Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 51
Found at i:2948232 original size:19 final size:19
Alignment explanation
Indices: 2948208--2948244 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2948198 CTGTCTTTAG
*
2948208 TGTTTTGTTCATTACTCTC
1 TGTTTTGTTCACTACTCTC
2948227 TGTTTTGTTCACTACTCT
1 TGTTTTGTTCACTACTCT
2948245 GAATTTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.57
Consensus pattern (19 bp):
TGTTTTGTTCACTACTCTC
Found at i:2951224 original size:41 final size:41
Alignment explanation
Indices: 2951099--2951237 Score: 156
Period size: 42 Copynumber: 3.3 Consensus size: 41
2951089 TAAACAACCA
* * *
2951099 TATTGCGGCGTTTTATATATAAACGCCGCTAATTTACCACTC
1 TATTACGGCGTTTTAGATATAAACGCCGCTAAATTA-CACTC
* * *
2951141 TATTACGGTGTTTGT-GGTATAAACGCCGCTATATTAACACTC
1 TATTACGGCGTTT-TAGATATAAACGCCGCTAAATT-ACACTC
* *
2951183 TATTACGGCGTTTTAGCTA-AAACGCCGCTAAATGTATACTC
1 TATTACGGCGTTTTAGATATAAACGCCGCTAAAT-TACACTC
2951224 TATTACGGCGTTTT
1 TATTACGGCGTTTT
2951238 TACTATAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
41 33 0.40
42 48 0.58
43 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (41 bp):
TATTACGGCGTTTTAGATATAAACGCCGCTAAATTACACTC
Found at i:2951245 original size:83 final size:84
Alignment explanation
Indices: 2951099--2951255 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 84
2951089 TAAACAACCA
* * * * **
2951099 TATTGCGGCGTTTTATATATAAACGCCGCTAATTTACCACTCTATTACGGTGTTTGTGGTATAAA
1 TATTACGGCGTTTTAGATATAAACGCCGCTAATGTACCACTCTATTACGGCGTTTGTACTATAAA
2951164 CGCCGCTATATTAACACTC
66 CGCCGCTATATTAACACTC
* * *
2951183 TATTACGGCGTTTTAGCTA-AAACGCCGCTAAATGTA-TACTCTATTACGGCGTTTTTACTATAA
1 TATTACGGCGTTTTAGATATAAACGCCGCT-AATGTACCACTCTATTACGGCGTTTGTACTATAA
* *
2951246 ATGCTGCTAT
65 ACGCCGCTAT
2951256 TAATTAAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 40 0.66
84 21 0.34
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (84 bp):
TATTACGGCGTTTTAGATATAAACGCCGCTAATGTACCACTCTATTACGGCGTTTGTACTATAAA
CGCCGCTATATTAACACTC
Found at i:2952577 original size:14 final size:14
Alignment explanation
Indices: 2952558--2952595 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
2952548 GTTGATCAAC
2952558 AGAATCTGTTTTGA
1 AGAATCTGTTTTGA
*
2952572 AGAATCTGTTTTGC
1 AGAATCTGTTTTGA
2952586 AGAATCTGTT
1 AGAATCTGTT
2952596 GTTCGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (14 bp):
AGAATCTGTTTTGA
Found at i:2954599 original size:2 final size:2
Alignment explanation
Indices: 2954592--2954618 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2954582 GATAATCTAC
2954592 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2954619 GGTTTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2955088 original size:23 final size:23
Alignment explanation
Indices: 2955062--2955130 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2955052 CACCACAGCT
* *
2955062 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTACACCGGAGTGCCA
* *
2955085 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTACACCGGAGTGCCA
*
2955108 CGTAGAATTACACTGGAGTGCCA
1 CGTAGAATTACACCGGAGTGCCA
2955131 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTACACCGGAGTGCCA
Found at i:2961884 original size:23 final size:23
Alignment explanation
Indices: 2961858--2961903 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2961848 CACCACAGAT
*
2961858 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
2961881 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
2961904 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:2965790 original size:23 final size:23
Alignment explanation
Indices: 2965754--2965839 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
2965744 TCAAGGGTTC
* * *
2965754 TATGTAGTCATTCGGGATAAAAT
1 TATGTGGTCCTTCGGGATAAACT
* *
2965777 TATGTGGTCCTTCGGGACAAACC
1 TATGTGGTCCTTCGGGATAAACT
2965800 TATGTGGTCCTTCGGGATAAACT
1 TATGTGGTCCTTCGGGATAAACT
2965823 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
2965840 CAAGTATGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGATAAACT
Found at i:2965820 original size:46 final size:46
Alignment explanation
Indices: 2965753--2965842 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
2965743 GTCAAGGGTT
2965753 CTATGTAGTCATTCGGGATAAAATTATGTGGTCCTTCGGGACAAAC
1 CTATGTAGTCATTCGGGATAAAATTATGTGGTCCTTCGGGACAAAC
* * *
2965799 CTATGTGGTCCTTCGGGATAAACTTATGTGGTCCTTCGGGACAA
1 CTATGTAGTCATTCGGGATAAAATTATGTGGTCCTTCGGGACAA
2965843 GTATGTGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
CTATGTAGTCATTCGGGATAAAATTATGTGGTCCTTCGGGACAAAC
Found at i:2973786 original size:32 final size:32
Alignment explanation
Indices: 2973750--2973814 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
2973740 ATAATGGTAT
2973750 AGCTTGGTATAATAACAAATTTCATTCTTAAA
1 AGCTTGGTATAATAACAAATTTCATTCTTAAA
2973782 AGCTTGGTATAATAACAAATTTCATTCTTAAA
1 AGCTTGGTATAATAACAAATTTCATTCTTAAA
2973814 A
1 A
2973815 CTTATACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (32 bp):
AGCTTGGTATAATAACAAATTTCATTCTTAAA
Found at i:2977159 original size:17 final size:17
Alignment explanation
Indices: 2977137--2977183 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
2977127 TATAGAATTG
*
2977137 GATTCTAATTCTTGACA
1 GATTCTAATTCTTCACA
2977154 GATTCTAATTCCTTCACA
1 GATTCTAATT-CTTCACA
* *
2977172 AATTCCAATTCT
1 GATTCTAATTCT
2977184 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (17 bp):
GATTCTAATTCTTCACA
Found at i:2981251 original size:3 final size:3
Alignment explanation
Indices: 2981243--2981287 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
2981233 TCACCATTTT
*
2981243 TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2981288 AATAACTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2982386 original size:36 final size:34
Alignment explanation
Indices: 2982343--2982436 Score: 91
Period size: 36 Copynumber: 2.6 Consensus size: 34
2982333 AGGTAGAATT
*
2982343 ATTATTATATTTAAAAAATTATAACTAATAATATTA
1 ATTATTATA-TTAAAAAATTAT-ACTAAAAATATTA
* *
2982379 ATTATTATATTAAATAAA-TATATTAAAAATATTT
1 ATTATTATATTAAA-AAATTATACTAAAAATATTA
*
2982413 ATGTATTTAAAGTTAAAAAATTAT
1 AT-TA-TTATA-TTAAAAAATTAT
2982437 TTAGGTGTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
34 12 0.24
35 10 0.20
36 19 0.39
37 8 0.16
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (34 bp):
ATTATTATATTAAAAAATTATACTAAAAATATTA
Found at i:2985690 original size:119 final size:124
Alignment explanation
Indices: 2985463--2985941 Score: 752
Period size: 119 Copynumber: 3.9 Consensus size: 124
2985453 TAATCAGAGT
2985463 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTGTCAGAGAATATGTTATC
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCA-T-TTTGTCAGAGAATATGTTATC
2985528 ATTG-CCT-TTATGTCACTCATGT-CCTC-GGGACACTAGATATATCAGTACCTATTATTTC
64 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGA-ACTAGATATATCAGTACCTATTATTTC
* *
2985586 ACTATTCATATGAAGGTGCGTTCCC-GGGG-GCGCCTTCCATTTTGTCAGAGAATATGTTATCAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTTTGTCAGAGAATATGTTATCAT
2985649 TG-CCTATTATGTCACTCATGTCCCTCGGGG-ACTAGAT-TATCAGTACCTATTATTTC
66 TGCCCTATTATGTCACTCATGTCCCTCGGGGAACTAGATATATCAGTACCTATTATTTC
*
2985705 ACTATTCACATGAAGGCGCATTCCC-GGGGCGCGCCTTCCATTTTGTCAG-GAATA---TATCAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTTTGTCAGAGAATATGTTATCAT
2985765 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 TGCCCTATTATGTCACTCATGTCCCTCGGGGA-ACTAGATATATCAGTACCTATTATTTC
*
2985825 ACTATTCACATGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCC---ATTTTGTCAGAGAATATGTTAT
2985890 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
63 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGA-ACTAGATATATCAGTA
2985942 AATCAGGTAA
Statistics
Matches: 333, Mismatches: 7, Indels: 27
0.91 0.02 0.07
Matches are distributed among these distances:
116 8 0.02
117 28 0.08
119 85 0.26
120 84 0.25
121 28 0.08
122 7 0.02
123 23 0.07
124 10 0.03
125 5 0.02
128 55 0.17
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (124 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTTTGTCAGAGAATATGTTATCAT
TGCCCTATTATGTCACTCATGTCCCTCGGGGAACTAGATATATCAGTACCTATTATTTC
Found at i:2986647 original size:32 final size:30
Alignment explanation
Indices: 2986611--2986711 Score: 130
Period size: 32 Copynumber: 3.2 Consensus size: 30
2986601 TAAGTTGAAA
*
2986611 TTTAATGTTAAATTTCGAATACTAATTTATAT
1 TTTAAT-TTAAATTTCGAATAATAATTT-TAT
2986643 TTTAATTTTAAATTTCGAATAATATTATTTTAT
1 TTTAA-TTTAAATTTCGAATAATA--ATTTTAT
*
2986676 TTTTATTTAAATTTCGAATAATAATTTGTAT
1 TTTAATTTAAATTTCGAATAATAATTT-TAT
2986707 TTTAA
1 TTTAA
2986712 AAACATTTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
30 4 0.06
31 7 0.11
32 39 0.63
33 8 0.13
34 4 0.06
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (30 bp):
TTTAATTTAAATTTCGAATAATAATTTTAT
Found at i:2987280 original size:21 final size:21
Alignment explanation
Indices: 2987215--2987306 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
2987205 TATGGTATAA
* * *
2987215 AACCCTACGGGCTAGGCA-GT
1 AACCCTGCGGGCTCGGAATGT
2987235 AA-CCTGGCGGGCTCGGAATGT
1 AACCCT-GCGGGCTCGGAATGT
2987256 -ACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
*
2987276 AACCCTGCGTGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
2987297 AACCCTGCGG
1 AACCCTGCGG
2987307 AGATGGCATA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 3 0.05
20 27 0.43
21 33 0.52
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTCGGAATGT
Found at i:2989121 original size:32 final size:32
Alignment explanation
Indices: 2989064--2989136 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
2989054 TATTATTTTA
*
2989064 ATAAAA-AAATAATATTTACATAAATA-TAAT
1 ATAAAATAAATAATATTTACAAAAATACTAAT
2989094 ATAAAATATAATAACTATTTA-AAAAATACTAAT
1 ATAAAATA-AATAA-TATTTACAAAAATACTAAT
2989127 A-AAAATAAAT
1 ATAAAATAAAT
2989137 TTCTTACACT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 6 0.16
31 4 0.11
32 17 0.45
33 11 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (32 bp):
ATAAAATAAATAATATTTACAAAAATACTAAT
Found at i:2990118 original size:2 final size:2
Alignment explanation
Indices: 2990111--2990140 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2990101 CTTGGTTTTG
*
2990111 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2990141 CGTCGAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2990289 original size:94 final size:92
Alignment explanation
Indices: 2990127--2990316 Score: 274
Period size: 94 Copynumber: 2.0 Consensus size: 92
2990117 TATTTATATA
* * * *
2990127 TATATATATATATACGTCGAAATAACGCCATTTTTAGGGGTTTCTACATATAGGCGTTTGCGTTA
1 TATATATATATATACGTCGAAACAACGCCATTTTAAGGGGTTTCTACATATAGGCATTTGAGTTA
2990192 ATCATTTACGCGACCATCCAAACTTTG
66 ATCATTTACGCGACCATCCAAACTTTG
* *
2990219 TATATATATATATACGTCGAAACAACG-CAGTTTTGAAGGGGTTTCTACGTTTTAGGCATTTGAG
1 TATATATATATATACGTCGAAACAACGCCA-TTTT-AAGGGGTTTCTAC-ATATAGGCATTTGAG
* *
2990283 TTAATCATTTCCGCGACCATCCATACTTTG
63 TTAATCATTTACGCGACCATCCAAACTTTG
2990313 TATA
1 TATA
2990317 AGTTCACTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
91 2 0.02
92 30 0.34
93 12 0.14
94 43 0.49
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (92 bp):
TATATATATATATACGTCGAAACAACGCCATTTTAAGGGGTTTCTACATATAGGCATTTGAGTTA
ATCATTTACGCGACCATCCAAACTTTG
Found at i:2990622 original size:6 final size:6
Alignment explanation
Indices: 2990611--2990656 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
2990601 TAGTTAACCC
*
2990611 TAATAT TAATAT TCATAT TAATAT TAATAT TAATAT TAAT-T TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
2990657 AATTTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:2996265 original size:44 final size:44
Alignment explanation
Indices: 2996202--2996320 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 44
2996192 ATCTCGACTC
*
2996202 TTCCATCACATAAAGAGTTGGATCAGCATCACCACTTCGCTCGA
1 TTCCATCACATAAAGAGTTGGATCAACATCACCACTTCGCTCGA
* * *
2996246 TTCTATCACATAAAAAGTTGGATCAACATCACCACTTCGCTTGA
1 TTCCATCACATAAAGAGTTGGATCAACATCACCACTTCGCTCGA
* *
2996290 TTCCATCACATAAGGAGTTGAATCAACATCA
1 TTCCATCACATAAAGAGTTGGATCAACATCA
2996321 TCTCGCTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (44 bp):
TTCCATCACATAAAGAGTTGGATCAACATCACCACTTCGCTCGA
Found at i:2996565 original size:3 final size:3
Alignment explanation
Indices: 2996559--2996590 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2996549 TATTAAAAAT
*
2996559 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2996591 TAAATAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2997557 original size:2 final size:2
Alignment explanation
Indices: 2997550--2997583 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2997540 CATTAATTTC
2997550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2997584 GCCGAAACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2997959 original size:22 final size:21
Alignment explanation
Indices: 2997947--2997989 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2997937 ATCTTACTAG
2997947 TTAACTAATATTAATATTAATA
1 TTAACTAATATT-ATATTAATA
*
2997969 TTAATTAATATTA-ATTTAATA
1 TTAACTAATATTATA-TTAATA
2997990 AATTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 7 0.37
22 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAACTAATATTATATTAATA
Found at i:2997963 original size:6 final size:6
Alignment explanation
Indices: 2997952--2997989 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
2997942 ACTAGTTAAC
2997952 TAATAT TAATAT TAATAT T-A-AT TAATAT TAAT-T TAATA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATA
2997990 AATTTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 3 0.10
5 7 0.24
6 19 0.66
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:2997975 original size:10 final size:10
Alignment explanation
Indices: 2997947--2997989 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
2997937 ATCTTACTAG
*
2997947 TTAACTAATA
1 TTAATTAATA
2997957 TTAATATTAATA
1 TT-A-ATTAATA
2997969 TTAATTAATA
1 TTAATTAATA
2997979 TTAATTTAATA
1 TTAA-TTAATA
2997990 AATTTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 13 0.45
11 8 0.28
12 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
TTAATTAATA
Found at i:2999999 original size:5 final size:5
Alignment explanation
Indices: 2999980--3000044 Score: 98
Period size: 5 Copynumber: 13.4 Consensus size: 5
2999970 CGTCTCGCGG
* *
2999980 CGGCA CGGCA CGGCT CGGCT C-GCT C-GCT CGGCT CGGCT CGGCT CGGCT
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT
3000028 CGGCT CGGCT CGGCT CG
1 CGGCT CGGCT CGGCT CG
3000045 TGGCTCGTGG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
4 8 0.14
5 50 0.86
ACGTcount: A:0.03, C:0.42, G:0.38, T:0.17
Consensus pattern (5 bp):
CGGCT
Found at i:3000060 original size:6 final size:6
Alignment explanation
Indices: 3000042--3000167 Score: 204
Period size: 6 Copynumber: 21.2 Consensus size: 6
3000032 TCGGCTCGGC
3000042 TCGTGG CTCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG -TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
3000091 TCGTGG TCGTGG TCGTGG TCGTGG TCGT-G TCGTGG TCGTGG TGGT-G
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
3000137 TCG-GG TCGTGG TCGTGG TCGTGG TCTGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TC-GTGG T
3000168 TGGTAATACG
Statistics
Matches: 113, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
5 12 0.11
6 90 0.80
7 11 0.10
ACGTcount: A:0.00, C:0.17, G:0.49, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:3005171 original size:14 final size:14
Alignment explanation
Indices: 3005152--3005182 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3005142 ATGAAATTCT
3005152 AAATATTTAAATAA
1 AAATATTTAAATAA
*
3005166 AAATATTTATATAA
1 AAATATTTAAATAA
3005180 AAA
1 AAA
3005183 ATCATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:3005246 original size:25 final size:25
Alignment explanation
Indices: 3005218--3005265 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
3005208 ATTTTAAATT
*
3005218 TATATATTTTTTAATAAAATTTATA
1 TATACATTTTTTAATAAAATTTATA
*
3005243 TATACATTTTTTTATAAAATTTA
1 TATACATTTTTTAATAAAATTTA
3005266 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATACATTTTTTAATAAAATTTATA
Found at i:3011566 original size:22 final size:22
Alignment explanation
Indices: 3011539--3012099 Score: 786
Period size: 22 Copynumber: 25.5 Consensus size: 22
3011529 CATTTAAATC
3011539 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
3011561 TATTTTAAAATATGAAAAAAATT
1 TATTTTAAAATATG-GATTGATT
3011584 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
***
3011606 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
**
3011628 TATTTTAAAATATAAATTGATT
1 TATTTTAAAATATGGATTGATT
**
3011650 TATTTTAAAATATGGA-AAATTT
1 TATTTTAAAATATGGATTGA-TT
3011672 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
**
3011694 TATTTTAAAATATGGGA-AAATT
1 TATTTTAAAATAT-GGATTGATT
3011716 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
3011738 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
* ***
3011760 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGGATTGATT
*
3011782 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
***
3011804 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
*
3011826 TATTTTAAAATATGGATTAATT
1 TATTTTAAAATATGGATTGATT
*
3011848 CATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
3011870 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
***
3011892 TATTTTAAAATAT-GAAAAATTT
1 TATTTTAAAATATGGATTGA-TT
3011914 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
3011936 TATTTTAATATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
3011958 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
3011980 TATTTTAATATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
3012002 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
3012024 TATTTTAATATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
3012046 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
3012068 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
3012090 TATTTTAAAA
1 TATTTTAAAA
3012100 AATTTATTAT
Statistics
Matches: 477, Mismatches: 55, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
21 7 0.01
22 445 0.93
23 25 0.05
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TATTTTAAAATATGGATTGATT
Found at i:3012180 original size:31 final size:31
Alignment explanation
Indices: 3012123--3012181 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3012113 AGTTGTATGG
* * *
3012123 ATTATTTAAATTTTAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAATATTACAAAACTAAA
*
3012154 ATTATTTAAATTTCAATATTGCAAAACT
1 ATTATTTAAATTTCAATATTACAAAACT
3012182 CTTTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATTTCAATATTACAAAACTAAA
Found at i:3015117 original size:17 final size:17
Alignment explanation
Indices: 3015095--3015127 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3015085 GTATCTCTAT
3015095 TACTAATTTTTTCTCAG
1 TACTAATTTTTTCTCAG
3015112 TACTAATTTTTTCTCA
1 TACTAATTTTTTCTCA
3015128 ACAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (17 bp):
TACTAATTTTTTCTCAG
Found at i:3016467 original size:39 final size:36
Alignment explanation
Indices: 3016413--3016503 Score: 128
Period size: 39 Copynumber: 2.4 Consensus size: 36
3016403 TGAGGGTTTG
*
3016413 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTT-T-T-T
* *
3016452 GTGTTTCAAGAGAAACAATTTCGAGGGTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
3016488 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
3016504 TGTCTCAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 17 0.35
37 1 0.02
38 1 0.02
39 30 0.61
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (36 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
Found at i:3016529 original size:36 final size:36
Alignment explanation
Indices: 3016489--3016719 Score: 212
Period size: 36 Copynumber: 6.6 Consensus size: 36
3016479 TTTTTTTTTG
*
3016489 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
3016525 TGTTTCAAAAGAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
3016562 AG-TTCTAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
3016598 TGTTTCAAG-GAAA-AGATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTG-T-CTCAAGAGAGACAAAATT
* *
3016627 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
3016663 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
*
3016700 TGTTTCAAGGGAAACTGTCT
1 TGTTTCAAGAGAAACTGTCT
3016720 GAAAACTAGT
Statistics
Matches: 161, Mismatches: 19, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
29 14 0.09
30 6 0.04
31 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 6 0.04
36 75 0.47
37 54 0.34
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:3016652 original size:102 final size:102
Alignment explanation
Indices: 3016523--3016709 Score: 254
Period size: 102 Copynumber: 1.8 Consensus size: 102
3016513 AGGGACAAAA
* * *
3016523 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGATAAAACTTAG-TTCTAAAAGAAACTGTCTCAAGG
1 TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAA-TTAGTTTC-AAAAGAAACTGTCTCAAGA
3016587 GAGACGAA-A-TTTGTTTCAAGGAAAAGATATTCAAAGAT
64 GAGAC-AAGATTTTGTTTCAAGGAAAAGATATTCAAAGAT
** * **
3016625 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAATTAGTTTCAAAAGAAACTGTCTCAAGAGA
3016690 GACAAGATTTTGTTTCAAGG
66 GACAAGATTTTGTTTCAAGG
3016710 GAAACTGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 2 0.03
101 25 0.34
102 47 0.64
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAATTAGTTTCAAAAGAAACTGTCTCAAGAGA
GACAAGATTTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:3016837 original size:37 final size:36
Alignment explanation
Indices: 3016786--3016974 Score: 137
Period size: 37 Copynumber: 5.4 Consensus size: 36
3016776 TCAAGGTTTA
*
3016786 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGA-AAAATTT
* *
3016823 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGAAAAATTT
** * * * *
3016859 AATTTCAAAGGAAAAGT-TTTCAA---TG-----TTT
1 TGTTTC-AAGGGAAACTATCTCAAGGGAGAAAAATTT
*
3016887 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGA-AAAATTT
**
3016925 TGTTTCAAGGGAAACTATCTCAATCGAGATAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGA-AAAATTT
**
3016961 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
3016975 TGTTTTCAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
28 9 0.08
29 9 0.08
32 1 0.01
33 1 0.01
36 29 0.25
37 65 0.56
38 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGAAAAATTT
Found at i:3016879 original size:102 final size:102
Alignment explanation
Indices: 3016759--3016998 Score: 399
Period size: 102 Copynumber: 2.4 Consensus size: 102
3016749 AATATTTGTG
* *
3016759 TTTCAAGGGAAACGTTTTCAAGGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
3016824 GTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTAA
66 GTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTAA
*
3016861 TTTCAAAGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
** * *
3016926 GTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTAA
* *
3016963 TTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAG
1 TTTCAAGGGAAAAGTTTTCAATGTTTATGTTTCAAG
3016999 GGAGACAAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 128 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTAA
Found at i:3016982 original size:51 final size:51
Alignment explanation
Indices: 3016927--3017034 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
3016917 CAAAATTTTG
* *
3016927 TTTCAAGGGAAACTATCTCAATCGAGATAAAA-TTCATTTCAAGGGAAATGT
1 TTTCAAGGGAAA-TATCTCAAGCGAGACAAAATTTCATTTCAAGGGAAATGT
* *** * * *
3016978 TTTCAATGTTTATATTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAATGT
1 TTTCAAGGGAAATATCTCAAGCGAGACAAAATTTCATTTCAAGGGAAATGT
3017029 TTTCAA
1 TTTCAA
3017035 TGTTTATGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 15 0.32
51 32 0.68
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (51 bp):
TTTCAAGGGAAATATCTCAAGCGAGACAAAATTTCATTTCAAGGGAAATGT
Found at i:3017035 original size:51 final size:50
Alignment explanation
Indices: 3016950--3017049 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 50
3016940 TATCTCAATC
*
3016950 GAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAGG
1 GAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAGG
* *
3017000 GAGACAAAATTTCGTTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 GAGACAAAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAG
3017050 AGAAACTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 8 0.17
51 38 0.83
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (50 bp):
GAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATATTTCAAGG
Found at i:3017149 original size:153 final size:153
Alignment explanation
Indices: 3016861--3017154 Score: 369
Period size: 153 Copynumber: 1.9 Consensus size: 153
3016851 AAAAAATTAA
*
3016861 TTTCAAAGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAAGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
** * * * * **** *
3016926 GTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
66 GTTTCAAAAGAAAATATCTCAAGCGAGACAAAATTCATTTCAAGGAAAACAAATTCAATATTTAT
3016991 ATTTCAAGGGAGACAAAATTTCG
131 ATTTCAAGGGAGACAAAATTTCG
* *
3017014 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
1 TTTCAAAGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
* * * *
3017079 G-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATT-AGTTTCAATGAAAACAAATTCAAATATT
66 GTTTC-AAAAGAAAATATCTCAAGCGAGACAAAATTCA-TTTCAAGGAAAACAAATTC-AATATT
*
3017142 T-TGTTTCAAGGGA
128 TATATTTCAAGGGA
3017155 AACTGTCTCA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
152 4 0.03
153 109 0.92
154 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (153 bp):
TTTCAAAGGAAAAGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
GTTTCAAAAGAAAATATCTCAAGCGAGACAAAATTCATTTCAAGGAAAACAAATTCAATATTTAT
ATTTCAAGGGAGACAAAATTTCG
Found at i:3017490 original size:106 final size:106
Alignment explanation
Indices: 3017302--3017621 Score: 442
Period size: 106 Copynumber: 3.0 Consensus size: 106
3017292 TTGTTCCGTA
* * * * * ** * *
3017302 TCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGATAGCCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCA
* * * *
3017367 GCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAG
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
**
3017408 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCA
3017473 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
* *
3017514 TCCAATATCCTTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACAACC
1 TCCAATATCC-TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * * *
3017579 AGCTGTCCCTTTGTTGTGGAGTTGAACTTGTGTTGTCTTGAG
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
3017621 T
1 T
3017622 GGCACGATAT
Statistics
Matches: 190, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
106 101 0.53
107 89 0.47
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (106 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
Found at i:3018253 original size:32 final size:32
Alignment explanation
Indices: 3018217--3018311 Score: 120
Period size: 32 Copynumber: 2.9 Consensus size: 32
3018207 GTTCCCAAAG
*
3018217 ATGCCCCAA-TTTTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTT-GATGTTGAATCTCAAAAA
* * *
3018249 ATGCCCCAACATTTGATGATAAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
*
3018281 ATGCCCCAACATTTGATATTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTGAATC-TCAAA
3018312 GATGCCCTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 46 0.87
33 7 0.13
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCAAAAA
Found at i:3018317 original size:32 final size:32
Alignment explanation
Indices: 3018212--3018318 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
3018202 GTTGAGTTCC
* * *
3018212 CAAAGATGCCCCAA-TTTTCGATGTTGAATC-T
1 CAAAAATGCCCCAACATTT-GATATTGAATCTT
* *
3018243 CAAAAAATGCCCCAACATTTGATGA-TAAATCTA
1 C-AAAAATGCCCCAACATTTGAT-ATTGAATCTT
*
3018276 AAAAAATGCCCCAACATTTGATATTGAATCTT
1 CAAAAATGCCCCAACATTTGATATTGAATCTT
*
3018308 CAAAGATGCCC
1 CAAAAATGCCC
3018319 TCATTGTTCC
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
31 2 0.03
32 56 0.92
33 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (32 bp):
CAAAAATGCCCCAACATTTGATATTGAATCTT
Found at i:3019358 original size:69 final size:69
Alignment explanation
Indices: 3019242--3019379 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
3019232 TGTCTCTCTC
** *
3019242 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTGATTCATAAATGATTATGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
3019307 TCAT
66 TCAT
* * * *
3019311 TTGATGCTCTATGATCTTTGAGTAAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
3019376 TCAT
66 TCAT
3019380 AGTTGGAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCAGAAATGATTATGCTTGATCAATC
TCAT
Found at i:3019475 original size:20 final size:20
Alignment explanation
Indices: 3019452--3019501 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3019442 TTTTCTTCAA
* *
3019452 TTTTCCTTTGTTTTTTCTTT
1 TTTTCCTTTCTCTTTTCTTT
**
3019472 TTTTATTTTCTCTTTTCTTT
1 TTTTCCTTTCTCTTTTCTTT
3019492 TTTTCTCTTT
1 TTTTC-CTTT
3019502 TTGTTCTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTCCTTTCTCTTTTCTTT
Found at i:3019485 original size:15 final size:14
Alignment explanation
Indices: 3019462--3019503 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
3019452 TTTTCCTTTG
3019462 TTTTTTCT-TTTTT
1 TTTTTTCTCTTTTT
*
3019475 TATTTTCTCTTTTCT
1 TTTTTTCTCTTTT-T
3019490 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
3019504 GTTCTGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 13 0.52
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Found at i:3023755 original size:23 final size:23
Alignment explanation
Indices: 3023740--3023797 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
3023730 ATTATATTTA
3023740 TTTTATTATCTCTATTCATAGTT
1 TTTTATTATCTCTATTCATAGTT
* *
3023763 TTTTATTATCTTTATTCAGAGTT
1 TTTTATTATCTCTATTCATAGTT
* *
3023786 TGTGATTATCTC
1 TTTTATTATCTC
3023798 CTCATAGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTTATTATCTCTATTCATAGTT
Found at i:3026298 original size:146 final size:151
Alignment explanation
Indices: 3026050--3026415 Score: 372
Period size: 146 Copynumber: 2.4 Consensus size: 151
3026040 TGTCTACCGG
* * * * * * *
3026050 CCGATCGTCCTGATTTTTCAGTATGTTGTTCGTGTT-GAC-TTCGAACAACTTTTCACCGTTTGG
1 CCGATCGTCTTGAATTTTCAGTATGTTGTTCCTGTTGGCCTTTC--TCAACTTTTGACCGTTCGG
* *** *
3026113 AATGTTGATCGGTGATCCCGATCACCGGTAAGAGGCCTAAAGC-CGTTTGAATTTGTTTTCTCCG
64 AATATTGATCGGTGATCCCGATCACCAACAAGAGGCCTAAA-CTCGTTCGAATTTGTTTTCTCCG
3026177 AT-CCG-CCA-C-T-GTCCACCAT
128 ATCCCGTCCACCGTCGTCCACCAT
* *
3026196 CCGATCGTCTTGAATTTTCAGTATGTTGTTCCTGTTGGCCTTTCTCAACTTTTGACTGTTCGTAA
1 CCGATCGTCTTGAATTTTCAGTATGTTGTTCCTGTTGGCCTTTCTCAACTTTTGACCGTTCGGAA
* **
3026261 TATTGATCGGAT-TTCCCGATCACCAACAAGATTCCTAAACTCGTTCGAATTTGTTTTCTCCGAT
66 TATTGATCGG-TGATCCCGATCACCAACAAGAGGCCTAAACTCGTTCGAATTTGTTTTCTCCGAT
3026325 CCGCCACCGTCCACCGTCCACCGTCCACCAT
130 ----C-CCGTCCACCGT----CGTCCACCAT
* * *
3026356 CCGATTGTCTTGAATTTTCAGTATGTTGTTCCTGCTGGCCTTGCTCAACTTTTGACCGTT
1 CCGATCGTCTTGAATTTTCAGTATGTTGTTCCTGTTGGCCTTTCTCAACTTTTGACCGTT
3026416 TGAGATGTTG
Statistics
Matches: 181, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
145 1 0.01
146 101 0.56
147 3 0.02
148 3 0.02
152 3 0.02
153 3 0.02
154 1 0.01
155 1 0.01
160 65 0.36
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (151 bp):
CCGATCGTCTTGAATTTTCAGTATGTTGTTCCTGTTGGCCTTTCTCAACTTTTGACCGTTCGGAA
TATTGATCGGTGATCCCGATCACCAACAAGAGGCCTAAACTCGTTCGAATTTGTTTTCTCCGATC
CCGTCCACCGTCGTCCACCAT
Found at i:3026340 original size:7 final size:7
Alignment explanation
Indices: 3026328--3026353 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3026318 CTCCGATCCG
3026328 CCACCGT
1 CCACCGT
3026335 CCACCGT
1 CCACCGT
3026342 CCACCGT
1 CCACCGT
3026349 CCACC
1 CCACC
3026354 ATCCGATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.62, G:0.12, T:0.12
Consensus pattern (7 bp):
CCACCGT
Found at i:3026674 original size:3 final size:3
Alignment explanation
Indices: 3026666--3026754 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
3026656 AGTGCTTGCG
*
3026666 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3026714 TAA TAA TAA TAA TAA TAA TAA TAA TAA TATT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T
3026755 TTTTCAACCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 79 0.98
4 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3027718 original size:133 final size:133
Alignment explanation
Indices: 3027352--3028189 Score: 1058
Period size: 133 Copynumber: 6.3 Consensus size: 133
3027342 TGTTGATGAT
* * * **
3027352 GCTGATCCAACTCC-GCATGCGATGGATTTGAGTG-AAATGAAAACATCGATCCACCTCCTTCTG
1 GCTGATCCAACTCCTTC-TGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTG
* * * * * * *
3027415 TGATGGAATCAAACAAGATATCGATGATGATCCATCTCCTTCTCCTTTTGATGATAGAATCGAGC
65 TGATGGAATCGAACAAG--AT-GTTGGTGCT-GATCTAC--CTCCTTCTG-TGATAGAATCGAGC
* *
3027480 AAAAATTTGAT
123 AAAAAGTTGAC
* * * * *
3027491 GCTGACCCGACTCCTTCTGCGATGGATTTGAGCG-AAATAAAAATATCGATCCATCTTCTTCTGT
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
* * * *
3027555 GATGGAATCGAACGAGATGTTGGTGTTGATCTACGTCCTTCTGTGATAGAATCAAGCAAAAAGTT
66 GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
3027620 GAC
131 GAC
* *
3027623 GCTGATCCAACTCCCTCTGCGATAGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
* * * * * *
3027688 GATGTAATCAAACAAGATGTTGGTGCTGATCTACATCCTTCTGTGATAGAATCAAACAAAAAATT
66 GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
*
3027753 GAA
131 GAC
* * * *
3027756 TCTAATCCAACTCCTTCTGCGATGGATTTGAGCG--AA-AAAAATGTTGATCCACCTCCTTTTGT
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
* * * * *
3027818 GATGGATTTGAACGAGATATTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTT
66 GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
3027883 GAC
131 GAC
* *
3027886 GCTGATCCAACTCCTTCTGCGATGGATTTTAGCGAAAATAAAAATGTCGATCCATCTCCTTCTGT
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
* ** *
3027951 GATGTAATCGAACAAGATGTTGGTATTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTT
66 GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
3028016 GAC
131 GAC
* * * * *
3028019 GCTGATCCAACTCATTCCGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCATTGTGT
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
* *
3028084 GATGTAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGTAAAAAGTT
66 GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
3028149 GAC
131 GAC
* *
3028152 ACTGATCCAACCCCTTCTGCGATGGATTTGAGCGAAAA
1 GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
3028190 AAATTTCGAT
Statistics
Matches: 612, Mismatches: 82, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
130 111 0.18
131 2 0.00
132 54 0.09
133 363 0.59
135 5 0.01
136 6 0.01
137 2 0.00
139 68 0.11
140 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (133 bp):
GCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGT
GATGGAATCGAACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTT
GAC
Found at i:3028025 original size:44 final size:44
Alignment explanation
Indices: 3027581--3028170 Score: 143
Period size: 44 Copynumber: 13.4 Consensus size: 44
3027571 ATGTTGGTGT
* * * *
3027581 TGATCTACGTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
* * * * * * ** *
3027625 TGATCCAACTCCCTCTGCGATAGATTTGAGCGAAAA-TAAAAATG-
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGT--TGACGC
* * * **
3027669 TCGATCCACCTCCTTCTGTGAT-GTAATCAAAC-AAGATGTTGGTGC
1 T-GATCCACCTCCTTCTGTGATAG-AATCGAGCTAA-AAGTTGACGC
* * * * * * **
3027714 TGATCTACATCCTTCTGTGATAGAATCAAACAAAAAATTGAATC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
* * * * * * * ** * *
3027758 TAATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA--AAATGT
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
* * * * * * * **
3027800 TGATCCACCTCCTTTTGTGATGGATTTGAACGAGATA-TTGGTGC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTA-AAAGTTGACGC
*
3027844 TGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
* * * * ** * ** *
3027888 TGATCCAACTCCTTCTGCGATGGATTTTAGCGAAAA-TAAAAATG-
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGT--TGACGC
* * * ****
3027932 TCGATCCATCTCCTTCTGTGAT-GTAATCGAAC-AAGATGTTGGTAT
1 T-GATCCACCTCCTTCTGTGATAG-AATCGAGCTAA-AAGTTGACGC
*
3027977 TGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
* * * * * * * * ** *
3028021 TGATCCAACTCATTCCGCGATGGATTTGAGC-AAAAATAAAAATG-
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGT--TGACGC
* * * * **
3028065 TCGATCCACCTCATTGTGTGAT-GTAATCGAAC-AAGATGTTGGTGC
1 T-GATCCACCTCCTTCTGTGATAG-AATCGAGCTAA-AAGTTGACGC
* *
3028110 TGATCTACCTCCTTCTGTGATAGAATCGAG-TAAAAAGTTGACAC
1 TGATCCACCTCCTTCTGTGATAGAATCGAGCT-AAAAGTTGACGC
3028154 TGATCCAACC-CCTTCTG
1 TGATCC-ACCTCCTTCTG
3028171 CGATGGATTT
Statistics
Matches: 386, Mismatches: 129, Indels: 62
0.67 0.22 0.11
Matches are distributed among these distances:
42 29 0.08
43 11 0.03
44 253 0.66
45 89 0.23
46 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TGATCCACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
Found at i:3028284 original size:107 final size:107
Alignment explanation
Indices: 3028098--3028296 Score: 337
Period size: 107 Copynumber: 1.9 Consensus size: 107
3028088 TAATCGAACA
* *
3028098 AGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGTAAAAAGTTGACACTGATCCAAC
1 AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGTAAAAAGTTGACACTGATCCAAC
3028163 CCCTTCTGCGATGGATTTGAGCGAAAAAAATTTCGATCCACG
66 CCCTTCTGCGATGGATTTGAGCGAAAAAAATTTCGATCCACG
* *
3028205 AGATGTTGGTGCTGATCTACCTCATTCTATGATATAATCGAGCT-AAAAGTTGACGCTGATCCAA
1 AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAG-TAAAAAGTTGACACTGATCCAA
*
3028269 CTCCTTCTGCGATGGATTTGAGCGAAAA
65 CCCCTTCTGCGATGGATTTGAGCGAAAA
3028297 TAAAAATGTC
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
107 85 0.99
108 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (107 bp):
AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGTAAAAAGTTGACACTGATCCAAC
CCCTTCTGCGATGGATTTGAGCGAAAAAAATTTCGATCCACG
Found at i:3028388 original size:240 final size:243
Alignment explanation
Indices: 3027965--3028446 Score: 790
Period size: 240 Copynumber: 2.0 Consensus size: 243
3027955 TAATCGAACA
* * *
3027965 AGATGTTGGTATTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAAC
1 AGATGTTGGTACTGATCTACCTCATTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAAC
*
3028030 TCATTCCGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCATTGTGTGATGTAATCGA
66 TCATTCCGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCATTCTGTGATGTAATCGA
* * *
3028095 ACAAGATGTTGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAGTAAAAAGTTGACACTGATCC
131 ACAAGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACACTGATCC
3028160 AACCCCTTCTGCGATGGATTTGAGCG-AAA-AAAATT-TCGATCCACG
196 AACCCCTTCTGCGATGGATTTGAGCGAAAATAAAATTGTCGATCCACG
* *
3028205 AGATGTTGGTGCTGATCTACCTCATTCTATGATATAATCGAGCTAAAAGTTGACGCTGATCCAAC
1 AGATGTTGGTACTGATCTACCTCATTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAAC
* * * ** *
3028270 TCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCATGTCCTTCTGTGATGTAATCGA
66 TCATTCCGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCATTCTGTGATGTAATCGA
*
3028335 ACAAGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACGCTGATCC
131 ACAAGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACACTGATCC
*
3028400 AACTCCTTCTGCGATGGATTTGAGCGAAAATAAAATTGTCGATCCAC
196 AACCCCTTCTGCGATGGATTTGAGCGAAAATAAAATTGTCGATCCAC
3028447 CTCCTTCTGT
Statistics
Matches: 222, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
240 204 0.92
241 3 0.01
242 6 0.03
243 9 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (243 bp):
AGATGTTGGTACTGATCTACCTCATTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAAC
TCATTCCGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCATTCTGTGATGTAATCGA
ACAAGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACACTGATCC
AACCCCTTCTGCGATGGATTTGAGCGAAAATAAAATTGTCGATCCACG
Found at i:3028443 original size:133 final size:133
Alignment explanation
Indices: 3028205--3028460 Score: 467
Period size: 133 Copynumber: 1.9 Consensus size: 133
3028195 TCGATCCACG
* *
3028205 AGATGTTGGTGCTGATCTACCTCATTCTATGATATAATCGAGCTAAAAGTTGACGCTGATCCAAC
1 AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACGCTGATCCAAC
**
3028270 TCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCATGTCCTTCTGTGATGTAATCGA
66 TCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGTAATCGA
3028335 ACA
131 ACA
3028338 AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACGCTGATCCAAC
1 AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACGCTGATCCAAC
*
3028403 TCCTTCTGCGATGGATTTGAGCGAAAATAAAATTGTCGATCCACCTCCTTCTGTGATG
66 TCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATG
3028461 GATTTGAACC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (133 bp):
AGATGTTGGTGCTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGTTGACGCTGATCCAAC
TCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGTAATCGA
ACA
Found at i:3028971 original size:37 final size:37
Alignment explanation
Indices: 3028926--3029043 Score: 186
Period size: 36 Copynumber: 3.2 Consensus size: 37
3028916 ATAAAATTTA
* * *
3028926 TTGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAATT
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACGAAAAT
3028963 TTGTTTCAAGGGAAATTGTCTCAAGGGAGA-GAAAAT
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACGAAAAT
*
3028999 TTGTTTCAAGGGAAATTGTCTCAAGGGAGAC-AAAAC
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACGAAAAT
3029035 TTGTTTCAA
1 TTGTTTCAA
3029044 AGTTTTTATG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
36 48 0.63
37 28 0.37
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (37 bp):
TTGTTTCAAGGGAAATTGTCTCAAGGGAGACGAAAAT
Found at i:3028986 original size:15 final size:15
Alignment explanation
Indices: 3028963--3029026 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
3028953 AGACGAAATT
*
3028963 TTGTTTCAAGGGAAA
1 TTGTCTCAAGGGAAA
3028978 TTGTCTCAAGGGAGAGAAAA
1 TTGTCTCAA--G-G-G-AAA
*
3028998 TTTGTTTCAAGGGAAA
1 -TTGTCTCAAGGGAAA
3029014 TTGTCTCAAGGGA
1 TTGTCTCAAGGGA
3029027 GACAAAACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
15 20 0.50
16 3 0.08
17 2 0.05
18 2 0.05
19 2 0.05
20 3 0.08
21 8 0.20
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (15 bp):
TTGTCTCAAGGGAAA
Found at i:3029043 original size:21 final size:19
Alignment explanation
Indices: 3028975--3029043 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 19
3028965 GTTTCAAGGG
3028975 AAATTGTCTCAAGGGAGAGA
1 AAATTGTCTCAAGGGAGA-A
*
3028995 AAATTTGTTTCAA-GG-G--
1 AAA-TTGTCTCAAGGGAGAA
3029011 AAATTGTCTCAAGGGAGACA
1 AAATTGTCTCAAGGGAGA-A
*
3029031 AAACTTGTTTCAA
1 AAA-TTGTCTCAA
3029044 AGTTTTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
15 8 0.21
16 5 0.13
17 1 0.03
19 1 0.03
20 8 0.21
21 16 0.41
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (19 bp):
AAATTGTCTCAAGGGAGAA
Found at i:3029119 original size:63 final size:63
Alignment explanation
Indices: 3029048--3029169 Score: 192
Period size: 63 Copynumber: 1.9 Consensus size: 63
3029038 TTTCAAAGTT
3029048 TTTATGTTTCAAGAGAAACCT-TATCAAGGGAGACAAAATTCATTCCAAGGGAAACTATCAAAG
1 TTTATGTTTCAAGAGAAA-CTGTATCAAGGGAGACAAAATTCATTCCAAGGGAAACTATCAAAG
* ** *
3029111 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATC
1 TTTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAATTCATTCCAAGGGAAACTATC
3029170 TCAAGTGAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 2 0.04
63 52 0.96
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (63 bp):
TTTATGTTTCAAGAGAAACTGTATCAAGGGAGACAAAATTCATTCCAAGGGAAACTATCAAAG
Found at i:3029165 original size:36 final size:38
Alignment explanation
Indices: 3029115--3029204 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 38
3029105 TCAAAGTTTA
* *
3029115 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT-
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTTC
*
3029151 TGTTTCAAGGGAAACTATCTCAAGTGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA-CTTC
*
3029190 TGTTTCGAGGGAAAC
1 TGTTTCAAGGGAAAC
3029205 AACATGTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
36 31 0.66
38 2 0.04
39 14 0.30
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (38 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTTC
Found at i:3030773 original size:10 final size:9
Alignment explanation
Indices: 3030752--3030823 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 9
3030742 CCTTTTTTGC
3030752 TTTTTCTTT
1 TTTTTCTTT
3030761 TTTTTCTTAT
1 TTTTTCTT-T
3030771 TTTTTCCTTTT
1 TTTTT-C-TTT
3030782 TCTCATTTCTTT
1 T-T--TTTCTTT
3030794 TTATTTCTTT
1 TT-TTTCTTT
3030804 TTTCTTCTTT
1 TTT-TTCTTT
3030814 TTTTTCTTT
1 TTTTTCTTT
3030823 T
1 T
3030824 CTCTTTTTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
9 16 0.29
10 25 0.45
11 4 0.07
12 7 0.12
13 1 0.02
14 3 0.05
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:3030773 original size:17 final size:17
Alignment explanation
Indices: 3030753--3030831 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 17
3030743 CTTTTTTGCT
3030753 TTTTCTTTTTTTTCTTA
1 TTTTCTTTTTTTTCTTA
* *
3030770 TTTT-TTCCTTTTTCTCA
1 TTTTCTT-TTTTTTCTTA
3030787 -TTTCTTTTTATTTCTT-
1 TTTTCTTTTT-TTTCTTA
*
3030803 TTTTCTTCTTTTTT-TTC
1 TTTTCTT-TTTTTTCTTA
3030820 TTTTCTCTTTTT
1 TTTTCT-TTTTT
3030832 GTCCTGATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
16 9 0.18
17 38 0.75
18 4 0.08
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTTA
Found at i:3030790 original size:24 final size:24
Alignment explanation
Indices: 3030763--3030808 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3030753 TTTTCTTTTT
3030763 TTTCTTATTT-TTTCCTTTTTCTCA
1 TTTCTT-TTTATTTCCTTTTTCTCA
*
3030787 TTTCTTTTTATTTCTTTTTTCT
1 TTTCTTTTTATTTCCTTTTTCT
3030809 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTATTTCCTTTTTCTCA
Found at i:3030801 original size:34 final size:33
Alignment explanation
Indices: 3030754--3030831 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
3030744 TTTTTTGCTT
3030754 TTTCTTTTTTTTCTTATTTT-TTCCTTTTTCTCA
1 TTTCTTTTTTTTCTT-TTTTCTTCCTTTTTCTCA
* * *
3030787 TTTCTTTTTATTTCTTTTTTCTTCTTTTTTTTCT
1 TTTCTTTTT-TTTCTTTTTTCTTCCTTTTTCTCA
*
3030821 TTTCTCTTTTT
1 TTTCTTTTTTT
3030832 GTCCTGATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 15 0.38
34 24 0.62
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (33 bp):
TTTCTTTTTTTTCTTTTTTCTTCCTTTTTCTCA
Found at i:3030824 original size:24 final size:23
Alignment explanation
Indices: 3030753--3030831 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
3030743 CTTTTTTGCT
3030753 TTTTCTTTT-TTTTCTTATTTTTTC
1 TTTT-TTTTCTTTTCTT-TTTTTTC
* * *
3030777 CTTTTTCTCATTTCTTTTTATTTC
1 TTTTTTTTCTTTTCTTTTT-TTTC
3030801 TTTTTTCTTCTTTT-TTTTCTTTTC
1 TTTTTT-TTCTTTTCTTTT-TTTTC
*
3030825 TCTTTTT
1 TTTTTTT
3030832 GTCCTGATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
23 7 0.16
24 31 0.70
25 6 0.14
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTCTTTTCTTTTTTTTC
Found at i:3034439 original size:146 final size:145
Alignment explanation
Indices: 3034255--3034578 Score: 402
Period size: 146 Copynumber: 2.2 Consensus size: 145
3034245 AAGTTTTCAC
* * * * * *
3034255 TGTTTGGAATGTTGATCGG-AGATCTCGATCGCCGGCAAGAGGCCTAAAGCC-GCTCGAATTTGT
1 TGTTCGGAATGTTGATCGGAAG-TCCCGATCACCAGCAAGAGACCTAAAGCCATC-CGAATTTGT
** *
3034318 TTTCTCCGATCCACCACTTTCCACCATCCGATCATCTTGAATTTTCAGTATGTTGT-TCCTACTG
64 TTTCTCCGATCCACCACCATCCACCATCCGATCATCTTGAATTTTCAGTATGTTATAT-CTACTG
3034382 GCCTTGCTCAACTTTCGAA
128 GCCTTGCTCAACTTT-GAA
* *
3034401 TGTTCGGAATGTTGATCGGAAGTCCCGATCACCAGCAAGATACCTAAAGTCATCCGAATTTGTTT
1 TGTTCGGAATGTTGATCGGAAGTCCCGATCACCAGCAAGAGACCTAAAGCCATCCGAATTTGTTT
* * ** * **
3034466 TCTCCGATCCGCCACCATCCACCGTCCGATTGTCTTGAATTTTTAGTATGTTATATCTGTTGGCC
66 TCTCCGATCCACCACCATCCACCATCCGATCATCTTGAATTTTCAGTATGTTATATCTACTGGCC
*
3034531 TTGCTCAACTTTGAC
131 TTGCTCAACTTTGAA
* *
3034546 CGTTCGGAATGTTGATCGGATGTCCCGATCACC
1 TGTTCGGAATGTTGATCGGAAGTCCCGATCACC
3034579 GGCGAGAATC
Statistics
Matches: 154, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
145 33 0.21
146 117 0.76
147 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (145 bp):
TGTTCGGAATGTTGATCGGAAGTCCCGATCACCAGCAAGAGACCTAAAGCCATCCGAATTTGTTT
TCTCCGATCCACCACCATCCACCATCCGATCATCTTGAATTTTCAGTATGTTATATCTACTGGCC
TTGCTCAACTTTGAA
Found at i:3034865 original size:3 final size:3
Alignment explanation
Indices: 3034857--3034931 Score: 134
Period size: 3 Copynumber: 25.3 Consensus size: 3
3034847 AGTGCTTGGG
3034857 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3034904 TAA TAA TAA TAA TAA CAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3034932 TTTTCGACCC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3038557 original size:18 final size:18
Alignment explanation
Indices: 3038534--3038604 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 18
3038524 ACCGATCAAT
3038534 CATTGACCGACCATTGAC
1 CATTGACCGACCATTGAC
* * * *
3038552 CATTGACAGATCGTTGAT
1 CATTGACCGACCATTGAC
* ** *
3038570 CGTTGACTAACCGTTGAC
1 CATTGACCGACCATTGAC
*
3038588 CATTGATCGA-CATTGAC
1 CATTGACCGACCATTGAC
3038605 TTTTTTCAAA
Statistics
Matches: 39, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
17 6 0.15
18 33 0.85
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (18 bp):
CATTGACCGACCATTGAC
Found at i:3039816 original size:2 final size:2
Alignment explanation
Indices: 3039809--3039844 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3039799 CAGTTTTCTG
* *
3039809 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3039845 GTTAATTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3051755 original size:17 final size:17
Alignment explanation
Indices: 3051733--3051768 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3051723 TATAAAAAGT
3051733 ATATTTATAATATTAAA
1 ATATTTATAATATTAAA
* *
3051750 ATATTTATTATTTTAAA
1 ATATTTATAATATTAAA
3051767 AT
1 AT
3051769 TCAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTTATAATATTAAA
Found at i:3052940 original size:43 final size:42
Alignment explanation
Indices: 3052847--3053502 Score: 527
Period size: 43 Copynumber: 15.5 Consensus size: 42
3052837 ATTTTTTTCT
* *
3052847 CTTTAAAATTGAGTCCCCTAATTTTTGT-AAT-T-ACTTTTTA-
1 CTTTATAATTGAG-GCCCTAATTTTT-TCAATCTCACTTTTTAC
* * *
3052887 CGTTATAATTGAGGCCCTGATTTTTTTCAATTTCACTTTTTAC
1 CTTTATAATTGAGGCCCT-AATTTTTTCAATCTCACTTTTTAC
* *
3052930 ATTTATAATTGAAGCCCCTAA--TTTTCAATCTCAC-TTTTAC
1 CTTTATAATTG-AGGCCCTAATTTTTTCAATCTCACTTTTTAC
* * * *
3052970 CTTTATAATTGATGCCCCTAATTTTTT-AATCCCACTTTCTAT
1 CTTTATAATTGA-GGCCCTAATTTTTTCAATCTCACTTTTTAC
* * * *
3053012 TTTTATAATTGAAGCCCTTAATTTTTTTAATCTCATTTTTTAC
1 CTTTATAATTGAGGCCC-TAATTTTTTCAATCTCACTTTTTAC
* * * * * *
3053055 ATTTAAAATTGAGACCCCAAATTTTTTCAATCTCATTTTTTAG
1 CTTTATAATTGAG-GCCCTAATTTTTTCAATCTCACTTTTTAC
* * * *
3053098 ATTTATAATTAAAGCCCCTAATTTTTT-AACCTCACTTTTTAC
1 CTTTATAATT-GAGGCCCTAATTTTTTCAATCTCACTTTTTAC
* * * *
3053140 CTTTAT-ATCTGAGGCTCATAATTTTTTCAATATGACTTTCTAC
1 CTTTATAAT-TGAGGC-CCTAATTTTTTCAATCTCACTTTTTAC
* * * * *
3053183 CTTCAAAATTGAAG-CCTAATGTTTTGAATCTCACTTTTTAC
1 CTTTATAATTGAGGCCCTAATTTTTTCAATCTCACTTTTTAC
* * * * *
3053224 TTTTATAATTGAAGCCCCTAATGTTTTTCAATCCCACCTTTAAC
1 CTTTATAATTG-AGGCCCTAAT-TTTTTCAATCTCACTTTTTAC
* *
3053268 CTTTATAATTGAAGCCCCTAATTTTTTTAATCTCACTTTTTAC
1 CTTTATAATTG-AGGCCCTAATTTTTTCAATCTCACTTTTTAC
*
3053311 CTTTATAATTGAAGCCCTTAA-TTTTTCAATCTCAC-TTTTAC
1 CTTTATAATTGAGGCCC-TAATTTTTTCAATCTCACTTTTTAC
* *
3053352 C-TTATAATCT-AGGTTCCTAATTTTTTCAATCTCACTTTCTAC
1 CTTTATAAT-TGAGG-CCCTAATTTTTTCAATCTCACTTTTTAC
* * * *
3053394 CTCTATAATTGAAGGACCTAATCTTTT-AATTTCACTTTTTAC
1 CTTTATAATTG-AGGCCCTAATTTTTTCAATCTCACTTTTTAC
** *
3053436 CTTTATAATTGAGGTCAATAATTTTTCCAATC-CATCTTTTTAC
1 CTTTATAATTGAGG-CCCTAATTTTTTCAATCTCA-CTTTTTAC
* * *
3053479 TTTTATAATTTAGGCTCTTAATTT
1 CTTTATAATTGAGGC-CCTAATTT
3053503 AATCATTTTT
Statistics
Matches: 496, Mismatches: 87, Indels: 63
0.77 0.13 0.10
Matches are distributed among these distances:
39 6 0.01
40 56 0.11
41 84 0.17
42 122 0.25
43 175 0.35
44 53 0.11
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (42 bp):
CTTTATAATTGAGGCCCTAATTTTTTCAATCTCACTTTTTAC
Found at i:3053137 original size:85 final size:85
Alignment explanation
Indices: 3052848--3053488 Score: 525
Period size: 85 Copynumber: 7.6 Consensus size: 85
3052838 TTTTTTTCTC
* * * *
3052848 TTTAAAATTG-AGTCCCCTAATTTTTGTAAT-T-ACTTTTTA-CGTTATAATTGAG-GCCCTGAT
1 TTTATAATTGAAG-CCCCTAATTTTT-TAATCTCACTTTTTACCTTTATAATTGAGACCCCT-AA
*
3052908 TTTTTTCAATTTCACTTTTTACA
63 TTTTTTCAATCTCACTTTTTACA
*
3052931 TTTATAATTGAAGCCCCTAA-TTTTCAATCTCAC-TTTTACCTTTATAATTGATG-CCCCTAATT
1 TTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAATTGA-GACCCCTAATT
* * **
3052993 TTTT-AATCCCACTTTCTATT
65 TTTTCAATCTCACTTTTTACA
* * * * *
3053013 TTTATAATTGAAGCCCTTAATTTTTTTAATCTCATTTTTTACATTTAAAATTGAGACCCCAAATT
1 TTTATAATTGAAGCCCCTAA-TTTTTTAATCTCACTTTTTACCTTTATAATTGAGACCCCTAATT
* *
3053078 TTTTCAATCTCATTTTTTAGA
65 TTTTCAATCTCACTTTTTACA
* * * * *
3053099 TTTATAATTAAAGCCCCTAATTTTTTAACCTCACTTTTTACCTTTAT-ATCTGAGGCTCATAATT
1 TTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAAT-TGAGACCCCTAATT
* * * *
3053163 TTTTCAATATGACTTTCTACC
65 TTTTCAATCTCACTTTTTACA
* * * *
3053184 TTCAAAATTGAAG--CCTAATGTTTTGAATCTCACTTTTTACTTTTATAATTGA-AGCCCCTAAT
1 TTTATAATTGAAGCCCCTAAT-TTTTTAATCTCACTTTTTACCTTTATAATTGAGA-CCCCTAAT
* * * *
3053246 GTTTTTCAATCCCACCTTTAACC
64 -TTTTTCAATCTCACTTTTTACA
*
3053269 TTTATAATTGAAGCCCCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGA-AGCCCTTAA-
1 TTTATAATTGAAGCCCCTAA-TTTTTTAATCTCACTTTTTACCTTTATAATTGAGA-CCCCTAAT
3053332 TTTTTCAATCTCAC-TTTTAC-
64 TTTTTCAATCTCACTTTTTACA
* * ** * *
3053352 CTTATAATCT-AGGTTCCTAATTTTTTCAATCTCACTTTCTACCTCTATAATTGAAGGA--CCTA
1 TTTATAAT-TGAAGCCCCTAATTTTTT-AATCTCACTTTTTACCTTTATAATTG-A-GACCCCTA
* * *
3053414 ATCTTTT-AATTTCACTTTTTACC
62 ATTTTTTCAATCTCACTTTTTACA
* * ** * *
3053437 TTTATAATTGAGGTCAATAATTTTTCCAATC-CATCTTTTTACTTTTATAATT
1 TTTATAATTGAAGCCCCTAATTTTT-TAATCTCA-CTTTTTACCTTTATAATT
3053489 TAGGCTCTTA
Statistics
Matches: 453, Mismatches: 76, Indels: 56
0.77 0.13 0.10
Matches are distributed among these distances:
81 3 0.01
82 46 0.10
83 91 0.20
84 73 0.16
85 166 0.37
86 30 0.07
87 43 0.09
88 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (85 bp):
TTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAATTGAGACCCCTAATTT
TTTCAATCTCACTTTTTACA
Found at i:3053253 original size:170 final size:167
Alignment explanation
Indices: 3052863--3053488 Score: 594
Period size: 170 Copynumber: 3.7 Consensus size: 167
3052853 AATTGAGTCC
* * * *
3052863 CCTAA-TTTTTGTAAT-T-ACTTTTTACGTTATAATTGAGGCCCTGATTTTTTTCAATTTCACTT
1 CCTAATTTTTTG-AATCTCACTTTTTACTTTATAATTGAGCCCCT-AATTTTTTCAATCTCACTT
* * *
3052925 TTTACATTTATAATTGAAGCCCCTAA-TTTTCAATCTCAC-TTTTACCTTTATAATTGATGCCCC
64 TTTACATTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCCCA
* ** *
3052988 TAATTTTTT-AATCCCACTTTCTATTTTTATAATTGAAGC
129 TAATTTTTTCAATCTCACTTTCTA-CCTTATAATTGAAGT
* * * * *
3053027 CCTTAATTTTTTTAATCTCATTTTTTACATTTAAAATTGAGACCCCAAATTTTTTCAATCTCATT
1 CC-TAATTTTTTGAATCTCACTTTTTAC-TTTATAATTGAG-CCCCTAATTTTTTCAATCTCACT
* * * * *
3053092 TTTTAGATTTATAATTAAAGCCCCTAATTTTTTAACCTCACTTTTTACCTTTAT-ATCTGAGGCT
63 TTTTACATTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAAT-TGAAGCC
* * *
3053156 CATAATTTTTTCAATATGACTTTCTACCTTCAAAATTGAAG-
127 CATAATTTTTTCAATCTCACTTTCTACCTT-ATAATTGAAGT
* * *
3053197 CCTAATGTTTTGAATCTCACTTTTTACTTTTATAATTGAAGCCCCTAATGTTTTTCAATCCCACC
1 CCTAATTTTTTGAATCTCACTTTTTAC-TTTATAATTG-AGCCCCTAAT-TTTTTCAATCTCACT
* *
3053262 TTTAACCTTTATAATTGAAGCCCCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCC
63 TTTTACATTTATAATTGAAGCCCCTAA-TTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCC
* *
3053327 CTTAA-TTTTTCAATCTCACTTT-TACCTTATAATCT-AGGTT
127 CATAATTTTTTCAATCTCACTTTCTACCTTATAAT-TGAAG-T
* * * ** * *
3053367 CCTAATTTTTTCAATCTCACTTTCTACCTCTATAATTGAAGGACCTAATCTTTT-AATTTCACTT
1 CCTAATTTTTTGAATCTCACTTTTTA-CTTTATAATTG-AGCCCCTAATTTTTTCAATCTCACTT
* * * ** * *
3053431 TTTACCTTTATAATTGAGGTCAATAATTTTTCCAATC-CATCTTTTTACTTTTATAATT
64 TTTACATTTATAATTGAAGCCCCTAATTTTT-TAATCTCA-CTTTTTACCTTTATAATT
3053489 TAGGCTCTTA
Statistics
Matches: 381, Mismatches: 60, Indels: 38
0.80 0.13 0.08
Matches are distributed among these distances:
164 2 0.01
165 6 0.02
166 6 0.02
167 15 0.04
168 105 0.28
169 65 0.17
170 124 0.33
171 56 0.15
172 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (167 bp):
CCTAATTTTTTGAATCTCACTTTTTACTTTATAATTGAGCCCCTAATTTTTTCAATCTCACTTTT
TACATTTATAATTGAAGCCCCTAATTTTTTAATCTCACTTTTTACCTTTATAATTGAAGCCCATA
ATTTTTTCAATCTCACTTTCTACCTTATAATTGAAGT
Found at i:3054428 original size:46 final size:46
Alignment explanation
Indices: 3054361--3054452 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
3054351 ACAGAAAGAA
3054361 ATGGTAATGATTTGAGATATTTTCCATCTTATGTTTAAATTTCTAG
1 ATGGTAATGATTTGAGATATTTTCCATCTTATGTTTAAATTTCTAG
*
3054407 ATGGTAATGATTTGAGATATTTTCCATCTTATTTTTAAATTTCTAG
1 ATGGTAATGATTTGAGATATTTTCCATCTTATGTTTAAATTTCTAG
3054453 TATGCTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (46 bp):
ATGGTAATGATTTGAGATATTTTCCATCTTATGTTTAAATTTCTAG
Found at i:3055896 original size:6 final size:6
Alignment explanation
Indices: 3055885--3055911 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3055875 ATTACATATA
3055885 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
3055912 CCTTTTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:3057182 original size:39 final size:37
Alignment explanation
Indices: 3057106--3057232 Score: 105
Period size: 39 Copynumber: 3.4 Consensus size: 37
3057096 TATATATATA
* * * *
3057106 TATATATATATATTATAG-TTTAAAAATATTTTTAAAACC
1 TATATATA-ATA-TATAGTTTTGAAAACATTATGAAAA-C
3057145 TATATATAATATATAGTTTTGAAAACATGTATGAAAAC
1 TATATATAATATATAGTTTTGAAAACAT-TATGAAAAC
* * * * *
3057183 ATTTATATATTATATAGTTTTTAAAATATTTTGAAAA-
1 -TATATATAATATATAGTTTTGAAAACATTATGAAAAC
*
3057220 TAAATATAATATA
1 TATATATAATATA
3057233 GTTTTTAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
36 10 0.14
37 5 0.07
38 20 0.27
39 38 0.52
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (37 bp):
TATATATAATATATAGTTTTGAAAACATTATGAAAAC
Found at i:3057257 original size:66 final size:66
Alignment explanation
Indices: 3057187--3057421 Score: 308
Period size: 66 Copynumber: 3.6 Consensus size: 66
3057177 GAAAACATTT
3057187 ATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATA-ATATAGTTTTTAAATATTTTTGA
1 ATATATTATATAGTTTTTAAAATA-TTTGAAAATAAATATATATATAGTTTTTAAATATTTTTGA
3057251 AA
65 AA
*
3057253 ATATA-TATTATAGTTTTTAAAGTA-TTGAAAATAAATA-ATATATAGTTTTT-AATA--TTTGA
1 ATATATTA-TATAGTTTTTAAAATATTTGAAAATAAATATATATATAGTTTTTAAATATTTTTGA
3057312 AA
65 AA
* *
3057314 GTATATATTATATAGTTTTTAAAGTATTTGAAAATAAATATAATATATAATTTTTAAA-ATTTTT
1 --ATATATTATATAGTTTTTAAAATATTTGAAAATAAATAT-ATATATAGTTTTTAAATATTTTT
*
3057378 AAAA
63 GAAA
*
3057382 ATATATTATATAGTTTTTAAACAT-TTTGAAAATATATATA
1 ATATATTATATAGTTTTTAAA-ATATTTGAAAATAAATATA
3057422 GTTTTGAAAT
Statistics
Matches: 152, Mismatches: 5, Indels: 25
0.84 0.03 0.14
Matches are distributed among these distances:
61 7 0.05
63 26 0.17
64 39 0.26
65 3 0.02
66 68 0.45
67 3 0.02
68 6 0.04
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.47
Consensus pattern (66 bp):
ATATATTATATAGTTTTTAAAATATTTGAAAATAAATATATATATAGTTTTTAAATATTTTTGAA
A
Found at i:3057342 original size:33 final size:32
Alignment explanation
Indices: 3057186--3057420 Score: 257
Period size: 31 Copynumber: 7.2 Consensus size: 32
3057176 TGAAAACATT
3057186 TATATATTATATAGTTTTTAAAATATTTTGAAAA
1 TATATATTATATAGTTTTT-AAATA-TTTGAAAA
* *
3057220 TAAATATAATATAGTTTTTAAATATTTTTGAAAA
1 TATATATTATATAGTTTTTAAATA--TTTGAAAA
3057254 TATATA-T-TATAGTTTTTAAAGTA-TTGAAAA
1 TATATATTATATAGTTTTTAAA-TATTTGAAAA
* * *
3057284 TAAATAATATATAGTTTTT-AATATTTGAAAG
1 TATATATTATATAGTTTTTAAATATTTGAAAA
3057315 TATATATTATATAGTTTTTAAAGTATTTGAAAA
1 TATATATTATATAGTTTTTAAA-TATTTGAAAA
* * *
3057348 TAAATATAATATATAATTTTTAAA-ATTTTTAAAA
1 T--ATATATTATATAGTTTTTAAATA-TTTGAAAA
*
3057382 -ATATATTATATAGTTTTTAAACATTTTGAAAA
1 TATATATTATATAGTTTTTAAATA-TTTGAAAA
3057414 TATATAT
1 TATATAT
3057421 AGTTTTGAAA
Statistics
Matches: 174, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
30 14 0.08
31 45 0.26
32 34 0.20
33 24 0.14
34 38 0.22
35 19 0.11
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
TATATATTATATAGTTTTTAAATATTTGAAAA
Found at i:3057451 original size:129 final size:128
Alignment explanation
Indices: 3057150--3057451 Score: 321
Period size: 129 Copynumber: 2.3 Consensus size: 128
3057140 AAACCTATAT
*
3057150 ATAATATATAGTTTTGAAAACATGTATGAAAACATTTATATATTATATAGTTTTTAAAATATTTT
1 ATAATATATAGTTTT--AAATAT-T-T-AAAAC-TTTA-ATATTATATAGTTTTTAAAATATTTT
* * *
3057215 GAAAATAAATATAATATAGTTTTTAAATATTTTTGAAAATATATATTATAGTTTTTAAAGTATTG
59 GAAAATAAATATAATATAATTTTTAAATATTTTTAAAAATATATATTATAGTTTTTAAAATATTG
3057280 AAAATAA
124 --AATAA
* * * * *
3057287 ATAATATATAGTTTTTAATATTTGAAAGTAT-ATATTATATAGTTTTTAAAGTA-TTTGAAAATA
1 ATAATATATAGTTTTAAATATTTAAAACTTTAATATTATATAGTTTTTAAAATATTTTGAAAATA
*
3057350 AATATAATATATAATTTTTAAA-ATTTTTAAAAATATAT-TATATAGTTTTTAAACATTTTG-A-
66 AATAT-A-ATATAATTTTTAAATATTTTTAAAAATATATAT-TATAGTTTTTAAA-ATATTGAAT
3057411 AA
127 AA
3057413 AT-ATATATAGTTTTGAAATATTTCAAAAACTTTAATATT
1 ATAATATATAGTTTT-AAATATTT--AAAACTTTAATATT
3057452 GGTTTTAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
125 12 0.08
126 11 0.08
127 1 0.01
128 21 0.15
129 55 0.38
130 17 0.12
131 2 0.01
132 3 0.02
133 1 0.01
134 1 0.01
135 4 0.03
137 15 0.10
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (128 bp):
ATAATATATAGTTTTAAATATTTAAAACTTTAATATTATATAGTTTTTAAAATATTTTGAAAATA
AATATAATATAATTTTTAAATATTTTTAAAAATATATATTATAGTTTTTAAAATATTGAATAA
Found at i:3057485 original size:14 final size:12
Alignment explanation
Indices: 3057454--3057500 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
3057444 TTAATATTGG
*
3057454 TTTTAAAAACAT
1 TTTTGAAAACAT
3057466 TTTTGAAAACAT
1 TTTTGAAAACAT
3057478 AATTTTGAAAACAT
1 --TTTTGAAAACAT
*
3057492 TTTTTAAAA
1 TTTTGAAAA
3057501 ACAATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:3060042 original size:26 final size:28
Alignment explanation
Indices: 3060013--3060070 Score: 93
Period size: 26 Copynumber: 2.1 Consensus size: 28
3060003 ATATAGAGAG
3060013 GGTATTATTGTAATT-TT-TAAATATAA
1 GGTATTATTGTAATTATTCTAAATATAA
*
3060039 GGTATTATTGTAATTATTCTTAATATAA
1 GGTATTATTGTAATTATTCTAAATATAA
3060067 GGTA
1 GGTA
3060071 AAATATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 15 0.52
27 2 0.07
28 12 0.41
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (28 bp):
GGTATTATTGTAATTATTCTAAATATAA
Found at i:3060135 original size:22 final size:23
Alignment explanation
Indices: 3060104--3060183 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
3060094 TTTTTTGTAG
*
3060104 AAACATAG-TTTCCAACTCTAGT
1 AAACAGAGTTTTCCAACTCTAGT
*
3060126 AAACAGAGTTTTTCAACTCTAGT
1 AAACAGAGTTTTCCAACTCTAGT
** **
3060149 AAACAGAGTTTTCCGGCTCCGGT
1 AAACAGAGTTTTCCAACTCTAGT
3060172 AAACAGAGTTTT
1 AAACAGAGTTTT
3060184 TGATTATGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 7 0.14
23 43 0.86
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (23 bp):
AAACAGAGTTTTCCAACTCTAGT
Found at i:3077221 original size:20 final size:23
Alignment explanation
Indices: 3077172--3077221 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 23
3077162 CGCAACACAG
3077172 TTTCCAAATACGCAACGCGAATA
1 TTTCCAAATACGCAACGCGAATA
*
3077195 TGT--AAAT-CGCAACG-GAAT-
1 TTTCCAAATACGCAACGCGAATA
3077213 TTTCCAAAT
1 TTTCCAAAT
3077222 TCACAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.09
19 4 0.17
20 11 0.48
21 4 0.17
23 2 0.09
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (23 bp):
TTTCCAAATACGCAACGCGAATA
Found at i:3077390 original size:20 final size:20
Alignment explanation
Indices: 3077365--3077403 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3077355 ATTAGCGTTG
3077365 CGAATTTGAAAATCACATTA
1 CGAATTTGAAAATCACATTA
*
3077385 CGAATTTGAAAATCGCATT
1 CGAATTTGAAAATCACATT
3077404 GTGATAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
CGAATTTGAAAATCACATTA
Found at i:3077404 original size:77 final size:74
Alignment explanation
Indices: 3077238--3077420 Score: 206
Period size: 77 Copynumber: 2.4 Consensus size: 74
3077228 CTCAGTTTCG
* * ** * *
3077238 GAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
1 GAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGCAATTAGCGTTGCGAATTTGAAAATCA
*
3077303 CATTGCGAT
66 CATTACGAT
* *
3077312 -AATACTGTGTACATTGCGATAGTACTGTTTACCTATATCGGCAATTAGCGTTGCGAATTTGAAA
1 GAA-AAT-CG--CATTGCGATAGTACTGTTTACCTATATCGGCAATTAGCGTTGCGAATTTGAAA
3077376 ATCACATTACGAATTT
62 ATCACATTACG-A--T
*
3077392 GAAAATCGCATTGTGATAGTACTGTTTAC
1 GAAAATCGCATTGCGATAGTACTGTTTAC
3077421 ATTGCGATAG
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
73 2 0.02
74 2 0.02
75 1 0.01
77 78 0.87
78 1 0.01
79 1 0.01
80 3 0.03
81 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (74 bp):
GAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGCAATTAGCGTTGCGAATTTGAAAATCA
CATTACGAT
Found at i:3077429 original size:20 final size:20
Alignment explanation
Indices: 3077400--3077440 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3077390 TTGAAAATCG
*
3077400 CATTGTGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
3077420 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
3077440 C
1 C
3077441 CTATATCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:3077455 original size:97 final size:97
Alignment explanation
Indices: 3077288--3077480 Score: 332
Period size: 97 Copynumber: 2.0 Consensus size: 97
3077278 ATTAGCGTTG
*
3077288 CGAATTTGAAAATCGCATTGCGATAATACTGTGTACATTGCGATAGTACTGTTTACCTATATCGG
1 CGAATTTGAAAATCGCATTGCGATAATACTGTGTACATTGCGATAGTACTGTTTACCTATATCGA
3077353 CAATTAGCGTTGCGAATTTGAAAATCACATTA
66 CAATTAGCGTTGCGAATTTGAAAATCACATTA
* * *
3077385 CGAATTTGAAAATCGCATTGTGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATCGA
1 CGAATTTGAAAATCGCATTGCGATAATACTGTGTACATTGCGATAGTACTGTTTACCTATATCGA
* *
3077450 TAATTAGCGTTGCGAATTTGAAAATCGCATT
66 CAATTAGCGTTGCGAATTTGAAAATCACATT
3077481 GCGATAGTAC
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (97 bp):
CGAATTTGAAAATCGCATTGCGATAATACTGTGTACATTGCGATAGTACTGTTTACCTATATCGA
CAATTAGCGTTGCGAATTTGAAAATCACATTA
Found at i:3078277 original size:13 final size:13
Alignment explanation
Indices: 3078258--3078300 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
3078248 GTTACAACCC
3078258 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
3078271 TACCCGACCCATT
1 GACCCGACCCGTT
3078284 GACCCGACCCGTT
1 GACCCGACCCGTT
3078297 GACC
1 GACC
3078301 GTTGACCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3079160 original size:20 final size:20
Alignment explanation
Indices: 3079137--3079182 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3079127 TTGATATGAT
3079137 AATACTACGA-TTGCTTAAGA
1 AATACTA-GATTTGCTTAAGA
*
3079157 AATACTAGATTTTGCTTACGA
1 AATACTAGA-TTTGCTTAAGA
3079178 AATAC
1 AATAC
3079183 GGATAACCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 7 0.30
21 14 0.61
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATACTAGATTTGCTTAAGA
Found at i:3082079 original size:20 final size:21
Alignment explanation
Indices: 3082027--3082082 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
3082017 TATGAAAAAT
* *
3082027 AAATT-CGCGTTGTGAATTTG
1 AAATTCCGTGTTGCGAATTTG
3082047 AAATTCCGTGTTGCGAATTTG
1 AAATTCCGTGTTGCGAATTTG
* *
3082068 -ACTTCTGTGTTGCGA
1 AAATTCCGTGTTGCGA
3082083 TTTACAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.39
Consensus pattern (21 bp):
AAATTCCGTGTTGCGAATTTG
Found at i:3082099 original size:20 final size:20
Alignment explanation
Indices: 3082076--3082145 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
3082066 TGACTTCTGT
*
3082076 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACATATTCGC
*
3082096 GTTGCAATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
3082116 GTTGCGATTTATATATTCGC
1 GTTGCGATTTACATATTCGC
3082136 GTTGCGATTT
1 GTTGCGATTT
3082146 TGGAACCTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:3085801 original size:41 final size:41
Alignment explanation
Indices: 3085750--3085848 Score: 189
Period size: 41 Copynumber: 2.4 Consensus size: 41
3085740 CTATAGTAAA
3085750 AAGATTGGTCGCCAGGTATTCCAAGCGACCTGTACAAAAAT
1 AAGATTGGTCGCCAGGTATTCCAAGCGACCTGTACAAAAAT
*
3085791 AAGATTGGTCGCCAGGTATTCCGAGCGACCTGTACAAAAAT
1 AAGATTGGTCGCCAGGTATTCCAAGCGACCTGTACAAAAAT
3085832 AAGATTGGTCGCCAGGT
1 AAGATTGGTCGCCAGGT
3085849 GCTCCAGGCG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (41 bp):
AAGATTGGTCGCCAGGTATTCCAAGCGACCTGTACAAAAAT
Found at i:3085860 original size:41 final size:41
Alignment explanation
Indices: 3085750--3085860 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
3085740 CTATAGTAAA
*
3085750 AAGATTGGTCGCCAGGTATTCCAAGCGACCTGTACAAAAAT
1 AAGATTGGTCGCCAGGTATTCCAGGCGACCTGTACAAAAAT
3085791 AAGATTGGTCGCCAGGTATTCC-GAGCGACCTGTACAAAAAT
1 AAGATTGGTCGCCAGGTATTCCAG-GCGACCTGTACAAAAAT
**
3085832 AAGATTGGTCGCCAGGTGCTCCAGGCGAC
1 AAGATTGGTCGCCAGGTATTCCAGGCGAC
3085861 TTGTGCAGGT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 64 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (41 bp):
AAGATTGGTCGCCAGGTATTCCAGGCGACCTGTACAAAAAT
Found at i:3086183 original size:32 final size:32
Alignment explanation
Indices: 3086147--3086226 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
3086137 GGTGTCGCCG
3086147 GGAAGGGATGGCGACACCCTTTGGTATCGCAT
1 GGAAGGGATGGCGACACCCTTTGGTATCGCAT
3086179 GGAAGGGATGGCGACACCCTTTGGTATCGCAT
1 GGAAGGGATGGCGACACCCTTTGGTATCGCAT
3086211 GGAAGGGATGGCGACA
1 GGAAGGGATGGCGACA
3086227 TACTTGTACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.24, C:0.20, G:0.38, T:0.19
Consensus pattern (32 bp):
GGAAGGGATGGCGACACCCTTTGGTATCGCAT
Found at i:3086593 original size:19 final size:19
Alignment explanation
Indices: 3086557--3086593 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3086547 AATGACAACA
*
3086557 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
3086576 AAATCGCAACGCGTTCTC
1 AAATCGCAACGCGATCTC
3086594 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:3086642 original size:20 final size:20
Alignment explanation
Indices: 3086619--3086704 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
3086609 GTTTCCAGAT
* *
3086619 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACAA
*
3086639 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATTATGAC--AA
* * *
3086660 TTGCAACGCGATTCTGACCA
1 TCGCAACGCGATTATGACAA
*
3086680 TCGCAACGCGATAAT-ACAAA
1 TCGCAACGCGATTATGAC-AA
3086700 TCGCA
1 TCGCA
3086705 TTATAATACA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.08
20 32 0.63
21 13 0.25
22 2 0.04
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGATTATGACAA
Found at i:3086669 original size:41 final size:41
Alignment explanation
Indices: 3086621--3086699 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
3086611 TTCCAGATTC
* *
3086621 GCAACGCGATTTTGACTATCGCAACGCGATAATACAAAATT
1 GCAACGCGATTCTGACCATCGCAACGCGATAATACAAAATT
3086662 GCAACGCGATTCTGACCATCGCAACGCGATAATACAAA
1 GCAACGCGATTCTGACCATCGCAACGCGATAATACAAA
3086700 TCGCATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
GCAACGCGATTCTGACCATCGCAACGCGATAATACAAAATT
Found at i:3086712 original size:17 final size:17
Alignment explanation
Indices: 3086690--3086738 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
3086680 TCGCAACGCG
3086690 ATAATACAAATCGCATT
1 ATAATACAAATCGCATT
3086707 ATAATACAAAATCGCATT
1 ATAATAC-AAATCGCATT
3086725 ATAATAC-AATCGCA
1 ATAATACAAATCGCA
3086739 ATGCGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 17 0.55
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATAATACAAATCGCATT
Found at i:3087173 original size:19 final size:20
Alignment explanation
Indices: 3087148--3087238 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 20
3087138 CTTATTTTGG
3087148 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
*
3087168 -TTTTTCATTATCGTAACAACAC
1 ATTTTTCACTATCG---CAACAC
* *
3087190 GTTTTTCAAACTCTCGCAACAC
1 ATTTTTC--ACTATCGCAACAC
*
3087212 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
3087231 ATTTTTCA
1 ATTTTTCA
3087239 AAATCGCGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 25 0.44
20 5 0.09
21 4 0.07
22 12 0.21
23 6 0.11
25 5 0.09
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:3088136 original size:40 final size:38
Alignment explanation
Indices: 3088088--3088180 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
3088078 ATTAATTAAA
* *
3088088 AATT-TTATATAAATTTTTTTAT-AATTATATATTATTT
1 AATTATTATATAAATTTTTTT-TGAATTATAAAATATTT
*
3088125 AAATTAATTATA-AACTGTTTTTTTGAATTATAAAATATTT
1 -AATT-ATTATATAAAT-TTTTTTTGAATTATAAAATATTT
*
3088165 AATTTTTATATAAATT
1 AATTATTATATAAATT
3088181 AGAAAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
38 10 0.22
39 11 0.24
40 24 0.53
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (38 bp):
AATTATTATATAAATTTTTTTTGAATTATAAAATATTT
Found at i:3090201 original size:19 final size:19
Alignment explanation
Indices: 3090179--3090223 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
3090169 TATATTTATT
3090179 TATAAT-TTTTATAATATAA
1 TATAATATTTT-TAATATAA
* *
3090198 TATAATATTTTTATTTTAA
1 TATAATATTTTTAATATAA
3090217 TATAATA
1 TATAATA
3090224 GATTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAATATTTTTAATATAA
Found at i:3090331 original size:14 final size:15
Alignment explanation
Indices: 3090312--3090345 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3090302 AAATATAATA
*
3090312 TAATATTCTAA-TTT
1 TAATATTATAAGTTT
3090326 TAATATTATAAGTTT
1 TAATATTATAAGTTT
3090341 TAATA
1 TAATA
3090346 GTTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TAATATTATAAGTTT
Found at i:3090343 original size:15 final size:14
Alignment explanation
Indices: 3090312--3090379 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
3090302 AAATATAATA
*
3090312 TAATATTCTAATTT
1 TAATATTATAATTT
3090326 TAATATTATAAGTTT
1 TAATATTATAA-TTT
3090341 TAATAGTT-TAA---
1 TAATA-TTATAATTT
*
3090352 TAATATTATTATTT
1 TAATATTATAATTT
*
3090366 TAATTAATATAATT
1 TAA-TATTATAATT
3090380 AATAATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
10 2 0.05
11 7 0.16
14 13 0.30
15 19 0.44
16 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (14 bp):
TAATATTATAATTT
Found at i:3090372 original size:29 final size:28
Alignment explanation
Indices: 3090340--3090395 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
3090330 ATTATAAGTT
3090340 TTAATAGT-TTAATAATATTATTATTTTAA
1 TTAATA-TATTAATAATA-TATTATTTTAA
3090369 TTAATATAATTAATAATATATTATTTT
1 TTAATAT-ATTAATAATATATTATTTT
3090396 TATTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 15 0.60
30 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TTAATATATTAATAATATATTATTTTAA
Found at i:3090406 original size:29 final size:29
Alignment explanation
Indices: 3090338--3090406 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
3090328 ATATTATAAG
*
3090338 TTTTAATAGTTTAATAATATTATTATTTTA
1 TTTTAATA-ATTAATAATATTATTATTTTA
* *
3090368 ATTAATATAATTAATAATA-TATTATTTTTA
1 TTTTA-ATAATTAATAATATTATTA-TTTTA
3090398 TTTTAATAA
1 TTTTAATAA
3090407 ATATTTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 9 0.28
30 20 0.62
31 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTTAATAATTAATAATATTATTATTTTA
Found at i:3090410 original size:35 final size:38
Alignment explanation
Indices: 3090354--3090452 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 38
3090344 TAGTTTAATA
*
3090354 ATATTATTATTTTAATTAATATAATTAATAAT-A-TAT
1 ATATTATTATTTTAATAAATATAATTAATAATAATTAT
*
3090390 -TATTTTTATTTTAATAAATAT--TTAAT-ATAATTAT
1 ATATTATTATTTTAATAAATATAATTAATAATAATTAT
* *
3090424 ATATTCTTATTTTAAAAAATATAA-TAATA
1 ATATTATTATTTTAATAAATATAATTAATA
3090453 TGAATAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
32 2 0.04
33 6 0.11
34 3 0.06
35 38 0.72
36 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (38 bp):
ATATTATTATTTTAATAAATATAATTAATAATAATTAT
Found at i:3090416 original size:30 final size:31
Alignment explanation
Indices: 3090342--3090428 Score: 81
Period size: 35 Copynumber: 2.7 Consensus size: 31
3090332 TATAAGTTTT
3090342 AATAGTTTAATA-A-TATTATTATTTTAATTA
1 AATA-TTTAATATATTATTATTATTTTAATTA
*
3090372 ATATAATTAATAATATATTATTTTTATTTTAA-TA
1 A-AT-ATT--TAATATATTATTATTATTTTAATTA
3090406 AATATTTAATATAATTATATATT
1 AATATTTAATAT-ATTAT-TATT
3090429 CTTATTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
30 7 0.15
31 9 0.19
32 7 0.15
33 7 0.15
34 4 0.09
35 13 0.28
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
AATATTTAATATATTATTATTATTTTAATTA
Found at i:3092472 original size:40 final size:40
Alignment explanation
Indices: 3092417--3092497 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
3092407 GACAAATATA
3092417 AGAGGTTTTGAAACTCCTGTGATGAAGAAACTACCCAATC
1 AGAGGTTTTGAAACTCCTGTGATGAAGAAACTACCCAATC
3092457 AGAGGTTTTGAAACTCCTGTGATGAAGAAACTACCCAATC
1 AGAGGTTTTGAAACTCCTGTGATGAAGAAACTACCCAATC
3092497 A
1 A
3092498 TTCATACAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
AGAGGTTTTGAAACTCCTGTGATGAAGAAACTACCCAATC
Found at i:3097428 original size:77 final size:79
Alignment explanation
Indices: 3097341--3097485 Score: 197
Period size: 77 Copynumber: 1.9 Consensus size: 79
3097331 TTAATTGTCT
** * *
3097341 TTGCAATTGAAAATTACAAATTCG-TTTTGATTTGGTTTTTAATCCCTTGTTTGG-TTTTAATAA
1 TTGCAATTGAAAATTACAAATTCGAACTTAATTTGG-TTTTAATCCATTGTTTGGTTTTTAATAA
3097404 GTTTGCTTGTATTCC
65 GTTTGCTTGTATTCC
** *
3097419 TTGC-ATTGAACTTTACAAATTCGAACTTAATTTGGTTTTGATCCATTGTTTGGTTTTTAATAAG
1 TTGCAATTGAAAATTACAAATTCGAACTTAATTTGGTTTTAATCCATTGTTTGGTTTTTAATAAG
3097483 TTT
66 TTT
3097486 TGTTTTTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 33 0.57
78 25 0.43
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (79 bp):
TTGCAATTGAAAATTACAAATTCGAACTTAATTTGGTTTTAATCCATTGTTTGGTTTTTAATAAG
TTTGCTTGTATTCC
Found at i:3098091 original size:45 final size:46
Alignment explanation
Indices: 3098027--3098123 Score: 162
Period size: 45 Copynumber: 2.1 Consensus size: 46
3098017 ATTTATTTTC
3098027 ATTTTTTGAATAAGCATGCGAACTAGATATCATGC-GATTAGG-TTT
1 ATTTTTTGAATAAGCATGCGAACTAGATATCATGCAG-TTAGGATTT
*
3098072 ATTTTTTGAATAAGCATGCGAATTAGATATCATGCAGTTAGGATTT
1 ATTTTTTGAATAAGCATGCGAACTAGATATCATGCAGTTAGGATTT
3098118 ATTTTT
1 ATTTTT
3098124 GAAAAACAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 39 0.80
46 10 0.20
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (46 bp):
ATTTTTTGAATAAGCATGCGAACTAGATATCATGCAGTTAGGATTT
Found at i:3107610 original size:8 final size:8
Alignment explanation
Indices: 3107597--3107672 Score: 60
Period size: 8 Copynumber: 10.4 Consensus size: 8
3107587 AATAAAAGAG
3107597 AAAATGAA
1 AAAATGAA
3107605 AAAATGAA
1 AAAATGAA
3107613 AAAATGAA
1 AAAATGAA
3107621 AAAA--AA
1 AAAATGAA
*
3107627 ATAAT--A
1 AAAATGAA
*
3107633 ATAATGAA
1 AAAATGAA
*
3107641 AGAA-GAA
1 AAAATGAA
3107648 AATAA-G-A
1 AA-AATGAA
3107655 AAAATGAA
1 AAAATGAA
3107663 AAAA-GAA
1 AAAATGAA
3107670 AAA
1 AAA
3107673 TGATGGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
6 13 0.22
7 14 0.24
8 32 0.54
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:3107652 original size:22 final size:21
Alignment explanation
Indices: 3107612--3107671 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
3107602 GAAAAAATGA
*
3107612 AAAAATGAAAAA-AAAATAAT
1 AAAAATGAAAAAGAAAATAAG
*
3107632 AATAATGAAAGAAGAAAATAAG
1 AAAAATGAAA-AAGAAAATAAG
3107654 AAAAATGAAAAAAGAAAA
1 AAAAATG-AAAAAGAAAA
3107672 ATGATGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 20 0.59
23 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAAGAAAATAAG
Found at i:3107665 original size:39 final size:40
Alignment explanation
Indices: 3107622--3107707 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 40
3107612 AAAAATGAAA
* * *
3107622 AAAAAATAATAATAAT-GAAAGAAGAAAATAAGAAAA-ATG
1 AAAAAATAAAAATAATGGAAA-AAGAAAAGAAAAAAAGATG
* * *
3107661 AAAAAAGAAAAATGATGGAAAACGAAAAGAAAAAAAGATG
1 AAAAAATAAAAATAATGGAAAAAGAAAAGAAAAAAAGATG
3107701 AAAAAAT
1 AAAAAAT
3107708 GGAAAATGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.72, C:0.01, G:0.15, T:0.12
Consensus pattern (40 bp):
AAAAAATAAAAATAATGGAAAAAGAAAAGAAAAAAAGATG
Found at i:3107682 original size:17 final size:14
Alignment explanation
Indices: 3107590--3107675 Score: 79
Period size: 14 Copynumber: 5.9 Consensus size: 14
3107580 AAGAAGAAAT
3107590 AAAAGAGAAAATGAA
1 AAAAGA-AAAATGAA
3107605 AAAATGAAAAAATGAA
1 AAAA-G-AAAAATGAA
3107621 AAAA-AAATAAT-AA
1 AAAAGAAA-AATGAA
* *
3107634 TAATGAAAGAA-GAA
1 AAAAGAAA-AATGAA
3107648 AATAAGAAAAATGAA
1 AA-AAGAAAAATGAA
3107663 AAAAGAAAAATGA
1 AAAAGAAAAATGA
3107676 TGGAAAACGA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.12
14 24 0.41
15 14 0.24
16 13 0.22
17 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (14 bp):
AAAAGAAAAATGAA
Found at i:3107703 original size:22 final size:22
Alignment explanation
Indices: 3107663--3107705 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3107653 GAAAAATGAA
*
3107663 AAAAGAAAAATGATGGAAAACG
1 AAAAGAAAAAAGATGGAAAACG
*
3107685 AAAAGAAAAAAAGATGAAAAA
1 AAAAG-AAAAAAGATGGAAAA
3107706 ATGGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAAAGATGGAAAACG
Found at i:3107770 original size:27 final size:27
Alignment explanation
Indices: 3107722--3107775 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
3107712 AATGGAAGAA
*
3107722 AAAATGAAAGAGAAAAACAAAAAGAGG
1 AAAATGAAAGAAAAAAACAAAAAGAGG
* *
3107749 AAAATGAAA-AAAAGAAATAAAAGGAGG
1 AAAATGAAAGAAAA-AAACAAAAAGAGG
3107776 TTCAAGATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.06
Consensus pattern (27 bp):
AAAATGAAAGAAAAAAACAAAAAGAGG
Found at i:3109064 original size:35 final size:36
Alignment explanation
Indices: 3109014--3109081 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 36
3109004 GAGCAGGTCA
3109014 ATCTTAAGCCTTCAC-G-AGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
*
3109048 ATCTGTAAGCCTTCACGGAAGATTAGTGAAGCAA
1 ATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCAA
3109082 CTCATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 4 0.13
35 11 0.37
36 1 0.03
37 14 0.47
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
Found at i:3109144 original size:51 final size:52
Alignment explanation
Indices: 3109084--3109394 Score: 252
Period size: 51 Copynumber: 5.9 Consensus size: 52
3109074 TGAAGCAACT
3109084 CATTTTA-TGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
1 CATTTTATTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
**
3109135 CATTTTA-TGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGTGGACA
1 CATTTTATTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * * * *
3109186 C-GTTTATTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC-
1 CATTTTATTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
3109236 C-TGTTTATTGAAGATTTTCCGAGT--TCTACTCTCTGAAGGAATAGAGAGC-GTACC
1 CAT-TTTATTGAAGA---T-CGAGTCCTATACTCTCTGAAGGAATAGGGAGCAG-ACA
* * * * *
3109290 CGTTTTATTGAAGATTGTTCAATTCT-TA-TACTCTGAA-GAATAGAGAGCAGACA
1 CATTTTATTGAAGATCG---AGTCCTATACT-CTCTGAAGGAATAGGGAGCAGACA
*
3109343 CATTTTA-TGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGCAG
1 CATTTTATTGAAGA----TCGAGTCCTATACTCT-CTGAAGGAATAGGGAGCAG
3109395 GCTCGTCATT
Statistics
Matches: 214, Mismatches: 22, Indels: 44
0.76 0.08 0.16
Matches are distributed among these distances:
50 6 0.03
51 100 0.47
52 7 0.03
53 50 0.23
54 30 0.14
55 19 0.09
56 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (52 bp):
CATTTTATTGAAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
Found at i:3109324 original size:54 final size:53
Alignment explanation
Indices: 3109213--3109392 Score: 165
Period size: 53 Copynumber: 3.4 Consensus size: 53
3109203 GTCCTATACT
* * * *
3109213 CTCTGAAAGAATAGGGAGCGGACCTG-TTTATTGAAGATT-TTCCGAGTTC-TACT-
1 CTCTGAAGGAATAGAGAGC-GACCCGTTTTATTGAAGATTGTT-C-AATTCTTA-TA
3109266 CTCTGAAGGAATAGAGAGCGTACCCGTTTTATTGAAGATTGTTCAATTCTTATA
1 CTCTGAAGGAATAGAGAGCG-ACCCGTTTTATTGAAGATTGTTCAATTCTTATA
* * * *
3109320 CTCTGAA-GAATAGAGAGCAGACACATTTTA-TGAAGATTGTTCGAGTCTTATA
1 CTCTGAAGGAATAGAGAGC-GACCCGTTTTATTGAAGATTGTTCAATTCTTATA
*
3109372 CTTCCTGAAGGAATAGGGAGC
1 C-T-CTGAAGGAATAGAGAGC
3109393 AGGCTCGTCA
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
52 22 0.20
53 46 0.42
54 29 0.27
55 12 0.11
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (53 bp):
CTCTGAAGGAATAGAGAGCGACCCGTTTTATTGAAGATTGTTCAATTCTTATA
Done.