Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 10 of 82
Found at i:3245376 original size:2 final size:2
Alignment explanation
Indices: 3245369--3245415 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3245359 TTAATTACGG
3245369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3245411 AT AT A
1 AT AT A
3245416 NACAATATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3245485 original size:20 final size:21
Alignment explanation
Indices: 3245450--3245490 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3245440 TTTATATATA
* *
3245450 TTTTAATATTGCAAATTTATT
1 TTTTAATATTGAAAATCTATT
3245471 TTTTAATATT-AAAATCTATT
1 TTTTAATATTGAAAATCTATT
3245491 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTAATATTGAAAATCTATT
Found at i:3246993 original size:2 final size:2
Alignment explanation
Indices: 3246986--3247017 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3246976 TGATATCACA
3246986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3247018 GTTTATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3260201 original size:26 final size:26
Alignment explanation
Indices: 3260165--3260217 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3260155 GTAGCACAAC
3260165 CTCGTACAAAAACATTAATTCTGGAA
1 CTCGTACAAAAACATTAATTCTGGAA
3260191 CTCGTACAAAAACATTAATTCTGGAA
1 CTCGTACAAAAACATTAATTCTGGAA
3260217 C
1 C
3260218 ACAACCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (26 bp):
CTCGTACAAAAACATTAATTCTGGAA
Found at i:3261101 original size:30 final size:30
Alignment explanation
Indices: 3261065--3261134 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
3261055 AAATTAATAA
3261065 GTGGTAAGGTACCAAATGGTAAACCATGAC
1 GTGGTAAGGTACCAAATGGTAAACCATGAC
3261095 GTGGTAAGGTACCAAATGGTAAACCATGAC
1 GTGGTAAGGTACCAAATGGTAAACCATGAC
3261125 GTGGTAAGGT
1 GTGGTAAGGT
3261135 TTCAAACGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (30 bp):
GTGGTAAGGTACCAAATGGTAAACCATGAC
Found at i:3267252 original size:30 final size:30
Alignment explanation
Indices: 3267218--3267290 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
3267208 CAACATAATT
* *
3267218 TTTCGTTGAAAATACA-TCACCGATGGAAAA
1 TTTCGTTGAAAATACATTC-CCAACGGAAAA
* *
3267248 TTTCGTTGGAAAA-GCATTCCCAACGGAGAA
1 TTTCGTT-GAAAATACATTCCCAACGGAAAA
3267278 TTTCGTTGAAAAT
1 TTTCGTTGAAAAT
3267291 TTTCAATGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.14
30 24 0.67
31 7 0.19
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (30 bp):
TTTCGTTGAAAATACATTCCCAACGGAAAA
Found at i:3269804 original size:30 final size:30
Alignment explanation
Indices: 3269770--3269837 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
3269760 TTCATCTTTA
*
3269770 TCTTCAT-TGTCATCTCCTTCCATGTCATTT
1 TCTTCATCT-TCATCTCCTTCCATGTCATCT
* *
3269800 TCTTCATCTTCATCTCTTTGCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
3269830 TCTTCATC
1 TCTTCATC
3269838 CTCAATTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.13, C:0.31, G:0.06, T:0.50
Consensus pattern (30 bp):
TCTTCATCTTCATCTCCTTCCATGTCATCT
Found at i:3275185 original size:70 final size:70
Alignment explanation
Indices: 3274982--3275189 Score: 285
Period size: 69 Copynumber: 3.0 Consensus size: 70
3274972 AAGAAACAGA
* *
3274982 AAACAACCTCTGGTCTCGGCATAAGAAGGCTCGATTTGGGGAAAGTGAGCGACGCACCGAGAAGG
1 AAACAGCCTCTGGTCTCGGCATAAGAAGGCTCGATTTGGGGAAAGTGAGCGACGCACAGAGAAGG
*
3275047 GTAGC
66 GCAGC
* * * * *
3275052 AAACAGCTTCTGGTCTCGGCATAAGAAGAG--AGATTTAGGGAAAGTGAGCGACACACGGAGAAG
1 AAACAGCCTCTGGTCTCGGCATAAGAAG-GCTCGATTTGGGGAAAGTGAGCGACGCACAGAGAAG
3275115 GGCAGC
65 GGCAGC
* * * *
3275121 AAACAGCCTCTGGTCTGGGCACAAGAAGGCTCGATTTGGGGAAAGTAAGCGATGCACAGAGAAGG
1 AAACAGCCTCTGGTCTCGGCATAAGAAGGCTCGATTTGGGGAAAGTGAGCGACGCACAGAGAAGG
3275186 GCAG
66 GCAG
3275190 TTGTCACGAC
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
68 1 0.01
69 59 0.50
70 58 0.49
71 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.34, T:0.15
Consensus pattern (70 bp):
AAACAGCCTCTGGTCTCGGCATAAGAAGGCTCGATTTGGGGAAAGTGAGCGACGCACAGAGAAGG
GCAGC
Found at i:3277397 original size:14 final size:14
Alignment explanation
Indices: 3277357--3277400 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
3277347 TAATACATAA
3277357 AAATTAGTATATTTT
1 AAATTAGT-TATTTT
* *
3277372 -ATTTAATTATTTT
1 AAATTAGTTATTTT
3277385 AAATTAGTTATTTT
1 AAATTAGTTATTTT
3277399 AA
1 AA
3277401 GTAAGTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (14 bp):
AAATTAGTTATTTT
Found at i:3278692 original size:24 final size:24
Alignment explanation
Indices: 3278646--3278692 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
3278636 GTTTATTAGT
* * **
3278646 TTTAATTTTTTTGATAATTTTAAA
1 TTTAATTATTTGGATAAAATTAAA
3278670 TTTAATTATTTGGATAAAATTAA
1 TTTAATTATTTGGATAAAATTAA
3278693 GGTGTTACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTAATTATTTGGATAAAATTAAA
Found at i:3280847 original size:8 final size:8
Alignment explanation
Indices: 3280834--3280871 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
3280824 TTTCTTATCT
3280834 TTTTTATA
1 TTTTTATA
3280842 TTTTTATA
1 TTTTTATA
3280850 TTTTTATTA
1 TTTTTA-TA
*
3280859 TTATTATA
1 TTTTTATA
3280867 TTTTT
1 TTTTT
3280872 TCATAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:3280853 original size:17 final size:18
Alignment explanation
Indices: 3280823--3280872 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
3280813 TTATTATACC
*
3280823 ATTTCTTATCTTTTTTA-T
1 ATTT-TTATATTTTTTATT
3280841 ATTTTTATA-TTTTTATT
1 ATTTTTATATTTTTTATT
*
3280858 ATTATTATATTTTTT
1 ATTTTTATATTTTTT
3280873 CATAAGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.21
17 13 0.46
18 9 0.32
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTATATTTTTTATT
Found at i:3281057 original size:26 final size:26
Alignment explanation
Indices: 3281028--3281077 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3281018 TTAGTTGTTG
**
3281028 TTTTAGATTTTTTATTATTATTTATT
1 TTTTAGATCGTTTATTATTATTTATT
**
3281054 TTTTTTATCGTTTATTATTATTTA
1 TTTTAGATCGTTTATTATTATTTA
3281078 ATTGTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTAGATCGTTTATTATTATTTATT
Found at i:3281134 original size:21 final size:18
Alignment explanation
Indices: 3281095--3281154 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
3281085 TTTATATTGC
*
3281095 ATTTTTTATAAATTTATT
1 ATTTTTTATATATTTATT
3281113 ATTTTATTATATATTTGAATT
1 ATTTT-TTATATATTT--ATT
3281134 A-TTTTT-T-TATTTATT
1 ATTTTTTATATATTTATT
3281149 ATTTTT
1 ATTTTT
3281155 ATCCTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 5 0.14
18 6 0.16
19 11 0.30
20 3 0.08
21 4 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTTATATATTTATT
Found at i:3282183 original size:58 final size:58
Alignment explanation
Indices: 3282088--3282220 Score: 214
Period size: 58 Copynumber: 2.3 Consensus size: 58
3282078 GCAGCAAAAC
* * *
3282088 TCTCTCCTCTCTTCCCTGCGCTTTGCCAGCTTCCAACCCCCTTGGCGTCGATCGAGTG
1 TCTCCCCTCTCTTCCCTACGCTTTGCCAGCTTCCAACCCCCTTGGCGCCGATCGAGTG
*
3282146 TCTCCCCTCTCTTCCCTACGCTTTGCC-GACTTTCAACCCCCTTGGCGCCGATCGAGTG
1 TCTCCCCTCTCTTCCCTACGCTTTGCCAG-CTTCCAACCCCCTTGGCGCCGATCGAGTG
3282204 TCTCCCCTCTCTTCCCT
1 TCTCCCCTCTCTTCCCT
3282221 GCGCCGGATC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 1 0.01
58 69 0.99
ACGTcount: A:0.08, C:0.44, G:0.16, T:0.32
Consensus pattern (58 bp):
TCTCCCCTCTCTTCCCTACGCTTTGCCAGCTTCCAACCCCCTTGGCGCCGATCGAGTG
Found at i:3282308 original size:111 final size:111
Alignment explanation
Indices: 3282187--3282386 Score: 355
Period size: 111 Copynumber: 1.8 Consensus size: 111
3282177 TTCAACCCCC
* * *
3282187 TTGGCGCCGATCGAGTGTCTCCCCTCTCTTCCCTGCGCCGGATCTGGTGGCGCGACGGTCGGGCT
1 TTGGCGCCGATCGAGTGTCTCCCCTCTCTTACCTACGCCGGATCTGGTGGCGCGACGGTCGAGCT
3282252 TCCTCTCTCTCACTCTTCTCCTGCACTTTGTCGGCTTCCAATCCCT
66 TCCTCTCTCTCACTCTTCTCCTGCACTTTGTCGGCTTCCAATCCCT
* *
3282298 TTGGCGCCGATCGGGTGTCTCCCCTCTCTTACCTACGCCGGATCTGGTGGCGCGACGGTTGAGCT
1 TTGGCGCCGATCGAGTGTCTCCCCTCTCTTACCTACGCCGGATCTGGTGGCGCGACGGTCGAGCT
3282363 TCCTCTCTCTCACTCTTCTCCTGC
66 TCCTCTCTCTCACTCTTCTCCTGC
3282387 CTGCGTAAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.07, C:0.38, G:0.24, T:0.30
Consensus pattern (111 bp):
TTGGCGCCGATCGAGTGTCTCCCCTCTCTTACCTACGCCGGATCTGGTGGCGCGACGGTCGAGCT
TCCTCTCTCTCACTCTTCTCCTGCACTTTGTCGGCTTCCAATCCCT
Found at i:3304803 original size:27 final size:26
Alignment explanation
Indices: 3304759--3304809 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
3304749 ATGTACTGGT
*
3304759 GGTGGAAAATTACAATTTTGCCCTTG
1 GGTGGAAAATTACAATTTTACCCTTG
3304785 GGTGGCAAAATTATC-ATTTTACCCT
1 GGTGG-AAAATTA-CAATTTTACCCT
3304810 ATACTCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 16 0.73
28 1 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (26 bp):
GGTGGAAAATTACAATTTTACCCTTG
Found at i:3307504 original size:15 final size:15
Alignment explanation
Indices: 3307484--3307515 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3307474 TAATGTTATA
3307484 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
3307499 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
3307514 AT
1 AT
3307516 AATATATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:3309847 original size:2 final size:2
Alignment explanation
Indices: 3309842--3309883 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3309832 TTAATTTTTN
3309842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3309884 TTGACTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3319621 original size:21 final size:21
Alignment explanation
Indices: 3319596--3319671 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
3319586 TATAAAAATA
3319596 TATTACACGTTATAGTTAGAT
1 TATTACACGTTATAGTTAGAT
* * *
3319617 TATTACACGTCAT-GTATAAAAACA
1 TATTACACGTTATAGT-T--AGA-T
3319641 TATTACACGTTATAGTTAGAT
1 TATTACACGTTATAGTTAGAT
3319662 TATTACACGT
1 TATTACACGT
3319672 CATGTATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.05
21 23 0.52
22 2 0.05
23 2 0.05
24 13 0.30
25 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (21 bp):
TATTACACGTTATAGTTAGAT
Found at i:3319638 original size:45 final size:45
Alignment explanation
Indices: 3319574--3319719 Score: 213
Period size: 45 Copynumber: 3.2 Consensus size: 45
3319564 TATCATGATG
* *
3319574 TTACATGTCATGTATAAAAATATATTACACGTTATAGTTAGATTA
1 TTACACGTCATGTATAAAAACATATTACACGTTATAGTTAGATTA
3319619 TTACACGTCATGTATAAAAACATATTACACGTTATAGTTAGATTA
1 TTACACGTCATGTATAAAAACATATTACACGTTATAGTTAGATTA
* ** * *
3319664 TTACACGTCATGTATAAAAACATATGACATATCAT-GATTAAATTA
1 TTACACGTCATGTATAAAAACATATTACACGTTATAG-TTAGATTA
3319709 TTACACGTCAT
1 TTACACGTCAT
3319720 ATTGAAAAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 92 0.99
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (45 bp):
TTACACGTCATGTATAAAAACATATTACACGTTATAGTTAGATTA
Found at i:3319789 original size:29 final size:29
Alignment explanation
Indices: 3319705--3319790 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
3319695 TCATGATTAA
3319705 ATTATTACACGTCATATTGAAAAAAAAAATATT
1 ATTATTACACGTCATATT----AAAAAAATATT
* * * * * *
3319738 GTTATGACATGCCATGTTGAAAAAATATT
1 ATTATTACACGTCATATTAAAAAAATATT
*
3319767 ATTATTACACGTCATATTCAAAAA
1 ATTATTACACGTCATATTAAAAAA
3319791 CATTTTGTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
29 28 0.68
33 13 0.32
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (29 bp):
ATTATTACACGTCATATTAAAAAAATATT
Found at i:3321757 original size:20 final size:21
Alignment explanation
Indices: 3321717--3321758 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3321707 AAATATTATG
*
3321717 TAATAATATATAATATAAAAA
1 TAATAATATATAAAATAAAAA
*
3321738 TAAT-ATATATAAAATTAAAA
1 TAATAATATATAAAATAAAAA
3321758 T
1 T
3321759 TTAAGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATAATATATAAAATAAAAA
Found at i:3322074 original size:5 final size:5
Alignment explanation
Indices: 3322064--3322102 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
3322054 CAGGTAGCAG
*
3322064 GAAAA GAAAA GAAAA GAAAC GAAAA GAAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
3322103 GGGGAGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:3322089 original size:20 final size:20
Alignment explanation
Indices: 3322064--3322102 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3322054 CAGGTAGCAG
3322064 GAAAAGAAAAGAAAAGAAAC
1 GAAAAGAAAAGAAAAGAAAC
3322084 GAAAAGAAAAGAAAAGAAA
1 GAAAAGAAAAGAAAAGAAA
3322103 GGGGAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAGAAAAGAAAC
Found at i:3330771 original size:7 final size:7
Alignment explanation
Indices: 3330759--3330792 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3330749 GCATCCGCAT
*
3330759 GGCATTG
1 GGCATTA
3330766 GGCATTA
1 GGCATTA
3330773 GGCATTA
1 GGCATTA
*
3330780 GGCGTTA
1 GGCATTA
3330787 GGCATT
1 GGCATT
3330793 GGGTTACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (7 bp):
GGCATTA
Found at i:3330778 original size:14 final size:14
Alignment explanation
Indices: 3330759--3330795 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3330749 GCATCCGCAT
3330759 GGCATTGGGCATTA
1 GGCATTGGGCATTA
* *
3330773 GGCATTAGGCGTTA
1 GGCATTGGGCATTA
3330787 GGCATTGGG
1 GGCATTGGG
3330796 TTACTTCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.41, T:0.27
Consensus pattern (14 bp):
GGCATTGGGCATTA
Found at i:3331630 original size:2 final size:2
Alignment explanation
Indices: 3331623--3331648 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3331613 TTGTTCCTTT
3331623 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
3331649 GCCTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3337623 original size:19 final size:19
Alignment explanation
Indices: 3337573--3337623 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
3337563 ACTATTAAAC
* *
3337573 TGATTTTATAATTTCTTGT
1 TGATTTTATCATCTCTTGT
*
3337592 TGATTTTACCATCTCTTGT
1 TGATTTTATCATCTCTTGT
3337611 TGATTTTATCATC
1 TGATTTTATCATC
3337624 CTGCGTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.57
Consensus pattern (19 bp):
TGATTTTATCATCTCTTGT
Found at i:3344177 original size:17 final size:18
Alignment explanation
Indices: 3344155--3344197 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
3344145 GGCAAGAGGA
3344155 AATATTTA-GAATAAAAT
1 AATATTTATGAATAAAAT
*
3344172 AATATTTTTATTAATAAAAT
1 AATA--TTTATGAATAAAAT
3344192 AATATT
1 AATATT
3344198 AAAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 4 0.18
18 2 0.09
19 4 0.18
20 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTTATGAATAAAAT
Found at i:3345476 original size:2 final size:2
Alignment explanation
Indices: 3345469--3345506 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3345459 CATTATGATG
*
3345469 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3345507 GTTGTGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3345717 original size:40 final size:38
Alignment explanation
Indices: 3345624--3345729 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
3345614 ATAGTGCCCG
* *
3345624 TGTGCACGATGTGGGGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACCGAT
* * *
3345662 TGTGCACCATGTGGGGGGATGTATATGATGGCGCCGACT
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACCGA-T
3345701 ATGTGCACGATGTGGGGGGATGTACATGA
1 -TGTGCACGATGTGGGGGGATGTACATGA
3345730 GCCGGGTGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 32 0.54
39 1 0.02
40 26 0.44
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACCGAT
Found at i:3347952 original size:18 final size:18
Alignment explanation
Indices: 3347925--3347970 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
3347915 ACGCGTTTAC
*
3347925 TTAATTGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
3347943 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTGT
*
3347961 TTAAACGTGT
1 TTAATCGTGT
3347971 ATACGTGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (18 bp):
TTAATCGTGTTATCGTGT
Found at i:3348253 original size:9 final size:9
Alignment explanation
Indices: 3348241--3348270 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3348231 TTTAATCGTA
3348241 TTAAACGTG
1 TTAAACGTG
*
3348250 TTAATCGTG
1 TTAAACGTG
3348259 TTAAACGTG
1 TTAAACGTG
3348268 TTA
1 TTA
3348271 TTAATCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (9 bp):
TTAAACGTG
Found at i:3348281 original size:21 final size:18
Alignment explanation
Indices: 3348232--3348270 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
3348222 ATATTTTTAT
*
3348232 TTAATCGTATTAAACGTG
1 TTAATCGTGTTAAACGTG
3348250 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACGTG
3348268 TTA
1 TTA
3348271 TTAATCGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (18 bp):
TTAATCGTGTTAAACGTG
Found at i:3351081 original size:38 final size:40
Alignment explanation
Indices: 3350994--3351099 Score: 153
Period size: 38 Copynumber: 2.7 Consensus size: 40
3350984 CACACTCGGC
*
3350994 TCATGTACATCCCCCCACATCGTGCACATAGTCGGCGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
* * *
3351034 TCATATACATCCCCCCACATGGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
*
3351072 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
3351100 CGGGCACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 32 0.54
39 1 0.02
40 26 0.44
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.21
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
Found at i:3352309 original size:20 final size:20
Alignment explanation
Indices: 3352276--3352314 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3352266 TGTTGGAAGC
*
3352276 TTGAAGAATCTGCTGGAAAT
1 TTGAAGAATCTGCTAGAAAT
3352296 TTGAAGAAGT-TGCTAGAAA
1 TTGAAGAA-TCTGCTAGAAA
3352315 CTTGGATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (20 bp):
TTGAAGAATCTGCTAGAAAT
Found at i:3358080 original size:2 final size:2
Alignment explanation
Indices: 3358075--3358117 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3358065 TATAAACATT
3358075 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3358117 G
1 G
3358118 TAGTTGTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3362641 original size:22 final size:21
Alignment explanation
Indices: 3362615--3362656 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3362605 ACATAAAAAT
*
3362615 AAAATATTTATTTAAATTTTTA
1 AAAATAATT-TTTAAATTTTTA
*
3362637 AAAATAATTTTTGAATTTTT
1 AAAATAATTTTTAAATTTTT
3362657 TCGAACGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AAAATAATTTTTAAATTTTTA
Found at i:3368466 original size:26 final size:26
Alignment explanation
Indices: 3368437--3368745 Score: 311
Period size: 26 Copynumber: 12.7 Consensus size: 26
3368427 ATTGACTTTG
* *
3368437 GGCATTGCATGACTAATTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* * *
3368463 GGCATTGCATGACTAGTTTCTAATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
**
3368489 GGCATTGCGTGACT-GACTTTG----
1 GGCATTGCGTGACTAGTTTTTGATAA
3368510 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
*
3368536 GGCATTGCGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
3368562 GGCATTGCGTGACTAG---TTGAT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
**
3368584 GGCATTGCGTGACTA-ACTTTG----
1 GGCATTGCGTGACTAGTTTTTGATAA
3368605 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
3368631 AGCATTGCGTGACTAGTTTATGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
*
3368657 GACATTGCGTGACTAGTTTCTT-ATAA
1 GGCATTGCGTGACTAGTTT-TTGATAA
*
3368683 GGCATTGCATGACTAG---TTGAT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
3368705 GGCATTGCGTGACT--TGTTAG-TAA
1 GGCATTGCGTGACTAGTTTTTGATAA
3368728 GGCATTGCGTGACTAGTT
1 GGCATTGCGTGACTAGTT
3368746 AGTAAGGCAT
Statistics
Matches: 238, Mismatches: 24, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
21 29 0.12
22 42 0.18
23 23 0.10
24 3 0.01
25 4 0.02
26 136 0.57
27 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTGATAA
Found at i:3368509 original size:73 final size:73
Alignment explanation
Indices: 3368415--3368718 Score: 299
Period size: 73 Copynumber: 4.2 Consensus size: 73
3368405 ACTAGTTTTT
* * * * *
3368415 AGGCATTACATGATTGACTTTGGGCATTGCATGACTAATTTTTGATAAGGCATTGCATGACTAGT
1 AGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTAGT
*
3368480 TTCTAATA
66 TTCTGATA
*
3368488 AGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGT
1 AGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTAGT
3368553 TTCTGATA
66 TTCTGATA
* * *
3368561 AGGCATTGCGTGACT-AGTTGATAGGCATTGCGTGACTAA-CTTTG----GGCATTGCGTGACTA
1 AGGCATTGCGTGACTGACTT--TGGGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTA
*
3368620 GTTTTTGATA
64 GTTTCTGATA
* * * * *
3368630 AAGCATTGCGTGACT-AGTTTATGATAAGACATTGCGTGACTAGTTTCTT-ATAAGGCATTGCAT
1 AGGCATTGCGTGACTGA-CTT-TG----GGCATTGCGTGACTAATTT-TTGATAAGGCATTGCGT
3368693 GACTAG--T-TGAT-
59 GACTAGTTTCTGATA
3368704 AGGCATTGCGTGACT
1 AGGCATTGCGTGACT
3368719 TGTTAGTAAG
Statistics
Matches: 198, Mismatches: 20, Indels: 25
0.81 0.08 0.10
Matches are distributed among these distances:
69 41 0.21
70 2 0.01
72 3 0.02
73 99 0.50
74 31 0.16
75 6 0.03
76 1 0.01
78 15 0.08
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (73 bp):
AGGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTTTGATAAGGCATTGCGTGACTAGT
TTCTGATA
Found at i:3368514 original size:47 final size:46
Alignment explanation
Indices: 3368463--3368742 Score: 243
Period size: 47 Copynumber: 5.9 Consensus size: 46
3368453 TTTTTGATAA
* * *
3368463 GGCATTGCATGACTAGTTTCTAATAAGGCATTGCGTGACTGACTTTG
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACT-ACTTTG
*
3368510 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTG
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA-CTT-TG
3368558 ATAAGGCATTGCGTGACTAG---TTGAT-AGGCATTGCGTGACTAACTTTG
1 ----GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACT-ACTTTG
* *
3368605 GGCATTGCGTGACTAGTTTTTGATAAAGCATTGCGTGACTAGTTTATG
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA-CTT-TG
* * * *
3368653 ATAAGACATTGCGTGACTAGTTTCTT-ATAAGGCATTGCATGACTAGTTGATA
1 ----GGCATTGCGTGACTAGTTT-TTGATAAGGCATTGCGTGACTACTT--TG
* *
3368705 GGCATTGCGTGACT--TGTTAG-TAAGGCATTGCGTGACTA
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA
3368743 GTTAGTAAGG
Statistics
Matches: 197, Mismatches: 16, Indels: 42
0.77 0.06 0.16
Matches are distributed among these distances:
43 16 0.08
45 18 0.09
46 9 0.05
47 57 0.29
48 34 0.17
49 6 0.03
51 2 0.01
52 53 0.27
53 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (46 bp):
GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTACTTTG
Found at i:3368620 original size:95 final size:97
Alignment explanation
Indices: 3368437--3368764 Score: 404
Period size: 95 Copynumber: 3.4 Consensus size: 97
3368427 ATTGACTTTG
* * * *
3368437 GGCATTGCATGACTAATTTTTGATAAGGCATTGCATGACTAGTTTCTAATAAGGCATTGCGTGAC
1 GGCATTGCGTGACTAGTTTATGATAAGGCATTGCGTGACTAG-TTCTAATAAGGCATTGCGTGAC
3368502 TGACTTTGGGCATTGCGTGACTAGTTTTTGATAA
65 T-ACTTTGGGCATTGCGTGACTAGTTTTTGATAA
* *
3368536 GGCATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAG-T-TGAT-AGGCATTGCGTGACT
1 GGCATTGCGTGACTAGTTTATGATAAGGCATTGCGTGACTAGTTCTAATAAGGCATTGCGTGACT
3368598 AACTTTGGGCATTGCGTGACTAGTTTTTGATAA
66 -ACTTTGGGCATTGCGTGACTAGTTTTTGATAA
* * * *
3368631 AGCATTGCGTGACTAGTTTATGATAAGACATTGCGTGACTAGTTTCTTATAAGGCATTGCATGAC
1 GGCATTGCGTGACTAGTTTATGATAAGGCATTGCGTGACTAG-TTCTAATAAGGCATTGCGTGAC
* * * *
3368696 TAGTTGATAGGCATTGCGTGACT--TGTTAG-TAA
65 TACTT--TGGGCATTGCGTGACTAGTTTTTGATAA
*
3368728 GGCATTGCGTGACTAG-TTA-G-TAAGGCATTGTGTGACT
1 GGCATTGCGTGACTAGTTTATGATAAGGCATTGCGTGACT
3368765 TAGGTATTAC
Statistics
Matches: 205, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
94 15 0.07
95 87 0.42
96 6 0.03
97 20 0.10
98 10 0.05
99 52 0.25
100 15 0.07
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (97 bp):
GGCATTGCGTGACTAGTTTATGATAAGGCATTGCGTGACTAGTTCTAATAAGGCATTGCGTGACT
ACTTTGGGCATTGCGTGACTAGTTTTTGATAA
Found at i:3368803 original size:21 final size:22
Alignment explanation
Indices: 3368778--3368854 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
3368768 GTATTACTTA
*
3368778 AAAATC-AGTCACGTAATGTCT
1 AAAATCTAGTCACGTAATGACT
* *
3368799 AAAATCTAGTCACGTACTGCCT
1 AAAATCTAGTCACGTAATGACT
*
3368821 AAAATC-AATCACGTAATGACT
1 AAAATCTAGTCACGTAATGACT
*
3368842 AAAAACTAGTCAC
1 AAAATCTAGTCAC
3368855 ACGATGATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 23 0.49
22 24 0.51
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (22 bp):
AAAATCTAGTCACGTAATGACT
Found at i:3374005 original size:45 final size:45
Alignment explanation
Indices: 3373873--3374023 Score: 142
Period size: 45 Copynumber: 3.4 Consensus size: 45
3373863 AGTTTGCAGG
* * * ** * *
3373873 GCATTGCGTCATTGGTTTTTAGGCATTATGTGATTGTTTGATACA
1 GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGCTTGATAGA
* * ** * *
3373918 ACATTACGTGATTGATTTTTTGTTATTGCATGATTGCTTGATAGG
1 GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGCTTGATAGA
**
3373963 GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGGATGATA-A
1 GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGCTTGATAGA
* *
3374007 GCATTGCGTGACTGATT
1 GCATTACGTGATTGATT
3374024 GATAGGACAT
Statistics
Matches: 83, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 15 0.18
45 68 0.82
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (45 bp):
GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGCTTGATAGA
Found at i:3374026 original size:67 final size:68
Alignment explanation
Indices: 3373955--3374085 Score: 165
Period size: 67 Copynumber: 1.9 Consensus size: 68
3373945 GCATGATTGC
* * * * * *
3373955 TTGATAGGGCATTACGTGATTGATTTTTAGGCATTGCGTGATTGGATGATAA-GCATTGCGTGAC
1 TTGATAGGACATTACATGACTGATTTTTAGGCATTGCATGACTGCATGATAAGGCATTGCGTGAC
3374019 TGA
66 TGA
** * *
3374022 TTGATAGGACATTGTATGACTGGTTTTTAGGCATTGCATGACTGCTTGATAAGGCATTGCGTGA
1 TTGATAGGACATTACATGACTGATTTTTAGGCATTGCATGACTGCATGATAAGGCATTGCGTGA
3374086 TTGGATTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
67 42 0.79
68 11 0.21
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (68 bp):
TTGATAGGACATTACATGACTGATTTTTAGGCATTGCATGACTGCATGATAAGGCATTGCGTGAC
TGA
Found at i:3374035 original size:45 final size:43
Alignment explanation
Indices: 3373963--3374108 Score: 130
Period size: 45 Copynumber: 3.3 Consensus size: 43
3373953 GCTTGATAGG
* * ** *
3373963 GCATTACGTGATTGATTTTTAGGCATTGCGTGATTGGATGATAA
1 GCATTGCGTGACTGATTGATAGGCATTGCGTGATTGGAT-TTAA
** * * *
3374007 GCATTGCGTGACTGATTGATAGGACATTGTATGACTGGTTTTTAG
1 GCATTGCGTGACTGATTGATAGG-CATTGCGTGATTGG-ATTTAA
* * *
3374052 GCATTGCATGACTGCTTGATAAGGCATTGCGTGATTGGATTTTA
1 GCATTGCGTGACTGATTGAT-AGGCATTGCGTGATTGGATTTAA
3374096 GTCATTGCGTGAC
1 G-CATTGCGTGAC
3374109 CTATATTAAG
Statistics
Matches: 79, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
44 23 0.29
45 52 0.66
46 4 0.05
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (43 bp):
GCATTGCGTGACTGATTGATAGGCATTGCGTGATTGGATTTAA
Found at i:3374041 original size:23 final size:22
Alignment explanation
Indices: 3373942--3374081 Score: 93
Period size: 22 Copynumber: 6.2 Consensus size: 22
3373932 ATTTTTTGTT
* *
3373942 ATTGCATGATTGCTTGATAGGGC
1 ATTGCATGACTGATTGATA-GGC
* * * **
3373965 ATTACGTGATTGATTTTTAGGC
1 ATTGCATGACTGATTGATAGGC
* * *
3373987 ATTGCGTGATTGGA-TGATAAGC
1 ATTGCATGACT-GATTGATAGGC
*
3374009 ATTGCGTGACTGATTGATAGGAC
1 ATTGCATGACTGATTGATAGG-C
* * **
3374032 ATTGTATGACTGGTTTTTAGGC
1 ATTGCATGACTGATTGATAGGC
*
3374054 ATTGCATGACTGCTTGATAAGGC
1 ATTGCATGACTGATTGAT-AGGC
3374077 ATTGC
1 ATTGC
3374082 GTGATTGGAT
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
21 2 0.02
22 49 0.53
23 42 0.45
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (22 bp):
ATTGCATGACTGATTGATAGGC
Found at i:3375899 original size:58 final size:58
Alignment explanation
Indices: 3375833--3375946 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
3375823 TTGTGGTTCA
*
3375833 TATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTGTTCG-AGGTTGTGTCTCCACCC
1 TATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATT-GAAGGTTGTGTCTCCACCC
*
3375891 TATTTTATTGTTAGTGGTAGTTTTCTATTTCATGTTATTGAAGGTTGTGTCTCCAC
1 TATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGAAGGTTGTGTCTCCAC
3375947 TTTTCCACTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (58 bp):
TATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGAAGGTTGTGTCTCCACCC
Found at i:3382070 original size:58 final size:58
Alignment explanation
Indices: 3381980--3382096 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
3381970 CATTGTGGTT
* *
3381980 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTGTTGGAGGTTGTGTCTCCAC
1 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGAAGGTTGTGTCTCCAC
*
3382038 CCTATTTTATTGTTAGTGGTAGTTTTCTATTTCATGTTATTGAAGGTTGTGTCTCCAC
1 CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGAAGGTTGTGTCTCCAC
3382096 C
1 C
3382097 TTTCCACTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (58 bp):
CCTATTTTATTGTTAGTGGTAGTTTTCCATTTCATGTTATTGAAGGTTGTGTCTCCAC
Found at i:3389265 original size:28 final size:28
Alignment explanation
Indices: 3389234--3389311 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
3389224 TCCTGATGGT
3389234 GGAAAATTATAATTTTGCCCCTGAGGAG
1 GGAAAATTATAATTTTGCCCCTGAGGAG
*
3389262 GGAAAATTATAATTTTGCCCCTGAGGTG
1 GGAAAATTATAATTTTGCCCCTGAGGAG
* * *
3389290 GCAAAATTATCATTTTACCCCT
1 GGAAAATTATAATTTTGCCCCT
3389312 ATACTCCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (28 bp):
GGAAAATTATAATTTTGCCCCTGAGGAG
Found at i:3389381 original size:20 final size:20
Alignment explanation
Indices: 3389356--3389401 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
3389346 CTTCTAAACC
3389356 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
3389376 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
3389396 TCAAAT
1 TCAAAT
3389402 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:3398508 original size:14 final size:15
Alignment explanation
Indices: 3398482--3398512 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3398472 ATGTTCTTAA
3398482 AAAAAGTCAAAACTC
1 AAAAAGTCAAAACTC
3398497 AAAAAGTC-AAACTC
1 AAAAAGTCAAAACTC
3398511 AA
1 AA
3398513 TCTATCGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAAAGTCAAAACTC
Found at i:3403822 original size:40 final size:40
Alignment explanation
Indices: 3403767--3403846 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
3403757 CTACAAACAA
*
3403767 GTCACGCAATGCTCAACAAATATTCAGTCACATAATGCCT
1 GTCACGCAACGCTCAACAAATATTCAGTCACATAATGCCT
*
3403807 GTCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCT
1 GTCACGCAACGCTCAACAAATATTCAGTCACATAATGCCT
3403847 ATAAACAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.24
Consensus pattern (40 bp):
GTCACGCAACGCTCAACAAATATTCAGTCACATAATGCCT
Found at i:3403890 original size:26 final size:26
Alignment explanation
Indices: 3403807--3403890 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
3403797 CATAATGCCT
* * *
3403807 GTCACGCAACGCTCAACAAATATTCA
1 GTCACGTAATGCTTAACAAATATTCA
* * *
3403833 GTCACGTAATGCCT-ATAAACA---A
1 GTCACGTAATGCTTAACAAATATTCA
3403855 GTCACGTAATGCTTAACAAATATTCA
1 GTCACGTAATGCTTAACAAATATTCA
3403881 GTCACGTAAT
1 GTCACGTAAT
3403891 ATTTAGGCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
22 14 0.31
23 5 0.11
25 5 0.11
26 21 0.47
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (26 bp):
GTCACGTAATGCTTAACAAATATTCA
Found at i:3407943 original size:78 final size:78
Alignment explanation
Indices: 3407814--3408127 Score: 628
Period size: 78 Copynumber: 4.0 Consensus size: 78
3407804 AGCTTTTATA
3407814 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
1 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
3407879 TGGCAATTTGTTC
66 TGGCAATTTGTTC
3407892 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
1 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
3407957 TGGCAATTTGTTC
66 TGGCAATTTGTTC
3407970 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
1 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
3408035 TGGCAATTTGTTC
66 TGGCAATTTGTTC
3408048 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
1 ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
3408113 TGGCAATTTGTTC
66 TGGCAATTTGTTC
3408126 AT
1 AT
3408128 TTTCTATCCT
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 236 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (78 bp):
ATAATAATAATAATGGAAGAACACATGTTTATAGTACAGCAATCGTGTCTTGCTATCCTTTAATT
TGGCAATTTGTTC
Found at i:3409342 original size:170 final size:170
Alignment explanation
Indices: 3409009--3409351 Score: 462
Period size: 170 Copynumber: 2.0 Consensus size: 170
3408999 TTCTCATAAG
*
3409009 ATTATGTTTATTTGACTTAAGTGACTTGTTACGTTAAATCTATCACATTTACATCAATATTTTGT
1 ATTATGTTTATTTGACTTAAGTGACTTGTTACGTTAAATCTATCACATTTACATCAATATTTTGA
* * * * * *
3409074 CAATAGTTATTCCACTTTTATAATTTTTATGTTAATTTTTACACATGTTTATGTCAAGATTTTTC
66 CAATACTTATTACACATTTATAATTTTTATATTAATTCTTACACATGTTTACGTCAAGATTTTTC
3409139 AACTACTAATTTTCAATATAATTATTTTATCTTTACTATT
131 AACTACTAATTTTCAATATAATTATTTTATCTTTACTATT
* * * *
3409179 NATTATTTTTATTTGACTTAATTGACTTGTTATGTTAAATCTCAT-A-ATTTACGTCAATATTTT
1 -ATTATGTTTATTTGACTTAAGTGACTTGTTACGTTAAATCT-ATCACATTTACATCAATATTTT
* *
3409242 GACAATACTTGTTACTCATTTATAATTTTTGATATTAATTCTTACA-AT-TTTACGTCAA-AGTT
64 GACAATACTTATTACACATTTATAATTTTT-ATATTAATTCTTACACATGTTTACGTCAAGA-TT
* * *
3409304 TTTCAACTATTACTTTTCACTATAATTATTTTTATCTTTACTATT
127 TTTCAACTACTAATTTTCAATATAATTA-TTTTATCTTTACTATT
3409349 ATT
1 ATT
3409352 TCATAGAAAT
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
168 1 0.01
169 39 0.26
170 58 0.38
171 52 0.34
172 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.51
Consensus pattern (170 bp):
ATTATGTTTATTTGACTTAAGTGACTTGTTACGTTAAATCTATCACATTTACATCAATATTTTGA
CAATACTTATTACACATTTATAATTTTTATATTAATTCTTACACATGTTTACGTCAAGATTTTTC
AACTACTAATTTTCAATATAATTATTTTATCTTTACTATT
Found at i:3409567 original size:23 final size:23
Alignment explanation
Indices: 3409539--3409586 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3409529 GTTTGAAGTA
*
3409539 TTTAACAGTTTACAAATTTTAAT
1 TTTAACAATTTACAAATTTTAAT
*
3409562 TTTAACAATTTATAAATTTTAAT
1 TTTAACAATTTACAAATTTTAAT
3409585 TT
1 TT
3409587 ATAAAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTAACAATTTACAAATTTTAAT
Found at i:3412744 original size:98 final size:98
Alignment explanation
Indices: 3412575--3412769 Score: 300
Period size: 98 Copynumber: 2.0 Consensus size: 98
3412565 GGCTGTTCTT
* ** *
3412575 GGCGTGTCGTGGATTAACTAGATTTATGGGTTTTTGGCGTGTCACGGTTGTTCCTAGCATGTTGT
1 GGCGTGTCGTGGATTAACTAGATTTATGGGTTTTTGGCGAGTCACGACTGTTCCTAGCATGTCGT
3412640 GGGTTAATTGGTTTTTTGGGTTTTGGGCGTGTC
66 GGGTTAATTGGTTTTTTGGGTTTTGGGCGTGTC
* * * * * *
3412673 GGCGTGTTGTGGGTTAACTGGATTTATGGGTTTTTGGTGAGTCATGACTGTTCCTAGCTTGTCGT
1 GGCGTGTCGTGGATTAACTAGATTTATGGGTTTTTGGCGAGTCACGACTGTTCCTAGCATGTCGT
3412738 GGGTTAATTGGTTTTTTGGGTTTTGGGCGTGT
66 GGGTTAATTGGTTTTTTGGGTTTTGGGCGTGT
3412770 TATGGCTATT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.11, C:0.10, G:0.35, T:0.44
Consensus pattern (98 bp):
GGCGTGTCGTGGATTAACTAGATTTATGGGTTTTTGGCGAGTCACGACTGTTCCTAGCATGTCGT
GGGTTAATTGGTTTTTTGGGTTTTGGGCGTGTC
Found at i:3412782 original size:55 final size:55
Alignment explanation
Indices: 3412676--3412816 Score: 140
Period size: 55 Copynumber: 2.6 Consensus size: 55
3412666 GCGTGTCGGC
* * * * * * *
3412676 GTGTTGTGGGTTAACTGGATTTATGGGTTTTTGGTGAGTCATGACTGTTCCTAGCT
1 GTGTCGTGGGTTAATTGGTTTTTTGGGTTTTGGGCGAGTCATGACTATTCCT-GCT
* * * *
3412732 -TGTCGTGGGTTAATTGGTTTTTTGGGTTTTGGGCGTGTTATGGCTATTCCTGGT
1 GTGTCGTGGGTTAATTGGTTTTTTGGGTTTTGGGCGAGTCATGACTATTCCTGCT
* * *
3412786 GTGTTGTGGGTAAATTTGTTTTTTGGGTTTT
1 GTGTCGTGGGTTAATTGGTTTTTTGGGTTTT
3412817 TAGCGTGTCA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
54 2 0.03
55 68 0.97
ACGTcount: A:0.11, C:0.08, G:0.33, T:0.48
Consensus pattern (55 bp):
GTGTCGTGGGTTAATTGGTTTTTTGGGTTTTGGGCGAGTCATGACTATTCCTGCT
Found at i:3412894 original size:23 final size:23
Alignment explanation
Indices: 3412863--3412923 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
3412853 TTACAGTGAT
*
3412863 TGGCGTGTCACGACAGTAATGCA
1 TGGCGTGTCACGACACTAATGCA
* * *
3412886 TGGCATGTCACGATACTGATGCA
1 TGGCGTGTCACGACACTAATGCA
*
3412909 TGACGTGTCACGACA
1 TGGCGTGTCACGACA
3412924 TTTGACTTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (23 bp):
TGGCGTGTCACGACACTAATGCA
Found at i:3419052 original size:22 final size:21
Alignment explanation
Indices: 3419027--3419068 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3419017 ACCTTTTTTT
*
3419027 CACTTGTTTCCTTGAATTTTCA
1 CACTT-TTCCCTTGAATTTTCA
3419049 CACTTTTCCCTTGAATTTTC
1 CACTTTTCCCTTGAATTTTC
3419069 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.17, C:0.26, G:0.07, T:0.50
Consensus pattern (21 bp):
CACTTTTCCCTTGAATTTTCA
Found at i:3420811 original size:31 final size:31
Alignment explanation
Indices: 3420776--3420975 Score: 247
Period size: 31 Copynumber: 6.5 Consensus size: 31
3420766 AATAAGGAAT
* *
3420776 AAATGTTGTGACACGTCATGCATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
3420807 AAATGTTCTGACACGCCATGGATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
3420838 AAATGTTCTGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
3420869 AAACGTTGTGACACGCCATGCATGACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
3420900 AAACGTTGTGACATGCCATGCATGACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
3420931 AATTGTTCTAACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
3420962 AAATGTTGTCACAC
1 AAATGTTGTGACAC
3420976 ACCAACACTG
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 149 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.23
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:3423201 original size:31 final size:31
Alignment explanation
Indices: 3423163--3423441 Score: 319
Period size: 31 Copynumber: 8.7 Consensus size: 31
3423153 AATAAGGAAT
3423163 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGCA
*
3423194 AAATGTTGTGACACGCCATGCATAGCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGCA
* * *
3423225 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGCA
* *
3423256 AAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGCA
* *
3423287 AAATGTTGTGAAACGCCATGCATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGCA
*
3423318 AAATGTTGTGACACGCCATGCACGCCATGCATAGTAAGCA
1 AAATGTTGT-----G--A--CACGCCATGCATAGCAAGCA
* * *
3423358 ACATGTTGTGACACGCCATACATATCAAGTC-
1 AAATGTTGTGACACGCCATGCATAGCAAG-CA
* *
3423389 AAATGTTGTGACACGCCATGCATATCGAGTC-
1 AAATGTTGTGACACGCCATGCATAGCAAG-CA
3423420 AAATGTTGTGACACGCCATGCA
1 AAATGTTGTGACACGCCATGCA
3423442 AATCGAGTCA
Statistics
Matches: 220, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
31 190 0.86
32 1 0.00
33 1 0.00
35 1 0.00
36 1 0.00
38 1 0.00
40 25 0.11
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAGCAAGCA
Found at i:3423260 original size:62 final size:62
Alignment explanation
Indices: 3423163--3423466 Score: 367
Period size: 62 Copynumber: 4.8 Consensus size: 62
3423153 AATAAGGAAT
* *
3423163 AAATGTTGTGACACGCCATGCATAGCAAGCAAAATGTTGTGACACGCCATGCATAGCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAGCAAGTA
* *
3423225 AAATGTTGTGACATGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
3423287 AAATGTTGTGAAACGCCATGCATAACAAGCAAAATGTTGTGACACGCCATGCACGCCATGCATAG
1 AAATGTTGTGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCA---TA-GCA-AG
3423352 TAA
61 T-A
* * * * * *
3423355 GCAACATGTTGTGACACGCCATACATATCAAGTCAAATGTTGTGACACGCCATGCATATCGAGTC
1 --AA-ATGTTGTGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
3423420 AAATGTTGTGACACGCCATGCA-AATCGAGTCAAATGTTGTCACACGC
1 AAATGTTGTGACACGCCATGCATAA-CAAGTAAAATGTTGTGACACGC
3423467 TAACAATGCA
Statistics
Matches: 210, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
61 1 0.00
62 147 0.70
63 2 0.01
65 1 0.00
66 5 0.02
67 4 0.02
68 2 0.01
70 2 0.01
71 46 0.22
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (62 bp):
AAATGTTGTGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAGCAAGTA
Found at i:3423357 original size:40 final size:40
Alignment explanation
Indices: 3423299--3423376 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
3423289 ATGTTGTGAA
3423299 ACGCCATGCATAACAAGCAAAATGTTGTGACACGCCATGC
1 ACGCCATGCATAACAAGCAAAATGTTGTGACACGCCATGC
** *
3423339 ACGCCATGCATAGTAAGCAACATGTTGTGACACGCCAT
1 ACGCCATGCATAACAAGCAAAATGTTGTGACACGCCAT
3423377 ACATATCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (40 bp):
ACGCCATGCATAACAAGCAAAATGTTGTGACACGCCATGC
Found at i:3423364 original size:71 final size:71
Alignment explanation
Indices: 3423267--3423410 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 71
3423257 AATGTTGTGA
* *
3423267 CACGCCATGCATATCAAGTAAAATGTTGTGAAACGCCATGCATAACAAG-CAAAATGTTGTGACA
1 CACGCCATGCATATCAAGCAAAATGTTGTGAAACGCCATACATAACAAGTC-AAATGTTGTGACA
3423331 CGCCATG
65 CGCCATG
* * *
3423338 CACGCCATGCATAGT-AAGCAACATGTTGTGACACGCCATACATATCAAGTCAAATGTTGTGACA
1 CACGCCATGCATA-TCAAGCAAAATGTTGTGAAACGCCATACATAACAAGTCAAATGTTGTGACA
3423402 CGCCATG
65 CGCCATG
3423409 CA
1 CA
3423411 TATCGAGTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
71 64 0.97
72 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (71 bp):
CACGCCATGCATATCAAGCAAAATGTTGTGAAACGCCATACATAACAAGTCAAATGTTGTGACAC
GCCATG
Found at i:3423393 original size:133 final size:133
Alignment explanation
Indices: 3423205--3423466 Score: 384
Period size: 133 Copynumber: 2.0 Consensus size: 133
3423195 AATGTTGTGA
* * *
3423205 CACGCCATGCATAGCAAGTAAAATGTTGTGACATGCCATGCATAACAAGTAAAATGTTGTGACAC
1 CACGCCATGCATAGCAAGCAAAATGTTGTGACACGCCATACATAACAAGTAAAATGTTGTGACAC
*
3423270 GCCATGCATATCAAGTAAAATGTTGTGAAACGCCATGCATAA-CAAG-CAAAATGTTGTGACACG
66 GCCATGCATATCAAGTAAAATGTTGTGAAACGCCATGCA-AATCAAGTC-AAATGTTGTCACACG
3423333 CCATG
129 CCATG
* * * *
3423338 CACGCCATGCATAGTAAGCAACATGTTGTGACACGCCATACATATCAAGTCAAATGTTGTGACAC
1 CACGCCATGCATAGCAAGCAAAATGTTGTGACACGCCATACATAACAAGTAAAATGTTGTGACAC
* * * *
3423403 GCCATGCATATCGAGTCAAATGTTGTGACACGCCATGCAAATCGAGTCAAATGTTGTCACACGC
66 GCCATGCATATCAAGTAAAATGTTGTGAAACGCCATGCAAATCAAGTCAAATGTTGTCACACGC
3423467 TAACAATGCA
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
132 2 0.02
133 112 0.97
134 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (133 bp):
CACGCCATGCATAGCAAGCAAAATGTTGTGACACGCCATACATAACAAGTAAAATGTTGTGACAC
GCCATGCATATCAAGTAAAATGTTGTGAAACGCCATGCAAATCAAGTCAAATGTTGTCACACGCC
ATG
Found at i:3423424 original size:102 final size:102
Alignment explanation
Indices: 3423239--3423441 Score: 309
Period size: 102 Copynumber: 2.0 Consensus size: 102
3423229 GTTGTGACAT
* *
3423239 GCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATATCAAGTAAAATGTTGTGAAACGCC
1 GCCATGCATAACAAGCAAAATGTTGTGACACGCCATACATATCAAGTAAAATGTTGTGAAACGCC
3423304 ATGCATAACAAGCAAAATGTTGTGACACGCCATGCAC
66 ATGCATAACAAGCAAAATGTTGTGACACGCCATGCAC
** * * *
3423341 GCCATGCATAGTAAGCAACATGTTGTGACACGCCATACATATCAAGTCAAATGTTGTGACACGCC
1 GCCATGCATAACAAGCAAAATGTTGTGACACGCCATACATATCAAGTAAAATGTTGTGAAACGCC
* *
3423406 ATGCATATCGAGTC-AAATGTTGTGACACGCCATGCA
66 ATGCATAACAAG-CAAAATGTTGTGACACGCCATGCA
3423442 AATCGAGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 90 0.99
103 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (102 bp):
GCCATGCATAACAAGCAAAATGTTGTGACACGCCATACATATCAAGTAAAATGTTGTGAAACGCC
ATGCATAACAAGCAAAATGTTGTGACACGCCATGCAC
Found at i:3423447 original size:31 final size:31
Alignment explanation
Indices: 3423338--3423466 Score: 181
Period size: 31 Copynumber: 4.2 Consensus size: 31
3423328 ACACGCCATG
*
3423338 CACGCCATGCATAGT-AAG-CAACATGTTGTGA
1 CACGCCATGCATA-TCGAGTCAA-ATGTTGTGA
* *
3423369 CACGCCATACATATCAAGTCAAATGTTGTGA
1 CACGCCATGCATATCGAGTCAAATGTTGTGA
3423400 CACGCCATGCATATCGAGTCAAATGTTGTGA
1 CACGCCATGCATATCGAGTCAAATGTTGTGA
* *
3423431 CACGCCATGCAAATCGAGTCAAATGTTGTCA
1 CACGCCATGCATATCGAGTCAAATGTTGTGA
3423462 CACGC
1 CACGC
3423467 TAACAATGCA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 1 0.01
31 87 0.96
32 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (31 bp):
CACGCCATGCATATCGAGTCAAATGTTGTGA
Found at i:3423976 original size:29 final size:29
Alignment explanation
Indices: 3423934--3423993 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
3423924 GTCAGCTATT
*
3423934 CAAGCAATGCCGTGTCACGCACTCTAAAC
1 CAAGCAATGCCGTGTCACACACTCTAAAC
3423963 CAAGCAATGCCGTGTCACACACTCTAAAC
1 CAAGCAATGCCGTGTCACACACTCTAAAC
3423992 CA
1 CA
3423994 TGGCGTGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (29 bp):
CAAGCAATGCCGTGTCACACACTCTAAAC
Found at i:3424094 original size:47 final size:47
Alignment explanation
Indices: 3424038--3424452 Score: 395
Period size: 47 Copynumber: 8.8 Consensus size: 47
3424028 ACACTTTAAA
* * * *
3424038 CATGGCATGTTACCAACTCTAAACTCTGGCTTGTCACAGCTTCCCTT
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
* * *
3424085 CATAGCATGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
* * * *
3424132 CATGGCGTCTCACCAACTCTGAACGCTGGCATGTCACAGATTCCCTC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
* * *
3424179 CATGCCGTGTCACCAACTCTAAACTCTAGCATGTCACAGATTCCCTC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
* * ** *
3424226 CATGGCATCTCACCAACTCTAAA-TGTTGGTGTGTCATAGATTCCCTC
1 CATGGCATGTCACCAACTCTAAACT-CTGGCATGTCACAGATTCCCTC
* * * * *
3424273 CATGCCATGTCACCAACTTTGAACTCTAGCGTGTCACAGATT-CCTGC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCT-C
* * * * * * * *
3424320 CATGACGTCTCACCAACTCTGAACGCTGACGTGTCATAGATT-CCTAC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCT-C
* * * * *
3424367 CATGGCGTGTTACCAACTCTTAACTCTAGCATGTCACAGATTTCCTC
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
* * * * **
3424414 CATGGCTTCTCACCAACTCTGAACGCTGGTGTGTCACAG
1 CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAG
3424453 CCGTGTCACA
Statistics
Matches: 306, Mismatches: 58, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
46 4 0.01
47 298 0.97
48 4 0.01
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGGCATGTCACCAACTCTAAACTCTGGCATGTCACAGATTCCCTC
Found at i:3424122 original size:94 final size:94
Alignment explanation
Indices: 3424038--3424452 Score: 455
Period size: 94 Copynumber: 4.4 Consensus size: 94
3424028 ACACTTTAAA
* * * *
3424038 CATGGCATGTTACCAACTCTAAACTCTGGCTTGTCACAGCTTCCCTTCATAG-CATGTCACCAAC
1 CATGGCATCTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCCTCCAT-GCCATGTCACCAAC
*
3424102 TCTGAACTCTGGCGTGTCACAGATTCCCTC
65 TCTGAACTCTAGCGTGTCACAGATTCCCTC
* * * * *
3424132 CATGGCGTCTCACCAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGCCGTGTCACCAACT
1 CATGGCATCTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCCTCCATGCCATGTCACCAACT
* *
3424197 CTAAACTCTAGCATGTCACAGATTCCCTC
66 CTGAACTCTAGCGTGTCACAGATTCCCTC
* *
3424226 CATGGCATCTCACCAACTCTAAA-TGTTGG-TGTGTCATAGATTCCCTCCATGCCATGTCACCAA
1 CATGGCATCTCACCAACTCTAAACT-CTGGCT-TGTCACAGATTCCCTCCATGCCATGTCACCAA
*
3424289 CTTTGAACTCTAGCGTGTCACAGATT-CCTGC
64 CTCTGAACTCTAGCGTGTCACAGATTCCCT-C
* * * * * * * * * *
3424320 CATGACGTCTCACCAACTCTGAACGCTGACGTGTCATAGATT-CCTACCATGGCGTGTTACCAAC
1 CATGGCATCTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCCT-CCATGCCATGTCACCAAC
* * *
3424384 TCTTAACTCTAGCATGTCACAGATTTCCTC
65 TCTGAACTCTAGCGTGTCACAGATTCCCTC
* * *
3424414 CATGGCTTCTCACCAACTCTGAACGCTGG-TGTGTCACAG
1 CATGGCATCTCACCAACTCTAAACTCTGGCT-TGTCACAG
3424453 CCGTGTCACA
Statistics
Matches: 272, Mismatches: 40, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
93 7 0.03
94 262 0.96
95 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (94 bp):
CATGGCATCTCACCAACTCTAAACTCTGGCTTGTCACAGATTCCCTCCATGCCATGTCACCAACT
CTGAACTCTAGCGTGTCACAGATTCCCTC
Found at i:3424197 original size:141 final size:140
Alignment explanation
Indices: 3424049--3424452 Score: 470
Period size: 141 Copynumber: 2.9 Consensus size: 140
3424039 ATGGCATGTT
* * * *
3424049 ACCAACTCTAAACTCTGGCTTGTCACAGCTTCCCTTCATAGCATGTCACCAACTCTGAACTCTGG
1 ACCAACTCTAAACTCTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCT-AACTCTGG
* *
3424114 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGCTGGCATGTCACAGATTCCCT-
65 CGTGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGGCGTGTCACAGATT-CCTG
* *
3424178 CCATGCCGTGTC
129 CCATGACGTCTC
* * * *
3424190 ACCAACTCTAAACTCTAGCATGTCACAGATTCCCTCCATGGCATCTCACCAACTCTAAATGTTGG
1 ACCAACTCTAAACTCTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCTAACT-CTGG
* * * * * * *
3424255 TGTGTCATAGATTCCCTCCATGCCATGTCACCAACTTTGAACTCTAGCGTGTCACAGATTCCTGC
65 CGTGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCTGC
3424320 CATGACGTCTC
130 CATGACGTCTC
* * * * * * * *
3424331 ACCAACTCTGAACGCTGACGTGTCATAGATT-CCTACCATGGCGTGTTACCAACTCTTAACTCTA
1 ACCAACTCTAAACTCTGGCATGTCACAGATTCCCT-CCATGGCATGTCACCAACTC-TAACTCTG
* * * *
3424395 GCATGTCACAGATTTCCTCCATGGCTTCTCACCAACTCTGAACGCTGGTGTGTCACAG
64 GCGTGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGGCGTGTCACAG
3424453 CCGTGTCACA
Statistics
Matches: 217, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
140 9 0.04
141 204 0.94
142 4 0.02
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (140 bp):
ACCAACTCTAAACTCTGGCATGTCACAGATTCCCTCCATGGCATGTCACCAACTCTAACTCTGGC
GTGTCACAGATTCCCTCCATGGCATCTCACCAACTCTGAACGCTGGCGTGTCACAGATTCCTGCC
ATGACGTCTC
Found at i:3424298 original size:188 final size:188
Alignment explanation
Indices: 3424038--3424452 Score: 579
Period size: 188 Copynumber: 2.2 Consensus size: 188
3424028 ACACTTTAAA
* * * *
3424038 CATGGCATGTTACCAACTCTAAACT-CTGGCT-TGTCACAGCTTCCCTTCATAGCATGTCACCAA
1 CATGGCATCTCACCAACTCTAAA-TGCTGG-TGTGTCACAGATTCCCTCCATAGCATGTCACCAA
* * *
3424101 CTCTGAACTCTGGCGTGTCACAGATTCCCT-CCATGGCGTCTCACCAACTCTGAACGCTGGCATG
64 CTCTGAACTCTAGCGTGTCACAGATT-CCTGCCATGACGTCTCACCAACTCTGAACGCTGACATG
3424165 TCACAGATTCCCT-CCATGCCGTGTCACCAACTCTAAACTCTAGCATGTCACAGATTCCCTC
128 TCACAGATT-CCTACCATGCCGTGTCACCAACTCTAAACTCTAGCATGTCACAGATTCCCTC
* *
3424226 CATGGCATCTCACCAACTCTAAATGTTGGTGTGTCATAGATTCCCTCCAT-GCCATGTCACCAAC
1 CATGGCATCTCACCAACTCTAAATGCTGGTGTGTCACAGATTCCCTCCATAG-CATGTCACCAAC
* *
3424290 TTTGAACTCTAGCGTGTCACAGATTCCTGCCATGACGTCTCACCAACTCTGAACGCTGACGTGTC
65 TCTGAACTCTAGCGTGTCACAGATTCCTGCCATGACGTCTCACCAACTCTGAACGCTGACATGTC
* * * * *
3424355 ATAGATTCCTACCATGGCGTGTTACCAACTCTTAACTCTAGCATGTCACAGATTTCCTC
130 ACAGATTCCTACCATGCCGTGTCACCAACTCTAAACTCTAGCATGTCACAGATTCCCTC
* * *
3424414 CATGGCTTCTCACCAACTCTGAACGCTGGTGTGTCACAG
1 CATGGCATCTCACCAACTCTAAATGCTGGTGTGTCACAG
3424453 CCGTGTCACA
Statistics
Matches: 201, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
187 9 0.04
188 192 0.96
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (188 bp):
CATGGCATCTCACCAACTCTAAATGCTGGTGTGTCACAGATTCCCTCCATAGCATGTCACCAACT
CTGAACTCTAGCGTGTCACAGATTCCTGCCATGACGTCTCACCAACTCTGAACGCTGACATGTCA
CAGATTCCTACCATGCCGTGTCACCAACTCTAAACTCTAGCATGTCACAGATTCCCTC
Found at i:3426788 original size:19 final size:20
Alignment explanation
Indices: 3426755--3426796 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
3426745 AATATAGATC
3426755 AAACTAGATAACAAG-ATTA
1 AAACTAGATAACAAGAATTA
3426774 AAACT-GATAATCAAGAATTA
1 AAACTAGATAA-CAAGAATTA
3426794 AAA
1 AAA
3426797 ACTAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (20 bp):
AAACTAGATAACAAGAATTA
Found at i:3427969 original size:2 final size:2
Alignment explanation
Indices: 3427962--3428001 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3427952 GGTAAGTAGA
3427962 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3428002 AGGTAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3428280 original size:19 final size:19
Alignment explanation
Indices: 3428249--3428285 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3428239 TTATATAGAG
3428249 ATATATATAAATATAAAAA
1 ATATATATAAATATAAAAA
3428268 ATATGATAT-AATATAAAA
1 ATAT-ATATAAATATAAAA
3428286 TTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATATATAAATATAAAAA
Found at i:3428494 original size:297 final size:295
Alignment explanation
Indices: 3428089--3428673 Score: 1021
Period size: 299 Copynumber: 2.0 Consensus size: 295
3428079 AGCAAAAAAA
* ** *
3428089 AGAGATTTAAATAGAAAAATGGAAAATACCTAGTTATAAAGAAAAAGACTTTTGTAAATTAAAGA
1 AGAGATTTAAATAGAAAAATGGAAAATACCTAATTATAAAGAAAAAGACTTTTACAAATGAAAGA
* * * *
3428154 AAATATAAGAGAAATAAAATATATTTAGTCATAAATGAAAATAGGTTAGGTAGGTAAGAGAAATG
66 AAACATAAGAAAAATAAAATATATTTAATCATAAATAAAAATAGGTTAGGTAGGTAAGAGAAATG
3428219 AAATATTTAACTACACAAATTTATATAGAGATATATATA-AATATAAAAAATATGAT-ATAATAT
131 AAATATTTAACTACACAAATTTATATAGAGATATATATATAATATAAAAAATATGATAATAATAT
3428282 AAAATTATAAATATAAAAATAGTGTGGTTGTTTTGGATTAATTCTGATAATGGAATTTTATTCGT
196 AAAATTATAAATATAAAAATAGTGTGGTTGTTTTGGATTAATTCTGATAATGGAATTTTATTCGT
3428347 AAAGGCAAAGAGTTGCTATTTTCAAGANTAGTGAAG
261 AAAGGCAAAGAGTTGCTATTTTCAAGA-TAGTGAAG
* * *
3428383 AGAGATTTAAATAGAAAAAATGGTAAAATGCCTAATTATAAAGAAATATACTTTTACAAATGAAA
1 AGAGATTTAAATAG-AAAAATGG-AAAATACCTAATTATAAAGAAAAAGACTTTTACAAATGAAA
3428448 GAAAACATAAGATAAAATAAAATATATTTAATCATAAATAAAAATAGGTTAGGTAGGTAAGAGAA
64 GAAAACATAAGA-AAAATAAAATATATTTAATCATAAATAAAAATAGGTTAGGTAGGTAAGAGAA
3428513 ATGAAATATTTAACTACACAAATTTATATAGAGATATATATATAATATAAAAAATATGATAATAA
128 ATGAAATATTTAACTACACAAATTTATATAGAGATATATATATAATATAAAAAATATGATAATAA
3428578 TATAAAATTATAAATATAAAAATAGTGTGGTTGTTTTGGATTAATTCTGATAATGGAATTTTATT
193 TATAAAATTATAAATATAAAAATAGTGTGGTTGTTTTGGATTAATTCTGATAATGGAATTTTATT
3428643 CGTAAAGGCAAAGAGTTGCTATTTTCAAGAT
258 CGTAAAGGCAAAGAGTTGCTATTTTCAAGAT
3428674 GACTTTGTTA
Statistics
Matches: 275, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
294 14 0.05
295 8 0.03
296 45 0.16
297 91 0.33
298 18 0.07
299 99 0.36
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.32
Consensus pattern (295 bp):
AGAGATTTAAATAGAAAAATGGAAAATACCTAATTATAAAGAAAAAGACTTTTACAAATGAAAGA
AAACATAAGAAAAATAAAATATATTTAATCATAAATAAAAATAGGTTAGGTAGGTAAGAGAAATG
AAATATTTAACTACACAAATTTATATAGAGATATATATATAATATAAAAAATATGATAATAATAT
AAAATTATAAATATAAAAATAGTGTGGTTGTTTTGGATTAATTCTGATAATGGAATTTTATTCGT
AAAGGCAAAGAGTTGCTATTTTCAAGATAGTGAAG
Found at i:3431183 original size:653 final size:653
Alignment explanation
Indices: 3429938--3431248 Score: 2586
Period size: 653 Copynumber: 2.0 Consensus size: 653
3429928 GTTCCTTCAC
3429938 ACACACGACACATCTTGCATTCATGCATAAGCCTTCTACTCAGGCTAGATCTTTCGTTAGAATGG
1 ACACACGACACATCTTGCATTCATGCATAAGCCTTCTACTCAGGCTAGATCTTTCGTTAGAATGG
3430003 GGTTTAATAGTTAAGCTCTCGTGAGGTGATAACCTCCGCATGGGCTAGTGAAGACTCTTACTCAG
66 GGTTTAATAGTTAAGCTCTCGTGAGGTGATAACCTCCGCATGGGCTAGTGAAGACTCTTACTCAG
3430068 ATTAAACCCAGTTCGTTCGAAGTTTGTAATGGGTGAGGATTGAGGTGCTTTACTAGTTCGAGCGG
131 ATTAAACCCAGTTCGTTCGAAGTTTGTAATGGGTGAGGATTGAGGTGCTTTACTAGTTCGAGCGG
*
3430133 ACGACAGTGAGGAACAATTTGGGAACCTATAGCTTTGTCAAACCTAAACCTAGCATTTAGAATGT
196 ACGACAGTGAGGAACAATTTGGGAACCTATAGCTTTGTCAAACCTAAACCTAGCATATAGAATGT
3430198 CGTGAGTAACCTTTTCTTAGGTAGAGCCTTACCCGTGAGAATATACCCTTTGATTAGGCACACGT
261 CGTGAGTAACCTTTTCTTAGGTAGAGCCTTACCCGTGAGAATATACCCTTTGATTAGGCACACGT
*
3430263 GAAGGAACTTCTCTTACTCCTTTTACTTTAAAACTTCCCACCAAAATAGTAATAAATCATGGTGT
326 GAAGGAACTTCTCTTACTCCCTTTACTTTAAAACTTCCCACCAAAATAGTAATAAATCATGGTGT
3430328 AAATAACGTCTGACGACGTGGTAAATACCCATGATCTTAATCATTGCTTTTTTTAAAATACAAGT
391 AAATAACGTCTGACGACGTGGTAAATACCCATGATCTTAATCATTGCTTTTTTTAAAATACAAGT
*
3430393 TAATGTTCTTTAATTTTGTTTACTATACTGACTTGAGCTTGTTGTCATTTTTTATTTGCATATGC
456 TAATGTTCTTTAATTTTATTTACTATACTGACTTGAGCTTGTTGTCATTTTTTATTTGCATATGC
3430458 ACATTTACATCATAATTTTGCGTATAGGAAAAGTATTTGTCACCTAACAACCATTGACGAGGGAG
521 ACATTTACATCATAATTTTGCGTATAGGAAAAGTATTTGTCACCTAACAACCATTGACGAGGGAG
3430523 AGTTCAATTACATTCATGGAGTCATCATGGCCACCTTCAAGCTATGACGAGATATATGAAGTGAC
586 AGTTCAATTACATTCATGGAGTCATCATGGCCACCTTCAAGCTATGACGAGATATATGAAGTGAC
3430588 TCA
651 TCA
3430591 ACACACGACACATCTTGCATTCATGCATAAGCCTTCTACTCAGGCTAGATCTTTCGTTAGAATGG
1 ACACACGACACATCTTGCATTCATGCATAAGCCTTCTACTCAGGCTAGATCTTTCGTTAGAATGG
3430656 GGTTTAATAGTTAAGCTCTCGTGAGGTGATAACCTCCGCATGGGCTAGTGAAGACTCTTACTCAG
66 GGTTTAATAGTTAAGCTCTCGTGAGGTGATAACCTCCGCATGGGCTAGTGAAGACTCTTACTCAG
3430721 ATTAAACCCAGTTCGTTCGAAGTTTGTAATGGGTGAGGATTGAGGTGCTTTACTAGTTCGAGCGG
131 ATTAAACCCAGTTCGTTCGAAGTTTGTAATGGGTGAGGATTGAGGTGCTTTACTAGTTCGAGCGG
3430786 ACGACAGTGAGGAACAATTTGGGAACCTATAGCTTTGTCAAACCTAAACCTAGCATATAGAATGT
196 ACGACAGTGAGGAACAATTTGGGAACCTATAGCTTTGTCAAACCTAAACCTAGCATATAGAATGT
3430851 CGTGAGTAACCTTTTCTTAGGTAGAGCCTTACCCGTGAGAATATACCCTTTGATTAGGCACACGT
261 CGTGAGTAACCTTTTCTTAGGTAGAGCCTTACCCGTGAGAATATACCCTTTGATTAGGCACACGT
3430916 GAAGGAACTTCTCTTACTCCCTTTACTTTAAAACTTCCCACCAAAATAGTAATAAATCATGGTGT
326 GAAGGAACTTCTCTTACTCCCTTTACTTTAAAACTTCCCACCAAAATAGTAATAAATCATGGTGT
3430981 AAATAACGTCTGACGACGTGGTAAATACCCATGATCTTAATCATTGCTTTTTTTAAAATACAAGT
391 AAATAACGTCTGACGACGTGGTAAATACCCATGATCTTAATCATTGCTTTTTTTAAAATACAAGT
3431046 TAATGTTCTTTAATTTTATTTACTATACTGACTTGAGCTTGTTGTCATTTTTTATTTGCATATGC
456 TAATGTTCTTTAATTTTATTTACTATACTGACTTGAGCTTGTTGTCATTTTTTATTTGCATATGC
3431111 ACATTTACATCATAATTTTGCGTATAGGAAAAGTATTTGTCACCTAACAACCATTGACGAGGGAG
521 ACATTTACATCATAATTTTGCGTATAGGAAAAGTATTTGTCACCTAACAACCATTGACGAGGGAG
*
3431176 AGTTCAATTGCATTCATGGAGTCATCATGGCCACCTTCAAGCTATGACGAGATATATGAAGTGAC
586 AGTTCAATTACATTCATGGAGTCATCATGGCCACCTTCAAGCTATGACGAGATATATGAAGTGAC
3431241 TCA
651 TCA
3431244 ACACA
1 ACACA
3431249 TGGTGAACGC
Statistics
Matches: 654, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
653 654 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (653 bp):
ACACACGACACATCTTGCATTCATGCATAAGCCTTCTACTCAGGCTAGATCTTTCGTTAGAATGG
GGTTTAATAGTTAAGCTCTCGTGAGGTGATAACCTCCGCATGGGCTAGTGAAGACTCTTACTCAG
ATTAAACCCAGTTCGTTCGAAGTTTGTAATGGGTGAGGATTGAGGTGCTTTACTAGTTCGAGCGG
ACGACAGTGAGGAACAATTTGGGAACCTATAGCTTTGTCAAACCTAAACCTAGCATATAGAATGT
CGTGAGTAACCTTTTCTTAGGTAGAGCCTTACCCGTGAGAATATACCCTTTGATTAGGCACACGT
GAAGGAACTTCTCTTACTCCCTTTACTTTAAAACTTCCCACCAAAATAGTAATAAATCATGGTGT
AAATAACGTCTGACGACGTGGTAAATACCCATGATCTTAATCATTGCTTTTTTTAAAATACAAGT
TAATGTTCTTTAATTTTATTTACTATACTGACTTGAGCTTGTTGTCATTTTTTATTTGCATATGC
ACATTTACATCATAATTTTGCGTATAGGAAAAGTATTTGTCACCTAACAACCATTGACGAGGGAG
AGTTCAATTACATTCATGGAGTCATCATGGCCACCTTCAAGCTATGACGAGATATATGAAGTGAC
TCA
Found at i:3434103 original size:60 final size:58
Alignment explanation
Indices: 3434031--3434270 Score: 284
Period size: 60 Copynumber: 4.0 Consensus size: 58
3434021 AGACATCATC
* * * *
3434031 ACCTACTCGTGGGAACTGCCCACACCACC-AGATGAATCGAGGCTTCAGGTTCCTCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCAATATAAATCG-GGCTTCAGGTTCC-C-TTTT
* *
3434091 ACCTACTCGTGGGAACTATCCACGTCACCAAATATAAATCGGAGCTTCAGGTTCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACC-AATATAAATCGG-GCTTCAGGTTCCCTTTT
* * *
3434151 ACCTGCTCGTGGGAACTACCGACGCCACCAAATATAAATCGGGGCTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACC-AATATAAATC-GGGCTTCAGGTTCCCTTTT
* * *
3434211 ACCTACTCATGGGAACTACCCACGCCACCAATTATAAATCGGGGCTTTAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCAA-TATAAATC-GGGCTTCAGGTTCCCTTTT
3434271 TACAAACAAA
Statistics
Matches: 160, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
59 2 0.01
60 134 0.84
61 4 0.03
62 20 0.12
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (58 bp):
ACCTACTCGTGGGAACTACCCACGCCACCAATATAAATCGGGCTTCAGGTTCCCTTTT
Found at i:3434249 original size:120 final size:120
Alignment explanation
Indices: 3434031--3434270 Score: 313
Period size: 120 Copynumber: 2.0 Consensus size: 120
3434021 AGACATCATC
* * *
3434031 ACCTACTCGTGGGAACTGCCCACACCACCAGATGAATCGAGGCTTCAGGTTCCTCTTTTTACCTA
1 ACCTACTCGTGGGAACTACCCACACCACCAGATAAATCGAGGCTTCAGGTTCCTCCTTTTACCTA
* * * *
3434096 CTCGTGGGAACTATCCACGTCACCAAATATAAATCGGAGCTTCAGGTTCCCTTTT
66 CTCATGGGAACTACCCACGCCACCAAATATAAATCGGAGCTTCAGGTCCCCTTTT
* * * * *
3434151 ACCTGCTCGTGGGAACTACCGACGCCACCAAATATAAATCGGGGCTTCAGG-TCC-CCTTTTACC
1 ACCTACTCGTGGGAACTACCCACACCACC--AGATAAATCGAGGCTTCAGGTTCCTCCTTTTACC
* * *
3434214 TACTCATGGGAACTACCCACGCCACCAATTATAAATCGGGGCTTTAGGTCCCCTTTT
64 TACTCATGGGAACTACCCACGCCACCAAATATAAATCGGAGCTTCAGGTCCCCTTTT
3434271 TACAAACAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
120 83 0.81
121 3 0.03
122 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (120 bp):
ACCTACTCGTGGGAACTACCCACACCACCAGATAAATCGAGGCTTCAGGTTCCTCCTTTTACCTA
CTCATGGGAACTACCCACGCCACCAAATATAAATCGGAGCTTCAGGTCCCCTTTT
Found at i:3435038 original size:18 final size:18
Alignment explanation
Indices: 3435001--3435039 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3434991 TTTTCCTTCT
** *
3435001 TTTTCTTTCTTTTCTTTC
1 TTTTCTTTCTTCCCTCTC
3435019 TTTTCTTTCTTCCCTCTC
1 TTTTCTTTCTTCCCTCTC
3435037 TTT
1 TTT
3435040 CTTCTCCCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCTTTCTTCCCTCTC
Found at i:3435045 original size:9 final size:9
Alignment explanation
Indices: 3434991--3435029 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
3434981 CCCTCTCTCA
*
3434991 TTTTCCTTC
1 TTTTCTTTC
3435000 TTTTTCTTTC
1 -TTTTCTTTC
3435010 TTTTCTTTC
1 TTTTCTTTC
3435019 TTTTCTTTC
1 TTTTCTTTC
3435028 TT
1 TT
3435030 CCCTCTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:3435164 original size:41 final size:37
Alignment explanation
Indices: 3435078--3435166 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 37
3435068 TCATTTTTCT
*
3435078 TCTCT-TTCTTTTTCTTTTTTTTTCTGCTCTGCCGTG
1 TCTCTCTTCTTTCTCTTTTTTTTTCTGCTCTGCCGTG
3435114 T-TCTC-TCTTTCTCTTTCCTTTTTT-TGCTCTGCCGTG
1 TCTCTCTTCTTTCTCTTT--TTTTTTCTGCTCTGCCGTG
3435150 CTCTCTCTCTTCTTTCT
1 ---TCTCTCTTCTTTCT
3435167 TCTTCTCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
35 13 0.30
36 13 0.30
37 6 0.14
39 1 0.02
40 4 0.09
41 7 0.16
ACGTcount: A:0.00, C:0.30, G:0.09, T:0.61
Consensus pattern (37 bp):
TCTCTCTTCTTTCTCTTTTTTTTTCTGCTCTGCCGTG
Found at i:3435183 original size:18 final size:20
Alignment explanation
Indices: 3435160--3435200 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
3435150 CTCTCTCTCT
*
3435160 TCTTTCTTCT-TCTC-TTTC
1 TCTTTCTCCTCTCTCTTTTC
3435178 TCTTTCTCCTCTCTCTTTTC
1 TCTTTCTCCTCTCTCTTTTC
3435198 TCT
1 TCT
3435201 CCCTCAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTCTCCTCTCTCTTTTC
Found at i:3435252 original size:18 final size:18
Alignment explanation
Indices: 3435226--3435260 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3435216 ACTCTCTTCC
3435226 TTCTCTTTCCTTTTCTCT
1 TTCTCTTTCCTTTTCTCT
* *
3435244 TTCTTTTTCTTTTTCTC
1 TTCTCTTTCCTTTTCTC
3435261 CCTTGTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTCTTTCCTTTTCTCT
Found at i:3435259 original size:12 final size:12
Alignment explanation
Indices: 3435226--3435259 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3435216 ACTCTCTTCC
*
3435226 TTCTCTTTCCTT
1 TTCTCTTTCTTT
3435238 TTCTCTTTCTTT
1 TTCTCTTTCTTT
*
3435250 TTCTTTTTCT
1 TTCTCTTTCT
3435260 CCCTTGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCTCTTTCTTT
Found at i:3441370 original size:60 final size:60
Alignment explanation
Indices: 3441295--3441428 Score: 196
Period size: 60 Copynumber: 2.2 Consensus size: 60
3441285 TTGGGGCTTT
* * *
3441295 AGGTCCCCCTTTTTACCTACTCGTGGGAACTACCTACGTCACCAAATATAAATCGGAATTTC
1 AGGTCCCCC--TTTACCTACTCGTGGGAACTACCAACGCCACCAAATATAAATCGGAACTTC
**
3441357 AGGTCCCCCTTTACCTACTCGTGGGAACTACCAACGCCACCAAATATAAATCGGGGCTTC
1 AGGTCCCCCTTTACCTACTCGTGGGAACTACCAACGCCACCAAATATAAATCGGAACTTC
*
3441417 ATGTCCCCCTTT
1 AGGTCCCCCTTT
3441429 TACAAACAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 57 0.86
62 9 0.14
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (60 bp):
AGGTCCCCCTTTACCTACTCGTGGGAACTACCAACGCCACCAAATATAAATCGGAACTTC
Found at i:3442184 original size:16 final size:15
Alignment explanation
Indices: 3442152--3442185 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3442142 TCTCCTTTTC
*
3442152 CTTCTTTTTCTTTCT
1 CTTCTTTTTCCTTCT
3442167 CTTCTTTCTTCCTTCT
1 CTTCTTT-TTCCTTCT
3442183 CTT
1 CTT
3442186 TCTTCTCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTCTTTTTCCTTCT
Found at i:3442198 original size:26 final size:26
Alignment explanation
Indices: 3442149--3442198 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
3442139 CTCTCTCCTT
* *
3442149 TTCCTTCTTTTTCTTTCTCTTCTTTC
1 TTCCTTCTCTTTCTTTCTCCTCTTTC
3442175 TTCCTTCTCTTTC-TTCTCCCTCTT
1 TTCCTTCTCTTTCTTTCT-CCTCTT
3442199 CGTCCTACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (26 bp):
TTCCTTCTCTTTCTTTCTCCTCTTTC
Found at i:3442278 original size:6 final size:6
Alignment explanation
Indices: 3442260--3442382 Score: 60
Period size: 6 Copynumber: 19.7 Consensus size: 6
3442250 CTCACTCTCT
* *
3442260 TCTTTC T-TCTTC TCTTTC TTTTTT TCTTT- TCTTTC TCTTTC AT-TTT-
1 TCTTTC TCT-TTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC -TCTTTC
* * *
3442306 TCTTATC TGCCGTGCTC TCTCTC TCATTTC T-TATTC TCTTTC TCTTTT
1 TCTT-TC T--C-T-TTC TCTTTC TC-TTTC TCT-TTC TCTTTC TCTTTC
3442354 TC-TTC TCTTTC TCCTTTC TTCTTTC TCTT
1 TCTTTC TCTTTC T-CTTTC -TCTTTC TCTT
3442383 CTTCGGGCCC
Statistics
Matches: 93, Mismatches: 7, Indels: 34
0.69 0.05 0.25
Matches are distributed among these distances:
4 1 0.01
5 13 0.14
6 53 0.57
7 19 0.20
8 2 0.02
9 1 0.01
10 4 0.04
ACGTcount: A:0.03, C:0.29, G:0.02, T:0.65
Consensus pattern (6 bp):
TCTTTC
Found at i:3442322 original size:70 final size:70
Alignment explanation
Indices: 3442219--3442379 Score: 206
Period size: 70 Copynumber: 2.3 Consensus size: 70
3442209 CCTCTCTCTT
* *
3442219 TTTTCTTT-TCTTT-TTTTTC-TACTCTGCCATGCTCACTCTCTTC-TTTCTTCTTCTCTTTCTT
1 TTTTCTTTCTCTTTCTTTTTCTTACTCTGCCATGCTCACTCTC-TCATTTCTTATTCTCTTTCTC
3442280 TTTTTC
65 TTTTTC
* *
3442286 TTTTCTTTCTCTTTCATTTTTCTTA-TCTGCCGTGCTCTCTCTCTCATTTCTTATTCTCTTTCTC
1 TTTTCTTTCTCTTTC-TTTTTCTTACTCTGCCATGCTCACTCTCTCATTTCTTATTCTCTTTCTC
3442350 TTTTTC
65 TTTTTC
*
3442356 TTCTCTTTCTCCTTTCTTCTTTCT
1 TTTTCTTTCT-CTTTCTT-TTTCT
3442380 CTTCTTCGGG
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
67 8 0.10
68 5 0.06
69 2 0.02
70 55 0.67
71 12 0.15
ACGTcount: A:0.04, C:0.29, G:0.03, T:0.63
Consensus pattern (70 bp):
TTTTCTTTCTCTTTCTTTTTCTTACTCTGCCATGCTCACTCTCTCATTTCTTATTCTCTTTCTCT
TTTTC
Found at i:3442359 original size:17 final size:20
Alignment explanation
Indices: 3442321--3442382 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 20
3442311 TCTGCCGTGC
* * *
3442321 TCTCTCTCTCATTTCTT-AT
1 TCTCTTTCTCCTTTCTTCTT
3442340 TCTCTTTCT-CTTT-TTC-T
1 TCTCTTTCTCCTTTCTTCTT
3442357 TCTCTTTCTCCTTTCTTCTT
1 TCTCTTTCTCCTTTCTTCTT
3442377 TCTCTT
1 TCTCTT
3442383 CTTCGGGCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 12 0.32
18 7 0.19
19 11 0.30
20 7 0.19
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (20 bp):
TCTCTTTCTCCTTTCTTCTT
Found at i:3442362 original size:25 final size:25
Alignment explanation
Indices: 3442339--3442384 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3442329 TCATTTCTTA
*
3442339 TTCT-CTTTC-TCTTTTTCTTCTCT
1 TTCTCCTTTCTTCTTTCTCTTCTCT
3442362 TTCTCCTTTCTTCTTTCTCTTCT
1 TTCTCCTTTCTTCTTTCTCTTCT
3442385 TCGGGCCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 5 0.25
25 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (25 bp):
TTCTCCTTTCTTCTTTCTCTTCTCT
Found at i:3447520 original size:20 final size:19
Alignment explanation
Indices: 3447497--3447550 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
3447487 TAAATATAAA
3447497 TAACATAAAACT-AACATTAT
1 TAACATAAAA-TAAACATT-T
*
3447517 TAACTTAAAATAAACATTT
1 TAACATAAAATAAACATTT
* *
3447536 AAACATAAATTAAAC
1 TAACATAAAATAAAC
3447551 TAAATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAAAATAAACATTT
Found at i:3451711 original size:20 final size:19
Alignment explanation
Indices: 3451688--3451741 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
3451678 TAAATATAAA
3451688 TAACATAAAACT-AACATTAT
1 TAACATAAAA-TAAACATT-T
*
3451708 TAACTTAAAATAAACATTT
1 TAACATAAAATAAACATTT
* *
3451727 AAACATAAATTAAAC
1 TAACATAAAATAAAC
3451742 TAAACTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAAAATAAACATTT
Found at i:3458001 original size:20 final size:20
Alignment explanation
Indices: 3457985--3458021 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
3457975 AAAAAAATTG
3457985 AAAACAAAAA-CAAAAAATA
1 AAAACAAAAAGCAAAAAATA
*
3458004 AAAATAAAAAGCAAAAAA
1 AAAACAAAAAGCAAAAAA
3458022 GGAGAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAACAAAAAGCAAAAAATA
Found at i:3459152 original size:58 final size:58
Alignment explanation
Indices: 3459004--3459445 Score: 409
Period size: 58 Copynumber: 7.5 Consensus size: 58
3458994 GGCATTAGAA
* * * * * * * *
3459004 AATTTAAAATCGAACTTGTTGTGAGATAGGTCGAGCTTAGATCAAGTCTAGGGATTTC
1 AATTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* *
3459062 AATCTTTCAAATCGAACCTACTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTT
1 AA--TTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* * ** *
3459122 GATTTCAAATCGAACCTATTGTGAGATAGGTTGAGCCTAGATCAAGTCTAGAAATTTT
1 AATTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* * * * *
3459180 AATTTTTCAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCGAGTCTAGGAGTTTT
1 AA--TTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* * * * ** * *
3459240 AATTTCAAGTCAAACCTATCTTGAGATAGGTCAAGCCTAAATGGAGTCTAAGAGTTTT
1 AATTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* * * * *
3459298 AATTTCAAATCGAACTTATTTTAAGATAAGT-AGAGCCTAGATCAAGTTTAGGAATCTT
1 AATTTCAAATCGAACCTATTTTGAGATAGGTCA-AGCCTAGATCAAGTCTAGGAATTTT
* * * * * * * * *
3459356 AATTTCAAATCGAATCTATTTTGAGATGGGACAAACTTAGATTAAATTTAAGAATTTT
1 AATTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
* * **
3459414 GAATTTTAAATTGAATTTATTTTGAGATAGGT
1 -AATTTCAAATCGAACCTATTTTGAGATAGGT
3459446 GGAGCAAGGT
Statistics
Matches: 312, Mismatches: 65, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
57 1 0.00
58 188 0.60
59 27 0.09
60 96 0.31
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (58 bp):
AATTTCAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATTTT
Found at i:3459218 original size:118 final size:117
Alignment explanation
Indices: 3459004--3459382 Score: 424
Period size: 118 Copynumber: 3.2 Consensus size: 117
3458994 GGCATTAGAA
* * * * ** *
3459004 AATTTAAAATCGAACTTGTTGTGAGATAGGTCGAGCTTAGATCAAGTCTAGGGATTTCAATCTTT
1 AATTTCAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGAAATTTTAAT-TTT
*
3459069 CAAATCGAACCTACTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTT
65 CAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTT
* *
3459122 GATTTCAAATCGAACCTATTGTGAGATAGGTTGAGCCTAGATCAAGTCTAGAAATTTTAATTTTT
1 AATTTCAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGAAATTTTAA-TTTT
* * * * * *
3459187 CAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCGAGTCTAGGAGTTTT
65 CAAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTT
* * * * ** *
3459240 AATTTCAAGTCAAACCTATCT-TGAGATAGGTCAAGCCTAAATGGAGTCTA-AGAGTTTTAA-TT
1 AATTTCAAATCGAACCTAT-TGTGAGATAGGTCGAGCCTAGATCAAGTCTAGA-AATTTTAATTT
* * * *
3459302 TCAAATCGAACTTATTTTAAGATAAGT-AGAGCCTAGATCAAGTTTAGGAATCTT
64 TCAAATCGAACCTATTTTGAGATAGGTCA-AGCCTAGATCAAGTCTAGGAATCTT
* *
3459356 AATTTCAAATCGAATCTATTTTGAGAT
1 AATTTCAAATCGAACCTATTGTGAGAT
3459383 GGGACAAACT
Statistics
Matches: 218, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
115 2 0.01
116 66 0.30
117 1 0.00
118 147 0.67
119 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (117 bp):
AATTTCAAATCGAACCTATTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGAAATTTTAATTTTC
AAATCGAACCTATTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTT
Found at i:3459306 original size:176 final size:175
Alignment explanation
Indices: 3459004--3459381 Score: 438
Period size: 176 Copynumber: 2.1 Consensus size: 175
3458994 GGCATTAGAA
* * * * * * *
3459004 AATTTAAAATCGAACTTGTTGTGAGATAGGTCGAGCTTAGATCAAGTCTAGGGATTTCAATCTTT
1 AATTTCAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCAAGTCTAGGGATTTCAA-CTTT
* * * *
3459069 CAAATCGAACCTACTTTGAGATAGGTCAAGCCTAGATCAAGTCTAGGAATCTTGATTTCAAATCG
65 CAAATCAAACCTACTTTGAGATAGGTCAAGCCTAAATCAAGTCTAAGAATCTTAATTTCAAATCG
* * * *
3459134 AACCTATTGTGAGATAGGTTGAGCCTAGATCAAGTCTAGAAATTTT
130 AACCTATTGTAAGATAAGTAGAGCCTAGATCAAGTCTAGAAATCTT
* *
3459180 AATTTTTCAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCGAGTCTA-GGAGTTTTAA-T
1 AA--TTTCAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCAAGTCTAGGGA-TTTCAACT
* ** * *
3459243 TTCAAGTCAAACCTA-TCTTGAGATAGGTCAAGCCTAAATGGAGTCTAAGAGTTTTAATTTCAAA
63 TTCAAATCAAACCTACT-TTGAGATAGGTCAAGCCTAAATCAAGTCTAAGAATCTTAATTTCAAA
* * * *
3459307 TCGAACTTATTTTAAGATAAGTAGAGCCTAGATCAAGTTTAGGAATCTT
127 TCGAACCTATTGTAAGATAAGTAGAGCCTAGATCAAGTCTAGAAATCTT
* *
3459356 AATTTCAAATCGAATCTATTTTGAGA
1 AATTTCAAATCGAACCTGTTTTGAGA
3459382 TGGGACAAAC
Statistics
Matches: 170, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
174 22 0.13
175 1 0.01
176 99 0.58
177 3 0.02
178 45 0.26
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (175 bp):
AATTTCAAATCGAACCTGTTTTGAGAGAGGTCAAGCCTACATCAAGTCTAGGGATTTCAACTTTC
AAATCAAACCTACTTTGAGATAGGTCAAGCCTAAATCAAGTCTAAGAATCTTAATTTCAAATCGA
ACCTATTGTAAGATAAGTAGAGCCTAGATCAAGTCTAGAAATCTT
Found at i:3459593 original size:5 final size:5
Alignment explanation
Indices: 3459580--3459621 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
3459570 TATGTGTGCT
* * *
3459580 TTTAT TTTAC TTTAC TTTAC TTTAT TTTAT TTTAC TTT-C TTT
1 TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTT
3459622 TATTCTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTAC
Found at i:3459622 original size:15 final size:15
Alignment explanation
Indices: 3459579--3459625 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
3459569 ATATGTGTGC
* *
3459579 TTTTATTTTACTTTA
1 TTTTACTTTATTTTA
*
3459594 CTTTACTTTATTTTA
1 TTTTACTTTATTTTA
*
3459609 TTTTACTTTCTTTTA
1 TTTTACTTTATTTTA
3459624 TT
1 TT
3459626 CTTAACCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTACTTTATTTTA
Found at i:3460869 original size:15 final size:15
Alignment explanation
Indices: 3460843--3460903 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
3460833 GGGTTAAAAC
*
3460843 AAATAGAAAATATAAA
1 AAATA-AAAATAGAAA
3460859 AAATAAAAATAGAAA
1 AAATAAAAATAGAAA
*
3460874 TAATAACAAAGATAGCAAA
1 AAAT-A-AAA-ATAG-AAA
3460893 ATAATAAAAAT
1 A-AATAAAAAT
3460904 GTTTTAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 12 0.32
16 6 0.16
17 5 0.14
18 7 0.19
19 4 0.11
20 3 0.08
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (15 bp):
AAATAAAAATAGAAA
Found at i:3461444 original size:19 final size:19
Alignment explanation
Indices: 3461407--3461446 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3461397 TATATACATA
*
3461407 AATATAAAAATTATGATAT
1 AATATAAAAATTATAATAT
3461426 AATAT-AAAATTATAAATAT
1 AATATAAAAATTAT-AATAT
3461445 AA
1 AA
3461447 AAAAATAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AATATAAAAATTATAATAT
Found at i:3463763 original size:108 final size:107
Alignment explanation
Indices: 3463639--3463854 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 107
3463629 TCTTTTCTTG
*
3463639 TTGTTTTGCTTCTAGACATGGTCAACTAACTAAAAACACTAACATAACTTGAAATCAAATCAATC
1 TTGTTTTGCTTCTAGACATGGTAAACTAACTAAAAACACTAACATAACTTGAAATCAAATCAATC
3463704 CAACATCATTTTCTCTCCATACCCATTCGGCTAGCCATGAAT
66 CAACATCATTTTCTCTCCATACCCATTCGGCTAGCCATGAAT
3463746 NTTGTTTTGCTTCTAGACATGGTAAACTAACTAAAAACACTAACATAACTTGAAATCAAATCAAT
1 -TTGTTTTGCTTCTAGACATGGTAAACTAACTAAAAACACTAACATAACTTGAAATCAAATCAAT
3463811 CCAACATCATTTTCTCTCCATACCCATTCGGCTAGCCATGAAT
65 CCAACATCATTTTCTCTCCATACCCATTCGGCTAGCCATGAAT
3463854 T
1 T
3463855 CACCATGAAA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 1 0.01
108 106 0.99
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (107 bp):
TTGTTTTGCTTCTAGACATGGTAAACTAACTAAAAACACTAACATAACTTGAAATCAAATCAATC
CAACATCATTTTCTCTCCATACCCATTCGGCTAGCCATGAAT
Found at i:3469019 original size:17 final size:16
Alignment explanation
Indices: 3468986--3469033 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
3468976 GGTATTTAAT
*
3468986 TATATTAAACTATTAAA
1 TATATTAAATTA-TAAA
3469003 TATATATAAATTATAAA
1 TATAT-TAAATTATAAA
3469020 TCA-ATTAAATTATA
1 T-ATATTAAATTATA
3469034 TTTATAAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.32
17 12 0.43
18 7 0.25
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATTAAATTATAAA
Found at i:3475402 original size:70 final size:70
Alignment explanation
Indices: 3475274--3475413 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 70
3475264 AGAATGCATG
*
3475274 TGATGGTATTGAAATGTGCATGTAAGAAGTGAACATGATGATATTGAAATGTGCGTGTAAGG-AG
1 TGATGATATTGAAATGTGCATGTAAGAAGTGAACATGATGATATTGAAATGTGCGTGT-AGGAAG
3475338 TGCACA
65 TGCACA
* * * ** *
3475344 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACATGATGATATT-ACCTTGTGTGTGTAGGAAG
1 TGATGATATTGAAATGTGCATGTAAGAAGTGAACATGATGATATTGA-AATGTGCGTGTAGGAAG
3475408 TGCACA
65 TGCACA
3475414 AGAGCTGATG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
69 4 0.07
70 57 0.93
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (70 bp):
TGATGATATTGAAATGTGCATGTAAGAAGTGAACATGATGATATTGAAATGTGCGTGTAGGAAGT
GCACA
Found at i:3475413 original size:35 final size:35
Alignment explanation
Indices: 3475274--3475388 Score: 194
Period size: 35 Copynumber: 3.3 Consensus size: 35
3475264 AGAATGCATG
* * * *
3475274 TGATGGTATTGAAATGTGCATGTAAGAAGTGAACA
1 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
3475309 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
3475344 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
3475379 TGATGATATT
1 TGATGATATT
3475389 ACCTTGTGTG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAAGGAGTGCACA
Found at i:3475475 original size:19 final size:20
Alignment explanation
Indices: 3475451--3475496 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
3475441 TGCTTATATA
*
3475451 TTTATACA-CTATAGAGATG
1 TTTATACAGCTATAGAAATG
*
3475470 TTTATATATGCTATAGAAATG
1 TTTATACA-GCTATAGAAATG
3475491 TTTATA
1 TTTATA
3475497 TATGCTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (20 bp):
TTTATACAGCTATAGAAATG
Found at i:3475483 original size:21 final size:21
Alignment explanation
Indices: 3475459--3475508 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
3475449 TATTTATACA
*
3475459 CTATAGAGATGTTTATATATG
1 CTATAGAAATGTTTATATATG
3475480 CTATAGAAATGTTTATATATG
1 CTATAGAAATGTTTATATATG
3475501 CTAT-GAAA
1 CTATAGAAA
3475509 AAGTTAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (21 bp):
CTATAGAAATGTTTATATATG
Found at i:3477559 original size:13 final size:13
Alignment explanation
Indices: 3477541--3477565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3477531 GGAAAATGAG
3477541 ATTTTATAAAATA
1 ATTTTATAAAATA
3477554 ATTTTATAAAAT
1 ATTTTATAAAAT
3477566 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:3480157 original size:15 final size:15
Alignment explanation
Indices: 3480128--3480166 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3480118 ATCTTGAACA
*
3480128 ATTTGATT-AGGGTT
1 ATTTGATTGTGGGTT
3480142 ATTTGATTGTGGGTT
1 ATTTGATTGTGGGTT
*
3480157 ATTTGCTTGT
1 ATTTGATTGT
3480167 TTTGTTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.15, C:0.03, G:0.28, T:0.54
Consensus pattern (15 bp):
ATTTGATTGTGGGTT
Found at i:3480602 original size:21 final size:20
Alignment explanation
Indices: 3480578--3480621 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3480568 AATTTAGTAA
* *
3480578 AATTTAGGATTTAGTTATATT
1 AATTAAGGATTTA-TTAAATT
*
3480599 AATTAAGGTTTTATTAAATT
1 AATTAAGGATTTATTAAATT
3480619 AAT
1 AAT
3480622 CAAATGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
AATTAAGGATTTATTAAATT
Found at i:3480869 original size:8 final size:8
Alignment explanation
Indices: 3480841--3480912 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
3480831 TGTAGGGAGT
*
3480841 TAATTAAA
1 TAATTAAG
*
3480849 TAATTTAG
1 TAATTAAG
3480857 TTAATTAAG
1 -TAATTAAG
3480866 TAATGTAATG
1 TAAT-TAA-G
**
3480876 TGTTATAAG
1 TAAT-TAAG
3480885 TAATTAAG
1 TAATTAAG
*
3480893 TAATTAAT
1 TAATTAAG
*
3480901 TAAATAAG
1 TAATTAAG
3480909 TAAT
1 TAAT
3480913 ATTATATAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
8 30 0.61
9 13 0.27
10 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (8 bp):
TAATTAAG
Found at i:3484862 original size:22 final size:22
Alignment explanation
Indices: 3484837--3485144 Score: 159
Period size: 22 Copynumber: 13.8 Consensus size: 22
3484827 GGGTAACCAA
*
3484837 TTTTTAGGCATTACGTGACTT-G
1 TTTTTAGGCATTGCGTGA-TTGG
* * * * *
3484859 TTTTTAGAGCATTTCATCACTAG
1 TTTTTAG-GCATTGCGTGATTGG
* **
3484882 TTTTTAGGCATTGCGTTATTAA
1 TTTTTAGGCATTGCGTGATTGG
*
3484904 TTTTTAGGCATTGTGTGATTGG
1 TTTTTAGGCATTGCGTGATTGG
** *
3484926 TTGATAGGTATTGCGTGATTGG
1 TTTTTAGGCATTGCGTGATTGG
* *
3484948 TTTTTAGTCATTACGTGATTGG
1 TTTTTAGGCATTGCGTGATTGG
* *
3484970 TTTTTAGGCATTGTGTGATTGA
1 TTTTTAGGCATTGCGTGATTGG
** * * *
3484992 TTTTTAGTAATTGCATGACTAG
1 TTTTTAGGCATTGCGTGATTGG
* * * * * **
3485014 TTAATAAGGCATTACATGACTAA
1 TT-TTTAGGCATTGCGTGATTGG
* *
3485037 TTTTTAAGCATTGTGTGATTGG
1 TTTTTAGGCATTGCGTGATTGG
** * * **
3485059 TTAATAGGCGTTGCGTGACTAA
1 TTTTTAGGCATTGCGTGATTGG
** * * *
3485081 TTAATAGAGCATTGTGTGACTAG
1 TTTTTAG-GCATTGCGTGATTGG
* **
3485104 TTTGTAAGGCATTATGTGATTGG
1 TTT-TTAGGCATTGCGTGATTGG
3485127 TTTTTAGGCATTGCGTGA
1 TTTTTAGGCATTGCGTGA
3485145 CTCAGGCATT
Statistics
Matches: 213, Mismatches: 68, Indels: 10
0.73 0.23 0.03
Matches are distributed among these distances:
22 150 0.70
23 61 0.29
24 2 0.01
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (22 bp):
TTTTTAGGCATTGCGTGATTGG
Found at i:3484870 original size:23 final size:22
Alignment explanation
Indices: 3484837--3484893 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
3484827 GGGTAACCAA
* * *
3484837 TTTTTAGGCATTACGTGACTTG
1 TTTTTAGGCATTACATCACTAG
*
3484859 TTTTTAGAGCATTTCATCACTAG
1 TTTTTAG-GCATTACATCACTAG
3484882 TTTTTAGGCATT
1 TTTTTAGGCATT
3484894 GCGTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (22 bp):
TTTTTAGGCATTACATCACTAG
Found at i:3484939 original size:44 final size:44
Alignment explanation
Indices: 3484886--3485144 Score: 176
Period size: 44 Copynumber: 5.8 Consensus size: 44
3484876 CACTAGTTTT
* *
3484886 TAGGCATTGCGTTATTAATTTTTAGGCATTGTGTGATTGGTTGA
1 TAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGATTGGTTAA
* ** * ** **
3484930 TAGGTATTGCGTGATTGGTTTTTAGTCATTACGTGATTGGTTTT
1 TAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGATTGGTTAA
* * ** ** * *
3484974 TAGGCATTGTGTGATTGATTTTTAGTAATTGCATGACTAGTTAA
1 TAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGATTGGTTAA
* * * *
3485018 TAAGGCATTACATGACTAATTTTTAAGCATTGTGTGATTGGTTAA
1 T-AGGCATTGCGTGATTAATTTTTAGGCATTGTGTGATTGGTTAA
* * ** * * **
3485063 TAGGCGTTGCGTGACTAATTAATAGAGCATTGTGTGACTAGTTTG
1 TAGGCATTGCGTGATTAATTTTTAG-GCATTGTGTGATTGGTTAA
** ** *
3485108 TAAGGCATTATGTGATTGGTTTTTAGGCATTGCGTGA
1 T-AGGCATTGCGTGATTAATTTTTAGGCATTGTGTGA
3485145 CTCAGGCATT
Statistics
Matches: 162, Mismatches: 50, Indels: 5
0.75 0.23 0.02
Matches are distributed among these distances:
44 88 0.54
45 58 0.36
46 16 0.10
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (44 bp):
TAGGCATTGCGTGATTAATTTTTAGGCATTGTGTGATTGGTTAA
Found at i:3484996 original size:133 final size:133
Alignment explanation
Indices: 3484837--3485076 Score: 306
Period size: 133 Copynumber: 1.8 Consensus size: 133
3484827 GGGTAACCAA
* * * * * *
3484837 TTTTTAGGCATTACGTGACTTGTTTTTAG-AGCATTTCATCACTAGTT-TTTAGGCATTGCGTTA
1 TTTTTAGGCATTACGTGACTTGTTTTTAGTA--ATTGCATCACTAGTTAATAAGGCATTACATGA
* * * *
3484900 TTAATTTTTAGGCATTGTGTGATTGGTTGATAGGTATTGCGTGATTGGTTTTTAGTCATTACGTG
64 CTAATTTTTAAGCATTGTGTGATTGGTTAATAGGCATTGCGTGATTGGTTTTTAGTCATTACGTG
3484965 ATTGG
129 ATTGG
** *
3484970 TTTTTAGGCATTGTGTGA-TTGATTTTTAGTAATTGCATGACTAGTTAATAAGGCATTACATGAC
1 TTTTTAGGCATTACGTGACTTG-TTTTTAGTAATTGCATCACTAGTTAATAAGGCATTACATGAC
*
3485034 TAATTTTTAAGCATTGTGTGATTGGTTAATAGGCGTTGCGTGA
65 TAATTTTTAAGCATTGTGTGATTGGTTAATAGGCATTGCGTGA
3485077 CTAATTAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
132 16 0.18
133 73 0.81
134 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.45
Consensus pattern (133 bp):
TTTTTAGGCATTACGTGACTTGTTTTTAGTAATTGCATCACTAGTTAATAAGGCATTACATGACT
AATTTTTAAGCATTGTGTGATTGGTTAATAGGCATTGCGTGATTGGTTTTTAGTCATTACGTGAT
TGG
Found at i:3485005 original size:66 final size:66
Alignment explanation
Indices: 3484881--3485076 Score: 187
Period size: 66 Copynumber: 3.0 Consensus size: 66
3484871 TTCATCACTA
* * *
3484881 GTTTTTAGGCATTGCGTTATTAATTTTTAGGCATTGTGTGATTGGTTGATAGGTATTGCGTGATT
1 GTTTTTAGGCATTACGTGATTAATTTTTAGGCATTGTGTGATTGATTGATAGGTATTGCGTGATT
3484946 G
66 G
* ** ** * *
3484947 GTTTTTAGTCATTACGTGATTGGTTTTTAGGCATTGTGTGATTGATTTTTA-GTAATTGCATGAC
1 GTTTTTAGGCATTACGTGATTAATTTTTAGGCATTGTGTGATTGATTGATAGGT-ATTGCGTGAT
*
3485011 TA
65 TG
* * * * * * * **
3485013 GTTAATAAGGCATTACATGACTAATTTTTAAGCATTGTGTGATTGGTTAATAGGCGTTGCGTGA
1 GTT-TTTAGGCATTACGTGATTAATTTTTAGGCATTGTGTGATTGATTGATAGGTATTGCGTGA
3485077 CTAATTAATA
Statistics
Matches: 102, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
65 2 0.02
66 55 0.54
67 44 0.43
68 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.26, T:0.44
Consensus pattern (66 bp):
GTTTTTAGGCATTACGTGATTAATTTTTAGGCATTGTGTGATTGATTGATAGGTATTGCGTGATT
G
Done.