Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 349 of 427
Found at i:101571755 original size:25 final size:25
Alignment explanation
Indices: 101571700--101571757 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
101571690 TTCTCTATTT
* *
101571700 TCCCTCCCCCTTTCTTTCCCCCTTG
1 TCCCTCTCCCTTTCTTTCCCCCTTC
*
101571725 TCCCTCTCCCTTTCTTTCCTCCTTC
1 TCCCTCTCCCTTTCTTTCCCCCTTC
*
101571750 TTCCTCTC
1 TCCCTCTC
101571758 TGTTCCTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.00, C:0.53, G:0.02, T:0.45
Consensus pattern (25 bp):
TCCCTCTCCCTTTCTTTCCCCCTTC
Found at i:101571790 original size:25 final size:25
Alignment explanation
Indices: 101571697--101571790 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 25
101571687 CCCTTCTCTA
*
101571697 TTTTC-CCTCCCCCTTTCTTTCCCCC
1 TTTTCTCCTCTCCCTTTCTTT-CCCC
*
101571722 TTGTC-CCTCTCCCTTTCTTTCCTCC
1 TTTTCTCCTCTCCCTTTCTTTCC-CC
* *
101571747 TTCTTCCTCTCTGTTCCTTTCATTTCCCC
1 TT-TT-CTC-CTCTCCCTTTC-TTTCCCC
101571776 TTTTCTCCT-TCCCTT
1 TTTTCTCCTCTCCCTT
101571791 CTGACTACCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.04
25 27 0.47
26 3 0.05
27 4 0.07
28 3 0.05
29 13 0.23
30 5 0.09
ACGTcount: A:0.01, C:0.47, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTCTCCTCTCCCTTTCTTTCCCC
Found at i:101573512 original size:17 final size:17
Alignment explanation
Indices: 101573482--101573528 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
101573472 TATTTTTTAC
*
101573482 TTTA-TTTTACTTTTGCT
1 TTTATTTTTA-TTTTCCT
*
101573499 TTTGTTTTTATTTTCCT
1 TTTATTTTTATTTTCCT
101573516 TTTATTTTTATTT
1 TTTATTTTTATTT
101573529 CTATTTCCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:101573524 original size:23 final size:23
Alignment explanation
Indices: 101573482--101573534 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
101573472 TATTTTTTAC
* *
101573482 TTTATTTTACTTTTGCTTTTGTT
1 TTTATTTTACTTTTACTTTTATT
* *
101573505 TTTATTTTCCTTTTATTTTTATT
1 TTTATTTTACTTTTACTTTTATT
*
101573528 TCTATTT
1 TTTATTT
101573535 CCAGTTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.75
Consensus pattern (23 bp):
TTTATTTTACTTTTACTTTTATT
Found at i:101575118 original size:9 final size:9
Alignment explanation
Indices: 101575104--101575130 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
101575094 CCTTAAACAC
101575104 TTTGAGTGA
1 TTTGAGTGA
101575113 TTTGAGTGA
1 TTTGAGTGA
101575122 TTTGAGTGA
1 TTTGAGTGA
101575131 ATCTTTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (9 bp):
TTTGAGTGA
Found at i:101592690 original size:11 final size:11
Alignment explanation
Indices: 101592676--101592702 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
101592666 ATTTTGTATA
101592676 ATATTTAATTT
1 ATATTTAATTT
101592687 ATATTTAATTT
1 ATATTTAATTT
101592698 ATATT
1 ATATT
101592703 AATACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTAATTT
Found at i:101594189 original size:131 final size:130
Alignment explanation
Indices: 101593947--101594282 Score: 363
Period size: 131 Copynumber: 2.6 Consensus size: 130
101593937 TTACAACTAT
* * * *
101593947 TAAAAATTCTTTAAAACGAAGGCGATATTCGAT-TCTTGGCAATTCGTGAAATCGTGCCCTAACG
1 TAAAAA-TCTTTAAAACGAAGGCGATATTTGATGT-TTGGCAATTCG-GGAATCATGCCCTATCG
* * ** * *
101594011 TGTTAGGTTGTAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCGTGTC
63 TGCTGGGTTGTAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGT-
101594076 TT-C
127 TTAC
* *
101594079 TAAAAATCCTTTAAAACGAAGGCAATATTTGATGTTTGACAATTCGGGAATCATGCCCTATCGTG
1 TAAAAAT-CTTTAAAACGAAGGCGATATTTGATGTTTGGCAATTCGGGAATCATGCCCTATCGTG
* * * ** *
101594144 CTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTA
65 CTGGGTTGTAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGTTTA
*
101594209 T
130 C
* ** * * *
101594210 TAAAAATCTTTCAAAACGTAGGCGACGTTTGATGTTTGGCGATTTGAGAATCGA-GCCCTATCGT
1 TAAAAATCTTT-AAAACGAAGGCGATATTTGATGTTTGGCAATTCGGGAATC-ATGCCCTATCGT
101594274 GCTGGGTTG
64 GCTGGGTTG
101594283 CGCTTTTTCA
Statistics
Matches: 172, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
130 6 0.03
131 125 0.73
132 40 0.23
133 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (130 bp):
TAAAAATCTTTAAAACGAAGGCGATATTTGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGC
TGGGTTGTAATTTCTCGTTTGCTCAAAACAATCGAAGATCCCTTTAGAATTTCACCCATGTTTAC
Found at i:101595296 original size:21 final size:22
Alignment explanation
Indices: 101595250--101595297 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
101595240 ATGCAAAAAG
*
101595250 ATAATAAGTTATAATAACGAAA
1 ATAATAAGTTATAATAAAGAAA
* *
101595272 ATAATAAG-TATAATAAATAAT
1 ATAATAAGTTATAATAAAGAAA
101595293 ATAAT
1 ATAAT
101595298 GATATATGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (22 bp):
ATAATAAGTTATAATAAAGAAA
Found at i:101595679 original size:25 final size:23
Alignment explanation
Indices: 101595627--101595748 Score: 90
Period size: 23 Copynumber: 5.2 Consensus size: 23
101595617 AACACTACAT
*
101595627 AAATATGTACATGGAAATATATA
1 AAATATATACATGGAAATATATA
101595650 AAATATATACATGGAAATATATA
1 AAATATATACATGGAAATATATA
* * *
101595673 AGTAATATATA-ACTAGTAATAT-CA
1 A--AATATATACA-TGGAAATATATA
101595697 AAATATATACAT-GATAGTATATATA
1 AAATATATACATGGA-A--ATATATA
* * *
101595722 AAA-AAATACATGTATATAATATA
1 AAATATATACATGGAAAT-ATATA
101595745 AAAT
1 AAAT
101595749 GAAAAATATA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
21 1 0.01
22 12 0.15
23 32 0.41
24 14 0.18
25 20 0.25
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (23 bp):
AAATATATACATGGAAATATATA
Found at i:101595753 original size:28 final size:29
Alignment explanation
Indices: 101595721--101595777 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
101595711 TAGTATATAT
* *
101595721 AAAAAAATACATGTATATAATA-TAAAATG
1 AAAAATATACAT-AATATAATATTAAAATG
*
101595750 AAAAATATATATAATATAATATTAAAAT
1 AAAAATATACATAATATAATATTAAAAT
101595778 ATAATAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATATACATAATATAATATTAAAATG
Found at i:101595760 original size:23 final size:22
Alignment explanation
Indices: 101595717--101595869 Score: 78
Period size: 23 Copynumber: 6.5 Consensus size: 22
101595707 ATGATAGTAT
*
101595717 ATATAAAA-AAATACATGTATATA
1 ATATAAAATAAA-A-ATATATATA
101595740 ATATAAAATGAAAAATATATATA
1 ATATAAAAT-AAAAATATATATA
* *
101595763 ATATAATATTAAAATATA-ATA
1 ATATAAAATAAAAATATATATA
* *
101595784 ATACAACATTAAAAACATATATGATA
1 ATATAA-AAT-AAAA-ATATAT-ATA
* *
101595810 CATATAAAATACAACAT-TAAAAGTA
1 -ATATAAAATA-AAAATAT-ATA-TA
101595835 TATATAACATATAAAAATATATATA
1 -ATATAA-A-ATAAAAATATATATA
* *
101595860 AAATATAATA
1 ATATAAAATA
101595870 CCTAAGTATA
Statistics
Matches: 100, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
21 8 0.08
22 12 0.12
23 28 0.28
24 12 0.12
25 17 0.17
26 14 0.14
27 9 0.09
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
ATATAAAATAAAAATATATATA
Found at i:101595794 original size:21 final size:22
Alignment explanation
Indices: 101595751--101595811 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
101595741 TATAAAATGA
* *
101595751 AAAATATATATAATATAATATT
1 AAAATATATATAATACAACATT
101595773 AAAATATA-ATAATACAACATT
1 AAAATATATATAATACAACATT
* *
101595794 AAAAACATATATGATACA
1 -AAAATATATATAATACA
101595812 TATAAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.33
22 15 0.45
23 7 0.21
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATATATATAATACAACATT
Found at i:101595845 original size:32 final size:32
Alignment explanation
Indices: 101595768--101595850 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 32
101595758 ATATAATATA
*
101595768 ATAT-TAAAATATAATAATACAACATTAAAAAC
1 ATATATAACATATAA-AATACAACATTAAAAAC
**
101595800 ATATATGATACATATAAAATACAACATTAAAAGT
1 ATATAT-A-ACATATAAAATACAACATTAAAAAC
101595834 ATATATAACATATAAAA
1 ATATATAACATATAAAA
101595851 ATATATATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 14 0.31
33 2 0.04
34 22 0.49
35 7 0.16
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (32 bp):
ATATATAACATATAAAATACAACATTAAAAAC
Found at i:101595855 original size:19 final size:19
Alignment explanation
Indices: 101595822--101595867 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
101595812 TATAAAATAC
*
101595822 AACAT-TAAAAGTATATAT
1 AACATATAAAAATATATAT
101595840 AACATATAAAAATATATAT
1 AACATATAAAAATATATAT
*
101595859 AAAATATAA
1 AACATATAA
101595868 TACCTAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AACATATAAAAATATATAT
Found at i:101600174 original size:3 final size:3
Alignment explanation
Indices: 101600166--101600328 Score: 181
Period size: 3 Copynumber: 54.7 Consensus size: 3
101600156 AAAAAGAAAT
* * *
101600166 ATA ATA ATA GTA ATA ATA TTA A-A TTA ATTA ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
101600210 AGTAA ATA AAA ACA AAA ATA A-A AT- ATA ATA ATA ATA ATA ATA ATA
1 A-T-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
101600255 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
101600303 ATA ATA ATA GTA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
101600329 GCTAAATTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
2 7 0.05
3 121 0.90
4 5 0.04
5 2 0.01
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:101601037 original size:19 final size:20
Alignment explanation
Indices: 101601014--101601063 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
101601004 TTCGAAGGAG
*
101601014 GAAAATAAAGAAGA-AGAAAT
1 GAAAATAAAGAA-ATAAAAAT
*
101601034 -AAAATAAATAAATAAAAAT
1 GAAAATAAAGAAATAAAAAT
101601053 GAAAATAAAGA
1 GAAAATAAAGA
101601064 CCTTAGCACG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 15 0.60
20 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (20 bp):
GAAAATAAAGAAATAAAAAT
Found at i:101601983 original size:51 final size:49
Alignment explanation
Indices: 101601750--101602220 Score: 193
Period size: 44 Copynumber: 9.8 Consensus size: 49
101601740 GAGAGATAAG
* * * ** * * *
101601750 ACTTGTAGTTTCAATCTACTCCGCTATAACTTCAGGGATATGAGATTTGTA
1 ACTT-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-CTGTA
* * *
101601801 ACTTGTAGCTTCAATCTACTCCACTGAAACTTCAGGGAGATAAGAC--T-
1 ACTT-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
* * *
101601848 A--GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG---GT-
1 ACTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
* * * * * * *
101601891 --TTATAACTTTAACCTGCTCTATTGCAACCTCA-GAAAGATAAGATCTGTA
1 ACTT-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGA-CTGTA
* *
101601940 ACTTGTAGCTTCAATATGCTCCACTGCAACTTCAGGGAAATAAGA-T-TC
1 ACTT-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
* * * * *
101601988 AC--TATCTTCAGTCTGTTCCTACTGCAACTTCAGGGAGATAAGACTTGCA
1 ACTTTAGCTTCAATCTGCTCC-ACTGCAACTTCAGGGAAATAAGAC-TGTA
* * * * *
101602037 ACTTTTAGTTTCAATCTGCTTCACTGTAACTTCAGGGAAATAA-AATCT-
1 AC-TTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
* * * * * *
101602085 AC--TATCTTCAGTCTGCTCCGCTGCAACTTCTGGGAGATAAGCCTG--
1 ACTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
* * * *
101602130 ---GTGGCTTCAATCTGCTCCATTGCAACTTCA-GGAAGATAAGATCCGTCATA
1 ACTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGA--C-T-GTA
* * * *
101602180 ATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAAT
1 ACTT-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAAT
101602221 TAGATTCGCT
Statistics
Matches: 313, Mismatches: 74, Indels: 63
0.70 0.16 0.14
Matches are distributed among these distances:
43 6 0.02
44 91 0.29
45 43 0.14
46 24 0.08
47 2 0.01
48 9 0.03
49 4 0.01
50 1 0.00
51 88 0.28
52 15 0.05
54 26 0.08
55 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (49 bp):
ACTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTGTA
Found at i:101602015 original size:46 final size:46
Alignment explanation
Indices: 101601959--101602125 Score: 153
Period size: 45 Copynumber: 3.5 Consensus size: 46
101601949 TTCAATATGC
101601959 TCCACTGCAACTTCAGGGAAATAAGATTC-ACTATCTTCAGTCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTCAACTATCTTCAGTCTGT
* *
101602004 TCCTACTGCAACTTCAGGGAGATAAGACTTGCAACTTTTAGT-TTCAATCTGCT
1 TCC-ACTGCAACTTCAGGGAAATAAGA-TT-CAAC---TA-TCTTCAGTCTG-T
* * * *
101602057 T-CACTGTAACTTCAGGGAAATAA-AATCTACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCAACTATCTTCAGTCTGT
* * *
101602101 TCCGCTGCAACTTCTGGGAGATAAG
1 TCCACTGCAACTTCAGGGAAATAAG
101602126 CCTGGTGGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
44 2 0.02
45 31 0.32
46 22 0.22
47 2 0.02
48 4 0.04
49 3 0.03
50 1 0.01
51 19 0.19
52 11 0.11
53 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (46 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCAACTATCTTCAGTCTGT
Found at i:101602062 original size:97 final size:97
Alignment explanation
Indices: 101601852--101602171 Score: 306
Period size: 97 Copynumber: 3.4 Consensus size: 97
101601842 AAGACTAGTG
* * * * * ** *
101601852 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA-TAACTTTAACCTGCT-CTATTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCTACTG
* ** *
101601915 CAACCTCAGAAAGATAAGATCTGTAACTTGTA
66 CAACTTCAGGGAGATAAGATCTGCAACTTGTA
* *
101601947 GCTTCAATATGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGTTCCTACTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCTACTG
*
101602012 CAACTTCAGGGAGATAAGA-CTTGCAACTTTTA
66 CAACTTCAGGGAGATAAGATC-TGCAACTTGTA
* * * * *
101602044 GTTTCAATCTGCTTCACTGTAACTTCAGGGAAATAA-AATCTACTATCTTCAGTCTGCTCC-GCT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-ACTATCTTCAGTCTGCTCCTACT
* * *
101602107 GCAACTTCTGGGAGAT-A-A---GC--CTGGTG
65 GCAACTTCAGGGAGATAAGATCTGCAACTTGTA
*
101602133 GCTTCAATCTGCTCCATTGCAACTTCA-GGAAGATAAGAT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGAT
101602172 CCGTCATAAT
Statistics
Matches: 188, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
88 4 0.02
89 30 0.16
90 1 0.01
91 2 0.01
94 1 0.01
95 39 0.21
96 31 0.16
97 80 0.43
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (97 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCTACTG
CAACTTCAGGGAGATAAGATCTGCAACTTGTA
Found at i:101602233 original size:143 final size:143
Alignment explanation
Indices: 101602068--101602685 Score: 869
Period size: 143 Copynumber: 4.3 Consensus size: 143
101602058 CACTGTAACT
* * * *
101602068 TCAGGGAAATAA-AATCTACTATCTTCAGTCTGCTCCGCTGCAACTTCTGGGAGATAAGCCTGGT
1 TCAGGGAAATAAGATTC-GCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGT
* *
101602132 GGCTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCT
65 GGCTTCAATCTGCTCCATTGTAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCT
*
101602197 GTTCCACTGCAACG
130 GTTCCACTACAACG
* * *
101602211 TCAGGGAAATTAGATTCGCTATCTTCAGTCTGCTCCGTTACAACTTCAGGGAGATAAGGCTGGTG
1 TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
* * *
101602276 GCTTCAATCTGCTCCATTGTAACTTAAGGAAGATAAGATCCGCCATAAATTGTAACTTTAATCTG
66 GCTTCAATCTGCTCCATTGTAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTG
*
101602341 TTCTACTACAACG
131 TTCCACTACAACG
* * * * * * *
101602354 TCGGGGAAATAAGATTCGCTATCTTTAGTCTGTTCTGCTGTAACTTCAGGAAGATAAGGCTGATG
1 TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
* * *
101602419 GCTTCAATCTACTCCATTGTAACTTCAAGAAGATAAGATCCGCCACAATTTGTAGCTTTAATCTG
66 GCTTCAATCTGCTCCATTGTAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTG
*
101602484 TTCCATTACAACG
131 TTCCACTACAACG
* * *
101602497 TCAGGGAAATAAGATTCGCTTTTTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTGGTG
1 TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
* * * *
101602562 GTTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTG
66 GCTTCAATCTGCTCCATTGTAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTG
**
101602627 TTCCACTGTAACG
131 TTCCACTACAACG
** * * *
101602640 TCAAAGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGCAACTT
1 TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTT
101602686 TAAAGAGATA
Statistics
Matches: 416, Mismatches: 58, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
143 413 0.99
144 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
GCTTCAATCTGCTCCATTGTAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTG
TTCCACTACAACG
Found at i:101611678 original size:64 final size:64
Alignment explanation
Indices: 101611605--101611815 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
101611595 CTGGGCCAGA
*
101611605 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
101611669 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
101611731 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
101611742 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
101611806 GCCCATTTCA
1 GCCCATTTCA
101611816 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:101611817 original size:137 final size:136
Alignment explanation
Indices: 101611571--101611856 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
101611561 TATTGGGCCT
**
101611571 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
101611636 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
101611701 CATATGC
130 CATATGC
101611708 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
101611773 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
101611838 ATATGC
131 ATATGC
101611844 AAGCCCATTTGGG
1 AAGCCCATTTGGG
101611857 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 22 0.15
137 124 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:101613678 original size:26 final size:25
Alignment explanation
Indices: 101613642--101613800 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 25
101613632 CATGATATTC
*
101613642 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
*
101613668 TTATTATGAAACATTTACCTAACC-A
1 TTATCATG-AACATTTACCTAACCTA
*
101613693 TTATCATGGACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
101613718 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
*
101613744 TTATCATGGAACACTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
101613770 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
101613795 TTATCA
1 TTATCA
101613801 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.11
25 39 0.31
26 72 0.58
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:101613749 original size:51 final size:51
Alignment explanation
Indices: 101613642--101613800 Score: 241
Period size: 51 Copynumber: 3.1 Consensus size: 51
101613632 CATGATATTC
* * * *
101613642 TTATCATGAAACATTTACCTAACCCATTATTATGAAACATTTACCTAACC-A
1 TTATCATG-GACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
101613693 TTATCATGGACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
*
101613744 TTATCATGGAACACTTACCTAACCTATTATCAT-GAACATTTACCTAACCTA
1 TTATCATGG-ACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
101613795 TTATCA
1 TTATCA
101613801 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
50 37 0.37
51 42 0.42
52 22 0.22
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (51 bp):
TTATCATGGACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
Found at i:101615124 original size:83 final size:81
Alignment explanation
Indices: 101614985--101615151 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 81
101614975 ATAAAAGATA
101614985 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
1 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
101615050 CACATTAAATATGTGTTT
66 CACATT-AA-ATGTGTTT
*
101615068 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACCTTTAG
1 AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
101615133 CACATTAAATGTGTTT
66 CACATTAAATGTGTTT
101615149 AAA
1 AAA
101615152 AATAATAAAG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
81 11 0.13
82 2 0.02
83 70 0.84
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.23
Consensus pattern (81 bp):
AAAGAAATTTAGTAAAGGAAGAAAAAGAGTGCAAGGAAAAAATAAATGGATAATGGAACATTTAG
CACATTAAATGTGTTT
Found at i:101615374 original size:25 final size:26
Alignment explanation
Indices: 101615323--101615374 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
101615313 TTATTATTAT
*
101615323 TTTTATTAAATTATATTAAATAATAA
1 TTTTATTAAATTATATAAAATAATAA
101615349 TTTTATTAAAATT-TA-AAAATAATAA
1 TTTTATT-AAATTATATAAAATAATAA
101615374 T
1 T
101615375 CATTTATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 9 0.38
27 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTTATTAAATTATATAAAATAATAA
Found at i:101615588 original size:16 final size:16
Alignment explanation
Indices: 101615517--101615588 Score: 83
Period size: 16 Copynumber: 4.6 Consensus size: 16
101615507 ACAACTGAAT
* *
101615517 TATT-CATTACAGGTT
1 TATTCCATTACAGCTC
*
101615532 TATTCTATTACAGCTC
1 TATTCCATTACAGCTC
* *
101615548 TATTTCATTACAACTC
1 TATTCCATTACAGCTC
*
101615564 TATTACATTACAGCTC
1 TATTCCATTACAGCTC
101615580 TATTCCATT
1 TATTCCATT
101615589 CCTCCCAACC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 4 0.09
16 43 0.91
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:101617092 original size:24 final size:26
Alignment explanation
Indices: 101617045--101617093 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
101617035 GTATATATAG
*
101617045 TTTCATCGTATATTGGTTTGTTCTTC
1 TTTCATCGTATATTGGTTTATTCTTC
101617071 TTTCAT-GTATATT-GTTTATTCTT
1 TTTCATCGTATATTGGTTTATTCTT
101617094 TGTTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 7 0.32
26 6 0.27
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.61
Consensus pattern (26 bp):
TTTCATCGTATATTGGTTTATTCTTC
Found at i:101618223 original size:12 final size:12
Alignment explanation
Indices: 101618199--101618349 Score: 186
Period size: 12 Copynumber: 12.8 Consensus size: 12
101618189 TAAACACAAA
101618199 AATAA-AATA-T
1 AATAATAATAGT
*
101618209 AATTATAATAGT
1 AATAATAATAGT
101618221 AATAATAATA--
1 AATAATAATAGT
*
101618231 AA-AATAATAGC
1 AATAATAATAGT
101618242 AATAATAATAGT
1 AATAATAATAGT
101618254 AATAAAATAATAGT
1 AAT--AATAATAGT
* *
101618268 AATAGTAATAAT
1 AATAATAATAGT
*
101618280 AATAATGATAGT
1 AATAATAATAGT
101618292 AATAATAATAGT
1 AATAATAATAGT
*
101618304 AATAATAATAAT
1 AATAATAATAGT
*
101618316 AATAATGATAGT
1 AATAATAATAGT
101618328 AATAATAATAGT
1 AATAATAATAGT
101618340 AATAATAATA
1 AATAATAATA
101618350 ATGTTAAATT
Statistics
Matches: 121, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
9 7 0.06
10 6 0.05
11 6 0.05
12 90 0.74
14 12 0.10
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:101618228 original size:3 final size:3
Alignment explanation
Indices: 101618199--101618351 Score: 159
Period size: 3 Copynumber: 52.0 Consensus size: 3
101618189 TAAACACAAA
* * * **
101618199 AAT AA- AAT -AT AAT TAT AAT AGT AAT AAT AAT AAA AAT AAT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
101618245 AAT AAT AGT AAT AA- AAT AAT AGT AAT AGT AAT AAT AAT AAT GAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
101618292 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT GAT AGT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101618340 AAT AAT AAT AAT
1 AAT AAT AAT AAT
101618352 GTTAAATTAA
Statistics
Matches: 119, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
2 6 0.05
3 113 0.95
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101619070 original size:19 final size:18
Alignment explanation
Indices: 101619047--101619095 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
101619037 TTCGAAGGAG
101619047 GAAAATAAAAAAGAAGAAA
1 GAAAATAAAAAAGAA-AAA
* *
101619066 TAAAATAAATAAATAAAAA
1 GAAAATAAA-AAAGAAAAA
101619085 GAAAATAAAAA
1 GAAAATAAAAA
101619096 CCTTAGCACG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (18 bp):
GAAAATAAAAAAGAAAAA
Found at i:101619086 original size:23 final size:24
Alignment explanation
Indices: 101619049--101619094 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
101619039 CGAAGGAGGA
101619049 AAATAAAAAAGAAG-AAATAAAAT
1 AAATAAAAAAGAAGAAAATAAAAT
101619072 AAATAAATAAA-AAGAAAATAAAA
1 AAATAAA-AAAGAAGAAAATAAAA
101619095 ACCTTAGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (24 bp):
AAATAAAAAAGAAGAAAATAAAAT
Found at i:101619702 original size:17 final size:17
Alignment explanation
Indices: 101619659--101619693 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101619649 CCGTAATCTT
* *
101619659 ATAAACATTTATTAAAA
1 ATAAATATTAATTAAAA
101619676 ATAAATATTAATTAAAA
1 ATAAATATTAATTAAAA
101619693 A
1 A
101619694 CTTAAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAATATTAATTAAAA
Found at i:101619824 original size:23 final size:23
Alignment explanation
Indices: 101619798--101619849 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
101619788 GCTTTAAAAC
*
101619798 TAATTTAAAA-TATTTTTATGTAT
1 TAATTTAAAATTATTTTAAT-TAT
101619821 TAATTTAAAATTATTTTAATTAT
1 TAATTTAAAATTATTTTAATTAT
101619844 TAATTT
1 TAATTT
101619850 CTTTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATTTAAAATTATTTTAATTAT
Found at i:101621810 original size:18 final size:18
Alignment explanation
Indices: 101621787--101621822 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
101621777 TTAACAAATA
101621787 CACTTAAAACCTAGTTGG
1 CACTTAAAACCTAGTTGG
*
101621805 CACTTAAAATCTAGTTGG
1 CACTTAAAACCTAGTTGG
101621823 ACTGCCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (18 bp):
CACTTAAAACCTAGTTGG
Found at i:101622899 original size:3 final size:3
Alignment explanation
Indices: 101622891--101622953 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
101622881 AAATGATTAT
101622891 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101622939 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
101622954 GAAAATATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:101623017 original size:26 final size:26
Alignment explanation
Indices: 101622982--101623034 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
101622972 TGAAGTTATT
101622982 TAAAAAGATATA-AATAA-AATGAATGA
1 TAAAAAGATA-ACAATAAGAAT-AATGA
*
101623008 TAAAATGATAACAATAAGAATAATGA
1 TAAAAAGATAACAATAAGAATAATGA
101623034 T
1 T
101623035 GTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.04
26 20 0.83
27 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (26 bp):
TAAAAAGATAACAATAAGAATAATGA
Found at i:101623153 original size:12 final size:12
Alignment explanation
Indices: 101623120--101623207 Score: 60
Period size: 12 Copynumber: 7.7 Consensus size: 12
101623110 AATAATGATG
101623120 ATAATAATAGCA
1 ATAATAATAGCA
*
101623132 AT-ACAATAGCA
1 ATAATAATAGCA
101623143 ATAATAATAGC-
1 ATAATAATAGCA
* *
101623154 A-AA-AGTAGAA
1 ATAATAATAGCA
*
101623164 ATAATAATAGTA
1 ATAATAATAGCA
**
101623176 ATGAA-AATAATA
1 AT-AATAATAGCA
**
101623188 ATAATAATAATA
1 ATAATAATAGCA
101623200 ATAATAAT
1 ATAATAAT
101623208 GAAACATGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
9 4 0.06
10 3 0.05
11 15 0.24
12 39 0.62
13 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (12 bp):
ATAATAATAGCA
Found at i:101623169 original size:3 final size:3
Alignment explanation
Indices: 101623163--101623207 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
101623153 CAAAAGTAGA
*
101623163 AAT AAT AAT AGT AAT GAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101623208 GAAACATGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101624985 original size:135 final size:135
Alignment explanation
Indices: 101624813--101625060 Score: 390
Period size: 135 Copynumber: 1.8 Consensus size: 135
101624803 ACCTATCGCA
* * *
101624813 ACTTCAGTGAGATAAGATTTGCAATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAA
1 ACTTCAGTGAGATAAGACTTGCAATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAA
* * *
101624878 TTTACAGCTTCAATCTATTCCACTGCGACTTCAGGGAAATAAGATTTGAACTTCAACCTACTCCA
66 TTTACAGCTTCAACCTATTCCACTGCAACTTCAAGGAAATAAGATTTGAACTTCAACCTACTCCA
101624943 CTGCT
131 CTGCT
* *
101624948 ACTTCAG-GAAGATAAGGCTTGCTATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
1 ACTTCAGTG-AGATAAGACTTGCAATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
* *
101625012 ATTTATAGCTTCAACCTGTTCCACTGCAACTTCAAGGAAATAAGATTTG
65 ATTTACAGCTTCAACCTATTCCACTGCAACTTCAAGGAAATAAGATTTG
101625061 TGATTTATAG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
134 1 0.01
135 101 0.99
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (135 bp):
ACTTCAGTGAGATAAGACTTGCAATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAA
TTTACAGCTTCAACCTATTCCACTGCAACTTCAAGGAAATAAGATTTGAACTTCAACCTACTCCA
CTGCT
Found at i:101625043 original size:51 final size:50
Alignment explanation
Indices: 101624974--101625292 Score: 239
Period size: 51 Copynumber: 6.6 Consensus size: 50
101624964 GCTTGCTATG
* *
101624974 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGT-ATTTATAGCTTCA
* * * *
101625025 ACCTGTTCCACTGCAACTTCA-AGGAAATAAGATTTGTGATTTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGT-ATTTATAGCTTCA
* * *
101625076 ATCTACTCCACTACAACTTCA-AGGAGATAAGA-CTCGTGAATTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-GT-ATTTATAGCTTCA
* * * **
101625127 ATCTACTCCACTGCAACTTCAGTGAGATAAAAT-T-T-GCTAT--CTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTATTTATAGCTTCA
*
101625172 A-CTTGCTCCACTGCAACTTCAGGGAGATAAG----GT-TTGTA-A-CTTCA
1 ATC-TGCTCCACTGCAACTTCAGAGAGATAAGATCTGTATT-TATAGCTTCA
* *
101625216 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATC--TA-CTAT--CTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTATTTATAGCTTCA
* * *
101625261 GTCTACTCCACTGCAACTTTAGAGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA
101625293 CTTGCTATTT
Statistics
Matches: 225, Mismatches: 29, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.00
44 37 0.16
45 67 0.30
46 1 0.00
47 3 0.01
49 1 0.00
50 2 0.01
51 113 0.50
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (50 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTATTTATAGCTTCA
Found at i:101625186 original size:45 final size:46
Alignment explanation
Indices: 101625122--101625382 Score: 250
Period size: 45 Copynumber: 5.8 Consensus size: 46
101625112 TGAATTATAG
* * *
101625122 CTTCAA-TCTACTCCACTGCAACTTCAGTGAGATAAAATTTGCTAT
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* *
101625167 CTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAA
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* *
101625211 CTTCAA-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTAT
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
101625256 CTTC-AGTCTACTCCACTGCAACTTTAGAGAGATAAGACTTGCTAT
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* ** * * * **
101625301 TTTCAAC-CTGCTTTATTGCAACTTCCGGGAGATAAGGTTTG-TGG
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
** * *
101625345 CTTTGA-TCTGCTCCACTACAACTTCAGAGAGATAAGAT
1 CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGAT
101625383 CTTCATAATC
Statistics
Matches: 172, Mismatches: 38, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.01
44 67 0.39
45 102 0.59
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (46 bp):
CTTCAACTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:101625273 original size:89 final size:90
Alignment explanation
Indices: 101625122--101625336 Score: 245
Period size: 89 Copynumber: 2.4 Consensus size: 90
101625112 TGAATTATAG
* * * * * *
101625122 CTTCAATCTACTCCACTGCAACTTCAGTGAGATAAAATTTGCTATCTTCAACTTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTATCTTCAACTTACTCCACTGCA
* **
101625187 ACTTCAGGGAGATAAGGTTTG-TAA
66 ACTTCAGAGAGATAAGACTTGCTAA
*
101625211 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTATCTTC-AGTCTACTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTATCTTCAACT-TACTCCACTGC
* *
101625275 AACTTTAGAGAGATAAGACTTGCTAT
65 AACTTCAGAGAGATAAGACTTGCTAA
* * ** * *
101625301 TTTCAACCTGCTTTATTGCAACTTCCGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
101625337 GTTTGTGGCT
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
88 2 0.02
89 72 0.68
90 32 0.30
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (90 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTACTATCTTCAACTTACTCCACTGCA
ACTTCAGAGAGATAAGACTTGCTAA
Found at i:101625321 original size:134 final size:136
Alignment explanation
Indices: 101624974--101625384 Score: 403
Period size: 134 Copynumber: 2.9 Consensus size: 136
101624964 GCTTGCTATG
* * ** *
101624974 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAACCTGTTCCACTGC
1 ATCTACTCCACTGCAACTTCAGAGAGATAA-AACT-T--GCTAT--CTTCAACCTGCTCCACTGC
* * * * *
101625039 AACTTCAAGGAAATAAGATTTGTGATTTATAGCTTCAATCTACTCCACTACAACTTCAAGGAGAT
60 AACTTCAGGGAGATAAG-GTT-TG---TA-A-CTTCAATCTGCTCCACTACAACTTCAGGGAGAT
*
101625104 AAGACTCGTGAATTATAGCTTCA
118 AAGA-TC-T-AACTATA-CTTCA
* * *
101625127 ATCTACTCCACTGCAACTTCAGTGAGATAAAATTTGCTATCTTCAACTTGCTCCACTGCAACTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAACTTGCTATCTTCAACCTGCTCCACTGCAACTTC
*
101625192 AGGGAGATAAGGTTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ACTAT
66 AGGGAGATAAGGTTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCTAACTAT
101625256 -CTTCA
131 ACTTCA
* * * * ** *
101625261 GTCTACTCCACTGCAACTTTAGAGAGATAAGACTTGCTATTTTCAACCTGCTTTATTGCAACTTC
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAACTTGCTATCTTCAACCTGCTCCACTGCAACTTC
* ** ** *
101625326 CGGGAGATAAGGTTTGTGGCTTTGATCTGCTCCACTACAACTTCAGAGAGATAAGATCT
66 AGGGAGATAAGGTTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCT
101625385 TCATAATCTG
Statistics
Matches: 226, Mismatches: 32, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
134 112 0.50
136 4 0.02
138 1 0.00
139 2 0.01
140 34 0.15
141 1 0.00
142 2 0.01
145 2 0.01
146 2 0.01
147 32 0.14
149 3 0.01
151 1 0.00
152 2 0.01
153 28 0.12
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (136 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAAACTTGCTATCTTCAACCTGCTCCACTGCAACTTC
AGGGAGATAAGGTTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCTAACTAT
ACTTCA
Found at i:101625800 original size:23 final size:23
Alignment explanation
Indices: 101625774--101625817 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
101625764 ATTTCAGAGT
101625774 AATATGCAGAACTCCTTTTTGGC
1 AATATGCAGAACTCCTTTTTGGC
101625797 AATATGCAGAACTCCTTTTTG
1 AATATGCAGAACTCCTTTTTG
101625818 AATATCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (23 bp):
AATATGCAGAACTCCTTTTTGGC
Found at i:101625967 original size:21 final size:19
Alignment explanation
Indices: 101625924--101625961 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101625914 AGCAAATAAG
101625924 ATAATCAAGATAGCAAATT
1 ATAATCAAGATAGCAAATT
101625943 ATAATCAAGATAGCAAATT
1 ATAATCAAGATAGCAAATT
101625962 TTATAAAATG
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:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
ATAATCAAGATAGCAAATT
Found at i:101633518 original size:19 final size:20
Alignment explanation
Indices: 101633496--101633540 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
101633486 TCGTGAAACT
*
101633496 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
101633515 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
101633535 -AATGCA
1 TAATGCA
101633541 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:101637525 original size:18 final size:18
Alignment explanation
Indices: 101637504--101637539 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
101637494 ACAAAAGTAG
*
101637504 AAATAATAATAGTAATGA
1 AAATAATAATAATAATGA
101637522 AAATAATAATAATAATGA
1 AAATAATAATAATAATGA
101637540 TGAAACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAATAATAATAATAATGA
Found at i:101637529 original size:21 final size:21
Alignment explanation
Indices: 101637505--101637544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
101637495 CAAAAGTAGA
*
101637505 AATAATAATAGTAATGAAAAT
1 AATAATAATAATAATGAAAAT
*
101637526 AATAATAATAATGATGAAA
1 AATAATAATAATAATGAAA
101637545 CATGTGTATG
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:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (21 bp):
AATAATAATAATAATGAAAAT
Found at i:101637623 original size:38 final size:38
Alignment explanation
Indices: 101637572--101637653 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
101637562 ACATAATAAT
101637572 ATAAATTTAAAATATGAAATAAAAGTATAAAGAAACAA
1 ATAAATTTAAAATATGAAATAAAAGTATAAAGAAACAA
101637610 ATAAATTTAAAATATGAAATAAAAGTATAAAGAAACAA
1 ATAAATTTAAAATATGAAATAAAAGTATAAAGAAACAA
101637648 ATAAAT
1 ATAAAT
101637654 GGACATACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (38 bp):
ATAAATTTAAAATATGAAATAAAAGTATAAAGAAACAA
Found at i:101637629 original size:18 final size:18
Alignment explanation
Indices: 101637572--101637632 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
101637562 ACATAATAAT
101637572 ATAAATTTAAAATATGAA
1 ATAAATTTAAAATATGAA
* **
101637590 ATAAAAGTATAAAGA-AACAA
1 AT-AAA-TTTAAA-ATATGAA
101637610 ATAAATTTAAAATATGAA
1 ATAAATTTAAAATATGAA
101637628 ATAAA
1 ATAAA
101637633 AGTATAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.03
18 15 0.45
19 6 0.18
20 10 0.30
21 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
ATAAATTTAAAATATGAA
Found at i:101637649 original size:20 final size:20
Alignment explanation
Indices: 101637588--101637652 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
101637578 TTAAAATATG
101637588 AAATAAAAGTATAAAGAAAC
1 AAATAAAAGTATAAAGAAAC
* **
101637608 AAAT-AAA-TTTAAA-ATATG
1 AAATAAAAGTATAAAGA-AAC
101637626 AAATAAAAGTATAAAGAAAC
1 AAATAAAAGTATAAAGAAAC
101637646 AAATAAA
1 AAATAAA
101637653 TGGACATACA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 6 0.17
20 17 0.49
21 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.20
Consensus pattern (20 bp):
AAATAAAAGTATAAAGAAAC
Found at i:101645686 original size:3 final size:3
Alignment explanation
Indices: 101645678--101645714 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
101645668 TAGGTAAATA
101645678 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
101645715 GGTAGTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101647560 original size:14 final size:14
Alignment explanation
Indices: 101647524--101647561 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
101647514 GCTTTTTATC
*
101647524 ATATATATATATAT
1 ATATATATTTATAT
101647538 ATATATATTTATAT
1 ATATATATTTATAT
101647552 A-ATAGTATTT
1 ATATA-TATTT
101647562 TAATTACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATATATATTTATAT
Found at i:101647655 original size:3 final size:3
Alignment explanation
Indices: 101647647--101647696 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
101647637 AAATCTAGTG
101647647 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101647695 AT
1 AT
101647697 AAATACACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:101659070 original size:40 final size:40
Alignment explanation
Indices: 101658993--101659210 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
101658983 AAACCAAGTA
* * *
101658993 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
101659032 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
101659072 CCTTCGGGACTTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
101659112 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
101659152 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
101659192 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
101659211 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 146 0.91
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:101662747 original size:73 final size:72
Alignment explanation
Indices: 101662591--101662747 Score: 203
Period size: 71 Copynumber: 2.2 Consensus size: 72
101662581 GGTATTCTGA
* *
101662591 TATTTTTATTTTTGCTTTTTAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TATTTTAATTTTTGCTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
101662656 GCTGAGG
66 GCTGAGG
* *
101662663 TATTTTCAATTTTTGC-TTTT-AAAATCACCTCATATTGTGAGAGGTGAGTTGAGCCTC-GGCTT
1 TATTTT-AATTTTTGCTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
*
101662725 ACACGCTGGGG
62 ACACGCTGAGG
101662736 TAATTTTAATTT
1 T-ATTTTAATTT
101662748 CTGTTCTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
70 2 0.03
71 34 0.45
72 10 0.13
73 24 0.32
74 5 0.07
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (72 bp):
TATTTTAATTTTTGCTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGG
Found at i:101662836 original size:89 final size:89
Alignment explanation
Indices: 101662683--101663252 Score: 541
Period size: 89 Copynumber: 6.4 Consensus size: 89
101662673 TTTTGCTTTT
* * * * *
101662683 AAAATCACCTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTTACACGCTGGGGTAATTTT-AATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT-ATTTTCAATT
101662747 TCTG-TTCTTCAATTTATGTTTCAAA
65 TCTGCTT-TTCAATTTATGTTTCAAA
**
101662772 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
*
101662837 ATGCTTTTTTCCAATTTATGCTTTTCAAA
66 CTGC--TTTT-CAATTTATG--TTTCAAA
* *
101662866 AAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAATT
*
101662928 TCTGCTTTTCAATTTCTGTTTTTCAAA
65 TCTGCTTTTCAATTTATG--TTTCAAA
* * *
101662955 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGG-ACACA--CTGAGGTATTTCCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAATT
* * ***
101663017 TCTGTTTTTTCAATTTATATTTTTCA
65 TCTG-CTTTTCAATTTATGTTTCAAA
* **
101663043 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT-GAGGTATTTTCAATT
* * * * *
101663107 TCTACTTTTTAAATTAAGTTTTAAA
65 TCTGCTTTTCAATTTATGTTTCAAA
* * * * * * * * *
101663132 AGAACCAACTCATATTGCAAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
* * **
101663197 CTG-TTTT-AATGTCTGTTTTTAA
66 CTGCTTTTCAATTTATGTTTCAAA
* * * **
101663219 AGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
101663253 TCAAGATCAC
Statistics
Matches: 406, Mismatches: 60, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
87 39 0.10
88 53 0.13
89 202 0.50
90 31 0.08
91 2 0.00
92 33 0.08
94 44 0.11
95 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (89 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATTT
CTGCTTTTCAATTTATGTTTCAAA
Found at i:101662861 original size:16 final size:16
Alignment explanation
Indices: 101662827--101662861 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
101662817 TGCTGAGGTA
101662827 TTTTCAATTTATGCTT
1 TTTTCAATTTATGCTT
101662843 TTTTCCAATTTATGCTT
1 TTTT-CAATTTATGCTT
101662860 TT
1 TT
101662862 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTCAATTTATGCTT
Found at i:101662938 original size:14 final size:14
Alignment explanation
Indices: 101662919--101662953 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
101662909 CGCTGAGGTA
101662919 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
101662933 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
101662947 TTTTCAA
1 TTTTCAA
101662954 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:101664292 original size:2 final size:2
Alignment explanation
Indices: 101664285--101664327 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
101664275 TGCACAGTAC
*
101664285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101664327 A
1 A
101664328 AAAGAAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:101665579 original size:2 final size:2
Alignment explanation
Indices: 101665572--101665607 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
101665562 TGCTTTTATC
101665572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101665608 ATAGTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101665710 original size:3 final size:3
Alignment explanation
Indices: 101665702--101665775 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
101665692 AAATCTAGTG
101665702 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101665750 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
101665776 ATAAATACAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:101666083 original size:26 final size:26
Alignment explanation
Indices: 101666036--101666085 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
101666026 TATTATCGTG
*
101666036 TTTAATATTGCATACGTTGTTATTGT
1 TTTAATATTGCATACGTAGTTATTGT
*
101666062 TTTAATATTATCAT-CGTAGTTATT
1 TTTAATATT-GCATACGTAGTTATT
101666086 ATTTGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (26 bp):
TTTAATATTGCATACGTAGTTATTGT
Found at i:101666901 original size:2 final size:2
Alignment explanation
Indices: 101666878--101666916 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
101666868 GATATGAATG
* *
101666878 TA TA -A TA TA CA TA TA CA 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
101666917 AACAGGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:101674083 original size:2 final size:2
Alignment explanation
Indices: 101674076--101674122 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
101674066 TAACATTAAT
101674076 TA TA TA TA TA TA 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
101674118 TA TA T
1 TA TA T
101674123 TTGTATTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101676017 original size:20 final size:20
Alignment explanation
Indices: 101675992--101676029 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
101675982 TTAATTTTTA
*
101675992 CTCTAAAAAATCAAAGAATG
1 CTCTAAAAAATAAAAGAATG
101676012 CTCTAAAAAATAAAAGAA
1 CTCTAAAAAATAAAAGAA
101676030 AATTTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.13, G:0.08, T:0.18
Consensus pattern (20 bp):
CTCTAAAAAATAAAAGAATG
Found at i:101678547 original size:26 final size:26
Alignment explanation
Indices: 101678501--101678553 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
101678491 TCAAACATGC
*
101678501 ATTTAGGTCAATTTAACCTTAGGGGT
1 ATTTAGGTCAATTTAACCTTAGAGGT
* *
101678527 ATTTCGGT-AATTTATCTCTTAGAGGT
1 ATTTAGGTCAATTTAAC-CTTAGAGGT
101678553 A
1 A
101678554 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCTTAGAGGT
Found at i:101680117 original size:26 final size:26
Alignment explanation
Indices: 101680037--101680120 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
101680027 CATGAAATTC
101680037 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
101680063 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
101680089 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
101680115 TTATCA
1 TTATCA
101680121 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:101682595 original size:12 final size:13
Alignment explanation
Indices: 101682570--101682618 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
101682560 CTGTTATGAG
101682570 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
101682583 TAGC-AAGTTTGT
1 TAGCTAAGTCTGT
*
101682595 TAGCTAAGTCTAT
1 TAGCTAAGTCTGT
101682608 TAGCTAAGTCT
1 TAGCTAAGTCT
101682619 ATAAATACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (13 bp):
TAGCTAAGTCTGT
Found at i:101687102 original size:13 final size:13
Alignment explanation
Indices: 101687086--101687134 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
101687076 CTGTTATGAG
101687086 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
101687099 TAGC-AAGTTTGT
1 TAGCTAAGTCTGT
101687111 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
101687124 TAGCTAAGTCT
1 TAGCTAAGTCT
101687135 ATAAATACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 11 0.33
13 22 0.67
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (13 bp):
TAGCTAAGTCTGT
Found at i:101691854 original size:2 final size:2
Alignment explanation
Indices: 101691847--101691881 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
101691837 GTAAATGTTT
101691847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101691882 GTATGTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101697711 original size:28 final size:28
Alignment explanation
Indices: 101697670--101697728 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
101697660 TTCGGCTATA
* *
101697670 TATGGCACCTAGTGTGCGAGATATCGAG
1 TATGACACCTAGTGTGCGAGACATCGAG
* *
101697698 TATGACACTTAGTGTGCGAGACATTGAG
1 TATGACACCTAGTGTGCGAGACATCGAG
101697726 TAT
1 TAT
101697729 TCAACGGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
TATGACACCTAGTGTGCGAGACATCGAG
Found at i:101698830 original size:65 final size:65
Alignment explanation
Indices: 101698685--101698832 Score: 217
Period size: 65 Copynumber: 2.3 Consensus size: 65
101698675 TTTCACACAT
* * *
101698685 GGGCGTGTGACTGGCCTTGTGGTACAAGTCAATATACCCCCTAATTGGCACACGGCCTAGCATAC
1 GGGCGTGTGACTGGCCGTGTGGTACAAGTCAATATACCCCCAAATTGGCACACGGCCTAGCAAAC
* * *
101698750 AGGTGTGTGACTGGCCGTGTGGTACAAGTCAGTATA-CCCCAAATTGGCACACGGCCTAGCAAAC
1 GGGCGTGTGACTGGCCGTGTGGTACAAGTCAATATACCCCCAAATTGGCACACGGCCTAGCAAAC
*
101698814 GGGCATGTGACTTGGCCGT
1 GGGCGTGTGAC-TGGCCGT
101698833 ATTGCATAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 34 0.47
65 39 0.53
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (65 bp):
GGGCGTGTGACTGGCCGTGTGGTACAAGTCAATATACCCCCAAATTGGCACACGGCCTAGCAAAC
Found at i:101698849 original size:65 final size:64
Alignment explanation
Indices: 101698690--101698853 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 64
101698680 CACATGGGCG
* * * * * * * **
101698690 TGTGACTGGCCTTGTGGTACAAGTCAATATACCCCCTAATTGGCACACGGCCTAGCATACAGGTG
1 TGTGACTGGCCGTATGGCACAAATCAGTATA-CCCCAAATTGGCACACGGCCTAGCAAACAGGCA
* * * *
101698755 TGTGACTGGCCGTGTGGTACAAGTCAGTATACCCCAAATTGGCACACGGCCTAGCAAACGGGCA
1 TGTGACTGGCCGTATGGCACAAATCAGTATACCCCAAATTGGCACACGGCCTAGCAAACAGGCA
* *
101698819 TGTGACTTGGCCGTATTGCATAAATCAGTATACCC
1 TGTGAC-TGGCCGTATGGCACAAATCAGTATACCC
101698854 TCCAGTTTTC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 34 0.40
65 52 0.60
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (64 bp):
TGTGACTGGCCGTATGGCACAAATCAGTATACCCCAAATTGGCACACGGCCTAGCAAACAGGCA
Found at i:101702430 original size:4 final size:4
Alignment explanation
Indices: 101702421--101702446 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
101702411 GATAAGTGCA
101702421 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
101702447 GTGATATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:101702491 original size:21 final size:22
Alignment explanation
Indices: 101702459--101702500 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
101702449 GATATTTCTT
*
101702459 TTCTTAAATTATGTTATTTATG
1 TTCTTAAATTATATTATTTATG
101702481 TTCTT-AATTATATTATTTAT
1 TTCTTAAATTATATTATTTAT
101702501 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (22 bp):
TTCTTAAATTATATTATTTATG
Found at i:101708391 original size:19 final size:19
Alignment explanation
Indices: 101708346--101708392 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
101708336 TTCATTATCA
*
101708346 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
101708365 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
101708384 AATAAAAAT
1 AATAAAAAT
101708393 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:101711319 original size:3 final size:3
Alignment explanation
Indices: 101711311--101711341 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
101711301 GTTGGAGCTC
101711311 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
101711342 TGCAGTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:101714429 original size:3 final size:3
Alignment explanation
Indices: 101714423--101714468 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
101714413 TTTTTCTCTT
101714423 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101714469 CATCATTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:101715476 original size:15 final size:15
Alignment explanation
Indices: 101715453--101715487 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
101715443 ATACCCATGG
* *
101715453 CCATTAAACCTTAAA
1 CCATAAAACCCTAAA
101715468 CCATAAAACCCTAAA
1 CCATAAAACCCTAAA
101715483 CCATA
1 CCATA
101715488 GACCTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (15 bp):
CCATAAAACCCTAAA
Found at i:101715674 original size:16 final size:15
Alignment explanation
Indices: 101715619--101715675 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
101715609 ATATGATGTT
*
101715619 TTTTAGGGTTTAAGG
1 TTTTAGGGTTTATGG
* *
101715634 TTTTAGGGGTTATAG
1 TTTTAGGGTTTATGG
*
101715649 -TTTAGTGTTTATGG
1 TTTTAGGGTTTATGG
101715663 TTTTTAGGGTTTA
1 -TTTTAGGGTTTA
101715676 AAGGTTAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 11 0.33
15 12 0.36
16 10 0.30
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
TTTTAGGGTTTATGG
Found at i:101715682 original size:37 final size:38
Alignment explanation
Indices: 101715641--101715713 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
101715631 AGGTTTTAGG
* * *
101715641 GGTTATAGTTTAGTGTTTATGGTTTTTA-GGGTTTAAA
1 GGTTAAAGATTAGTGTTTATGATTTTTAGGGGTTTAAA
101715678 GGTTAAAGATTAGTGTTTATGATTTTTAGGGGTTTA
1 GGTTAAAGATTAGTGTTTATGATTTTTAGGGGTTTA
101715714 GGGTTTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.49
Consensus pattern (38 bp):
GGTTAAAGATTAGTGTTTATGATTTTTAGGGGTTTAAA
Found at i:101715815 original size:41 final size:41
Alignment explanation
Indices: 101715756--101716011 Score: 327
Period size: 41 Copynumber: 6.3 Consensus size: 41
101715746 TTTTGACCAT
* *
101715756 AAACACCGCTATTGCTCTGGTTTTTAGCGGAGTTTTTGGTA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
****
101715797 AAACGCCGCTATTGCTCT-GTTTTTAGCGGCGTTTTCCCAA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
* * ****
101715837 AAATGCCGCTATTGCTCTTGTTTTTAGCGGCGTTTTACCAA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
* * * *
101715878 AAACGCTGCTATTGCCCTGGTTTTTAGTGGCGTTTTTAGTA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
*
101715919 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGATTTTGGTA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
*
101715960 AAACGCCGCTATTGCTCT-GCTTTTAGCGGCGTTTTTGGTAA
1 AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGT-A
101716001 AAACGCCGCTA
1 AAACGCCGCTA
101716012 ATGTACAATT
Statistics
Matches: 189, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 53 0.28
41 136 0.72
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
AAACGCCGCTATTGCTCTGGTTTTTAGCGGCGTTTTTGGTA
Found at i:101715913 original size:122 final size:123
Alignment explanation
Indices: 101715734--101715994 Score: 375
Period size: 122 Copynumber: 2.1 Consensus size: 123
101715724 GGTTATATGA
* * *
101715734 CTTTTAGCGGCGTTTTGACCATAAACACCGCTATTGCTCTGGTTTTTAGCGGAGTTTTTGGTAAA
1 CTTTTAGCGGCGTTTTGACCAAAAACACCGCTATTGCCCTGGTTTTTAGCGGAGTTTTTAGTAAA
*
101715799 ACGCCGCTATTGCTCT-GTTTTTAGCGGCG-TTTTCCCAAAAATGCCGCTATTGCTCTTG
66 ACGCCGCTATTGCTCTGGTTTTTAGCGGCGATTTT-CCAAAAACGCCGCTATTGCTC-TG
* * * * *
101715857 TTTTTAGCGGCGTTTT-ACCAAAAACGCTGCTATTGCCCTGGTTTTTAGTGGCGTTTTTAGTAAA
1 CTTTTAGCGGCGTTTTGACCAAAAACACCGCTATTGCCCTGGTTTTTAGCGGAGTTTTTAGTAAA
***
101715921 ACGCCGCTATTGCTCTGGTTTTTAGCGGCGATTTTGGTAAAACGCCGCTATTGCTCTG
66 ACGCCGCTATTGCTCTGGTTTTTAGCGGCGATTTTCCAAAAACGCCGCTATTGCTCTG
101715979 CTTTTAGCGGCGTTTT
1 CTTTTAGCGGCGTTTT
101715995 TGGTAAAAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
122 74 0.60
123 45 0.37
124 4 0.03
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (123 bp):
CTTTTAGCGGCGTTTTGACCAAAAACACCGCTATTGCCCTGGTTTTTAGCGGAGTTTTTAGTAAA
ACGCCGCTATTGCTCTGGTTTTTAGCGGCGATTTTCCAAAAACGCCGCTATTGCTCTG
Found at i:101720260 original size:240 final size:240
Alignment explanation
Indices: 101719963--101720443 Score: 899
Period size: 240 Copynumber: 2.0 Consensus size: 240
101719953 AATAAGTATG
* * *
101719963 AATTAATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAATAATAGCTGACCTTCTCAC
1 AATTAATTTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTCCTCAC
*
101720028 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTAACGGGTTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTAACGGATTGCCTTA
101720093 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
101720158 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
196 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
* *
101720203 AATTAATTTTATTACCATATAGCTTGCTTGTCCATTAAACTTACAACAATAGCTGACCTCCTCTC
1 AATTAATTTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTCCTCAC
*
101720268 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGATTGCCTTA
66 CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTAACGGATTGCCTTA
101720333 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
131 TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
101720398 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
196 AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
101720443 A
1 A
101720444 TTGAATATTT
Statistics
Matches: 234, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 234 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (240 bp):
AATTAATTTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTCCTCAC
CAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTAACGGATTGCCTTA
TATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAA
AAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
Found at i:101723617 original size:39 final size:39
Alignment explanation
Indices: 101723565--101723681 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
101723555 TAAATTACAT
*
101723565 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
101723604 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
101723643 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
101723682 TCACATAACG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:101723638 original size:48 final size:47
Alignment explanation
Indices: 101723559--101723712 Score: 182
Period size: 48 Copynumber: 3.2 Consensus size: 47
101723549 CTTAAATAAA
* * *
101723559 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
101723607 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * *
101723655 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
101723703 TTACATAACT
1 TTACATAACT
101723713 AATACATGTA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 79 0.91
49 4 0.05
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:101723700 original size:57 final size:57
Alignment explanation
Indices: 101723548--101723712 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 57
101723538 ATTGATCATT
* * * *
101723548 ACTTAAATAAATTACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
101723605 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
101723662 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
101723713 AATACATGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 72 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:101723710 original size:39 final size:37
Alignment explanation
Indices: 101723548--101723699 Score: 202
Period size: 39 Copynumber: 4.1 Consensus size: 37
101723538 ATTGATCATT
* * *
101723548 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
101723584 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
101723623 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
101723662 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
101723698 AC
1 AC
101723700 AACTTACATA
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 74 0.69
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:101723712 original size:9 final size:9
Alignment explanation
Indices: 101723548--101723699 Score: 151
Period size: 9 Copynumber: 16.2 Consensus size: 9
101723538 ATTGATCATT
*
101723548 ACTTAAATA
1 ACTTACATA
*
101723557 AATTACATA
1 ACTTACATA
101723566 ACTTACATA
1 ACTTACATA
* *
101723575 ACTCATATA
1 ACTTACATA
101723584 ACTTACATA
1 ACTTACATA
*
101723593 ATTTACATAACA
1 ACTTACAT---A
101723605 ACTTACATA
1 ACTTACATA
*
101723614 ACTCACATA
1 ACTTACATA
101723623 ACTTACATA
1 ACTTACATA
*
101723632 ATTTACATAACA
1 ACTTACAT---A
101723644 ACTTACATA
1 ACTTACATA
*
101723653 ACTCACATA
1 ACTTACATA
101723662 ACTTACATA
1 ACTTACATA
*
101723671 ATTTACATA
1 ACTTACATA
*
101723680 ACTCACATA
1 ACTTACATA
*
101723689 ACGTACATA
1 ACTTACATA
101723698 AC
1 AC
101723700 AACTTACATA
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
9 101 0.86
12 16 0.14
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:101729285 original size:21 final size:21
Alignment explanation
Indices: 101729259--101729306 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
101729249 TCAACTCAGA
*
101729259 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
101729280 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
101729301 GCGGAG
1 GCGGAG
101729307 CAGAACAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:101731533 original size:18 final size:18
Alignment explanation
Indices: 101731499--101731546 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
101731489 ACTAACAAAT
*
101731499 AATTC-AAAAATTATAAA
1 AATTCAAAAAAATATAAA
*
101731516 AATTCAAAAAAATGTAAA
1 AATTCAAAAAAATATAAA
* *
101731534 TATTCATAAAAAT
1 AATTCAAAAAAAT
101731547 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
AATTCAAAAAAATATAAA
Found at i:101735966 original size:2 final size:2
Alignment explanation
Indices: 101735959--101736004 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
101735949 ATAGTCTTCT
101735959 TA TA TA TA TA TA 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
101736001 TA TA
1 TA TA
101736005 AGCATGTTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101737153 original size:132 final size:132
Alignment explanation
Indices: 101736846--101737214 Score: 444
Period size: 132 Copynumber: 2.8 Consensus size: 132
101736836 AGTATTCACT
* * * *
101736846 TAAAAATTCTTTAAAACGAAGTCGAGATTCGACATTTGGCAATTCGCGGAAT-AGTGCCCTAACG
1 TAAAAATTCTTTAAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCA-TGCCCTAACG
* * * * * *
101736910 TGTTGGGTTACAATTTCGCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCC
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACGCATGCC
*
101736975 TTT
130 TTC
* * * *
101736978 TAAAAATTCTTTAAAATGGAGGCGATGTGCGATATTTGGCAATTCGTGGAATCATGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCATGCCCTAACGT
* * *
101737043 GCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCACGCATGTCT
66 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACGCATGCCT
101737108 TC
131 TC
* *
101737110 TAAAAA-TCATTTAAAACGAAGGCAATATTCGATGA-TTGACAATT--TAGGAATCATGCCCTAT
1 TAAAAATTC-TTTAAAACGAAGGCGATATTCGAT-ATTTGGCAATTCGT-GGAATCATGCCCTA-
** *
101737171 A-GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT
62 ACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATAT
101737215 TCCTTTAGGT
Statistics
Matches: 203, Mismatches: 29, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
130 1 0.00
131 54 0.27
132 146 0.72
133 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCATGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACGCATGCCT
TC
Found at i:101745325 original size:46 final size:46
Alignment explanation
Indices: 101745131--101745345 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 46
101745121 TGGTTGGACC
*
101745131 ATGGCATCA-TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCT
* * * * *
101745178 ATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATATC-CGGAT
1 ATGGCATC--AG---TGTGATATGTG-ATCCGTATAAGACCATAGCTGGGCT
* * * ** *
101745229 ATGGCATCGGTGTGATATGTGCTACTGTATAAGACCATATATGGGAT
1 ATGGCATCAGTGTGATATGTGAT-CCGTATAAGACCATAGCTGGGCT
* *
101745276 ATGGCATCAGTGTGATATGTGATCCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGATCCGTATAAGACCATAGCTGGGCT
* *
101745322 ATGGCCTCGGTATGTGATATGTGA
1 ATGGCATCAG--TGTGATATGTGA
101745346 CTATGTGCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 51 0.38
47 32 0.24
48 12 0.09
49 2 0.01
51 10 0.07
52 17 0.13
53 10 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
ATGGCATCAGTGTGATATGTGATCCGTATAAGACCATAGCTGGGCT
Found at i:101752834 original size:132 final size:132
Alignment explanation
Indices: 101752606--101753409 Score: 1123
Period size: 132 Copynumber: 6.1 Consensus size: 132
101752596 CGAATCCTAC
* * *
101752606 AGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAAATCGAAGACGGTGAATCTTA-GCTTCCTGAAG
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATC-TAGGCTTCCTG-AG
* * ** * *
101752670 -TTGTAGTAAAGCAGATGGGAACCACCAACCTAGCTCCCTAAAGTTGTAGTGGAATAGGTTGAAA
64 TTTGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAA
101752734 TTTT
129 TTTT
* *
101752738 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAAGCTTCCTAAGTT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
* * *
101752803 TGCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAATTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
101752868 TT
131 TT
* *
101752870 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTTCTGAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
101752935 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
101753000 TT
131 TT
*
101753002 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
* * *
101753067 TGCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTGGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
101753132 TT
131 TT
* * * * *
101753134 AGATCTCGTTTCCCTAAAGTTACAGTGGAGCAGATCAAAGACGGTGAATCTAGGCTTCTTGAGAT
1 AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
* * * *
101753199 TGCAGTGAGGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTAGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAA-AT
*
101753264 TGT
130 TTT
* * * *
101753267 AGATCTTGTTTCCCTG-AGATTGCAGTGGAACAGATCAAAGACGGTAAATCTAGGCTTCCTGA-T
1 AGATCTCGTTTCCCTGAAG-TTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGT
* * * * * *
101753330 GTTGCAGCGAAGCAGGTTT-ACGCCACCGACCTGGCTCCCTAAAAATTGTAGTGGAGTAGGCTGA
65 -TTGCAGTGAAGCAGATTTGA-GCCACCAACCTAGCTCCCT-AAAGTTGTAGTGGAGTAGGTTGA
**
101753394 AGATTGC
127 A-ATTTT
101753401 AGATCTCGT
1 AGATCTCGT
101753410 CTCCAGTAGA
Statistics
Matches: 609, Mismatches: 56, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
131 4 0.01
132 481 0.79
133 89 0.15
134 35 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (132 bp):
AGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGTT
TGCAGTGAAGCAGATTTGAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
TT
Found at i:101755994 original size:2 final size:2
Alignment explanation
Indices: 101755987--101756012 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101755977 TAGTCTTCTT
101755987 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
101756013 AGCATGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101757036 original size:132 final size:131
Alignment explanation
Indices: 101756882--101757226 Score: 408
Period size: 132 Copynumber: 2.6 Consensus size: 131
101756872 ATACGAGATT
* * * * *
101756882 CGATATTTGGCAATTAGCGGAATAGTGCCTTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 CGATATTTGGCAATTCG-GGAATAGTGCCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTCAAA
* * * * *
101756947 ATAATCGAATATCCCTTCAAAATTTCACTCATGCCTTTTAAAAATTC-TTTAAAATGGAGGCGAT
65 ATAATCGAATATCCCTTCAAAATTTCACGCATGCCTTCTAAAAA-TCATTTAAAACGAAGGCAAT
*
101757011 GTG
129 ATG
* * *
101757014 CGATATTTGGCAATTCGTGGAATCGTACCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTTAAA
1 CGATATTTGGCAATTCG-GGAATAGTGCCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTCAAA
* * *
101757079 ATAATCAAATATCCCTCCAAAATTTCACGCATGTCTTCTAAAAATCATTTAAAACGAAGGCAATA
65 ATAATCGAATATCCCTTCAAAATTTCACGCATGCCTTCTAAAAATCATTTAAAACGAAGGCAATA
*
101757144 TT
130 TG
* * * *
101757146 CGGTGA-TTGACAATTCGGGAATCA-TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAA
1 CGAT-ATTTGGCAATTCGGGAAT-AGTGCCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTCAA
* *
101757209 AACAATCGAATATTCCTT
64 AATAATCGAATATCCCTT
101757227 TAGGTTTTCA
Statistics
Matches: 180, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
131 56 0.31
132 123 0.68
133 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
CGATATTTGGCAATTCGGGAATAGTGCCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTCAAAA
TAATCGAATATCCCTTCAAAATTTCACGCATGCCTTCTAAAAATCATTTAAAACGAAGGCAATAT
G
Found at i:101757365 original size:129 final size:132
Alignment explanation
Indices: 101757114--101757451 Score: 309
Period size: 129 Copynumber: 2.6 Consensus size: 132
101757104 CACGCATGTC
* * * * * * * *
101757114 TTCTAAAAATCATTTAAAACGAAGGCAA-TATTCGGTGATTGACAATTCGG-GAATCA-TGCCCT
1 TTCTAAAAACCCTTTAAAACGAAAG-AAGTGTTCGATGCTTGGCAGTTCGGAGAAT-AGTGCCCT
* * * * * * * *
101757176 ATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCA
64 ATCGTGCTGGGTTGCGATTTCTCATTCGCCCAAAACAATCGAAGATCCCTTGAAGTTTTCACTCA
*
101757241 TGTT
129 CGTT
* * * * *
101757245 TAT-TAAAAA-CCTTTCAAAAC-AAAGGA-TGTTCGATGTTTGGC-GATT-TGAGAATTGTGCCA
1 T-TCTAAAAACCCTTT-AAAACGAAAGAAGTGTTCGATGCTTGGCAG-TTCGGAGAATAGTGCCC
* * * *
101757304 TATCGTGCTGGGTTGCGTTTTTTCATTCGCCCTAAACAATCGAAGATCCCTTCGAAG-TTTCATT
63 TATCGTGCTGGGTTGCGATTTCTCATTCGCCCAAAACAATCGAAGATCCCTT-GAAGTTTTCACT
101757368 CACGTT
127 CACGTT
*
101757374 TTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGCTTGGCAGTTCGGGGAATAGTGCCCTAT
1 TTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGCTTGGCAGTTCGGAGAATAGTGCCCTAT
101757439 CGTGCTGGGTTGC
66 CGTGCTGGGTTGC
101757452 AATCTCCCGT
Statistics
Matches: 165, Mismatches: 30, Indels: 23
0.76 0.14 0.11
Matches are distributed among these distances:
128 2 0.01
129 88 0.53
130 19 0.12
131 28 0.17
132 28 0.17
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (132 bp):
TTCTAAAAACCCTTTAAAACGAAAGAAGTGTTCGATGCTTGGCAGTTCGGAGAATAGTGCCCTAT
CGTGCTGGGTTGCGATTTCTCATTCGCCCAAAACAATCGAAGATCCCTTGAAGTTTTCACTCACG
TT
Found at i:101768236 original size:21 final size:19
Alignment explanation
Indices: 101768196--101768235 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
101768186 TCCCTTAGAA
101768196 AGTTTTTTTAGAAGGAGAG
1 AGTTTTTTTAGAAGGAGAG
101768215 AGTTTTTTTAGAAGGAGAG
1 AGTTTTTTTAGAAGGAGAG
101768234 AG
1 AG
101768236 ATTTGAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (19 bp):
AGTTTTTTTAGAAGGAGAG
Found at i:101768729 original size:15 final size:15
Alignment explanation
Indices: 101768709--101768760 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
101768699 ACTACAAAAC
101768709 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
101768724 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
101768743 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
101768758 ATT
1 ATT
101768761 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:101768829 original size:14 final size:13
Alignment explanation
Indices: 101768793--101768831 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
101768783 ATGTGAATAA
101768793 TATTATTAAAAAT
1 TATTATTAAAAAT
*
101768806 TATTTTTTAAAAATT
1 TA-TTATTAAAAA-T
101768821 TATTATTAAAA
1 TATTATTAAAA
101768832 TAAAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTATTAAAAAT
Found at i:101768877 original size:21 final size:20
Alignment explanation
Indices: 101768852--101768895 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
101768842 ATATTAAATA
101768852 ATTTATT-TAAATAATAATTAT
1 ATTTATTAT-AATAATAATT-T
*
101768873 ATTTATTATATTAATAATTT
1 ATTTATTATAATAATAATTT
101768893 ATT
1 ATT
101768896 ATATGACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 16 0.76
22 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTATAATAATAATTT
Found at i:101769292 original size:14 final size:13
Alignment explanation
Indices: 101769273--101769312 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
101769263 AGAAAAAAGT
101769273 AAATCATTTTGCAG
1 AAATCATTTT-CAG
*
101769287 AAATCATTTTCCG
1 AAATCATTTTCAG
101769300 AAAGTCATTTTCA
1 AAA-TCATTTTCA
101769313 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:101777016 original size:6 final size:6
Alignment explanation
Indices: 101777005--101777034 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
101776995 ATTCGATATT
101777005 CAGTTA CAGTTA CAGTTA CAGTTA CAGTTA
1 CAGTTA CAGTTA CAGTTA CAGTTA CAGTTA
101777035 GCTTTCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
CAGTTA
Found at i:101781478 original size:12 final size:12
Alignment explanation
Indices: 101781461--101781487 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
101781451 CTACATATTT
101781461 TTATTTAATATG
1 TTATTTAATATG
101781473 TTATTTAATATG
1 TTATTTAATATG
101781485 TTA
1 TTA
101781488 ACTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (12 bp):
TTATTTAATATG
Found at i:101783129 original size:20 final size:19
Alignment explanation
Indices: 101783103--101783153 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
101783093 AAGGCATTCA
101783103 TATTTTTCTAACATTATTT
1 TATTTTTCTAACATTATTT
* **
101783122 TCATTTTTCTTATTTTATTT
1 T-ATTTTTCTAACATTATTT
101783142 T-TTTTTCTAACA
1 TATTTTTCTAACA
101783154 AAAAAATGTC
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTCTAACATTATTT
Found at i:101783182 original size:21 final size:21
Alignment explanation
Indices: 101783158--101783199 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
101783148 CTAACAAAAA
101783158 AATGTCATATCGTCAAAGAGG
1 AATGTCATATCGTCAAAGAGG
*
101783179 AATGTTATATCGTCAAAGAGG
1 AATGTCATATCGTCAAAGAGG
101783200 GAATCGTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (21 bp):
AATGTCATATCGTCAAAGAGG
Found at i:101786730 original size:95 final size:95
Alignment explanation
Indices: 101786567--101786759 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
101786557 AAGATACTCA
101786567 CAGATCATGCGGCATGTATGCAATTCAAGAGGAAACCAGGTCGTCTACCATTTCGTCAACTAAAG
1 CAGATCATGCGGCATGTATGCAATTCAAGAGGAAACCAGGTCGTCTACCATTTCGTCAACTAAAG
101786632 TTTGAACAATATCCCAGCCCATTTCAGCAC
66 TTTGAACAATATCCCAGCCCATTTCAGCAC
101786662 CAGATCATGCGGCATGTATGCAATTCAAGAGGAAACCAGGTCGTCTACCATTTCGTCAACTAAAG
1 CAGATCATGCGGCATGTATGCAATTCAAGAGGAAACCAGGTCGTCTACCATTTCGTCAACTAAAG
101786727 TTTGAACAATATCCCAGCCCATTTCAGCAC
66 TTTGAACAATATCCCAGCCCATTTCAGCAC
101786757 CAG
1 CAG
101786760 TTTCGTATGC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (95 bp):
CAGATCATGCGGCATGTATGCAATTCAAGAGGAAACCAGGTCGTCTACCATTTCGTCAACTAAAG
TTTGAACAATATCCCAGCCCATTTCAGCAC
Found at i:101799287 original size:16 final size:16
Alignment explanation
Indices: 101799266--101799299 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101799256 CCAATATCCA
* *
101799266 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
101799282 ATTATCACATTTACAC
1 ATTATCACATTTACAC
101799298 AT
1 AT
101799300 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:101799345 original size:2 final size:2
Alignment explanation
Indices: 101799338--101799367 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
101799328 TACATTCATA
101799338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101799368 CAATTCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101799841 original size:12 final size:12
Alignment explanation
Indices: 101799824--101799848 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101799814 TTACTCAAAA
101799824 TTTACAATTTAT
1 TTTACAATTTAT
101799836 TTTACAATTTAT
1 TTTACAATTTAT
101799848 T
1 T
101799849 CCTTTTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTACAATTTAT
Found at i:101803604 original size:2 final size:2
Alignment explanation
Indices: 101803597--101803627 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
101803587 CAAATTCATA
101803597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101803628 AATCAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101803817 original size:27 final size:26
Alignment explanation
Indices: 101803786--101803845 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
101803776 ATTTTTTCTA
*
101803786 ATTTTTAAT-AAATTTAAGTATTTTTAT
1 ATTTTTAATAAAATTTAA-TAATTTT-T
*
101803813 ATTTTTATTAAAATTTAATAATTTTT
1 ATTTTTAATAAAATTTAATAATTTTT
101803839 ATTTTTA
1 ATTTTTA
101803846 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 8 0.27
27 14 0.47
28 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTAATAAAATTTAATAATTTTT
Found at i:101803840 original size:28 final size:28
Alignment explanation
Indices: 101803731--101803838 Score: 96
Period size: 28 Copynumber: 3.8 Consensus size: 28
101803721 TATATTTAGG
*
101803731 TTTATTAAAATTTTATAATTTTTCTATATT
1 TTTATT-AAATTTAATAATTTTT-TATATT
* * * *
101803761 TCTA-TATATTTTATAATTTTTTCTAATT
1 TTTATTAAATTTAATAATTTTTTAT-ATT
*
101803789 TTTAATAAATTTAAGT-A-TTTTTATATT
1 TTTATTAAATTTAA-TAATTTTTTATATT
101803816 TTTATTAAAATTTAATAATTTTT
1 TTTATT-AAATTTAATAATTTTT
101803839 ATTTTTATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
27 11 0.17
28 36 0.56
29 13 0.20
30 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTATTAAATTTAATAATTTTTTATATT
Found at i:101804716 original size:17 final size:17
Alignment explanation
Indices: 101804691--101804732 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
101804681 TTTAATTTTA
*
101804691 TATTCATAATTATATTG
1 TATTTATAATTATATTG
* *
101804708 TATTTATAATTCTCTTG
1 TATTTATAATTATATTG
101804725 TATTTATA
1 TATTTATA
101804733 CTTACAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTTATAATTATATTG
Found at i:101806133 original size:3 final size:3
Alignment explanation
Indices: 101806125--101806149 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101806115 TCTAACTCAA
101806125 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
101806150 TTAATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:101810086 original size:23 final size:22
Alignment explanation
Indices: 101810059--101810110 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
101810049 TACATTACAC
*
101810059 TATTTTTTAAAATTTATGTATAT
1 TATTTTTT-AAATTAATGTATAT
101810082 TATTTATTTAAATTAATGTATAT
1 TATTT-TTTAAATTAATGTATAT
101810105 TATTTT
1 TATTTT
101810111 GTATATTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 23 0.85
24 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTTTTTAAATTAATGTATAT
Found at i:101825826 original size:39 final size:41
Alignment explanation
Indices: 101825780--101825869 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 41
101825770 AAAAATTATA
* * *
101825780 TTTAATATAATAAAATATTTATTATGTTTAT-TTA-TGTTT
1 TTTAATATAATAAAATATTTATTATATTCATAATAGTGTTT
101825819 TTTAATATAATAAAATATTTATTATATTCATAATAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTCATAATAGTGTTT
101825860 TTTAATATAA
1 TTTAATATAA
101825870 ATATTTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.63
40 2 0.04
41 15 0.33
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATTCATAATAGTGTTT
Done.