Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 150 of 345
Found at i:41081414 original size:107 final size:107
Alignment explanation
Indices: 41081222--41081415 Score: 237
Period size: 107 Copynumber: 1.8 Consensus size: 107
41081212 TGTAAGATAG
* * * * * * **
41081222 AATTACCATTTTACCTTCGATTTACAGAAGTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 AATTACCATCTTACCCTCGATTTACAGAAGTACCATTTTACCCTCAATGTAAAAAATTACTATAA
* *
41081287 TACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACA
66 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACA
* *
41081329 AATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGA-A
1 AATTACCATCTTACCCTCGATTTACAGAAGTACCATTTTACCCTCAATGTAAAAAATTACT-ATA
***
41081393 ATACCCTTGGTTTACAAAATTAC
65 ATACCCTCAATTTACAAAATTAC
41081416 CAAAATACCC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
107 70 0.99
108 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (107 bp):
AATTACCATCTTACCCTCGATTTACAGAAGTACCATTTTACCCTCAATGTAAAAAATTACTATAA
TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACA
Found at i:41081521 original size:27 final size:27
Alignment explanation
Indices: 41081491--41081738 Score: 340
Period size: 27 Copynumber: 9.3 Consensus size: 27
41081481 TGCTTTGTGA
41081491 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
41081518 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
41081545 AATTA-CTAAATACTCC-TGTAGGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
*
41081571 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
41081598 AATAACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
41081625 AATTACCGAAATACCC-TGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
41081651 AATGACCGAAATACCCTTGTAGTGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
41081678 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41081705 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
41081732 AATTACC
1 AATTACC
41081739 ATTTTTCCCC
Statistics
Matches: 197, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
26 48 0.24
27 149 0.76
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:41081581 original size:53 final size:54
Alignment explanation
Indices: 41081491--41081738 Score: 331
Period size: 53 Copynumber: 4.6 Consensus size: 54
41081481 TGCTTTGTGA
* * *
41081491 AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
41081545 AATTA-CTAAATACTCC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATAC-CCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
41081598 AATAACCAAAATACCCCTGTAAGGTAGAATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
41081651 AATGACCGAAATACCCTTGTAGTGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
41081705 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACCAAAATACCCTTGTAGGGTAGAATTACC
41081739 ATTTTTCCCC
Statistics
Matches: 172, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 95 0.55
54 77 0.45
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:41081592 original size:80 final size:79
Alignment explanation
Indices: 41081491--41081738 Score: 343
Period size: 80 Copynumber: 3.1 Consensus size: 79
41081481 TGCTTTGTGA
* * *
41081491 AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACTAAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAT
41081556 ACTCCTGTAGGGTAG
66 AC-CCTGTAGGGTAG
* * * *
41081571 AATTACCGAAATACCCCTGTAGGGTAGAATAACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CGAAA
41081636 TACCCTGTAGGGTAG
65 TACCCTGTAGGGTAG
* * * *
41081651 AATGACCGAAATACCCTTGTAGTGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* *
41081716 TACCCTTGTGGGGTAA
65 TACCC-TGTAGGGTAG
41081732 AATTACC
1 AATTACC
41081739 ATTTTTCCCC
Statistics
Matches: 148, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
80 127 0.86
81 21 0.14
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (79 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACGAAAT
ACCCTGTAGGGTAG
Found at i:41081719 original size:107 final size:107
Alignment explanation
Indices: 41081491--41081738 Score: 356
Period size: 107 Copynumber: 2.3 Consensus size: 107
41081481 TGCTTTGTGA
* * *
41081491 AATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACTAAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATGACGAAAT
*
41081556 ACTCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
66 ACTCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
41081598 AATAACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCC-TGTAGGGTAGAATGACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATGA-CGAAA
*
41081662 TAC-CCTTGTAGTGTAGAAATACCGAAATACCCCTGTAGGGTAG
65 TACTCC-TGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * *
41081705 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACC
41081739 ATTTTTCCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
106 16 0.13
107 107 0.87
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (107 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATGACGAAAT
ACTCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:41082181 original size:31 final size:31
Alignment explanation
Indices: 41082139--41082209 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
41082129 TTGCATTCAC
41082139 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
* *
41082170 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
41082201 ATTCTGATT
1 ATTCTGATT
41082210 CTGCCACCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:41082202 original size:25 final size:25
Alignment explanation
Indices: 41082174--41082237 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
41082164 ATACCGATTT
* ** *
41082174 TGATTTTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGCCACCTAATAC
*
41082199 TGATTCTGATTCTGCCACCTAATTC
1 TGATTCTGATTCTGCCACCTAATAC
41082224 TGATTCTGATTCTG
1 TGATTCTGATTCTG
41082238 ATTCTAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (25 bp):
TGATTCTGATTCTGCCACCTAATAC
Found at i:41082209 original size:6 final size:6
Alignment explanation
Indices: 41082139--41082242 Score: 61
Period size: 6 Copynumber: 16.8 Consensus size: 6
41082129 TTGCATTCAC
* * * * *
41082139 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTTTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
41082188 -TTACCTG ATACTG ATTCTG ATTCTG CCA-CCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG ATTCTG
41082238 ATTCT
1 ATTCT
41082243 AGTTTTGATA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.07
6 59 0.79
7 8 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:41084294 original size:56 final size:57
Alignment explanation
Indices: 41084215--41084351 Score: 222
Period size: 56 Copynumber: 2.4 Consensus size: 57
41084205 ATCGTATTAC
*
41084215 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTCAGAAGAGCTCAATT
** *
41084272 AGGATTACCA-TTTAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTCAGAAGAGCTCAATT
*
41084328 AGGATTACTAGTCCAGGCTAAATC
1 AGGATTACCAGTCCAGGCTAAATC
41084352 CCAATTGTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 51 0.71
57 21 0.29
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTCAGAAGAGCTCAATT
Found at i:41084369 original size:57 final size:57
Alignment explanation
Indices: 41084215--41084370 Score: 210
Period size: 56 Copynumber: 2.8 Consensus size: 57
41084205 ATCGTATTAC
*
41084215 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCATTATGTAACGTATGCTCAGAAGAGCTCAATT
** *
41084272 AGGATTACCA-TTTAGGCTAAAT-CATTTATGTAACGTATGCTTAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCA-TTATGTAACGTATGCTCAGAAGAGCTCAATT
* * *
41084328 AGGATTACTAGTCCAGGCTAAATCCCAAT-TGTAACATATGCTC
1 AGGATTACCAGTCCAGGCTAAAT-CCATTATGTAACGTATGCTC
41084371 GAGAGGGATT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
55 1 0.01
56 49 0.58
57 32 0.38
58 1 0.01
59 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCATTATGTAACGTATGCTCAGAAGAGCTCAATT
Found at i:41086193 original size:31 final size:31
Alignment explanation
Indices: 41086155--41086218 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
41086145 CCTTTTCATA
*
41086155 TTTCATATTTCATAACACGGGGCCGAAGCCT
1 TTTCATATTTCATAACACGGGGCCAAAGCCT
** *
41086186 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACGGGGCCAAAGCCT
41086217 TT
1 TT
41086219 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACGGGGCCAAAGCCT
Found at i:41086491 original size:23 final size:23
Alignment explanation
Indices: 41086459--41086503 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41086449 AAAAGCCCTT
41086459 TTAATAACTGGGGCATAAGCCCA
1 TTAATAACTGGGGCATAAGCCCA
*
41086482 TTAATTACTGGGGCATAAGCCC
1 TTAATAACTGGGGCATAAGCCC
41086504 TTTTGTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (23 bp):
TTAATAACTGGGGCATAAGCCCA
Found at i:41086582 original size:20 final size:20
Alignment explanation
Indices: 41086557--41086614 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
41086547 ATGAACACAC
41086557 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATGT
41086577 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATGT
41086597 CATGTGCATATCATACAT
1 CATGTGCATATCATACAT
41086615 ACCATGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATGT
Found at i:41086620 original size:20 final size:20
Alignment explanation
Indices: 41086555--41086621 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
41086545 TTATGAACAC
41086555 ACCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
**
41086575 GTCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
**
41086595 GTCATGTGCATATCATACAT
1 ACCATGTGCATATCATACAT
41086615 ACCATGT
1 ACCATGT
41086622 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
ACCATGTGCATATCATACAT
Found at i:41089147 original size:19 final size:18
Alignment explanation
Indices: 41089110--41089153 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
41089100 ATACTTACAG
41089110 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
41089127 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
41089146 TACTAATT
1 TAATAATT
41089154 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:41091180 original size:31 final size:31
Alignment explanation
Indices: 41091142--41091205 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
41091132 CCTTTTCATA
41091142 TTTCATATTTCATAACACGGGGCCGAAGCCT
1 TTTCATATTTCATAACACGGGGCCGAAGCCT
* ** *
41091173 TTTCATATTTTATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACGGGGCCGAAGCCT
41091204 TT
1 TT
41091206 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACGGGGCCGAAGCCT
Found at i:41091463 original size:23 final size:24
Alignment explanation
Indices: 41091399--41091515 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
41091389 GCTTTATCAT
*
41091399 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
41091424 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
41091448 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
41091470 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
41091493 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41091516 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.12
23 46 0.54
24 18 0.21
25 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41091590 original size:20 final size:20
Alignment explanation
Indices: 41091565--41091629 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
41091555 ATGAATACAC
41091565 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
41091585 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
41091605 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
41091625 CATGT
1 CATGT
41091630 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:41091596 original size:11 final size:11
Alignment explanation
Indices: 41091565--41091618 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
41091555 ATGAATACAC
41091565 CATGTGCATAT
1 CATGTGCATAT
*
41091576 CA--TACATAT
1 CATGTGCATAT
41091585 CATGTGCATAT
1 CATGTGCATAT
* *
41091596 CA--TACATGT
1 CATGTGCATAT
41091605 CATGTGCATAT
1 CATGTGCATAT
41091616 CAT
1 CAT
41091619 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:41091697 original size:25 final size:24
Alignment explanation
Indices: 41091665--41091712 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
41091655 TATATTTAAA
* * *
41091665 ACCTAGGGTATAATGGTCATTTTT
1 ACCTAGGGCAAAACGGTCATTTTT
41091689 ACCTAAGGGCAAAACGGTCATTTT
1 ACCT-AGGGCAAAACGGTCATTTT
41091713 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
ACCTAGGGCAAAACGGTCATTTTT
Found at i:41094114 original size:48 final size:47
Alignment explanation
Indices: 41094022--41094118 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 47
41094012 TCCATATAAT
* * *
41094022 AATAATTATAATAATTTTATAAAAATTTCAAATATCAATATTACAGTA
1 AATAATAATAATAATTTTATAAAAAATTCAAACATC-ATATTACAGTA
41094070 AATAATAATAATAATTTTCATAAAAAAAATTCAAACATC-T-TTACAGTA
1 AATAATAATAATAATTTT-AT--AAAAAATTCAAACATCATATTACAGTA
41094118 A
1 A
41094119 TATTTTTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
48 26 0.60
49 3 0.07
51 14 0.33
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (47 bp):
AATAATAATAATAATTTTATAAAAAATTCAAACATCATATTACAGTA
Found at i:41094153 original size:19 final size:18
Alignment explanation
Indices: 41094116--41094159 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
41094106 ATCTTTACAG
41094116 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
41094133 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
41094152 TACTAATT
1 TAATAATT
41094160 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:41100064 original size:70 final size:71
Alignment explanation
Indices: 41099978--41100140 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
41099968 CGATTTGTCT
41099978 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41100042 CTTTCA
66 CTTTCA
41100048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
41100113 CTTTCA
66 CTTTCA
41100119 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
41100141 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:41100178 original size:71 final size:70
Alignment explanation
Indices: 41099978--41100174 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
41099968 CGATTTGTCT
* * * *
41099978 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41100042 CTTTCA
65 CTTTCA
* * * *
41100048 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
41100113 CTTTCA
65 CTTTCA
* *
41100119 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
41100175 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:41110400 original size:42 final size:42
Alignment explanation
Indices: 41110346--41110467 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
41110336 TTAGGGTTAT
41110346 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
41110388 TGAGACTT-CGTGTAAGACCATAGCT-GGACTATTTGCATGGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGA-TA-TGGCATCGATA
* *
41110431 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
41110468 TGGTACGGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 3 0.04
42 30 0.44
43 32 0.47
44 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:41112508 original size:24 final size:23
Alignment explanation
Indices: 41112481--41112555 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 23
41112471 GCCTAGCCTC
41112481 TTTTAATAGCTGGGGCAAAGCCCT
1 TTTTAATA-CTGGGGCAAAGCCCT
* *
41112505 TTTTGATAAACTTGGGCAAAGCCCT
1 TTTT-A-ATACTGGGGCAAAGCCCT
41112530 TTTCGGTAA-ACTGGGGCAAAGCCCT
1 TTT---TAATACTGGGGCAAAGCCCT
41112555 T
1 T
41112556 GTGCAGTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
24 4 0.09
25 34 0.79
26 3 0.07
27 1 0.02
28 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
TTTTAATACTGGGGCAAAGCCCT
Found at i:41112525 original size:25 final size:25
Alignment explanation
Indices: 41112490--41112555 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
41112480 CTTTTAATAG
*
41112490 CTGGGGCAAAGCCCTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
* *
41112515 CTTGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
41112540 CTGGGGCAAAGCCCTT
1 CTGGGGCAAAGCCCTT
41112556 GTGCAGTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:41112631 original size:20 final size:21
Alignment explanation
Indices: 41112606--41112653 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
41112596 AAATGAATAC
*
41112606 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
41112626 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
41112647 ATCATGT
1 ATCATGT
41112654 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:41116120 original size:24 final size:24
Alignment explanation
Indices: 41116076--41116257 Score: 303
Period size: 24 Copynumber: 7.6 Consensus size: 24
41116066 TATCTCAAAT
*
41116076 GCACTATGTGTG-GATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41116099 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41116123 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
41116147 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
41116171 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41116195 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
41116219 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
41116243 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
41116258 ACATAATAAG
Statistics
Matches: 150, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 12 0.08
24 138 0.92
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41116271 original size:48 final size:48
Alignment explanation
Indices: 41116076--41116279 Score: 220
Period size: 48 Copynumber: 4.3 Consensus size: 48
41116066 TATCTCAAAT
* ** *
41116076 GCACTATGTGTG-GATTCACTATGGCACTATGTGTGCG-ATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-G
* ** *
41116123 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ATTTACTATG
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-G
*
41116171 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACT-AT-G
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAG
* * * *
41116219 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAG
41116267 GCACTATGTGTGC
1 GCACTATGTGTGC
41116280 CACATTCGGT
Statistics
Matches: 141, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
46 1 0.01
47 16 0.11
48 122 0.87
50 1 0.01
51 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAG
Found at i:41116271 original size:72 final size:72
Alignment explanation
Indices: 41116076--41116279 Score: 268
Period size: 72 Copynumber: 2.8 Consensus size: 72
41116066 TATCTCAAAT
* * ** * *
41116076 GCACTATGTGTG-GATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
41116140 CACTATG
66 CACTATG
* ** * *
41116147 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
41116212 CACTATG
66 CACTATG
* *
41116219 GCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
41116280 CACATTCGGT
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
71 12 0.10
72 106 0.86
73 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
CACTATG
Found at i:41123092 original size:31 final size:30
Alignment explanation
Indices: 41123014--41123097 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 30
41123004 AATCAGTCTC
41123014 AACATATACTAGGCCGAAGCC-TTTCATTA
1 AACATATACTAGGCCGAAGCCTTTTCATTA
*
41123043 AACGAT-TACTGGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTAGGCCGAAGCCTTTTCATTA
*
41123072 ATTCATATCACTAGGCCGAAGCCTTT
1 A-ACATAT-ACTAGGCCGAAGCCTTT
41123098 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 22 0.47
30 9 0.19
31 16 0.34
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (30 bp):
AACATATACTAGGCCGAAGCCTTTTCATTA
Found at i:41123379 original size:25 final size:25
Alignment explanation
Indices: 41123317--41123382 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
41123307 CTTTTAATAG
* * *
41123317 CTGGGGCACAGCACTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
41123342 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
41123367 CTGGGGCAAAGCCCTT
1 CTGGGGCAAAGCCCTT
41123383 GTGCACTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:41123459 original size:20 final size:21
Alignment explanation
Indices: 41123434--41123480 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
41123424 AATGAATACG
*
41123434 TCATGTGCATATCATA-CATA
1 TCATGTGCATATCATATCAAA
41123454 TCATGTGCATATCATATCAAA
1 TCATGTGCATATCATATCAAA
41123475 TCATGT
1 TCATGT
41123481 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (21 bp):
TCATGTGCATATCATATCAAA
Found at i:41136031 original size:26 final size:26
Alignment explanation
Indices: 41136002--41136102 Score: 86
Period size: 26 Copynumber: 3.9 Consensus size: 26
41135992 TAAACAACAT
41136002 AATAAATAATATATGATAAATAAATA
1 AATAAATAATATATGATAAATAAATA
* *
41136028 AAT-AATAGATAGTATAAT-AATAGATA
1 AATAAATA-ATA-TATGATAAATAAATA
*
41136054 ACATAACATAATA-AT-ATAAATATAT-
1 A-ATAA-ATAATATATGATAAATAAATA
*
41136079 AATAAAATAATATACGATAAATAA
1 AAT-AAATAATATATGATAAATAA
41136103 TTTTTTATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
24 8 0.13
25 10 0.16
26 29 0.48
27 7 0.11
28 4 0.07
29 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (26 bp):
AATAAATAATATATGATAAATAAATA
Found at i:41136049 original size:22 final size:21
Alignment explanation
Indices: 41136000--41136054 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
41135990 GATAAACAAC
*
41136000 ATAATAAATAATATATGATAA
1 ATAATAAATAATAGATGATAA
41136021 ATAAATAAATAATAGAT-AGTATA
1 AT-AATAAATAATAGATGA-TA-A
*
41136044 ATAATAGATAA
1 ATAATAAATAA
41136055 CATAACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 3 0.10
22 23 0.79
23 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
ATAATAAATAATAGATGATAA
Found at i:41136072 original size:13 final size:12
Alignment explanation
Indices: 41136003--41136090 Score: 56
Period size: 13 Copynumber: 6.8 Consensus size: 12
41135993 AAACAACATA
41136003 ATAAATAATATAT
1 ATAAATAATA-AT
41136016 GATAAATAAATAA-
1 -ATAAAT-AATAAT
*
41136029 AT-AATAGATAGT
1 ATAAATA-ATAAT
*
41136041 ATAATAATAGATAAC
1 AT-A-AATA-ATAAT
41136056 ATAACATAATAAT
1 ATAA-ATAATAAT
41136069 ATAAATATATAAT
1 ATAAATA-ATAAT
41136082 A-AAATAATA
1 ATAAATAATA
41136091 TACGATAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
10 1 0.02
11 9 0.15
12 12 0.19
13 15 0.24
14 11 0.18
15 14 0.23
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:41136083 original size:29 final size:28
Alignment explanation
Indices: 41135973--41136084 Score: 86
Period size: 30 Copynumber: 3.8 Consensus size: 28
41135963 TGTTAAAATT
* * *
41135973 ATAATAATAAAGATAAAGATAAACAACATA
1 ATAAT-ATAAATATATA-ATAAATAACATA
41136003 ATAA-ATAATATATGATAAATAAATAA-ATA
1 ATAATATAA-ATAT-AT-AATAAATAACATA
41136032 ATAGATAGTATAATA-ATAGATAACATAACATA
1 ATA-ATA-TA-AATATATA-ATAA-ATAACATA
41136064 ATAATATAAATATATAATAAA
1 ATAATATAAATATATAATAAA
41136085 ATAATATACG
Statistics
Matches: 68, Mismatches: 3, Indels: 24
0.72 0.03 0.25
Matches are distributed among these distances:
28 5 0.07
29 18 0.26
30 24 0.35
31 9 0.13
32 11 0.16
33 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (28 bp):
ATAATATAAATATATAATAAATAACATA
Found at i:41136088 original size:29 final size:29
Alignment explanation
Indices: 41135997--41136088 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 29
41135987 AAAGATAAAC
41135997 AACATAATAA-ATAATATATGATAA-ATAAAT
1 AACATAATAATATAA-ATAT-ATAATA-AAAT
*
41136027 AA-ATAATAGATAGTATAATA-ATAGATAACAT
1 AACATAATA-ATA-TA-AATATATA-ATAAAAT
41136058 AACATAATAATATAAATATATAATAAAAT
1 AACATAATAATATAAATATATAATAAAAT
41136087 AA
1 AA
41136089 TATACGATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
29 18 0.35
30 11 0.21
31 10 0.19
32 12 0.23
33 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (29 bp):
AACATAATAATATAAATATATAATAAAAT
Found at i:41136089 original size:44 final size:42
Alignment explanation
Indices: 41136020--41136102 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 42
41136010 ATATATGATA
**
41136020 AATAAATAAATAATAGATAGTATAATAATA-GATAACATAACAT
1 AATAAATAAATAATAGATAAAATAAT-ATACGATAA-ATAACAT
41136063 AATAATATAAATATATA-ATAAAATAATATACGATAAATAA
1 AATAA-ATAAATA-ATAGATAAAATAATATACGATAAATAA
41136103 TTTTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
43 12 0.34
44 20 0.57
45 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.29
Consensus pattern (42 bp):
AATAAATAAATAATAGATAAAATAATATACGATAAATAACAT
Found at i:41136158 original size:25 final size:25
Alignment explanation
Indices: 41136125--41136184 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
41136115 GAATAATGTT
*
41136125 TATAGTAAAATAAATAATATTTA-AAA
1 TATA-TAAAATAAA-AAAATTTAGAAA
*
41136151 TATTTAAAATAAAAAAATTTAGAAA
1 TATATAAAATAAAAAAATTTAGAAA
41136176 TATATAAAA
1 TATATAAAA
41136185 ATGGATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 20 0.67
26 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
TATATAAAATAAAAAAATTTAGAAA
Found at i:41136186 original size:18 final size:17
Alignment explanation
Indices: 41136140--41136186 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
41136130 TAAAATAAAT
*
41136140 AATATTTAAAATATTTAA
1 AATATATAAAA-ATTTAA
41136158 AATA-A-AAAAATTTAGA
1 AATATATAAAAATTTA-A
41136174 AATATATAAAAAT
1 AATATATAAAAAT
41136187 GGATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 1 0.04
18 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AATATATAAAAATTTAA
Found at i:41137468 original size:17 final size:17
Alignment explanation
Indices: 41137446--41137478 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41137436 TAAATGGACT
*
41137446 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
41137463 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
41137479 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:41137796 original size:79 final size:80
Alignment explanation
Indices: 41137625--41137807 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
41137615 CTCCCCATTG
* * * ** * *
41137625 AATACAGAGACGCCCAAATCATCTTGAATTAGCCTTGATGAAGATCAGATCTACTAATGTCTTCG
1 AATACAGAGATGCCCAAATTATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
* * *
41137690 ATTTGCTCTCTGTCC
66 ATTTGCTCCCCGTCA
* * * * *
41137705 ATTACAGAGATGCCCAAATTATCTTGGATTTGCCTCGACAAAGATCAGATTTGCT-ATATCTTCA
1 AATACAGAGATGCCCAAATTATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
41137769 ATTTGCTCCCCGTCA
66 ATTTGCTCCCCGTCA
41137784 AATACAGAGATG-CCAAATTATCTT
1 AATACAGAGATGCCCAAATTATCTT
41137808 CTTGGTTTTG
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 12 0.14
79 30 0.34
80 45 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (80 bp):
AATACAGAGATGCCCAAATTATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
ATTTGCTCCCCGTCA
Found at i:41137821 original size:44 final size:45
Alignment explanation
Indices: 41137769--41137940 Score: 188
Period size: 44 Copynumber: 3.9 Consensus size: 45
41137759 TATATCTTCA
* *
41137769 ATTTGCTCCCCGTCAAATACAGAGATGCCAAAT-TATCTTCTTGG
1 ATTTGCTCCCCATCAAATACGGAGATGCCAAATCTATCTTCTTGG
* * * * * *
41137813 TTTTGCTCCCCGTCGAATACGGGGATGCCAAATCTGTCATCTTGG
1 ATTTGCTCCCCATCAAATACGGAGATGCCAAATCTATCTTCTTGG
* * * *
41137858 ATCTGCTCCCCATCAAATACGGGGATACCAAATCT-GCTTCTTGG
1 ATTTGCTCCCCATCAAATACGGAGATGCCAAATCTATCTTCTTGG
* * *
41137902 ATTTACTCCTCATCAAATACGAAGATGCCAAATC-ATCTT
1 ATTTGCTCCCCATCAAATACGGAGATGCCAAATCTATCTT
41137941 GGATCTGCTC
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 67 0.63
45 39 0.37
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (45 bp):
ATTTGCTCCCCATCAAATACGGAGATGCCAAATCTATCTTCTTGG
Found at i:41137921 original size:89 final size:85
Alignment explanation
Indices: 41137772--41137952 Score: 202
Period size: 89 Copynumber: 2.1 Consensus size: 85
41137762 ATCTTCAATT
* * * * * * * **
41137772 TGCTCCCCGTCAAATACAGAGATGCCAAATTATCTTCTTGGTTTTGCTCCCCGTCGAATACGGGG
1 TGCTCCCCATCAAATACAGAGATACCAAATTAGCTTCTTGGATTTACTCCCCATCAAATACGAAG
41137837 ATGCCAAATCTGTCATCTTGGATC
66 ATGCCAAA----TCATCTTGGATC
* * *
41137861 TGCTCCCCATCAAATACGGGGATACCAAATCT-GCTTCTTGGATTTACTCCTCATCAAATACGAA
1 TGCTCCCCATCAAATACAGAGATACCAAAT-TAGCTTCTTGGATTTACTCCCCATCAAATACGAA
41137925 GATGCCAAATCATCTTGGATC
65 GATGCCAAATCATCTTGGATC
41137946 TGCTCCC
1 TGCTCCC
41137953 TGATGCCAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
85 19 0.24
89 59 0.75
90 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (85 bp):
TGCTCCCCATCAAATACAGAGATACCAAATTAGCTTCTTGGATTTACTCCCCATCAAATACGAAG
ATGCCAAATCATCTTGGATC
Found at i:41138004 original size:73 final size:77
Alignment explanation
Indices: 41137885--41138093 Score: 291
Period size: 73 Copynumber: 2.7 Consensus size: 77
41137875 TACGGGGATA
*
41137885 CCAAATCTGCTTCTTGGATTTACTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATCTGCT
41137950 -CC-C-T-GATG
66 CCCGCATAGATG
* *
41137958 CCAAATCTGCTTCTCGGATTTGCTCCTCGTCAAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATCTGCT
41138023 CCCCGTCGAATACGGAGATG
66 -CCCG-C--AT----AGATG
41138043 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATC
1 CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATC
41138094 TACTATCTTT
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
73 62 0.52
75 2 0.02
77 1 0.01
80 1 0.01
85 53 0.45
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (77 bp):
CCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATCTGCT
CCCGCATAGATG
Found at i:41138123 original size:44 final size:45
Alignment explanation
Indices: 41137954--41138181 Score: 210
Period size: 44 Copynumber: 5.2 Consensus size: 45
41137944 TCTGCTCCCT
* * *
41137954 GATGCCAAATCTGCT-TCTCGGATTTGCTC-CTCGTCAAATACGAA
1 GATGCCAAATCTGCTATCTTGGATCTGCTCTCT-GACAAATACGAA
* * * * *
41137998 GATGCCAAA--T-C-ATCTTGGATCTGCTCCCCGTCGAATACGGA
1 GATGCCAAATCTGCTATCTTGGATCTGCTCTCTGACAAATACGAA
* *
41138039 GATGCCAAATCTGCT-TCTTGGATTTGCTC-CTCATCAAATACGAA
1 GATGCCAAATCTGCTATCTTGGATCTGCTCTCTGA-CAAATACGAA
* *
41138083 GATGCCAAATCTACTATCTTTGATCTGCTCTCTGAC-AATAC-AGA
1 GATGCCAAATCTGCTATCTTGGATCTGCTCTCTGACAAATACGA-A
* *
41138127 GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATATA--AA
1 GATGCCAAATCTGCTATCTTGGATCTGCTCTCTGACAA-ATACGAA
41138171 GATGCCAAATC
1 GATGCCAAATC
41138182 ATCTTGGATC
Statistics
Matches: 153, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
41 32 0.21
42 2 0.01
43 3 0.02
44 95 0.62
45 15 0.10
46 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (45 bp):
GATGCCAAATCTGCTATCTTGGATCTGCTCTCTGACAAATACGAA
Found at i:41151245 original size:40 final size:40
Alignment explanation
Indices: 41151167--41151390 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
41151157 ACCCAAGTAT
* *
41151167 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
41151206 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
41151246 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
41151286 CTTCGGGACTTAGCCCGGGTGTAG-CAACTACTCGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
41151329 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
41151369 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41151391 CATCCGAATA
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.08
40 114 0.71
41 1 0.01
43 33 0.21
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:41151351 original size:83 final size:80
Alignment explanation
Indices: 41151167--41151390 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
41151157 ACCCAAGTAT
* * *
41151167 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
41151230 TCACTAGCATGAATGC
65 TCACTAGCATAAATGC
* *
41151246 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTGTAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
41151310 CAACTACTCGCATAAATGC
66 C-ACTA---GCATAAATGC
* * *
41151329 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
41151391 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
81 1 0.01
83 66 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:41153510 original size:32 final size:33
Alignment explanation
Indices: 41153449--41153554 Score: 112
Period size: 32 Copynumber: 3.3 Consensus size: 33
41153439 TTAAAATTAT
* *
41153449 AATAATA-AAGAT-AAAGATAAACAACATAATA
1 AATAATATATGATAAAAGATAAATAACATAATA
*
41153480 AATAATATATGATAAAATATAAATAA-ATAATA
1 AATAATATATGATAAAAGATAAATAACATAATA
* * *
41153512 GATAATATAT-ATAATAGATAACATAACATAACA
1 AATAATATATGATAAAAGATAA-ATAACATAATA
41153545 TAATAATATA
1 -AATAATATA
41153555 AATATATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
31 16 0.26
32 23 0.37
33 15 0.24
34 8 0.13
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (33 bp):
AATAATATATGATAAAAGATAAATAACATAATA
Found at i:41153532 original size:38 final size:38
Alignment explanation
Indices: 41153477--41153586 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 38
41153467 AAACAACATA
41153477 ATAAATA-AT-ATATGATAAAATATAAATAAATAATAGAT
1 ATAAATATATAATA-GATAAAATATAAATAAATAATA-AT
* * *
41153515 A-ATATATATAATAGATAACATA-ACATAACATAATAAT
1 ATAAATATATAATAGATAAAATATAAATAA-ATAATAAT
*
41153552 ATAAATATATAATA-A-AATAATATACGATAAATAAT
1 ATAAATATATAATAGATAA-AATATA-AATAAATAAT
41153587 TTTTTATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
36 2 0.03
37 16 0.27
38 34 0.58
39 7 0.12
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (38 bp):
ATAAATATATAATAGATAAAATATAAATAAATAATAAT
Found at i:41153555 original size:13 final size:12
Alignment explanation
Indices: 41153477--41153573 Score: 51
Period size: 12 Copynumber: 7.8 Consensus size: 12
41153467 AAACAACATA
41153477 ATAAATAATATAT
1 ATAAATAATA-AT
41153490 GATAAA-ATATAA-
1 -ATAAATA-ATAAT
41153502 ATAAATAATAGAT
1 ATAAATAATA-AT
*
41153515 A-ATATATATAAT
1 ATAAATA-ATAAT
* * *
41153527 AGATAA-CATAAC
1 ATA-AATAATAAT
41153539 ATAACATAATAAT
1 ATAA-ATAATAAT
41153552 ATAAATATATAAT
1 ATAAATA-ATAAT
41153565 A-AAATAATA
1 ATAAATAATA
41153574 TACGATAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 23
0.69 0.07 0.24
Matches are distributed among these distances:
11 12 0.18
12 24 0.36
13 21 0.32
14 9 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:41154969 original size:17 final size:17
Alignment explanation
Indices: 41154947--41154979 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41154937 TAAATGGACT
*
41154947 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
41154964 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
41154980 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:41176699 original size:42 final size:42
Alignment explanation
Indices: 41176653--41176761 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
41176643 CAATGCTGAC
*
41176653 GTCCCAGACATGGTCTTACATGTAGTCAACAT-CGATG-CCACT
1 GTCCCAGACATGGTCTTACATGTAATCAA-ATACGATGTCCA-T
* * * **
41176695 GTCCCAAACAGGGTCTTACATGAAATCAAATACGATGTTGAT
1 GTCCCAGACATGGTCTTACATGTAATCAAATACGATGTCCAT
* *
41176737 GTCCCAGGCATGGTTTTACATGTAA
1 GTCCCAGACATGGTCTTACATGTAA
41176762 AACAGAAGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGTAATCAAATACGATGTCCAT
Found at i:41180055 original size:49 final size:48
Alignment explanation
Indices: 41179984--41180149 Score: 166
Period size: 49 Copynumber: 3.6 Consensus size: 48
41179974 TGGAAGTTTA
41179984 TCTGCAACACTGGTGGCTTGTCCACATATATCTGTATCTAGCAGCTTG
1 TCTGCAACACTGGTGGCTTGTCCACATATATCTGTATCTAGCAGCTTG
* * * * *
41180032 TCTGCAATATCTGGTGGTTTGTCCAC--A-A--T-TA-CTAGAAGTTTA
1 TCTGCAACA-CTGGTGGCTTGTCCACATATATCTGTATCTAGCAGCTTG
* *
41180074 TCTACAACACTGGTGGCTTGTCCACATATATCTGTATCTAACAGCTTG
1 TCTGCAACACTGGTGGCTTGTCCACATATATCTGTATCTAGCAGCTTG
* * * *
41180122 TTTGCAATATCTGGTGGTTTGTCTACAT
1 TCTGCAACA-CTGGTGGCTTGTCCACAT
41180150 TGTGATGTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
41 15 0.16
42 15 0.16
43 3 0.03
44 2 0.02
46 2 0.02
47 3 0.03
48 21 0.23
49 31 0.34
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (48 bp):
TCTGCAACACTGGTGGCTTGTCCACATATATCTGTATCTAGCAGCTTG
Found at i:41180108 original size:90 final size:90
Alignment explanation
Indices: 41179955--41180144 Score: 326
Period size: 90 Copynumber: 2.1 Consensus size: 90
41179945 ATACATACTA
** * *
41179955 GTGGTTTAACCACAATTACTGGAAGTTTATCTGCAACACTGGTGGCTTGTCCACATATATCTGTA
1 GTGGTTTGTCCACAATTACTAGAAGTTTATCTACAACACTGGTGGCTTGTCCACATATATCTGTA
*
41180020 TCTAGCAGCTTGTCTGCAATATCTG
66 TCTAACAGCTTGTCTGCAATATCTG
41180045 GTGGTTTGTCCACAATTACTAGAAGTTTATCTACAACACTGGTGGCTTGTCCACATATATCTGTA
1 GTGGTTTGTCCACAATTACTAGAAGTTTATCTACAACACTGGTGGCTTGTCCACATATATCTGTA
*
41180110 TCTAACAGCTTGTTTGCAATATCTG
66 TCTAACAGCTTGTCTGCAATATCTG
41180135 GTGGTTTGTC
1 GTGGTTTGTC
41180145 TACATTGTGA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (90 bp):
GTGGTTTGTCCACAATTACTAGAAGTTTATCTACAACACTGGTGGCTTGTCCACATATATCTGTA
TCTAACAGCTTGTCTGCAATATCTG
Found at i:41183686 original size:19 final size:19
Alignment explanation
Indices: 41183662--41183699 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
41183652 TTAGAAGCCG
41183662 AAAGAAAATTAATCTAATC
1 AAAGAAAATTAATCTAATC
41183681 AAAGAAAATTAATCTAATC
1 AAAGAAAATTAATCTAATC
41183700 CTAGTCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAGAAAATTAATCTAATC
Found at i:41185209 original size:37 final size:35
Alignment explanation
Indices: 41185128--41185228 Score: 129
Period size: 32 Copynumber: 2.9 Consensus size: 35
41185118 TATAACCATG
41185128 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAC
*
41185164 TG---AATGCCTTCGGGTCTTAGCCCGG-TAGCCAC
1 TGCACAATGCCTTCGGGTCTTAGCCCGGATAG-AAC
41185196 TAGCACAATTGCCTTCGGGTCTTAGCCCGGATA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
41185229 TCATTCAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 3 0.05
32 26 0.46
33 1 0.02
36 4 0.07
37 21 0.37
38 2 0.04
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.25
Consensus pattern (35 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATAGAAC
Found at i:41193096 original size:26 final size:26
Alignment explanation
Indices: 41193060--41193113 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
41193050 CCGGATATAA
41193060 CCAGCACAATGCCTTCGGG-TCTTAGC
1 CCAGCACAATGCCTTCGGGAT-TTAGC
*
41193086 CCAGCATAATGCCTTCGGGATTTAGC
1 CCAGCACAATGCCTTCGGGATTTAGC
41193112 CC
1 CC
41193114 GGATATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (26 bp):
CCAGCACAATGCCTTCGGGATTTAGC
Found at i:41209551 original size:13 final size:13
Alignment explanation
Indices: 41209533--41209557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41209523 CTCAAACTTG
41209533 AGTTGTACATCAT
1 AGTTGTACATCAT
41209546 AGTTGTACATCA
1 AGTTGTACATCA
41209558 AGAATTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
AGTTGTACATCAT
Found at i:41209968 original size:43 final size:43
Alignment explanation
Indices: 41209908--41210152 Score: 364
Period size: 43 Copynumber: 5.7 Consensus size: 43
41209898 TTTATTGGAA
* * *
41209908 AAAAACGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
41209951 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
41209994 AAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
41210037 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* * **
41210081 AAAAGCGCCGCTAAAGGTCAAAGCTTTTAGCGGCGTTTGTGCC
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
41210124 TAAAGCACCGCTAAACGTCAAGGCTTTTA
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTA
41210153 CAAACGCCGC
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 147 0.79
44 40 0.21
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:41210108 original size:87 final size:87
Alignment explanation
Indices: 41209908--41210151 Score: 375
Period size: 87 Copynumber: 2.8 Consensus size: 87
41209898 TTTATTGGAA
* * * *
41209908 AAAAACGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
41209973 GC-TTTTAGCGGCGTTTGTGGG
66 GCTTTTTAGCGGCGTTTGTGGG
* *
41209994 AAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
*
41210059 GCTTTTTAGCGGCGTTTGTGGT
66 GCTTTTTAGCGGCGTTTGTGGG
* * *
41210081 AAAAGCGCCGCTAAAGGTCAAAGCTTTTAGCGGCGTTTGTGCCT-AAAGCACCGCTAAACGTCAA
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAACGTCAA
41210145 GGCTTTT
65 GGCTTTT
41210152 ACAAACGCCG
Statistics
Matches: 144, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
86 61 0.42
87 82 0.57
88 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (87 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAG
GCTTTTTAGCGGCGTTTGTGGG
Found at i:41210145 original size:130 final size:129
Alignment explanation
Indices: 41209908--41210152 Score: 400
Period size: 130 Copynumber: 1.9 Consensus size: 129
41209898 TTTATTGGAA
* * *
41209908 AAAAACGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 AAAAACGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAA
** *
41209973 GCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
66 GCTTTTAGCGGCGTTTGTGCCAAAAGCACCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
* *
41210037 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
1 AAAAACGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
*
41210102 AGCTTTTAGCGGCGTTTGTGCCTAAAGCACCGCTAAACGTCAAGGCTTTTA
65 AGCTTTTAGCGGCGTTTGTGCCAAAAGCACCGCTAAACGTCAAGGCTTTTA
41210153 CAAACGCCGC
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 21 0.20
130 85 0.80
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (129 bp):
AAAAACGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAA
GCTTTTAGCGGCGTTTGTGCCAAAAGCACCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
Found at i:41210559 original size:21 final size:21
Alignment explanation
Indices: 41210535--41210580 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
41210525 GCTCGTGCCT
*
41210535 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
41210556 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
41210577 CTGC
1 CTGC
41210581 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:41216283 original size:9 final size:9
Alignment explanation
Indices: 41216271--41216487 Score: 175
Period size: 9 Copynumber: 23.4 Consensus size: 9
41216261 AATTATATAT
*
41216271 TTATCTAAG
1 TTATATAAG
41216280 TTATATAAG
1 TTATATAAG
*
41216289 TTATGTAAG
1 TTATATAAG
* *
41216298 TTATGTAAAT
1 TTATAT-AAG
*
41216308 TATGATATAAAA
1 T-T-ATAT-AAG
*
41216320 TATATTTAAG
1 T-TATATAAG
*
41216330 TATTATGTAAG
1 --TTATATAAG
*
41216341 TTATGTAAG
1 TTATATAAG
*
41216350 TTATAT-AT
1 TTATATAAG
*
41216358 TTATCTAAG
1 TTATATAAG
41216367 TTATATAAG
1 TTATATAAG
41216376 TTATATAAG
1 TTATATAAG
* *
41216385 TTATGTATG
1 TTATATAAG
41216394 TTATATAAG
1 TTATATAAG
*
41216403 TTATGTAAG
1 TTATATAAG
*
41216412 TTATATATG
1 TTATATAAG
41216421 TTATATAAG
1 TTATATAAG
*
41216430 TTATGTAAG
1 TTATATAAG
41216439 TTATATAAG
1 TTATATAAG
41216448 TTATATAAG
1 TTATATAAG
** *
41216457 TTACGTACG
1 TTATATAAG
* *
41216466 TTTTGTAAG
1 TTATATAAG
*
41216475 TTATATAAA
1 TTATATAAG
41216484 TTAT
1 TTAT
41216488 GATATCAAAT
Statistics
Matches: 170, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
8 6 0.04
9 138 0.81
10 5 0.03
11 11 0.06
12 10 0.06
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:41216297 original size:18 final size:18
Alignment explanation
Indices: 41216218--41216488 Score: 189
Period size: 18 Copynumber: 15.3 Consensus size: 18
41216208 TATTTAAGTA
** *
41216218 TTATGTAAGTTATGCAAT
1 TTATGTAAGTTATATAAG
* * *
41216236 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
41216254 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
41216271 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
41216289 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
41216307 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
41216320 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
41216341 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
41216358 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
41216376 TTATATAAGTTATGTATG
1 TTATGTAAGTTATATAAG
* *
41216394 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
41216412 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
41216430 TTATGTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* ** *
41216448 TTATATAAGTTACGTACG
1 TTATGTAAGTTATATAAG
* *
41216466 TTTTGTAAGTTATATAAA
1 TTATGTAAGTTATATAAG
41216484 TTATG
1 TTATG
41216489 ATATCAAATA
Statistics
Matches: 201, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.02
14 6 0.03
16 2 0.01
17 37 0.18
18 133 0.66
19 6 0.03
20 10 0.05
21 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:41216310 original size:27 final size:27
Alignment explanation
Indices: 41216271--41216488 Score: 213
Period size: 27 Copynumber: 7.9 Consensus size: 27
41216261 AATTATATAT
*
41216271 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
41216298 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
41216330 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
41216358 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
41216385 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
41216412 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
41216439 TTATATAAGTTATATAAGTTACGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
41216466 TTTTGTAAGTTATATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
41216489 ATATCAAATA
Statistics
Matches: 160, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.14
27 99 0.62
28 4 0.03
29 5 0.03
30 7 0.04
31 6 0.04
32 8 0.05
33 3 0.02
34 6 0.04
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:41216328 original size:114 final size:114
Alignment explanation
Indices: 41216194--41216415 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 114
41216184 ACTAGTTATG
* * * *
41216194 TATGATATGATATATATTTAAGTATTATGTAAGTTATGCAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTAT-ATAT-ATATATAAGTTAT
* *
41216258 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* * *
41216308 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTATATATATATATAAGTTATAT
* * *
41216373 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
41216416 ATATGTTATA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 72 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGCAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:41216612 original size:15 final size:15
Alignment explanation
Indices: 41216592--41216647 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
41216582 AAGTAGCGGG
41216592 ATTAAATAATATTTA
1 ATTAAATAATATTTA
41216607 ATTAAATAATATTT-
1 ATTAAATAATATTTA
41216621 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
41216636 ATTAAGTAATAT
1 ATTAAATAATAT
41216648 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:41217419 original size:24 final size:25
Alignment explanation
Indices: 41217379--41217425 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
41217369 ATCAAATAAT
*
41217379 AATTAAGTTG-AACCAAATATTTAA
1 AATTAAGTTGAAACAAAATATTTAA
41217403 AATTAA-TTGGAAACAAAATATTT
1 AATTAAGTT-GAAACAAAATATTT
41217426 CTACTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 7 0.35
25 11 0.55
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (25 bp):
AATTAAGTTGAAACAAAATATTTAA
Found at i:41221195 original size:15 final size:15
Alignment explanation
Indices: 41221175--41221206 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41221165 AAATAATATT
*
41221175 TTATATATATTTATC
1 TTATATACATTTATC
41221190 TTATATACATTTATC
1 TTATATACATTTATC
41221205 TT
1 TT
41221207 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:41222276 original size:41 final size:41
Alignment explanation
Indices: 41222219--41222437 Score: 368
Period size: 41 Copynumber: 5.4 Consensus size: 41
41222209 GTTATGAGAT
41222219 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
*
41222260 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* * *
41222301 TTTTAGCGGCGTTTTACCTAAAGTGCAGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
*
41222342 TTTTAGCGGCATTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* *
41222383 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
41222423 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
41222438 TTTTAGAACG
Statistics
Matches: 168, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 16 0.10
41 152 0.90
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
Found at i:41225149 original size:18 final size:17
Alignment explanation
Indices: 41225126--41225159 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
41225116 TAGCTGTGCC
41225126 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
41225144 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
41225160 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:41226311 original size:25 final size:25
Alignment explanation
Indices: 41226282--41226329 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41226272 TTATAATATG
* * *
41226282 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41226307 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41226330 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41226413 original size:11 final size:11
Alignment explanation
Indices: 41226377--41226432 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
41226367 CATGGTATGT
41226377 ATGATATGCAC
1 ATGATATGCAC
* *
41226388 ATGACATG--T
1 ATGATATGCAC
41226397 ATGATATGCAC
1 ATGATATGCAC
41226408 ATGATATG-A-
1 ATGATATGCAC
*
41226417 ATGACATGCAC
1 ATGATATGCAC
41226428 ATGAT
1 ATGAT
41226433 GTATTTATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:41226432 original size:20 final size:20
Alignment explanation
Indices: 41226366--41226432 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
41226356 ATTTTGATAA
*
41226366 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
41226386 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
41226406 ACATGATATGAATGACATGC
1 ACATGATATGTATGATATGC
41226426 ACATGAT
1 ACATGAT
41226433 GTATTTATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:41226560 original size:23 final size:24
Alignment explanation
Indices: 41226481--41226624 Score: 213
Period size: 24 Copynumber: 6.0 Consensus size: 24
41226471 GAGGAAGTGC
41226481 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41226505 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41226529 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41226553 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41226576 AAAAAAGGGCTT-TGCCCCAATTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
41226601 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41226625 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
23 29 0.26
24 54 0.49
25 19 0.17
26 9 0.08
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:41230002 original size:40 final size:40
Alignment explanation
Indices: 41229957--41230086 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
41229947 CGGAATATAA
41229957 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41229997 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41230037 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
41230077 CCGGATATAA
1 CCGGATATAA
41230087 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41230107 original size:80 final size:80
Alignment explanation
Indices: 41229973--41230122 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
41229963 ATAACCACGT
* * *
41229973 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
41230038 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
41230053 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
41230117 CCGGAT
65 CCGGAT
41230123 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:41237219 original size:40 final size:40
Alignment explanation
Indices: 41237174--41237303 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
41237164 CGGAATATAA
41237174 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41237214 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41237254 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
41237294 CCGGATATAA
1 CCGGATATAA
41237304 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41237324 original size:80 final size:80
Alignment explanation
Indices: 41237190--41237339 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
41237180 ATAACCACGT
* * *
41237190 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
41237255 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
41237270 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
41237334 CCGGAT
65 CCGGAT
41237340 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:41238937 original size:39 final size:39
Alignment explanation
Indices: 41238883--41239026 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
41238873 GAATGTTCGA
41238883 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
41238922 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
41238961 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
41239000 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
41239027 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:41238973 original size:78 final size:79
Alignment explanation
Indices: 41238884--41239066 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
41238874 AATGTTCGAG
41238884 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
41238948 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
41238962 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
41239027 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
41239041 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
41239067 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:41246906 original size:39 final size:39
Alignment explanation
Indices: 41246852--41246995 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
41246842 GAATGTTCGA
41246852 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
41246891 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
41246930 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
41246969 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
41246996 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:41246942 original size:78 final size:79
Alignment explanation
Indices: 41246853--41247035 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
41246843 AATGTTCGAG
41246853 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
41246917 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
41246931 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
41246996 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
41247010 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
41247036 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:41250119 original size:46 final size:46
Alignment explanation
Indices: 41250047--41250258 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 46
41250037 GGGTTATTGT
* * * *
41250047 GAGCTAGTGTAAGACATGTTTGGGACATGCATTGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
*
41250093 GAGCCAGTGTAAGACCAT-TCTGGGACATAGCATCAG-CATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
* * *
41250140 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGTAAT-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAG--ATGA
* * **
41250187 -AGCCAAG-GTAAGACATGTCGGGGACATGCATTGGCTGCGAGATGA
1 GAGCC-AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
* *
41250232 TAGTCAGTGTAAGACCATGTCTGGGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGAC
41250259 TAGCATCAAC
Statistics
Matches: 136, Mismatches: 17, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 78 0.57
47 50 0.37
48 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:41250153 original size:47 final size:48
Alignment explanation
Indices: 41250089--41250311 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 48
41250079 TGGCCACATT
*
41250089 ATGAGAGCCAGTGTAAGACCAT-TCTGGGACATAGCATCAGCATCGAG-
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATAGCATCAGC-TCGAGA
* *
41250136 ATGAGTGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGTA
1 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATAGCATCAG-CTCGAG-A
* * **
41250184 AT-A-AGCCAAG-GTAAGA-CATGTCGGGGACAT-GCATTGGCTGCGAG-
1 ATGAGTGCC-AGTGTAAGACCATGTCTGGGACATAGCATCAGCT-CGAGA
* * *
41250228 ATGA-TAGTCAGTGTAAGACCATGTCTGGGAC-TAGCATCAACTTGAGA
1 ATGAGT-GCCAGTGTAAGACCATGTCTGGGACATAGCATCAGCTCGAGA
*
41250275 TATGAGT--TAGTGTAAGACCATGTCTGGGACATAGCAT
1 -ATGAGTGCCAGTGTAAGACCATGTCTGGGACATAGCAT
41250312 TGGCACCTTA
Statistics
Matches: 146, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
44 2 0.01
45 5 0.03
46 79 0.54
47 53 0.36
48 6 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
ATGAGTGCCAGTGTAAGACCATGTCTGGGACATAGCATCAGCTCGAGA
Found at i:41250211 original size:93 final size:92
Alignment explanation
Indices: 41250052--41250258 Score: 219
Period size: 93 Copynumber: 2.2 Consensus size: 92
41250042 ATTGTGAGCT
* * * *
41250052 AGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATTCGGGG
41250117 ACATAGCATCAGCAT-CGAGATGAGT-GCC
66 ACAT-GCATCAGC-TGCGAGATGA-TAGCC
* *
41250145 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGTAAT-A-AGCCAAG-GTAAGA-CATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TAATGAGAGCC-AGTGTAAGACCAT-TC
** *
41250206 GGGGACATGCATTGGCTGCGAGATGATAGTC
62 GGGGACATGCATCAGCTGCGAGATGATAGCC
41250237 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGA-CATGTCTGGGAC
41250259 TAGCATCAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
91 2 0.02
92 28 0.29
93 60 0.62
94 4 0.04
95 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATTCGGGG
ACATGCATCAGCTGCGAGATGATAGCC
Found at i:41250305 original size:139 final size:139
Alignment explanation
Indices: 41250055--41250311 Score: 326
Period size: 139 Copynumber: 1.8 Consensus size: 139
41250045 GTGAGCTAGT
** *
41250055 GTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATTCTGGGACA
1 GTAAGACATGTCGGGGACATGCATTGGCCACATGATGAGAGCCAGTGTAAGACCATTCTGGGACA
*
41250120 TAGCATCAGCATCGAGATGAGTGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGTA
66 TAGCATCAACATCGAGATGAGT-CCAGTGTAAGACATGTCTAGGACATAGCATCGGCCTCGAGTA
41250184 ATAAGCCAAG
130 ATAAGCCAAG
** * *
41250194 GTAAGACATGTCGGGGACATGCATTGGCTGCGA-GATGATAGTCAGTGTAAGACCATGTCTGGGA
1 GTAAGACATGTCGGGGACATGCATTGGCCAC-ATGATGAGAGCCAGTGTAAGACCAT-TCTGGGA
* * *
41250258 C-TAGCATCAAC-TTGAGATATGAGT-TAGTGTAAGACCATGTCTGGGACATAGCAT
64 CATAGCATCAACATCGAG--ATGAGTCCAGTGTAAGA-CATGTCTAGGACATAGCAT
41250312 TGGCACCTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
138 13 0.13
139 69 0.68
140 19 0.19
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (139 bp):
GTAAGACATGTCGGGGACATGCATTGGCCACATGATGAGAGCCAGTGTAAGACCATTCTGGGACA
TAGCATCAACATCGAGATGAGTCCAGTGTAAGACATGTCTAGGACATAGCATCGGCCTCGAGTAA
TAAGCCAAG
Found at i:41258194 original size:49 final size:49
Alignment explanation
Indices: 41258121--41258407 Score: 313
Period size: 49 Copynumber: 5.8 Consensus size: 49
41258111 TAGCCAAAGC
* *
41258121 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
41258170 TATCCGGTACACGTACTAGGCTGCACTTAGTACTACACACGTGACCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-T
* ** *
41258221 TATCGGGTATGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
41258270 TAACCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * * * * *
41258321 TATCGGGTACGCATAATAGCCTACACTTAGTACTAAAAATGCGAACAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
41258370 TATCCGATACACATAGTAGCCTGCACTTAGTACTACAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACAC
41258408 GCGTGACATC
Statistics
Matches: 188, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
49 107 0.57
50 9 0.05
51 72 0.38
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:41258263 original size:100 final size:100
Alignment explanation
Indices: 41258121--41258414 Score: 446
Period size: 100 Copynumber: 2.9 Consensus size: 100
41258111 TAGCCAAAGC
* * * *
41258121 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAC
1 TATCGGGTACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
*
41258186 TAGGCTGCACTTAGTACTACACACGTGACCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGACCGAAGT
* *
41258221 TATCGGGTATGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTAACCGATACACGTAG
1 TATCGGGTACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
*
41258286 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGACCGAAGT
* * * * *
41258321 TATCGGGTACGCATAATAGCCT-ACACTTAGTACTAAAAATGCGAACAATTATCCGATACACATA
1 TATCGGGTACGCATAGTAGCCTGA-ACTTAGTACTACACATGCGACCAATTATCCGATACACGTA
*
41258385 GTAGCCTGCACTTAGTACTACACGCGTGAC
65 GTAGCCTGCACTTAGTACTACACACGTGAC
41258415 ATCACAATAG
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.01
100 175 0.99
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGAACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGACCGAAGT
Found at i:41258386 original size:149 final size:149
Alignment explanation
Indices: 41258134--41258407 Score: 345
Period size: 149 Copynumber: 1.8 Consensus size: 149
41258124 CTGGTACGCA
* * * * *
41258134 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTACTAGGCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAATAGCCTACACTTA
* * * * * * **
41258199 GTACTACACACGTGACCGAAGTTATCGGGTATGCATAGTAGCCTGAACTTAGTACTACACATGCG
66 GTACTAAAAACGCGAACGAAGTTATCCGATACACATAGTAGCCTGAACTTAGTACTACACATGCG
41258264 ACCAATTAACCGATACACG
131 ACCAATTAACCGATACACG
* * * *
41258283 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAATAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAATAGCCTACACT
* *
41258348 TAGTACTAAAAATGCGAAC-AA-TTATCCGATACACATAGTAGCCTGCACTTAGTACTACAC
64 TAGTACTAAAAACGCGAACGAAGTTATCCGATACACATAGTAGCCTGAACTTAGTACTACAC
41258408 GCGTGACATC
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
149 63 0.61
150 5 0.05
151 36 0.35
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (149 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAATAGCCTACACTTA
GTACTAAAAACGCGAACGAAGTTATCCGATACACATAGTAGCCTGAACTTAGTACTACACATGCG
ACCAATTAACCGATACACG
Found at i:41262964 original size:26 final size:26
Alignment explanation
Indices: 41262935--41263013 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
41262925 CATGCGACCA
41262935 ATTATCCAGTACACGTAGTAGCCTGC
1 ATTATCCAGTACACGTAGTAGCCTGC
*
41262961 ATTATCCGGTACACGTAGTAGCCTGC
1 ATTATCCAGTACACGTAGTAGCCTGC
41262987 ATTATCCAGTACACGTAGTAGCCTGC
1 ATTATCCAGTACACGTAGTAGCCTGC
41263013 A
1 A
41263014 CTTAGTACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (26 bp):
ATTATCCAGTACACGTAGTAGCCTGC
Found at i:41263025 original size:26 final size:24
Alignment explanation
Indices: 41262944--41263026 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 24
41262934 AATTATCCAG
*
41262944 TACACGTAGTAGCCTGCATTATCC
1 TACACGTAGTAGCCTGCATTATAC
*
41262968 GGTACACGTAGTAGCCTGCATTATCCAG
1 --TACACGTAGTAGCCTGCATTAT--AC
41262996 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCA-TTA-TAC
41263022 TACAC
1 TACAC
41263027 ACGTGATCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 46 0.92
27 3 0.06
28 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (24 bp):
TACACGTAGTAGCCTGCATTATAC
Found at i:41263111 original size:49 final size:50
Alignment explanation
Indices: 41262901--41263127 Score: 203
Period size: 49 Copynumber: 4.5 Consensus size: 50
41262891 CTGGTACGCA
* * * *
41262901 TAGTAGACTACACTTAGTACTAAACATGCGA-CCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAGCCAATTATCCGGTACACG
* * * * *
41262950 TAGTAGCCTGCA-TTA-TCCGGTACACGTAG-TAGCCTGCATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTAC--TACACAT-GCGAGCC--AATTATCCGGTACACG
* * * * * * *
41263002 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGAGCCAA-TTATCCGGTACACG
*
41263053 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAGCCAATTATCCGGTACACG
*
41263102 TAGTAGCCTGCACTTAGAACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41263128 CATGACCTCA
Statistics
Matches: 143, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
47 2 0.01
48 3 0.02
49 52 0.36
50 7 0.05
51 40 0.28
52 34 0.24
53 3 0.02
54 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGAGCCAATTATCCGGTACACG
Found at i:41264566 original size:40 final size:40
Alignment explanation
Indices: 41264521--41264686 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
41264511 CGGAATATAA
41264521 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
41264561 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
41264601 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
41264640 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
41264679 CCGGATAT
1 CCGGATAT
41264687 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41268438 original size:47 final size:48
Alignment explanation
Indices: 41268377--41268504 Score: 152
Period size: 51 Copynumber: 2.6 Consensus size: 48
41268367 TTGTGACTTC
* ** *
41268377 TGTAAGACATGTCTGGGACATGCATCGGCC-ATATTA-TGAGAGATAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCGAGACAAGGGAGAGATAG
*
41268423 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGGGATAGATAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC--CGAGACAAGGGAGAGATAG
*
41268475 TGTAAGACATGTCTAGGACATGCATCGGCC
1 TGTAAGACATGTCTGGGACATGCATCGGCC
41268505 TTGAGAGTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
46 7 0.10
47 14 0.20
48 9 0.13
50 9 0.13
51 16 0.23
52 15 0.21
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCGAGACAAGGGAGAGATAG
Found at i:41271315 original size:68 final size:67
Alignment explanation
Indices: 41271238--41271446 Score: 207
Period size: 68 Copynumber: 3.1 Consensus size: 67
41271228 CATCATCTGT
41271238 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC-AGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
41271303 TAG
65 TAG
* * * * * *
41271306 ACAAGAGAGCT--AGACATTATGATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCA
1 ACAAGAGAGCTACAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCA
41271369 TGTAG
63 TGTAG
* ** * * * *
41271374 ACAAGAGAGCTAC-GAGA-TA--AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ACAAGAGAGCTACAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
41271435 -G
66 AG
41271436 TACAAGAGAGC
1 -ACAAGAGAGC
41271447 CGAACTATAT
Statistics
Matches: 117, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 1 0.01
65 34 0.29
66 21 0.18
67 2 0.02
68 36 0.31
69 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
AG
Found at i:41272539 original size:2 final size:2
Alignment explanation
Indices: 41272532--41272558 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41272522 TCATGACATG
41272532 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
41272559 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41277945 original size:18 final size:19
Alignment explanation
Indices: 41277908--41277948 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41277898 ATTTAGAATC
41277908 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
41277927 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
41277945 AAAA
1 AAAA
41277949 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:41277947 original size:30 final size:31
Alignment explanation
Indices: 41277875--41277947 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 31
41277865 TCAAGTTATC
* *
41277875 TTAAATATTAAAATAAAATAAAAATTTAGAA
1 TTAAATACTAAAATAAAATAAAAATCTAGAA
*
41277906 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATACTAAAAT-AA-AATAAAAATCTAGAA
41277936 TTAAATA-TAAAA
1 TTAAATACTAAAA
41277948 ATATCAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
30 17 0.49
31 10 0.29
32 8 0.23
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATACTAAAATAAAATAAAAATCTAGAA
Found at i:41282681 original size:21 final size:21
Alignment explanation
Indices: 41282673--41282730 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
41282663 TGAATCATGA
41282673 ACCCCTAACCCCTAACTCATA
1 ACCCCTAACCCCTAACTCATA
41282694 ACCCCTAACCCCTAACTCATA
1 ACCCCTAACCCCTAACTCATA
*
41282715 ACCCCTAACACCTAAC
1 ACCCCTAACCCCTAAC
41282731 ACCTAAACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (21 bp):
ACCCCTAACCCCTAACTCATA
Found at i:41282682 original size:7 final size:7
Alignment explanation
Indices: 41282672--41282736 Score: 76
Period size: 7 Copynumber: 9.3 Consensus size: 7
41282662 CTGAATCATG
41282672 AACCCCT
1 AACCCCT
41282679 AACCCCT
1 AACCCCT
* *
41282686 AACTCAT
1 AACCCCT
41282693 AACCCCT
1 AACCCCT
41282700 AACCCCT
1 AACCCCT
* *
41282707 AACTCAT
1 AACCCCT
41282714 AACCCCT
1 AACCCCT
*
41282721 AACACCT
1 AACCCCT
*
41282728 AACACCT
1 AACCCCT
41282735 AA
1 AA
41282737 ACCTTAAACC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:41282758 original size:21 final size:21
Alignment explanation
Indices: 41282734--41282779 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
41282724 ACCTAACACC
* *
41282734 TAAACCTTAAACCCCAACCCT
1 TAAACCATAAACCCCAAACCT
* *
41282755 TAAACCATAATCCCTAAACCT
1 TAAACCATAAACCCCAAACCT
41282776 TAAA
1 TAAA
41282780 ATAGTAACTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCCCAAACCT
Found at i:41283366 original size:41 final size:41
Alignment explanation
Indices: 41283303--41283528 Score: 337
Period size: 41 Copynumber: 5.5 Consensus size: 41
41283293 GTTATATGAC
* *
41283303 TTTTAGCGGCGTTTTACAAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
41283344 TTATAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
41283385 TTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
41283426 TTTTAGCTGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * *
41283467 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTATTTCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
41283507 TTTTAGCGGCGTTTTAGCAAAA
1 TTTTAGCGGCGTTTTACCAAAA
41283529 AATGTCGGTA
Statistics
Matches: 168, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 22 0.13
41 146 0.87
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:41283544 original size:123 final size:123
Alignment explanation
Indices: 41283303--41283562 Score: 344
Period size: 123 Copynumber: 2.1 Consensus size: 123
41283293 GTTATATGAC
* *
41283303 TTTTAGCGGCGTTTTACAAAAAGTGCCGCTAATGCTCTGGTTTATAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAGCGCCACTAATGCTCTGGTTTATAGCGGCGTTTTACCAAAAGC
* * *
41283368 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGG
66 GCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACAAAAAACGTCGCTAATGCTCTGGG
* * *
41283426 TTTTAGCTGCGTTTTACCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAGCGCCACTAATGCTCTGGTTTATAGCGGCGTTTTACCAAAAGC
* * * * * * ***
41283491 GCTGCTATTTCTCT-ATTTTTAGCGGCGTTTTAGCAAAAAATGTCGGTATTGCTC-CAT
66 GCCGCTAATGCTCTGATTTTTAGCGGCGTTTTA-CAAAAAACGTCGCTAATGCTCTGGG
41283548 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
41283563 TGGTAAAACG
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
122 31 0.26
123 87 0.74
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCACTAATGCTCTGGTTTATAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCTGATTTTTAGCGGCGTTTTACAAAAAACGTCGCTAATGCTCTGGG
Found at i:41283593 original size:41 final size:40
Alignment explanation
Indices: 41283303--41283593 Score: 150
Period size: 41 Copynumber: 7.1 Consensus size: 40
41283293 GTTATATGAC
** ** * *
41283303 TTTTAGCGGCGTTTTACAAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCT-AT
* *** * * *
41283344 TTATAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCT-AT
*** * * * **
41283385 TTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCT-AT
* *** * * * *
41283426 TTTTAGCTGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCT-AT
*** * * *
41283467 TTTTAGCGGCGTTTTACCAAAAGCGCTGCTATTTCTCTAT
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCTAT
* * * * *
41283507 TTTTAGCGGCGTTTTAGCAAAAAATGTCGGTATTGCTCCAT
1 TTTTAGCGGCGTTTTTG-AAAAAACGCCGCTATTGCTCTAT
**
41283548 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCTAT
41283588 GTTTTA
1 -TTTTA
41283594 CAATTTTTGC
Statistics
Matches: 216, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
40 34 0.16
41 182 0.84
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTGAAAAAACGCCGCTATTGCTCTAT
Found at i:41299057 original size:21 final size:20
Alignment explanation
Indices: 41299033--41299071 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41299023 TGAATTGATT
41299033 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
41299054 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
41299072 GTCAAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:41299502 original size:43 final size:39
Alignment explanation
Indices: 41299400--41299510 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 39
41299390 CATGAGAAAA
*
41299400 CGTGTAAGACCATTTTGGGACATTGGCATCGTATATGATT
1 CGTGTAAGACCATTCTGGGACA-TGGCATCGTATATGATT
* *
41299440 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA-T
1 CGTGTAAGACCAT-TCTGGGACA-TGGCATCG-TATATGATT
41299481 CGCATGTAAGACCATATCTGGGACATGGCA
1 CG--TGTAAGACCAT-TCTGGGACATGGCA
41299511 ATGTACGAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 12 0.20
41 19 0.31
42 11 0.18
43 19 0.31
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
CGTGTAAGACCATTCTGGGACATGGCATCGTATATGATT
Found at i:41301018 original size:22 final size:23
Alignment explanation
Indices: 41300965--41301020 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
41300955 GTTAGGAGTG
41300965 TTACAGTTTCAGCTCGTATGAGC
1 TTACAGTTTCAGCTCGTATGAGC
* *
41300988 TTGCTGTTT-AGCTCG-ATAGAGC
1 TTACAGTTTCAGCTCGTAT-GAGC
*
41301010 TTACCGTTTCA
1 TTACAGTTTCA
41301021 ATTTAATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 17 0.63
23 8 0.30
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (23 bp):
TTACAGTTTCAGCTCGTATGAGC
Found at i:41302637 original size:38 final size:38
Alignment explanation
Indices: 41302565--41302638 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
41302555 GATTCATTAG
**
41302565 CGTGGTGCTAAGTGGATATACCACGGTTAAACATATAA
1 CGTGGTGCTAAGTGGATATACCACGCATAAACATATAA
* *
41302603 CGTGGTGCTAAGTGGATATACCATGCATACACATAT
1 CGTGGTGCTAAGTGGATATACCACGCATAAACATAT
41302639 TGATACATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (38 bp):
CGTGGTGCTAAGTGGATATACCACGCATAAACATATAA
Found at i:41302685 original size:133 final size:132
Alignment explanation
Indices: 41302437--41302817 Score: 485
Period size: 133 Copynumber: 2.8 Consensus size: 132
41302427 AAAAACATGA
* * * *
41302437 TGCTAAGTGGATATACCACGGTTATACGTGTAACGTGCTGCTAAGTGGATATACCACGATTATAC
1 TGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGA-TACAC
* * *
41302502 ATATTGATACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAGCG
65 ATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACG
41302567 TGG
130 TGG
* *
41302570 TGCTAAGTGGATATACCACGGTTAAACATATAACGTGGTGCTAAGTGGATATACCATGCATACAC
1 TGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACG-ATACAC
* *
41302635 ATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCATGATTATATATATTGATTCATTAACG
65 ATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACG
41302700 TGG
130 TGG
* *
41302703 TGCTAAGTGGATATACCACGCATACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCC
1 TGCTAAGTGGATATACCACG-GT-----TA---A-ACATGTAACGTGGTGCTAAGTGGATATACC
* * * *
41302768 ACGGTTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGATATACCACG
56 AC-GATACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACG
41302818 GTTAAACATG
Statistics
Matches: 216, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
133 140 0.65
134 2 0.01
139 2 0.01
142 27 0.12
143 44 0.20
144 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (132 bp):
TGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGATACACA
TATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAACGT
GG
Found at i:41302763 original size:95 final size:95
Alignment explanation
Indices: 41302600--41302817 Score: 400
Period size: 95 Copynumber: 2.3 Consensus size: 95
41302590 GTTAAACATA
*
41302600 TAACGTGGTGCTAAGTGGATATACCATGCATACACATATTGATACATGTAACGTGGTGCTAAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGCATACACATATTGATACATGTAACGTGGTGCTAAGTG
* *
41302665 GATATGCCATGATTATATATATTGATTCAT
66 GATATGCCACGATTACATATATTGATTCAT
41302695 TAACGTGGTGCTAAGTGGATATACCACGCATACACATATTGATACATGTAACGTGGTGCTAAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGCATACACATATTGATACATGTAACGTGGTGCTAAGTG
*
41302760 GATATGCCACGGTTACATATATTGATTCAT
66 GATATGCCACGATTACATATATTGATTCAT
41302790 TAACGTGGTGCTAAGTGGATATACCACG
1 TAACGTGGTGCTAAGTGGATATACCACG
41302818 GTTAAACATG
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 119 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (95 bp):
TAACGTGGTGCTAAGTGGATATACCACGCATACACATATTGATACATGTAACGTGGTGCTAAGTG
GATATGCCACGATTACATATATTGATTCAT
Found at i:41302841 original size:38 final size:38
Alignment explanation
Indices: 41302790--41302866 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
41302780 ATTGATTCAT
*
41302790 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTAGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
41302828 TAACGTAGTGCTAAGTGGATATGCCACTGTTATACATG
1 TAACGTAGTGCTAAGTGGATATACCACGGTTAAACATG
41302866 T
1 T
41302867 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACGTAGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:41306473 original size:20 final size:20
Alignment explanation
Indices: 41306439--41306480 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
41306429 AAATATTTAA
** *
41306439 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
41306459 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
41306479 AT
1 AT
41306481 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:41309042 original size:30 final size:30
Alignment explanation
Indices: 41309008--41309067 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41308998 CTTTAATACG
*
41309008 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
41309038 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
41309068 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:41313028 original size:6 final size:6
Alignment explanation
Indices: 41313017--41313047 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
41313007 AAATTAACTT
41313017 AAAATG AAAATG AAAATG AAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG A-AAATG
41313048 CATATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:41317748 original size:44 final size:44
Alignment explanation
Indices: 41317670--41318404 Score: 390
Period size: 44 Copynumber: 16.5 Consensus size: 44
41317660 TTGCAATTTC
* * * *
41317670 AATCTACTCCACTACAACTTTA-AGGAAATAAGATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTT
* * * * * *
41317714 AATATGCTCTACTGAAACTTCAGAGAAATAAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * ** * * * *
41317758 ATTCTGCTCCATTATAACTTTA-AGGAGTTAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTG-TAGCTTT
* * * * * *
41317803 AATTTGCTCTACTGCAACTTTAGGGAGATAAAATTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * * * * *** *
41317847 AATTTTCTCTACTGCAACTTCAGGGAGATATGATTCACCACGACGAATTA
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT-TGTA-G-C---TTT
*** * * *
41317897 AATCCATTCCACTGCAACTTCAG-GGGTATAGGATTTGCTA-TTTT
1 AATCTGCTCCACTGCAACTTCAGAGAG-ATAAGATTTG-TAGCTTT
* * * * * *
41317941 CAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTATAACTTC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * * * *
41317986 AATCTACTCCACTGTAACTTTAGGGAGATAAGATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * * * *
41318030 AATCTGCTCTACTGCAACTTCAAAAAGATAAGATTTTCTA-TTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGTAGCTTT
* * * * * * *
41318074 CAGTCTACTACATTACAACTTCAGAGAGATAAGACTTGT-GACTTC
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG-CTTT
* * * * *
41318119 AA-CTTGCTCCACTGCAACTTTAGGGGGATAAGGTTTATAGCTTT
1 AATC-TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * * * * *
41318163 AATCTACTCTACTGCAACTTCAGAAAGATAAGATTTTCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGTAGCTTT
* * * * * *
41318208 AATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
* * *
41318252 AA-CTTGCTCCACTACAACTTCA-AGGAGATAAGGTTTATAGCTTT
1 AATC-TGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTT
* ** * * *
41318296 AATCTACTGTACTGCAACTTCAAAGAGATAAGATTTGTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAGCTTT
* * * *
41318341 AATTTACTCGACTGCAACTTCAGAGAGATAAGATTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
*
41318385 AATCTGCTCCACTACAACTT
1 AATCTGCTCCACTGCAACTT
41318405 TAAGGGGATA
Statistics
Matches: 517, Mismatches: 146, Indels: 56
0.72 0.20 0.08
Matches are distributed among these distances:
43 3 0.01
44 309 0.60
45 171 0.33
46 3 0.01
47 1 0.00
49 2 0.00
50 28 0.05
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTT
Found at i:41318094 original size:133 final size:133
Alignment explanation
Indices: 41317928--41318419 Score: 571
Period size: 133 Copynumber: 3.7 Consensus size: 133
41317918 AGGGGTATAG
* * * * * * * * *
41317928 GATTTGCTATTTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTATAACTTCAA-TCTA
1 GATTTTCTATCTTCAATCTACTACATTGCAACTTCAGAGAGATAAGACTTGTAACTTCAACT-TG
** *
41317992 CTCCACTGTAACTTTAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAAAAAG
65 CTCCACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAG
41318057 ATAA
130 ATAA
* * * *
41318061 GATTTTCTATTTTCAGTCTACTACATTACAACTTCAGAGAGATAAGACTTGTGACTTCAACTTGC
1 GATTTTCTATCTTCAATCTACTACATTGCAACTTCAGAGAGATAAGACTTGTAACTTCAACTTGC
* * * *
41318126 TCCACTGCAACTTTAGGGGGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAAAGA
66 TCCACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAGA
41318191 TAA
131 TAA
* * ** * *
41318194 GATTTTCTATCTTCAATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGC
1 GATTTTCTATCTTCAATCTACTACATTGCAACTTCAGAGAGATAAGACTTGTAACTTCAACTTGC
* * * * *
41318259 TCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTACTGTACTGCAACTTCAAAGAGA
66 TCCACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAGA
41318324 TAA
131 TAA
* * * ** *
41318327 GATTTGT-TATCTTCAATTTACT-CGACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTAA-TC
1 GATTT-TCTATCTTCAATCTACTAC-ATTGCAACTTCAGAGAGATAAGACTTGTAACTTCAACT-
41318389 TGCTCCACTACAACTTTAAGGG-GATAAGATT
63 TGCTCCACTACAACTTT-AGGGAGATAAGATT
41318420 CACCATGATA
Statistics
Matches: 309, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
132 2 0.01
133 302 0.98
134 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (133 bp):
GATTTTCTATCTTCAATCTACTACATTGCAACTTCAGAGAGATAAGACTTGTAACTTCAACTTGC
TCCACTACAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAGA
TAA
Done.