAGGGG-CAAAATGGTAATTTTTGAGAAG
1 TT-TGGGGTCAAAAT-GTAATTTTTGAGAAG
*
14517162 TTCGAGGGT-AAAATGTAA-TTTTGAAGAAG
1 TTTG-GGGTCAAAATGTAATTTTTG-AGAAG
*
14517191 TTTGGGGGTC-AAATGTTATTTTTGAGAAG
1 TTT-GGGGTCAAAATGTAATTTTTGAGAAG
* *
14517220 TTTGGGGCTCAAAATGTAATTTTGGAAAAG
1 TTTGGGG-TCAAAATGTAATTTTTGAGAAG
* * * * *
14517250 TTTAAGGGTTAAAATGCAATTTTAGAAAAG
1 TTT-GGGGTCAAAATGTAATTTTTGAGAAG
* *
14517280 TTTAGGGGTTAAAATGTGATTTT
1 TTT-GGGGTCAAAATGTAATTTT
14517303 AGGAAAGTTT
Statistics
Matches: 164, Mismatches: 20, Indels: 31
0.76 0.09 0.14
Matches are distributed among these distances:
28 15 0.09
29 59 0.36
30 87 0.53
31 3 0.02
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
TTTGGGGTCAAAATGTAATTTTTGAGAAG
Found at i:14519131 original size:21 final size:21
Alignment explanation
Indices: 14519093--14519132 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14519083 TAGTACAAAT
* *
14519093 TTCTACCGATATAGGTGACAG
1 TTCTACCGATACAAGTGACAG
*
14519114 TTCTACGGATACAAGTGAC
1 TTCTACCGATACAAGTGAC
14519133 TCTTCTACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAG
Found at i:14519884 original size:18 final size:19
Alignment explanation
Indices: 14519832--14519890 Score: 93
Period size: 19 Copynumber: 3.2 Consensus size: 19
14519822 TGCGATCCAA
14519832 TATTGCTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
*
14519851 TATTTCTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
*
14519870 TATTGCTC-AACGAGCCAG
1 TATTGCTCTTACGAGCCAG
14519888 TAT
1 TAT
14519891 GCTATTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
18 12 0.32
19 25 0.68
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (19 bp):
TATTGCTCTTACGAGCCAG
Found at i:14521552 original size:31 final size:31
Alignment explanation
Indices: 14521517--14521585 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
14521507 GACTAATTTA
* *
14521517 TGGTATGCGTTTGGCGTGATGGTCAATTATT
1 TGGTATGCGTTTGGAGTGATGGTCAATTATC
14521548 TGGTATGCGTTTGGAGTGATGGTCAATTATC
1 TGGTATGCGTTTGGAGTGATGGTCAATTATC
14521579 TGGTATG
1 TGGTATG
14521586 TGTCGTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.17, C:0.09, G:0.33, T:0.41
Consensus pattern (31 bp):
TGGTATGCGTTTGGAGTGATGGTCAATTATC
Found at i:14527487 original size:30 final size:30
Alignment explanation
Indices: 14527453--14527517 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
14527443 CATTTAACAC
14527453 AACAATCACTAAAC-T-TTGAAAATGTGACAA
1 AACAATCACT-AACGTATTGAAAA-GTGACAA
*
14527483 AACAATCGCTAACGTTATTGAAAAGTGACAA
1 AACAATCACTAACG-TATTGAAAAGTGACAA
14527514 AACA
1 AACA
14527518 GCCACTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 3 0.10
30 9 0.29
31 12 0.39
32 7 0.23
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (30 bp):
AACAATCACTAACGTATTGAAAAGTGACAA
Found at i:14528573 original size:14 final size:14
Alignment explanation
Indices: 14528551--14528601 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14528541 AATCATTAAA
*
14528551 TTAATATAATACTT
1 TTAAGATAATACTT
*
14528565 TTAAGATAAGTA-AT
1 TTAAGATAA-TACTT
**
14528579 TTAATTTAATACTT
1 TTAAGATAATACTT
14528593 TTAAGATAA
1 TTAAGATAA
14528602 GTAGAGTCCC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (14 bp):
TTAAGATAATACTT
Found at i:14528582 original size:28 final size:28
Alignment explanation
Indices: 14528551--14528604 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
14528541 AATCATTAAA
14528551 TTAATATAATACTTTTAAGATAAGTAAT
1 TTAATATAATACTTTTAAGATAAGTAAT
*
14528579 TTAATTTAATACTTTTAAGATAAGTA
1 TTAATATAATACTTTTAAGATAAGTA
14528605 GAGTCCCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (28 bp):
TTAATATAATACTTTTAAGATAAGTAAT
Found at i:14528911 original size:24 final size:25
Alignment explanation
Indices: 14528879--14528961 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 25
14528869 ATTAATATAA
14528879 TGGTATCCTTTCTAG-CCTTTTCAT
1 TGGTATCCTTTCTAGACCTTTTCAT
* *
14528903 TGGTATCCTTT-TTGACCATTTCAT
1 TGGTATCCTTTCTAGACCTTTTCAT
* * *
14528927 TAGTGA-CCTTTC-CGTCCTTTTCAT
1 TGGT-ATCCTTTCTAGACCTTTTCAT
14528951 TGGTATCCTTT
1 TGGTATCCTTT
14528962 TTGGATAACA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.06
24 44 0.92
25 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.13, T:0.49
Consensus pattern (25 bp):
TGGTATCCTTTCTAGACCTTTTCAT
Found at i:14528988 original size:40 final size:41
Alignment explanation
Indices: 14528942--14529072 Score: 203
Period size: 40 Copynumber: 3.2 Consensus size: 41
14528932 ACCTTTCCGT
14528942 CCTTTTCA-TTGGTATCCTTTTTGGATAACATCCTTTTCAA
1 CCTTTTCATTTGGTATCCTTTTTGGATAACATCCTTTTCAA
* **
14528982 CCTTTTCATTTGATATCC-TTTCAGATAACATCCTTTTCAA
1 CCTTTTCATTTGGTATCCTTTTTGGATAACATCCTTTTCAA
*
14529022 CCTTTTCATTTGGTATCCTTTTTGAATAACATCCTTTTCAA
1 CCTTTTCATTTGGTATCCTTTTTGGATAACATCCTTTTCAA
*
14529063 CCTTTCCATT
1 CCTTTTCATT
14529073 GATTTGGAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 45 0.56
41 36 0.44
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.47
Consensus pattern (41 bp):
CCTTTTCATTTGGTATCCTTTTTGGATAACATCCTTTTCAA
Found at i:14529272 original size:20 final size:20
Alignment explanation
Indices: 14529234--14529272 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14529224 ATGTATCAAT
* *
14529234 TAATCTTTTAAATTCAAATG
1 TAATATTTTAAAATCAAATG
*
14529254 TAATATTTTAAAATGAAAT
1 TAATATTTTAAAATCAAAT
14529273 ACGAACTTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATATTTTAAAATCAAATG
Found at i:14536671 original size:21 final size:21
Alignment explanation
Indices: 14536641--14536691 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14536631 GATTTGTACA
* *
14536641 GATACAAGTGACAGTTTTACC
1 GATACAAGTGACACTTCTACC
* *
14536662 GATACCAGTGACTCTTCTACC
1 GATACAAGTGACACTTCTACC
14536683 GATACAAGT
1 GATACAAGT
14536692 TTTATCTCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (21 bp):
GATACAAGTGACACTTCTACC
Found at i:14541685 original size:21 final size:21
Alignment explanation
Indices: 14541661--14541705 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
14541651 TGTACAATGG
14541661 TTTGAATGCTTAGACAAGGAA
1 TTTGAATGCTTAGACAAGGAA
14541682 TTTGAATGCTTAGACAAGGAA
1 TTTGAATGCTTAGACAAGGAA
14541703 TTT
1 TTT
14541706 TGTCGACGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (21 bp):
TTTGAATGCTTAGACAAGGAA
Found at i:14552709 original size:69 final size:69
Alignment explanation
Indices: 14552571--14552702 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 69
14552561 TCTTTAATGG
* * * *
14552571 AAAAGCTATAACAGCTAACTCTAGATCATGAGTTGGATAATTCTTTTCATGCGGCTTTAACTAAT
1 AAAAACTATAACAGCTAACTCCAGATCATGAGTCGGATAATTCTTTTCATACGGCTTTAACTAAT
14552636 AGGA
66 AGGA
*
14552640 AAAAACTATAGCAGCTAACTCCAGATCATGAGTCGGATAATTCTTTTCATACGGCTTTAACTA
1 AAAAACTATAACAGCTAACTCCAGATCATGAGTCGGATAATTCTTTTCATACGGCTTTAACTA
14552703 TCAGGAAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (69 bp):
AAAAACTATAACAGCTAACTCCAGATCATGAGTCGGATAATTCTTTTCATACGGCTTTAACTAAT
AGGA
Found at i:14569813 original size:15 final size:15
Alignment explanation
Indices: 14569793--14569831 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
14569783 TACAATAAAT
14569793 AACAAGATTATCCAC
1 AACAAGATTATCCAC
*
14569808 AACAAGATTATCTAC
1 AACAAGATTATCCAC
14569823 AACAAGATT
1 AACAAGATT
14569832 TGAACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (15 bp):
AACAAGATTATCCAC
Found at i:14584116 original size:23 final size:23
Alignment explanation
Indices: 14584075--14584118 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14584065 GAAATTAAAT
** *
14584075 TGTAATTTTTACGATATTAAAAA
1 TGTAATTTTTAAAAGATTAAAAA
14584098 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGATTAAA
14584119 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
TGTAATTTTTAAAAGATTAAAAA
Found at i:14584700 original size:55 final size:54
Alignment explanation
Indices: 14584634--14584741 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
14584624 CCCATTTGTC
* * * *
14584634 CAGTCGTGTGTATTCTCGAAATAGGGTGACGCAGTCGTGTGTTAGCTCGTGTGCT
1 CAGTCGTGTGTATACTCGAAATAGGGTCACACAGTCGTGTGTCAGC-CGTGTGCT
* * *
14584689 CAGTTGTGTGTATACTCGAAGTAGGGTCACACGGTCGTGTGTCAGCCGTGTGC
1 CAGTCGTGTGTATACTCGAAATAGGGTCACACAGTCGTGTGTCAGCCGTGTGC
14584742 CTACTGCACC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
54 7 0.15
55 39 0.85
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (54 bp):
CAGTCGTGTGTATACTCGAAATAGGGTCACACAGTCGTGTGTCAGCCGTGTGCT
Found at i:14593458 original size:37 final size:37
Alignment explanation
Indices: 14593403--14593501 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
14593393 TGGATCAACA
*
14593403 GCACAAAGCCTGCTAGGCACATAGCCCGAATACACCG
1 GCACGAAGCCTGCTAGGCACATAGCCCGAATACACCG
* *
14593440 GCACGAAGCCTGCTAGGCACACAGCCCTAATACACCG
1 GCACGAAGCCTGCTAGGCACATAGCCCGAATACACCG
* *
14593477 GCACGAAGCTTGCTAGACACATAGC
1 GCACGAAGCCTGCTAGGCACATAGC
14593502 TTGAGTATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.34, G:0.22, T:0.12
Consensus pattern (37 bp):
GCACGAAGCCTGCTAGGCACATAGCCCGAATACACCG
Found at i:14595238 original size:90 final size:88
Alignment explanation
Indices: 14595033--14595363 Score: 402
Period size: 90 Copynumber: 3.7 Consensus size: 88
14595023 AATGGGGTCG
* * * *
14595033 AAAATG-AAGTTTT-GAGGAATTT-AGGGTTAAAATGTAATTTTAGA-AAATTTTAGGGTTAAGA
1 AAAATGTAA-TTTTAGAGAAATTTGAGGGTTAAAATGTAATTTTAGAGAAGTTTAAGGG-TAAAA
14595094 TGTAATTTTGG-GAAAGTTTAGGGTT
64 TGTAATTTTGGAG-AAGTTTAGGGTT
* *
14595119 AAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATATAATTTTAGAGAAGTTTAAGGGTAAAAT
1 -AAAATGTAATTTTAGAGAAATTTGAGGGTTAAAATGTAATTTTAGAGAAGTTTAAGGGTAAAAT
*
14595184 GCAATTTTGGAGAAGTTTAGGGGTT
65 GTAATTTTGGAGAAGTTTA-GGGTT
* * * *
14595209 AAACATGTAATTTTAGAGAAATTTGAGGGTTAAAGTGTAATTTTGGAGAAGTTTGAGGGTTAAAT
1 AAA-ATGTAATTTTAGAGAAATTTGAGGGTTAAAATGTAATTTTAGAGAAGTTTAAGGGTAAAAT
*
14595274 GTAATTTTAGAGAAGTTTATGGGTT
65 GTAATTTTGGAGAAGTTTA-GGGTT
* * * * *
14595299 AAAGTGTAATTTTAGAGAAATTTGAGTGTGAAAATGTAATTTTGGAGAAGTTTCAGGGTCAAAAT
1 AAAATGTAATTTTAGAGAAATTTGAGGGTTAAAATGTAATTTTAGAGAAGTTTAAGGGT-AAAAT
14595364 ATGATTTTTG
Statistics
Matches: 215, Mismatches: 21, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
87 10 0.05
88 10 0.05
89 96 0.45
90 99 0.46
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.36
Consensus pattern (88 bp):
AAAATGTAATTTTAGAGAAATTTGAGGGTTAAAATGTAATTTTAGAGAAGTTTAAGGGTAAAATG
TAATTTTGGAGAAGTTTAGGGTT
Done.