Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 51
Found at i:6677799 original size:28 final size:28
Alignment explanation
Indices: 6677747--6677800 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6677737 AGATAACTTA
* *
6677747 ATTCCTTTATTACATTTTTTTCCTTTAG
1 ATTCCTTTATTACATTATTTGCCTTTAG
* *
6677775 ATTCTTTTATTACCTTATTTGCCTTT
1 ATTCCTTTATTACATTATTTGCCTTT
6677801 TTGTCCTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTCCTTTATTACATTATTTGCCTTTAG
Found at i:6679910 original size:20 final size:21
Alignment explanation
Indices: 6679870--6679910 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6679860 ATGGAACTAA
6679870 GAAGGTAGTTGACACTAGCTG
1 GAAGGTAGTTGACACTAGCTG
*
6679891 GAAGGTAGTTGAGA-TAGCTG
1 GAAGGTAGTTGACACTAGCTG
6679911 AAAACTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (21 bp):
GAAGGTAGTTGACACTAGCTG
Found at i:6686807 original size:23 final size:23
Alignment explanation
Indices: 6686780--6686840 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
6686770 TTGCTCAGAG
6686780 GGAACCGATTCCCCCCCATAGGA
1 GGAACCGATTCCCCCCCATAGGA
6686803 GGAACCGATTCCCCCCCATAGGA
1 GGAACCGATTCCCCCCCATAGGA
6686826 GGAACCGATTCCCCC
1 GGAACCGATTCCCCC
6686841 TAAACATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.41, G:0.21, T:0.13
Consensus pattern (23 bp):
GGAACCGATTCCCCCCCATAGGA
Found at i:6692738 original size:20 final size:21
Alignment explanation
Indices: 6692699--6692738 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6692689 CCCCCTTTGA
*
6692699 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATTACCCCCAC
*
6692720 AGGGGAATCGA-TACCCCCA
1 AGGGGAACCGATTACCCCCA
6692739 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATTACCCCCAC
Found at i:6695204 original size:13 final size:13
Alignment explanation
Indices: 6695186--6695222 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6695176 TTTCTAAGTA
6695186 TATTCGATATAAC
1 TATTCGATATAAC
6695199 TATTCGATATAAC
1 TATTCGATATAAC
6695212 TATTCGA-ATAA
1 TATTCGATATAA
6695223 TCAAAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (13 bp):
TATTCGATATAAC
Found at i:6707214 original size:13 final size:13
Alignment explanation
Indices: 6707192--6707221 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6707182 ACTAAACACC
6707192 TTTC-ACATACCT
1 TTTCAACATACCT
6707204 TTTCAACATACCT
1 TTTCAACATACCT
6707217 TTTCA
1 TTTCA
6707222 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:6713179 original size:17 final size:18
Alignment explanation
Indices: 6713147--6713185 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6713137 TTGTGTTGTT
*
6713147 CATTTGAGCTTTCCATGA
1 CATTTGAGCTTGCCATGA
6713165 CATTT-AGCTTGCCATGA
1 CATTTGAGCTTGCCATGA
6713182 -ATTT
1 CATTT
6713186 TAGATAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (18 bp):
CATTTGAGCTTGCCATGA
Found at i:6718396 original size:130 final size:131
Alignment explanation
Indices: 6718243--6718506 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 131
6718233 TTAATACTAG
*
6718243 ACACATCAATCATAATGCTACAACATTGTTAGTTAATGCTACTATTTGACATCCAACAAT-TTTT
1 ACACATCAATCATAATGCAACAACATTGTTAGTTAATGCTACTATTTGACATCCAACAATCTTTT
*
6718307 ACCTAAATCGATCATTTATTTATTTACTTGTTCTGGAATCCCATTTATTCTATTTTATTTTCTAT
66 ACCTAAATCGATCATTTATTTATTTACTTGTTCTGGAATCCCATTTATTATATTTTATTTTCTAT
6718372 T
131 T
6718373 ACACATCAATCATAATGCAACAACATTGTTAGTTAATGCTACTATTTGACATCCAACAATCTTTT
1 ACACATCAATCATAATGCAACAACATTGTTAGTTAATGCTACTATTTGACATCCAACAATCTTTT
6718438 ACCTAAATCGATCATTTATTTATTTACTTGTTCTGGAATCCCATTTATTATATTTTATTTTCTAT
66 ACCTAAATCGATCATTTATTTATTTACTTGTTCTGGAATCCCATTTATTATATTTTATTTTCTAT
6718503 T
131 T
6718504 ACA
1 ACA
6718507 TACAACATTG
Statistics
Matches: 131, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
130 59 0.45
131 72 0.55
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (131 bp):
ACACATCAATCATAATGCAACAACATTGTTAGTTAATGCTACTATTTGACATCCAACAATCTTTT
ACCTAAATCGATCATTTATTTATTTACTTGTTCTGGAATCCCATTTATTATATTTTATTTTCTAT
T
Found at i:6724673 original size:13 final size:13
Alignment explanation
Indices: 6724619--6724676 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
6724609 ACTAACTGTT
6724619 CATCACCATCTTC
1 CATCACCATCTTC
* *
6724632 CATAACCAT-TTT
1 CATCACCATCTTC
* **
6724644 CA-CACC-TATAA
1 CATCACCATCTTC
6724655 CATCACCATCTTC
1 CATCACCATCTTC
6724668 CATCACCAT
1 CATCACCAT
6724677 TGCACGCCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
10 1 0.03
11 6 0.18
12 8 0.24
13 19 0.56
ACGTcount: A:0.31, C:0.40, G:0.00, T:0.29
Consensus pattern (13 bp):
CATCACCATCTTC
Found at i:6724694 original size:35 final size:35
Alignment explanation
Indices: 6724618--6724765 Score: 206
Period size: 35 Copynumber: 4.2 Consensus size: 35
6724608 TACTAACTGT
* *
6724618 TCATCACCATCTTCCATAACCATTTTCACACCTATA
1 TCATCACCATCTTCCATCACCA-TTTCACGCCTATA
* *
6724654 ACATCACCATCTTCCATCACCATTGCACGCCTATA
1 TCATCACCATCTTCCATCACCATTTCACGCCTATA
* *
6724689 TCATCACCATCTTCTATCACCATTTCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCACGCCTATA
* * *
6724724 TCATCGCCATCTTCTATCACCATTTCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCACGCCTATA
6724759 TCATCAC
1 TCATCAC
6724766 TATTCCTTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 82 0.80
36 20 0.20
ACGTcount: A:0.27, C:0.36, G:0.03, T:0.33
Consensus pattern (35 bp):
TCATCACCATCTTCCATCACCATTTCACGCCTATA
Found at i:6724925 original size:21 final size:18
Alignment explanation
Indices: 6724900--6724942 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 18
6724890 TAACATTTTT
6724900 TTTCCATTTCAATTCTTTCCA
1 TTTCCATTTC-ATT-TTT-CA
6724921 TTTCCATTTCATTTTTCA
1 TTTCCATTTCATTTTTCA
6724939 TTTC
1 TTTC
6724943 TTAATTGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 3 0.14
20 3 0.14
21 10 0.45
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCCATTTCATTTTTCA
Found at i:6725245 original size:15 final size:15
Alignment explanation
Indices: 6725203--6725235 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6725193 TTGGAGTGCA
*
6725203 AAAAGAA-AGAAAAG
1 AAAAGAAGAAAAAAG
6725217 AAAAGAAGAAAAAAG
1 AAAAGAAGAAAAAAG
6725232 AAAA
1 AAAA
6725236 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAAAAAG
Found at i:6728787 original size:36 final size:36
Alignment explanation
Indices: 6728740--6728820 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
6728730 ACTACTTGTT
*
6728740 CATCACCATCTTCCATCACCGTTTTAACACCTATAA
1 CATCACCATCTTCCATCACCATTTTAACACCTATAA
*
6728776 CATCACCATCTTCCTTCACCATTTTAACACCTATAA
1 CATCACCATCTTCCATCACCATTTTAACACCTATAA
6728812 CATCACCAT
1 CATCACCAT
6728821 TGCTCCCCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.31, C:0.37, G:0.01, T:0.31
Consensus pattern (36 bp):
CATCACCATCTTCCATCACCATTTTAACACCTATAA
Found at i:6728853 original size:58 final size:57
Alignment explanation
Indices: 6728769--6728877 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
6728759 CGTTTTAACA
*
6728769 CCTATAACATCACCATCTTCCTTCACCATTTTAACACCTATAACATCACCATTGCTCC
1 CCTATAACATCACCATATTCCTTCACCA-TTTAACACCTATAACATCACCATTGCTCC
* * * *
6728827 CCTATATCATCACCATATT-CTATCACCATTTCACGCCTATATCATCACCAT
1 CCTATAACATCACCATATTCCT-TCACCATTTAACACCTATAACATCACCAT
6728878 CTTCTATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.29, C:0.37, G:0.02, T:0.32
Consensus pattern (57 bp):
CCTATAACATCACCATATTCCTTCACCATTTAACACCTATAACATCACCATTGCTCC
Found at i:6728866 original size:35 final size:35
Alignment explanation
Indices: 6728813--6728912 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 35
6728803 CACCTATAAC
* * *
6728813 ATCACCATTGCTCCCCTATATCATCACCATATTCT
1 ATCACCATTTCACACCTATATCATCACCATATTCT
* *
6728848 ATCACCATTTCACGCCTATATCATCACCATCTTCT
1 ATCACCATTTCACACCTATATCATCACCATATTCT
*
6728883 ATTACCATTTCACACCTATATCATCACCAT
1 ATCACCATTTCACACCTATATCATCACCAT
6728913 TCATTAACCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.28, C:0.36, G:0.02, T:0.34
Consensus pattern (35 bp):
ATCACCATTTCACACCTATATCATCACCATATTCT
Found at i:6728911 original size:22 final size:22
Alignment explanation
Indices: 6728791--6728913 Score: 63
Period size: 22 Copynumber: 5.4 Consensus size: 22
6728781 CCATCTTCCT
* *
6728791 TCACCATTTTAACACCTATAACA
1 TCACCA-TTTCACACCTATATCA
* * *
6728814 TCACCATTGCTCCCCTATATCA
1 TCACCATTTCACACCTATATCA
*
6728836 TCACCATATTCTATCACC-ATTTCA
1 TCACCAT-TTC-A-CACCTATATCA
* * *
6728860 -CGCCTATATCATCACC-ATCTTCTA
1 TCACC-ATTTCA-CACCTAT-ATC-A
*
6728884 TTACCATTTCACACCTATATCA
1 TCACCATTTCACACCTATATCA
6728906 TCACCATT
1 TCACCATT
6728914 CATTAACCAC
Statistics
Matches: 76, Mismatches: 16, Indels: 17
0.70 0.15 0.16
Matches are distributed among these distances:
22 34 0.45
23 22 0.29
24 15 0.20
25 5 0.07
ACGTcount: A:0.29, C:0.35, G:0.02, T:0.34
Consensus pattern (22 bp):
TCACCATTTCACACCTATATCA
Found at i:6739707 original size:29 final size:28
Alignment explanation
Indices: 6739674--6739737 Score: 103
Period size: 29 Copynumber: 2.3 Consensus size: 28
6739664 AAAAAAAGTT
*
6739674 GAAAAAACTGTTCATTGTTTCGAACAGTA
1 GAAAAAAATGTTCATTGTTTCGAACA-TA
6739703 GAAAAAAATGTTCATTGTTTCGAACATA
1 GAAAAAAATGTTCATTGTTTCGAACATA
6739731 -AAAAAAA
1 GAAAAAAA
6739738 GGCCCTTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 25 0.74
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (28 bp):
GAAAAAAATGTTCATTGTTTCGAACATA
Found at i:6739747 original size:27 final size:29
Alignment explanation
Indices: 6739686--6739749 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
6739676 AAAAACTGTT
* **
6739686 CATTGTTTCGAACAGTAGAAAAAAATGTT
1 CATTGTTTCGAACAGTAGAAAAAAAGGCC
6739715 CATTGTTTCGAACA-TA-AAAAAAAGGCC
1 CATTGTTTCGAACAGTAGAAAAAAAGGCC
*
6739742 CTTTGTTT
1 CATTGTTT
6739750 GGAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 15 0.48
28 2 0.06
29 14 0.45
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (29 bp):
CATTGTTTCGAACAGTAGAAAAAAAGGCC
Found at i:6740611 original size:75 final size:75
Alignment explanation
Indices: 6740528--6740675 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 75
6740518 TAAACTCATG
*
6740528 TTTAGGATAATATTTTAAACATTATATT-TTATCTTT-TTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATAATATTTT-AACATTATATTATTAT-TTTAATATTTTAGTTTAAATAGGTTTTAGTA
6740591 TTTTAATTAAGT
64 TTTTAATTAAGT
* * * *
6740603 TTTAGGATATTATTTTTATATTTTATTATTATTTTAGATATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAATATTTTAACATTATATTATTATTTTA-ATATTTTAGTTTAAATAGGTTTTAGTAT
6740668 TTTAATTA
65 TTTAATTA
6740676 GTATTTATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
74 11 0.17
75 19 0.29
76 35 0.54
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATTATTATTTTAATATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGT
Found at i:6740634 original size:19 final size:20
Alignment explanation
Indices: 6740610--6740647 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6740600 AGTTTTAGGA
*
6740610 TATTATTTT-TATATTTTAT
1 TATTATTTTAGATATTTTAT
6740629 TATTATTTTAGATATTTTA
1 TATTATTTTAGATATTTTA
6740648 GTTTAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTATTTTAGATATTTTAT
Found at i:6741376 original size:18 final size:18
Alignment explanation
Indices: 6741332--6741379 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
6741322 AATCTCTTTA
6741332 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
6741351 -TTACTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
6741369 ATTTTTTATTT
1 ATTTTTTATTT
6741380 TAAAAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:6745490 original size:16 final size:16
Alignment explanation
Indices: 6745452--6745491 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6745442 AATACTAACA
*
6745452 ATATATATAGATATAT
1 ATATATATAGATATAC
*
6745468 ATATATATAGATATGC
1 ATATATATAGATATAC
*
6745484 ATCTATAT
1 ATATATAT
6745492 TTTGTACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (16 bp):
ATATATATAGATATAC
Found at i:6748316 original size:45 final size:45
Alignment explanation
Indices: 6748263--6748394 Score: 194
Period size: 45 Copynumber: 2.9 Consensus size: 45
6748253 CCATTTATTA
* *
6748263 ACCATAAGCTCATAAAG-TTATTTTACCAAAATACTTACCATTTGT
1 ACCATAAGCTCGT-AAGCTTATTTTACCAAAACACTTACCATTTGT
* *
6748308 ACCATAAGCTTGTAAGCTTATTTTAACAAAACACTTACCATTTGT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTGT
* *
6748353 ACCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATT
6748395 ATTCCATAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.04
45 75 0.96
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (45 bp):
ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTGT
Found at i:6755496 original size:24 final size:25
Alignment explanation
Indices: 6755418--6755496 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 25
6755408 AATACTTACC
6755418 ATTTGTACCATAAGCTCGTAAGCTT
1 ATTTGTACCATAAGCTCGTAAGCTT
* * * *
6755443 ATTT-TAACA-AA-ATAC-TTA-C-C
1 ATTTGTACCATAAGCT-CGTAAGCTT
6755463 ATTTGTACCATAAGCTCGTAAGCTT
1 ATTTGTACCATAAGCTCGTAAGCTT
6755488 ATTT-TACCA
1 ATTTGTACCA
6755497 ATACACTTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 15
0.63 0.13 0.24
Matches are distributed among these distances:
20 4 0.10
21 5 0.13
22 6 0.15
23 6 0.15
24 10 0.26
25 8 0.21
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (25 bp):
ATTTGTACCATAAGCTCGTAAGCTT
Found at i:6755510 original size:45 final size:45
Alignment explanation
Indices: 6755334--6755493 Score: 302
Period size: 45 Copynumber: 3.6 Consensus size: 45
6755324 CCATTTATTA
*
6755334 ACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTGT
1 ACCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTGT
*
6755379 ACCATAAGCTTGTAAGCTTATTTTAACAAAATACTTACCATTTGT
1 ACCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTGT
6755424 ACCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTGT
1 ACCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTGT
6755469 ACCATAAGCTCGTAAGCTTATTTTA
1 ACCATAAGCTCGTAAGCTTATTTTA
6755494 CCAATACACT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (45 bp):
ACCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTGT
Found at i:6758511 original size:46 final size:46
Alignment explanation
Indices: 6758391--6758713 Score: 505
Period size: 46 Copynumber: 7.1 Consensus size: 46
6758381 GGTAATCATG
*
6758391 AAAATAAGCTTACGAGCTTATGGAA-T-AATGGAAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
*
6758435 AAAATAA-CTTTCGAGCTTATGGAATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
6758480 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
6758526 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAG--TATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
* *
6758570 AAAATAAGCTTATGAGCTTATGGAATTAAATGGTAAGTATATTAGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
* * *
6758616 GAAATAGGCTTACGAGATTATGGAATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
* * *
6758662 AAAATAAGCTTACGAGCTTATGGGA-TAACTGCTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
6758707 AAGAATA
1 AA-AATA
6758714 TTTTTATTTT
Statistics
Matches: 257, Mismatches: 16, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
43 16 0.06
44 51 0.20
45 44 0.17
46 146 0.57
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGT
Found at i:6758591 original size:90 final size:90
Alignment explanation
Indices: 6758391--6758713 Score: 490
Period size: 90 Copynumber: 3.6 Consensus size: 90
6758381 GGTAATCATG
* *
6758391 AAAATAAGCTTACGAGCTTATGGAAT-AATGGAAAGTATATTGGTAAAATAA-CTTTCGAGCTTA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
6758454 TGGAATTAAATGGTAAGTATATTGGT
66 TGGAATTAAATGGTAAG-ATATTGGT
6758480 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTT
1 AAAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTT
6758545 ATGGAATTAAATGGTAAG-TATTGGT
65 ATGGAATTAAATGGTAAGATATTGGT
* * * * *
6758570 AAAATAAGCTTATGAGCTTATGGAATTAAATGGTAAGTATATTAGTGAAATAGGCTTACGAGATT
1 AAAATAAGCTTACGAGCTTATGGAA-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTT
6758635 ATGGAATTAAATGGTAAGTATATTGGT
65 ATGGAATTAAATGGTAAG-ATATTGGT
* * *
6758662 AAAATAAGCTTACGAGCTTATGGGATAACTGCTAAGTATATTGGTAAGAATA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAA-AATA
6758714 TTTTTATTTT
Statistics
Matches: 215, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
89 25 0.12
90 86 0.40
91 42 0.20
92 62 0.29
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (90 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
TGGAATTAAATGGTAAGATATTGGT
Found at i:6758637 original size:136 final size:134
Alignment explanation
Indices: 6758391--6758713 Score: 488
Period size: 136 Copynumber: 2.4 Consensus size: 134
6758381 GGTAATCATG
6758391 AAAATAAGCTTACGAGCTTATGGAATAATGGAAAGTATATTGGTAAAATAACTTTCGAGCTTATG
1 AAAATAAGCTTACGAGCTTATGGAATAATGGAAAG-ATATTGGTAAAATAACTTTCGAGCTTATG
* *
6758456 GAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATA
65 GAATTAAATGGTAAGTATATTAGTAAAATAAGCTTACGAGATTATGGAATTAAATGGTAAGTATA
6758521 TTGGT
130 TTGGT
*
6758526 AAAATAAGCTTACGAGCTTATGGAATTAAATGGTAAG-TATTGGTAAAATAAGCTTAT-GAGCTT
1 AAAATAAGCTTACGAGCTTATGGAA-T-AATGGAAAGATATTGGTAAAATAA-CTT-TCGAGCTT
* *
6758589 ATGGAATTAAATGGTAAGTATATTAGTGAAATAGGCTTACGAGATTATGGAATTAAATGGTAAGT
62 ATGGAATTAAATGGTAAGTATATTAGTAAAATAAGCTTACGAGATTATGGAATTAAATGGTAAGT
6758654 ATATTGGT
127 ATATTGGT
* **
6758662 AAAATAAGCTTACGAGCTTATGGGATAACTGCTAAGTATATTGGTAAGAATA
1 AAAATAAGCTTACGAGCTTATGGAATAA-TGGAAAG-ATATTGGTAA-AATA
6758714 TTTTTATTTT
Statistics
Matches: 173, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
134 2 0.01
135 46 0.27
136 103 0.60
137 18 0.10
138 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (134 bp):
AAAATAAGCTTACGAGCTTATGGAATAATGGAAAGATATTGGTAAAATAACTTTCGAGCTTATGG
AATTAAATGGTAAGTATATTAGTAAAATAAGCTTACGAGATTATGGAATTAAATGGTAAGTATAT
TGGT
Found at i:6761424 original size:21 final size:21
Alignment explanation
Indices: 6761400--6761455 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
6761390 TAAATAAAGA
6761400 AGAAAAAGAAAAAAA-ACAAAC
1 AGAAAAAGAAAAAAAGA-AAAC
6761421 AGAAAAAAGAAAAAAAGAAAAC
1 AG-AAAAAGAAAAAAAGAAAAC
*
6761443 -GAAGAAGAAAAAA
1 AGAAAAAGAAAAAA
6761456 TTAGAGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 11 0.34
21 3 0.09
22 17 0.53
23 1 0.03
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.00
Consensus pattern (21 bp):
AGAAAAAGAAAAAAAGAAAAC
Found at i:6761426 original size:15 final size:15
Alignment explanation
Indices: 6761395--6761441 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
6761385 ACATTTAAAT
6761395 AAAGAAGAAAAAGAAA
1 AAAGAA-AAAAAGAAA
*
6761411 AAA-AACAAACAGAAA
1 AAAGAA-AAAAAGAAA
6761426 AAAGAAAAAAAGAAA
1 AAAGAAAAAAAGAAA
6761441 A
1 A
6761442 CGAAGAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:6768821 original size:11 final size:11
Alignment explanation
Indices: 6768798--6768836 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
6768788 CATTTCATTA
6768798 TATTTTTGTTTT
1 TATTTTTG-TTT
6768810 TATTTTTGTTT
1 TATTTTTGTTT
*
6768821 TA-TTTCGTTT
1 TATTTTTGTTT
6768831 TATTTT
1 TATTTT
6768837 CAGTAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 8 0.32
12 8 0.32
ACGTcount: A:0.10, C:0.03, G:0.08, T:0.79
Consensus pattern (11 bp):
TATTTTTGTTT
Found at i:6770626 original size:31 final size:31
Alignment explanation
Indices: 6770584--6770644 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6770574 TTTAAACAGT
6770584 TTTTAGTATTTTAATTA-AGTTTTAGGATATTA
1 TTTTAGTATTTT-ATTATAGTTTTA-GATATTA
*
6770616 TTTTA-TATTTTATTATTGTTTTAGATATT
1 TTTTAGTATTTTATTATAGTTTTAGATATT
6770645 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 10 0.37
31 12 0.44
32 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (31 bp):
TTTTAGTATTTTATTATAGTTTTAGATATTA
Found at i:6770709 original size:64 final size:65
Alignment explanation
Indices: 6770620--6770746 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 65
6770610 ATATTATTTT
*
6770620 ATATTTTATTATTGTTTTAGATATTTTAGTTTAAATAGGTTTT-AGTATTTT-AATTAGGATTTA
1 ATATTATATTATTGTTTTAGATATTTTAGTTTAAATA-GTTTTAAGT-TTTTAAATTAGGATTTA
6770683 TA
64 TA
*
6770685 ATATTATATTATT-TTTTAGGTATTTTAGTTTAAATAGTTTTAAGTTTTTAAATTAGGATTTA
1 ATATTATATTATTGTTTTAGATATTTTAGTTTAAATAGTTTTAAGTTTTTAAATTAGGATTTA
6770747 AGATGTTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 9 0.16
64 37 0.64
65 12 0.21
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (65 bp):
ATATTATATTATTGTTTTAGATATTTTAGTTTAAATAGTTTTAAGTTTTTAAATTAGGATTTATA
Found at i:6771389 original size:19 final size:18
Alignment explanation
Indices: 6771338--6771386 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
6771328 AATCTCTTTA
6771338 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
6771357 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
6771376 ATTTTTTATTT
1 ATTTTTTATTT
6771387 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:6771474 original size:28 final size:29
Alignment explanation
Indices: 6771428--6771484 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
6771418 TATTTATTAA
* *
6771428 TATTTATTATTATATTAATTTTTCTTTTT
1 TATTTATTATTATATTAATATATCTTTTT
*
6771457 TATTTATT-TTATTTTAATATATCTTTTT
1 TATTTATTATTATATTAATATATCTTTTT
6771485 AACTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (29 bp):
TATTTATTATTATATTAATATATCTTTTT
Found at i:6772774 original size:20 final size:20
Alignment explanation
Indices: 6772732--6772774 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6772722 GGATCATTTT
**
6772732 TTAAGGTTTTATTATTTTGA
1 TTAAGGTTTTATTATGGTGA
6772752 TTAAGGTTTTTATTATGGT-A
1 TTAAGG-TTTTATTATGGTGA
6772772 TTA
1 TTA
6772775 TTATCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (20 bp):
TTAAGGTTTTATTATGGTGA
Found at i:6776288 original size:46 final size:46
Alignment explanation
Indices: 6776171--6776443 Score: 394
Period size: 46 Copynumber: 6.0 Consensus size: 46
6776161 GTAAGCATGC
* * * *
6776171 AAATAAGCTTACAAGCTTATTGAA-T-AATGGCAAGTATACTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* *
6776215 AAATAA-CTTTCGAGCTTATGGAATTAAATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* *
6776260 AAATATGCTTACGAGCTTATGAAATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
* *
6776306 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTAGTG
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
*
6776352 AAATAAGCTTACGAGATTATGGAATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
*
6776398 AAATAAGCTTACGAGCTTAT-GAGA-TAAATGCTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGA-ATTAAATGGTAAGTATATTGGTA
6776443 A
1 A
6776444 GAAATTTTGT
Statistics
Matches: 206, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
43 14 0.07
44 7 0.03
45 44 0.21
46 141 0.68
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTA
Found at i:6779127 original size:6 final size:6
Alignment explanation
Indices: 6779108--6779142 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
6779098 AATAATATAA
*
6779108 AAAAAG AAACAG AAAAAG AAAGAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAA
6779143 CGAAGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6779157 original size:15 final size:15
Alignment explanation
Indices: 6779118--6779149 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
6779108 AAAAAGAAAC
6779118 AGAAAAAG-AAA-GA
1 AGAAAAAGAAAACGA
6779131 AGAAAAAGAAAACGA
1 AGAAAAAGAAAACGA
6779146 AGAA
1 AGAA
6779150 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAACGA
Found at i:6779187 original size:11 final size:11
Alignment explanation
Indices: 6779162--6779198 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6779152 AAAAAATAGA
6779162 AAAAT-AGAA-
1 AAAATGAGAAC
6779171 AAAATGAGAAC
1 AAAATGAGAAC
*
6779182 AAAATGGGAAC
1 AAAATGAGAAC
6779193 AAAATG
1 AAAATG
6779199 GAAAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.65, C:0.05, G:0.19, T:0.11
Consensus pattern (11 bp):
AAAATGAGAAC
Found at i:6789333 original size:5 final size:6
Alignment explanation
Indices: 6789316--6789341 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6789306 ATTTTAACTT
6789316 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
6789342 CGATACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:6794773 original size:31 final size:32
Alignment explanation
Indices: 6794733--6794822 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 32
6794723 CTAAGGGAAC
*
6794733 ATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAG
1 ATCTCAGGGCCTGCAGAGCCTACCCAAGAAT-G
* * *
6794764 ATTTCAGGG-CTGCAGGGCCTACCCGAGAATG
1 ATCTCAGGGCCTGCAGAGCCTACCCAAGAATG
*
6794795 ATCTCAGGGCC-GCAGAGCCTACCTAAGA
1 ATCTCAGGGCCTGCAGAGCCTACCCAAGA
6794823 GTCATATTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
30 3 0.06
31 42 0.88
32 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (32 bp):
ATCTCAGGGCCTGCAGAGCCTACCCAAGAATG
Found at i:6795930 original size:30 final size:30
Alignment explanation
Indices: 6795894--6795954 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6795884 CGGGTTGTTA
6795894 CAATTCTCCCCCTCTACAAGAAATTTCGTC
1 CAATTCTCCCCCTCTACAAGAAATTTCGTC
6795924 CAATTCTCCCCCTCTACAAGAAATTTCGTC
1 CAATTCTCCCCCTCTACAAGAAATTTCGTC
6795954 C
1 C
6795955 TCAAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.38, G:0.07, T:0.30
Consensus pattern (30 bp):
CAATTCTCCCCCTCTACAAGAAATTTCGTC
Found at i:6802543 original size:30 final size:30
Alignment explanation
Indices: 6802414--6802567 Score: 131
Period size: 28 Copynumber: 5.3 Consensus size: 30
6802404 AACTATTACG
* * *
6802414 AAAATAACACA-TTCTTCGAAATAATTCCC
1 AAAATATCACATTTTTTCAAAATAATTCCC
* * * * *
6802443 AAACTATCACCTTTTTT-AACATAATTTCT
1 AAAATATCACATTTTTTCAAAATAATTCCC
* ***
6802472 AAAATATCAC--CTTTTCAAAATAATTATG
1 AAAATATCACATTTTTTCAAAATAATTCCC
* *
6802500 AGAATAT--CATTTTTTCGAAATAATTCCC
1 AAAATATCACATTTTTTCAAAATAATTCCC
*
6802528 AAAATATCACATTTTTTCAAAATAATTCTC
1 AAAATATCACATTTTTTCAAAATAATTCCC
6802558 AAAATATCAC
1 AAAATATCAC
6802568 CTAACAACAA
Statistics
Matches: 96, Mismatches: 23, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
26 1 0.01
27 4 0.04
28 33 0.34
29 25 0.26
30 33 0.34
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATATCACATTTTTTCAAAATAATTCCC
Found at i:6807378 original size:27 final size:27
Alignment explanation
Indices: 6807348--6807407 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
6807338 AATTATTATT
6807348 TTTTACAACATAAGGGTATTTTCATAA
1 TTTTACAACATAAGGGTATTTTCATAA
**
6807375 TTTTACCCCATAAGGGTATTTTCATAA
1 TTTTACAACATAAGGGTATTTTCATAA
6807402 TTTTAC
1 TTTTAC
6807408 CTAACCGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (27 bp):
TTTTACAACATAAGGGTATTTTCATAA
Found at i:6807408 original size:27 final size:27
Alignment explanation
Indices: 6807356--6807408 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6807346 TTTTTTACAA
6807356 CATAAGGGTATTTTCATAATTTTACCC
1 CATAAGGGTATTTTCATAATTTTACCC
6807383 CATAAGGGTATTTTCATAATTTTACC
1 CATAAGGGTATTTTCATAATTTTACC
6807409 TAACCGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (27 bp):
CATAAGGGTATTTTCATAATTTTACCC
Found at i:6808025 original size:13 final size:13
Alignment explanation
Indices: 6808009--6808038 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6807999 TAACGAGTCA
6808009 GGTTAGGTTAACG
1 GGTTAGGTTAACG
*
6808022 GGTTAGGTTGACG
1 GGTTAGGTTAACG
6808035 GGTT
1 GGTT
6808039 CAGACCCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.43, T:0.33
Consensus pattern (13 bp):
GGTTAGGTTAACG
Found at i:6813682 original size:14 final size:14
Alignment explanation
Indices: 6813663--6813694 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6813653 AACATATATT
6813663 TTGATCATGCCGAA
1 TTGATCATGCCGAA
*
6813677 TTGATCATGCCTAA
1 TTGATCATGCCGAA
6813691 TTGA
1 TTGA
6813695 ATTTGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (14 bp):
TTGATCATGCCGAA
Found at i:6817068 original size:36 final size:33
Alignment explanation
Indices: 6816994--6817078 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 33
6816984 GCAAGTTTAG
6816994 GATGAATATGAAACATAAATAAATATGCATGGTT
1 GATGAA-ATGAAACATAAATAAATATGCATGGTT
* *
6817028 --TGAAATGAAACATAATTATATATGCATGGCTT
1 GATGAAATGAAACATAAATAAATATGCATGG-TT
6817060 AAGATGAAATGAAACATAA
1 --GATGAAATGAAACATAA
6817079 GTAATTTGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 23 0.52
32 6 0.14
36 15 0.34
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.28
Consensus pattern (33 bp):
GATGAAATGAAACATAAATAAATATGCATGGTT
Found at i:6820728 original size:45 final size:45
Alignment explanation
Indices: 6820659--6820766 Score: 189
Period size: 45 Copynumber: 2.4 Consensus size: 45
6820649 CTTTTTGAAC
*
6820659 ATTTATCTTATTGTTTAATTACGTGGATTAGAACTAAATAAGTCA
1 ATTTATCTTATTGTTTAAGTACGTGGATTAGAACTAAATAAGTCA
*
6820704 ATTTCTCTTATTGTTTAAGTACGTGGATTAGAACTAAATAAGTCA
1 ATTTATCTTATTGTTTAAGTACGTGGATTAGAACTAAATAAGTCA
*
6820749 ATTTATCTTATTCTTTAA
1 ATTTATCTTATTGTTTAA
6820767 CTAGGATAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (45 bp):
ATTTATCTTATTGTTTAAGTACGTGGATTAGAACTAAATAAGTCA
Found at i:6828388 original size:90 final size:90
Alignment explanation
Indices: 6828273--6828450 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
6828263 TAATCTCGAA
* * * * *
6828273 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
6828338 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
6828363 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
6828428 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
6828451 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:6835236 original size:90 final size:90
Alignment explanation
Indices: 6835115--6835292 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
6835105 TAATCCCGAA
* * * ** *
6835115 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGGTATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
6835180 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
6835205 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
6835270 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
6835293 GTGTGTTATG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:6835746 original size:29 final size:29
Alignment explanation
Indices: 6835713--6835772 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6835703 CATGATTTTT
6835713 TTATGAAAATACAGTATTTATCACTATTG
1 TTATGAAAATACAGTATTTATCACTATTG
6835742 TTATGAAAATACAGTATTTATCACTATTG
1 TTATGAAAATACAGTATTTATCACTATTG
6835771 TT
1 TT
6835773 CCTTTCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (29 bp):
TTATGAAAATACAGTATTTATCACTATTG
Found at i:6837799 original size:18 final size:18
Alignment explanation
Indices: 6837746--6837791 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
6837736 AATGCATGTG
6837746 GTTTGATATTAGTAATCA
1 GTTTGATATTAGTAATCA
*
6837764 GTTTGATATTACTAATCA
1 GTTTGATATTAGTAATCA
6837782 GTTTGATATT
1 GTTTGATATT
6837792 TGTTATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (18 bp):
GTTTGATATTAGTAATCA
Found at i:6849882 original size:16 final size:16
Alignment explanation
Indices: 6849861--6849893 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6849851 GAAATAAAAC
6849861 AGATTTTCAGACTCGT
1 AGATTTTCAGACTCGT
6849877 AGATTTTCAGACTCGT
1 AGATTTTCAGACTCGT
6849893 A
1 A
6849894 TATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (16 bp):
AGATTTTCAGACTCGT
Found at i:6864355 original size:23 final size:23
Alignment explanation
Indices: 6864325--6864378 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
6864315 TTGGCTCGTC
6864325 GATCGGAGGTCGGACGGTGAGTA
1 GATCGGAGGTCGGACGGTGAGTA
6864348 GATCGGAGGTCGGACGGTGAGTA
1 GATCGGAGGTCGGACGGTGAGTA
6864371 GATCGGAG
1 GATCGGAG
6864379 TTGAAAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.22, C:0.13, G:0.48, T:0.17
Consensus pattern (23 bp):
GATCGGAGGTCGGACGGTGAGTA
Found at i:6868097 original size:30 final size:31
Alignment explanation
Indices: 6868063--6868126 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
6868053 ATGTGGATCC
*
6868063 AAATTTAATTAAAATTTCACTTAAGTCC-CA
1 AAATTTAATTAAAATTTCAATTAAGTCCTCA
* *
6868093 AAATTTAGTTAAAATTTCAATTTAGTCCTCA
1 AAATTTAATTAAAATTTCAATTAAGTCCTCA
6868124 AAA
1 AAA
6868127 AAAAAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (31 bp):
AAATTTAATTAAAATTTCAATTAAGTCCTCA
Found at i:6868509 original size:26 final size:25
Alignment explanation
Indices: 6868462--6868522 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
6868452 AGCTAGTCAT
* *
6868462 TTAGGTTTCAATCAGATTATGTTAG-G
1 TTAGG-TTAAATCAGATCATG-TAGTG
*
6868488 TTAGGTTAAATCAGATACATGTCGTG
1 TTAGGTTAAATCAGAT-CATGTAGTG
6868514 TTAGGTTAA
1 TTAGGTTAA
6868523 TTTAATGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (25 bp):
TTAGGTTAAATCAGATCATGTAGTG
Found at i:6868779 original size:12 final size:13
Alignment explanation
Indices: 6868751--6868783 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
6868741 TAAATTGAAC
6868751 AAATAAGAAATTAT
1 AAATAA-AAATTAT
6868765 AAATAAAAA-TAT
1 AAATAAAAATTAT
6868777 AAATAAA
1 AAATAAA
6868784 TTAAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAATAAAAATTAT
Found at i:6869236 original size:2 final size:2
Alignment explanation
Indices: 6869220--6869327 Score: 83
Period size: 2 Copynumber: 57.0 Consensus size: 2
6869210 ATGCTATACT
6869220 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6869260 TA T- TA TA -A GTG TA -A TG TA -A TG TA T- TA TA TGA TA TA CT-
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA
6869297 TA TA TA -A GTA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
6869328 AGTATACATT
Statistics
Matches: 86, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
1 10 0.12
2 72 0.84
3 4 0.05
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6869388 original size:24 final size:24
Alignment explanation
Indices: 6869337--6869388 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6869327 AAGTATACAT
*
6869337 TATACTTATAATACATACATTAAT
1 TATACTTATAATACATACATTAAG
* *
6869361 TATACTTATAA-ATATATATATAAG
1 TATACTTATAATACATACAT-TAAG
6869385 TATA
1 TATA
6869389 TAATATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (24 bp):
TATACTTATAATACATACATTAAG
Found at i:6870650 original size:19 final size:20
Alignment explanation
Indices: 6870620--6870668 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6870610 TGGTTTCCAT
*
6870620 TTTTTATCTTTA-TCTTTTTG
1 TTTTTAT-TTTATTCTATTTG
6870640 TTTTTATTTTATTCTATTTG
1 TTTTTATTTTATTCTATTTG
6870660 -TTTTATTTT
1 TTTTTATTTT
6870669 TTGTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTATTCTATTTG
Found at i:6870689 original size:26 final size:26
Alignment explanation
Indices: 6870640--6870692 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6870630 TATCTTTTTG
*
6870640 TTTTTATTTTATTCTATTTGTTTTAT
1 TTTTTATTTTATTCTATTTATTTTAT
*
6870666 TTTTTGTTTTATTCT-TTCTATTTTAT
1 TTTTTATTTTATTCTATT-TATTTTAT
6870692 T
1 T
6870693 AATGCAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTTATTTTATTCTATTTATTTTAT
Found at i:6870768 original size:7 final size:7
Alignment explanation
Indices: 6870746--6870798 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
6870736 TCTTTCTATT
6870746 TTTGTTTA
1 TTTG-TTA
*
6870754 TATGTTA
1 TTTGTTA
*
6870761 TTTTTTA
1 TTTGTTA
6870768 TTTGTTA
1 TTTGTTA
6870775 TTTGTTA
1 TTTGTTA
6870782 TTCT-TTA
1 TT-TGTTA
*
6870789 TTTATTA
1 TTTGTTA
6870796 TTT
1 TTT
6870799 ATATGTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 1 0.03
7 34 0.87
8 4 0.10
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74
Consensus pattern (7 bp):
TTTGTTA
Found at i:6870780 original size:21 final size:21
Alignment explanation
Indices: 6870726--6870798 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 21
6870716 CTCTTTTATA
6870726 TATTTGTTATTCTTTCTATTTTTGTT
1 TATTTGTTATT-TTT-TA--TTTG-T
*
6870752 TATATGTTATTTTTTATTTGT
1 TATTTGTTATTTTTTATTTGT
* *
6870773 TATTTGTTATTCTTTATTTAT
1 TATTTGTTATTTTTTATTTGT
6870794 TATTT
1 TATTT
6870799 ATATGTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
21 24 0.56
22 4 0.09
24 2 0.05
25 3 0.07
26 10 0.23
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (21 bp):
TATTTGTTATTTTTTATTTGT
Found at i:6870799 original size:7 final size:7
Alignment explanation
Indices: 6870758--6870812 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
6870748 TGTTTATATG
*
6870758 TTATTTT
1 TTATTTA
*
6870765 TTATTTG
1 TTATTTA
*
6870772 TTATTTG
1 TTATTTA
6870779 TTATTCT-
1 TTATT-TA
6870786 TTATTTA
1 TTATTTA
6870793 TTATTTA
1 TTATTTA
6870800 -TATGTTA
1 TTAT-TTA
6870807 TTATTT
1 TTATTT
6870813 TTTCTATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 4 0.09
7 35 0.81
8 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:6870810 original size:21 final size:20
Alignment explanation
Indices: 6870750--6870812 Score: 54
Period size: 25 Copynumber: 2.9 Consensus size: 20
6870740 TCTATTTTTG
*
6870750 TTTATATGTTATTTTTTATT
1 TTTATATGTTATTATTTATT
*
6870770 TGTTATTTGTTATTCTTTATTTATT
1 T-TTATATGTTA----TTATTTATT
6870795 ATTTATATGTTATTATTT
1 -TTTATATGTTATTATTT
6870813 TTTCTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
20 1 0.03
21 15 0.44
25 17 0.50
26 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (20 bp):
TTTATATGTTATTATTTATT
Found at i:6870999 original size:11 final size:9
Alignment explanation
Indices: 6870970--6871003 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6870960 CTCTTATAAA
6870970 TTTTTATAT
1 TTTTTATAT
6870979 TTTTTATAT
1 TTTTTATAT
*
6870988 TTTTAATAT
1 TTTTTATAT
*
6870997 ATTTTAT
1 TTTTTAT
6871004 TTTCTAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:6873925 original size:45 final size:45
Alignment explanation
Indices: 6873874--6874011 Score: 206
Period size: 45 Copynumber: 3.1 Consensus size: 45
6873864 GAATTAGCAC
* *
6873874 AAAAGGTGCCACTAATGAAAATGCCCAACGGTGCATTATCGGCAT
1 AAAAGGTGCCACTAATGAAAATGCACAATGGTGCATTATCGGCAT
* * *
6873919 AAAAGGTGCCACTAATGAAAATGCATAATTGCT-CATTATCGACAT
1 AAAAGGTGCCACTAATGAAAATGCACAA-TGGTGCATTATCGGCAT
*
6873964 AAAAGGTGCCGCTAATGAAAATGCACAATGGTGCATTATCGGCAT
1 AAAAGGTGCCACTAATGAAAATGCACAATGGTGCATTATCGGCAT
6874009 AAA
1 AAA
6874012 CGGGAACGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
44 3 0.04
45 77 0.94
46 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
AAAAGGTGCCACTAATGAAAATGCACAATGGTGCATTATCGGCAT
Found at i:6879314 original size:45 final size:45
Alignment explanation
Indices: 6879265--6879599 Score: 496
Period size: 45 Copynumber: 7.5 Consensus size: 45
6879255 AAATATATGA
* * *
6879265 ATCGGCATAAAAGGTGCCACTAATTAAAATGCATAACAGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* * *
6879310 ATCGGCATAAAAGATACCACTAATGAAAATGCATAACGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
*
6879355 ATCGACATAAAAGGTTCCACTAATGAAAATGCATAACGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
*
6879400 ATCGACATAAAAGGTG-CACTAATGAAAATGCATAGCGGTGCATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
** * *
6879444 ATCGACATAAAAGACGCCACTAATGAAAATGCATAATGGTGTATT
1 ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
* *
6879489 ATC-AGCATAAAAGGTGCCACTAATGAAAATTCATAACAGTGCATT
1 ATCGA-CATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
*
6879534 ATC-AGCATAAAAGGTGCCATTAATGAAAATGCATAACGGTGCATT
1 ATCGA-CATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
6879579 ATCGACATAAAAGGTGCCACT
1 ATCGACATAAAAGGTGCCACT
6879600 CAAGCTATTC
Statistics
Matches: 263, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
44 42 0.16
45 220 0.84
46 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (45 bp):
ATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGTGCATT
Found at i:6879570 original size:179 final size:179
Alignment explanation
Indices: 6879265--6879595 Score: 520
Period size: 179 Copynumber: 1.8 Consensus size: 179
6879255 AAATATATGA
* ** * *
6879265 ATCGGCATAAAAGGTGCCACTAATTAAAATGCATAACAGTGCATTATCGGCATAAAAGATACCAC
1 ATCGACATAAAAGACGCCACTAATGAAAATGCATAACAGTGCATTATCAGCATAAAAGATACCAC
* *
6879330 TAATGAAAATGCATAACGGTGCATTATCGACATAAAAGGTTCCACTAATGAAAATGCATAACGGT
66 TAATGAAAATGCATAACAGTGCATTATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGT
6879395 GCATTATCGACATAAAAGGTGCACTAATGAAAATGCATAGCGGTGCATT
131 GCATTATCGACATAAAAGGTGCACTAATGAAAATGCATAGCGGTGCATT
** * * *
6879444 ATCGACATAAAAGACGCCACTAATGAAAATGCATAATGGTGTATTATCAGCATAAAAGGTGCCAC
1 ATCGACATAAAAGACGCCACTAATGAAAATGCATAACAGTGCATTATCAGCATAAAAGATACCAC
* *
6879509 TAATGAAAATTCATAACAGTGCATTATC-AGCATAAAAGGTGCCATTAATGAAAATGCATAACGG
66 TAATGAAAATGCATAACAGTGCATTATCGA-CATAAAAGGTGCCACTAATGAAAATGCATAACGG
6879573 TGCATTATCGACATAAAAGGTGC
130 TGCATTATCGACATAAAAGGTGC
6879596 CACTCAAGCT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 1 0.01
179 136 0.99
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (179 bp):
ATCGACATAAAAGACGCCACTAATGAAAATGCATAACAGTGCATTATCAGCATAAAAGATACCAC
TAATGAAAATGCATAACAGTGCATTATCGACATAAAAGGTGCCACTAATGAAAATGCATAACGGT
GCATTATCGACATAAAAGGTGCACTAATGAAAATGCATAGCGGTGCATT
Found at i:6880494 original size:29 final size:30
Alignment explanation
Indices: 6880433--6880494 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
6880423 AATTATTTTA
** *
6880433 TTTTCATAATTGTAATCATTTTTATTTAAC
1 TTTTCATAATTGTAATCAAATTTAGTTAAC
6880463 TTTTCATAATT-TAATACAAATTTAGTT-AC
1 TTTTCATAATTGTAAT-CAAATTTAGTTAAC
6880492 TTT
1 TTT
6880495 AAGGACTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTTCATAATTGTAATCAAATTTAGTTAAC
Found at i:6899917 original size:44 final size:44
Alignment explanation
Indices: 6899861--6899964 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
6899851 TTTTGTGCAC
* * *
6899861 TATGCATCGATACATTATGAAAGTGTACCGATGCA-TCTTTTGAA
1 TATGCATCGATACACTAAGAAAGTGCACCGATGCATTC-TTTGAA
*
6899905 TATGCATCGATACACTAAGAAGGTGCACCGATGCATTCTTTGAA
1 TATGCATCGATACACTAAGAAAGTGCACCGATGCATTCTTTGAA
* *
6899949 TGTACATCGATACACT
1 TATGCATCGATACACT
6899965 CTACTGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 51 0.96
45 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
TATGCATCGATACACTAAGAAAGTGCACCGATGCATTCTTTGAA
Found at i:6900483 original size:13 final size:14
Alignment explanation
Indices: 6900454--6900486 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6900444 ATATTGTTAC
*
6900454 TCAAAATATATTTT
1 TCAAAATATAATTT
6900468 TCAAAA-ATAATTT
1 TCAAAATATAATTT
6900481 TCAAAA
1 TCAAAA
6900487 CTTTCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (14 bp):
TCAAAATATAATTT
Found at i:6902764 original size:65 final size:65
Alignment explanation
Indices: 6902631--6902791 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
6902621 GATTTAATTG
* *
6902631 AACATCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCGATGCACTACATGTTTTATTAA
1 AACATCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCGATACACTACATGTCTTATTAA
** * *
6902696 AACATCGAATGCATTTTGTGTACCGCTGCACAAACCATGCATCGATACACT-CCTGGCTCTT-TT
1 AACATCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCGATACACTACAT-G-TCTTATT
*
6902759 GA
64 AA
* *
6902761 AACATCGAATGTAATT-AGTGTACCAATGCAC
1 AACATCGAATG-CATTAAGTGTACCGATGCAC
6902792 CCGAAATGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.02
65 74 0.90
66 6 0.07
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCGATACACTACATGTCTTATTAA
Found at i:6904361 original size:17 final size:18
Alignment explanation
Indices: 6904325--6904366 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
6904315 TATATATATG
6904325 TTATTATATATAATAATA
1 TTATTATATATAATAATA
6904343 TTATTATAT-T-ATAAATA
1 TTATTATATATAAT-AATA
6904360 TTATTAT
1 TTATTAT
6904367 TTGTAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTATATATAATAATA
Found at i:6911977 original size:22 final size:22
Alignment explanation
Indices: 6911946--6912020 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
6911936 CTACATGTTG
6911946 CAAAGATGATAGATTCTCTTTT
1 CAAAGATGATAGATTCTCTTTT
*
6911968 CAAAGGTGATAGATTCTCTTTT
1 CAAAGATGATAGATTCTCTTTT
*
6911990 CAAATATGATAGATTCTCTTTT
1 CAAAGATGATAGATTCTCTTTT
6912012 CAAAGATGA
1 CAAAGATGA
6912021 AAGCTTTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (22 bp):
CAAAGATGATAGATTCTCTTTT
Found at i:6912794 original size:44 final size:47
Alignment explanation
Indices: 6912722--6912857 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 47
6912712 AACGGATTTT
* * *
6912722 TCAGCAAAGTATCAAACTCCACTGAAGAGTAGTGGAAGCAAATTCAA
1 TCAGTAAAGTACCAAACTCCACAGAAGAGTAGTGGAAGCAAATTCAA
* * * **
6912769 TCA-TAAA-T-CCGAACTCCACAAAAGAGTAGTGGAA-CGAATT-TT
1 TCAGTAAAGTACCAAACTCCACAGAAGAGTAGTGGAAGCAAATTCAA
* *
6912811 TCAGTAAAGTATCAAACTCCACGGAAGAGTAGTGGAAGCAAATTCAA
1 TCAGTAAAGTACCAAACTCCACAGAAGAGTAGTGGAAGCAAATTCAA
6912858 CTTTGAATCT
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.04
43 9 0.13
44 23 0.33
45 23 0.33
46 8 0.12
47 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (47 bp):
TCAGTAAAGTACCAAACTCCACAGAAGAGTAGTGGAAGCAAATTCAA
Found at i:6912804 original size:89 final size:89
Alignment explanation
Indices: 6912596--6912857 Score: 334
Period size: 89 Copynumber: 3.0 Consensus size: 89
6912586 AACAAGACCA
* * * * *
6912596 AAATCCAAAATCCACATAAGAGTAGTGGAACGTATTTTTCAGCAAAGTATGAGAACTTCACGGAA
1 AAATCCGAAATCCACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCA-AACTCCACGGAA
* *
6912661 GAGTAGTGG-AG-TAATCCAAGTTG
65 GAGTAGTGGAAGCAAATTCAAGTTG
* * * * * *
6912684 GAATCTGAATTCCAAAAAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATCAAACTCCACTGAAG
1 AAATCCGAAATCCACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAG
6912749 AGTAGTGGAAGCAAATTCAA-TCAT-
66 AGTAGTGGAAGCAAATTCAAGT--TG
* *
6912773 AAATCCGAACTCCACAAAAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACGGAAG
1 AAATCCGAAATCCACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAG
6912838 AGTAGTGGAAGCAAATTCAA
66 AGTAGTGGAAGCAAATTCAA
6912858 CTTTGAATCT
Statistics
Matches: 151, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
87 19 0.13
88 47 0.31
89 84 0.56
90 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (89 bp):
AAATCCGAAATCCACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAG
AGTAGTGGAAGCAAATTCAAGTTG
Found at i:6912839 original size:45 final size:45
Alignment explanation
Indices: 6912701--6912847 Score: 165
Period size: 45 Copynumber: 3.3 Consensus size: 45
6912691 AATTCCAAAA
* * *
6912701 AAGAGTAGTGGAACGGATTTTTCAGCAAAGTATCAAACTCCACTG
1 AAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACAG
* ** * * *
6912746 AAGAGTAGTGGAAGCAAATTCAATCA-TAAA-T-CCGAACTCCACAA
1 AAGAGTAGTGGAA-CGAATT-TTTCAGTAAAGTATCAAACTCCACAG
*
6912790 AAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACGG
1 AAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACAG
6912835 AAGAGTAGTGGAA
1 AAGAGTAGTGGAA
6912848 GCAAATTCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.04
43 9 0.11
44 23 0.28
45 36 0.44
46 7 0.09
47 3 0.04
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (45 bp):
AAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACAG
Found at i:6912883 original size:89 final size:87
Alignment explanation
Indices: 6912608--6912888 Score: 332
Period size: 89 Copynumber: 3.2 Consensus size: 87
6912598 ATCCAAAATC
* * * *
6912608 CACATAAGAGTAGTGGAACGTATTTTTCAGCAAAGTATGAGAACTTCACGGAAGAGTAGTGG-AG
1 CACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCA-AACTCCACGGAAGAGTAGTGGAAG
* * *
6912672 -TAATCCAAGTTGGAATCTGAATT
65 CAAATTCAA-TTTGAATCTGAATT
* * *
6912695 CCAAAAAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATCAAACTCCACTGAAGAGTAGTGGAAG
1 -CACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAGTGGAAG
* * * *
6912760 CAAATTCAATCATAAATCCGAACTC
65 CAAATTCAAT-TTGAATCTGAA-TT
*
6912785 CACAAAAGAGTAGTGGAACGAATTTTTCAGTAAAGTATCAAACTCCACGGAAGAGTAGTGGAAGC
1 CACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAGTGGAAGC
6912850 AAATTCAACTTTGAATCTGATATT
66 AAATTCAA-TTTGAATCTGA-ATT
**
6912874 CACTGAAGAGTAGTG
1 CACAAAAGAGTAGTG
6912889 AAATTAGATT
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
87 19 0.12
88 39 0.24
89 103 0.63
90 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (87 bp):
CACAAAAGAGTAGTGGAACGAATTTTTCAGCAAAGTATCAAACTCCACGGAAGAGTAGTGGAAGC
AAATTCAATTTGAATCTGAATT
Found at i:6914759 original size:20 final size:21
Alignment explanation
Indices: 6914718--6914760 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6914708 AGTTAATTCA
*
6914718 TATAGTGTTAATATTAAATAT
1 TATAGTGTGAATATTAAATAT
*
6914739 TATAGTGTGATTATT-AATAT
1 TATAGTGTGAATATTAAATAT
6914759 TA
1 TA
6914761 ATATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
TATAGTGTGAATATTAAATAT
Found at i:6914778 original size:27 final size:27
Alignment explanation
Indices: 6914725--6914795 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
6914715 TCATATAGTG
* *
6914725 TTAATATTAAATATTATAGTGTGATTA
1 TTAATATTAAATATTAAAGTGTAATTA
*
6914752 TTAATATT-AATATTAAATTAGTAATTA
1 TTAATATTAAATATTAAAGT-GTAATTA
* *
6914779 TTTATATTGAATTATTA
1 TTAATATT-AAATATTA
6914796 GTAAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.25
27 21 0.58
29 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
TTAATATTAAATATTAAAGTGTAATTA
Found at i:6914785 original size:21 final size:20
Alignment explanation
Indices: 6914748--6914809 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
6914738 TTATAGTGTG
*
6914748 ATTATTAATATTAATATTAA
1 ATTAGTAATATTAATATTAA
*
6914768 ATTAGTAATTATTTATATTGAA
1 ATTAGTAA-TATTAATATT-AA
6914790 TTATTAGTAA-ATTAA-ATTAA
1 --ATTAGTAATATTAATATTAA
6914810 TTACAAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 9 0.26
21 12 0.34
22 6 0.17
24 8 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTAGTAATATTAATATTAA
Found at i:6918810 original size:17 final size:17
Alignment explanation
Indices: 6918788--6918832 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
6918778 ACTTACCTGG
6918788 CCCGTTGACTGACTCGA
1 CCCGTTGACTGACTCGA
*
6918805 CCCGTTGACCGACTCGA
1 CCCGTTGACTGACTCGA
*
6918822 CCAGTTGACTG
1 CCCGTTGACTG
6918833 TTAACCGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.22
Consensus pattern (17 bp):
CCCGTTGACTGACTCGA
Found at i:6919501 original size:30 final size:30
Alignment explanation
Indices: 6919449--6919547 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 30
6919439 CTCTGTTCAT
* * * *
6919449 CGTCCTAATTTTACATGAGACTCCATTCCC
1 CGTCCTGATTATATATGGGACTCCATTCCC
* *
6919479 CGTCCTGATTATATATGGGACTCCGTTCTC
1 CGTCCTGATTATATATGGGACTCCATTCCC
* * * *
6919509 TGTCTTGATTCTATA-GGGAGCTCCTTTCCC
1 CGTCCTGATTATATATGGGA-CTCCATTCCC
6919539 CGTCCTGAT
1 CGTCCTGAT
6919548 CCTGCATGGG
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
29 4 0.07
30 51 0.93
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (30 bp):
CGTCCTGATTATATATGGGACTCCATTCCC
Found at i:6921012 original size:11 final size:11
Alignment explanation
Indices: 6920996--6921030 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6920986 TTGAAAGATT
6920996 ATATTAGGATC
1 ATATTAGGATC
6921007 ATATTAGGATC
1 ATATTAGGATC
* *
6921018 ATTTTAGCATC
1 ATATTAGGATC
6921029 AT
1 AT
6921031 TAGGTCGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (11 bp):
ATATTAGGATC
Found at i:6922317 original size:21 final size:21
Alignment explanation
Indices: 6922293--6922336 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6922283 ACCTACAAGG
*
6922293 TTAAACACAATTCAAAACAAC
1 TTAAAAACAATTCAAAACAAC
*
6922314 TTAAAAACAATTCAAAAGAAC
1 TTAAAAACAATTCAAAACAAC
6922335 TT
1 TT
6922337 TTTTCTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.23
Consensus pattern (21 bp):
TTAAAAACAATTCAAAACAAC
Found at i:6924889 original size:17 final size:18
Alignment explanation
Indices: 6924867--6924908 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6924857 CTTTAGATTA
*
6924867 TTTATTTAATT-TTTTCT
1 TTTATTTAATTCTTATCT
6924884 TTTATTTAATTCTTATCT
1 TTTATTTAATTCTTATCT
6924902 TTTATTT
1 TTTATTT
6924909 TAAAACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTCTTATCT
Found at i:6924973 original size:20 final size:20
Alignment explanation
Indices: 6924950--6924999 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
6924940 TTTATTACTA
*
6924950 TTATTTTATTATT-TCCCCTT
1 TTATTTTATTATTAT-CCATT
*
6924970 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCCATT
6924989 TTATTTTATTA
1 TTATTTTATTA
6925000 AATCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTTATTATTATCCATT
Found at i:6928453 original size:171 final size:172
Alignment explanation
Indices: 6928168--6928512 Score: 683
Period size: 171 Copynumber: 2.0 Consensus size: 172
6928158 ATCTTTCGGG
6928168 ATTCTTATCTATTTTGTAAAACTTGTGAAAGATGTCAACATACAGGTAATTTAAGCCGTAGGATT
1 ATTCTTATCTATTTTGTAAAACTTGTGAAAGATGTCAACATACAGGTAATTTAAGCCGTAGGATT
6928233 GAAATGCCGCTTAATTCTATACAAGTTTGTGAAATTTTTTATGTTTGGAGAATCGATTATATGGG
66 GAAATGCCGCTTAATTCTATACAAGTTTGTGAAATTTTTTATGTTTGGAGAATCGATTATATGGG
6928298 TCTTTTACTTCATCATTTGGAAATACTTATA-TATTTTAGCT
131 TCTTTTACTTCATCATTTGGAAATACTTATATTATTTTAGCT
6928339 ATTCTTATCTATTTTGTAAAACTTGTGAAAGATGTCAACATACAGGTAATTTAAGCCGTAGGATT
1 ATTCTTATCTATTTTGTAAAACTTGTGAAAGATGTCAACATACAGGTAATTTAAGCCGTAGGATT
6928404 GAAATGCCGCTTAATTCTATACAAGTTTGTGAAATTTTTTATGTTTGGAGAATCGATTATATGGG
66 GAAATGCCGCTTAATTCTATACAAGTTTGTGAAATTTTTTATGTTTGGAGAATCGATTATATGGG
6928469 TCTTTTACTTCATCATTTGGAAATACTTATATTATTTTAGCT
131 TCTTTTACTTCATCATTTGGAAATACTTATATTATTTTAGCT
6928511 AT
1 AT
6928513 AGATTATGTT
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 161 0.93
172 12 0.07
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (172 bp):
ATTCTTATCTATTTTGTAAAACTTGTGAAAGATGTCAACATACAGGTAATTTAAGCCGTAGGATT
GAAATGCCGCTTAATTCTATACAAGTTTGTGAAATTTTTTATGTTTGGAGAATCGATTATATGGG
TCTTTTACTTCATCATTTGGAAATACTTATATTATTTTAGCT
Found at i:6929467 original size:5 final size:5
Alignment explanation
Indices: 6929454--6929496 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
6929444 GCAAACTTTA
* *
6929454 ATTTC ATTTT A-TTT ATTTT ATTTT AATTT A-TTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
6929497 TCTCTGAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:6929476 original size:14 final size:14
Alignment explanation
Indices: 6929454--6929495 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
6929444 GCAAACTTTA
*
6929454 ATTTCATTTTATTT
1 ATTTTATTTTATTT
6929468 ATTTTATTTTAATTT
1 ATTTTATTTT-ATTT
6929483 A-TTTATTTTATTT
1 ATTTTATTTTATTT
6929496 TTCTCTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 17 0.65
15 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:6931442 original size:76 final size:76
Alignment explanation
Indices: 6931347--6931497 Score: 241
Period size: 76 Copynumber: 2.0 Consensus size: 76
6931337 TAAAGATTAT
* * *
6931347 ATTTTATTTTTGTTTTAGGTATTTTAGATTAAATAGGTTTTAGTATTTTAATTAAGTTTTATGAA
1 ATTTTATCTTTGTTTTAGGTATTTTAGATTAAATAGGTTTTAATATTTTAATTAAGATTTA-GAA
6931412 -ATTATTTTTAC
65 TATTATTTTTAC
* *
6931423 ATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAATATTTTAATTAGGATTTAGAAT
1 ATTTTATCTTTGTTTTAGGTATTTTAGATTAAATAGGTTTTAATATTTTAATTAAGATTTAGAAT
6931488 ATTATTTTTA
66 ATTATTTTTA
6931498 GGTATTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 3 0.04
76 66 0.96
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (76 bp):
ATTTTATCTTTGTTTTAGGTATTTTAGATTAAATAGGTTTTAATATTTTAATTAAGATTTAGAAT
ATTATTTTTAC
Found at i:6932359 original size:22 final size:22
Alignment explanation
Indices: 6932317--6932359 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6932307 TGAATTATAT
* *
6932317 ATTTTCCTAAAATCAAGAAACA
1 ATTTTACTAAAATCAAAAAACA
6932339 ATTTTACT-AAATCACAAAAAC
1 ATTTTACTAAAATCA-AAAAAC
6932360 CATAGTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (22 bp):
ATTTTACTAAAATCAAAAAACA
Found at i:6933336 original size:74 final size:73
Alignment explanation
Indices: 6933137--6933343 Score: 283
Period size: 75 Copynumber: 2.8 Consensus size: 73
6933127 GATTATATTT
* * * *
6933137 TATT-TTATTTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATAT
1 TATTATTATTTTTTAGGTATTTTAGTTTAAAT-TGTTTTAGTATTTTAATTAGGATTTAGAATAT
*
6933201 TATTTTATA
65 TATTTTAAA
* *
6933210 TTTTATCT-TTGTTTTAGGTATTTTTGTTTAAATATGTTTTAGTATTTTAATTAGGATTTAGAAT
1 TATTAT-TATT-TTTTAGGTATTTTAGTTTAAAT-TGTTTTAGTATTTTAATTAGGATTTAGAAT
6933274 ATTATTTTAAA
63 ATTATTTTAAA
*
6933285 TATTATTATTTTTTAGGTATTTTAGTTTAAATTGCTTTAAGTATTTTAATTAGGATTTA
1 TATTATTATTTTTTAGGTATTTTAGTTTAAATTG-TTTTAGTATTTTAATTAGGATTTA
6933344 AGATGTTTTA
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
73 5 0.04
74 48 0.40
75 66 0.55
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (73 bp):
TATTATTATTTTTTAGGTATTTTAGTTTAAATTGTTTTAGTATTTTAATTAGGATTTAGAATATT
ATTTTAAA
Found at i:6933979 original size:16 final size:18
Alignment explanation
Indices: 6933958--6933998 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
6933948 CTTTAGATTA
*
6933958 TTTATTTATTTCTT-T-T
1 TTTATTTAATTCTTATCT
6933974 TTTATTTAATTCTTATCT
1 TTTATTTAATTCTTATCT
6933992 TTTATTT
1 TTTATTT
6933999 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 1 0.05
18 8 0.36
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTAATTCTTATCT
Found at i:6935217 original size:42 final size:40
Alignment explanation
Indices: 6935149--6935226 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
6935139 TCCTTTAGGC
*
6935149 CATTAGTAAGTCTTTCGAACATGATGATTAAATACTTCGGGT
1 CATTAGTAAGTCATTCGAACATGATGA-TAAAT-CTTCGGGT
* *
6935191 CATTTGTAAGTCATTCGAGCGA-GATGATAAATCTTC
1 CATTAGTAAGTCATTCGAAC-ATGATGATAAATCTTC
6935227 TGGACCATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.12
41 5 0.16
42 22 0.69
43 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (40 bp):
CATTAGTAAGTCATTCGAACATGATGATAAATCTTCGGGT
Found at i:6935377 original size:250 final size:249
Alignment explanation
Indices: 6934898--6935454 Score: 679
Period size: 250 Copynumber: 2.2 Consensus size: 249
6934888 CCTTCGGGTA
* *
6934898 ATCAGTAAGTCTTTCGAGCCTGATGATTAAATCCTATAGGTCATTTGTAAGTCTTCCAAGCAAGA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCT-TGGGTCATTTGTAAGTCTTCCAAGCAAGA
* * *
6934963 TGATAAGTCATATGGGCCATCTATAAGACCTCCAAGCTAGATGTTTTTATATGATATTTGGGAAA
65 TGATAAATCATATGGACCATCTATAAG--CTCCAAGCAAGATGTTTTTATATGATATTTGGGAAA
* ** * * *
6935028 ATGAGAAAGCGGTTTTCAAAGTTTCTCATTCTCAGAAAATGAAATTTTTTAAATGTAAGAAAGCG
128 ATGAGAAAACAATTTTCAAAGTTTCTCATTCTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCG
6935093 ATTTCCAAAGTTTCTTACCTAGTAGACTATTTCCAAAACCAATAAGTCCTTT-AGGCC
193 ATTTCCAAAGTTTCTTACCTAGTAGACTATTTCCAAAACCAATAAGT-CTTTCAGGCC
* * * * *
6935150 ATTAGTAAGTCTTTCGAACATGATGATTAAATACTTCGGGTCATTTGTAAGTCATT-CGAGCGAG
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT-GGGTCATTTGTAAGTC-TTCCAAGCAAG
* * **** *
6935214 ATGATAAATCTTCTGGACCATCTATAAG-TTTGGGCAAGATGTTTTTATATGATATTTGTGAGAA
64 ATGATAAATCATATGGACCATCTATAAGCTCCAAGCAAGATGTTTTTATATGATATTTGGGA-AA
* * *
6935278 ATGATAAAACAATTTTCAAAGTTTCTCATTTTCAAAAAATTAAATTTTTGAAAAGTAAGAAAGCG
128 ATGAGAAAACAATTTTCAAAGTTTCTCATTCTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCG
* * *** * *
6935343 ATTTTCAAAGTTTCTTACCTATTAGACTATTTCCAAAGTTAGTAAGTCTTTCGGGCC
193 ATTTCCAAAGTTTCTTACCTAGTAGACTATTTCCAAAACCAATAAGTCTTTCAGGCC
* * * * *
6935400 ATCAGTAAATCTTTTGAGCATAATGATCAAATCCTTTGGGTCATCTGTAAGTCTT
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCC-TTGGGTCATTTGTAAGTCTT
6935455 TCAATTAGGG
Statistics
Matches: 259, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
249 33 0.13
250 145 0.56
251 3 0.01
252 76 0.29
253 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (249 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTGGGTCATTTGTAAGTCTTCCAAGCAAGAT
GATAAATCATATGGACCATCTATAAGCTCCAAGCAAGATGTTTTTATATGATATTTGGGAAAATG
AGAAAACAATTTTCAAAGTTTCTCATTCTCAAAAAATGAAATTTTTGAAAAGTAAGAAAGCGATT
TCCAAAGTTTCTTACCTAGTAGACTATTTCCAAAACCAATAAGTCTTTCAGGCC
Found at i:6935607 original size:253 final size:248
Alignment explanation
Indices: 6935001--6935635 Score: 657
Period size: 250 Copynumber: 2.5 Consensus size: 248
6934991 CCTCCAAGCT
** * * *
6935001 AGATGTTTTTATATGATATTTGGGAAAATGAGAAAGCGGTTTTCAAAGTTTCTCATTCTCAGAAA
1 AGATGTTTGCATATGATATTTGTGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTTCAGAAA
* * * * *
6935066 ATGAAATTTTTTAAATGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAGACTATTTCCAAAA
66 ATG-TATTTTTAAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAATAGACTATTTCCAAAG
** * * * * *
6935131 CCAATAAGTCCTTTAGGCCATTAGTAAGTCTTTCGAACATGATGATTAAATACTTCGGGTCATTT
130 TTAATAAGTCCTTTAGGCCATCAGTAAATCTTTCGAACATAATGATCAAATACTTCGGGTCATCT
* * * *
6935196 GTAAGTCATTCGAGCGAGATGATAAATCTTCTGGACCATCTATAAGTTTGGGCA
195 GTAAGTCATTCAAGAGAGATGATAAATCTTCAGGACCATCTATAAGTTCGGGCA
** * * * *
6935250 AGATGTTTTTATATGATATTTGTGAGAAATGATAAAACAATTTTCAAAGTTTCTCATTTTCAAAA
1 AGATGTTTGCATATGATATTTGTGA-AAATGAGAAAGCGATTTTCAAAGTTTCTCATTTTCAGAA
* * *
6935315 AAT-TAAATTTTTGAAAAGTAAGAAAGCGATTTTCAAAGTTTCTTACCTATTAGACTATTTCCAA
65 AATGT--ATTTTTAAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAATAGACTATTTCCAA
* * * * * *
6935379 AGTTAGTAAGT-CTTTCGGGCCATCAGTAAATCTTTTGAGCATAATGATCAAATCCTTTGGGTCA
128 AGTTAATAAGTCCTTT-AGGCCATCAGTAAATCTTTCGAACATAATGATCAAATACTTCGGGTCA
* * * * * * *
6935443 TCTGTAAGTCTTTCAATTAG-GGTGATTAGTCATTCAGG-CCATTTGTAAGACCTTCGGGCA
192 TCTGTAAGTCATTCAA-GAGAGATGATAAATC-TTCAGGACCATCTATAAG---TTCGGGCA
* * * * * *
6935503 TGGTGTTTGCATATGATATTCGTGAAAGATGGGAGAGCGATTTTCAAAGTTTCTCATTTTTAGAA
1 AGATGTTTGCATATGATATTTGTGAAA-ATGAGAAAGCGATTTTCAAAGTTTCTCATTTTCAGAA
* * **
6935568 AATGTATTTTTAAAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAATAGAAAATTTCCAAA
65 AATGTATTTTT-AAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAATAGACTATTTCCAAA
6935633 GTT
129 GTT
6935636 TCTTACTTAA
Statistics
Matches: 318, Mismatches: 56, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
249 28 0.09
250 166 0.52
251 6 0.02
252 8 0.03
253 109 0.34
254 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (248 bp):
AGATGTTTGCATATGATATTTGTGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTTCAGAAA
ATGTATTTTTAAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAATAGACTATTTCCAAAGT
TAATAAGTCCTTTAGGCCATCAGTAAATCTTTCGAACATAATGATCAAATACTTCGGGTCATCTG
TAAGTCATTCAAGAGAGATGATAAATCTTCAGGACCATCTATAAGTTCGGGCA
Found at i:6935631 original size:28 final size:28
Alignment explanation
Indices: 6935596--6935663 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
6935586 TAAGAAAGTG
6935596 ATTTCCAAAGTTTCTTACTTAATAGAAA
1 ATTTCCAAAGTTTCTTACTTAATAGAAA
6935624 ATTTCCAAAGTTTCTTACTTAATAGAAA
1 ATTTCCAAAGTTTCTTACTTAATAGAAA
6935652 ATTTCCAAAGTT
1 ATTTCCAAAGTT
6935664 AGTAAATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (28 bp):
ATTTCCAAAGTTTCTTACTTAATAGAAA
Found at i:6935844 original size:14 final size:14
Alignment explanation
Indices: 6935825--6935851 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6935815 CCTCATTATA
6935825 AAAATGAAAAACAG
1 AAAATGAAAAACAG
6935839 AAAATGAAAAACA
1 AAAATGAAAAACA
6935852 AAGAAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAACAG
Found at i:6941082 original size:24 final size:25
Alignment explanation
Indices: 6941041--6941093 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
6941031 TTTTAATTTA
6941041 TTATGAGAAAAAAAATAATCTCTAAC
1 TTATGAG-AAAAAAATAATCTCTAAC
*
6941067 TTATGAG-AAAAAATAATCTTTAAC
1 TTATGAGAAAAAAATAATCTCTAAC
6941091 TTA
1 TTA
6941094 GAAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 19 0.73
26 7 0.27
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (25 bp):
TTATGAGAAAAAAATAATCTCTAAC
Found at i:6941142 original size:20 final size:20
Alignment explanation
Indices: 6941117--6941168 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6941107 TTTCAGAAAA
*
6941117 TGAACCCGCAT-AGCCTTATG
1 TGAACCCGCATGA-CCATATG
6941137 TGAACCCGCATGACCATATG
1 TGAACCCGCATGACCATATG
*
6941157 TGAACTCGCATG
1 TGAACCCGCATG
6941169 GTCAGTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (20 bp):
TGAACCCGCATGACCATATG
Found at i:6942027 original size:22 final size:22
Alignment explanation
Indices: 6941968--6942028 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
6941958 GATTCGCAAC
6941968 GCGA-TTTT-GACTATCGCATT
1 GCGATTTTTCGACTATCGCATT
* * * *
6941988 GCGATTTTCCAAAT-TCGCGTT
1 GCGATTTTTCGACTATCGCATT
*
6942009 GCTATTTTTCGACTATCGCA
1 GCGATTTTTCGACTATCGCA
6942029 AAGAGAATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (22 bp):
GCGATTTTTCGACTATCGCATT
Found at i:6942059 original size:20 final size:20
Alignment explanation
Indices: 6942042--6942132 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
6942032 AGAATATGTA
6942042 AATCGCAATGCGATTATGAC
1 AATCGCAATGCGATTATGAC
* *
6942062 TATCGCAATGCGATTCTGAC
1 AATCGCAATGCGATTATGAC
* * * *
6942082 TATCGCAACGAGATTCTGAC
1 AATCGCAATGCGATTATGAC
** * **
6942102 TGTCGCAACGCGATGCTGAC
1 AATCGCAATGCGATTATGAC
*
6942122 TATCGCAATGC
1 AATCGCAATGC
6942133 AATTTTCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (20 bp):
AATCGCAATGCGATTATGAC
Found at i:6942087 original size:40 final size:40
Alignment explanation
Indices: 6942043--6942132 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
6942033 GAATATGTAA
* *
6942043 ATCGCAATGCGATTATGACTATCGCAATGCGATTCTGACT
1 ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
* * * *
6942083 ATCGCAACGAGATTCTGACTGTCGCAACGCGATGCTGACT
1 ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
6942123 ATCGCAATGC
1 ATCGCAATGC
6942133 AATTTTCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
Found at i:6942329 original size:22 final size:22
Alignment explanation
Indices: 6942304--6942356 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
6942294 CACTCTCTAA
* *
6942304 GACGACATCTGTCCCCATCTCC
1 GACGAAATCAGTCCCCATCTCC
*
6942326 GACGAAATCAGTCTCCATCTCC
1 GACGAAATCAGTCCCCATCTCC
6942348 -ACAGAAATC
1 GAC-GAAATC
6942357 CATCTATCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (22 bp):
GACGAAATCAGTCCCCATCTCC
Found at i:6942813 original size:20 final size:20
Alignment explanation
Indices: 6942788--6942839 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6942778 TTTGCAATTC
6942788 TCGCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATAGTCAAAT
**
6942808 TCGCGTTGCGATAGTCATTT
1 TCGCGTTGCGATAGTCAAAT
*
6942828 TCGTGTTGCGAT
1 TCGCGTTGCGAT
6942840 TTTCATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATAGTCAAAT
Found at i:6942845 original size:20 final size:20
Alignment explanation
Indices: 6942807--6942862 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
6942797 GATAGTCAAA
* **
6942807 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
6942827 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
6942847 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
6942863 AAGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:6942869 original size:20 final size:20
Alignment explanation
Indices: 6942826--6942869 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6942816 CGATAGTCAT
* *
6942826 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
6942846 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
6942866 TTTC
1 TTTC
6942870 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:6944484 original size:36 final size:36
Alignment explanation
Indices: 6944418--6944493 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
6944408 CGTGAGGAGG
**
6944418 TCAAACTGAACGAAAGGAAGCATCGGCACTTCCAAT
1 TCAAACTGAACGAAAGGAAGCATCAACACTTCCAAT
* *
6944454 TCAAACTGAACGAAAGGAAGCATCAACACTTTCGAT
1 TCAAACTGAACGAAAGGAAGCATCAACACTTCCAAT
6944490 TCAA
1 TCAA
6944494 GTCGAACAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (36 bp):
TCAAACTGAACGAAAGGAAGCATCAACACTTCCAAT
Found at i:6946049 original size:32 final size:32
Alignment explanation
Indices: 6946010--6946070 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
6946000 AAAAATGACA
* *
6946010 AAATCAAGTTTGTTTTCAAGAAAACAATCATG
1 AAATCAAGCTTATTTTCAAGAAAACAATCATG
*
6946042 AAATCAAGCTTATTTTCAAGAAAATAATC
1 AAATCAAGCTTATTTTCAAGAAAACAATC
6946071 CCCAAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (32 bp):
AAATCAAGCTTATTTTCAAGAAAACAATCATG
Found at i:6946078 original size:32 final size:32
Alignment explanation
Indices: 6946010--6946080 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
6946000 AAAAATGACA
* * **
6946010 AAATCAAGTTTGTTTTCAAGAAAACAATCATG
1 AAATCAAGCTTATTTTCAAGAAAACAATCACC
* *
6946042 AAATCAAGCTTATTTTCAAGAAAATAATCCCC
1 AAATCAAGCTTATTTTCAAGAAAACAATCACC
6946074 AAATCAA
1 AAATCAA
6946081 TTCTAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.28
Consensus pattern (32 bp):
AAATCAAGCTTATTTTCAAGAAAACAATCACC
Found at i:6946423 original size:178 final size:178
Alignment explanation
Indices: 6946124--6946481 Score: 662
Period size: 178 Copynumber: 2.0 Consensus size: 178
6946114 ATCATCCCAT
6946124 AAACATCATAATCAACTAAAGAAAACCTTGAAAATCATTAGATAAAATAGGTACATTCATTAACT
1 AAACATCATAATCAACTAAAGAAAACCTTGAAAATCATTAGATAAAATAGGTACATTCATTAACT
* ** *
6946189 CCTAAAATCACTTTTATTATATAAACTCAAAATTGAAAGTCATGATCCATCAAGATCATCTTCTT
66 CCGAAAATCACTTTTATTATATAAACTCAAAATTGAAAACCACGATCCATCAAGATCATCTTCTT
*
6946254 TAATGGATCTTTAATCGTCGAAGCATTAAAAGAAACCAAAGTTTAGGA
131 TAATGGATCTTTAATCATCGAAGCATTAAAAGAAACCAAAGTTTAGGA
6946302 AAACATCATAATCAACTAAAGAAAACCTTGAAAATCATTAGATAAAATAGGTACATTCATTAACT
1 AAACATCATAATCAACTAAAGAAAACCTTGAAAATCATTAGATAAAATAGGTACATTCATTAACT
6946367 CCGAAAATCACTTTTATTATATAAACTCAAAATTGAAAACCACGATCCATCAAGATCATCTTCTT
66 CCGAAAATCACTTTTATTATATAAACTCAAAATTGAAAACCACGATCCATCAAGATCATCTTCTT
*
6946432 TAATGGATCTTTAATCATCGAAGCATTAAAAGAAACCAAGGTTTAGGA
131 TAATGGATCTTTAATCATCGAAGCATTAAAAGAAACCAAAGTTTAGGA
6946480 AA
1 AA
6946482 TACCTTGATG
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 174 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (178 bp):
AAACATCATAATCAACTAAAGAAAACCTTGAAAATCATTAGATAAAATAGGTACATTCATTAACT
CCGAAAATCACTTTTATTATATAAACTCAAAATTGAAAACCACGATCCATCAAGATCATCTTCTT
TAATGGATCTTTAATCATCGAAGCATTAAAAGAAACCAAAGTTTAGGA
Found at i:6946708 original size:18 final size:19
Alignment explanation
Indices: 6946673--6946708 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6946663 AAAGACAGTG
*
6946673 AAAGTGAATTTAAGGAATA
1 AAAGGGAATTTAAGGAATA
6946692 AAAGGGAATTT-AGGAAT
1 AAAGGGAATTTAAGGAAT
6946709 GAATCAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
AAAGGGAATTTAAGGAATA
Found at i:6954754 original size:20 final size:20
Alignment explanation
Indices: 6954729--6954788 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
6954719 TTTGGTGCAG
*
6954729 AGGGAATAGATTCCCCCTTT
1 AGGGAACAGATTCCCCCTTT
*
6954749 AGGGAACCGATTCCCCCTTT
1 AGGGAACAGATTCCCCCTTT
*
6954769 GAAGGGGAACCGATTCCCCC
1 --A-GGGAACAGATTCCCCC
6954789 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (20 bp):
AGGGAACAGATTCCCCCTTT
Found at i:6954780 original size:23 final size:20
Alignment explanation
Indices: 6954737--6954788 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 20
6954727 AGAGGGAATA
6954737 GATTCCCCCTTTAGGGAACC
1 GATTCCCCCTTTAGGGAACC
6954757 GATTCCCCCTTTGAAGGGGAACC
1 GATTCCCCCTTT--A-GGGAACC
6954780 GATTCCCCC
1 GATTCCCCC
6954789 CACAGGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.41
22 1 0.03
23 16 0.55
ACGTcount: A:0.19, C:0.37, G:0.21, T:0.23
Consensus pattern (20 bp):
GATTCCCCCTTTAGGGAACC
Found at i:6954809 original size:21 final size:21
Alignment explanation
Indices: 6954771--6954810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6954761 CCCCCTTTGA
**
6954771 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATAACCCCCAC
*
6954792 AGGGGAATCGATAACCCCC
1 AGGGGAACCGATAACCCCC
6954811 TGGGGTTCTG
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:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATAACCCCCAC
Found at i:6956382 original size:19 final size:19
Alignment explanation
Indices: 6956358--6956395 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6956348 AAGTGTTAAA
6956358 TGTGTTAAATGGGAGAAGT
1 TGTGTTAAATGGGAGAAGT
6956377 TGTGTTAAATGGGAGAAGT
1 TGTGTTAAATGGGAGAAGT
6956396 GTTAAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (19 bp):
TGTGTTAAATGGGAGAAGT
Done.