Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 147 of 362
Found at i:49009269 original size:41 final size:41
Alignment explanation
Indices: 49009168--49009283 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 41
49009158 ACTCGGATGA
49009168 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
49009209 T-TCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
49009249 TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
49009284 AGTTATATCC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 38 0.55
41 31 0.45
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:49011018 original size:14 final size:15
Alignment explanation
Indices: 49011001--49011029 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49010991 ATACGAAAAT
49011001 TTCACACAT-ATAAA
1 TTCACACATAATAAA
49011015 TTCACACATAATAAA
1 TTCACACATAATAAA
49011030 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:49012812 original size:79 final size:79
Alignment explanation
Indices: 49012723--49012888 Score: 287
Period size: 79 Copynumber: 2.1 Consensus size: 79
49012713 TGAGAATCAA
* * *
49012723 AATCAAAATCAGTAACAGAATTAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCA
1 AATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAATCA
*
49012788 GAATTAGGTGACAG
66 GAATTACGTGACAG
*
49012802 AATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAAAAGAATCAGAATCAGAATCA
1 AATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAATCA
49012867 GAATTACGTGACAG
66 GAATTACGTGACAG
49012881 AATCAGAA
1 AATCAGAA
49012889 ACAGAATGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (79 bp):
AATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAATCA
GAATTACGTGACAG
Found at i:49012888 original size:6 final size:6
Alignment explanation
Indices: 49012715--49012870 Score: 126
Period size: 6 Copynumber: 25.8 Consensus size: 6
49012705 AACCAAAATG
* * * *
49012715 AGAATC AAAATC AAAATC AGTAA-C AGAATT AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
49012763 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
49012812 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-A AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
49012860 AGAATC AGAAT
1 AGAATC AGAAT
49012871 TACGTGACAG
Statistics
Matches: 122, Mismatches: 15, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
5 10 0.08
6 102 0.84
7 8 0.07
8 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:49013476 original size:27 final size:26
Alignment explanation
Indices: 49013397--49013479 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
49013387 TCGATCAGTC
* * *
49013397 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
49013423 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
49013450 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
49013477 AAC
1 AAC
49013480 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:49013709 original size:27 final size:27
Alignment explanation
Indices: 49013679--49013873 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
49013669 GGGCAAAATG
* * *
49013679 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
49013706 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
49013733 GTATTTCTACCCTATAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
49013759 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
49013787 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
49013814 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
49013841 GAAATTCTACCCTACAGGGGTATTTAA
1 GTAATTCTACCCTACAAGGGTATTTCA
49013868 GTAATT
1 GTAATT
49013874 TCACAATCAA
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:49013872 original size:81 final size:81
Alignment explanation
Indices: 49013680--49013873 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 81
49013670 GGCAAAATGG
* * * * * * * *
49013680 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
49013745 TATAAGGGTATTTCGA
66 TATAAGGGTATTTCGA
** * *
49013761 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
*
49013826 TATAGGGGTATTTCGGA
66 TATAAGGGTATTTC-GA
49013843 -AATTCTACCCTACAGGGGTATTTAAGTAATT
1 TAATTCTACCCTACAGGGGTATTTAAGTAATT
49013874 TCACAATCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 96 0.98
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TATAAGGGTATTTCGA
Found at i:49013908 original size:27 final size:27
Alignment explanation
Indices: 49013883--49014635 Score: 929
Period size: 27 Copynumber: 27.9 Consensus size: 27
49013873 TTCACAATCA
49013883 AGGGTAAAACGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
** *
49013910 AGGGTAAAACAATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* * * *
49013937 AGGGTAAACCAGTAATTTTGTAAA-TCA
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
49013964 AGGGTAAAACGGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTA-AACT-G
*
49013991 AGGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
**
49014018 AGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014045 AGGGTAAAATGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014072 AGGGTAAAACGGTAATTCTATAAA-TCA
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
49014099 AGGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* **
49014126 AGGGTAAAACAGTAATTCTGTAAAAGG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014153 ATGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
*
49014180 AGGGTAAAACGGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
49014207 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014234 AGGGTAAAACGATAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
49014261 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014288 AGGGTAAAACGGTAATTCTATAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* *
49014315 AGGGTAAAACAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014342 AGGGTAAAACGGTAATACTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014369 AGGGTAAAACGATAATTCTGTCAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014396 AGGGTAAAGCGGTAATTCTTTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014423 AGGGTAAAATGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
* * *
49014450 AGGGTAAAATGGTAATTTTGTAAACTA
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014477 AGGGTAAAACGGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
* *
49014504 AGGGTAAAATGGTAATTTTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
49014531 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
*
49014558 AGGGTAAAATGGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAACT-G
**
49014585 AGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAACTG
49014612 AGGGTAAAACGGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAA
49014636 TCGGGAGTAC
Statistics
Matches: 643, Mismatches: 62, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.00
26 10 0.02
27 618 0.96
28 11 0.02
29 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAACTG
Found at i:49016689 original size:30 final size:30
Alignment explanation
Indices: 49016655--49016841 Score: 208
Period size: 30 Copynumber: 6.4 Consensus size: 30
49016645 AACCAAAATG
* *
49016655 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
49016685 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
49016715 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
* * *
49016740 AAAATCAGAATCAGAATCAGTAACAGAATT
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
49016770 AGAATCAGAATCAGTATTAGTAAAAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
49016800 AGAATCAGAATCAGAATTACGTGACAGAATA
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
49016831 AGAAACAGAAT
1 AGAATCAGAAT
49016842 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.02
25 18 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 86 0.65
31 21 0.16
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:49016774 original size:85 final size:85
Alignment explanation
Indices: 49016661--49016841 Score: 299
Period size: 85 Copynumber: 2.1 Consensus size: 85
49016651 AATGAGAATT
*
49016661 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAAT
* *
49016726 CAGAATTAGGTGACAAAATC
66 CAGAATTACGTGACAAAATA
* *
49016746 AGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAGTATTAGTAAAAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAAT
*
49016811 CAGAATTACGTGACAGAATA
66 CAGAATTACGTGACAAAATA
*
49016831 AGAAACAGAAT
1 AGAATCAGAAT
49016842 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAATCAGAAT
CAGAATTACGTGACAAAATA
Found at i:49016834 original size:6 final size:6
Alignment explanation
Indices: 49016655--49016816 Score: 138
Period size: 6 Copynumber: 26.8 Consensus size: 6
49016645 AACCAAAATG
* *
49016655 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
49016703 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
49016752 AGAATC AGTAA-C AGAATT AGAATC AGAATC AGTATT AGTAA-A AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
49016800 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
49016817 TACGTGACAG
Statistics
Matches: 127, Mismatches: 16, Indels: 26
0.75 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 108 0.85
7 7 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:49017245 original size:22 final size:22
Alignment explanation
Indices: 49017197--49017255 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
49017187 GTAAATACGT
*
49017197 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
49017219 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
49017241 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
49017256 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:49017425 original size:27 final size:26
Alignment explanation
Indices: 49017343--49017419 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
49017333 TCGATCAGTC
* * *
49017343 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
49017369 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
49017396 AACAGATATTTGTGGCATAGCCAC
1 AACAGATA-TTGTGGCAGAGCCAC
49017420 ATGAACGCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 8 0.18
27 37 0.82
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:49017691 original size:27 final size:27
Alignment explanation
Indices: 49017626--49017784 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
49017616 GGCAAAATGG
* * * *
49017626 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
49017653 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
49017680 TAATTCTACCCTATAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
49017707 TAATTCTATCCTATAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
49017733 GTAATTCTACCTTATAGGGGTATTTCAGA
1 -TAATTCTACCCTACAAGGGTATTTC-GA
* *
49017762 -AATTCTACCCTGCAGGGGTATTT
1 TAATTCTACCCTACAAGGGTATTT
49017785 TAGTAATTTC
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 108 0.99
29 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:49017725 original size:81 final size:81
Alignment explanation
Indices: 49017640--49017792 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
49017630 TTTACCCCAC
* * *
49017640 AAGGGTATCTCGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATAGGGGTATTT
1 AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGA-AATTCTACCCTACAGGGGTATTT
*
49017704 TGGTAATTCTATCCTAT
65 TAGTAATTCTATCCTAT
* * * * *
49017721 AAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCAGAAATTCTACCCTGCAGGGGTATTTT
1 AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTT
49017786 AGTAATT
66 AGTAATT
49017793 TCACAATCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (81 bp):
AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTT
AGTAATTCTATCCTAT
Found at i:49017790 original size:54 final size:54
Alignment explanation
Indices: 49017656--49017792 Score: 168
Period size: 54 Copynumber: 2.5 Consensus size: 54
49017646 ATCTCGGTAT
* ** *
49017656 TTCTACCCTACAAGGGTA-TTTCGATAATTCTACCCTATAGGGGTATTTTGGTAA
1 TTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTATAGGGGTATTTCAGAAA
* * * *
49017710 TTCTATCCTATAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCAGAAA
1 TTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAGAAA
* *
49017764 TTCTACCCTGCAGGGGTATTTTAGTAATT
1 TTCTACCCTACAAGGGTATTTTAGTAATT
49017793 TCACAATCAA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
54 66 0.96
55 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (54 bp):
TTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAGAAA
Found at i:49017792 original size:27 final size:27
Alignment explanation
Indices: 49017656--49017792 Score: 150
Period size: 27 Copynumber: 5.1 Consensus size: 27
49017646 ATCTCGGTAT
* * *
49017656 TTCTACCCTACAAGGGTA-TTTCGATAA
1 TTCTACCCTATAGGGGTATTTTAG-TAA
*
49017683 TTCTACCCTATAGGGGTATTTTGGTAA
1 TTCTACCCTATAGGGGTATTTTAGTAA
* * *
49017710 TTCTATCCTATAAGGGTATTTCAGTAA
1 TTCTACCCTATAGGGGTATTTTAGTAA
* * *
49017737 TTCTACCTTATAGGGGTATTTCAGAAA
1 TTCTACCCTATAGGGGTATTTTAGTAA
**
49017764 TTCTACCCTGCAGGGGTATTTTAGTAA
1 TTCTACCCTATAGGGGTATTTTAGTAA
49017791 TT
1 TT
49017793 TCACAATCAA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 89 0.96
28 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
TTCTACCCTATAGGGGTATTTTAGTAA
Found at i:49017827 original size:27 final size:27
Alignment explanation
Indices: 49017797--49018626 Score: 978
Period size: 27 Copynumber: 30.9 Consensus size: 27
49017787 GTAATTTCAC
*
49017797 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
49017824 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
49017851 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
49017878 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
49017905 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49017932 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
49017959 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
49017986 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018013 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018040 AAT-----GTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
49018062 AATTAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018089 AACCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
49018116 AA-CTGAGGGTAAAATGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018143 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
49018170 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49018197 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49018224 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
49018251 AA-CTGAGGGTAAAACAATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
49018278 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
49018305 AATTAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018332 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
49018359 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018386 AATCGAGGGTAAAACTGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
49018413 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018440 AATCGAGGGTAAAATGGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018466 AACCTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018494 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018521 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
49018548 AA-CTGGGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49018575 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
49018602 AA-CTGAAGGTAAAACGGTAATTCTG
1 AATC-GAGGGTAAAACGGTAATTCTG
49018627 GAGTACTTTG
Statistics
Matches: 707, Mismatches: 73, Indels: 46
0.86 0.09 0.06
Matches are distributed among these distances:
22 20 0.03
26 10 0.01
27 669 0.95
28 8 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:49020650 original size:6 final size:6
Alignment explanation
Indices: 49020639--49020807 Score: 170
Period size: 6 Copynumber: 27.8 Consensus size: 6
49020629 AACCAAAATG
*
49020639 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
49020687 AGTAA-C AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
49020736 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
*
49020784 ACGTGAT- AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
49020808 GTGAATGCAA
Statistics
Matches: 138, Mismatches: 11, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
5 10 0.07
6 115 0.83
7 9 0.07
8 4 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:49020995 original size:27 final size:27
Alignment explanation
Indices: 49020925--49020998 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
49020915 AGCATGGCTG
*
49020925 CCAGAAT-AGAT-ATCGTGACAGAGTCC
1 CCAGAATCAGATAAT-GTGGCAGAGTCC
*
49020951 CCAG-ATACAGATATTGTGGCAGAG-CC
1 CCAGAAT-CAGATAATGTGGCAGAGTCC
49020977 ACCAGAATCAGATAATGTGGCA
1 -CCAGAATCAGATAATGTGGCA
49020999 AACCCAGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 29 0.73
28 3 0.08
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGTCC
Found at i:49021211 original size:22 final size:22
Alignment explanation
Indices: 49021163--49021221 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
49021153 GTAAATACGT
*
49021163 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
49021185 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
49021207 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
49021222 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:49021388 original size:27 final size:26
Alignment explanation
Indices: 49021309--49021391 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
49021299 TCGATCGGTC
* * *
49021309 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
49021335 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
49021362 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
49021389 AAC
1 AAC
49021392 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:49021620 original size:27 final size:27
Alignment explanation
Indices: 49021590--49021784 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
49021580 GGGGCAAAAT
* * *
49021590 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49021617 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49021644 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
49021671 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49021698 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
49021725 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49021752 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49021778 AGTAATT
1 GGTAATT
49021785 TCACAATCAA
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 24 0.17
27 120 0.83
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49021825 original size:52 final size:52
Alignment explanation
Indices: 49021794--49022188 Score: 531
Period size: 52 Copynumber: 7.5 Consensus size: 52
49021784 TTCACAATCA
49021794 AGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAA-TTT-TAAACTG
* * * * *
49021847 AGGGTAAACCAGTAATTCTATAAATCAAGGGTAAAACAGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA-AACT-G
49021901 AGGGTAAAACGGTAATTCTGTAAATCGAGGGT-AAA-AGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATT-T-TAAACTG
* *
49021953 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTAAACTG
49022005 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATT-T-TAAACTG
49022059 AGGGTAAAACGGTAATTCTGTAAAT-GAGGGT-AAA-AGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATT-T-TAAACTG
49022110 AGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAA-AGTAATTCTGTAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATT-T-TAAACT-G
49022162 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
49022189 GAGTACTTTG
Statistics
Matches: 314, Mismatches: 14, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
50 7 0.02
51 40 0.13
52 129 0.41
53 40 0.13
54 97 0.31
55 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (52 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTAAACTG
Found at i:49021843 original size:27 final size:27
Alignment explanation
Indices: 49021789--49022188 Score: 506
Period size: 27 Copynumber: 15.2 Consensus size: 27
49021779 GTAATTTCAC
*
49021789 AATCAAGGGTAAAAC-GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
49021815 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
49021842 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
49021869 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49021896 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49021923 AATCGAGGGTAAAA--GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49021948 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
49021975 AATCGAGGGTAAAATAGTAATTC--TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49022000 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49022027 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49022054 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49022081 AAT-GAGGGTAAAA--GTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49022105 AA-CTGAGGGTAAAACGGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
49022131 AATCGAGGGTAAAA-AGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49022157 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
49022184 AATCG
1 AATCG
49022189 GAGTACTTTG
Statistics
Matches: 327, Mismatches: 27, Indels: 39
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.04
25 60 0.18
26 59 0.18
27 191 0.58
28 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:49021860 original size:79 final size:77
Alignment explanation
Indices: 49021777--49022178 Score: 385
Period size: 79 Copynumber: 5.1 Consensus size: 77
49021767 AGGGGTATTT
* *
49021777 CAGTAATTTCACAATCAAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGT
1 CAGTAATTTCA-AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGT
49021841 AAACTGAGGGTAAA
65 AAA-TGAGGGTAAA
* * * ** *
49021855 CCAGTAATTCTATAAATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCT
1 -CAGTAATT-T-CAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCT
49021920 GTAAATCGAGGGTAAA
63 GTAAAT-GAGGGTAAA
* * *
49021936 -AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTC
1 CAGTAATT-T-CAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTC
49021998 --TAAACTGAGGGTAAAA
62 TGTAAA-TGAGGGT-AAA
* * *
49022014 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCT
1 CAGTAATT-T-CAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCT
49022078 GTAAATGAGGGTAAA
63 GTAAATGAGGGTAAA
* * *
49022093 -AGTAA-TTCTATAAACTGAGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAAAG-TAATTCT
1 CAGTAATTTC-A-AATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCT
49022154 GTAAATCGAGGGTAAAA
63 GTAAAT-GAGGGT-AAA
*
49022171 CGGTAATT
1 CAGTAATT
49022179 CTGTAAATCG
Statistics
Matches: 277, Mismatches: 24, Indels: 43
0.81 0.07 0.12
Matches are distributed among these distances:
76 15 0.05
77 37 0.13
78 31 0.11
79 119 0.43
80 26 0.09
81 49 0.18
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (77 bp):
CAGTAATTTCAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
AATGAGGGTAAA
Found at i:49027320 original size:47 final size:47
Alignment explanation
Indices: 49027261--49027382 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
49027251 GCATTGGCAC
49027261 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
49027308 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
49027355 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
49027383 CGAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:49027325 original size:95 final size:92
Alignment explanation
Indices: 49027127--49027382 Score: 221
Period size: 95 Copynumber: 2.7 Consensus size: 92
49027117 ATTGACGGTT
** * * *
49027127 AAGGATACCATGTAAGACCATGTCAAGATATGGCATTGGTAAGGCAAGGATCCCATGTACGACCA
1 AAGGATACCATGTAAGACCACATCAAGATATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
* *
49027192 TGTCAACACATGGCATCGGCATTGATT
66 TGTCAACACATGGCATCGGCATAGATC
** *
49027219 AAGGACCCCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAAGA
1 AAGGATACCATGTAAGACCACATCAAGATATGGCATTGG---TAAGACAAGGATACCATGTAAGA
** * *
49027284 CCATGTTTGGA-ACATGGCATTTGGTA-AGA-C
63 CCATG--TCAACACATGGCA-TCGGCATAGATC
** *** * * *
49027314 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCACATCAAG-ATATGGCA-TTGGTAAGACAAGGATACCATGTAAGAC
49027379 CATG
64 CATG
49027383 CGAAGGCATG
Statistics
Matches: 131, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
92 34 0.26
94 26 0.20
95 45 0.34
96 16 0.12
97 10 0.08
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (92 bp):
AAGGATACCATGTAAGACCACATCAAGATATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCAACACATGGCATCGGCATAGATC
Found at i:49027430 original size:54 final size:53
Alignment explanation
Indices: 49027361--49027524 Score: 195
Period size: 55 Copynumber: 3.0 Consensus size: 53
49027351 TTGGTAAGAT
*
49027361 AAGGATATCATGTAAGACCATGCGAAGGCATGGCATTGATAAGTTCTATAAGGCA
1 AAGGA-ATCATGTAAGACCATGC-AAGGCATGGCATTGATGAGTTCTATAAGGCA
* * *
49027416 AGGGAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTT-CTATAAGGCA
*** * *
49027471 AAGGTCCCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCA
1 AAGGAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTTCTATAAGGCA
49027524 A
1 A
49027525 CGATACGATG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 8 0.09
54 36 0.38
55 50 0.53
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (53 bp):
AAGGAATCATGTAAGACCATGCAAGGCATGGCATTGATGAGTTCTATAAGGCA
Found at i:49027502 original size:55 final size:54
Alignment explanation
Indices: 49027369--49027556 Score: 191
Period size: 55 Copynumber: 3.5 Consensus size: 54
49027359 ATAAGGATAT
* * * * *
49027369 CATGTAAGACCATGCGAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGGAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
* * **
49027423 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGAAAAGGAAC
* * * *
49027478 CATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-CAACGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGA-AC
* * * *
49027531 GATGCAAGACCATGTCAAGACATGGC
1 CATGTAAGACCATGCCAAGGCATGGC
49027557 GATGGTAAGT
Statistics
Matches: 110, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.03
53 28 0.25
54 34 0.31
55 45 0.41
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
Found at i:49027690 original size:16 final size:17
Alignment explanation
Indices: 49027671--49027703 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49027661 CTTATTTAAT
*
49027671 ATTGATATTAT-AAGTA
1 ATTGAGATTATCAAGTA
49027687 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
49027704 TTAAGTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:49029520 original size:80 final size:81
Alignment explanation
Indices: 49029387--49029547 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 81
49029377 GATAATGTGA
49029387 ATTCAGTAATGACAGAATTAGATAGAGGAATAATAATTGACCCGTATTAATAGTTGAATGTAGAG
1 ATTCAGTAATGACAGAATTAGATAGAGGAATAATAATTGACCCGTATTAATAGTTGAATGTAGAG
49029452 TTTATAG-TGAGAAAT
66 TTTATAGTTGAGAAAT
49029467 ATTCAGTAATGACAGAATTAGATAGAGGAATAATAATTGACCCGTATTAATAGTTGAATGTAGAG
1 ATTCAGTAATGACAGAATTAGATAGAGGAATAATAATTGACCCGTATTAATAGTTGAATGTAGAG
49029532 TTTATAGTTGAGAAAT
66 TTTATAGTTGAGAAAT
49029548 TATAGAAAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 72 0.90
81 8 0.10
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
ATTCAGTAATGACAGAATTAGATAGAGGAATAATAATTGACCCGTATTAATAGTTGAATGTAGAG
TTTATAGTTGAGAAAT
Found at i:49031022 original size:19 final size:19
Alignment explanation
Indices: 49030998--49031035 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49030988 TTCAAGTATC
49030998 TTAGAAGCTATTATAGTTA
1 TTAGAAGCTATTATAGTTA
49031017 TTAGAAGCTATTATAGTTA
1 TTAGAAGCTATTATAGTTA
49031036 GTATTGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TTAGAAGCTATTATAGTTA
Found at i:49033505 original size:47 final size:46
Alignment explanation
Indices: 49033386--49033506 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 46
49033376 CATTGGCACC
* *
49033386 AAGACAAGGATACTATGTAAGACAATGTTTGGAACATGGCATTTGGT
1 AAGACAAGGATAC-ATGTAAGACCATGTTTGGAACATGACATTTGGT
*
49033433 AAGACAAGGATACCATGTAAAACCATGTTTGGAACATGACATTTGGT
1 AAGACAAGGATA-CATGTAAGACCATGTTTGGAACATGACATTTGGT
*
49033480 AAGATAAGGATATCATGTAAGACCATG
1 AAGACAAGGATA-CATGTAAGACCATG
49033507 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 66 0.99
48 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (46 bp):
AAGACAAGGATACATGTAAGACCATGTTTGGAACATGACATTTGGT
Found at i:49033549 original size:54 final size:55
Alignment explanation
Indices: 49033485--49033590 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
49033475 TTGGTAAGAT
* *
49033485 AAGGATATCATGTAAGACCATGCCAAGGCATGCCATTGATAAGTT-CTATAAAGC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAAAGC
* * *
49033539 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAA
1 AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAA
49033591 GGAAAATGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 40 0.87
55 6 0.13
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (55 bp):
AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAAAGC
Found at i:49033711 original size:108 final size:109
Alignment explanation
Indices: 49033505--49033711 Score: 260
Period size: 108 Copynumber: 1.9 Consensus size: 109
49033495 TGTAAGACCA
*
49033505 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGTAAGACCATGTCAAGACAT
1 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACAT
* * * *
49033570 GGCATTGATGAGTTACTATAAGGAAAATGTCCCATATAAAACCG
66 GGCAATGATAAGTTACTAAAAGGAAAAGGTCCCATATAAAACCG
* * * * *
49033614 TGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATA-CGATGCAAGACCATGTCAAGACA
1 TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATC-ATGCAAGACCATGTCAAGACA
*
49033677 TGGCAATGGTAAGTT-C-AAAATGGAAAAGGATCCCA
65 TGGCAATGATAAGTTACTAAAA-GGAAAAGG-TCCCA
49033712 AGTAATCCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
106 3 0.04
107 9 0.11
108 49 0.58
109 23 0.27
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
TGCCAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACAT
GGCAATGATAAGTTACTAAAAGGAAAAGGTCCCATATAAAACCG
Found at i:49033935 original size:22 final size:22
Alignment explanation
Indices: 49033910--49033953 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49033900 TACACCAAAA
* *
49033910 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
49033932 TAGGCCTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
49033954 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:49034089 original size:43 final size:43
Alignment explanation
Indices: 49034025--49034187 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
49034015 GCGTCGCTAA
* * *
49034025 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
*
49034068 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* * *
49034111 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* **
49034154 TTTTAGCGGCGCTTTTCAAACAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAA
49034188 AATATATCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
Found at i:49037599 original size:14 final size:14
Alignment explanation
Indices: 49037580--49037616 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49037570 TAAAACCCTA
*
49037580 AATCCCTAACTCCT
1 AATCCCTAACTCAT
49037594 AATCCCTAACTCAT
1 AATCCCTAACTCAT
*
49037608 AACCCCTAA
1 AATCCCTAA
49037617 ACCTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAACTCAT
Found at i:49037632 original size:21 final size:21
Alignment explanation
Indices: 49037572--49037648 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
49037562 CCGACCCTTA
*
49037572 AAACCCTAAATCCCTAACTCCT
1 AAACCCTAAATCCC-AACCCCT
* * **
49037594 AATCCCTAACTCATAACCCCT
1 AAACCCTAAATCCCAACCCCT
* *
49037615 AAACCTTAAATCCCAACCCTT
1 AAACCCTAAATCCCAACCCCT
*
49037636 AAACCAT-AATCCC
1 AAACCCTAAATCCC
49037649 TAAATCTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 6 0.14
21 27 0.63
22 10 0.23
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCCCAACCCCT
Found at i:49038816 original size:39 final size:38
Alignment explanation
Indices: 49038754--49038888 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
49038744 TGTGCTTGGG
* ** * * *
49038754 TTTTTTGCGGCGCTTTTTGAAAAATGCCACTAATGTTCA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATGTTGA
* *
49038793 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATACTGGA
1 TTTTTAGCGGCGTTTTCC-AAAAACGCCGCTAAT-GTTGA
* * *
49038833 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATG-TTGA
49038873 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
49038889 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCCAAAAACGCCGCTAATGTTGA
Found at i:49038889 original size:40 final size:41
Alignment explanation
Indices: 49038773--49038889 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
49038763 GCGCTTTTTG
* * *
49038773 AAAAATGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * *
49038812 AAAAACGCCGCTAATACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* *
49038852 TAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
49038890 TGTTCAAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.20
40 46 0.71
41 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:49041100 original size:14 final size:16
Alignment explanation
Indices: 49041070--49041106 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
49041060 ACTTTACTTG
49041070 TGTATA-AGATGATTA
1 TGTATATAGATGATTA
49041085 TGT-TATAGAT-ATTA
1 TGTATATAGATGATTA
49041099 TGTATATA
1 TGTATATA
49041107 TGTAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (16 bp):
TGTATATAGATGATTA
Found at i:49043264 original size:55 final size:55
Alignment explanation
Indices: 49043175--49043280 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
49043165 CCGGGCTAAA
* *
49043175 GACCTGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTCCGG
1 GACCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGACCCGCAGGCTCCGG
*
49043230 GACCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCT
1 GACCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGACCCGCAGGCT
49043281 TCGCGCTGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (55 bp):
GACCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGACCCGCAGGCTCCGG
Found at i:49043314 original size:38 final size:39
Alignment explanation
Indices: 49043232--49043319 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
49043222 GGCTCCGGGA
* *
49043232 CCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGT
1 CCCGCAGGCTTCGCGCTAGAAATGTATCCGAGCTAAAGT
*
49043271 CCCGCAGGCTTCGCGCTGGAAATGTAT-CGAGCTAAAGT
1 CCCGCAGGCTTCGCGCTAGAAATGTATCCGAGCTAAAGT
*
49043309 TCCGCAGGCTT
1 CCCGCAGGCTT
49043320 TGTGCTGGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 20 0.44
39 25 0.56
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (39 bp):
CCCGCAGGCTTCGCGCTAGAAATGTATCCGAGCTAAAGT
Found at i:49043327 original size:38 final size:39
Alignment explanation
Indices: 49043232--49043327 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 39
49043222 GGCTCCGGGA
* *
49043232 CCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGT
1 CCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGT
*
49043271 CCCGCAGGCTTCGCGCTGGAAATGTAT-CGAGCTAAAGT
1 CCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGT
* *
49043309 TCCGCAGGCTTTGTGCTGG
1 CCCGCAGGCTTCGTGCTGG
49043328 TAATATAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 26 0.51
39 25 0.49
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (39 bp):
CCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGT
Found at i:49069611 original size:16 final size:18
Alignment explanation
Indices: 49069574--49069612 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
49069564 TTAAGAACAG
49069574 GAAAAGAAACAAAGAAAC
1 GAAAAGAAACAAAGAAAC
49069592 --AAAGAAA-AAA-AAAC
1 GAAAAGAAACAAAGAAAC
49069606 GAAAAGA
1 GAAAAGA
49069613 GAAAGGGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.21
15 3 0.16
16 12 0.63
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (18 bp):
GAAAAGAAACAAAGAAAC
Found at i:49070487 original size:40 final size:41
Alignment explanation
Indices: 49070414--49070499 Score: 140
Period size: 40 Copynumber: 2.1 Consensus size: 41
49070404 GTGAGCTTAC
*
49070414 ATGAGCTGGTGTAGAGTACTCTGAGGTATCTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAGCTATCTTGAGCTGAAG
49070455 ATGAGCTGG-GTAGAGTACTCTGAGCTGA-CTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAGCT-ATCTTGAGCTGAAG
49070495 ATGAG
1 ATGAG
49070500 TTGCATATAC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
40 33 0.77
41 10 0.23
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.27
Consensus pattern (41 bp):
ATGAGCTGGTGTAGAGTACTCTGAGCTATCTTGAGCTGAAG
Found at i:49070519 original size:40 final size:40
Alignment explanation
Indices: 49070425--49070520 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
49070415 TGAGCTGGTG
* * **
49070425 TAGAGTACTCTGAGGT-ATCTTGAGCTGAAGATGAGCTGGG
1 TAGAGCACTCTGAGCTGA-CTTGAGCTGAAGATGAGCTGCA
* *
49070465 TAGAGTACTCTGAGCTGACTTGAGCTGAAGATGAGTTGCA
1 TAGAGCACTCTGAGCTGACTTGAGCTGAAGATGAGCTGCA
*
49070505 TATA-CACTCTTGAGCT
1 TAGAGCACTC-TGAGCT
49070521 AGTGTCCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.08
40 43 0.90
41 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (40 bp):
TAGAGCACTCTGAGCTGACTTGAGCTGAAGATGAGCTGCA
Found at i:49075058 original size:16 final size:14
Alignment explanation
Indices: 49075023--49075052 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49075013 TTGTGTTTTG
49075023 TTGTTTTTTTTAAC
1 TTGTTTTTTTTAAC
*
49075037 TTGTTTTTTTTTAC
1 TTGTTTTTTTTAAC
49075051 TT
1 TT
49075053 TTGTTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (14 bp):
TTGTTTTTTTTAAC
Found at i:49075269 original size:19 final size:20
Alignment explanation
Indices: 49075241--49075290 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
49075231 CGATCTTAAG
*
49075241 AACAAGAAAAGAAACAAAGA
1 AACAAGAAAAGAAAAAAAGA
49075261 AACAA-AAAAGAAAAAAAGA
1 AACAAGAAAAGAAAAAAAGA
49075280 AA-AGAGAAAAG
1 AACA-AGAAAAG
49075291 GGTTGAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (20 bp):
AACAAGAAAAGAAAAAAAGA
Found at i:49075999 original size:41 final size:41
Alignment explanation
Indices: 49075951--49076031 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
49075941 CTGACATGTG
*
49075951 CTGGTGTAGAGTACTCTAAGCT-ATCTTGAGCTGAAGATGAC
1 CTGGTGTAGAGTACTCTAAGCTGA-CTTGAGCTAAAGATGAC
**
49075992 CTGGTGTAGAGTACTCTGTGCTGACTTGAGCTAAAGATGA
1 CTGGTGTAGAGTACTCTAAGCTGACTTGAGCTAAAGATGA
49076032 GCTGCATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (41 bp):
CTGGTGTAGAGTACTCTAAGCTGACTTGAGCTAAAGATGAC
Found at i:49086795 original size:25 final size:24
Alignment explanation
Indices: 49086763--49086814 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
49086753 GGTTCAAGCA
* *
49086763 AGCCATATTAGGAAGCTCAAAAAG
1 AGCCATATCAAGAAGCTCAAAAAG
* *
49086787 AGCCTATATCAAGACGCTCATAAAG
1 AGCC-ATATCAAGAAGCTCAAAAAG
49086812 AGC
1 AGC
49086815 TGCGTTTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (24 bp):
AGCCATATCAAGAAGCTCAAAAAG
Found at i:49094044 original size:31 final size:31
Alignment explanation
Indices: 49094001--49094086 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
49093991 TCAAGCTCAG
49094001 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
**
49094031 CATATCACTGGGCCGAAGCCTTTTTATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
49094062 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
49094087 TATAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:49094346 original size:26 final size:25
Alignment explanation
Indices: 49094308--49094374 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 25
49094298 TTTAATAACC
*
49094308 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
49094333 GGGGCAAAAGCCCTTTTCGGTAAACT
1 GGGGC-AAAGCCCTTTTCGATAAACT
49094359 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
49094375 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 16 0.41
26 23 0.59
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:49094349 original size:25 final size:24
Alignment explanation
Indices: 49094291--49094375 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 24
49094281 CTGGAGGCCT
* *
49094291 AGCCTCTTTTAAT-AACCGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
49094315 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGC-AA
*
49094341 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
49094366 AGCCCTTTTG
1 AGCCCTTTTG
49094376 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 11 0.20
25 23 0.43
26 19 0.35
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:49096944 original size:93 final size:93
Alignment explanation
Indices: 49096785--49096955 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49096775 GCCCATAAGT
* * * *
49096785 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49096850 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
49096878 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49096943 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49096956 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49096952 original size:46 final size:46
Alignment explanation
Indices: 49096777--49096952 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
49096767 TGTAACCCGC
* * * *
49096777 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
49096823 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
49096873 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
49096916 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49096953 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.58
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49100893 original size:16 final size:17
Alignment explanation
Indices: 49100864--49100909 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
49100854 ATAATTTTTA
*
49100864 TTTATTTTTATTTCATC
1 TTTATTTATATTTCATC
*
49100881 TTTATTTAT-TTTCATG
1 TTTATTTATATTTCATC
*
49100897 TCTATTTATATTT
1 TTTATTTATATTT
49100910 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTATATTTCATC
Found at i:49102029 original size:26 final size:26
Alignment explanation
Indices: 49102000--49102107 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
49101990 TGATACAAAT
49102000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49102026 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49102052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49102078 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49102104 TGAT
1 TGAT
49102108 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49103761 original size:27 final size:26
Alignment explanation
Indices: 49103729--49103923 Score: 210
Period size: 27 Copynumber: 7.2 Consensus size: 26
49103719 AGGAAGCGTC
* *
49103729 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
49103756 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
49103783 CTGGTGGCTATGCCATGATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
*
49103810 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
49103837 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
49103864 TTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
49103891 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACATTATCT-GAT
49103918 CTGGTG
1 CTGGTG
49103924 ACTTCGTCAC
Statistics
Matches: 140, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 10 0.07
27 126 0.90
28 4 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:49103811 original size:54 final size:54
Alignment explanation
Indices: 49103729--49103923 Score: 302
Period size: 54 Copynumber: 3.6 Consensus size: 54
49103719 AGGAAGCGTC
* *
49103729 CTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
* *
49103783 CTGGTGGCTATGCCATGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
*
49103837 CTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
* * *
49103891 CTGGTGGCTCTGCCAC-AATATCTATATCTGGTG
1 CTGGTGGCTATGCCACGATTATCT-GATCTGGTG
49103924 ACTTCGTCAC
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 6 0.05
54 123 0.95
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
Found at i:49110548 original size:44 final size:44
Alignment explanation
Indices: 49110487--49110643 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 44
49110477 TGTGTTATCG
*
49110487 TGTAAGACCACATCTGGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGTACTT-TGATTTACA
* * *
49110531 TGTAAGACCACGTCTGGGACGTTGGTATTGTAC-TTGATTT-CA
1 TGTAAGACCACATCTGGGACGTTGGCATCGTACTTTGATTTACA
* **
49110573 TGTAAGACC-CTATCTAGGACAATGGCATCGGTACTTT-A-TTACA
1 TGTAAGACCAC-ATCTGGGACGTTGGCATC-GTACTTTGATTTACA
*
49110616 TGAAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
49110644 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 35 0.38
44 31 0.33
45 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGTACTTTGATTTACA
Found at i:49131641 original size:40 final size:40
Alignment explanation
Indices: 49131582--49131832 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
49131572 CATTTGAATG
*
49131582 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
49131622 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
49131662 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
49131702 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
49131742 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * *
49131781 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
49131821 ATATCC-GGCTAA
1 ATATCCGGGCTAA
49131833 ATTCCGAAGA
Statistics
Matches: 186, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 42 0.23
40 142 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:49131826 original size:119 final size:120
Alignment explanation
Indices: 49131582--49131832 Score: 407
Period size: 119 Copynumber: 2.1 Consensus size: 120
49131572 CATTTGAATG
*
49131582 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* *
49131647 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
49131702 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * *
49131766 TTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
66 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
49131821 ATATCC-GGCTAA
1 ATATCCGGGCTAA
49131833 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 5 0.04
119 63 0.52
120 52 0.43
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:49133495 original size:15 final size:15
Alignment explanation
Indices: 49133471--49133500 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49133461 CTAATGTATT
49133471 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
49133486 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
49133501 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:49136038 original size:31 final size:31
Alignment explanation
Indices: 49135998--49136081 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
49135988 TTAGTCTTGA
49135998 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
49136028 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49136059 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49136082 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:49136152 original size:42 final size:42
Alignment explanation
Indices: 49136105--49136196 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
49136095 TGGCCCTTAG
* ** *
49136105 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
49136147 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
49136189 GCCTATTT
1 GCCCATTT
49136197 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:49137279 original size:27 final size:27
Alignment explanation
Indices: 49137188--49137271 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
49137178 GGGCATATTC
* *
49137188 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
49137215 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCACTTTACCCTACAGGGGCTTTACG
49137242 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49137269 GTC
1 GTC
49137272 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49137365 original size:28 final size:28
Alignment explanation
Indices: 49137333--49137386 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
49137323 GTAAATCTAC
49137333 AAACCAATGGTATTT-CAGTAATTTTTGT
1 AAACCAATGGTATTTCCA-TAATTTTTGT
49137361 AAACCAATGGTATTTCCATAATTTTT
1 AAACCAATGGTATTTCCATAATTTTT
49137387 AGAAAGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (28 bp):
AAACCAATGGTATTTCCATAATTTTTGT
Found at i:49137510 original size:81 final size:81
Alignment explanation
Indices: 49137422--49137656 Score: 339
Period size: 81 Copynumber: 2.9 Consensus size: 81
49137412 TTTATAAATC
*
49137422 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTT
*
49137487 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
*
49137503 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTT
* *
49137568 AGCAATTTTACAGACT
66 AGTAATTTTACAAACT
*** * * **
49137584 A-GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGTGGTATTT
49137647 TAGTAATTTT
65 TAGTAATTTT
49137657 GTAAATTGAG
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 61 0.44
81 78 0.56
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTT
AGTAATTTTACAAACT
Found at i:49137661 original size:27 final size:27
Alignment explanation
Indices: 49137311--49137656 Score: 248
Period size: 27 Copynumber: 12.7 Consensus size: 27
49137301 TTCATCCTAT
* * *
49137311 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* ** **
49137338 AATGGTATTTCAGTAATTTTTGTAAACC
1 AAGGGTATTTTGGTAA-TTTTACAAACC
* *** * *
49137366 AATGGTATTTCCATAATTTTTAGAAAGAC
1 AAGGGTATTTTGGTAA-TTTTACAAA-CC
* * *
49137395 AAGGGTATTTCT-GTAACTTTATAAATC
1 AAGGGTATTT-TGGTAATTTTACAAACC
* **
49137422 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
49137449 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
49137476 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACC
* **
49137503 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACC
* *
49137530 GAGGGTATTTCGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* * * *
49137557 AATGGTATTTTAGCAATTTTACAGA-C
1 AAGGGTATTTTGGTAATTTTACAAACC
* *** *
49137583 TAGGGTATTTTGGTAATTTTATTGATC
1 AAGGGTATTTTGGTAATTTTACAAACC
* **
49137610 GAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
*
49137637 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
49137657 GTAAATTGAG
Statistics
Matches: 254, Mismatches: 58, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
26 23 0.09
27 181 0.71
28 37 0.15
29 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACC
Found at i:49137677 original size:27 final size:27
Alignment explanation
Indices: 49137647--49137741 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
49137637 AAGGGTATTT
*
49137647 TAGTAATTTTGTAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATTGAGGGTAAAA
49137674 TAGTAATTCTGTAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATTGAGGGTAAAA
* * *
49137701 AAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATTGAGGGTAAAA
*
49137728 -CGATAATTCTGTAA
1 TAG-TAATTCTGTAA
49137742 GTCGAGGTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (27 bp):
TAGTAATTCTGTAAATTGAGGGTAAAA
Found at i:49140417 original size:47 final size:47
Alignment explanation
Indices: 49140363--49140861 Score: 863
Period size: 47 Copynumber: 10.6 Consensus size: 47
49140353 TATTTGAATA
49140363 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49140410 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49140457 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49140506 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49140553 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49140600 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49140647 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49140694 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49140741 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
49140788 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49140835 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
49140862 TCCCGAAGGG
Statistics
Matches: 434, Mismatches: 16, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
47 389 0.90
49 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:49143097 original size:47 final size:45
Alignment explanation
Indices: 49143025--49143241 Score: 190
Period size: 47 Copynumber: 4.7 Consensus size: 45
49143015 AGTGAAGTGC
*
49143025 CGATGCCATGTCCCAGACATAGTCTTAGACTGGCTCATATCTCAAGG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATATCTCAAGG
* * * *
49143072 CGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCTCGTAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTAT-ATCTC-AAGG
* *
49143120 CGAT-TCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTATA--TCTCAAGG
* * * * *
49143165 CCGATG-CATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTGGATGC
1 -CGATGCCATGTCCCAGACATGTCTTACACTGGCTA-T-ATCT-CAAGG
*
49143212 CAATGCCATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
49143242 AGCCAAAAAT
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 56 0.40
47 75 0.53
48 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATATCTCAAGG
Found at i:49143222 original size:93 final size:92
Alignment explanation
Indices: 49143021--49143241 Score: 252
Period size: 93 Copynumber: 2.4 Consensus size: 92
49143011 CGTGAGTGAA
* *
49143021 GTGCCGATGCCATGTCCCAGACATAGTCTTAGACTGGCTCATATCTCAAGGCGATGCCATATCCC
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGGCGATGCCATATCCC
49143086 AGACATGGTCTTACACTGACTATCATCTC
65 AGACATGGTCTTACACTGAC-ATCATCTC
* * * * * *
49143115 GTAGTCGAT-TCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCC
1 GT-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGG-CGATGCCATATCC
* *
49143178 CAGACAT-GTCTTACACT-AGCACTCGTCTG
64 CAGACATGGTCTTACACTGA-CA-TCATCTC
*
49143207 GATGCCAATGCCATGTCCCAGACATGTCTTACACT
1 G-TGCCGATGCCATGTCCCAGACATGTCTTACACT
49143242 AGCCAAAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
91 2 0.02
92 21 0.19
93 59 0.55
94 21 0.19
95 5 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
GTGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCGATGCCATATCCCA
GACATGGTCTTACACTGACATCATCTC
Found at i:49147978 original size:42 final size:43
Alignment explanation
Indices: 49147918--49148021 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
49147908 ATGAAATACG
** * * * *
49147918 TGTAAGACCACGTTTGGGACATTGGCATCG-TACTTGATTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGATACTTGATTACA
* *
49147960 TGTAAGACCTTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATACTTGATTACA
*
49148003 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATATCTGGGA
49148022 TGTTAGCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATACTTGATTACA
Found at i:49154569 original size:48 final size:48
Alignment explanation
Indices: 49154443--49154711 Score: 328
Period size: 48 Copynumber: 5.6 Consensus size: 48
49154433 ATGAGATTTC
* * **
49154443 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CTGA-GATATGTGCTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--TGATGATG-TATATGCCA
*
49154492 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATGTATATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATATGCCA
* * * * *
49154540 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATATGCCA
* * * * *
49154588 GTGTAAGACTATGTCTGGTACATGGCATCGGCGATAATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATATGCCA
*
49154636 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATA-AGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATA-TGCCA
*
49154684 GTGTAAAACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
49154712 TGGCAATCAT
Statistics
Matches: 191, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 159 0.83
49 31 0.16
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATATGCCA
Found at i:49154705 original size:144 final size:144
Alignment explanation
Indices: 49154443--49154711 Score: 382
Period size: 144 Copynumber: 1.9 Consensus size: 144
49154433 ATGAGATTTC
* **
49154443 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATATGTGCTTGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATAT-AGATATGTGCCAGTGTAAGACCATGTCT
* * *
49154508 GGGACATGACATCGGTGATGATGTATATGCCAGTCTGAGACCATGTCTAGGACATGGCATCGATG
65 GGGACATGACATCGGTGATGATATATATGCCAGTCTAAAACCATGTCTAGGACATGGCATCGATG
49154573 ATGATGTATGTGCCA
130 ATGATGTATGTGCCA
* *
49154588 GTGTAAGACTATGTCTGGTACATGGCATCGGCGATA-ATG-TATGTGCCAGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATATA-GATATGTGCCAGTGTAAGACCATGTC
* * *
49154651 TGGGACATGGCATCGGTGATGATATA-AGTGCCAGTGTAAAACCATGTCTGGGACATGGCAT
64 TGGGACATGACATCGGTGATGATATATA-TGCCAGTCTAAAACCATGTCTAGGACATGGCAT
49154712 TGGCAATCAT
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
143 1 0.01
144 76 0.69
145 31 0.28
146 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (144 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATATAGATATGTGCCAGTGTAAGACCATGTCTG
GGACATGACATCGGTGATGATATATATGCCAGTCTAAAACCATGTCTAGGACATGGCATCGATGA
TGATGTATGTGCCA
Found at i:49154737 original size:96 final size:96
Alignment explanation
Indices: 49154443--49154759 Score: 335
Period size: 96 Copynumber: 3.3 Consensus size: 96
49154433 ATGAGATTTC
* * **
49154443 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CTGAGATATGTGCTTGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--TGATGATATATGTGCCAGTGTAAGACCATGTC
* *
49154507 TGGGACATGACATCGG--TGATGATGTATATGCCA
64 TGGGACATGGCATCGGCAT-AT-ATGTAGATGCCA
* * * * * *
49154540 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCAGTGTAAGACTATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAGTGTAAGACCATGTCTG
*
49154605 GTACATGGCATCGGCGATA-ATGTATG-TGCCA
66 GGACATGGCATCGGC-ATATATGTA-GATGCCA
* *
49154636 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATAAGTGCCAGTGTAAAACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAGTGTAAGACCATGTCTG
* *
49154701 GGACATGGCATTGGCAATCATATGTAGAT-TCA
66 GGACATGGCATCGGC-AT-ATATGTAGATGCCA
*
49154733 -TGTAAGGCCATG-CTGGGGACATGGCAT
1 GTGTAAGACCATGTCT-GGGACATGGCAT
49154760 TCGTACTTTA
Statistics
Matches: 185, Mismatches: 26, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
95 3 0.02
96 143 0.77
97 31 0.17
98 7 0.04
99 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATATATGTAGATGCCA
Found at i:49162419 original size:49 final size:51
Alignment explanation
Indices: 49162355--49162657 Score: 256
Period size: 49 Copynumber: 6.0 Consensus size: 51
49162345 GCCGAAGCTA
* * *
49162355 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGA-C-CAATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
* * * * **
49162404 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
** ** * * * **
49162454 TCTAATACAGGTAGTAGGCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
* * * * *
49162505 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGA-C-CAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
* * * * **
49162554 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
* * * *
49162605 TCGGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTCACAATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA--TCACAATAG
49162658 ATTGTTCGTA
Statistics
Matches: 196, Mismatches: 51, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
49 74 0.38
50 44 0.22
51 72 0.37
53 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (51 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATAG
Found at i:49162596 original size:100 final size:99
Alignment explanation
Indices: 49162415--49162648 Score: 351
Period size: 100 Copynumber: 2.3 Consensus size: 99
49162405 CTGGTACACG
* * * * * *
49162415 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACAGGTAGTAGGCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACATCTAATACACGTAGTAGCCTACACTT
49162480 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
64 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
* **
49162516 TAGTAGCCTGCACTTAGTACTACATATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACA-TCTAATACACGTAGTAGCCTACACTTA
49162581 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
65 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
*
49162616 TAGTAGCCTGCATTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
49162649 TCACAATAGA
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 4 0.03
100 89 0.74
101 28 0.23
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACATCTAATACACGTAGTAGCCTACACTTAG
TACTACACACGTGATCACAGTTTTCGGGTACGCA
Found at i:49164815 original size:28 final size:27
Alignment explanation
Indices: 49164778--49164870 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
49164768 CCCCAAAATA
*
49164778 GGTAAAATGACCATAATATCCCTGTAG
1 GGTAAAATGACCGTAATATCCCTGTAG
* * *
49164805 GGTAAAAATGACCGTAATGTCCTTATAG
1 GGT-AAAATGACCGTAATATCCCTGTAG
* *
49164833 GGGAAAATGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATATCCC-TGTAG
49164860 GGTAAAATGAC
1 GGTAAAATGAC
49164871 GGTTATGCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.04
27 30 0.56
28 22 0.41
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATATCCCTGTAG
Found at i:49164847 original size:27 final size:28
Alignment explanation
Indices: 49164781--49164854 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
49164771 CAAAATAGGT
* *
49164781 AAAATGACCATAATATCCCTGTAGGGTA
1 AAAATGACCGTAATATCCCTATAGGGTA
* * *
49164809 AAAATGACCGTAATGTCCTTATAGGG-G
1 AAAATGACCGTAATATCCCTATAGGGTA
49164836 AAAATGACCGTAATA-CCCT
1 AAAATGACCGTAATATCCCT
49164855 TGTATGGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.08
27 14 0.36
28 22 0.56
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (28 bp):
AAAATGACCGTAATATCCCTATAGGGTA
Found at i:49164855 original size:27 final size:27
Alignment explanation
Indices: 49164781--49164884 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
49164771 CAAAATAGGT
* *
49164781 AAAATGACCATAATATCCC-TGTAGGGTA
1 AAAATGACCGTAATA-CCCTTATAGGG-A
** *
49164809 AAAATGACCGTAATGTCCTTATAGGGG
1 AAAATGACCGTAATACCCTTATAGGGA
* * *
49164836 AAAATGACCGTAATACCCTTGTATGGT
1 AAAATGACCGTAATACCCTTATAGGGA
* * *
49164863 AAAATGACGGTTATGCCCTTAT
1 AAAATGACCGTAATACCCTTAT
49164885 GTTCCGTATG
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
27 42 0.69
28 19 0.31
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AAAATGACCGTAATACCCTTATAGGGA
Found at i:49164864 original size:55 final size:54
Alignment explanation
Indices: 49164781--49164884 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
49164771 CAAAATAGGT
*
49164781 AAAATGACCATAATATCCCTGTAGGGTAAAAATGACCGTAATGTCCTTATAGGGG
1 AAAATGACCATAATATCCCTGTAGGGT-AAAATGACCGTAATGCCCTTATAGGGG
* * * *
49164836 AAAATGACCGTAATA-CCCTTGTATGGTAAAATGACGGTTATGCCCTTAT
1 AAAATGACCATAATATCCC-TGTAGGGTAAAATGACCGTAATGCCCTTAT
49164885 GTTCCGTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
54 22 0.51
55 21 0.49
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (54 bp):
AAAATGACCATAATATCCCTGTAGGGTAAAATGACCGTAATGCCCTTATAGGGG
Found at i:49167774 original size:23 final size:23
Alignment explanation
Indices: 49167742--49167785 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49167732 AAAGAAAATT
49167742 GAAAAAGAGTT-GAAGAAAGAAGA
1 GAAAAAGAGTTAGAA-AAAGAAGA
*
49167765 GAAAATGAGTTAGAAAAAGAA
1 GAAAAAGAGTTAGAAAAAGAA
49167786 ACAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.11
Consensus pattern (23 bp):
GAAAAAGAGTTAGAAAAAGAAGA
Found at i:49170247 original size:27 final size:27
Alignment explanation
Indices: 49170208--49170272 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49170198 ACGGAAGAAG
* *
49170208 TACT-TTACCGGTGACCATGTCACATT
1 TACTGTTACTGGTGACCATGCCACATT
* **
49170234 TACTGTTACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGACCATGCCACATT
*
49170261 TACTGTTTCTGG
1 TACTGTTACTGG
49170273 CATCTATGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (27 bp):
TACTGTTACTGGTGACCATGCCACATT
Found at i:49170286 original size:27 final size:27
Alignment explanation
Indices: 49170228--49170301 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 27
49170218 GTGACCATGT
** *
49170228 CACATTTACTGTTACTGGTGGCTTTGC
1 CACATTTACTGTTACTGGCAGCTATGC
* *
49170255 CACATTTACTGTTTCTGGCATCTATGC
1 CACATTTACTGTTACTGGCAGCTATGC
* * *
49170282 TACA-TTATTATTACTGGCAG
1 CACATTTACTGTTACTGGCAG
49170302 TTTTGCGACG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (27 bp):
CACATTTACTGTTACTGGCAGCTATGC
Found at i:49175978 original size:27 final size:27
Alignment explanation
Indices: 49175848--49175965 Score: 191
Period size: 27 Copynumber: 4.4 Consensus size: 27
49175838 CCCCAAAATA
* *
49175848 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
49175875 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
49175902 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
49175929 GGTAAAATGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
49175956 GGTAAAATGA
1 GGTAAAATGA
49175966 TGATTATGCC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:49176376 original size:28 final size:27
Alignment explanation
Indices: 49176322--49176381 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
49176312 ACTGTAATGA
* *
49176322 TACTGTATTAGGCTTAGGCTCACACTG
1 TACTGTATAAGGCTAAGGCTCACACTG
*
49176349 TTACTGTATAAGGCTAAGGC-CTAGACTG
1 -TACTGTATAAGGCTAAGGCTC-ACACTG
49176377 TACTG
1 TACTG
49176382 ATATTGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTATAAGGCTAAGGCTCACACTG
Found at i:49180399 original size:39 final size:39
Alignment explanation
Indices: 49180356--49180492 Score: 163
Period size: 39 Copynumber: 3.5 Consensus size: 39
49180346 ACTTTAAACT
* *
49180356 CGGATATATTTCTAGCATATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGTC
* **
49180395 CGGATATAATTCCAGCATATAGCCTGCGGGTA-TTTAAACC
1 CGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGTC
* *
49180435 CGGATATAGTTCCAGCACATAGCCTGC-GACCCTTAAGTC
1 CGGATATAATTCCAGCATATAGCCTGCGGA-CCTTAAGTC
49180474 CGGATATAATTCCAG-ATAT
1 CGGATATAATTCCAGCATAT
49180493 CATGCATATT
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
37 1 0.01
38 4 0.05
39 44 0.54
40 32 0.39
41 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
CGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGTC
Found at i:49180479 original size:79 final size:78
Alignment explanation
Indices: 49180348--49180492 Score: 229
Period size: 79 Copynumber: 1.8 Consensus size: 78
49180338 CCTTCGAGAC
* * * *
49180348 TTTAAACTCGGATATATTTCTAGCATATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCAT
1 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAG-AT
49180413 ATAGCCTGCGGGTA
65 ATAGCCTGCGGGTA
49180427 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGC-GACCCTTAAGTCCGGATATAATTCCAGAT
1 TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGA-CCTTAAGTCCGGATATAATTCCAGAT
49180491 AT
65 AT
49180493 CATGCATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 6 0.10
79 55 0.90
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (78 bp):
TTTAAACCCGGATATAGTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:49188048 original size:40 final size:39
Alignment explanation
Indices: 49187997--49188156 Score: 128
Period size: 39 Copynumber: 4.1 Consensus size: 39
49187987 TTCAGTCACT
* * * *
49187997 AGCACAAAGCCTTTGGGACTTTAAACCCGAATATATTTCT
1 AGCACATAGCC-TTGGGACTTTAAACCCGGATATAATTCC
* * **
49188037 AGCATATAGCC-TGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTTG-GGACTTTAAACCCGGATATAATTCC
* *
49188076 AGCATATAGCCTGCGGGTA-TTTAAACCCGGATATAATTCC
1 AGCACATAGCCT-TGGG-ACTTTAAACCCGGATATAATTCC
* ** *
49188116 AGCACATAGCC-TGCGGACCTTAAGTCAGGATATAATTCC
1 AGCACATAGCCTTG-GGACTTTAAACCCGGATATAATTCC
49188155 AG
1 AG
49188157 ATATCATGTA
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
38 4 0.04
39 51 0.53
40 39 0.41
41 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
AGCACATAGCCTTGGGACTTTAAACCCGGATATAATTCC
Found at i:49188080 original size:39 final size:39
Alignment explanation
Indices: 49188027--49188160 Score: 173
Period size: 39 Copynumber: 3.4 Consensus size: 39
49188017 TTAAACCCGA
* *
49188027 ATATATTTCTAGCATATAGCCTGCGGACCTTAAGTCCGG
1 ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
* **
49188066 ATATAATTCCAGCATATAGCCTGCGGGTA-TTTAAACCCGG
1 ATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGTCCGG
* *
49188106 ATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCAGG
1 ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
49188145 ATATAATTCCAG-ATAT
1 ATATAATTCCAGCATAT
49188161 CATGTATATT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.05
39 43 0.53
40 33 0.41
41 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (39 bp):
ATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCGG
Found at i:49188135 original size:79 final size:78
Alignment explanation
Indices: 49188016--49188160 Score: 236
Period size: 79 Copynumber: 1.8 Consensus size: 78
49188006 CCTTTGGGAC
* * * *
49188016 TTTAAACCCGAATATATTTCTAGCATATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCAT
1 TTTAAACCCGAATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCAGGATATAATTCCAG-AT
49188081 ATAGCCTGCGGGTA
65 ATAGCCTGCGGGTA
*
49188095 TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCAGGATATAATTCCAGATA
1 TTTAAACCCGAATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCAGGATATAATTCCAGATA
49188160 T
66 T
49188161 CATGTATATT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
78 4 0.07
79 57 0.93
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (78 bp):
TTTAAACCCGAATATAATTCCAGCACATAGCCTGCGGACCTTAAGTCAGGATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:49192783 original size:151 final size:147
Alignment explanation
Indices: 49192515--49192793 Score: 411
Period size: 151 Copynumber: 1.9 Consensus size: 147
49192505 AAAAAATTTA
49192515 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATTTTTTAAGTCATTTTAAAGG
1 TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATTTTTTAAGTCATTTTAAAGG
*
49192580 AAATTTTAAATTTTTAAAACAAAGTTTTGACTTTTTTAAACTATTTCAAAATAAAAGCTTTGATC
66 AAAGTTTAAATTTTTAAAACAAAGTTTTGACTTTTTTAAACTATTTCAAAAT-AAAGCTTTGATC
49192645 CTTAAGAAAAATAGTGGT
130 CTTAAGAAAAATAGTGGT
* **
49192663 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAGATAAA-AAATCTATTTTTT-AGTCATTTTAA
1 TTTTTTTAAAAAAGAGAAAGTTTAGA-TTTTAA-A-AAATAAAAATATTTTTTAAGTCATTTTAA
* * *
49192726 AGGAAAAGTTTGAATTTTTAAAAACAAAGTTTTGAAC-TTTTTCAACTATTTCAAAATAAAGTTT
63 AGG-AAAGTTTAAATTTTT-AAAACAAAGTTTTG-ACTTTTTTAAACTATTTCAAAATAAAGCTT
49192790 TGAT
125 TGAT
49192794 TTTTAAGTAG
Statistics
Matches: 118, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
148 25 0.21
149 20 0.17
150 35 0.30
151 36 0.31
152 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (147 bp):
TTTTTTTAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATTTTTTAAGTCATTTTAAAGG
AAAGTTTAAATTTTTAAAACAAAGTTTTGACTTTTTTAAACTATTTCAAAATAAAGCTTTGATCC
TTAAGAAAAATAGTGGT
Found at i:49194620 original size:45 final size:45
Alignment explanation
Indices: 49194523--49194621 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
49194513 GTGTTTTTGT
* * * *
49194523 GTAAGACCATGTCTAGGACGTTGGCATCAATATACGTGTCTTCGC
1 GTAAGACCACGTCTAGGACGTTAGCATCAATATACGTGTCTACGA
* * * *
49194568 GTGAGACCACGTCTAGGATGTTAGCATCGATATATGTGGT-TACGA
1 GTAAGACCACGTCTAGGACGTTAGCATCAATATACGT-GTCTACGA
49194613 GTAAGACCA
1 GTAAGACCA
49194622 TGTTAGTGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (45 bp):
GTAAGACCACGTCTAGGACGTTAGCATCAATATACGTGTCTACGA
Found at i:49201692 original size:45 final size:45
Alignment explanation
Indices: 49201627--49201756 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
49201617 AGGACTATGC
49201627 TATGTGTTTTCGTGTAAGACCACATCTAGGACATTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTAGGACATTGGCATCGATA
* * * * *
49201672 TATGTTTTTTCGTGTGAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTAGGACATTGGCATCGATA
* * * ** * *
49201717 TATGTGGTTACGAGTAAGACCATGTCTGGGACATCGGCAT
1 TATGTGTTTTCGTGTAAGACCACATCTAGGACATTGGCAT
49201757 TGTATTTGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACATCTAGGACATTGGCATCGATA
Found at i:49203721 original size:16 final size:17
Alignment explanation
Indices: 49203692--49203737 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
49203682 ATAATTTTTA
*
49203692 TTTATTCTTATTTCATC
1 TTTATTCATATTTCATC
*
49203709 TTTATTCAT-TTTCATG
1 TTTATTCATATTTCATC
*
49203725 TTTATTTATATTT
1 TTTATTCATATTT
49203738 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTCATATTTCATC
Found at i:49203741 original size:16 final size:16
Alignment explanation
Indices: 49203692--49203743 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
49203682 ATAATTTTTA
* *
49203692 TTTATTCTTATTTCATC
1 TTTATTCAT-TTTCATG
49203709 TTTATTCATTTTCATG
1 TTTATTCATTTTCATG
*
49203725 TTTATTTATATTT-ATG
1 TTTATTCAT-TTTCATG
49203741 TTT
1 TTT
49203744 TTTTTACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATTCATTTTCATG
Found at i:49211198 original size:30 final size:31
Alignment explanation
Indices: 49211117--49211199 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
49211107 TCAGTCTCGA
49211117 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
49211147 CATATCACTGGGTCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
49211178 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49211200 ACTGTAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.33
31 32 0.67
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:49211469 original size:25 final size:25
Alignment explanation
Indices: 49211419--49211487 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
49211409 CTCTTTTAAT
* *
49211419 AACTAGGGCAAA-CCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
49211443 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
49211468 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49211488 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 11 0.28
25 29 0.73
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:49212350 original size:27 final size:27
Alignment explanation
Indices: 49212288--49212365 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
49212278 GGGCATATTC
49212288 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
49212315 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
49212342 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
49212366 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:49212436 original size:27 final size:27
Alignment explanation
Indices: 49212406--49212491 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
49212396 GTAAATCTAC
49212406 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
49212433 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
**
49212459 AGAAAGTTAAGGGTATTT-ATGTAATTTTGT
1 --AAA-CCAAGGGTATTTCA-GTAATTTTGT
49212489 AAA
1 AAA
49212492 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
26 1 0.02
27 23 0.48
28 7 0.15
29 16 0.33
30 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:49212509 original size:27 final size:27
Alignment explanation
Indices: 49212469--49212592 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
49212459 AGAAAGTTAA
** *
49212469 GGGTATTTAT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
49212496 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** *
49212522 ATGGTATTTCAGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
49212550 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
49212577 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49212593 CTACCCTATA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.04
27 77 0.94
28 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:49212582 original size:54 final size:54
Alignment explanation
Indices: 49212391--49212584 Score: 185
Period size: 54 Copynumber: 3.6 Consensus size: 54
49212381 TACAAGGATG
* * * * *
49212391 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTA
* * * * *
49212445 TTTCT-ATAATTTTTAGAAAGTTAAGGGTATTT-ATGTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-CTAAGGGTATTTCA-GTAATTTTGTAAACTAGTGGTA
* * * ***
49212501 TTTTGGTAATTTTACAAATTGATGGTATTTCAGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTA
*
49212555 TTTTGGTAATTTTACAAACTAGGGGTATTT
1 TTTTGGTAATTTTACAAACTAAGGGTATTT
49212585 TGGTAATTCT
Statistics
Matches: 111, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
54 59 0.53
55 18 0.16
56 34 0.31
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAGTGGTA
Found at i:49212586 original size:81 final size:81
Alignment explanation
Indices: 49212470--49212625 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
49212460 GAAAGTTAAG
** * * *
49212470 GGTATTTATGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTGATGGTATTTCAG
1 GGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGA-GGTATTTCAG
49212534 TAATTTCACAAACTAGT
65 TAATTTCACAAACTAGT
**
49212551 GGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAGAGGTATTTCAG
1 GGTATTTAT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCAG
49212615 TAATTTCACAA
65 TAATTTCACAA
49212626 TAGAGGGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.91
82 5 0.08
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTATGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:49212643 original size:26 final size:26
Alignment explanation
Indices: 49212612--49212691 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
49212602 AGAGGTATTT
49212612 CAGTAATTT-CACAATAGAGGGTAAAA
1 CAGTAATTTGCA-AATAGAGGGTAAAA
* * *
49212638 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTTGCAAATAGAGGGTAAAA
*
49212665 CAGTAATTCTGTAAATCA-AGGGTAAAA
1 CAGTAATT-TGCAAAT-AGAGGGTAAAA
49212692 TTGTGATTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.16
27 37 0.82
28 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.26
Consensus pattern (26 bp):
CAGTAATTTGCAAATAGAGGGTAAAA
Found at i:49212661 original size:27 final size:27
Alignment explanation
Indices: 49212628--49212715 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
49212618 TTTCACAATA
* *
49212628 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
49212655 GAGGGTAAAACAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
* ** * *
49212682 AAGGGTAAAATTGTGATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
49212709 GAGGGTA
1 GAGGGTA
49212716 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTGTAAATC
Found at i:49215336 original size:25 final size:25
Alignment explanation
Indices: 49215308--49215376 Score: 104
Period size: 24 Copynumber: 2.8 Consensus size: 25
49215298 CTCTTTTAAT
*
49215308 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
49215333 AACT-GGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
49215357 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49215377 AGCATTCCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:49216208 original size:27 final size:26
Alignment explanation
Indices: 49216173--49216250 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
49216163 GGGCATATTC
49216173 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
49216200 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
49216227 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
49216251 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:49216321 original size:27 final size:27
Alignment explanation
Indices: 49216291--49216342 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
49216281 GTAAATCTAC
49216291 AAACCAATGGTATTTC-AGTAATTTTGT
1 AAACCAATGGTATTTCTA-TAATTTTGT
49216318 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATGGTATTTCTATAATTTT
49216343 TAGAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTGT
Found at i:49216447 original size:26 final size:26
Alignment explanation
Indices: 49216381--49216475 Score: 120
Period size: 26 Copynumber: 3.6 Consensus size: 26
49216371 TGTAAGTTAG
*
49216381 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* ** *
49216408 TGGTATTTCAGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
49216434 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
49216460 GGGGT-TTTTGGTAATT
1 -GGGTATTTTGGTAATT
49216476 CTACCCTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 34 0.59
27 24 0.41
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:49216526 original size:26 final size:26
Alignment explanation
Indices: 49216495--49216573 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
49216485 AGAGGTATTT
49216495 CAGTAATTT-CACAATCGAGGGTAAAA
1 CAGTAATTTGCA-AATCGAGGGTAAAA
* *
49216521 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAA-TTTGCAAATCGAGGGTAAAA
* *
49216548 CAGTAATTCTGTAAATCAAGGGTAAA
1 CAGTAATT-TGCAAATCGAGGGTAAA
49216574 TAGTGTTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.15
27 38 0.83
28 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (26 bp):
CAGTAATTTGCAAATCGAGGGTAAAA
Found at i:49216526 original size:79 final size:80
Alignment explanation
Indices: 49216378--49216530 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 80
49216368 TTTTGTAAGT
* * * ****
49216378 TAGGGGTATTTTGGTAATTTTACAAATTGATGGTATTTCAGTAATTTCACAAACTAGGGTATTTT
1 TAGGGGTATTTTGGTAATTCTACAAATAGATGGTATTTCAGTAATTTCACAAACGAGGGTAAAAC
49216443 GGTAATTTTACAAAC
66 GGTAATTTTACAAAC
** *
49216458 TAGGGGT-TTTTGGTAATTCTACCCTATAGA-GGTATTTCAGTAATTTCACAATCGAGGGTAAAA
1 TAGGGGTATTTTGGTAATTCTA-CAAATAGATGGTATTTCAGTAATTTCACAAACGAGGGTAAAA
49216521 CGGTAATTTT
65 CGGTAATTTT
49216531 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 50 0.81
80 12 0.19
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
TAGGGGTATTTTGGTAATTCTACAAATAGATGGTATTTCAGTAATTTCACAAACGAGGGTAAAAC
GGTAATTTTACAAAC
Found at i:49216543 original size:27 final size:27
Alignment explanation
Indices: 49216507--49216573 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
49216497 GTAATTTCAC
* *
49216507 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
49216534 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
49216561 AATCAAGGGTAAA
1 AATCGAGGGTAAA
49216574 TAGTGTTCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:49217450 original size:28 final size:28
Alignment explanation
Indices: 49217410--49217465 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
49217400 ATTTAAAAGG
49217410 CCCTCATCCAAGCATCCAGGTTTTTTTT
1 CCCTCATCCAAGCATCCAGGTTTTTTTT
49217438 CCCTCATCCAAGCATCCAGGTTTTTTTT
1 CCCTCATCCAAGCATCCAGGTTTTTTTT
49217466 TCACTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (28 bp):
CCCTCATCCAAGCATCCAGGTTTTTTTT
Found at i:49222489 original size:43 final size:41
Alignment explanation
Indices: 49222394--49222504 Score: 134
Period size: 43 Copynumber: 2.7 Consensus size: 41
49222384 ATAACCACAA
* *
49222394 GCAC-AAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
49222434 GCCCACAATGCCTTCGCGGTACTTAGCCTGGATATATCAACTC
1 GCACAAAATGCCTTCG-GGT-CTTAGCCCGGATATAGCAACTC
49222477 GCACAAAATGCCTTCGGGTTCTTAGCCC
1 GCACAAAATGCCTTCGGG-TCTTAGCCC
49222505 CGGAATAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
40 3 0.05
41 10 0.17
42 12 0.21
43 33 0.57
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:49222562 original size:40 final size:42
Alignment explanation
Indices: 49222482--49222586 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 42
49222472 AACTCGCACA
*
49222482 AAATGCCTTCGGGTTCTTAGCCCCGGAATAAAAATCACTAGCAT
1 AAATGCCTTCGGG-ACTTAG-CCCGGAATAAAAATCACTAGCAT
*
49222526 TAATGCCTTCGGGACTTAGCCCGG-A-AAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGAATAAAAATCACTAGCAT
49222566 AAATGCC-TC-GGACTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCG
49222587 ATAATCTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
38 12 0.21
39 2 0.03
40 21 0.36
41 1 0.02
42 5 0.09
43 5 0.09
44 12 0.21
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
AAATGCCTTCGGGACTTAGCCCGGAATAAAAATCACTAGCAT
Done.