Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 136 of 352
Found at i:44032837 original size:23 final size:23
Alignment explanation
Indices: 44032778--44032829 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
44032768 TAAATATATA
*
44032778 AAAAATA-AAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
44032800 AAAAATATTAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
44032823 AAGAAAT
1 AA-AAAT
44032830 GATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAAATATTAAATAAAACAAAAT
Found at i:44032839 original size:3 final size:3
Alignment explanation
Indices: 44032831--44033163 Score: 257
Period size: 3 Copynumber: 110.3 Consensus size: 3
44032821 ATAAGAAATG
* * *
44032831 ATA ATA ATA ATAA ATA ATA ACA AGA GTA A-A A-A ATA A-A ATA A-A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
44032873 ATA ATA GTA ATG ATA ATG ATA ATA ATG ATA ATAA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
44032919 ATA ATA ATG ATA ATAA ATA ATA GTA AAA ATA ATA ATA ATA ATA CTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
44032965 ACA ATA ATA ATG ATA ATAA ATA ATA ATA GTA A-A A-A ATA ATA ACA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
44033009 ATA ACA GTA ATA ATA ATG ATA ATA ATTA ATT GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * *
44033055 TATA ATA ATA ATAA ATA ATA ATA GTA A-A TATA ATA ATA GTA AAA ATA
1 -ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
44033102 ATA ATA ATA ATA GTA ATA ATA ATA ATG ATG ATG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
44033148 GTA AAA ATA ATG ATA A
1 ATA ATA ATA ATA ATA A
44033164 AATTAATTAA
Statistics
Matches: 259, Mismatches: 57, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
2 13 0.05
3 221 0.85
4 25 0.10
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:44033851 original size:13 final size:13
Alignment explanation
Indices: 44033828--44033864 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
44033818 AAACAGATTC
44033828 GAAAAAG-AAAAA
1 GAAAAAGAAAAAA
44033840 G-AAAAGAAAAAA
1 GAAAAAGAAAAAA
44033852 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
44033865 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 7 0.30
13 11 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:44033880 original size:6 final size:6
Alignment explanation
Indices: 44033828--44033863 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
44033818 AAACAGATTC
44033828 GAAAAA GAAAAA G-AAAA GAAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA G-AAAAA GAAAAA GAAAAA
44033864 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:44034192 original size:155 final size:155
Alignment explanation
Indices: 44034005--44034316 Score: 597
Period size: 155 Copynumber: 2.0 Consensus size: 155
44033995 TTTATAGTCA
*
44034005 TTACATTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
1 TTACAGTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
44034070 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAAGAA
66 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAAGAA
44034135 CGGCGGCAGACCTAAGGGCTAGGGT
131 CGGCGGCAGACCTAAGGGCTAGGGT
44034160 TTACAGTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
1 TTACAGTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
* *
44034225 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAGGAG
66 TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAAGAA
44034290 CGGCGGCAGACCTAAGGGCTAGGGT
131 CGGCGGCAGACCTAAGGGCTAGGGT
44034315 TT
1 TT
44034317 TTTCTAAAAA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 154 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.39
Consensus pattern (155 bp):
TTACAGTACATATTATTTTTATTACTTTTTTCTATTGTTCTTGTACTTGATGTTTGCGTGTTTCT
TCTTCTCTTTTGCAGGTACAGTTGGTGGCAGAGTAGTTGGTATGACGGTGGCAGCAAGCTAAGAA
CGGCGGCAGACCTAAGGGCTAGGGT
Found at i:44034690 original size:44 final size:44
Alignment explanation
Indices: 44034641--44035144 Score: 413
Period size: 44 Copynumber: 11.5 Consensus size: 44
44034631 TTCACTCTAT
* * * *
44034641 TGCAACTTCAGAGAGATAAGACTTGTAGCTTAAATCTGCTCCGC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * * *
44034685 TGCAACTTCAGGGAGATAAGAATAGTAACTTCATTCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * * * *
44034729 TGCATCTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
44034773 TGCAACTTCAGAGAGATAAGATTTGTTATCTTTAATCTGTTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGCTCCAC
* * * ** * *
44034818 TGTACCTTCAGGGAGATAAGACCTATAACTTCAATATGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * *
44034862 TGTAACTTCAGAGAGATAAGGTTTGCTATCTTCAATCTACTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGCTCCAC
** * * * * * *
44034907 TATAACTTCAGGGAGTTGAGATTCGTAATTTCAACCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * *
44034951 CGCAACTTCAGGGAGATAAGGTTTGTAACTTCAATCTACTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * * ** ** *
44034995 TGCATCTTTAGAAAGATAAGATTTGT--GGT-AATCCACTCCTC
1 TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
* * *
44035036 TACAACTTCAGAG-GTATGAGATTTGTAACTTCAATCTACTCCAC
1 TGCAACTTCAGAGAG-ATAAGATTTGTAACTTCAATCTGCTCCAC
** ** * *
44035080 TGCAACTTCAGAGAGATAAGATTTGTTATTTTTGACCTACTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAACTTCAATCTGCTCCAC
*
44035125 TGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAG
44035145 GCTTGCCATA
Statistics
Matches: 363, Mismatches: 89, Indels: 15
0.78 0.19 0.03
Matches are distributed among these distances:
40 1 0.00
41 29 0.08
42 1 0.00
43 1 0.00
44 226 0.62
45 105 0.29
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCAC
Found at i:44034859 original size:89 final size:89
Alignment explanation
Indices: 44034644--44035100 Score: 345
Period size: 89 Copynumber: 5.2 Consensus size: 89
44034634 ACTCTATTGC
* * * * * * * *
44034644 AACTTCAGAGAGATAAGACTTGTAGCTTAAATCTGCTCCGCTGCAACTTCAGGGAGATAAGAATA
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* * * *
44034709 G-TAACTTCATTCTGCTCTACTGC
66 GTTATCTTCAATCTGCTCCACTGT
* ** * *
44034732 ATCTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* *
44034797 GTTATCTTTAATCTGTTCCACTGT
66 GTTATCTTCAATCTGCTCCACTGT
* * * * *
44034821 ACCTTCAGGGAGATAAGACCTATAACTTCAATATGCTCCACTGTAACTTCAGAGAGATAAGGTTT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
* * *
44034886 GCTATCTTCAATCTACTCCACTAT
66 GTTATCTTCAATCTGCTCCACTGT
* * * * * * * *
44034910 AACTTCAGGGAGTTGAGA-TTCGTAATTTCAACCTGCTCCACCGCAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTT-ATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
* * *
44034974 TG-TAACTTCAATCTACTCCACTGC
65 TGTTATCTTCAATCTGCTCCACTGT
* * ** **** ** * * *
44034998 ATCTTTAGAAAGATAAGA-TT-TGTGGT-AATCCACTCCTCTACAACTTCAGAG-GTATGAGATT
1 AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAG-ATAAGATT
* * *
44035059 TG-TAACTTCAATCTACTCCACTGC
65 TGTTATCTTCAATCTGCTCCACTGT
*
44035083 AACTTCAGAGAGATAAGA
1 AACTTCAGGGAGATAAGA
44035101 TTTGTTATTT
Statistics
Matches: 300, Mismatches: 66, Indels: 9
0.80 0.18 0.02
Matches are distributed among these distances:
84 1 0.00
85 63 0.21
86 2 0.01
88 90 0.30
89 144 0.48
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (89 bp):
AACTTCAGGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
GTTATCTTCAATCTGCTCCACTGT
Found at i:44034871 original size:133 final size:134
Alignment explanation
Indices: 44034641--44035100 Score: 418
Period size: 133 Copynumber: 3.5 Consensus size: 134
44034631 TTCACTCTAT
* * *
44034641 TGCAACTTCAGAGAGATAAGACTTG-TAGCTTAAATCTGCTCCGCTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
44034705 AATAGTAACTTCATTCTGCTCTACTGCATCTTCAGGGAGATAAGGTTT-ATAGCTTTAATCTGCT
66 AATAGTAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTTGATAGCTTCAATCTACT
44034769 CCAC
131 CCAC
* * * *
44034773 TGCAACTTCAGAGAGATAAGATTTGTTATCTTTAATCTGTTCCACTGTACCTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
44034838 ACCTA-TAACTTCAATATGCTCCACTGTAACTTCAGAGAGATAAGGTTTGCTATCTTCAATCTAC
66 A-ATAGTAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTTGATAGCTTCAATCTAC
44034902 TCCAC
130 TCCAC
** * * * * * * * *
44034907 TATAACTTCAGGGAGTTGAGATTCGTAAT-TTCAACCTGCTCCACCGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * * * * * * *
44034971 GTTTGTAACTTCAATCTACTCCACTGCATCTTTAGAAAGATAAGATTTG-T-G-GT-AATCCACT
66 AATAGTAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTTGATAGCTTCAATCTACT
*
44035032 CCTC
131 CCAC
* * * * * *
44035036 TACAACTTCAGAG-GTATGAGATTTG-TAACTTCAATCTACTCCACTGCAACTTCAGAGAGATAA
1 TGCAACTTCAGAGAG-ATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAA
44035099 GA
65 GA
44035101 TTTGTTATTT
Statistics
Matches: 266, Mismatches: 56, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
128 2 0.01
129 60 0.23
130 1 0.00
132 26 0.10
133 137 0.52
134 40 0.15
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (134 bp):
TGCAACTTCAGAGAGATAAGATTTGTTATCTTAAATCTGCTCCACTGCAACTTCAGGGAGATAAG
AATAGTAACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGGTTTGATAGCTTCAATCTACT
CCAC
Found at i:44035325 original size:44 final size:44
Alignment explanation
Indices: 44035264--44035377 Score: 174
Period size: 44 Copynumber: 2.6 Consensus size: 44
44035254 CTTCTACCTG
*
44035264 CTCCACTACAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
* * *
44035308 CTCTACTGCAACTTCAGGGAGATAACGTTAATGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
* *
44035352 CTCCACTGTAACTTCGGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
44035378 ATTCGCCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTA
Found at i:44039456 original size:67 final size:67
Alignment explanation
Indices: 44039348--44039482 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
44039338 TTGTCTACTA
* *
44039348 AGGTGTCGATATGGGGCAATGGAAAATTTTCTTTCAAGTTGGCTTTGTTCAAATCCCTATAGTCT
1 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCTTTGTTCAAATCCCTATAGTCT
44039413 AT
66 AT
*
44039415 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCTTTGTTCAAATCCCTATAGTTT
1 AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCTTTGTTCAAATCCCTATAGTCT
44039480 AT
66 AT
44039482 A
1 A
44039483 CACATCCGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (67 bp):
AGGTGTCGATATGGGGCAATGAAAAATTATCTTTCAAGTTGGCTTTGTTCAAATCCCTATAGTCT
AT
Found at i:44042587 original size:16 final size:15
Alignment explanation
Indices: 44042546--44042593 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
44042536 AAGCTAATTG
* *
44042546 TAAAATAAATAAATA
1 TAAAAAAAATAAAAA
*
44042561 TATAAAAAATAAAAA
1 TAAAAAAAATAAAAA
44042576 TAAAACAAAATAAAAA
1 TAAAA-AAAATAAAAA
44042592 TA
1 TA
44042594 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:44042624 original size:23 final size:23
Alignment explanation
Indices: 44042565--44042616 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
44042555 TAAATATATA
*
44042565 AAAAATA-AAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
44042587 AAAAATATTAAATAAAACAAAAT
1 AAAAATATTAAATAAAACAAAAT
44042610 AAGAAAT
1 AA-AAAT
44042617 GATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAAATATTAAATAAAACAAAAT
Found at i:44042645 original size:67 final size:67
Alignment explanation
Indices: 44042568--44042713 Score: 163
Period size: 67 Copynumber: 2.2 Consensus size: 67
44042558 ATATATAAAA
* * * *
44042568 AATAAAAATAAAACAA-AATAAAAATATTAAATAAAACAAAATAAGA-AAT-GATAATAATAATA
1 AATAATAATAAAA-AATAACAAAAATAGTAAA-AAAACAAAATAAAACAATAG-TAATAATAATA
44042630 ATAAT
63 ATAAT
* * * *
44042635 AGTAATAATAAAAAATAACAACAATAGTAAAAAAATAAAATAAAACAATAGTAATAATAATGATA
1 AATAATAATAAAAAATAACAAAAATAGTAAAAAAACAAAATAAAACAATAGTAATAATAATAATA
44042700 AT
66 AT
*
44042702 AATGATAATAAA
1 AATAATAATAAA
44042714 TTATAATAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
66 14 0.21
67 51 0.77
68 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (67 bp):
AATAATAATAAAAAATAACAAAAATAGTAAAAAAACAAAATAAAACAATAGTAATAATAATAATA
AT
Found at i:44042868 original size:3 final size:3
Alignment explanation
Indices: 44042618--44042853 Score: 176
Period size: 3 Copynumber: 79.3 Consensus size: 3
44042608 ATAAGAAATG
* * * *
44042618 ATA ATA ATA ATA ATA ATA GTA ATA ATA A-A A-A ATA ACA ACA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
44042664 A-A AAA ATA A-A ATA A-A ACA ATA GTA ATA ATA ATG ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
44042709 ATAA ATT ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * * * *
44042756 ATA ATA ATA ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
44042804 ATAA ATA ATA ATA GTA ATA ATA ATC ATA ATA ATA ATA GTA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44042850 ATA A
1 ATA A
44042854 CGATGATGAT
Statistics
Matches: 200, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
2 10 0.05
3 182 0.91
4 8 0.04
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:44044611 original size:22 final size:22
Alignment explanation
Indices: 44044571--44044613 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44044561 CACTAAGTCA
**
44044571 ACAGGATGGCTCAACGCCGTAG
1 ACAGGATGGCGAAACGCCGTAG
*
44044593 ACAGGATGGCGAAAGGCCGTA
1 ACAGGATGGCGAAACGCCGTA
44044614 AATATCGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.35, T:0.12
Consensus pattern (22 bp):
ACAGGATGGCGAAACGCCGTAG
Found at i:44044877 original size:27 final size:27
Alignment explanation
Indices: 44044847--44044911 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
44044837 GGGTATAATC
44044847 GTCATTCTAC-CATACAAGGATATTACG
1 GTCATTCTACAC-TACAAGGATATTACG
* * *
44044874 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTCTACACTACAAGGATATTACG
* *
44044901 GTGATTTTACA
1 GTCATTCTACA
44044912 AACCGGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTCTACACTACAAGGATATTACG
Found at i:44046390 original size:39 final size:41
Alignment explanation
Indices: 44046347--44046431 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 41
44046337 CTAAGCCCAT
** *
44046347 TACAGATTCAGATACAGTTTA-GGCCTTAGCCTATC-CAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
* *
44046386 TACAGTTTCAGATATAAATTAGGGCCTTAGCCCATCTCAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
44046427 TACAG
1 TACAG
44046432 TATGCATACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 17 0.44
40 13 0.33
41 9 0.23
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (41 bp):
TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
Found at i:44054754 original size:14 final size:14
Alignment explanation
Indices: 44054735--44054762 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44054725 TTTGGGTAAA
44054735 AGTACCATAGAGGT
1 AGTACCATAGAGGT
44054749 AGTACCATAGAGGT
1 AGTACCATAGAGGT
44054763 CTTTGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (14 bp):
AGTACCATAGAGGT
Found at i:44056249 original size:29 final size:28
Alignment explanation
Indices: 44056208--44056263 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
44056198 AACATTTTAA
*
44056208 AAATTT-ATAAAAATATTAAATAAAATTC
1 AAATTTAAAAAAAAT-TTAAATAAAATTC
*
44056236 AAATTTAAAAAAAAATTTAATTAAAATT
1 AAATTT-AAAAAAAATTTAAATAAAATT
44056264 ATTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTTAAAAAAAATTTAAATAAAATTC
Found at i:44062473 original size:54 final size:54
Alignment explanation
Indices: 44062400--44062508 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
44062390 GGAAGGGTGA
* * * *
44062400 TGATGTTACTTTCAGTGAAGGTGGTGAGATTGATA-AATATGGTGAGGAGGAGGT
1 TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAA-ATGGTGAGGAGGAGGT
* * *
44062454 TGATGTTGCTGTCAATGAAGGTGGTAAGAGTGATAGAAGTGGTGAGGAGGGGGT
1 TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAAATGGTGAGGAGGAGGT
44062508 T
1 T
44062509 AGGGAAGTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.40, T:0.29
Consensus pattern (54 bp):
TGATGTTACTGTCAATGAAGGTGGTAAGAGTGATAGAAATGGTGAGGAGGAGGT
Found at i:44064167 original size:158 final size:157
Alignment explanation
Indices: 44063761--44064167 Score: 397
Period size: 158 Copynumber: 2.6 Consensus size: 157
44063751 ATGCATTCAA
* * * * *
44063761 CCTAACACAACGGGAACACATGTATATCT-TAAACACTTTTTCATTGTCAATTCCAAAATATTAA
1 CCTAACACAACTGGAACACAGGTATAT-TGTAAACACTTTTTTAATGTCAATTCAAAAATATT-A
* * *
44063825 AATCTAATTTGGGTTTTGATTTTTTTAGTCCTAGTTTAGTACGAGTACGAGAACTAGAAGCCCAA
64 AATCTAATTTGGGTTCTGATTTTTTTAGTCCTAGTCTAGTACGAGTACGAAAACTAGAAGCCCAA
* * * * **
44063890 AAAATAACAATATAACAACATGCATTTTT
129 AAAAGAACAACAGAACAACACGCATTTAG
* * * * * * *
44063919 CCTAATACAACTGGAGCATAGGTATATCGTATACACTATTTTAATGTCAATTCAAAAATATTTTA
1 CCTAACACAACTGGAACACAGGTATATTGTAAACACTTTTTTAATGTCAATTCAAAAATA-TTAA
* ** * * * *
44063984 ATCTAATTTGGGGTTCTAACATTTTTGGTCTTAGTCTGGTACGAGTAC-ACAAACTATAAG-CCA
65 ATCTAATTT-GGGTTCTGATTTTTTTAGTCCTAGTCTAGTACGAGTACGA-AAACTAGAAGCCCA
* * *
44064047 AAAGAGAACAACAGAACATCACGCGTTTAG
128 AAAAAGAACAACAGAACAACACGCATTTAG
* * * * *
44064077 CTTAACACAATTGGATCACAGGTATATTGTAAACACTTTTTTAATGTCAATTCTAAATTACTTAA
1 CCTAACACAACTGGAACACAGGTATATTGTAAACACTTTTTTAATGTCAATTCAAAAATA-TTAA
*
44064142 ATCTAATTTAAGGTTCTGATTTTTTT
65 ATCTAATTT-GGGTTCTGATTTTTTT
44064168 TTTCTGAGAA
Statistics
Matches: 197, Mismatches: 48, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
158 157 0.80
159 40 0.20
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (157 bp):
CCTAACACAACTGGAACACAGGTATATTGTAAACACTTTTTTAATGTCAATTCAAAAATATTAAA
TCTAATTTGGGTTCTGATTTTTTTAGTCCTAGTCTAGTACGAGTACGAAAACTAGAAGCCCAAAA
AAGAACAACAGAACAACACGCATTTAG
Found at i:44067768 original size:16 final size:16
Alignment explanation
Indices: 44067747--44067777 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44067737 GATATTTTAA
44067747 TATATTATATTAATAT
1 TATATTATATTAATAT
*
44067763 TATATTATGTTAATA
1 TATATTATATTAATA
44067778 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:44067874 original size:12 final size:12
Alignment explanation
Indices: 44067857--44067887 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44067847 GAAGCAGGGG
44067857 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
44067869 AGAAAAAGGGAA
1 AGAAAAAGAGAA
44067881 AGAAAAA
1 AGAAAAA
44067888 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:44068445 original size:22 final size:22
Alignment explanation
Indices: 44068395--44068445 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
44068385 GAAGCATCAG
*
44068395 CATCGAAAGGAAAGGAGAAAGT
1 CATCGAGAGGAAAGGAGAAAGT
*
44068417 CATCGAGAGGAAAGGAGAATGT
1 CATCGAGAGGAAAGGAGAAAGT
44068439 CATCGAG
1 CATCGAG
44068446 GACTAAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.33, T:0.12
Consensus pattern (22 bp):
CATCGAGAGGAAAGGAGAAAGT
Found at i:44070367 original size:82 final size:78
Alignment explanation
Indices: 44070235--44070425 Score: 265
Period size: 82 Copynumber: 2.4 Consensus size: 78
44070225 ACATATTTTG
* *
44070235 TTTGTTTTTTTTTTTAAATTATTTGTTGAAATGGTTAACATCTTACTGCTATAGGATCATTTTGT
1 TTTGTTTGTTTTTTTAAATGATTTGTTGAAATGGTTAACATCTTACTGCTATAGGATCATTTTGT
*
44070300 TAGCATAACATAT
66 TAGAATAACATAT
* * *
44070313 TTTGTTTGTTTTTTTAAATGATTTATTGAAATGGTTGGTTAACATTTTATTGCTATAGGATCATT
1 TTTGTTTGTTTTTTTAAATGATTTGTTGAAA----TGGTTAACATCTTACTGCTATAGGATCATT
*
44070378 TTGTTTGAATAACATAT
62 TTGTTAGAATAACATAT
* *
44070395 TTTGTTTGTTATTTGAAATGATTTGTTGAAA
1 TTTGTTTGTTTTTTTAAATGATTTGTTGAAA
44070426 AATGTATATT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
78 28 0.28
82 71 0.72
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (78 bp):
TTTGTTTGTTTTTTTAAATGATTTGTTGAAATGGTTAACATCTTACTGCTATAGGATCATTTTGT
TAGAATAACATAT
Found at i:44075670 original size:20 final size:20
Alignment explanation
Indices: 44075632--44075670 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44075622 TTCCTTGTTT
*
44075632 TTTTTTTATTTTAATTTAAG
1 TTTTTTTATTATAATTTAAG
44075652 TTTTTTT-TTATAATATTAA
1 TTTTTTTATTATAAT-TTAA
44075671 TCTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTTTATTATAATTTAAG
Found at i:44076910 original size:18 final size:20
Alignment explanation
Indices: 44076889--44076945 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
44076879 TAAAATATAA
*
44076889 AATTTTTATAAA-TA-TTTT
1 AATTTTTAAAAATTATTTTT
*
44076907 AATTTTAAAAAATTATTTTT
1 AATTTTTAAAAATTATTTTT
*
44076927 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
44076946 GTGTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.30
19 2 0.06
20 21 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTT
Found at i:44095767 original size:43 final size:43
Alignment explanation
Indices: 44095702--44095876 Score: 158
Period size: 43 Copynumber: 4.1 Consensus size: 43
44095692 TGTATATAGA
* *
44095702 CATCGATATGTGATTATATGTAAGACCATGTCTGGGACGTTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
* * *
44095745 CATCGATATGTGGTTATGTGTAAGACCACGTTTGGGACATTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
* * * * * * *
44095788 CATCTATATGTGTTTACGAT-TAAGACC-CTATTTGGGATAGTGG
1 CATCGATATGTGATTA-TATGTAAGACCAC-GTCTGGGACATTGG
* * * *
44095831 CATCGTTATGAGATTACATGTAAGACCACGT-TAGGGACGTTGG
1 CATCGATATGTGATTATATGTAAGACCACGTCT-GGGACATTGG
44095874 CAT
1 CAT
44095877 TGTACCATAT
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
42 4 0.04
43 100 0.94
44 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
CATCGATATGTGATTATATGTAAGACCACGTCTGGGACATTGG
Found at i:44099933 original size:38 final size:38
Alignment explanation
Indices: 44099885--44100100 Score: 330
Period size: 38 Copynumber: 5.7 Consensus size: 38
44099875 GAAGGCTCGA
* * *
44099885 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
44099923 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
44099961 ATATATTA-CAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
**
44099998 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAA
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
44100036 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
44100074 ATATAATT-CCAGCA-TATAGCCTGCGGG
1 ATAT-ATTACCAGCACGA-AGCCTGCGGG
44100101 TCTTTAGGCT
Statistics
Matches: 166, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
37 38 0.23
38 125 0.75
39 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:44099984 original size:75 final size:76
Alignment explanation
Indices: 44099884--44100100 Score: 332
Period size: 75 Copynumber: 2.9 Consensus size: 76
44099874 CGAAGGCTCG
* * *
44099884 AATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
*
44099949 GATTTAACCCG
66 GATTTAACCCA
*
44099960 GATATATTA-CAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
44100024 GATTTAACCCA
66 GATTTAACCCA
* *
44100035 AATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAATT-CCAGCA-TATAGCCTGC
1 AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATTACCAGCACGA-AGCCTGC
44100098 GGG
64 GGG
44100101 TCTTTAGGCT
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
75 72 0.55
76 55 0.42
77 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (76 bp):
AATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
GATTTAACCCA
Found at i:44100028 original size:113 final size:114
Alignment explanation
Indices: 44099885--44100100 Score: 337
Period size: 113 Copynumber: 1.9 Consensus size: 114
44099875 GAAGGCTCGA
* * **
44099885 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCTGCGGG
44099950 ATTTAACCCGGATAT-ATTACAGCACGA-AGCCTGCGGGATTTAACCCGG
66 ATTTAACCCGGATATAATTACAGCA-GATAGCCTGCGGGATTTAACCCGG
*
44099998 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCTGCGGG
* * *
44100063 ATTTAACTCGGATATAATTCCAGCATATAGCCTGCGGG
66 ATTTAACCCGGATATAATTACAGCAGATAGCCTGCGGG
44100101 TCTTTAGGCT
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
113 75 0.81
114 18 0.19
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (114 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAAATATATTACCAGCACGAAGCCTGCGGG
ATTTAACCCGGATATAATTACAGCAGATAGCCTGCGGGATTTAACCCGG
Found at i:44104465 original size:93 final size:93
Alignment explanation
Indices: 44104352--44104523 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44104342 CGCCCATAAG
* *
44104352 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44104417 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44104445 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44104510 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44104524 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44104520 original size:46 final size:46
Alignment explanation
Indices: 44104345--44104520 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44104335 TGTAACCCGC
* * *
44104345 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44104391 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44104441 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44104484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44104521 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44114149 original size:18 final size:19
Alignment explanation
Indices: 44114128--44114169 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
44114118 TTAATCAACC
44114128 AATAAAAAACTTAAAG-AA
1 AATAAAAAACTTAAAGCAA
**
44114146 AAT-AAACTCTTAAAGCAA
1 AATAAAAAACTTAAAGCAA
44114164 AATAAA
1 AATAAA
44114170 TTGATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 8 0.40
19 2 0.10
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.19
Consensus pattern (19 bp):
AATAAAAAACTTAAAGCAA
Found at i:44115362 original size:244 final size:243
Alignment explanation
Indices: 44114934--44115414 Score: 845
Period size: 244 Copynumber: 2.0 Consensus size: 243
44114924 AAATCTGATT
* *
44114934 TCATACTTTTTGATCTTACCACTACCTTTGGGCGGGTAGACTATGCCTATTACTTAACTCAGAGT
1 TCATACTTTTTGATCTTACCACTACCTTTGGGCAGGTAGACTATGCCCATTACTTAACTCAGAGT
* *
44114999 TCATAAGGATCTTCCTTACTTTAGATTACTATTTTTACCTTCCCTTAACTTACATCCCGAATTTG
66 TCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCGAATTCG
* * * *
44115064 CCAGATGTTTTGGCGTCTTTTAGTTTCACTGTTCATTTCTCATTACTAGACAAGTTCGCCATTTT
131 CCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTTC
*
44115129 GTTTACATATAGAGTCTTTCTTTCAGAGTTCGCTGGATATAAAAATTC
196 GTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAAAAATTC
44115177 TCATACTTTTTGATCTTACCACTACCTTTGGGCAAGGTAGACTATGCCCATTACTTAACTCAGAG
1 TCATACTTTTTGATCTTACCACTACCTTTGGGC-AGGTAGACTATGCCCATTACTTAACTCAGAG
*
44115242 TTCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATGCCGAATTC
65 TTCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCGAATTC
*
44115307 GCCACATGTTTTGGCGTCTTCTAGTTTCACTGTTTATCTCTCATTACTAGACAAGTTCGCCATTT
130 GCCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTT
*
44115372 CGTTTACATATAGAGTCTTTCTTTCAGAGTTCTATGGATATAA
195 CGTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAA
44115415 GAGTTTGCTG
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
243 33 0.15
244 192 0.85
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (243 bp):
TCATACTTTTTGATCTTACCACTACCTTTGGGCAGGTAGACTATGCCCATTACTTAACTCAGAGT
TCATAAGGATCTTCCTTACTTTAGATTACTATTTGTACCTTCCCTTAACTTACATCCCGAATTCG
CCACATGTTTTGGCGTCTTCTAGTTTCACTGTTCATCTCTCATTACTAGACAAGTTCGCCATTTC
GTTTACATATAGAGTCTTTCTTTCAGAGTTCGATGGATATAAAAATTC
Found at i:44115419 original size:17 final size:18
Alignment explanation
Indices: 44115397--44115437 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
44115387 TCTTTCTTTC
44115397 AGAGTTCT-ATGGATATA
1 AGAGTTCTGATGGATATA
*
44115414 AGAGTT-TGCTGGATATA
1 AGAGTTCTGATGGATATA
*
44115431 AAAGTTC
1 AGAGTTC
44115438 CTCCTACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (18 bp):
AGAGTTCTGATGGATATA
Found at i:44115807 original size:29 final size:28
Alignment explanation
Indices: 44115775--44115844 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
44115765 TCTACTTTAG
*
44115775 AGGCATTCCTTTAATAGAGATC-ACCATGA
1 AGGCATTCCTTTAAT--AGATCTACCATAA
*
44115804 AGGCATTTCCTTTCATAGATCTACCATAA
1 AGGCA-TTCCTTTAATAGATCTACCATAA
44115833 AGGCATTCCTTT
1 AGGCATTCCTTT
44115845 TCATTCAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 12 0.32
29 16 0.43
30 9 0.24
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (28 bp):
AGGCATTCCTTTAATAGATCTACCATAA
Found at i:44115846 original size:29 final size:29
Alignment explanation
Indices: 44115775--44115876 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
44115765 TCTACTTTAG
* *
44115775 AGGCATTCCTTTAAT-AGAGATC-ACCATGA
1 AGGCATTCCTTT--TCATAGATCTACCATAA
44115804 AGGCATTTCC-TTTCATAGATCTACCATAA
1 AGGCA-TTCCTTTTCATAGATCTACCATAA
*
44115833 AGGCATTCCTTTTCATTCAGTACTCT-CCATAT
1 AGGCATTCCTTTTCA-T-AG-A-TCTACCATAA
44115865 AGGCATTCCTTT
1 AGGCATTCCTTT
44115877 AAGAGATTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
27 1 0.02
28 10 0.16
29 23 0.37
30 5 0.08
31 2 0.03
32 18 0.29
33 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (29 bp):
AGGCATTCCTTTTCATAGATCTACCATAA
Found at i:44118041 original size:79 final size:78
Alignment explanation
Indices: 44117938--44118161 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
44117928 GCTACTCGTT
* *
44117938 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44118003 ATTTAGTAACTCACA
64 AATTAGTAACTCACA
* *
44118018 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
44118082 ATTAGTATCTCGCA
65 ATTAGTAACTCACA
** * * * *
44118096 CAAATGCCTTCAGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTC-GGGCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
44118160 GA
63 GA
44118162 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 33 0.27
79 57 0.46
80 34 0.27
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCACA
Found at i:44118059 original size:39 final size:40
Alignment explanation
Indices: 44117938--44118161 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
44117928 GCTACTCGTT
* *
44117938 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
44117978 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
44118018 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
44118057 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
44118096 CAAATGCCTTC-AGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
44118137 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44118162 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 73 0.45
40 76 0.47
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:44119937 original size:30 final size:30
Alignment explanation
Indices: 44119897--44119968 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
44119887 ACCAGCAGGT
*
44119897 TTCATGCATTACATGCTCTTATGCTT-ATCC
1 TTCATACATTACATGCTCTTATG-TTCATCC
*
44119927 TTCATACATTAAATGCTCTTATGTTCATCC
1 TTCATACATTACATGCTCTTATGTTCATCC
44119957 TTCATACATTAC
1 TTCATACATTAC
44119969 TTTTCTTAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (30 bp):
TTCATACATTACATGCTCTTATGTTCATCC
Found at i:44122334 original size:20 final size:20
Alignment explanation
Indices: 44122258--44122333 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
44122248 AAGGAGGAAA
*
44122258 TACTGGCAGTTTATCTACAT
1 TACTGGCAGCTTATCTACAT
* * * *
44122278 TACTGGTAACTTGTCCACAT
1 TACTGGCAGCTTATCTACAT
* * *
44122298 TATTGGCAGCTTGTCTGCAT
1 TACTGGCAGCTTATCTACAT
*
44122318 TACTGGCAGTTTATCT
1 TACTGGCAGCTTATCT
44122334 GTAGTACAGG
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (20 bp):
TACTGGCAGCTTATCTACAT
Found at i:44129062 original size:20 final size:20
Alignment explanation
Indices: 44129019--44129064 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
44129009 ACTGTTTTAT
*
44129019 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
44129038 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
44129058 TATGGGC
1 TATGGGC
44129065 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:44129609 original size:19 final size:19
Alignment explanation
Indices: 44129568--44129609 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
44129558 TTTCGCAACG
*
44129568 TAAATATTTTCAAAGGAAA
1 TAAATATTTTCAAAAGAAA
*
44129587 TAAATATTTT-AAATAGAAT
1 TAAATATTTTCAAA-AGAAA
44129606 TAAA
1 TAAA
44129610 CTTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (19 bp):
TAAATATTTTCAAAAGAAA
Found at i:44129889 original size:16 final size:17
Alignment explanation
Indices: 44129857--44129889 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44129847 CATCAAGAAG
44129857 GGTTTTCGATGAAAACAT
1 GGTTTTCGA-GAAAACAT
44129875 GGTTTTCGA-AAAACA
1 GGTTTTCGAGAAAACA
44129890 CTTCAACGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (17 bp):
GGTTTTCGAGAAAACAT
Found at i:44134083 original size:20 final size:20
Alignment explanation
Indices: 44134040--44134085 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
44134030 ACTGTTTTAT
*
44134040 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATCAA
* *
44134059 AATGGGCCCAACTGTGTCAA
1 TATGGGCCCAACTGTATCAA
44134079 TATGGGC
1 TATGGGC
44134086 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
TATGGGCCCAACTGTATCAA
Found at i:44139131 original size:16 final size:16
Alignment explanation
Indices: 44139112--44139143 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44139102 AATTGTTTTA
44139112 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
44139128 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
44139144 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:44139429 original size:50 final size:50
Alignment explanation
Indices: 44139354--44139731 Score: 322
Period size: 50 Copynumber: 7.5 Consensus size: 50
44139344 CTGTTACGCA
*
44139354 TAGTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
** * * * * *
44139404 TAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
** * ** *
44139454 TAGTAGCCTGCACTGT-GTACTACACACGTGATCAAAGT-T-AA-CGGGTATGCA
1 TAGTAGCCTGCACT-TAGTACTACACA--TG--CAACCTATCAATCTGGTACACG
** *
44139505 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
* * * *
44139555 TAGTAGCCTGCACTTAGTACTTCACACATG--ACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTAC-T-ACACATGCAACCTATCAATCTGGTACACG
* * ** * * * *
44139605 TAGTAGCCTACACTTAGTACTACATACATG-ATCGAAGTTAAT-GGGTACGCA
1 TAGTAGCCTGCACTTAGTACTAC--ACATGCAACCTA-TCAATCTGGTACACG
* *
44139656 TAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
*
44139706 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44139732 CGTGACTCAC
Statistics
Matches: 256, Mismatches: 55, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
47 2 0.01
48 3 0.01
49 13 0.05
50 165 0.64
51 59 0.23
52 12 0.05
54 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
Found at i:44139625 original size:151 final size:151
Alignment explanation
Indices: 44139348--44139738 Score: 622
Period size: 151 Copynumber: 2.6 Consensus size: 151
44139338 AGCTCTCTGT
* *
44139348 TACGCATAGTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
* * *
44139413 GCACTTAGTACTACACATGTGACTTAACCATTTGATACACGTAGTAGCCTGCACTGTGTACTACA
66 GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGTGTACTACA
*
44139478 CACGTGATCAAAGTTAACGGG
131 CACATGATCAAAGTTAACGGG
* * *
44139499 TATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACATAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
* *
44139564 GCACTTAGTACTTCACACATGACTTAACCATCTGATACACGTAGTAGCCTACACT-TAGTACTAC
66 GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGT-GTACTAC
* * *
44139628 ATACATGATCGAAGTTAATGGG
130 ACACATGATCAAAGTTAACGGG
* *
44139650 TACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTAGTAGCTT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
44139715 GCACTTAGTACTACACACGTGACT
66 GCACTTAGTACTACACACGTGACT
44139739 CACAACGGAT
Statistics
Matches: 218, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 1 0.00
151 217 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (151 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTGTGTACTACA
CACATGATCAAAGTTAACGGG
Found at i:44139652 original size:101 final size:100
Alignment explanation
Indices: 44139352--44139729 Score: 260
Period size: 101 Copynumber: 3.8 Consensus size: 100
44139342 CTCTGTTACG
* * * * *
44139352 CATAGTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACAT-CGACCTAACAATCTGATACACGTAGTAGCCTACAC
* * *
44139417 TTAGTACTAC--ACATG-T-G-ACTTAACCATTTGATACA
65 TTAGTACTACATACATGATCGAAGTT-A--A-TGGGTACA
* * * * * * ** *
44139452 CGTAGTAGCCTGCACTGT-GTACTACACA-CGTGATCAAAGTTAA-CGGGTATGCATAGTAGCCT
1 CATAGTAGCCTGCACT-TAGTACTACACATC--GACCTAA--CAATCTGATACACGTAGTAGCCT
* ** *
44139514 GCACTTAGTACTAC--ACATG-T-GACCTATCAATCTGGTACA
61 ACACTTAGTACTACATACATGATCGAAGT-T-AAT-GGGTACA
* *
44139553 CATAGTAGCCTGCACTTAGTACTTCACACAT-GACTTAACCATCTGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACTTAGTAC-T-ACACATCGACCTAACAATCTGATACACGTAGTAGCCTACA
*
44139617 CTTAGTACTACATACATGATCGAAGTTAATGGGTACG
64 CTTAGTACTACATACATGATCGAAGTTAATGGGTACA
* * * * *
44139654 CATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACAT-CGACCTAACAATCTGATACACGTAGTAGCCTACAC
44139719 TTAGTACTACA
65 TTAGTACTACA
44139730 CACGTGACTC
Statistics
Matches: 222, Mismatches: 37, Indels: 37
0.75 0.12 0.12
Matches are distributed among these distances:
98 1 0.00
99 6 0.03
100 57 0.26
101 133 0.60
102 13 0.06
103 9 0.04
104 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACATCGACCTAACAATCTGATACACGTAGTAGCCTACACT
TAGTACTACATACATGATCGAAGTTAATGGGTACA
Found at i:44140113 original size:19 final size:20
Alignment explanation
Indices: 44140085--44140131 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
44140075 AAGAACATGT
44140085 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
44140106 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
44140125 TATATAT
1 TATATAT
44140132 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:44147208 original size:58 final size:56
Alignment explanation
Indices: 44147137--44147276 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 56
44147127 TTATAGAAAA
* * *
44147137 GATTTAGTCTGGACGGGTAATCCTGATATAA-TTCCTCTCGAGCATA-TGATACAATTAG
1 GATTTAGCCTGGACTGGTAATCCTGAT-TAAGCTCCTCT-GAGCATACTGATACAA--AG
* * * *
44147195 GATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGCATACGTTATATAAAG
1 GATTTAGCCTGGACTGGTAATCCTGATTAAGCTCCTCTGAGCATAC-TGATACAAAG
44147252 GATTTAGCCTGGACTGGTAATCCTG
1 GATTTAGCCTGGACTGGTAATCCTG
44147277 TAATACAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
57 36 0.51
58 29 0.41
59 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (56 bp):
GATTTAGCCTGGACTGGTAATCCTGATTAAGCTCCTCTGAGCATACTGATACAAAG
Found at i:44149608 original size:43 final size:43
Alignment explanation
Indices: 44149542--44149700 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
44149532 AGCTTGTACA
* *
44149542 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGTAATCAAATATCG
* * **
44149585 ATGCCACTATCCTAGACAGGGTCTTACACAAAATCAAATAT-G
1 ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATCG
* * *
44149627 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATATCCCAGACAGGGTCTTACACGT-AATCA-AATATCG
**
44149671 ATGCCAACGTCCCAGAC-GTGGTCTTACACG
1 ATGCCAATATCCCAGACAG-GGTCTTACACG
44149701 AAAACACATA
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.27
43 39 0.41
44 31 0.32
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:44149697 original size:86 final size:86
Alignment explanation
Indices: 44149542--44149704 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 86
44149532 AGCTTGTACA
* * *
44149542 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCTAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
44149607 CTTACAC-AAAATCAAATATG
66 CTTACACGAAAATCAAATATG
* *
44149627 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCCAGACAG
44149689 TGGTCTTACACGAAAA
63 -GGTCTTACACGAAAA
44149705 CACATATTGG
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
85 30 0.44
86 30 0.44
87 8 0.12
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (86 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAAATCAAATATG
Found at i:44153064 original size:18 final size:18
Alignment explanation
Indices: 44153041--44153080 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44153031 GAAATTGAGA
44153041 TATTGATGCA-AGTGACAC
1 TATTGATG-ATAGTGACAC
*
44153059 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACAC
44153077 TATT
1 TATT
44153081 AATTGTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (18 bp):
TATTGATGATAGTGACAC
Found at i:44157910 original size:49 final size:49
Alignment explanation
Indices: 44157625--44157939 Score: 201
Period size: 49 Copynumber: 6.7 Consensus size: 49
44157615 TGGTATGTGT
* * *
44157625 GCCAGTGTAAGACATGTCTGGGACAT-GCACCGGCCAC-AT-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
* * * * * *
44157671 GCCAGTGTAAGACATGTTTGAGACAT-GCATCGGTATTG--AGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
* * ** * *
44157717 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGACCTCGAGATAT-ACAA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGA-GA
* * * * * * *
44157765 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAG-CT---T-TTTGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
* * * **
44157809 GTCAGTGTAAGACTTGTCTGGGACATGGCATC--TACACTGATGGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGT-CTC-GATATATGAGA
* *
44157858 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGGTCTCGATATATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
* * * *
44157907 GCCAGTGTACGACTTTTCTAGGACATGGCATCG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCG
44157940 ACTTTGATGT
Statistics
Matches: 206, Mismatches: 47, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
44 31 0.15
46 65 0.32
47 1 0.00
48 31 0.15
49 75 0.36
50 2 0.01
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
Found at i:44157948 original size:98 final size:97
Alignment explanation
Indices: 44157811--44157988 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 97
44157801 TTTTGTGTGT
* *
44157811 CAGTGTAAGACTTGTCTGGGACATGGCATCTACACTGATGGATGAGAGCCAGTGTAAGACC-TGT
1 CAGTGTAAGACTTGTCTAGGACATGGCATCGACACTGAT-G-TGAGAGCCAGTGTAAGACCATGT
*
44157875 CTGGGACATGGCATCGGTCTCGATATATGAAAGC
64 CTAGGACATGGCATCGGTCTCGATATATGAAAGC
* * ** ** *
44157909 CAGTGTACGACTTTTCTAGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTTT
1 CAGTGTAAGACTTGTCTAGGACATGGCATCGACACTGATGTGAGAGCCAGTGTAAGACCATGTCT
*
44157974 AGGACATGGCGTCGG
66 AGGACATGGCATCGG
44157989 CATCTTATCC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
96 17 0.25
97 18 0.26
98 33 0.49
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (97 bp):
CAGTGTAAGACTTGTCTAGGACATGGCATCGACACTGATGTGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGGTCTCGATATATGAAAGC
Found at i:44166124 original size:47 final size:47
Alignment explanation
Indices: 44166062--44166156 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
44166052 AATTCATATA
44166062 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCGGAATCATAAG
1 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCGGAATCATAAG
44166109 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCGGAATCATAAG
1 GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCGGAATCATAAG
44166156 G
1 G
44166157 ATACGTGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (47 bp):
GTCATTCATTTCCTCAGAATGCCAGTTGAACCATTCGGAATCATAAG
Found at i:44166265 original size:43 final size:42
Alignment explanation
Indices: 44166199--44166307 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 42
44166189 TTAAGGTCTT
* * *
44166199 AGACGTGGTCTTACATGTAATCAAATATCGATTCC-ACAGTCCC
1 AGACATGGTCTTACATGAAATCAAATAT-GATGCCGA-AGTCCC
* * *
44166242 AGACATGGTCTTACACGAAATCAAATATGATGCCGATGTCCT
1 AGACATGGTCTTACATGAAATCAAATATGATGCCGAAGTCCC
44166284 AGACATGGTCTTACATGTAAATCA
1 AGACATGGTCTTACATG-AAATCA
44166308 CAAGTCGATG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
AGACATGGTCTTACATGAAATCAAATATGATGCCGAAGTCCC
Found at i:44169034 original size:33 final size:33
Alignment explanation
Indices: 44168985--44169061 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
44168975 AATAACACAA
44168985 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
1 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
* *
44169018 TATCAGTATAGTCTGGGCCAAAGCCCTATTCAG
1 TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
44169051 TATCAGTACAG
1 TATCAGTACAG
44169062 TGCAAAATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
TATCAGTACAGGCTGGGCCAAAGCCCTATTCAG
Found at i:44169719 original size:17 final size:19
Alignment explanation
Indices: 44169697--44169742 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
44169687 TTAATCTGCA
44169697 TGGGCCCATA-AGCCCA-T
1 TGGGCCCATACAGCCCATT
*
44169714 TGGGCCCATACGGCCCATT
1 TGGGCCCATACAGCCCATT
*
44169733 TCGGCCCATA
1 TGGGCCCATA
44169743 TAGGCCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.20
Consensus pattern (19 bp):
TGGGCCCATACAGCCCATT
Found at i:44169740 original size:19 final size:17
Alignment explanation
Indices: 44169699--44169742 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
44169689 AATCTGCATG
*
44169699 GGCCCATAAGCCCATTG
1 GGCCCATAAGCCCATTC
*
44169716 GGCCCATACGGCCCATTTC
1 GGCCCATA-AGCCCA-TTC
44169735 GGCCCATA
1 GGCCCATA
44169743 TAGGCCCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (17 bp):
GGCCCATAAGCCCATTC
Found at i:44187146 original size:20 final size:20
Alignment explanation
Indices: 44187109--44187146 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
44187099 CTAAAGTTCT
*
44187109 CTTCTTTTTCCTCTTTCTCC
1 CTTCTTTTTCCTATTTCTCC
44187129 CTTC-TTTTCCTATCTTCT
1 CTTCTTTTTCCTAT-TTCT
44187147 ATATGTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTCTTTTTCCTATTTCTCC
Found at i:44194828 original size:20 final size:20
Alignment explanation
Indices: 44194800--44194849 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
44194790 TATATTATTA
44194800 TTCTATTTTGAAGTTAAAGG
1 TTCTATTTTGAAGTTAAAGG
* * *
44194820 TTCTGTTTTGAAGTTCAATG
1 TTCTATTTTGAAGTTAAAGG
44194840 TTCTATTTTG
1 TTCTATTTTG
44194850 TATAGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.52
Consensus pattern (20 bp):
TTCTATTTTGAAGTTAAAGG
Found at i:44196773 original size:7 final size:7
Alignment explanation
Indices: 44196761--44196812 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
44196751 ACCTCATTTG
44196761 ATCCCTC
1 ATCCCTC
44196768 ATCCCTC
1 ATCCCTC
*
44196775 ATCACTC
1 ATCCCTC
* *
44196782 ATCACTG
1 ATCCCTC
*
44196789 ATCCCTT
1 ATCCCTC
44196796 ATCCCTC
1 ATCCCTC
*
44196803 ATCCATC
1 ATCCCTC
44196810 ATC
1 ATC
44196813 ATTCTCTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.21, C:0.46, G:0.02, T:0.31
Consensus pattern (7 bp):
ATCCCTC
Found at i:44196791 original size:28 final size:28
Alignment explanation
Indices: 44196759--44196813 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
44196749 AGACCTCATT
44196759 TGATCCCTCATCCCTCAT-CACTCATCAC
1 TGATCCCTCATCCCTCATCCA-TCATCAC
*
44196787 TGATCCCTTATCCCTCATCCATCATCA
1 TGATCCCTCATCCCTCATCCATCATCA
44196814 TTCTCTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.22, C:0.44, G:0.04, T:0.31
Consensus pattern (28 bp):
TGATCCCTCATCCCTCATCCATCATCAC
Found at i:44199491 original size:126 final size:126
Alignment explanation
Indices: 44199266--44199576 Score: 525
Period size: 126 Copynumber: 2.5 Consensus size: 126
44199256 AAAAACTTTT
* * * * *
44199266 TTTTTCTATAGTAGTATCTGAAAAAATAATTTTGAGAAAACGTTTCTAAAGAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
*
44199331 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTGGACGCTC
*
44199392 TTTTTCTACAGTAGTATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* *
44199457 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTGGACGCTC
66 ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTGGACGCTC
*
44199518 TTTTTCTACAGAAGTATCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGT
1 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGT
44199577 AACAGTCTGG
Statistics
Matches: 174, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
125 39 0.22
126 135 0.78
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAGCAGAACGCACTGTCAGCAAAATTACTGAAAAAAGCTCCAACGTGGACGCTC
Found at i:44207572 original size:27 final size:27
Alignment explanation
Indices: 44207535--44207766 Score: 313
Period size: 27 Copynumber: 8.6 Consensus size: 27
44207525 TAAATTGTAC
44207535 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
44207562 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
44207589 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44207616 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44207642 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44207670 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44207698 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44207725 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44207752 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44207767 GACTCAATAT
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 160 0.87
28 23 0.13
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44214507 original size:11 final size:11
Alignment explanation
Indices: 44214493--44214545 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
44214483 AGATAAATAT
44214493 TATTTTATTAA
1 TATTTTATTAA
*
44214504 TATTTTAATAA
1 TATTTTATTAA
* * *
44214515 GATATT-TTAT
1 TATTTTATTAA
*
44214525 TATTTTATTAT
1 TATTTTATTAA
44214536 TATTTTATTA
1 TATTTTATTA
44214546 GTATATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:44220776 original size:27 final size:27
Alignment explanation
Indices: 44220745--44220922 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44220735 TAAATTGTAC
44220745 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44220772 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44220798 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44220826 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44220854 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44220881 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44220908 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44220923 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44220859 original size:82 final size:81
Alignment explanation
Indices: 44220746--44220901 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44220736 AAATTGTACA
* *
44220746 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44220810 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44220827 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44220892 TGCGAGTTGA
65 TGCGAATTGA
44220902 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44220913 original size:82 final size:81
Alignment explanation
Indices: 44220742--44220922 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44220732 GATTAAATTG
* *
44220742 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44220807 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44220823 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44220887 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44220905 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44220923 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44229271 original size:27 final size:27
Alignment explanation
Indices: 44229240--44229417 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44229230 TAAATTGTAC
44229240 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44229267 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44229293 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44229321 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44229349 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44229376 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44229403 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44229418 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44229354 original size:82 final size:81
Alignment explanation
Indices: 44229241--44229396 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44229231 AAATTGTACA
* *
44229241 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44229305 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44229322 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44229387 TGCGAGTTGA
65 TGCGAATTGA
44229397 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44229408 original size:82 final size:81
Alignment explanation
Indices: 44229237--44229417 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44229227 GATTAAATTG
* *
44229237 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44229302 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44229318 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44229382 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44229400 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44229418 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44231871 original size:17 final size:17
Alignment explanation
Indices: 44231851--44231884 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44231841 AAGTTTGTAC
44231851 AAAAATATTAATAATAT
1 AAAAATATTAATAATAT
44231868 AAAAATATTAATAATAT
1 AAAAATATTAATAATAT
44231885 CGTCTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATATTAATAATAT
Found at i:44232026 original size:21 final size:22
Alignment explanation
Indices: 44231994--44232045 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
44231984 TTCAGCTTCT
*
44231994 GGCAGGGG-TTGTGGTTGCTCC
1 GGCAGGGGATTGTGGTTCCTCC
44232015 GGC-GGGGATTGTGGTTCCTCC
1 GGCAGGGGATTGTGGTTCCTCC
44232036 GGCAGGGGAT
1 GGCAGGGGAT
44232046 CTGGTTGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 18 0.64
22 6 0.21
ACGTcount: A:0.08, C:0.19, G:0.48, T:0.25
Consensus pattern (22 bp):
GGCAGGGGATTGTGGTTCCTCC
Found at i:44232050 original size:21 final size:21
Alignment explanation
Indices: 44231994--44232051 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
44231984 TTCAGCTTCT
* *
44231994 GGCAGGGGTTGTGGTTGCTCC
1 GGCAGGGGATGTGGTTCCTCC
44232015 GGC-GGGGATTGTGGTTCCTCC
1 GGCAGGGGA-TGTGGTTCCTCC
*
44232036 GGCAGGGGATCTGGTT
1 GGCAGGGGATGTGGTT
44232052 GTGGGTGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 23 0.72
22 5 0.16
ACGTcount: A:0.07, C:0.19, G:0.47, T:0.28
Consensus pattern (21 bp):
GGCAGGGGATGTGGTTCCTCC
Found at i:44232214 original size:18 final size:18
Alignment explanation
Indices: 44232188--44232229 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44232178 GACTGGGAAA
* *
44232188 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
44232206 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
44232224 AGGATA
1 AGGATA
44232230 TGCAGTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:44232321 original size:30 final size:30
Alignment explanation
Indices: 44232284--44232352 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
44232274 GTTGAAGTGT
44232284 TAGGCCCG-GTGATTGTGTGGGCGCTGTTGA
1 TAGGCCCGCGT-ATTGTGTGGGCGCTGTTGA
* *
44232314 TGGGCCCGCGTCTTGTGTGGGCGCTGTTGA
1 TAGGCCCGCGTATTGTGTGGGCGCTGTTGA
44232344 TAGGCCCGC
1 TAGGCCCGC
44232353 ATCGTCATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.07, C:0.23, G:0.42, T:0.28
Consensus pattern (30 bp):
TAGGCCCGCGTATTGTGTGGGCGCTGTTGA
Found at i:44234042 original size:22 final size:21
Alignment explanation
Indices: 44233995--44234043 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
44233985 AATAGAGCTT
* *
44233995 TTTTGAAAAAATTAAAGAGAG
1 TTTTGAAAAAATTAAAGAAAA
* *
44234016 CTTTGAAAGAAATTTAAGAAAA
1 TTTTGAAA-AAATTAAAGAAAA
44234038 TTTTGA
1 TTTTGA
44234044 GAGGATTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (21 bp):
TTTTGAAAAAATTAAAGAAAA
Found at i:44235051 original size:20 final size:22
Alignment explanation
Indices: 44235012--44235051 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
44235002 AAAAAGAAAA
*
44235012 TATATAATTTTATATTATTATC
1 TATATAATTTTATATAATTATC
44235034 TATAT-ATTTT-TATAATTA
1 TATATAATTTTATATAATTA
44235052 AATTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATAATTTTATATAATTATC
Found at i:44237367 original size:9 final size:9
Alignment explanation
Indices: 44237349--44237383 Score: 56
Period size: 8 Copynumber: 4.1 Consensus size: 9
44237339 TTTAAGGTTT
44237349 AAAAAG-AG
1 AAAAAGAAG
44237357 AAAAAGAAG
1 AAAAAGAAG
44237366 AAAAA-AAG
1 AAAAAGAAG
44237374 AAAAAGAAG
1 AAAAAGAAG
44237383 A
1 A
44237384 TGAATATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.56
9 11 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:44237375 original size:17 final size:17
Alignment explanation
Indices: 44237349--44237383 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44237339 TTTAAGGTTT
*
44237349 AAAAAGAGAAAAAGAAG
1 AAAAAAAGAAAAAGAAG
44237366 AAAAAAAGAAAAAGAAG
1 AAAAAAAGAAAAAGAAG
44237383 A
1 A
44237384 TGAATATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAG
Found at i:44238952 original size:144 final size:144
Alignment explanation
Indices: 44238676--44238945 Score: 477
Period size: 144 Copynumber: 1.9 Consensus size: 144
44238666 ATGGATTTCA
* *
44238676 TGGGAAATCTGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCTGAAGGTTACAGAGGA
1 TGGGAAATCCGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCGGAAGGTTACAGAGGA
* *
44238741 AGAGGCAAAGAATCTGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTTACAGTCTCTTATTA
66 AGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTTACAGTCTCTTATTA
44238806 TTATTATTATTCTT
131 TTATTATTATTCTT
44238820 TGGGAAATCCGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCGGAAGGTTACAGAGGA
1 TGGGAAATCCGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCGGAAGGTTACAGAGGA
* *
44238885 AGAGACAAAGAATCAGACCCCGTCAAATTAGGTAAAGAAGACTTTTTTTTTTACAGTCTCT
66 AGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGA-TTTTTTTTTTACAGTCTCT
44238946 GTTATTAAGG
Statistics
Matches: 119, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
144 100 0.84
145 19 0.16
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (144 bp):
TGGGAAATCCGAGAAATTGAAGGATCGGTCTTGCTGGGACAACAATGGCGGAAGGTTACAGAGGA
AGAGACAAAGAATCAGACCCCGCCAAATTAGGCAAAGAAGATTTTTTTTTTACAGTCTCTTATTA
TTATTATTATTCTT
Found at i:44239040 original size:21 final size:21
Alignment explanation
Indices: 44239014--44239053 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44239004 CAGTGTGGCA
*
44239014 AGTTAACTAGCCATATCAGCT
1 AGTTAACTAGCCACATCAGCT
*
44239035 AGTTAACTTGCCACATCAG
1 AGTTAACTAGCCACATCAG
44239054 TGGTCCTGTT
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:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTTAACTAGCCACATCAGCT
Found at i:44242450 original size:40 final size:40
Alignment explanation
Indices: 44242392--44242467 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
44242382 ACACATCATG
*
44242392 TGGGGACAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGACAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
44242432 TGGGGATATAATCAACCCATCCAACCCTACACACCA
1 TGGGGACAGAATCAACCCACCCAACCCTACACACCA
44242468 CAAGGTACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.37, G:0.14, T:0.13
Consensus pattern (40 bp):
TGGGGACAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:44243709 original size:29 final size:30
Alignment explanation
Indices: 44243650--44243707 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44243640 TCCGAGCCTT
*
44243650 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
44243680 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
44243708 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:44243937 original size:13 final size:13
Alignment explanation
Indices: 44243919--44243950 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44243909 TTTCCAGCAA
44243919 TTATGAATTTATT
1 TTATGAATTTATT
44243932 TTATGAATTTATT
1 TTATGAATTTATT
*
44243945 TGATGA
1 TTATGA
44243951 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:44244158 original size:50 final size:50
Alignment explanation
Indices: 44244045--44244286 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
44244035 ATTTGGGTAA
* * *
44244045 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
44244101 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44244151 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44244201 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
44244251 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
44244287 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:44244234 original size:100 final size:103
Alignment explanation
Indices: 44244045--44244294 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
44244035 ATTTGGGTAA
44244045 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
44244110 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
44244151 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
44244213 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
44244251 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44244295 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:44248469 original size:14 final size:14
Alignment explanation
Indices: 44248450--44248484 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
44248440 AAGTATTAAT
*
44248450 TTATTTTTCAATAA
1 TTATTTTTCAAAAA
*
44248464 TTATTTTTTAAAAA
1 TTATTTTTCAAAAA
44248478 TTATTTT
1 TTATTTT
44248485 CAGTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTTTTCAAAAA
Found at i:44252632 original size:26 final size:26
Alignment explanation
Indices: 44252603--44252684 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
44252593 TGGTACAAAT
44252603 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44252629 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44252655 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44252681 TGAT
1 TGAT
44252685 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44261190 original size:3 final size:3
Alignment explanation
Indices: 44261184--44261272 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
44261174 AAAAAAACCT
*
44261184 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
44261232 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
44261273 TATCCGTTTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:44263159 original size:21 final size:21
Alignment explanation
Indices: 44263113--44263159 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
44263103 ATATAAACAC
*
44263113 ATTCACATTCCAACATATAAA
1 ATTCACATTACAACATATAAA
* *
44263134 GTTCACATTATAA-ATATAAA
1 ATTCACATTACAACATATAAA
44263154 TATTCA
1 -ATTCA
44263160 TTCATAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTCACATTACAACATATAAA
Found at i:44265426 original size:27 final size:27
Alignment explanation
Indices: 44265366--44265429 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
44265356 GGGCATAATT
* * *
44265366 GTCATTCTACCATAAAGGGGTATTATG
1 GTCATTTTACCATAAAGGGGCATTACG
* *
44265393 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCATAAAGGGGCATTACG
44265420 GTCATTTTAC
1 GTCATTTTAC
44265430 ACTAAAAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATAAAGGGGCATTACG
Found at i:44268833 original size:48 final size:48
Alignment explanation
Indices: 44268780--44268912 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 48
44268770 ATTTATCATG
*
44268780 TAGGTTCAACCCTAACGGGTAACTAGGAACTATTACTCATTATTCGTA
1 TAGGTTTAACCCTAACGGGTAACTAGGAACTATTACTCATTATTCGTA
* * * * * *
44268828 TAGGTTTAACCTTGACTGGTAACTAGGCAA-TATTATTCATTATTTGTG
1 TAGGTTTAACCCTAACGGGTAACTAGG-AACTATTACTCATTATTCGTA
* * *
44268876 TAGGTTTAACCCAAATGGGTAACCA-GACACTATTACT
1 TAGGTTTAACCCTAACGGGTAACTAGGA-ACTATTACT
44268913 TTCAACTGTG
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
46 1 0.01
47 2 0.03
48 63 0.93
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (48 bp):
TAGGTTTAACCCTAACGGGTAACTAGGAACTATTACTCATTATTCGTA
Found at i:44271484 original size:48 final size:47
Alignment explanation
Indices: 44271350--44271485 Score: 175
Period size: 48 Copynumber: 2.8 Consensus size: 47
44271340 GCTATTTATC
* *
44271350 GTGTAGGTTCAACCCTAACGGGTAACCAGGA-ACTATTACTCATTATTT
1 GTGTAGGTTCAA-CCTAATGGGTAACCA-GACACTATTATTCATTATTT
* * * *
44271398 GTGTAGGTTTAACCTTAATTGGTAACCAGGCAATATTATTCATTATTT
1 GTGTAGGTTCAACC-TAATGGGTAACCAGACACTATTATTCATTATTT
44271446 GTGTAGGTTCAACCTAAATGGGTAACCAGACACTATTATT
1 GTGTAGGTTCAACCT-AATGGGTAACCAGACACTATTATT
44271486 TTCACCTGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 4 0.05
48 71 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (47 bp):
GTGTAGGTTCAACCTAATGGGTAACCAGACACTATTATTCATTATTT
Found at i:44277908 original size:24 final size:24
Alignment explanation
Indices: 44277876--44277922 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44277866 AAGAAGTATG
44277876 TAGATATTTTTGGATGATTCATCT
1 TAGATATTTTTGGATGATTCATCT
*
44277900 TAGATATTTTTGGATTATTCATC
1 TAGATATTTTTGGATGATTCATC
44277923 CATGGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (24 bp):
TAGATATTTTTGGATGATTCATCT
Found at i:44286149 original size:18 final size:15
Alignment explanation
Indices: 44286107--44286144 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
44286097 TAAGTAGAAT
44286107 TATGCATGATGAAAG
1 TATGCATGATGAAAG
44286122 TATGCATGATGAAAG
1 TATGCATGATGAAAG
44286137 TATGCATG
1 TATGCATG
44286145 TTGATACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (15 bp):
TATGCATGATGAAAG
Found at i:44300533 original size:43 final size:43
Alignment explanation
Indices: 44300378--44300534 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 43
44300368 TGTGTTTTCG
* * *
44300378 TGTAAGACCACGCCTGGGACATTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * * * * *
44300422 TGTAAGACGATGTATGGGACATCGGCATCG-TATTTTATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* ** * *
44300464 TGTTAGACCTTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
*
44300507 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
44300535 TGTACGAGTT
Statistics
Matches: 87, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 25 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:44301123 original size:7 final size:7
Alignment explanation
Indices: 44301111--44301135 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44301101 GGTTTGATTT
44301111 TGATATA
1 TGATATA
44301118 TGATATA
1 TGATATA
44301125 TGATATA
1 TGATATA
44301132 TGAT
1 TGAT
44301136 GCAAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (7 bp):
TGATATA
Found at i:44306198 original size:68 final size:68
Alignment explanation
Indices: 44306117--44306272 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 68
44306107 AATCATGTGT
* * * * *
44306117 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGATAC-AG-GATGTATC-C
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGCGTGATACAAGTGAAGGA-CAC
44306178 CATGTAG
62 CATGTAG
* *
44306185 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCTAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGCGTGATAC-AAGTGAAGGACACC
44306250 ATGTAG
63 ATGTAG
44306256 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
44306273 AAAATCGGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
68 32 0.43
69 9 0.12
70 8 0.11
71 25 0.34
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGCGTGATACAAGTGAAGGACACCATG
TAG
Found at i:44314089 original size:13 final size:13
Alignment explanation
Indices: 44314071--44314120 Score: 91
Period size: 13 Copynumber: 3.8 Consensus size: 13
44314061 ACGAAGTAGG
44314071 ACACGGCCGTGCT
1 ACACGGCCGTGCT
44314084 ACACGGCCGTGCT
1 ACACGGCCGTGCT
44314097 ACACGGCCGTGCT
1 ACACGGCCGTGCT
*
44314110 ACATGGCCGTG
1 ACACGGCCGTG
44314121 TGCACCAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.16, C:0.36, G:0.32, T:0.16
Consensus pattern (13 bp):
ACACGGCCGTGCT
Found at i:44316050 original size:14 final size:13
Alignment explanation
Indices: 44316024--44316062 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
44316014 GTTTAAAGAC
*
44316024 TTTTATTTATTAT
1 TTTTATTTTTTAT
44316037 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
44316051 TTTTATCTTTTT
1 TTTTAT-TTTTT
44316063 TAAAACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:44316771 original size:18 final size:19
Alignment explanation
Indices: 44316738--44316773 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44316728 ATCAAGCATG
*
44316738 ATAAAGTTTATTTTTTAGA
1 ATAAAATTTATTTTTTAGA
44316757 ATAAAATTT-TTTTTTAG
1 ATAAAATTTATTTTTTAG
44316774 GTTGTTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATAAAATTTATTTTTTAGA
Found at i:44321880 original size:43 final size:43
Alignment explanation
Indices: 44321785--44321906 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
44321775 GGGGAGATGT
* * * *
44321785 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* *
44321828 GATTACGTGTAAGACCATGTCTGGGAAATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* * *
44321871 GATTTCGTGTAAGAGCC-TGTCTAGGACAGTGGCATC
1 GATTACGTGTAAGA-CCATGTCTGGGACATTGGCATC
44321907 AATATGTGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 62 0.93
44 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:44333180 original size:27 final size:27
Alignment explanation
Indices: 44333149--44333325 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44333139 TAAATTGTAC
*
44333149 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44333176 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44333202 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
44333230 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
44333258 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44333284 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
44333311 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44333326 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 81 0.64
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:44333295 original size:81 final size:81
Alignment explanation
Indices: 44333150--44333304 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
44333140 AAATTGTACA
* *
44333150 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
44333215 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
44333231 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
44333294 GTGCGAGTTGA
64 GTGCGAATTGA
44333305 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 41 0.61
82 25 0.37
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44333316 original size:81 final size:81
Alignment explanation
Indices: 44333146--44333325 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
44333136 GATTAAATTG
* *
44333146 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44333211 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
44333227 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44333290 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44333308 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44333326 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 58 0.69
82 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44342219 original size:35 final size:35
Alignment explanation
Indices: 44342180--44342375 Score: 191
Period size: 35 Copynumber: 5.6 Consensus size: 35
44342170 CATGATAAGA
* * *
44342180 TGTGAAATGTAGGTATGGTATCATCGATACTCAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
44342215 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
44342250 TGTGAAACATAGGTATGATATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * **
44342285 TATGAAACGTAGGTATGGTATTATCCATTTTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * *
44342320 TAAGAAATAG-AGGTATGGCAT-TTCCCATA-TCGAGT
1 TGTGAAA-CGTAGGTATGGTATCAT-CCATACT-GAGT
*
44342355 TGTGAAATGTAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
44342376 TTCAATGAGG
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
34 3 0.02
35 131 0.97
36 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:44361919 original size:40 final size:40
Alignment explanation
Indices: 44361864--44362081 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
44361854 CGGATGATAA
* *
44361864 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
44361904 CCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44361944 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44361984 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44362024 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
44362064 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44362082 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 17 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44364020 original size:48 final size:47
Alignment explanation
Indices: 44363919--44364287 Score: 195
Period size: 47 Copynumber: 7.9 Consensus size: 47
44363909 TTAATTGTGT
**
44363919 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT--TTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTAGACGAGA
* *
44363965 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT-AGACGAGA
** *
44364013 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG-GTTTCAAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT--AGACG-AGA
* *
44364059 GCAAGTGTAACA-CATGTCTGGGACAT-GCATCG--ATT--ACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGACGAGA
* * * * *
44364100 TGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAG-CTA-T
1 -G-CT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAT-TAGACGAGA
* * * *
44364151 GTTAGTGTAAGACCACGTATGGGACATGGCATCGGCACGGA-TATG-TGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC--ATTA-GACGAGA
* *
44364201 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TTA-ATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGA-CGA-GA
* * *
44364248 GCTGGTGTAAGACCATGTTTGGGACATGGCATTGACATTA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTA
44364288 TACCCTATGT
Statistics
Matches: 259, Mismatches: 33, Indels: 60
0.74 0.09 0.17
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 1 0.00
44 8 0.03
45 22 0.08
46 60 0.23
47 65 0.25
48 60 0.23
49 5 0.02
50 31 0.12
51 1 0.00
52 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGACGAGA
Found at i:44364068 original size:46 final size:45
Alignment explanation
Indices: 44363922--44364137 Score: 172
Period size: 46 Copynumber: 4.7 Consensus size: 45
44363912 ATTGTGTGCT
** ***
44363922 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTTTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATGAGAG-C
* *
44363968 AGTGTAAAACCATGTCTGGGACATGGCATC-G--ACATTGAGACGAGAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACA---AGATGAGAGC
*
44364015 TAGTGTAAGACATGTCTGGGACATGCATCGGTTTCAAGATGTA-AGC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATG-AGAGC
* * * * *
44364061 AAGTGTAACACATGTCTGGGACATGCATCGATTACGAGATGTG-TC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATGAGAGC
*
44364106 AGTGTAAGACCATGTTTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
44364138 CACGTATAGC
Statistics
Matches: 139, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
44 8 0.06
45 17 0.12
46 62 0.45
47 32 0.23
48 18 0.13
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGTTACAAGATGAGAGC
Found at i:44371460 original size:12 final size:12
Alignment explanation
Indices: 44371443--44371473 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
44371433 TAGCACATTT
44371443 TATATTAAAGAG
1 TATATTAAAGAG
44371455 TATATTAAAGAG
1 TATATTAAAGAG
44371467 TATATTA
1 TATATTA
44371474 TGATAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (12 bp):
TATATTAAAGAG
Found at i:44373392 original size:136 final size:136
Alignment explanation
Indices: 44373159--44373432 Score: 521
Period size: 136 Copynumber: 2.0 Consensus size: 136
44373149 AGCCTATTCA
* *
44373159 GGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTTAGCCCCTTATT
1 GGTAACAATGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
44373224 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
44373289 CATTTG
131 CATTTG
*
44373295 GGTAACAATGGTACTGGACCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAATGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
44373360 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
44373425 CATTTG
131 CATTTG
44373431 GG
1 GG
44373433 GAGACTACTC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (136 bp):
GGTAACAATGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATATGCAAGCC
CATTTG
Found at i:44375254 original size:26 final size:26
Alignment explanation
Indices: 44375221--44375324 Score: 156
Period size: 26 Copynumber: 4.0 Consensus size: 26
44375211 ATTCTCATCT
44375221 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
*
44375247 TGGAACATTTACC-CAACCTATTATCA
1 TGGAACATTTACCTAAACC-ATTATCA
* *
44375273 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
*
44375299 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCA
44375325 ATTTGTACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
25 4 0.06
26 63 0.90
27 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAAACCATTATCA
Found at i:44375299 original size:52 final size:52
Alignment explanation
Indices: 44375221--44375324 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
44375211 ATTCTCATCT
*
44375221 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCCAACCTATTATCA
1 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCCAACCCATTATCA
* * *
44375273 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCCAACCCATTATCA
44375325 ATTTGTACCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (52 bp):
TGGAACATTTACCTAAACCATTATCATGGAACATTTACCCAACCCATTATCA
Found at i:44377559 original size:9 final size:9
Alignment explanation
Indices: 44377547--44377600 Score: 108
Period size: 9 Copynumber: 6.0 Consensus size: 9
44377537 TAATTGAATT
44377547 GAATTATTC
1 GAATTATTC
44377556 GAATTATTC
1 GAATTATTC
44377565 GAATTATTC
1 GAATTATTC
44377574 GAATTATTC
1 GAATTATTC
44377583 GAATTATTC
1 GAATTATTC
44377592 GAATTATTC
1 GAATTATTC
44377601 AAGTCAACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (9 bp):
GAATTATTC
Found at i:44377828 original size:19 final size:19
Alignment explanation
Indices: 44377767--44377829 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
44377757 TTACAAACAA
* *
44377767 AAAAATCAAAATAACTTAC
1 AAAAATCAAAATAATTTAT
*
44377786 AAAAATTCAAGATAATTT-T
1 AAAAA-TCAAAATAATTTAT
*
44377805 TAAAATCCAAAAT-ATTTAT
1 AAAAAT-CAAAATAATTTAT
44377824 AAAAAT
1 AAAAAT
44377830 TTCAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.14
19 20 0.57
20 10 0.29
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Done.