Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1490345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1007410 original size:20 final size:20
Alignment explanation
Indices: 1007321--1007573 Score: 130
Period size: 20 Copynumber: 12.7 Consensus size: 20
1007311 AAGGTGTCAA
*
1007321 AGTGCATCCATGCATCCCTGC
1 AGTGCATCGATGCAT-CCTGC
* **
1007342 AGTGCATCCATATATCCCTGC
1 AGTGCATCGATGCAT-CCTGC
*
1007363 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCGATGCATCCTG--C
1007384 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCGATGCATCC-TGC
*
1007405 AGTGCATCCATGCA--CT-C
1 AGTGCATCGATGCATCCTGC
** *
1007422 A-AACACCGAATGCAAT--T--
1 AGTGCATCG-ATGC-ATCCTGC
*
1007439 AGTGCATCGATGCATCCTTC
1 AGTGCATCGATGCATCCTGC
* *
1007459 TGTGCATCGATGCATCCTTC
1 AGTGCATCGATGCATCCTGC
* * *
1007479 TGTGCATCGATGCATCATTC
1 AGTGCATCGATGCATCCTGC
* *
1007499 TGTGCATCGATGCATCCTTC
1 AGTGCATCGATGCATCCTGC
* ** *
1007519 TGTGCATCGATGCATCAAGGT
1 AGTGCATCGATGCATC-CTGC
* *
1007540 TGTACATCGATGCATCCTGC
1 AGTGCATCGATGCATCCTGC
* *
1007560 TGTGCATCTATGCA
1 AGTGCATCGATGCA
1007574 CGAAGGCTAC
Statistics
Matches: 193, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.03
17 11 0.06
18 8 0.04
19 5 0.03
20 99 0.51
21 48 0.25
22 15 0.08
23 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTGC
Found at i:1007486 original size:40 final size:40
Alignment explanation
Indices: 1007440--1007573 Score: 198
Period size: 40 Copynumber: 3.3 Consensus size: 40
1007430 AATGCAATTA
*
1007440 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
1007480 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
* * *
1007520 GTGCATCGATGCATCAAGGT-TGTACATCGATGCATCCTGCT
1 GTGCATCGATGCATC-A-TTCTGTGCATCGATGCATCCTTCT
*
1007561 GTGCATCTATGCA
1 GTGCATCGATGCA
1007574 CGAAGGCTAC
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
40 54 0.62
41 32 0.37
42 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (40 bp):
GTGCATCGATGCATCATTCTGTGCATCGATGCATCCTTCT
Found at i:1011589 original size:2 final size:2
Alignment explanation
Indices: 1011582--1011610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1011572 ACTAAAGTAA
1011582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1011611 CATACTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1012076 original size:25 final size:26
Alignment explanation
Indices: 1012025--1012086 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
1012015 AACTGAAATT
*
1012025 AAAT-AAATAAAAAGTAAATGACATA
1 AAATAAAATATAAAGTAAATGACATA
* *
1012050 AATTAAAATATAAATTAAATGAC-TA
1 AAATAAAATATAAAGTAAATGACATA
1012075 AAATAAAATATA
1 AAATAAAATATA
1012087 TCAGAAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AAATAAAATATAAAGTAAATGACATA
Found at i:1014462 original size:64 final size:64
Alignment explanation
Indices: 1014324--1014447 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
1014314 ATGCACATGA
*
1014324 AGTGCATCGATGCACCCCTTAAAAATGAAAACATCGAATGCAATTAGTGCATCGATGCATAAGG
1 AGTGCATCGATGCACCCCTTAAAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCATAAGG
* * * * * * * *
1014388 AGTGCATCGATTCATCCCTTTAAGATGAAAATATCGAAGGTAATTTGTGTATCGATGCAT
1 AGTGCATCGATGCACCCCTTAAAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCAT
1014448 GGGTAGTGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCTTAAAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCATAAGG
Found at i:1014499 original size:20 final size:20
Alignment explanation
Indices: 1014474--1014511 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1014464 TACATGTTAA
1014474 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
1014494 AGAATGCATTGATGCACT
1 AGAATGCATCGATGCACT
1014512 TCAAGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:1016284 original size:23 final size:23
Alignment explanation
Indices: 1016258--1016315 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1016248 TTTTATATGA
**
1016258 CACTTCGGTGCAATTCTATGCGG
1 CACTTCGGTGCAATTCTACACGG
*
1016281 CACTTCGGTGCAATTCTACATGG
1 CACTTCGGTGCAATTCTACACGG
1016304 CACTTCGGTGCA
1 CACTTCGGTGCA
1016316 TTTATACGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACACGG
Found at i:1019737 original size:64 final size:63
Alignment explanation
Indices: 1019668--1019810 Score: 198
Period size: 64 Copynumber: 2.2 Consensus size: 63
1019658 ATGCACATGA
*
1019668 AGTGCATCGATGCACCCTTTAAAAATGAAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-
1 AGTGCATCGATGCACCCTTT-AAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGT
* * * * *
1019732 AGTGCATCGATGCATCCCTTTAAGATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGT
1 AGTGCATCGATGCA-CCCTTTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAGGT
1019796 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
1019811 ATGTTAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
63 3 0.04
64 62 0.87
65 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (63 bp):
AGTGCATCGATGCACCCTTTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAGGT
Found at i:1019843 original size:20 final size:20
Alignment explanation
Indices: 1019818--1019855 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1019808 CACATGTTAA
1019818 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
1019838 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
1019856 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:1021660 original size:23 final size:23
Alignment explanation
Indices: 1021594--1021652 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
1021584 ATTTTATATG
1021594 GCACTTCGGTGCAATTCTACGCA
1 GCACTTCGGTGCAATTCTACGCA
* *
1021617 GCACTTTGGTGCAATTCTACGTA
1 GCACTTCGGTGCAATTCTACGCA
1021640 GCACTTCGGTGCA
1 GCACTTCGGTGCA
1021653 TTTATACGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGCA
Found at i:1025128 original size:64 final size:65
Alignment explanation
Indices: 1024986--1025148 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
1024976 AATTGTTCAG
* * * * * *
1024986 TGTGTATCGATGCACATGAAGCGCATCGATGCACCCCTTAAAAAATGGAAACATCGAATGTAATT
1 TGTGTATCGATGCATAAGGAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGTAATT
* * * * *
1025051 GGTGAATCGATGCATAAGGAGTGCATCGATGCATCCCTT-TAAGATGAAAACATCGAAGGTAATT
1 TGTGTATCGATGCATAAGGAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGTAATT
*
1025115 TGTGTATCGATGCAT-GGGTAGTGCATCGATGCAC
1 TGTGTATCGATGCATAAGG-AGTGCATCGATGCAC
1025149 ATGTTAAAGA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
63 2 0.02
64 48 0.59
65 32 0.39
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (65 bp):
TGTGTATCGATGCATAAGGAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGTAATT
Found at i:1025181 original size:20 final size:23
Alignment explanation
Indices: 1025136--1025192 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 23
1025126 GCATGGGTAG
1025136 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTT-AAGAA
1025160 TGCATCGATGCAC-TG-T-AGAA
1 TGCATCGATGCACATGTTAAGAA
1025180 TGCATCGATGCAC
1 TGCATCGATGCAC
1025193 GTCAAGGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACATGTTAAGAA
Found at i:1026990 original size:23 final size:23
Alignment explanation
Indices: 1026933--1026990 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1026923 TTTTATATGA
1026933 CACTTCGGTGCAATTCTACGCGG
1 CACTTCGGTGCAATTCTACGCGG
* *
1026956 CACTTCGATGCAATTCTACGTGG
1 CACTTCGGTGCAATTCTACGCGG
*
1026979 CACTTAGGTGCA
1 CACTTCGGTGCA
1026991 TTTACACGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACGCGG
Found at i:1028396 original size:31 final size:30
Alignment explanation
Indices: 1028361--1028474 Score: 174
Period size: 30 Copynumber: 3.7 Consensus size: 30
1028351 GAATCTTTTG
*
1028361 AATTTTTTAAAAATTTTAATATAAATCTCTA
1 AATTTTTT-AAAATTTTAATTTAAATCTCTA
* *
1028392 AATTTTTTTAAAATTTTGATTTAAATCTCAA
1 AA-TTTTTTAAAATTTTAATTTAAATCTCTA
*
1028423 AATTTTTTAAAATTTTGATTTAAATCTCTA
1 AATTTTTTAAAATTTTAATTTAAATCTCTA
1028453 AATTTTTTAAAATTTTAATTTA
1 AATTTTTTAAAATTTTAATTTA
1028475 TTCTTAAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
30 48 0.62
31 23 0.30
32 6 0.08
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (30 bp):
AATTTTTTAAAATTTTAATTTAAATCTCTA
Found at i:1030381 original size:6 final size:7
Alignment explanation
Indices: 1030348--1030380 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
1030338 GCTGAGTTTG
1030348 TTTTTCTT
1 TTTTTC-T
1030356 TTTTTCT
1 TTTTTCT
1030363 TTTTTCT
1 TTTTTCT
1030370 TTTTTCT
1 TTTTTCT
1030377 TTTT
1 TTTT
1030381 CCGTTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:1033777 original size:2 final size:2
Alignment explanation
Indices: 1033770--1033799 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1033760 TACTTTTTAA
1033770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1033800 TTAACTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1036257 original size:2 final size:2
Alignment explanation
Indices: 1036250--1036322 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
1036240 TTATTTTTCA
1036250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1036292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1036323 AAGGGTTGCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1045718 original size:44 final size:45
Alignment explanation
Indices: 1045667--1045808 Score: 129
Period size: 39 Copynumber: 3.3 Consensus size: 45
1045657 TCTATGACTT
* *
1045667 GTAAGACCTTACCGTTTCCGCAGGCTTCC-CTGCTATGTGCA-AGG
1 GTAAGACCTTACCGTTACCGCAGGC-TCCTCTACTATGTGCACAGG
* * *
1045711 GTAAGACCTCACTGTTACCGCAGGCTCCTCTACTTTGTGCACAGG
1 GTAAGACCTTACCGTTACCGCAGGCTCCTCTACTATGTGCACAGG
* * * * *
1045756 ATAAGACCTT---G---CCACAGGCCCCTCTGCTTTGTGCACAGG
1 GTAAGACCTTACCGTTACCGCAGGCTCCTCTACTATGTGCACAGG
1045795 GTAAGACCTTACCG
1 GTAAGACCTTACCG
1045809 GGTGTACAGG
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
39 34 0.41
42 2 0.02
43 3 0.04
44 32 0.39
45 11 0.13
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.25
Consensus pattern (45 bp):
GTAAGACCTTACCGTTACCGCAGGCTCCTCTACTATGTGCACAGG
Found at i:1051948 original size:39 final size:39
Alignment explanation
Indices: 1051893--1051969 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
1051883 TTACAGTAGT
**
1051893 AGGCTCCTCTTTTTTGTGCACAGGATAAGACCTTACCGC
1 AGGCTCCTCTGCTTTGTGCACAGGATAAGACCTTACCGC
*
1051932 AGGCTCCTCTGCTTTGTGCACAGGGTAAGACCTTACCG
1 AGGCTCCTCTGCTTTGTGCACAGGATAAGACCTTACCG
1051970 AGTGTACAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (39 bp):
AGGCTCCTCTGCTTTGTGCACAGGATAAGACCTTACCGC
Found at i:1064695 original size:21 final size:21
Alignment explanation
Indices: 1064657--1064696 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1064647 AAAAAATTAT
* *
1064657 CTAAAACATTATTATTTTTAA
1 CTAAAACATCAATATTTTTAA
*
1064678 CTAAAACATCAATGTTTTT
1 CTAAAACATCAATATTTTT
1064697 TAATATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (21 bp):
CTAAAACATCAATATTTTTAA
Found at i:1072025 original size:35 final size:36
Alignment explanation
Indices: 1071986--1072055 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
1071976 TCAATATCAC
* * *
1071986 TTGAGATTATTTT-TTTAAAACAAATTTTGTCTCAT
1 TTGAGATCATTTTCTTAAAAACAAATTTCGTCTCAT
*
1072021 TTGAGATCGTTTTCTTAAAAACAAATTTCGTCTCA
1 TTGAGATCATTTTCTTAAAAACAAATTTCGTCTCA
1072056 CTTGCGATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (36 bp):
TTGAGATCATTTTCTTAAAAACAAATTTCGTCTCAT
Found at i:1072553 original size:21 final size:21
Alignment explanation
Indices: 1072503--1072580 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
1072493 TTTCTAAATG
*
1072503 TTTTATTTCAATTTCA-TATTAT
1 TTTTATTT-AATTT-ATTACTAT
* *
1072525 ATTAATTTAATTTATTACTAT
1 TTTTATTTAATTTATTACTAT
1072546 TTTTATTTACATTTTATTACTTAT
1 TTTTATTTA-A-TTTATTAC-TAT
*
1072570 TATTA-TTAATT
1 TTTTATTTAATT
1072581 AGAATTTTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.41
22 8 0.17
23 11 0.24
24 7 0.15
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTTAATTTATTACTAT
Found at i:1074286 original size:14 final size:14
Alignment explanation
Indices: 1074267--1074303 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1074257 CGAGTCTGGA
*
1074267 GAACATAAACAAGC
1 GAACATAAACAAAC
1074281 GAACATAAACAAAC
1 GAACATAAACAAAC
*
1074295 AAACATAAA
1 GAACATAAA
1074304 TGAACAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.19, G:0.08, T:0.08
Consensus pattern (14 bp):
GAACATAAACAAAC
Found at i:1074309 original size:14 final size:14
Alignment explanation
Indices: 1074268--1074317 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
1074258 GAGTCTGGAG
* *
1074268 AACATAAACAAGCG
1 AACATAAACAAACA
1074282 AACATAAACAAACA
1 AACATAAACAAACA
**
1074296 AACATAAATGAACA
1 AACATAAACAAACA
*
1074310 AACCTAAA
1 AACATAAA
1074318 GAAATGATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.64, C:0.20, G:0.06, T:0.10
Consensus pattern (14 bp):
AACATAAACAAACA
Found at i:1076115 original size:409 final size:409
Alignment explanation
Indices: 1075335--1076152 Score: 1293
Period size: 409 Copynumber: 2.0 Consensus size: 409
1075325 AAGCATCCGT
* * *
1075335 CAAAAAAATCCTCTCAAGAGTTCGGTACTTTGGGATAAACTTTACAGCTGCAAACAGTTTGGTAG
1 CAAAAAAATCCTCTCAAGAGTTCGGTACTTTGAGATAAACTTTACAGCTGCAAACAGTTTGGCAA
*
1075400 CATCTGAAGTCCTTTAGACACAAACTCACCTCTACGCTTCGGAAATGTATCCAGTTGATTAATTT
66 CATCTGAAGTCCTTTAGACACAAACTCACCTCTACGCTTCGGAAATGTATCCAGTTGAATAATTT
*
1075465 AGAGAGCTTGATATTTTGAGAGGAGCTTCACATCTACATACATTTTGGCAACATTTGAGAACTTC
131 AGAGAGCTTGATATTTTAAGAGGAGCTTCACA-CTACATACATTTTGGCAACATTTGAGAACTTC
* * * *
1075530 TCAACAGAAGCTTACCTCAGTGCTCCAAATCATATCAAGTCGATTTATTTAGGAACATTCATGTT
195 TCAACAGAAGCTTACATCAGTACTCCAAATCATATCAAATCGATTTATTCAGGAACATTCATGTT
* * * *
1075595 AATTATGCTTGAGGCATCTGACTTTATTTCTCGATTTTTTATCCTTTCCATGGCTGCCATGACTT
260 AATGATGCTTGAGGCATCTGACTTTATTTCTCGATTTTTTATCATTTCCATAGCTGCCACGACTT
*
1075660 TGTAAAAAATCCAATTTTATCATTTTTAGCCCTATTTTTGTTCATTCACAAGCATCTTATAAGTA
325 TGTAAAAAATCCAATTTTATCATTTTGAGCCCTATTTTTGTTCATTCACAAGCATCTTATAAGTA
1075725 GATCAACATAGTTCAAAAGG
390 GATCAACATAGTTCAAAAGG
* * *
1075745 CAAATAAAATTCTCTCAAGAGTTCGGTACTTTGAGATAAGCTTTACAGCTGCAAACATTTTGGCA
1 CAAA-AAAATCCTCTCAAGAGTTCGGTACTTTGAGATAAACTTTACAGCTGCAAACAGTTTGGCA
* * *
1075810 ACATCTGAAGTCCTTTCGACACAAACTCACCTCTACGCTTCGGGAATGTATCCATTTGAATAATT
65 ACATCTGAAGTCCTTTAGACACAAACTCACCTCTACGCTTCGGAAATGTATCCAGTTGAATAATT
* **
1075875 TAGAGAG-TCTGATATTTTAAGAGGAGCTTCACA-TATATACATTTTGGCAACATTTGAGATTTT
130 TAGAGAGCT-TGATATTTTAAGAGGAGCTTCACACTACATACATTTTGGCAACATTTGAGAACTT
*
1075938 CTCAACAGAAGCTTACATCAGTACTCCAAATCATATCAAATCGATTTATTCAGGAACGTTCATGT
194 CTCAACAGAAGCTTACATCAGTACTCCAAATCATATCAAATCGATTTATTCAGGAACATTCATGT
* * *
1076003 TAATGATGCTTGAGGCATCTGACTTTATTTCTTGATTTTTTATCATTTCCATAGTTTCCACGACT
259 TAATGATGCTTGAGGCATCTGACTTTATTTCTCGATTTTTTATCATTTCCATAGCTGCCACGACT
** *
1076068 TTGTAAAATTTCCAATTTTCTCATTTTCGAGCCTCT-TTTTT-TTCATTCACAAGCATCTTATAA
324 TTGTAAAAAATCCAATTTTATCATTTT-GAGCC-CTATTTTTGTTCATTCACAAGCATCTTATAA
1076131 GTAGATCAACATAGTTCAAAAG
387 GTAGATCAACATAGTTCAAAAG
1076153 AAAACAAAAG
Statistics
Matches: 374, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
409 213 0.57
410 14 0.04
411 147 0.39
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (409 bp):
CAAAAAAATCCTCTCAAGAGTTCGGTACTTTGAGATAAACTTTACAGCTGCAAACAGTTTGGCAA
CATCTGAAGTCCTTTAGACACAAACTCACCTCTACGCTTCGGAAATGTATCCAGTTGAATAATTT
AGAGAGCTTGATATTTTAAGAGGAGCTTCACACTACATACATTTTGGCAACATTTGAGAACTTCT
CAACAGAAGCTTACATCAGTACTCCAAATCATATCAAATCGATTTATTCAGGAACATTCATGTTA
ATGATGCTTGAGGCATCTGACTTTATTTCTCGATTTTTTATCATTTCCATAGCTGCCACGACTTT
GTAAAAAATCCAATTTTATCATTTTGAGCCCTATTTTTGTTCATTCACAAGCATCTTATAAGTAG
ATCAACATAGTTCAAAAGG
Found at i:1078113 original size:23 final size:22
Alignment explanation
Indices: 1078049--1078117 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
1078039 GAGTCGAGGG
1078049 TTCTACGAGGTCCTTCGG--AA
1 TTCTACGAGGTCCTTCGGACAA
* * * *
1078069 TATATATGTGGTCCTTGGGGACAA
1 T-TCTACGAGGTCCTT-CGGACAA
1078093 TTCTACGAGGTCCTTCAGGACAA
1 TTCTACGAGGTCCTTC-GGACAA
1078116 TT
1 TT
1078118 TTATATGGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 2 0.06
23 19 0.53
24 3 0.08
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (22 bp):
TTCTACGAGGTCCTTCGGACAA
Found at i:1079397 original size:44 final size:44
Alignment explanation
Indices: 1079259--1079725 Score: 239
Period size: 44 Copynumber: 10.7 Consensus size: 44
1079249 ATTTCGTTCA
* * *** * *
1079259 ATTCTATCACAGAAGGAGGTGGATCAA-ATTTTCATTTTACTCA
1 ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
* * * * * *
1079302 AATCCATCGCATAA-GAAGTTGGATCAGCATCAAC-GTTTGCTCG
1 ATTCCATCACAGAATG-AGGTGGATCAACATCAACATTTTGCTCG
* * *
1079345 ATTCTATCACAGAATGAGGTAGATCAACATCAACTTTTTGCTCG
1 ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
** * * * * * * * *
1079389 ATTATATCACAAAATGATGTAGATCAGCACCAACATTTCGTTCT
1 ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
*** *
1079433 ATTCCATCACAG-A-GAAGGTGGATCAACATTTTCATTTTGCTCA
1 ATTCCATCACAGAATG-AGGTGGATCAACATCAACATTTTGCTCG
* * * * * * * *
1079476 AATCCATCTC-GTAAGGAGTTGGATTAGCATAAACTTTTTGCTCG
1 ATTCCATCACAG-AATGAGGTGGATCAACATCAACATTTTGCTCG
* * * * * * *
1079520 ATTCTATCACAGAATGAGGTAGATTAGCACCAACATTTCGTTCG
1 ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
* *** *
1079564 ATTCCATCACAGAAGGAGAG-GGATCAACATTTTCATTTTGCTCA
1 ATTCCATCACAGAATGAG-GTGGATCAACATCAACATTTTGCTCG
* * * ** * *
1079608 AATCCATCGCATAA-GAATTTGGATCAACATCAACTTTTTGCTCT
1 ATTCCATCACAGAATG-AGGTGGATCAACATCAACATTTTGCTCG
* * * * * * *
1079652 ATTCTATCACAGAATAAGGTAGATCATCACCAACATTTCGTTCG
1 ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
* *
1079696 ATTCCATCACAGAAGGAGGTGGACCAACAT
1 ATTCCATCACAGAATGAGGTGGATCAACAT
1079726 TTTCATTTCG
Statistics
Matches: 305, Mismatches: 106, Indels: 25
0.70 0.24 0.06
Matches are distributed among these distances:
42 3 0.01
43 78 0.26
44 221 0.72
45 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (44 bp):
ATTCCATCACAGAATGAGGTGGATCAACATCAACATTTTGCTCG
Found at i:1079529 original size:87 final size:86
Alignment explanation
Indices: 1079259--1079532 Score: 239
Period size: 87 Copynumber: 3.2 Consensus size: 86
1079249 ATTTCGTTCA
* * * *
1079259 ATTCTATCACAGAAGGAGGTGGATCAA-ATTTTCATTTTACTCAAATCCATCGCATAAGAAGTTG
1 ATTCTATCACAG-AGAAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCACATAAGGAGTTG
*
1079323 GATCAGCATCAACGTTTGCTCG
65 GATCAGCATCAACTTTTGCTCG
* *** * * * ** * *
1079345 ATTCTATCACAGA-ATGAGGTAGATCAACATCAACTTTTTGCTCGATTATATCACAAAATGA-TG
1 ATTCTATCACAGAGA--AGGTGGATCAACATTTTCATTTTGCTCAAATCCATCACATAAGGAGT-
* * * * *
1079408 TAGATCAGCACCAACATTTCGTTCT
63 TGGATCAGCATCAAC-TTTTGCTCG
* * *
1079433 ATTCCATCACAGAGAAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCTCGTAAGGAGTTGG
1 ATTCTATCACAGAGAAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCACATAAGGAGTTGG
* *
1079498 ATTAGCATAAACTTTTTGCTCG
66 ATCAGCATCAAC-TTTTGCTCG
1079520 ATTCTATCACAGA
1 ATTCTATCACAGA
1079533 ATGAGGTAGA
Statistics
Matches: 137, Mismatches: 44, Indels: 13
0.71 0.23 0.07
Matches are distributed among these distances:
85 1 0.01
86 23 0.17
87 94 0.69
88 18 0.13
89 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (86 bp):
ATTCTATCACAGAGAAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCACATAAGGAGTTGG
ATCAGCATCAACTTTTGCTCG
Found at i:1079656 original size:132 final size:131
Alignment explanation
Indices: 1079366--1079772 Score: 611
Period size: 132 Copynumber: 3.1 Consensus size: 131
1079356 GAATGAGGTA
* * *
1079366 GATCAACATCAACTTTTTGCTCGATTATATCACAAAATGATGTAGATCAGCACCAACATTTCGTT
1 GATCAACATCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTT
* * * *
1079431 CTATTCCATCACAG-AGAAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCTCGTAAGGAGT
66 CGATTCCATCACAGAAGGAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCGCATAA-GAGT
1079495 TG
130 TG
* * * *
1079497 GATTAGCATAAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATTAGCACCAACATTTCGTT
1 GATCAACATCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTT
*
1079562 CGATTCCATCACAGAAGGAGAG-GGATCAACATTTTCATTTTGCTCAAATCCATCGCATAAGAAT
66 CGATTCCATCACAGAAGGAG-GTGGATCAACATTTTCATTTTGCTCAAATCCATCGCATAAG-AG
1079626 TTG
129 TTG
* * *
1079629 GATCAACATCAACTTTTTGCTCTATTCTATCACAGAATAAGGTAGATCATCACCAACATTTCGTT
1 GATCAACATCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTT
* *
1079694 CGATTCCATCACAGAAGGAGGTGGACCAACATTTTCATTTCGCTCAAATCCATCGCATAAGAGTT
66 CGATTCCATCACAGAAGGAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCGCATAAGAGTT
1079759 G
131 G
*
1079760 GATCAGCATCAAC
1 GATCAACATCAAC
1079773 GTTGTTTTCG
Statistics
Matches: 249, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
131 89 0.36
132 159 0.64
133 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (131 bp):
GATCAACATCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTT
CGATTCCATCACAGAAGGAGGTGGATCAACATTTTCATTTTGCTCAAATCCATCGCATAAGAGTT
G
Found at i:1081538 original size:154 final size:153
Alignment explanation
Indices: 1081226--1081550 Score: 577
Period size: 154 Copynumber: 2.1 Consensus size: 153
1081216 AAAAATGGGG
**
1081226 CCCATTTACAA-A-CCTGATGACCATCATCAATACCCAAATACAACAACACAACACTCGACAACC
1 CCCATTTACAAGACCCAAATGACCATCATCAATACCCAAATACAACAACACAACACTCGACAACC
1081289 CACAAGTCAAACCCAGAATTACCTAACAAGAGCCCAGTTTTAACAGCTCAACCGCCCATTACAAG
66 CACAAGTCAAACCCAGAATTACCTAACAAGAGCCCAGTTTTAACAGCTCAACCGCCCATTACAAG
1081354 ACCCAGAACTCAACCCGAACCGA
131 ACCCAGAACTCAACCCGAACCGA
1081377 CCCATTTACAAGACCCAAATGACCATCATCAATACCCAAATACAAC-ACAC-ACACTCGACAACC
1 CCCATTTACAAGACCCAAATGACCATCATCAATACCCAAATACAACAACACAACACTCGACAACC
1081440 CACAAGTCAAACCCAGAATTTACCTAACAAGAGCCCAGTTTTAACAGCTCAACCGACCCATTTAC
66 CACAAGTCAAACCCAGAA-TTACCTAACAAGAGCCCAGTTTTAACAGCTCAACCG-CCCA-TTAC
1081505 AAGACCCAGAACTCAACCCGAACCGA
128 AAGACCCAGAACTCAACCCGAACCGA
1081531 CCCATTTACAAGACCCAAAT
1 CCCATTTACAAGACCCAAAT
1081551 AGAGCCGATC
Statistics
Matches: 167, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
151 42 0.25
152 41 0.25
153 34 0.20
154 50 0.30
ACGTcount: A:0.40, C:0.36, G:0.09, T:0.15
Consensus pattern (153 bp):
CCCATTTACAAGACCCAAATGACCATCATCAATACCCAAATACAACAACACAACACTCGACAACC
CACAAGTCAAACCCAGAATTACCTAACAAGAGCCCAGTTTTAACAGCTCAACCGCCCATTACAAG
ACCCAGAACTCAACCCGAACCGA
Found at i:1084493 original size:17 final size:17
Alignment explanation
Indices: 1084453--1084494 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1084443 TTTTCCTTCT
*
1084453 ATTATTTATATTAAAGT
1 ATTATTTATATTAAAGA
*
1084470 ATAATTTATATTATAA-A
1 ATTATTTATATTA-AAGA
1084487 ATTATTTA
1 ATTATTTA
1084495 AAATTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTATTTATATTAAAGA
Found at i:1086490 original size:15 final size:15
Alignment explanation
Indices: 1086468--1086502 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1086458 ATATCTTTTT
1086468 ATTT-AATAAAAATA
1 ATTTAAATAAAAATA
*
1086482 TTTTAAATAAAAATA
1 ATTTAAATAAAAATA
1086497 ATTTAA
1 ATTTAA
1086503 TGTACAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTAAATAAAAATA
Found at i:1094479 original size:578 final size:570
Alignment explanation
Indices: 1093367--1094479 Score: 1440
Period size: 575 Copynumber: 1.9 Consensus size: 570
1093357 GTCAGTTCGG
* *
1093367 GTCGAGTTTTATAAATGTGATGTTCGAGTCAGGTCGGATTCAGGTTTAAAGTGAAAATACCCGAC
1 GTCGAGTTTTATAAAGGTGATGTTAGAGTCAGGTCGGATTCAGGTTTAAAGTGAAAATACCCGAC
* * *
1093432 CTGACCCAACCCGAAAAAATATAATTTTACCTTATATATTTAGGAATAATTATAATAATACCCCT
66 CTGACCCAACCCAAAAAAATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCT
* *
1093497 CTATATATTAATTTTTTCAATTAAATCAATGTTTTTATTGAATAAAAATAATATTTTTTATTATT
131 CCATATATTAATTTTTTCAATTAAATCAATATTTTTATTGAATAAAAATAATATTTTTTATTATT
* * * *
1093562 TCGGGTCGGATCGGATCGGATTCGGATTTCATCTCAAAAAGTCATATCAGATTCAGGTTAGTAGA
196 TCGGGTCGAATCGGATCGGATTCGAATTTCATCTCAAAAAGTCATATCAGATCCAGGTGAGTAGA
* * * * * * * * * * * *
1093627 GGGTATATATTTTTTAGTTCGATTAGAATTGAGTGAAGGATGTAAAATTTTCGAATTAGATTGGG
261 AGATATATATTTTTCAATTCGAATAGAATAGAGTAAAAGATATAAAATTTTCAAATGAGATTAGG
* * * * *
1093692 TTGTCCTAAACCGGACCCATGTCCATCCCATTGAATCTTAACATTCTTTGCCTCTTTGTTCGAGT
326 TTGTCCGAAACCCGACCCATGCCCATCCCAGTGAATCTTAACATTCGTTGCCTCTTTGTTCGAGT
* * * *
1093757 GCTTCTATCATAATTTTAAGTTGGTAATTGGACAAATAAAGAAAATACAATAAATAATTAAATAA
391 ACTTCGATCATAATTTTAAGTTGGCAATTGGACAAATAAAGAAAATACAATAAACAATTAAATAA
* * * *
1093822 TATTCTTGATGGGAAGATTTGAACGATAACTTAATTTAAGGTTAATGAAAGATAATGAATTAGAA
456 TATTCTTGATGGGAAGATTTGAACCACAACTTAATTTAAGGTAAATGAAAGACAATGAATTAGAA
*
1093887 TAGCTGATTTTTTTTATATAAAAAATTGGGTTCGGGTCAGGTCGAGTCGA
521 TAGCTGAATTTTTTTATATAAAAAATTGGGTTCGGGTCAGGTCGAGTCGA
* * ** *
1093937 GTCGAGTTTTTTAAAGGTGATGTTTAG-GTTAGGTCGGATTCAGGTTTAGGGTGAAAATACCTGA
1 GTCGAGTTTTATAAAGGTGATG-TTAGAGTCAGGTCGGATTCAGGTTTAAAGTGAAAATACCCGA
*
1094001 CCTGGCCCAACCTGATCCAAAAAAATATAATTTTACCTTATATATTTAGAAATAATTACAATAAT
65 CCTGACCCAA-C----CCAAAAAAATATAATTTTACCTTATATATTTAGAAATAATTACAATAAT
* * *
1094066 ACCCTTCCATATATT-ATTTTTTCCAAATTAAATCAATATTTTTGTTTAATAAAAATAATA-TTT
125 ACCCCTCCATATATTAATTTTTT-C-AATTAAATCAATATTTTTATTGAATAAAAATAATATTTT
* * * *
1094129 TTATTATTTCGGGTCGAATTGGATCATG-TTTGAATTTTATCTCAAAAAGTCATATCAGATCC-G
188 TTATTATTTCGGGTCGAATCGGATC-GGATTCGAATTTCATCTCAAAAAGTCATATCAGATCCAG
* * *
1094192 AGTCGGGT-GAAAGATATATATTTTTCAATTCGAATCGAGTCAGA-TAAAAGATATAAAACTTTT
252 -GT-GAGTAG-AAGATATATATTTTTCAATTCGAATAGAAT-AGAGTAAAAGATATAAAA-TTTT
1094255 -AAATCGA-ATTAGGTTGGT-CGAAACCCGA-CCATGCCCATCCCTAGGTGAATCTTAACATTCG
312 CAAAT-GAGATTAGGTT-GTCCGAAACCCGACCCATGCCCATCCC-A-GTGAATCTTAACATTCG
*
1094316 TTGCCTCTTTGTTCGAGTACTTTCGATCATAATTTTAAGTTGGCGATTGGACAAATAAAGAAAAT
373 TTGCCTCTTTGTTCGAGTAC-TTCGATCATAATTTTAAGTTGGCAATTGGACAAATAAAGAAAAT
* *
1094381 ACAATAAACAATTAAATACTATTCTTGATGGGAAGATTTGAACCACGACTTAATTTAAGGTAAAT
437 ACAATAAACAATTAAATAATATTCTTGATGGGAAGATTTGAACCACAACTTAATTTAAGGTAAAT
* *
1094446 GAAGGACAATGAATTAGCATAGCCT-AATTTTTTT
502 GAAAGACAATGAATTAGAATAG-CTGAATTTTTTT
1094480 TTAAAACATA
Statistics
Matches: 465, Mismatches: 58, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
570 62 0.13
571 4 0.01
574 8 0.02
575 131 0.28
576 88 0.19
577 43 0.09
578 127 0.27
579 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (570 bp):
GTCGAGTTTTATAAAGGTGATGTTAGAGTCAGGTCGGATTCAGGTTTAAAGTGAAAATACCCGAC
CTGACCCAACCCAAAAAAATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCT
CCATATATTAATTTTTTCAATTAAATCAATATTTTTATTGAATAAAAATAATATTTTTTATTATT
TCGGGTCGAATCGGATCGGATTCGAATTTCATCTCAAAAAGTCATATCAGATCCAGGTGAGTAGA
AGATATATATTTTTCAATTCGAATAGAATAGAGTAAAAGATATAAAATTTTCAAATGAGATTAGG
TTGTCCGAAACCCGACCCATGCCCATCCCAGTGAATCTTAACATTCGTTGCCTCTTTGTTCGAGT
ACTTCGATCATAATTTTAAGTTGGCAATTGGACAAATAAAGAAAATACAATAAACAATTAAATAA
TATTCTTGATGGGAAGATTTGAACCACAACTTAATTTAAGGTAAATGAAAGACAATGAATTAGAA
TAGCTGAATTTTTTTATATAAAAAATTGGGTTCGGGTCAGGTCGAGTCGA
Found at i:1096563 original size:43 final size:41
Alignment explanation
Indices: 1096516--1096603 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 41
1096506 CATTTTTCAT
**
1096516 TTTTATTTC-TTTCAAAATTTAACATTTTCTTCTTTTTATTTTA
1 TTTTA-TTCGTTTCAAAA-TTAACATTTTCTTAATTTTA-TTTA
** *
1096559 TTTTATTCGTTTTTAAATTAATATTTTCTTAATTTTATTTA
1 TTTTATTCGTTTCAAAATTAACATTTTCTTAATTTTATTTA
1096600 TTTT
1 TTTT
1096604 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 8 0.21
42 20 0.51
43 11 0.28
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.67
Consensus pattern (41 bp):
TTTTATTCGTTTCAAAATTAACATTTTCTTAATTTTATTTA
Found at i:1096601 original size:18 final size:18
Alignment explanation
Indices: 1096580--1096617 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1096570 TTTAAATTAA
1096580 TATTTTCTTAATTTTATT
1 TATTTTCTTAATTTTATT
* *
1096598 TATTTTTTTAATTTTTTT
1 TATTTTCTTAATTTTATT
1096616 TA
1 TA
1096618 ATTTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTCTTAATTTTATT
Found at i:1096613 original size:10 final size:10
Alignment explanation
Indices: 1096576--1096621 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
1096566 CGTTTTTAAA
*
1096576 TTAATATTTTC
1 TTAAT-TTTTT
*
1096587 TTAATTTTAT
1 TTAATTTTTT
1096597 TT-A-TTTTT
1 TTAATTTTTT
1096605 TTAATTTTTT
1 TTAATTTTTT
1096615 TTAATTT
1 TTAATTT
1096622 AACTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
8 6 0.20
9 2 0.07
10 17 0.57
11 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TTAATTTTTT
Found at i:1096631 original size:28 final size:29
Alignment explanation
Indices: 1096576--1096631 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
1096566 CGTTTTTAAA
*
1096576 TTAATATTTTCTTAATTTTATTTATTTTT
1 TTAATATTTTCTTAATTTAATTTATTTTT
* *
1096605 TTAAT-TTTTTTTAATTTAACTT-TTTTT
1 TTAATATTTTCTTAATTTAATTTATTTTT
1096632 CTTCTCTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 14 0.58
29 5 0.21
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (29 bp):
TTAATATTTTCTTAATTTAATTTATTTTT
Found at i:1098573 original size:26 final size:27
Alignment explanation
Indices: 1098544--1098616 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
1098534 AATAGATCAG
*
1098544 AAATAAAAAAATTCAAATATTTTA-A-T
1 AAATAAAAAAATT-AAATATTCTAGAGT
* *
1098570 AAATTCAAAAAATGAAATATTCTAGAGT
1 AAA-TAAAAAAATTAAATATTCTAGAGT
1098598 AAATAAAAACAATTAAATA
1 AAATAAAAA-AATTAAATA
1098617 AAAACAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 12 0.32
27 14 0.37
28 12 0.32
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (27 bp):
AAATAAAAAAATTAAATATTCTAGAGT
Found at i:1098614 original size:14 final size:14
Alignment explanation
Indices: 1098597--1098624 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1098587 TATTCTAGAG
1098597 TAAATAAAAACAAT
1 TAAATAAAAACAAT
1098611 TAAATAAAAACAAT
1 TAAATAAAAACAAT
1098625 AACCTAAGAC
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:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAATAAAAACAAT
Found at i:1098883 original size:19 final size:18
Alignment explanation
Indices: 1098859--1098927 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 18
1098849 ACTGTAGACT
1098859 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAA-TTGGAAA
*
1098878 ATCGCAACGACATTGTAAA
1 ATCGCAACGA-ATTGGAAA
*
1098897 CTATCGCAATGCGAAATGGAAA
1 --ATCGCAA--CGAATTGGAAA
1098919 ATCGCAACG
1 ATCGCAACG
1098928 CGATTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.05
19 16 0.38
20 8 0.19
21 7 0.17
22 6 0.14
23 3 0.07
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (18 bp):
ATCGCAACGAATTGGAAA
Found at i:1098917 original size:41 final size:41
Alignment explanation
Indices: 1098856--1099113 Score: 336
Period size: 41 Copynumber: 6.5 Consensus size: 41
1098846 ACAACTGTAG
* * *
1098856 ACTATCGCAA--CGAATTTGGAAAATCGCAACGAC-ATTGTAA
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTTTCA
*
1098896 ACTATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
1098937 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
1098978 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTTA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1099019 ACTATCGCAACGCGAAATGG--AA----AACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * *
1099054 ACTATCGCAACGCGAAATGAAAAATCGCAATGCGATTTCCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
1099095 ACTATCGTAACGCGAAATG
1 ACTATCGCAACGCGAAATG
1099114 CAACGCGAAT
Statistics
Matches: 197, Mismatches: 12, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
35 31 0.16
37 2 0.01
39 2 0.01
40 11 0.06
41 147 0.75
42 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:1098924 original size:20 final size:20
Alignment explanation
Indices: 1098899--1099042 Score: 99
Period size: 20 Copynumber: 7.0 Consensus size: 20
1098889 ATTGTAAACT
*
1098899 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1098919 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
1098940 ATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1098960 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
1098981 ATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1099001 ATCGCAACGCGATTTTTAACT
1 ATCGCAACGCGAAATGGAA-A
1099022 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1099042 A
1 A
1099043 CGCGATTTTC
Statistics
Matches: 86, Mismatches: 35, Indels: 6
0.68 0.28 0.05
Matches are distributed among these distances:
20 43 0.50
21 43 0.50
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1098946 original size:21 final size:21
Alignment explanation
Indices: 1098919--1099033 Score: 99
Period size: 21 Copynumber: 5.6 Consensus size: 21
1098909 GAAATGGAAA
1098919 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
1098940 ATAGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
1098960 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
1098981 ATAGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
1099001 ATCGCAACGCGATTTTTAACT
1 ATCGCAACGCGATTTTCAACT
1099022 ATCGCAACGCGA
1 ATCGCAACGCGA
1099034 AATGGAAAAC
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 28 0.41
21 40 0.59
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1099057 original size:35 final size:35
Alignment explanation
Indices: 1099006--1099113 Score: 126
Period size: 35 Copynumber: 2.9 Consensus size: 35
1098996 GGAAAATCGC
* *
1099006 AACGCGATTTTTAACTATCGCAACGCGAAATGGAA
1 AACGCGATTTTCAACTATCGCAACGCGAAATGAAA
1099041 AACGCGATTTTCAACTATCGCAACGCGAAATGAAA
1 AACGCGATTTTCAACTATCGCAACGCGAAATGAAA
* *
1099076 AATCGCAATGCGATTTCCAACTATCGTAACGCGAAATG
1 AA---C---GCGATTTTCAACTATCGCAACGCGAAATG
1099114 CAACGCGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
35 35 0.56
38 1 0.02
41 27 0.43
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (35 bp):
AACGCGATTTTCAACTATCGCAACGCGAAATGAAA
Found at i:1099067 original size:21 final size:21
Alignment explanation
Indices: 1099041--1099109 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
1099031 CGAAATGGAA
1099041 AACGCGATTTTCAACTATCGC
1 AACGCGATTTTCAACTATCGC
** * **
1099062 AACGCGA-AATGAAAAATCGC
1 AACGCGATTTTCAACTATCGC
* * *
1099082 AATGCGATTTCCAACTATCGT
1 AACGCGATTTTCAACTATCGC
1099103 AACGCGA
1 AACGCGA
1099110 AATGCAACGC
Statistics
Matches: 33, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
AACGCGATTTTCAACTATCGC
Found at i:1099091 original size:76 final size:76
Alignment explanation
Indices: 1098965--1099113 Score: 244
Period size: 76 Copynumber: 2.0 Consensus size: 76
1098955 GGAAAATCGC
* **
1098965 AACGCGATTTTCAACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTTAACTATCGCAAC
1 AACGCGATTTTCAACTATAGCAACGCGAAATGAAAAATCGCAACGCGATTTCCAACTATCGCAAC
1099030 GCGAAATGGAA
66 GCGAAATGGAA
* * *
1099041 AACGCGATTTTCAACTATCGCAACGCGAAATGAAAAATCGCAATGCGATTTCCAACTATCGTAAC
1 AACGCGATTTTCAACTATAGCAACGCGAAATGAAAAATCGCAACGCGATTTCCAACTATCGCAAC
1099106 GCGAAATG
66 GCGAAATG
1099114 CAACGCGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (76 bp):
AACGCGATTTTCAACTATAGCAACGCGAAATGAAAAATCGCAACGCGATTTCCAACTATCGCAAC
GCGAAATGGAA
Found at i:1099117 original size:21 final size:21
Alignment explanation
Indices: 1099052--1099117 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
1099042 ACGCGATTTT
1099052 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
** * ** *
1099073 -AAAAATCGCAATGCGATTTC
1 CAACTATCGCAACGCGAAATG
*
1099093 CAACTATCGTAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
1099114 CAAC
1 CAAC
1099118 GCGAATTTGC
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:1099316 original size:14 final size:14
Alignment explanation
Indices: 1099297--1099326 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1099287 GAACTTACAA
1099297 AATAATATATAATT
1 AATAATATATAATT
*
1099311 AATAATATGTAATT
1 AATAATATATAATT
1099325 AA
1 AA
1099327 CACCGATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAATATATAATT
Found at i:1102948 original size:23 final size:23
Alignment explanation
Indices: 1102922--1102965 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
1102912 ATTTTTCACG
1102922 TCTTTTTTCT-TTTCTTTTTTTAA
1 TCTTTTTTCTCTTT-TTTTTTTAA
1102945 TCTTTTTTCTCTTTTTTTTTT
1 TCTTTTTTCTCTTTTTTTTTT
1102966 CGAACATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (23 bp):
TCTTTTTTCTCTTTTTTTTTTAA
Found at i:1118812 original size:20 final size:20
Alignment explanation
Indices: 1118787--1118831 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1118777 TGAATGGTTC
1118787 GGATGCTTACATGTATTCAA
1 GGATGCTTACATGTATTCAA
** *
1118807 GGATGCTTATGTGTATTCGA
1 GGATGCTTACATGTATTCAA
1118827 GGATG
1 GGATG
1118832 TTTGGTACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (20 bp):
GGATGCTTACATGTATTCAA
Found at i:1119647 original size:26 final size:26
Alignment explanation
Indices: 1119618--1119670 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1119608 AAGATACATT
*
1119618 CGCATAATGCATGAATCAGTTAGACA
1 CGCATAATGCATGAATCAATTAGACA
1119644 CGCATAATGCATGAATCAATTAGACA
1 CGCATAATGCATGAATCAATTAGACA
1119670 C
1 C
1119671 TTAATAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (26 bp):
CGCATAATGCATGAATCAATTAGACA
Found at i:1128068 original size:17 final size:17
Alignment explanation
Indices: 1128043--1128081 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1128033 TTAAATATTA
*
1128043 TTTTA-AATAATTACAC
1 TTTTACAATAATAACAC
*
1128059 TTTTACAATAATAACAT
1 TTTTACAATAATAACAC
1128076 TTTTAC
1 TTTTAC
1128082 GTCATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTTACAATAATAACAC
Found at i:1128264 original size:23 final size:20
Alignment explanation
Indices: 1128224--1128294 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
1128214 GATTTGAATG
*
1128224 CATGCAACCCTGTAGTGCATC
1 CATGC-ACCATGTAGTGCATC
1128245 CATGCACC-TGCTACTAGTGCATC
1 CATGCACCATG----TAGTGCATC
*
1128268 GATGCACCATGTAGTGCATC
1 CATGCACCATGTAGTGCATC
1128288 CATGCAC
1 CATGCAC
1128295 TCCATTTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 18 0.42
21 5 0.12
23 16 0.37
24 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (20 bp):
CATGCACCATGTAGTGCATC
Found at i:1130895 original size:18 final size:20
Alignment explanation
Indices: 1130862--1130905 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
1130852 AAGTTTGGTT
1130862 TGAAAAATTCAATTTCTTAA
1 TGAAAAATTCAATTTCTTAA
1130882 TGAAAAA-T-AATTTCTTAA
1 TGAAAAATTCAATTTCTTAA
1130900 T-AAAAA
1 TGAAAAA
1130906 AGGGGGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.21
18 11 0.46
19 1 0.04
20 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
TGAAAAATTCAATTTCTTAA
Found at i:1130970 original size:19 final size:19
Alignment explanation
Indices: 1130946--1131004 Score: 100
Period size: 19 Copynumber: 3.0 Consensus size: 19
1130936 CAACAGTTGG
1130946 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
1130965 TAACAATTGATATCCTTTTGT
1 TAACAATTGATAT-CTTTT-T
1130986 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
1131005 CATTAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.37
20 10 0.26
21 14 0.37
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
TAACAATTGATATCTTTTT
Found at i:1170619 original size:105 final size:106
Alignment explanation
Indices: 1170339--1172011 Score: 2408
Period size: 105 Copynumber: 16.0 Consensus size: 106
1170329 CCAAATATCT
*
1170339 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1170403 CAGAGCCAATTTCAACTTCTCAACGAAGGAT-CTCGACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1170443 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1170507 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1170548 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1170612 CAGAGCCAATTTCAACTTCTCAACGAAGGATATT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1170652 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1170717 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1170758 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAACTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1170822 CAGAGCAAATTTCAACTTCTCAACGAAGGATCTT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1170862 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1170927 CAGAGCCAATATCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1170968 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAAC-ATTTCTTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1171032 CAGAGCCAATTTCAACTTCTCATCGAAGGATCTT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1171072 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1171137 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1171178 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1171241 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1171283 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1171346 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1171388 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1171451 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1171493 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * *
1171557 CAGAGCCAATTTCAACTTTACAACGAAAGATATTGGACTTC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
** * * *
1171598 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTACTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1171661 TCAGATCCAATTTCAACTTCACAACGAAGGATATTGAACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * *
1171703 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAATAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1171766 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
1171808 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGCTTGTCAA-CAA-AA-TT-TC-ATT-
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
** * * *
1171867 CAGAATCAATTTCAACTTCACAACGAAAGATGTTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * **
1171908 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1171973 CAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
1172012 TGGAACAATG
Statistics
Matches: 1461, Mismatches: 91, Indels: 32
0.92 0.06 0.02
Matches are distributed among these distances:
100 78 0.05
101 3 0.00
102 4 0.00
103 4 0.00
104 265 0.18
105 912 0.62
106 195 0.13
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1178889 original size:105 final size:106
Alignment explanation
Indices: 1178609--1180274 Score: 2381
Period size: 105 Copynumber: 16.0 Consensus size: 106
1178599 CCAAATATCT
*
1178609 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1178673 CAGAGCCAATTTCAACTTCTCAACGAAGGAT-CTCGACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1178713 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1178777 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1178818 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1178882 CAGAGCCAATTTCAACTTCTCAACGAAGGATATT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1178922 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1178987 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1179028 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAACTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1179092 CAGAGCAAATTTCAACTTCTCAACGAAGGATCTT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
1179132 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCTCAATT-
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
*
1179196 C--AG--AATATCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179233 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAAC-ATTTCTTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* * * *
1179297 CAGAGCCAATTTCAACTTCTCATCGAAGGATCTT-GACTCT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1179337 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1179402 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179443 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1179506 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179548 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1179611 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179653 AGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1179715 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179757 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1179821 CAGAGCCAATTTCAACTTTACAACGAA-GATATTGGACTTC
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
1179861 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1179924 TCAGATCCAATTTCAACTTCACAACGAAGGATATTGAACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * *
1179966 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAATAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
1180029 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
1180071 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAA-AA-TT-TC-ATT-
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
** * * *
1180130 CAGAATCAATTTCAACTTCACAACGAAAGATGTTGGACTCG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * **
1180171 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
* *
1180236 CAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
1180275 TGGAACAATG
Statistics
Matches: 1455, Mismatches: 83, Indels: 46
0.92 0.05 0.03
Matches are distributed among these distances:
100 113 0.08
101 58 0.04
102 6 0.00
103 7 0.00
104 466 0.32
105 664 0.46
106 141 0.10
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTCAATTC
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:1178969 original size:209 final size:210
Alignment explanation
Indices: 1178609--1180274 Score: 2442
Period size: 209 Copynumber: 8.0 Consensus size: 210
1178599 CCAAATATCT
* *
1178609 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAACATTTCTCAATTCC
* * *
1178674 AGAGCCAATTTCAACTTCTCAACGAAGGATCTCGACTCTAGACAACGCAAGTTCAACTTCACGAC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGAC
* *
1178739 GAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACGACGA
131 GAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA
1178803 AGGATATTGGACTCC
196 AGGATATTGGACTCC
*
1178818 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTCC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAACATTTCTCAATTCC
*
1178883 AGAGCCAATTTCAACTTCTCAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGAC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGAC
* * *
1178948 GAAGGGACCACTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACGACGA
131 GAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA
1179013 AGGATATTGGACTCC
196 AGGATATTGGACTCC
* *
1179028 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAACTCC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAACATTTCTCAATTCC
* * *
1179093 AGAGCAAATTTCAACTTCTCAACGAAGGATCTTGACTCTAGACAACGCAAGTTCAACTTCACGAC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGAC
* * *
1179158 GAAGGGACCACTGGTTGTCAATAAACAATTTCTCAA-TTC--AG--AATATCAACTTCACAACGA
131 GAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA
1179218 AGGATATTGGACTCC
196 AGGATATTGGACTCC
* * *
1179233 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGC-TGTCAATAAACATTTCTTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT-GCTTGTCAATAAACATTTCTCAATTC
* * *
1179297 CAGAGCCAATTTCAACTTCTCATCGAAGGATCTTGACTCTAGACAACGCAAGTTCAACTTCACGA
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGA
1179362 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
130 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
1179427 AAGGATATTGGACTCC
195 AAGGATATTGGACTCC
* * *
1179443 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAAC-ATTTCTCAATTC
*
1179506 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
65 -CAGAGCCAATTTCAACTTCACAACGAAGGATATT-GACTCTAGACAACGCAAGTTCAACTTCAC
* * * *
1179571 GACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAA
128 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
1179635 CGAAGGATATTGGACTCC
193 CGAAGGATATTGGACTCC
* * *
1179653 AGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAAC-ATTTCTCAATTC
*
1179715 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
65 -CAGAGCCAATTTCAACTTCACAACGAAGGATATT-GACTCTAGACAACGCAAGTTCAACTTCAC
* * * * *
1179780 GACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCTCAATTTCAGAGCCAATTTCAACTTTACAA
128 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
1179844 CGAA-GATATTGGACTTC
193 CGAAGGATATTGGACTCC
* * *
1179861 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAA-TC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAAC-ATTTCTCAATTC
* * *
1179924 TCAGATCCAATTTCAACTTCACAACGAAGGATATTGAACTCCAGACAATGCAAGTTCAACTTCAC
65 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTG-ACTCTAGACAACGCAAGTTCAACTTCAC
* * * * *
1179989 GACGAAGGGACCGCTGCTTGTCAA-CAATAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAA
128 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
1180053 CGAAGGATATTGGACTCC
193 CGAAGGATATTGGACTCC
*
1180071 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAA-A-TT-TC-ATT-C
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAACATTTCTCAATTCC
** * * * * *
1180131 AGAATCAATTTCAACTTCACAACGAAAGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAA
66 AGAGCCAATTTCAACTTCACAACGAAGGATATT-GACTCTAGACAACGCAAGTTCAACTTCACGA
* * ** * *
1180196 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACG
130 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
*
1180261 GAGGATATTGGACT
195 AAGGATATTGGACT
1180275 TGGAACAATG
Statistics
Matches: 1374, Mismatches: 65, Indels: 39
0.93 0.04 0.03
Matches are distributed among these distances:
205 263 0.19
206 53 0.04
207 4 0.00
208 46 0.03
209 483 0.35
210 472 0.34
211 53 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (210 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAATAAACATTTCTCAATTCC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGACTCTAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA
AGGATATTGGACTCC
Found at i:1183758 original size:2 final size:2
Alignment explanation
Indices: 1183753--1183795 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1183743 ACACACACAC
1183753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1183795 A
1 A
1183796 CAAACATTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1184205 original size:18 final size:18
Alignment explanation
Indices: 1184182--1184233 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
1184172 CGTGTGTTGA
1184182 AAGTTGCACCGAATGTGC
1 AAGTTGCACCGAATGTGC
1184200 AAGTTGCACCGAATGTGC
1 AAGTTGCACCGAATGTGC
*
1184218 AAGTTTCACCGAATGT
1 AAGTTGCACCGAATGT
1184234 TGAAAACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (18 bp):
AAGTTGCACCGAATGTGC
Found at i:1198079 original size:18 final size:18
Alignment explanation
Indices: 1198056--1198107 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
1198046 AGATTGTTGA
1198056 AAGTTGCACCGAATGTGC
1 AAGTTGCACCGAATGTGC
1198074 AAGTTGCACCGAATGTGC
1 AAGTTGCACCGAATGTGC
1198092 AAGTTGCACCGAATGT
1 AAGTTGCACCGAATGT
1198108 TGAAAACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (18 bp):
AAGTTGCACCGAATGTGC
Found at i:1214625 original size:85 final size:83
Alignment explanation
Indices: 1214500--1214669 Score: 297
Period size: 87 Copynumber: 2.0 Consensus size: 83
1214490 TGAAACCTGC
1214500 AAATGGTCCAAAATTGTCACCGTTTAGGGGAGTAGTCTGGAGGG-ACAGAGAAGTGCTGCCCTCT
1 AAATGGTCCAAAATTGTCACCGTTTAGGGGAGTAGTCTGGAGGGAACAGAGAAGTGCTGCCCTCT
1214564 TTATTAAATGGAATGTGA
66 TTATTAAATGGAATGTGA
1214582 AAATGGGTCCAAAAATTGTCACCGTATTAGGGGAGTAGTCTGGAGGGACACAGAGAAGTGCTGCC
1 AAAT-GGTCC-AAAATTGTCACCGT-TTAGGGGAGTAGTCTGGAGGGA-ACAGAGAAGTGCTGCC
1214647 CTCTTTATTAAATGGAATGTGA
62 CTCTTTATTAAATGGAATGTGA
1214669 A
1 A
1214670 GGGAGGCCGG
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
82 4 0.05
83 5 0.06
84 14 0.17
85 21 0.25
87 39 0.47
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (83 bp):
AAATGGTCCAAAATTGTCACCGTTTAGGGGAGTAGTCTGGAGGGAACAGAGAAGTGCTGCCCTCT
TTATTAAATGGAATGTGA
Found at i:1218151 original size:12 final size:13
Alignment explanation
Indices: 1218128--1218161 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1218118 TAGTTTACAG
1218128 ACTTTTTATCTTTT
1 ACTTTTT-TCTTTT
1218142 -CTTTTTTCTTTT
1 ACTTTTTTCTTTT
1218154 ACTTTTTT
1 ACTTTTTT
1218162 ACATTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
ACTTTTTTCTTTT
Found at i:1218594 original size:12 final size:12
Alignment explanation
Indices: 1218568--1218606 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1218558 ACTATTCGGA
*
1218568 TTAAACTTTTAAT
1 TTAAA-TTTTTAT
1218581 TTAAATTTTTAT
1 TTAAATTTTTAT
*
1218593 TTAGATTTTTAT
1 TTAAATTTTTAT
1218605 TT
1 TT
1218607 TCGCAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (12 bp):
TTAAATTTTTAT
Found at i:1222766 original size:65 final size:64
Alignment explanation
Indices: 1222669--1222846 Score: 186
Period size: 65 Copynumber: 2.8 Consensus size: 64
1222659 GCATAAATCA
* * * * *
1222669 ATGCATCGATGCAC-CCTTGTTTTAATT-GAACATCGAATGGCTTTTGTGTACTGATGCACATA-
1 ATGCATCGATGCACTCC-TGTATT-ATTAAAACATCGAATGGATTTTATGAACTGATGCACA-AG
1222731 CC
63 CC
* *
1222733 ATGCATCGATGCACTCCATGTATTATTAAAACATCGAATTGATTTTATGAACTGATGCATAAGCC
1 ATGCATCGATGCACTCC-TGTATTATTAAAACATCGAATGGATTTTATGAACTGATGCACAAGCC
*
1222798 ATGCATCGATGCACT-CTGGCTATT-TTAAAAACATCGAATGCATTTTATG
1 ATGCATCGATGCACTCCT-G-TATTATT-AAAACATCGAATGGATTTTATG
1222847 CATCGATGCA
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 22 0.22
65 75 0.77
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTGTATTATTAAAACATCGAATGGATTTTATGAACTGATGCACAAGCC
Found at i:1226770 original size:32 final size:32
Alignment explanation
Indices: 1226734--1226797 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1226724 TTTATCTCAT
1226734 GCATAGAGCCTAACAATATTAAAGAAGCATTA
1 GCATAGAGCCTAACAATATTAAAGAAGCATTA
1226766 GCATAGAGCCTAACAATATTAAAGAAGCATTA
1 GCATAGAGCCTAACAATATTAAAGAAGCATTA
1226798 AATGATGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (32 bp):
GCATAGAGCCTAACAATATTAAAGAAGCATTA
Found at i:1228534 original size:29 final size:29
Alignment explanation
Indices: 1228492--1228549 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1228482 TGCCAATACC
1228492 ACTAGAGTTAATTAATTTAGCATTTTGAG
1 ACTAGAGTTAATTAATTTAGCATTTTGAG
1228521 ACTAGAGTTAATTAATTTAGCATTTTGAG
1 ACTAGAGTTAATTAATTTAGCATTTTGAG
1228550 TGTTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (29 bp):
ACTAGAGTTAATTAATTTAGCATTTTGAG
Found at i:1228637 original size:23 final size:22
Alignment explanation
Indices: 1228607--1228685 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
1228597 CACTAGGTAG
1228607 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCATCC-TTGAATA
* * *
1228630 TGCATCGATACAT-CATGAAGA
1 TGCATCGATGCATCCTTGAATA
* *
1228651 TGCACCGATGCATTCCTTGAATG
1 TGCATCGATGCA-TCCTTGAATA
1228674 TGCATCGATGCA
1 TGCATCGATGCA
1228686 CTCTGCCGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATA
Found at i:1228671 original size:44 final size:43
Alignment explanation
Indices: 1228586--1228687 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 43
1228576 TTTGTGCATA
* *
1228586 ATGCATCGATACACTAGGTAGTGCATCGATGCATCCTTTGAAT
1 ATGCATCGATACACTAGGAAGTGCACCGATGCATCCTTTGAAT
*
1228629 ATGCATCGATACA-TCATGAAGATGCACCGATGCATTCC-TTGAAT
1 ATGCATCGATACACT-AGGAAG-TGCACCGATGCA-TCCTTTGAAT
* *
1228673 GTGCATCGATGCACT
1 ATGCATCGATACACT
1228688 CTGCCGTGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 17 0.34
44 28 0.56
45 4 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
ATGCATCGATACACTAGGAAGTGCACCGATGCATCCTTTGAAT
Found at i:1229176 original size:19 final size:19
Alignment explanation
Indices: 1229152--1229196 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1229142 TTTAATTATG
1229152 TTGATTTAAAAATCACAAA
1 TTGATTTAAAAATCACAAA
* *
1229171 TTGATTTGAAAATCACACA
1 TTGATTTAAAAATCACAAA
1229190 TTGATTT
1 TTGATTT
1229197 TTCAAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTGATTTAAAAATCACAAA
Found at i:1231471 original size:64 final size:64
Alignment explanation
Indices: 1231403--1231536 Score: 161
Period size: 64 Copynumber: 2.1 Consensus size: 64
1231393 TTGTTTACCA
*
1231403 ATGCACATA-CCATGCATCGATGCACTCCAT-G-TATTATTAAAACATCGAATTG-A-TTTATGC
1 ATGCACA-AGCCATGCATCGATGCACT-C-TGGCTATT-TTAAAAAATCGAA-TGCATTTTATGC
1231463 ACCG
61 ACCG
* *
1231467 ATGCATAAGCCATGCATCGATGCACTCTGGCTATTTTAAAAAATCGAATGCATTTTATGCATCG
1 ATGCACAAGCCATGCATCGATGCACTCTGGCTATTTTAAAAAATCGAATGCATTTTATGCACCG
1231531 ATGCAC
1 ATGCAC
1231537 CCTTAGTGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
62 3 0.05
63 16 0.26
64 42 0.69
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (64 bp):
ATGCACAAGCCATGCATCGATGCACTCTGGCTATTTTAAAAAATCGAATGCATTTTATGCACCG
Found at i:1234241 original size:201 final size:201
Alignment explanation
Indices: 1233884--1234248 Score: 505
Period size: 201 Copynumber: 1.8 Consensus size: 201
1233874 AATTACATTT
* ** * * *
1233884 CAGTTAAAATTCAAACTGAGGACTTTAAGTCAAGAAGAATACCCAAATTGGCTGCGATTTAGCAA
1 CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGCTGCGATTTAGCAA
* * * * * * *
1233949 CAAGGAACTACTTCTCAGCCCAGATATTGAGATGGCTCAAGGCGAGAAGAGCTATCTGTTGATCA
66 AAAGAAACTACTTCTCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
*
1234014 AAGATTTCAAGTTTGATTCCACTCAACTCTAGAGCGTATTGACAAAATGGTAGAAATAAGGAACT
131 AAGATTTCAAGTTTGATTCCACTCAACTCGAGAGCGTATTGACAAAATGGTAGAAATAAGGAACT
1234079 ACCCTC
196 ACCCTC
* * * *
1234085 CAGTCAAAATTCAAACCAAGGTCTTCAAGTCTAGAAGAAGACCCAAATCGGTTGTGATTTAGCAA
1 CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGCTGCGATTTAGCAA
* * ** *
1234150 AAATAAACTACTTCTCAACCCAGATTTTGACATAGCTCAAGTTGAGAAGAGTTATCTGTCGAACA
66 AAAGAAACTACTTCTCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
**
1234215 AAGATTTCAAGTTTGATTTTACTCAACTCGAGAG
131 AAGATTTCAAGTTTGATTCCACTCAACTCGAGAG
1234249 TAGAACACAT
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
201 139 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (201 bp):
CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGCTGCGATTTAGCAA
AAAGAAACTACTTCTCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
AAGATTTCAAGTTTGATTCCACTCAACTCGAGAGCGTATTGACAAAATGGTAGAAATAAGGAACT
ACCCTC
Found at i:1235357 original size:11 final size:10
Alignment explanation
Indices: 1235328--1235358 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
1235318 AATTAGAGGA
1235328 TTTAATTTAT
1 TTTAATTTAT
1235338 TTTAATTTAT
1 TTTAATTTAT
1235348 TTTAAATTTAT
1 TTT-AATTTAT
1235359 AAATTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:1237908 original size:201 final size:201
Alignment explanation
Indices: 1237551--1237915 Score: 505
Period size: 201 Copynumber: 1.8 Consensus size: 201
1237541 AATTACATTT
* ** * * *
1237551 CAGTTAAAATTCAAACTGAGGACTTTAAGTCAAGAAGAATACCCAAATTGGATGCGATTTAGCAA
1 CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGATGCGATTTAGCAA
* * * * * * * *
1237616 CAAGGAACTACTTCTCAGCCCAGATATTGAGATGGCTCAAGGCGAGAAGAGCTATCTGTTGATCA
66 AAAGAAACTACTTCCCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
*
1237681 AAGATTTCAAGTTTGATTCCACTCAACTCTAGAGCGTATTGACAAAACGGTAGAAATAAGGAACT
131 AAGATTTCAAGTTTGATTCCACTCAACTCGAGAGCGTATTGACAAAACGGTAGAAATAAGGAACT
1237746 ACCCTC
196 ACCCTC
* * *
1237752 CAGTCAAAATTCAAACCAAGGTCTTCAAGTCTAGAAGAAGACCCAAATCGGATGTGATTTAGCAA
1 CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGATGCGATTTAGCAA
* * ** *
1237817 AAATAAACTACTTCCCAACCCAGATTTTGACATAGCTCAAGTTGAGAAGAGTTATCTGTCGAACA
66 AAAGAAACTACTTCCCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
**
1237882 AAGATTTCAAGTTTGATTTTACTCAACTCGAGAG
131 AAGATTTCAAGTTTGATTCCACTCAACTCGAGAG
1237916 TAGAACACAT
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
201 139 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (201 bp):
CAGTCAAAATTCAAACCAAGGACTTCAAGTCAAGAAGAAGACCCAAATCGGATGCGATTTAGCAA
AAAGAAACTACTTCCCAACCCAGATATTGACATAGCTCAAGGCGAGAAGAGCTATCTGTCGAACA
AAGATTTCAAGTTTGATTCCACTCAACTCGAGAGCGTATTGACAAAACGGTAGAAATAAGGAACT
ACCCTC
Found at i:1239402 original size:21 final size:20
Alignment explanation
Indices: 1239357--1239404 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
1239347 AACATAAAAT
* * *
1239357 ATTATATTTGTATTATATTA
1 ATTATATATATATAATATTA
1239377 A-TATATATATATAATATTAA
1 ATTATATATATATAATATT-A
1239397 ATTATATA
1 ATTATATA
1239405 ATTAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.61
20 3 0.13
21 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTATATATATATAATATTA
Found at i:1244427 original size:30 final size:31
Alignment explanation
Indices: 1244393--1244462 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 31
1244383 AAAATGTATA
1244393 GGAGTCATCTTACTTGGCTTT-CCGCGAAGG
1 GGAGTCATCTTACTTGGCTTTCCCGCGAAGG
1244423 GGAGTCATCTTACTTGGCTTTCCCGCGAAGG
1 GGAGTCATCTTACTTGGCTTTCCCGCGAAGG
1244454 GGAGTCATC
1 GGAGTCATC
1244463 CAGAGAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (31 bp):
GGAGTCATCTTACTTGGCTTTCCCGCGAAGG
Found at i:1246022 original size:122 final size:123
Alignment explanation
Indices: 1245804--1246053 Score: 484
Period size: 122 Copynumber: 2.0 Consensus size: 123
1245794 AAGAAACACG
1245804 TGGATAAAATTTGATACGGACCTAATATGGGAATTTTAATTTGTTCTAAATTTTCAATTATTTTA
1 TGGATAAAATTTGATACGGACCTAATATGGGAATTTTAATTTGTTCTAAATTTTCAATTATTTTA
1245869 TTGATTATTTTTTAATAAATTCAACTTTATACTTTCCATTATTTATTTAGGGTAATTT
66 TTGATTATTTTTTAATAAATTCAACTTTATACTTTCCATTATTTATTTAGGGTAATTT
1245927 TGGATAAAATTTGATACGGACCTAATATGGG-ATTTTAATTTGTTCTAAATTTTCAATTATTTTA
1 TGGATAAAATTTGATACGGACCTAATATGGGAATTTTAATTTGTTCTAAATTTTCAATTATTTTA
1245991 TTGATTATTTTTTAATAAATTCAACTTTATACTTTCCATTATTTATTTAGGGTAATTT
66 TTGATTATTTTTTAATAAATTCAACTTTATACTTTCCATTATTTATTTAGGGTAATTT
*
1246049 AGGAT
1 TGGAT
1246054 CTTTTTATTA
Statistics
Matches: 126, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 95 0.75
123 31 0.25
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (123 bp):
TGGATAAAATTTGATACGGACCTAATATGGGAATTTTAATTTGTTCTAAATTTTCAATTATTTTA
TTGATTATTTTTTAATAAATTCAACTTTATACTTTCCATTATTTATTTAGGGTAATTT
Found at i:1246452 original size:10 final size:10
Alignment explanation
Indices: 1246437--1246466 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
1246427 GATTAGAGGA
1246437 TTTAATTTAT
1 TTTAATTTAT
1246447 TTTAATTTAT
1 TTTAATTTAT
1246457 TTTAATTTAT
1 TTTAATTTAT
1246467 AAATTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:1246821 original size:28 final size:28
Alignment explanation
Indices: 1246755--1246838 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 28
1246745 CAATTATGAT
*
1246755 ACATAAAATATTATATTAATATT-TTTTA
1 ACATAAAATATTATATT-ATATTATATTA
1246783 ACATAAAATATTATATTCATATTATATT-
1 ACATAAAATATTATATT-ATATTATATTA
*
1246811 A-ATAAATATATATAATATTAAATTATAT
1 ACATAAA-ATAT-T-ATATTATATTATAT
1246839 AATTAAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.10
28 27 0.55
29 12 0.24
30 5 0.10
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
ACATAAAATATTATATTATATTATATTA
Found at i:1250050 original size:10 final size:10
Alignment explanation
Indices: 1250035--1250065 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
1250025 GATTAGAGGA
1250035 TTTAATTTAT
1 TTTAATTTAT
1250045 TTTAATTTATT
1 TTTAATTTA-T
1250056 TTTAATTTAT
1 TTTAATTTAT
1250066 AAATTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTAATTTAT
Found at i:1250060 original size:11 final size:11
Alignment explanation
Indices: 1250035--1250065 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1250025 GATTAGAGGA
1250035 TTTAATTTA-T
1 TTTAATTTATT
1250045 TTTAATTTATT
1 TTTAATTTATT
1250056 TTTAATTTAT
1 TTTAATTTAT
1250066 AAATTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:1255396 original size:54 final size:54
Alignment explanation
Indices: 1255288--1255396 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
1255278 ATTTGTACCA
* **
1255288 TGCTAAATTGCATTGGCTAATTATTTGTACCATGCTTTTATATTGTTAGTTCTT
1 TGCTAAATTGCATTGGCTAATTATTTGTACAATGCTTTTATATTGTTAACTCTT
* * * * *
1255342 TGCTAGATTGCATTGGGTAATTTTTTGTACAATGGTTTTATTTTGTTAACTCTT
1 TGCTAAATTGCATTGGCTAATTATTTGTACAATGCTTTTATATTGTTAACTCTT
1255396 T
1 T
1255397 AGTTGAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (54 bp):
TGCTAAATTGCATTGGCTAATTATTTGTACAATGCTTTTATATTGTTAACTCTT
Found at i:1259260 original size:35 final size:35
Alignment explanation
Indices: 1259214--1259314 Score: 144
Period size: 35 Copynumber: 3.1 Consensus size: 35
1259204 TCATACCACA
1259214 GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
1 GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
1259249 GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
1 GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
1259284 GGA----CT--A-ACAGGAGATAATGACCTTGTAAC
1 -GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
1259313 GA
1 GA
1259315 CTAATCAGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.03
29 23 0.35
30 1 0.02
32 2 0.03
35 35 0.54
36 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (35 bp):
GATTTTCTCGACACAGGAGATAATGACCTTGTAAC
Found at i:1259303 original size:29 final size:28
Alignment explanation
Indices: 1259261--1259318 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 28
1259251 TTTTCTCGAC
1259261 ACAGGAGATAATGACCTTGTAACGGACTA
1 ACAGGAGATAATGACCTTGTAAC-GACTA
1259290 ACAGGAGATAATGACCTTGTAACGACTA
1 ACAGGAGATAATGACCTTGTAACGACTA
1259318 A
1 A
1259319 TCAGTTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGGAGATAATGACCTTGTAACGACTA
Found at i:1259909 original size:34 final size:35
Alignment explanation
Indices: 1259871--1259939 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
1259861 AGAAGAGATA
1259871 GGGGTAGATATGAGTAATGTATGAGA-CGTTGTCT
1 GGGGTAGATATGAGTAATGTATGAGACCGTTGTCT
1259905 GGGGTAGATATGAGTAATGTATGAGACCGTTGTCT
1 GGGGTAGATATGAGTAATGTATGAGACCGTTGTCT
1259940 ATCGCTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.32
Consensus pattern (35 bp):
GGGGTAGATATGAGTAATGTATGAGACCGTTGTCT
Found at i:1260108 original size:27 final size:27
Alignment explanation
Indices: 1260078--1260131 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1260068 CCACTTTATT
1260078 TGAAATTATCCCGAGGCCCAAGACATA
1 TGAAATTATCCCGAGGCCCAAGACATA
1260105 TGAAATTATCCCGAGGCCCAAGACATA
1 TGAAATTATCCCGAGGCCCAAGACATA
1260132 GCACCATCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (27 bp):
TGAAATTATCCCGAGGCCCAAGACATA
Found at i:1261999 original size:2 final size:2
Alignment explanation
Indices: 1261992--1262017 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1261982 ATACGATAAA
1261992 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1262018 CAGAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1263009 original size:21 final size:22
Alignment explanation
Indices: 1262968--1263011 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1262958 ACGGGAAGAA
1262968 CCATAACTAAATAACCCTCGAT
1 CCATAACTAAATAACCCTCGAT
1262990 CCATAACTAAATAA-CCTCGAT
1 CCATAACTAAATAACCCTCGAT
1263011 C
1 C
1263012 AGGAGAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.23
Consensus pattern (22 bp):
CCATAACTAAATAACCCTCGAT
Found at i:1265241 original size:45 final size:45
Alignment explanation
Indices: 1265131--1265277 Score: 159
Period size: 45 Copynumber: 3.2 Consensus size: 45
1265121 ATAATGCATA
* * ** * *
1265131 ATTATGCATTTTCATTTATGGCAACCGTTCATGCCTTTTTATATACT
1 ATTATACA-TTTCATTTATGGCATCATTTCATGCC-TTTTATACACC
*
1265178 ATTATACATTTTATTTATGGCATCATTTCATGCCTTTTATACACC
1 ATTATACATTTCATTTATGGCATCATTTCATGCCTTTTATACACC
* * * * * *
1265223 ATTATATATTTCAGTTATGACATCTTTTAATGCCTTTTAAACACC
1 ATTATACATTTCATTTATGGCATCATTTCATGCCTTTTATACACC
1265268 ATTATACATT
1 ATTATACATT
1265278 GTTATACATC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 56 0.66
46 22 0.26
47 7 0.08
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.46
Consensus pattern (45 bp):
ATTATACATTTCATTTATGGCATCATTTCATGCCTTTTATACACC
Found at i:1265457 original size:68 final size:68
Alignment explanation
Indices: 1265298--1265500 Score: 295
Period size: 68 Copynumber: 3.0 Consensus size: 68
1265288 TAGTCTTTTA
* * * *
1265298 CTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC---TA
1 CTCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
1265360 GGC
66 GGC
* *
1265363 CTCAAAGGCACTTAGCCTTTCTTCTAAATGACATAATTGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
*
1265428 GGT
66 GGC
* * *
1265431 CTCAAAGGCACTTAGCCTTTCATCTAAATGGCAAAATTGAAACTTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
1265496 GGC
66 GGC
1265499 CT
1 CT
1265501 TTAACCGTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
65 54 0.44
68 68 0.56
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
GGC
Found at i:1265987 original size:59 final size:59
Alignment explanation
Indices: 1265847--1266054 Score: 276
Period size: 59 Copynumber: 3.5 Consensus size: 59
1265837 TATATTTCCC
* ** * * *
1265847 ATACAGAAATTCATACATTTAGTATGAATTTCTTATTATTTTA-CACACAAAGTACCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
1265905 ATAC-GAAAATTCATACACTTAGTATAAATTTCTTAACATTTTAGCAAACGAAGTGCCCT
1 ATACAG-AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
1265964 ATACAGAAATTCATACACTTAGTATGAATTTATTAACCTTTTAGCACACGAAGTGCCCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
** *
1266023 ATACAGAAATTCATACACAAATTATGAATTTC
1 ATACAGAAATTCATACACTTAGTATGAATTTC
1266055 GTGCTTTACA
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
57 1 0.01
58 37 0.28
59 92 0.70
60 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (59 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
Found at i:1266104 original size:54 final size:54
Alignment explanation
Indices: 1266063--1266236 Score: 260
Period size: 54 Copynumber: 3.2 Consensus size: 54
1266053 TCGTGCTTTA
* * * *
1266063 CACACATAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTCCATGAAATG
1 CACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATG
*
1266117 CACACTTAGTGTCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATG
* * * *
1266171 CACACTTAGTGCTGAAACGATTATTCACCCACATAGGATGAATTCTGTGAAATA
1 CACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATG
1266225 CA-ACTTAGTGCC
1 CACACTTAGTGCC
1266237 TATTTGGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 9 0.08
54 100 0.92
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (54 bp):
CACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAATG
Found at i:1273852 original size:20 final size:22
Alignment explanation
Indices: 1273829--1273884 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
1273819 CCCTGATATG
1273829 AGTATCGATACTC-AAAGG-GT
1 AGTATCGATACTCGAAAGGCGT
* *
1273849 AGTATCGATAC-CGAGAGGCTT
1 AGTATCGATACTCGAAAGGCGT
1273870 AGTATCGATACTCGA
1 AGTATCGATACTCGA
1273885 GTACATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 15 0.48
21 12 0.39
22 3 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (22 bp):
AGTATCGATACTCGAAAGGCGT
Found at i:1279560 original size:20 final size:19
Alignment explanation
Indices: 1279497--1279573 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 19
1279487 ATGCTCGGAT
1279497 GGTACCGATACCCC-CAGA
1 GGTACCGATACCCCTCAGA
*
1279515 GGTATCGATACACCCATGCA-A
1 GGTACCGATAC-CCC-T-CAGA
*
1279536 TGGTATCGATACCCCTCAGGA
1 -GGTACCGATACCCCTCA-GA
1279557 GGTACCGATA-CCCTCAG
1 GGTACCGATACCCCTCAG
1279574 GCATATATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 11 0.22
19 11 0.22
20 10 0.20
21 5 0.10
22 13 0.26
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.18
Consensus pattern (19 bp):
GGTACCGATACCCCTCAGA
Found at i:1280061 original size:123 final size:124
Alignment explanation
Indices: 1279824--1280072 Score: 351
Period size: 123 Copynumber: 2.0 Consensus size: 124
1279814 TTTGTGAAAA
* * *
1279824 TCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATATTGTGCTCATTTTTAATC
1 TCAAGCCAATTTTCATTCAATATTCATTTTGCTTTCAAGAACACATATTGTGCTCAATTGTAATC
* *
1279889 ATTTTTAGTGTTATTTTCTTGTTCTAGAATTGTGCAAACATCTTACCTTGTGAGGTTTT
66 ATTTTTAGTGTTATTTTCTTATTCTAGAATTGTGCAAACATCTTACCTTGTGAGGATTT
* * *
1279948 TCAAGCCTA-TTTCATTCAATATTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGT-ATT
1 TCAAGCCAATTTTCATTCAATATTCATTTTGCTTTCAAGAACACATATTGTGCTCAATTGTAATC
* * * *
1280011 ATTCTTTAGTGTT-CTTTCTTTATTCTATAATTGTGCAAATATCTTGCCTTGTGAGGATTT
66 ATT-TTTAGTGTTATTTTC-TTATTCTAGAATTGTGCAAACATCTTACCTTGTGAGGATTT
1280071 TC
1 TC
1280073 TTGTAAGTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
122 9 0.08
123 94 0.85
124 8 0.07
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (124 bp):
TCAAGCCAATTTTCATTCAATATTCATTTTGCTTTCAAGAACACATATTGTGCTCAATTGTAATC
ATTTTTAGTGTTATTTTCTTATTCTAGAATTGTGCAAACATCTTACCTTGTGAGGATTT
Found at i:1285422 original size:23 final size:23
Alignment explanation
Indices: 1285391--1285476 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 23
1285381 ATTTTTGTAC
1285391 ATAGAGTATCGATACCCCCTTTGA
1 ATAG-GTATCGATACCCCCTTTGA
* **
1285415 ATAGGTATTGATACCCCCCAT-A
1 ATAGGTATCGATACCCCCTTTGA
* * **
1285437 A-GGGTACCGATACCATCTTTGA
1 ATAGGTATCGATACCCCCTTTGA
*
1285459 ATGGGTATCGATACCCCC
1 ATAGGTATCGATACCCCC
1285477 CTGAGGGTAC
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
21 12 0.26
22 4 0.09
23 27 0.57
24 4 0.09
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (23 bp):
ATAGGTATCGATACCCCCTTTGA
Found at i:1285490 original size:20 final size:20
Alignment explanation
Indices: 1285424--1285494 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
1285414 AATAGGTATT
*
1285424 GATACCCCCCATAAGGGTACC
1 GATACCCCCC-TGAGGGTACC
* ** *
1285445 GATACCATCTTTGAATGGGTATC
1 GATACC-CCCCTG-A-GGGTACC
1285468 GATACCCCCCTGAGGGTACC
1 GATACCCCCCTGAGGGTACC
1285488 GATACCC
1 GATACCC
1285495 TCCACGGGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
20 13 0.34
21 8 0.21
22 5 0.13
23 12 0.32
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.21
Consensus pattern (20 bp):
GATACCCCCCTGAGGGTACC
Found at i:1285490 original size:43 final size:44
Alignment explanation
Indices: 1285400--1285493 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
1285390 CATAGAGTAT
* *
1285400 CGATACCCCCTTTGAATAGGTATTGATACCCCCCATAAGGGTAC
1 CGATACCACCTTTGAATAGGTATCGATACCCCCCATAAGGGTAC
* * *
1285444 CGATACCATCTTTGAATGGGTATCGATACCCCCC-TGAGGGTAC
1 CGATACCACCTTTGAATAGGTATCGATACCCCCCATAAGGGTAC
1285487 CGATACC
1 CGATACC
1285494 CTCCACGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 15 0.33
44 30 0.67
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (44 bp):
CGATACCACCTTTGAATAGGTATCGATACCCCCCATAAGGGTAC
Found at i:1290046 original size:23 final size:23
Alignment explanation
Indices: 1290020--1290067 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1290010 ATCAATATAT
1290020 CATGCACTAACCAAGCAATACAC
1 CATGCACTAACCAAGCAATACAC
1290043 CATGCACTAACCAAGCAATACAC
1 CATGCACTAACCAAGCAATACAC
1290066 CA
1 CA
1290068 ATACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.35, G:0.08, T:0.12
Consensus pattern (23 bp):
CATGCACTAACCAAGCAATACAC
Found at i:1292292 original size:58 final size:57
Alignment explanation
Indices: 1292198--1292367 Score: 236
Period size: 58 Copynumber: 3.0 Consensus size: 57
1292188 TATTTCATCG
** * *
1292198 TTAGAATCTTGCGTTGATTCTAACTTCGTAAGGAAAATAAATTGTTGAATTTATTTCC
1 TTAGAATCTTG-AATGATTCTAACTTTGTAAAGAAAATAAATTGTTGAATTTATTTCC
* *
1292256 TTTATAATCTTGAATGATTCTAACTTTGTAAAGAAAATAAATTGTTGAGTTTATTTCC
1 -TTAGAATCTTGAATGATTCTAACTTTGTAAAGAAAATAAATTGTTGAATTTATTTCC
*
1292314 TTAGAATCTTGAATAATTCTAACTTTGTAAA-AATAA-AAATTGTTGAATTTATTT
1 TTAGAATCTTGAATGATTCTAACTTTGTAAAGAA-AATAAATTGTTGAATTTATTT
1292368 TCTTGAAAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
56 19 0.19
57 31 0.31
58 41 0.41
59 10 0.10
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (57 bp):
TTAGAATCTTGAATGATTCTAACTTTGTAAAGAAAATAAATTGTTGAATTTATTTCC
Found at i:1292379 original size:57 final size:55
Alignment explanation
Indices: 1292214--1292386 Score: 211
Period size: 57 Copynumber: 3.0 Consensus size: 55
1292204 TCTTGCGTTG
* * * *
1292214 ATTCTAACTTCGTAAGGAAAATAAATTGTTGAATTTATTTCCTTTATAATCTTGAATG
1 ATTCTAACTTTGTAA--AAAAAAAATTGTTGAATTTATTTCC-TTAAAATCTTGAATA
* *
1292272 ATTCTAACTTTGTAAAGAAAATAAATTGTTGAGTTTATTTCCTTAGAATCTTGAATA
1 ATTCTAACTTTGTAAA-AAAA-AAATTGTTGAATTTATTTCCTTAAAATCTTGAATA
* *
1292329 ATTCTAACTTTGTAAAAATAAAAATTGTTGAATTTATTTTCTTGAAAATCTTAAATA
1 ATTCTAACTTTGTAAAAA-AAAAATTGTTGAATTTATTTCCTT-AAAATCTTGAATA
1292386 A
1 A
1292387 CTTCCTTGAG
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
56 23 0.23
57 46 0.45
58 33 0.32
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (55 bp):
ATTCTAACTTTGTAAAAAAAAAATTGTTGAATTTATTTCCTTAAAATCTTGAATA
Found at i:1292405 original size:78 final size:80
Alignment explanation
Indices: 1292310--1292468 Score: 234
Period size: 80 Copynumber: 2.0 Consensus size: 80
1292300 TTGAGTTTAT
* * *
1292310 TTCCTTAGAATCTTGAATAATTCTAACTTTGTAA-AAATAA-AAATTGTTGAATTTATTTTCTTG
1 TTCCTTAGAATCTTGAATAATTCTAACTTTGTAAGAAAAAATAAATTGTTAAATTTATTTCCTTG
* *
1292373 AAAATCTTAAATAAC
66 AAAATATTAAACAAC
*
1292388 TTCCTTGAGAATC-TGAATGATTCTAACTTTGTAAGAAAAAATAAATTGTTAAATTTATTTCCTT
1 TTCCTT-AGAATCTTGAATAATTCTAACTTTGTAAGAAAAAATAAATTGTTAAATTTATTTCCTT
1292452 GAAAATATTAAACAAC
65 GAAAATATTAAACAAC
1292468 T
1 T
1292469 CTAACTTGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 26 0.36
79 11 0.15
80 35 0.49
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (80 bp):
TTCCTTAGAATCTTGAATAATTCTAACTTTGTAAGAAAAAATAAATTGTTAAATTTATTTCCTTG
AAAATATTAAACAAC
Found at i:1292496 original size:136 final size:136
Alignment explanation
Indices: 1292252--1292503 Score: 348
Period size: 136 Copynumber: 1.9 Consensus size: 136
1292242 TTGAATTTAT
* * * * *
1292252 TTCCTTTATAATCTTGAATGATTCTAACTTTGTAAAGAAAATAAATTGTTGAGTTTATTTCCTTA
1 TTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAAAATAAATTGTTAAATTTATTTCCTTA
* * * * * *
1292317 GAATCTTGAATAATTCTAACTTTGTAAAAATAAAAATTGTTGAATTTATTTTCTTGAAAATCTTA
66 AAATATTAAACAACTCTAACTTTGTAAAAATAAAAATAGTTGAATTTATTTTCTTGAAAATCTTA
1292382 AATAAC
131 AATAAC
1292388 TTCCTTGAGAATC-TGAATGATTCTAACTTTGTAAGAAAAAATAAATTGTTAAATTTATTTCCTT
1 TTCCTTGAGAATCTTGAATGATTCTAACTTTGTAA-AAAAAATAAATTGTTAAATTTATTTCCTT
*
1292452 GAAAATATTAAACAACTCTAAC-TTGTAAGAAA-AGAAATAGTTGAATTTATTT
65 -AAAATATTAAACAACTCTAACTTTGTAA-AAATAAAAATAGTTGAATTTATTT
1292504 CCTGAGAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
135 21 0.21
136 61 0.60
137 19 0.19
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (136 bp):
TTCCTTGAGAATCTTGAATGATTCTAACTTTGTAAAAAAAATAAATTGTTAAATTTATTTCCTTA
AAATATTAAACAACTCTAACTTTGTAAAAATAAAAATAGTTGAATTTATTTTCTTGAAAATCTTA
AATAAC
Found at i:1296975 original size:939 final size:948
Alignment explanation
Indices: 1294898--1297731 Score: 5392
Period size: 939 Copynumber: 3.0 Consensus size: 948
1294888 AAATGTATAA
*
1294898 GTTCAAAATTAATTTGATTTATGATCCCCTAAAATAATATTTTTCAAAATTTTGGATGAAAGAAT
1 GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
1294963 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
66 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
1295028 ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
131 ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
1295093 TAATTTTTAGAGATAAAATAATAATATTTAATTATTTATAATCGAACATTATTATTTTGAAAACC
196 TAATTTTTAGAGATAAAATAATAATATTTAATTA-TT-TAATCGAACATTATTATTTTGAAAACC
1295158 CTTTAAAAACACATACAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACC
259 CTTTAAAAACACATACAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACC
1295223 AATATTTAATGAGAATAATGGTATTCAATTAATTAAATATCAAGAGACGAGACCATAGATTCGAT
324 AATATTTAATGAGAATAATGGTATTCAATTAATTAAATATCAAGAGACGAGACCATAGATTCGAT
1295288 CTAACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTT
389 CTAACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTT
1295353 AAAAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAG
454 AAAAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAG
1295418 TAACTTTCTTATACGTTAAGACAGTCAATTTACGACAATATTAAAATGCTCGAATATTACCCTTA
519 TAACTTTCTTATACGTTAAGACAGTCAATTTACGACAATATTAAAATGCTCGAATATTACCCTTA
1295483 GTCAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGG
584 GTCAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGG
1295548 ATGTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACAT
649 ATGTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACAT
*
1295613 ATAATGTATGAAAGTGACTTAAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACT
714 ATAATGTATGAAAGTGACTTTAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACT
1295678 ATATTTAAGGATTAAACCATATTAAATAAAATATTACTA-TTTTAAATACAAACAAAGTAAGAAT
779 ATATTTAAGGATTAAACCATATTAAATAAAATATTACTATTTTTAAATACAAACAAAGTAAGAAT
1295742 TAAAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTA
844 TAAAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTA
1295807 AAAAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
909 AAAAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
1295847 GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
1 GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
1295912 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
66 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
1295977 ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCC-AAA
131 ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
1296041 TAA-TTTTAGAGATAAAATAATAATATTTAATTATTTAATCGAACATTATTA-TTTGAAAACCCT
196 TAATTTTTAGAGATAAAATAATAATATTTAATTATTTAATCGAACATTATTATTTTGAAAACCCT
1296104 TTAAAAACACATACAAAAGT-AAAAAAACAACTATCAAGCAATTGATTAATTA-TTATTTACCAA
261 TTAAAAACACATACAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACCAA
1296167 TATTTAATGAG-ATAATGGTATTCAATTAATT-AATATCAAGAGACGAGACCATAGATTCGATCT
326 TATTTAATGAGAATAATGGTATTCAATTAATTAAATATCAAGAGACGAGACCATAGATTCGATCT
*
1296230 AACTGTCTTTTCTTGATGAA-TTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTT-A
391 AACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTTAA
1296293 AAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAGTA
456 AAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAGTA
*
1296358 ACTTTCTTATACGTTAAGACAGTCAATTTACGATAATATTAAAATGCTCGAATATTACCCTTAGT
521 ACTTTCTTATACGTTAAGACAGTCAATTTACGACAATATTAAAATGCTCGAATATTACCCTTAGT
1296423 CAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGGAT
586 CAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGGAT
1296488 GTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACATAT
651 GTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACATAT
*
1296553 AATGTATGAAAGTGACTTTTAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACTAT
716 AATGTATGAAAGTGACTTTAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACTAT
1296618 ATTTAAGGATTAAACCATATTAAATAAAATATTACTATTTTTAAATACAAACAAAGTAAGAATTA
781 ATTTAAGGATTAAACCATATTAAATAAAATATTACTATTTTTAAATACAAACAAAGTAAGAATTA
1296683 AAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTAAA
846 AAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTAAA
1296748 AAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
911 AAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
1296786 GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
1 GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
1296851 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
66 AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
* *
1296916 ACTCCAATTGAAATAATAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
131 ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
1296981 TAATTTTTAGAGATAAAATAATAATATTTAATTATTTATGATCGAACATTATTATTTTGAAAACC
196 TAATTTTTAGAGATAAAATAATAATATTTAATTATTTA--ATCGAACATTATTATTTTGAAAACC
*
1297046 CTTTAAAAACACATGCAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACC
259 CTTTAAAAACACATACAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACC
* *
1297111 AATATTTAATGAGAATAATGGTATTCAATTAATTAAATACCAAGAGACGAGACCATAGATTTGAT
324 AATATTTAATGAGAATAATGGTATTCAATTAATTAAATATCAAGAGACGAGACCATAGATTCGAT
1297176 CTAACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTT
389 CTAACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTT
*
1297241 AAAAATGAATCTATTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAG
454 AAAAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAG
*
1297306 TAACTTTCTTATACGTTAAGACAGTCACTTTACGACAATATTAAAATGCTCGAATATTACCCTTA
519 TAACTTTCTTATACGTTAAGACAGTCAATTTACGACAATATTAAAATGCTCGAATATTACCCTTA
*
1297371 GTCAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATAATGCAAAAAGG
584 GTCAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGG
1297436 ATGTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAAC-T-TATATATATTAACAT
649 ATGTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACAT
1297499 ATAATGTATGAAAGTGAC-TTAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACT
714 ATAATGTATGAAAGTGACTTTAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACT
1297563 ATATTTAAGGATTAAACCATATTAAAT-AAA-ATTACTATTTTTAAATACAAACAAAGTAAGAAT
779 ATATTTAAGGATTAAACCATATTAAATAAAATATTACTATTTTTAAATACAAACAAAGTAAGAAT
*
1297626 TAAAGTATACATGCAGATATTAAATGGTCAAATGTATGACGAAATAAATCAACCTTTAGGACCTA
844 TAAAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTA
*
1297691 AAAAGAAACATGCAAAAACATAGAACTCTAATGTCTAAAT
909 AAAAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
1297731 G
1 G
1297732 ATAAAAACAA
Statistics
Matches: 1855, Mismatches: 18, Indels: 28
0.98 0.01 0.01
Matches are distributed among these distances:
938 360 0.19
939 361 0.19
940 57 0.03
941 54 0.03
942 22 0.01
943 46 0.02
944 63 0.03
945 185 0.10
946 27 0.01
947 122 0.07
948 88 0.05
949 233 0.13
950 237 0.13
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (948 bp):
GTTCAAAATTAATTTGATTTATGATCCCCTAAAAGAATATTTTTCAAAATTTTGGATGAAAGAAT
AATAATATTTAATTATTTCCTATCGAGAAGAAATGATCTATCATACCTTGAAGCAATCGATTCTT
ACTCCAATCGAAATAAAAAAATATTAAAATTTCATTCTAAATTTCAAAAATAATAACACCCAAAA
TAATTTTTAGAGATAAAATAATAATATTTAATTATTTAATCGAACATTATTATTTTGAAAACCCT
TTAAAAACACATACAAAAGTAAAAAAAACAACTATCAAGCAATTGATTAATTATTTATTTACCAA
TATTTAATGAGAATAATGGTATTCAATTAATTAAATATCAAGAGACGAGACCATAGATTCGATCT
AACTGTCTTTTCTCGATGAATTTAATTAAAAGAATACGATCTTTTCCTCAGTCCCCAAATTTTAA
AAATGAATCTGTTTTAATTGGTGTCACTTATAGGATAGACTTTCATTTTAAAATTATCGAAAGTA
ACTTTCTTATACGTTAAGACAGTCAATTTACGACAATATTAAAATGCTCGAATATTACCCTTAGT
CAATTTATTTCAATTCAAGTCAAGTAATGCTCATGAGGCTATCATGCAAATTATGCAAAAAGGAT
GTTATGTAAAAATATTTAAACACCACAAATTATATACATTATAACTTATATATATATTAACATAT
AATGTATGAAAGTGACTTTAAAAAAACATATTAACTTCAAAATACAAATTTCACGAAATAACTAT
ATTTAAGGATTAAACCATATTAAATAAAATATTACTATTTTTAAATACAAACAAAGTAAGAATTA
AAGTATACATGCAGATATTAAATGGTCAAATGTATGAAGAAATAAATCAACCTTTAGGACCTAAA
AAGAAACATGCAAAAACATGGAACTCTAATGTCTAAAT
Found at i:1298572 original size:145 final size:145
Alignment explanation
Indices: 1298311--1298572 Score: 384
Period size: 145 Copynumber: 1.8 Consensus size: 145
1298301 CGCCAGCAAA
* * ** * *
1298311 AGGCTAAAAACCGTTCGACTTATTTTCTTCGATCTGCCGTCGTCCACCGTCTCATCTTCCTGAAT
1 AGGCCAAAAACCGTTCGACTTATTTTCTCCGATCCACCGCCGTCCACCGTCTCATCGTCCTGAAT
* * * *
1298376 TTTCAGTATGTTGTTTGTGCTGGTCTCGCGCAACTTTTGACCGTTCGGAATGTTGAGCAAAAATC
66 TTTCAATATGTTGTTTGTGATAGTCTCGAGCAACTTTTGACCGTTCGGAATGTTGAGCAAAAATC
1298441 CCAATCGCAGGAAAG
131 CCAATCGCAGGAAAG
*
1298456 AGGCCAAAAACCGTTCCG-CTTATTTTCTCCGATCCACCGCCGTCCACCGTCTGATCGTCCTGAA
1 AGGCCAAAAACCGTT-CGACTTATTTTCTCCGATCCACCGCCGTCCACCGTCTCATCGTCCTGAA
*
1298520 TTTTCAATATGTT-TTTCGTGATAGTCTTGAGCAACTTTTGACCGTTCGGAATG
65 TTTTCAATATGTTGTTT-GTGATAGTCTCGAGCAACTTTTGACCGTTCGGAATG
1298573 GTGATCGGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 3 0.03
145 98 0.95
146 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (145 bp):
AGGCCAAAAACCGTTCGACTTATTTTCTCCGATCCACCGCCGTCCACCGTCTCATCGTCCTGAAT
TTTCAATATGTTGTTTGTGATAGTCTCGAGCAACTTTTGACCGTTCGGAATGTTGAGCAAAAATC
CCAATCGCAGGAAAG
Found at i:1299631 original size:112 final size:112
Alignment explanation
Indices: 1299333--1299670 Score: 520
Period size: 111 Copynumber: 3.0 Consensus size: 112
1299323 TTCAGGGAAG
* ** *
1299333 ATTGAATC-TGGGAAGACTTGTTCCATTGTCACTCATGGAATATCAAATCTTGAAAGAGAGGGAT
1 ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* *
1299397 CTGTTTCGCTTCTTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
66 CTGTTCCGCTTCTTTTGAGGGAATATCAGATCTGGGAAAGTTGATCC
*
1299444 ATTGAATCGT-GCAAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
1 ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
*
1299508 CTGTTCTGCTTCTTTTGAGGGAATATCAGATCTGGGAAAGTTGATCC
66 CTGTTCCGCTTCTTTTGAGGGAATATCAGATCTGGGAAAGTTGATCC
*
1299555 ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGAT
1 ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* ** *
1299620 CCGTTCCGCTTCTTCTAAAGGGAATATCAGATCT-GGATGAGTTGATCC
66 CTGTTCCGCTTCTT-TTGAGGGAATATCAGATCTGGGA-AAGTTGATCC
1299668 ATT
1 ATT
1299671 CCGCTGTCAC
Statistics
Matches: 208, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
111 111 0.53
112 68 0.33
113 29 0.14
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (112 bp):
ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
CTGTTCCGCTTCTTTTGAGGGAATATCAGATCTGGGAAAGTTGATCC
Found at i:1299807 original size:133 final size:133
Alignment explanation
Indices: 1299555--1300033 Score: 712
Period size: 133 Copynumber: 3.6 Consensus size: 133
1299545 AAGTTGATCC
* * *
1299555 ATTGAATCGTGGCAAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGAT
1 ATTGAATCATGG-TAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGAT
* *
1299620 CCGTTCCGCTTCTTCTAAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAT
65 CTGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCA-
1299685 GGAAG
129 GGAAG
* *
1299690 ATTGAATC-TGGTAGACTTATTCCGCTGTCACTCAGGGAATATCAAATTTTGAAAGAGAATGATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * *
1299754 TGTTCCACATATTTTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGT
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAG-
1299819 GAAG
130 GAAG
* * * *
1299823 ATTGAATCATGGTAGACTTGTTCTGCTGTCACTCAGGGAATATCAAGTCTTGAAA-AAAAAGATC
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
* * * *
1299887 TGTTTCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGACCCATTCCTCTTTCACTCAGG
66 TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCA-G
1299952 GAAG
130 GAAG
*
1299956 ATTGAATCATGGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAG-ATGAAT
1 ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATG-AT
1300020 CTGTTCCGCTTCTT
65 CTGTTCCGCTTCTT
1300034 TGATGGAGTT
Statistics
Matches: 309, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
132 1 0.00
133 238 0.77
134 62 0.20
135 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (133 bp):
ATTGAATCATGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATC
TGTTCCGCTTCTTCTGAAGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGG
AAG
Found at i:1300678 original size:32 final size:32
Alignment explanation
Indices: 1300604--1300665 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1300594 TTGCATCAGG
* *
1300604 ATGTTGAATCCCCAAATATGCCACAATATTCA
1 ATGTTGAATCTCCAAATATGCCACAACATTCA
*
1300636 ATGTTGAATCTCCAAATATGCCCCAACATT
1 ATGTTGAATCTCCAAATATGCCACAACATT
1300666 TGTTGTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATGCCACAACATTCA
Found at i:1301731 original size:13 final size:12
Alignment explanation
Indices: 1301713--1301751 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1301703 ATTATCGTCC
*
1301713 TTTTTTTCTCTT
1 TTTTTTTCTTTT
1301725 TTTTTTTCTTTT
1 TTTTTTTCTTTT
1301737 TTTTGTTTCTTTT
1 TTTT-TTTCTTTT
1301750 TT
1 TT
1301752 GTTCTGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:1301747 original size:23 final size:22
Alignment explanation
Indices: 1301713--1301756 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1301703 ATTATCGTCC
*
1301713 TTTTTTTCTCTTTTTTTTTCTT
1 TTTTTTTCTCTTTTTTGTTCTT
*
1301735 TTTTTTGTTTCTTTTTTGTTCT
1 TTTTTT-TCTCTTTTTTGTTCT
1301757 GATTGGATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTTGTTCTT
Found at i:1302423 original size:27 final size:28
Alignment explanation
Indices: 1302393--1302445 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
1302383 ATATGTCAAA
*
1302393 AATCTATAATTC-TTGAATAATTAAAAG
1 AATCTATAATTCATTCAATAATTAAAAG
* *
1302420 AATCTTTAATTCATTCAATATTTAAA
1 AATCTATAATTCATTCAATAATTAAA
1302446 GAACTAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (28 bp):
AATCTATAATTCATTCAATAATTAAAAG
Found at i:1309233 original size:144 final size:146
Alignment explanation
Indices: 1309071--1309358 Score: 348
Period size: 144 Copynumber: 2.0 Consensus size: 146
1309061 ACTTTTCACG
*
1309071 TTTGAAGTATTGATCGGAGATCCCGATCGCCAGCAAA-AGGCTAAAAACCATTCGACTTAGTTTC
1 TTTGAAGTATTGATCGGAGATCCCGATCG-CAGCAAAGAGGCCAAAAACCATTCGACTTAGTTTC
* ** * * * * *
1309135 TTCGATCTGCCATCGTCCACCGTCTGATCGAATTGAGTTTTCAGTATG-TGTTTGTGCTGGTCTC
65 TCCGATCCACCACCGTCCACCGTCTGATCGAACTGAATTTTCAGTATGTTGTTCGTGATGGTCTC
*
1309199 GTGCAACTTTTGACCAT
130 GAGCAACTTTTGACCAT
* * * * * * * *
1309216 TTTGAA-TGTTGATCGGAGATCCGGATTGCAGGAAAGAGGCCAAAAATCGTTCGGCTTATTTTCT
1 TTTGAAGTATTGATCGGAGATCCCGATCGCAGCAAAGAGGCCAAAAACCATTCGACTTAGTTTCT
* ** *
1309280 CCGATCCACCGCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTTG
66 CCGATCCACCACCGTCCACCGTCTGATCGAACTGAATTTTCAGTATGTTGTTCGTGATGGTCTCG
1309345 AGCAACTTTTGACC
131 AGCAACTTTTGACC
1309359 GTTCGGAATG
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 6 0.05
144 80 0.67
145 33 0.28
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (146 bp):
TTTGAAGTATTGATCGGAGATCCCGATCGCAGCAAAGAGGCCAAAAACCATTCGACTTAGTTTCT
CCGATCCACCACCGTCCACCGTCTGATCGAACTGAATTTTCAGTATGTTGTTCGTGATGGTCTCG
AGCAACTTTTGACCAT
Found at i:1310277 original size:45 final size:45
Alignment explanation
Indices: 1310228--1310476 Score: 225
Period size: 45 Copynumber: 5.5 Consensus size: 45
1310218 AATCCATTTA
* *
1310228 ATTATTGGGTTGACAAAAGTAAAATCAAAGGATTAATTCCTTTTG
1 ATTATTGGGTTGACAAAATTAAAATCAAAGGATTAGTTCCTTTTG
** * ** * *
1310273 ATTATTTTGTTGCCAAAAACAAAATCAAAGAATTAGTTCATTTTG
1 ATTATTGGGTTGACAAAATTAAAATCAAAGGATTAGTTCCTTTTG
** * *
1310318 ATTATTTAGTTGCCAAAATTAGAAATCATAGGATTAGTTCCTTTTG
1 ATTATTGGGTTGACAAAATTA-AAATCAAAGGATTAGTTCCTTTTG
* * * * **
1310364 ATTACTCGGTCTGA-AAAA-TAAAATCAAAGGATTATTTTCTTTCA
1 ATTATTGGGT-TGACAAAATTAAAATCAAAGGATTAGTTCCTTTTG
** *
1310408 ATTATTGAATTG-CGAAAATTAAAATCAGAAAGATTAGTTCCTTTTG
1 ATTATTGGGTTGAC-AAAATTAAAATCA-AAGGATTAGTTCCTTTTG
**
1310454 ATTATTGGGTTGGTAAAATTAAA
1 ATTATTGGGTTGACAAAATTAAA
1310477 GGACTAATTC
Statistics
Matches: 162, Mismatches: 35, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
43 2 0.01
44 29 0.18
45 65 0.40
46 64 0.40
47 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (45 bp):
ATTATTGGGTTGACAAAATTAAAATCAAAGGATTAGTTCCTTTTG
Found at i:1310392 original size:90 final size:89
Alignment explanation
Indices: 1310227--1310457 Score: 250
Period size: 90 Copynumber: 2.6 Consensus size: 89
1310217 CAATCCATTT
* * * * * **
1310227 AATTATTGGGTTGACAAAAGTAAAATCAAAGGATTAATTCCTTTTGATTATTTTGTTGCCAAAAA
1 AATTATTGAGTTGCCAAAATTAAAATCAAAGGATTAGTTCCTTTTGATTACTCGGTTG-CAAAAA
*
1310292 CAAAATCAAAGAATTA-GTTCATTTT
65 CAAAATCAAAGAATTATGTTC-TTTC
* * *
1310317 GATTATTTAGTTGCCAAAATTAGAAATCATAGGATTAGTTCCTTTTGATTACTCGGTCTG-AAAA
1 AATTATTGAGTTGCCAAAATTA-AAATCAAAGGATTAGTTCCTTTTGATTACTCGGT-TGCAAAA
* * *
1310381 ATAAAATCAAAGGATTATTTTCTTTC
64 ACAAAATCAAAGAATTATGTTCTTTC
* * *
1310407 AATTATTGAATTGCGAAAATTAAAATCAGAAAGATTAGTTCCTTTTGATTA
1 AATTATTGAGTTGCCAAAATTAAAATCA-AAGGATTAGTTCCTTTTGATTA
1310458 TTGGGTTGGT
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
89 6 0.05
90 77 0.66
91 32 0.27
92 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (89 bp):
AATTATTGAGTTGCCAAAATTAAAATCAAAGGATTAGTTCCTTTTGATTACTCGGTTGCAAAAAC
AAAATCAAAGAATTATGTTCTTTC
Found at i:1310737 original size:58 final size:58
Alignment explanation
Indices: 1310624--1310737 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 58
1310614 AATCTTGTGT
* * ** * * *
1310624 TGATTCTAACTTCGTAAGTAAAATAAATTGTTGAATTTATTTGTTTTATAGTCTTTAA
1 TGATTCTAACTTCGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAAAATCTTTAA
*
1310682 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAAAATCTTT
1 TGATTCTAACTTCGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAAAATCTTT
1310738 GATCTATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (58 bp):
TGATTCTAACTTCGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAAAATCTTTAA
Found at i:1310927 original size:39 final size:39
Alignment explanation
Indices: 1310864--1310938 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
1310854 ATTATGATTG
* *
1310864 TAAAAGGAAATAAATTGGTAGATTTATTTTCCTGTTCTA
1 TAAAAGGAAATAAATCGGTAGATTTATTTTCATGTTCTA
* *
1310903 TAAAAGGAAATAAATCGTTGGATTTATTTTCATGTT
1 TAAAAGGAAATAAATCGGTAGATTTATTTTCATGTT
1310939 TTGTTTGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (39 bp):
TAAAAGGAAATAAATCGGTAGATTTATTTTCATGTTCTA
Found at i:1310961 original size:22 final size:23
Alignment explanation
Indices: 1310920--1310964 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1310910 AAATAAATCG
*
1310920 TTGGATTTATTTTCATGTTTTGT
1 TTGGATTTATTTTCAGGTTTTGT
1310943 TTGGATTTA-TTTCAGGTTTTGT
1 TTGGATTTATTTTCAGGTTTTGT
1310965 AAAAGGTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.13, C:0.04, G:0.20, T:0.62
Consensus pattern (23 bp):
TTGGATTTATTTTCAGGTTTTGT
Found at i:1313598 original size:22 final size:22
Alignment explanation
Indices: 1313563--1313605 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1313553 TTGGCCTTTT
1313563 AAAGAGGAAGAATGAGAAGGAA
1 AAAGAGGAAGAATGAGAAGGAA
*
1313585 AAAGAGAGAA-AATGGGAAGGA
1 AAAGAG-GAAGAATGAGAAGGA
1313606 GAAGAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.37, T:0.05
Consensus pattern (22 bp):
AAAGAGGAAGAATGAGAAGGAA
Found at i:1316141 original size:43 final size:40
Alignment explanation
Indices: 1316088--1316234 Score: 125
Period size: 45 Copynumber: 3.5 Consensus size: 40
1316078 AATTTTTATT
1316088 TTTTACCTTTATAATTGAAGTCCTAATATTATTCAATCTCACC
1 TTTTACCTTTATAATTGAAGTCCTAAT-TT-TTCAATCTCA-C
* * **
1316131 TTTTATCTTTATAATTGAAGTCTCTAATTTTTTTTCAATCCCTTT
1 TTTTACCTTTATAATTGAAGTC-CTAA---TTTTTCAATCTC-AC
* *
1316176 TTTTACCTTTATAATTGAGACTCCTAATTTTGT-AATCTTAC
1 TTTTACCTTTATAATTGA-AGTCCTAATTTT-TCAATCTCAC
**
1316217 TTTTAATTTTATAATTGA
1 TTTTACCTTTATAATTGA
1316235 TGCTTTTAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 16 0.19
42 8 0.09
43 22 0.26
44 4 0.05
45 29 0.34
46 5 0.06
47 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (40 bp):
TTTTACCTTTATAATTGAAGTCCTAATTTTTCAATCTCAC
Found at i:1316186 original size:45 final size:45
Alignment explanation
Indices: 1316085--1316206 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 45
1316075 TTTAATTTTT
* *
1316085 ATTTTTTACCTTTATAATTGAAGTC-CTAA-TATTATTCAATCTC
1 ATTTTTTACCTTTATAATTGAAGTCTCTAATTTTTATTCAATCCC
** * *
1316128 ACCTTTTATCTTTATAATTGAAGTCTCTAATTTTTTTTCAATCCC
1 ATTTTTTACCTTTATAATTGAAGTCTCTAATTTTTATTCAATCCC
* *
1316173 TTTTTTTACCTTTATAATTG-AGACTCCTAATTTT
1 ATTTTTTACCTTTATAATTGAAGTCT-CTAATTTT
1316207 GTAATCTTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 22 0.34
44 8 0.12
45 35 0.54
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (45 bp):
ATTTTTTACCTTTATAATTGAAGTCTCTAATTTTTATTCAATCCC
Done.