Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002070.1 Hibiscus syriacus cultivar Beakdansim tig00004227_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: 812484
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:292792 original size:153 final size:151
Alignment explanation
Indices: 292538--292812 Score: 383
Period size: 153 Copynumber: 1.8 Consensus size: 151
292528 TTTTAAGAAA
* * * * *
292538 ATATATTAATATCTATATATATATTTTTATTATAAATAAGATATTTATTTATTTAGAAATATCAG
1 ATATATTAATATATATATATATATATTTATTAAAAATAAGATATTTATTTATTTAAAAATATCAA
*
292603 AAAAGAACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATATTAATAAAA
66 AAAAGAACATCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATATTAATAAAA
292668 CATTTATCTAAAATAATTAAT
131 CATTTATCTAAAATAATTAAT
292689 ATATATATATATATATATATATATATAATTTA-TAAAAATAAGATATTTATTTATTTAAAAATAT
1 ATATAT-TA-ATATATATATATATAT-ATTTATTAAAAATAAGATATTTATTTATTTAAAAATAT
* * * *** *
292753 CAAAAAATGGACATCTAGTTTCTTTAAGATTGCCC-TTTCTTAATATTGAAAAATAAATAT
63 CAAAAAA-GAACATCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAT
292813 ATATTTAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
151 6 0.06
152 2 0.02
153 75 0.70
154 24 0.22
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (151 bp):
ATATATTAATATATATATATATATATTTATTAAAAATAAGATATTTATTTATTTAAAAATATCAA
AAAAGAACATCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATATTAATAAAA
CATTTATCTAAAATAATTAAT
Found at i:292909 original size:3 final size:3
Alignment explanation
Indices: 292903--292934 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
292893 ATATATGTTC
*
292903 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
292935 TAAATATATT
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:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:293061 original size:29 final size:30
Alignment explanation
Indices: 292987--293064 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
292977 AACAATGACT
*
292987 AAAATAAAT-AAAATTAAAACTATATATTTA
1 AAAATAAATGAAAA-TAAAACTATATAATTA
* * *
293017 AAATATAAAAG-CAATAAAACT-TGTAATTA
1 AAA-ATAAATGAAAATAAAACTATATAATTA
293046 AAAATAAATGAAAATAAAA
1 AAAATAAATGAAAATAAAA
293065 TTAGTGACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 6 0.15
29 16 0.41
30 10 0.26
31 7 0.18
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (30 bp):
AAAATAAATGAAAATAAAACTATATAATTA
Found at i:294358 original size:3 final size:3
Alignment explanation
Indices: 294352--294406 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
294342 ATTTATTATT
*
294352 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA -AA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
294398 TAA TAA TAA
1 TAA TAA TAA
294407 ATCAAAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:295069 original size:118 final size:116
Alignment explanation
Indices: 294793--295599 Score: 840
Period size: 118 Copynumber: 6.8 Consensus size: 116
294783 GAATTAAAGC
* *
294793 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
294858 GAACACTTCTGGAAATGTGGATGCTGATTTATCTCCTTCTGTGATAGAGTCA-T-GCA
66 GAACACTTCTGGAAATGTTGATGCTG----ATC-CATCCAGTGAT-GAAT-ATTGGCA
* * * * *
294914 AATGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCGTCTTCAGATAAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
** * * *
294979 GAACTTTCTCTGGAAAAGTTGATGTTGATCCATCAAGTGATGAAT-TTGCGCA
66 GAACACT-TCTGGAAATGTTGATGCTGATCCATCCAGTGATGAATATTG-GCA
295031 AATGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AA-GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
* * * * ** * *
295096 ACGACCACTTCTGGAAATGTTGATGATGATCTATCTCCTTCTATGATAGAGTCAT-GCA
64 ATGAACACTTCTGGAAATGTTGATGCTGATCCATC-CAGT-GATGA-ATA-T--TGGCA
* *
295154 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCCCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
295219 GAAC-TTTCTTTGGAAAAGTTGATGCTGATCCATCGAGGGATGAAT-TCGAGCAA
66 GAACACTTC--TGGAAATGTTGATGCTGATCCATCCAGTGATGAATATTG-GC-A
* *
295272 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
* * * *
295337 TGAACACTTCTGGAAATGTTGATAG-TGATCTATCTCCTTCTGTGATAGAGTAAT-GCA
65 TGAACACTTCTGGAAATGTTGAT-GCTGATCCA--T-C--CAGTGAT-GAATATTGGCA
* * *
295394 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTTTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
** * * *
295459 GAACTTTCTCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAAT-TCGAGCAA
66 GAACACT-TCTGGAAATGTTGATGCTGATCCATCCAGTGATGAATATTG-GC-A
295512 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
295577 TGAACACTTCTGGAAATGTTGAT
65 TGAACACTTCTGGAAATGTTGAT
295600 CCATTGAGTG
Statistics
Matches: 570, Mismatches: 82, Indels: 71
0.79 0.11 0.10
Matches are distributed among these distances:
115 1 0.00
116 6 0.01
117 22 0.04
118 169 0.30
119 88 0.15
120 16 0.03
121 121 0.21
122 131 0.23
123 12 0.02
124 3 0.01
125 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (116 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACACTTCTGGAAATGTTGATGCTGATCCATCCAGTGATGAATATTGGCA
Found at i:295220 original size:240 final size:240
Alignment explanation
Indices: 294793--295599 Score: 1366
Period size: 240 Copynumber: 3.4 Consensus size: 240
294783 GAATTAAAGC
* *
294793 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTT-TTTCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * *
294857 TGAACACTTCTGGAAATGTGGATGCTGATTTATCTCCTTCTGTGATAGAGTCATGCAAATGTTAA
66 TGAACACTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGA
* *
294922 ACAAGTTCTTCTCATTATGAACTTCTTCTTCGTCTTCAGATAAGTTCTTCTTATTATGAACTTTC
131 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTC
* * * *
294987 TCTGGAAAAGTTGATGTTGATCCATCAAGTGATGAATTTGCGCAA
196 TCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAATTCGAGCAA
*
295032 ATGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
295097 CGACCACTTCTGGAAATGTTGATGATGATCTATCTCCTTCTATGATAGAGTCATGCAAAGGTTGA
66 TGAACACTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGA
* *
295162 ACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCCCATTATGAACTTTC
131 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTC
* *
295227 TTTGGAAAAGTTGATGCTGATCCATCGAGGGATGAATTCGAGCAA
196 TCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAATTCGAGCAA
* *
295272 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
295337 TGAACACTTCTGGAAATGTTGAT-AGTGATCTATCTCCTTCTGTGATAGAGTAATGCAAAGGTTG
66 TGAACACTTCTGGAAATGTTGATGA-TGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTG
*
295401 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTTTTCTCATTATGAACTTT
130 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTT
295466 CTCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAATTCGAGCAA
195 CTCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAATTCGAGCAA
295512 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
295577 TGAACACTTCTGGAAATGTTGAT
66 TGAACACTTCTGGAAATGTTGAT
295600 CCATTGAGTG
Statistics
Matches: 532, Mismatches: 34, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
239 34 0.06
240 498 0.94
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (240 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACACTTCTGGAAATGTTGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGA
ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTC
TCTGGAAAAGTTGATGCTGATCCATCGAGTGATGAATTCGAGCAA
Found at i:295824 original size:22 final size:22
Alignment explanation
Indices: 295799--295847 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
295789 AAATCTTTTT
*
295799 TCTTTGAAAAGATAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
295821 TCTTTGAAGAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
295843 TCTTT
1 TCTTT
295848 AAAGAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:296196 original size:20 final size:20
Alignment explanation
Indices: 296150--296188 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
296140 GATCGCAACA
*
296150 CTGGTTTAGCACCATAATTT
1 CTGGTTCAGCACCATAATTT
296170 CTGGTTCAGCACCATAATT
1 CTGGTTCAGCACCATAATT
296189 ATTGGTTCGT
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:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (20 bp):
CTGGTTCAGCACCATAATTT
Found at i:298893 original size:158 final size:160
Alignment explanation
Indices: 298643--298961 Score: 624
Period size: 158 Copynumber: 2.0 Consensus size: 160
298633 TTACCCCAAA
298643 AGTGCATTTAGTCGGGTTGAGCTTTAATTGATACTTTCTCAATCTTTGGAAAAGCTTTCTTAGAT
1 AGTGCATTTAGTCGGGTTGAGCTTTAATTGATACTTTCTCAATCTTTGGAAAAGCTTTCTTAGAT
298708 TTTGAATATGTTCTTCTTCGGTTCGGGATTTGGCAATCATGTCATCCACGTATACTTCAATCTCT
66 TTTGAATATGTTCTTCTTCGGTTCGGGATTTGGCAATCATGTCATCCACGTATACTTCAATCTCT
298773 TTATGCATCATGTCATGAAACAGAGTTACC
131 TTATGCATCATGTCATGAAACAGAGTTACC
298803 AGTGCATTTAGTC-GGTTGAGCTTTAATTGATACTTTCTCAATCTTTGG-AAAGCTTTCTTAGAT
1 AGTGCATTTAGTCGGGTTGAGCTTTAATTGATACTTTCTCAATCTTTGGAAAAGCTTTCTTAGAT
298866 TTTGAATATGTTCTTCTTCGGTTCGGGATTTGGCAATCATGTCATCCACGTATACTTCAATCTCT
66 TTTGAATATGTTCTTCTTCGGTTCGGGATTTGGCAATCATGTCATCCACGTATACTTCAATCTCT
298931 TTATGCATCATGTCATGAAACAGAGTTACC
131 TTATGCATCATGTCATGAAACAGAGTTACC
298961 A
1 A
298962 TTGCTCTCTG
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
158 111 0.70
159 35 0.22
160 13 0.08
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (160 bp):
AGTGCATTTAGTCGGGTTGAGCTTTAATTGATACTTTCTCAATCTTTGGAAAAGCTTTCTTAGAT
TTTGAATATGTTCTTCTTCGGTTCGGGATTTGGCAATCATGTCATCCACGTATACTTCAATCTCT
TTATGCATCATGTCATGAAACAGAGTTACC
Found at i:306826 original size:24 final size:26
Alignment explanation
Indices: 306799--306868 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
306789 TTAATACTTG
306799 AAAATAA-A-ATAAAAATATTAATAA
1 AAAATAATATATAAAAATATTAATAA
* *
306823 AAAATAATATATATAAATATTATTAA
1 AAAATAATATATAAAAATATTAATAA
306849 AATAATAAGTATATATAAAA
1 AA-AATAA-TATATA-AAAA
306869 AATTTGAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 7 0.18
25 1 0.03
26 16 0.42
27 5 0.13
28 6 0.16
29 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
AAAATAATATATAAAAATATTAATAA
Found at i:307733 original size:3 final size:3
Alignment explanation
Indices: 307727--307763 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
307717 ATATATGTTC
307727 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
307764 ATATATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:307776 original size:12 final size:11
Alignment explanation
Indices: 307730--307781 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 11
307720 TATGTTCATA
307730 ATAAT-AATA-
1 ATAATAAATAT
307739 ATAAT-AATA-
1 ATAATAAATAT
307748 ATAAT-AATA-
1 ATAATAAATAT
307757 ATAATAAATAT
1 ATAATAAATAT
307768 ATAATTAAATAT
1 ATAA-TAAATAT
307780 AT
1 AT
307782 TGGAAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
9 23 0.57
10 4 0.10
11 4 0.10
12 9 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAAATAT
Found at i:309117 original size:27 final size:26
Alignment explanation
Indices: 309079--309129 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
309069 TTTGGGCCGA
309079 TCTGGGTGTAAGTGGGCCTCCGGGTTG
1 TCTGGGTGTAAGTGGGCCT-CGGGTTG
* *
309106 TCTGGTTGTAAGTTGGCCTCGGGT
1 TCTGGGTGTAAGTGGGCCTCGGGT
309130 ATGGGGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.08, C:0.18, G:0.41, T:0.33
Consensus pattern (26 bp):
TCTGGGTGTAAGTGGGCCTCGGGTTG
Found at i:309186 original size:3 final size:3
Alignment explanation
Indices: 309180--309228 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
309170 ATTTATTATT
*
309180 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA -AA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
309226 TAA
1 TAA
309229 ATCAAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:309207 original size:17 final size:16
Alignment explanation
Indices: 309180--309229 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 16
309170 ATTTATTATT
309180 TAATAATAATAATAATAA
1 TAAT-ATAATAATAA-AA
309198 TAATATAATAATAAAA
1 TAATATAATAATAAAA
309214 TAATTATAATAATAAA
1 TAA-TATAATAATAAA
309230 TCAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.16
17 22 0.71
18 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATAATAATAAAA
Found at i:309871 original size:199 final size:199
Alignment explanation
Indices: 309531--309927 Score: 767
Period size: 199 Copynumber: 2.0 Consensus size: 199
309521 CACTCCATTC
309531 CCGAATCATCATTGACTTGCATACCTCCTTCATCATCTAAAAAGGGATTTTATTTTGTCATTTCC
1 CCGAATCATCATTGACTTGCATACCTCCTTCATCATCTAAAAAGGGATTTTATTTTGTCATTTCC
*
309596 TTTAGGAAGCGAATCGATGAAAAACGTGGTGTTATTATCTCTATTCCTTAATCAATTCACTCCCG
66 TTTAGGAAGCGAATCGATAAAAAACGTGGTGTTATTATCTCTATTCCTTAATCAATTCACTCCCG
*
309661 CTCACTACTCCCAATATAACTTAGCCTTATCTGCCTCAAGATTCAACTGAAGCTTTGTGTCAAGA
131 CTCACTACTCCCAATATAACTCAGCCTTATCTGCCTCAAGATTCAACTGAAGCTTTGTGTCAAGA
309726 ATTT
196 ATTT
309730 CCGAATCATCATTGACTTGCATACCTCCTTCATCATCTAAAAAGGGATTTTATTTTGTCATTTCC
1 CCGAATCATCATTGACTTGCATACCTCCTTCATCATCTAAAAAGGGATTTTATTTTGTCATTTCC
309795 TTTAGGAAGCGAATCGATAAAAAACGTGGTGTTATTATCTCTATTCCTTAATCAATTCACTCCCG
66 TTTAGGAAGCGAATCGATAAAAAACGTGGTGTTATTATCTCTATTCCTTAATCAATTCACTCCCG
*
309860 CTCACTACTCCCAATATAACTCAGCCTTATCTGCCTCAAGATTCAATTGAAGCTTTGTGTCAAGA
131 CTCACTACTCCCAATATAACTCAGCCTTATCTGCCTCAAGATTCAACTGAAGCTTTGTGTCAAGA
309925 ATT
196 ATT
309928 ACCCAATGAC
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 195 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (199 bp):
CCGAATCATCATTGACTTGCATACCTCCTTCATCATCTAAAAAGGGATTTTATTTTGTCATTTCC
TTTAGGAAGCGAATCGATAAAAAACGTGGTGTTATTATCTCTATTCCTTAATCAATTCACTCCCG
CTCACTACTCCCAATATAACTCAGCCTTATCTGCCTCAAGATTCAACTGAAGCTTTGTGTCAAGA
ATTT
Found at i:312569 original size:81 final size:81
Alignment explanation
Indices: 312434--313019 Score: 895
Period size: 81 Copynumber: 7.2 Consensus size: 81
312424 AAGCATTTAG
* * *
312434 TCTTTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
312499 AAAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
312515 TCTTTTACTCAAAGGTATTTAATCTTTCATCTAACTAGCATAATTAACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
312580 ACATCTATGCCATTAA
66 ACAGCTAGGCCATTAA
* *
312596 TCTTTTACTCAAGGGTATTTAACCTTTCATCTAACTGGCATAATTGATATC-TTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCAAATG
312660 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
312677 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATCGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
312742 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* * * * * *
312758 TCTTTTATTCAAAGGTATTTAATCTTTCATCTAACTGGAATAATTGACACCTTTCTCTCTAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
312823 ACATCTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* *
312839 TCTTTTACTCAAAGGTATTTTACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
312904 ACAGCTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* *
312920 TCTTTTACTCAAAGGTATTTAACCTTTCATCTATCTAGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
312985 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
313001 TCTTTTACTCAAAAGTATT
1 TCTTTTACTCAAAGGTATT
313020 ATTCATAATA
Statistics
Matches: 459, Mismatches: 44, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 457 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:313552 original size:22 final size:21
Alignment explanation
Indices: 313511--313581 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 21
313501 TGATTCAATA
*
313511 GTATCGATACCCT-TACCATG
1 GTATCGATACTCTATACCATG
313531 GTATCGATACTACTATACCATG
1 GTATCGATACT-CTATACCATG
* *
313553 GTACCGATACTCTAT--TATG
1 GTATCGATACTCTATACCATG
313572 GTATCGATAC
1 GTATCGATAC
313582 CATTTTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 12 0.27
20 10 0.22
21 6 0.13
22 17 0.38
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (21 bp):
GTATCGATACTCTATACCATG
Found at i:324470 original size:115 final size:117
Alignment explanation
Indices: 324310--324592 Score: 437
Period size: 117 Copynumber: 2.4 Consensus size: 117
324300 AAACACACAT
* * *
324310 CCACCTGCACACCAGTAAGGACTTACCCTAAGCACAAAGCCAAGGAGTCTGCAGTAATAACTTCC
1 CCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCAGTAATAACTTCC
*
324375 CCA-TCA-TCACTACAATCACTACAATGTGTAGGTTCCCCAGAACCATACAC
66 CCACCCAGTCACTACAATCACTACAATGTGTAGGTTCCCCAGAACCATACAC
* *
324425 CCACCTGCACACCAGTAAGGACTTACCCTGAGCACATAGCAAAGGAGCCTGCGGTAATAACTTCC
1 CCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCAGTAATAACTTCC
* * *
324490 CCACCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCATAGCCATACAC
66 CCACCCAGTCACTACAATCACTACAATGTGTAGGTTCCCCAGAACCATACAC
* *
324542 CCACCTGCACACTAGTAAGGACTTACCCTGAGCACACAA-CAAATGAGCCTG
1 CCACCTGCACACCAGTAAGGACTTACCCTGAGCACA-AAGCAAAGGAGCCTG
324593 AAATACTTCC
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
115 63 0.41
116 2 0.01
117 87 0.57
118 1 0.01
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (117 bp):
CCACCTGCACACCAGTAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCAGTAATAACTTCC
CCACCCAGTCACTACAATCACTACAATGTGTAGGTTCCCCAGAACCATACAC
Found at i:325572 original size:29 final size:29
Alignment explanation
Indices: 325533--325715 Score: 142
Period size: 29 Copynumber: 6.4 Consensus size: 29
325523 ATTTTTTTTA
* * *
325533 AATTACGAAAATAGCACCATTTTGAAATT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* *
325562 AATTACCAAAATAGAAACATTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
325591 AATTACTAAAATATCACTC-TTTTAAAAAT
1 AATTACCAAAATAGCAC-CATTTTCAAAAT
* * * * * *
325620 -TTTA-CGAAATTGTAACC-TTTTTAAAAA
1 AATTACCAAAATAG-CACCATTTTCAAAAT
* *
325647 AAATA-AAAAATAGCACCATTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
325675 AATTACCAGAATAGCACCATTTCCCAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
325704 AATTACCAAAAT
1 AATTACCAAAAT
325716 GTCACTCAGT
Statistics
Matches: 117, Mismatches: 32, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
27 16 0.14
28 24 0.21
29 76 0.65
30 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.31
Consensus pattern (29 bp):
AATTACCAAAATAGCACCATTTTCAAAAT
Found at i:326885 original size:81 final size:81
Alignment explanation
Indices: 326799--327546 Score: 1077
Period size: 81 Copynumber: 9.2 Consensus size: 81
326789 AATCATTTAG
* * * * *
326799 TCTTTTACCCAAAGGCATTTAACCATTCATCTAACTGGCATAATTGACACCTTACTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
326864 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
326880 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
326945 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
326961 TTTTTTACTCAAAGGTATTTAATCTTTCGTTTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
327026 ACAGTTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
327042 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGACATAACTGACACCTTTATGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
327107 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
*
327123 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
327188 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
327204 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
327269 ACAGCTAGGTCGTTAA
66 ACAGCTAGGCCATTAA
*
327285 TCTTTTACTCAAAGGTATTTAA-CTTGTCATCTAACTGGCATAATTCACACCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTT-TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
* *
327349 CATAGCTAGGCCGTTAA
65 CACAGCTAGGCCATTAA
* * * * * *
327366 TCTTTTACTCAAAGGTATTTAACATTTCGTCTAACTGGCACAATTGAGACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
327431 ACAGC-CGGACCATTAA
66 ACAGCTAGG-CCATTAA
* * * *
327447 TCTTTTACTCAAAGGTATTTAGCCATTCATCTATCTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
327512 ACATCTAGGCCTTTAA
66 ACAGCTAGGCCATTAA
* *
327528 TCTTTGACTCAAAAGTATT
1 TCTTTTACTCAAAGGTATT
327547 ATTCATAATA
Statistics
Matches: 596, Mismatches: 67, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 5 0.01
81 587 0.98
82 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:328075 original size:20 final size:22
Alignment explanation
Indices: 328050--328101 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
328040 GGCTCAATAA
*
328050 TATCGATAC-CCT-TACCATGG
1 TATCGATACTACTATACCATGG
328070 TATCGATACTACTATACCATGG
1 TATCGATACTACTATACCATGG
*
328092 TACCGATACT
1 TATCGATACT
328102 TTATTACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (22 bp):
TATCGATACTACTATACCATGG
Found at i:329227 original size:22 final size:21
Alignment explanation
Indices: 329202--329266 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
329192 ATGTAGATAA
*
329202 TTATAAAATAAATTATAATTAT
1 TTATAAAAT-AATTATTATTAT
*
329224 TTATAATAATAATAATTATTAT
1 TTATAA-AATAATTATTATTAT
329246 TTAT--AATAATTATTATTAT
1 TTATAAAATAATTATTATTAT
329265 TT
1 TT
329267 TGATCATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 16 0.41
22 20 0.51
23 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAAAATAATTATTATTAT
Found at i:329240 original size:19 final size:20
Alignment explanation
Indices: 329216--329262 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
329206 AAAATAAATT
329216 ATAATTATTTA-TAATAATA
1 ATAATTATTTATTAATAATA
*
329235 ATAATTA-TTATTTATAATA
1 ATAATTATTTATTAATAATA
*
329254 ATTATTATT
1 ATAATTATT
329263 ATTTTGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 20 0.83
20 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTATTTATTAATAATA
Found at i:329251 original size:13 final size:13
Alignment explanation
Indices: 329216--329259 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
329206 AAAATAAATT
329216 ATAATTATTTATA
1 ATAATTATTTATA
329229 ATAA-TA---ATA
1 ATAATTATTTATA
*
329238 ATTATTATTTATA
1 ATAATTATTTATA
329251 ATAATTATT
1 ATAATTATT
329260 ATTATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
12 2 0.08
13 15 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTATTTATA
Found at i:329251 original size:16 final size:16
Alignment explanation
Indices: 329232--329262 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
329222 ATTTATAATA
329232 ATAATAATTATTATTT
1 ATAATAATTATTATTT
329248 ATAATAATTATTATT
1 ATAATAATTATTATT
329263 ATTTTGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATAATTATTATTT
Found at i:335147 original size:35 final size:34
Alignment explanation
Indices: 335062--335148 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
335052 ATTTGGTATT
*
335062 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
335096 TAAATGATAACCAAATTACAATAATTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
335134 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
335149 ATTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:335382 original size:12 final size:12
Alignment explanation
Indices: 335367--335400 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
335357 GTTGTCATCA
335367 TCGTCGTCGTTG
1 TCGTCGTCGTTG
*
335379 TCGTCGTCATTG
1 TCGTCGTCGTTG
*
335391 TCATCGTCGT
1 TCGTCGTCGT
335401 CGTCCTGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.26, T:0.41
Consensus pattern (12 bp):
TCGTCGTCGTTG
Found at i:337792 original size:51 final size:49
Alignment explanation
Indices: 337637--337794 Score: 133
Period size: 51 Copynumber: 3.1 Consensus size: 49
337627 CCCCCTGTAC
* * *
337637 CGCGCTATACCCCACGTG-T-CAGATAAACAGCTATAGCGTAGAACAGGGGG
1 CGCGCTATACCCCACGTGATGC-CA-AATCAGCTATAGCGT-GGACAGGGGG
* ** * *
337687 CGCGCTATA-CCCACGTGTAAGCCATGTCAGCGTATAGCGCGGTATAGGGGG
1 CGCGCTATACCCCACGTG-ATGCCAAATCAGC-TATAGCGTGG-ACAGGGGG
* *
337738 CGCGCTATACCCCACGTGATGCCAAATCAGCATATAGCGTGGAGCAAGGAG
1 CGCGCTATACCCCACGTGATGCCAAATCAGC-TATAGCGTGGA-CAGGGGG
337789 CGCGCT
1 CGCGCT
337795 TTATTGATAC
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
49 8 0.09
50 15 0.18
51 53 0.62
52 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.17
Consensus pattern (49 bp):
CGCGCTATACCCCACGTGATGCCAAATCAGCTATAGCGTGGACAGGGGG
Found at i:346788 original size:78 final size:78
Alignment explanation
Indices: 346659--346808 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 78
346649 TTTGGCATCA
** *
346659 ACCTTCTTATGAACCTTCATCTGTAGCAGGAACTTCAGCAGATCGAAACCATCAACCT-AGACAG
1 ACCTTCTTATGAACCTTCATCCCTAGCAGGAACTTCAACAGATCGAAACCATC-ACCTCAGACAG
346723 CAAGCCCCGTTTAT
65 CAAGCCCCGTTTAT
* * * *
346737 ACCTTCTTATGCACCTTCATCCCTATCAGGAACTTCAATAGATC-ATAACCATCAGCTCAGACAG
1 ACCTTCTTATGAACCTTCATCCCTAGCAGGAACTTCAACAGATCGA-AACCATCACCTCAGACAG
346801 CAAGCCCC
65 CAAGCCCC
346809 ATATATACTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 4 0.06
78 59 0.94
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (78 bp):
ACCTTCTTATGAACCTTCATCCCTAGCAGGAACTTCAACAGATCGAAACCATCACCTCAGACAGC
AAGCCCCGTTTAT
Found at i:350296 original size:20 final size:21
Alignment explanation
Indices: 350271--350324 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
350261 GTGATTCAAT
* *
350271 CGGTATCGATACCGTTG-AGG
1 CGGTATCGATACCATTGTAAG
350291 CGGTATCGATACCATTGTAAG
1 CGGTATCGATACCATTGTAAG
350312 -GGTATCGATACCA
1 CGGTATCGATACCA
350325 AGAAAACATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
CGGTATCGATACCATTGTAAG
Found at i:350395 original size:22 final size:23
Alignment explanation
Indices: 350367--350411 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
350357 CCGTAAGGGG
350367 GTATCGGTACCATAGT-ATGGTA
1 GTATCGGTACCATAGTAATGGTA
*
350389 GTATCGGTACCATGGTAATGGTA
1 GTATCGGTACCATAGTAATGGTA
350412 TCAATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (23 bp):
GTATCGGTACCATAGTAATGGTA
Found at i:350466 original size:95 final size:96
Alignment explanation
Indices: 350293--350477 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 96
350283 CGTTGAGGCG
* * * *
350293 GTATCGATACCATTGTAAGGGTATCGATACCAAGAAAACATCGAATCTAATTTTGGTATCGATAC
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGAAAACATCAAACCTAATTTTGGTATCGATAC
** *
350358 CGTAAGGGGGTATCGGTACCATAGTATGGTA
66 CGTAAGGAAGTATCAGTACCATAGTATGGTA
* * * * *
350389 GTATCGGTACCATGGTAATGGTATCAATATCAAG-CAACATCAAACCTAATTTTGGTATTGATAC
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGAAAACATCAAACCTAATTTTGGTATCGATAC
*
350453 TCG-GAGGAAGTATCAGTACCATAGT
66 -CGTAAGGAAGTATCAGTACCATAGT
350478 GTTAACCAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
95 44 0.59
96 31 0.41
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (96 bp):
GTATCGATACCATGGTAAGGGTATCAATACCAAGAAAACATCAAACCTAATTTTGGTATCGATAC
CGTAAGGAAGTATCAGTACCATAGTATGGTA
Found at i:350926 original size:45 final size:44
Alignment explanation
Indices: 350876--351216 Score: 384
Period size: 45 Copynumber: 7.6 Consensus size: 44
350866 TGAAAATAAT
*** *
350876 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAATGATGCTATAGTTGA
*
350921 AATGCATATGGGTGCATTGTCAACAGAAAAAT-ATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAG--AAATGATGCTATAGTTGA
*
350966 AATGCATATGGGTGCATTATCAACAGAAAATTATGGC-ATAGTTGA
1 AATGCATATGGGTGCATTATCAACAG-AAATGAT-GCTATAGTTGA
* *
351011 AATGCATATGGGTGCATTATCAACAGAAGCTCATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAA-ATGATGCTATAGTTGA
* * * *
351056 AATGCATATGGGTACATTATCAACAAAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAATG-ATGCTATAGTTGA
* * *
351101 AATGCATATGGGTGCATTATCAATAGAAAAGTATGCTATAGATGA
1 AATGCATATGGGTGCATTATCAACAGAAATG-ATGCTATAGTTGA
* *
351146 AATGCATATGGATGCATTATCAACAGAAAAGTATGCTATAG-TGAAA
1 AATGCATATGGGTGCATTATCAACAGAAATG-ATGCTATAGTTG--A
*
351192 AATGCATAAT-GGTGCATTATAAACA
1 AATGCAT-ATGGGTGCATTATCAACA
351217 TGAATGGAGT
Statistics
Matches: 263, Mismatches: 23, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
44 12 0.05
45 222 0.84
46 27 0.10
47 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (44 bp):
AATGCATATGGGTGCATTATCAACAGAAATGATGCTATAGTTGA
Found at i:351182 original size:135 final size:135
Alignment explanation
Indices: 350876--351191 Score: 437
Period size: 135 Copynumber: 2.3 Consensus size: 135
350866 TGAAAATAAT
*** * * * *
350876 AATGCATATGGGTGCATTATTGGCATGAAATG-ATGCCATAGTTGAAATGCATATGGGTGCATTG
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTA
* *
350940 TCAACAGAAAAATATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAATTATGGCAT
65 TCAACAGAAAAATATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGGCAT
*
351005 AGTTGA
130 AGATGA
351011 AATGCATATGGGTGCATTATCAACAG--AAGCTCATGCTATAGTTGAAATGCATATGGGTACATT
1 AATGCATATGGGTGCATTATCAACAGAAAAG-T-ATGCTATAGTTGAAATGCATATGGGTACATT
*
351074 ATCAACA-AAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTAT-GC
64 ATCAACAGAAAAA-TATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGGC
351137 TATAGATGA
128 -ATAGATGA
*
351146 AATGCATATGGATGCATTATCAACAGAAAAGTATGCTATAG-TGAAA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAA
351192 AATGCATAAT
Statistics
Matches: 162, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
132 2 0.01
134 13 0.08
135 143 0.88
136 1 0.01
137 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (135 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTAT
CAACAGAAAAATATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGGCATA
GATGA
Found at i:357863 original size:45 final size:45
Alignment explanation
Indices: 357764--358135 Score: 385
Period size: 45 Copynumber: 8.4 Consensus size: 45
357754 TGAAAATAAT
*** ** * *
357764 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
* * * *
357809 AATGTATATGGGTGCATTGTCAACAAAAAAGTATGCTATAATTGG
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
* * *
357854 AATGCATATGGGTGCATTATCAACAGAAAATTATGGC-ATATTTGA
1 AATGCATATGGGTGCATTATCAACAAAAAAGTAT-GCTATAGTTGA
* *
357899 AATGCATATGGGTGCATTATCAACAGAAACA-TATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-AAAAAGTATGCTATAGTTGA
**
357944 AATGCATATGGGTGCATTATCAACAGAAAAA-TATGCTATAGCCGA
1 AATGCATATGGGTGCATTATCAACA-AAAAAGTATGCTATAGTTGA
*
357989 AACGCATATGGGTGCATTAT---------AGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
* * *
358025 AATGCACATGGGTGCATTATCAACAGAATAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
*
358070 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAG-TGAAA
1 AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTG--A
358116 AATGCATAAT-GGTGCATTAT
1 AATGCAT-ATGGGTGCATTAT
358136 AACCATTAAT
Statistics
Matches: 280, Mismatches: 31, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.00
36 30 0.11
44 4 0.01
45 220 0.79
46 23 0.08
47 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAAAAAAGTATGCTATAGTTGA
Found at i:358065 original size:81 final size:81
Alignment explanation
Indices: 357930--358089 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 81
357920 AACAGAAACA
*
357930 TATGCCATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGCTATAGCCGAAACGCA
1 TATGCCATAGTTGAAATGCACATGGGTGCATTATCAACAGAAAAATATGCTATAGCCGAAACGCA
357995 TATGGGTGCATTATAG
66 TATGGGTGCATTATAG
* * * ** *
358011 TATGCTATAGTTGAAATGCACATGGGTGCATTATCAACAGAATAGTATGCTATAGTTGAAATGCA
1 TATGCCATAGTTGAAATGCACATGGGTGCATTATCAACAGAAAAATATGCTATAGCCGAAACGCA
358076 TATGGGTGCATTAT
66 TATGGGTGCATTAT
358090 CAACAGAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (81 bp):
TATGCCATAGTTGAAATGCACATGGGTGCATTATCAACAGAAAAATATGCTATAGCCGAAACGCA
TATGGGTGCATTATAG
Found at i:359015 original size:19 final size:20
Alignment explanation
Indices: 358987--359032 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
358977 CTTGAATCGA
*
358987 CTCAACTTGACT-AGTTCAG
1 CTCAATTTGACTGAGTTCAG
359006 CTCAATTTGACTGAGTTCAG
1 CTCAATTTGACTGAGTTCAG
359026 CTCAATT
1 CTCAATT
359033 AGACATGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (20 bp):
CTCAATTTGACTGAGTTCAG
Found at i:360395 original size:18 final size:19
Alignment explanation
Indices: 360360--360395 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
360350 AAATTAAGGT
360360 TTTCAAAGTTTTGGGTTTA
1 TTTCAAAGTTTTGGGTTTA
*
360379 TTTCAAA-TTTTGTGTTT
1 TTTCAAAGTTTTGGGTTT
360396 TCGTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (19 bp):
TTTCAAAGTTTTGGGTTTA
Found at i:362051 original size:31 final size:31
Alignment explanation
Indices: 362010--362068 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
362000 ACTCTTGATA
362010 ACATTCTTAATTACAATCAATTTCTGCCATT
1 ACATTCTTAATTACAATCAATTTCTGCCATT
*
362041 ACATTTTTAATTACAATCAATTTCTGCC
1 ACATTCTTAATTACAATCAATTTCTGCC
362069 GATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (31 bp):
ACATTCTTAATTACAATCAATTTCTGCCATT
Found at i:362073 original size:27 final size:28
Alignment explanation
Indices: 362010--362076 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
362000 ACTCTTGATA
*
362010 ACATTCTTAATTACAATCAATTTCTGCC
1 ACATTTTTAATTACAATCAATTTCTGCC
362038 ATTACATTTTTAATTACAATCAATTTCTGCC
1 ---ACATTTTTAATTACAATCAATTTCTGCC
*
362069 -GATTTTTA
1 ACATTTTTA
362077 TTTAATCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
31 27 0.79
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.45
Consensus pattern (28 bp):
ACATTTTTAATTACAATCAATTTCTGCC
Found at i:362372 original size:17 final size:17
Alignment explanation
Indices: 362347--362388 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
362337 GGCACCCTAA
*
362347 AATAAAATTTTCATTTT
1 AATAAAATTTTAATTTT
*
362364 AATATAATTTTAATTTT
1 AATAAAATTTTAATTTT
362381 AATTAAAA
1 AA-TAAAA
362389 CGACAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AATAAAATTTTAATTTT
Found at i:364954 original size:3 final size:3
Alignment explanation
Indices: 364941--364975 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
364931 GAAATATATG
*
364941 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
364976 AGATAGTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:365673 original size:133 final size:134
Alignment explanation
Indices: 365131--365806 Score: 747
Period size: 134 Copynumber: 5.1 Consensus size: 134
365121 TGTCACTCAA
* * * * * * *
365131 GGAATATCATATATGGGA-TGTTGATCTA-TTCTGCTATCACTCAAGGAAGATTGAATTAGGGCA
1 GGAATATCAGATCTGGGAGAGTTGATCCATTTC-GCTGTCACTCAGGGAAGATTGAATTGGGGCA
*** * * *
365194 GACTTGTTCTGTTGTCACTTAGGGAATATCAAATCTT-GAAAGAGAAGGATCTGTT-CGCTTCTT
65 GACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAA-AGAGGGACCTGTTCCGCTTCTT
365257 CTGAAG
129 CTGAAG
* * * * * * *
365263 GGAATATTAGATCTGGGGGAGTTGATCTATTCCGCTGTTACTCAGGGAAGATTGAATCGGGGAAG
1 GGAATATCAGATCTGGGAGAGTTGATCCATTTCGCTGTCACTCAGGGAAGATTGAATTGGGGCAG
* * * * *
365328 ATTTGTTCCACTGTCACGT-AGGAAATATCAAATCTTGGAAAAGAGTGACCTGTTCCGCATATTC
66 ACTTGTTCCACTGTCAC-TAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTC
365392 TGAAG
130 TGAAG
* * * * * * *
365397 AGAATATCATATTTGAGG-GAGTTGATCCATTTCGTTGTCACTCAGGGAAGATTGTATCGGGGAA
1 GGAATATCAGATCTG-GGAGAGTTGATCCATTTCGCTGTCACTCAGGGAAGATTGAATTGGGGCA
* * **
365461 GACTTGTTCCACTGTCATTAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTTCATTTCTTC
65 GACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTC
*
365526 TGAAA
130 TGAAG
* * * **
365531 AGAATATCAGATCTGGGAGAGTTGATCCATTTCGCTGTTACTCAGGGAAGATTGAATTAGGGCTC
1 GGAATATCAGATCTGGGAGAGTTGATCCATTTCGCTGTCACTCAGGGAAGATTGAATTGGGGCAG
* * * * *
365596 ACTTGTTTC-GTGTCTCTAAAGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTTT
66 ACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTCT
365660 GAAG
131 GAAG
* * *
365664 GGAATATCAGATCTGGAAGAGTTGATCCA-TTCTGCTGCCACTCAAGGAAGATTGAATTGGGGCA
1 GGAATATCAGATCTGGGAGAGTTGATCCATTTC-GCTGTCACTCAGGGAAGATTGAATTGGGGCA
* * * * *
365728 TACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAAATAAGGACTTGTTCTGCTTCTTC
65 GACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTC
365793 TGAAG
130 TGAAG
*
365798 GAAATATCA
1 GGAATATCA
365807 TATATGCAAA
Statistics
Matches: 455, Mismatches: 79, Indels: 18
0.82 0.14 0.03
Matches are distributed among these distances:
132 17 0.04
133 188 0.41
134 248 0.55
135 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (134 bp):
GGAATATCAGATCTGGGAGAGTTGATCCATTTCGCTGTCACTCAGGGAAGATTGAATTGGGGCAG
ACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTCT
GAAG
Found at i:365806 original size:267 final size:268
Alignment explanation
Indices: 365150--365806 Score: 787
Period size: 267 Copynumber: 2.5 Consensus size: 268
365140 TATATGGGAT
* * * *** *
365150 GTTGATCTATTCTGCTATCACTCAAGGAAGATTGAATTAGGGCAGACTTGTTCTGTTGTCACTTA
1 GTTGATCCATTCTGCTGTCACTCAAGGAAGATTGAATTGGGGCAGACTTGTTCCACTGTCACTAA
* *
365215 GGGAATATCAAATCTT-GAAAGAGAAGGA-TCTGTTC-GCTTCTTCTGAAGGGAATATTAGATCT
66 GGGAATATCAAATCTTGGAAA-AGAAGGACT-TGTTCTGCTTCTTCTGAAGGAAATATCAGATCT
* * * * *
365277 GGGGGAGTTGATCTATTCCGCTGTTACTCAGGGAAGATTGAATCGGGGAAGATTTGTTCCACTGT
129 GGGAGAGTTGATCCATTCCGCTGTTACTCAGGGAAGATTGAATCAGGGAACACTTGTTCCACTGT
* *
365342 CACGTAGGAAATATCAAATCTTGGAAAAGAGTGACCTGTTCCGCATATTCTGAAGAGAATATCAT
194 CACGTAGGAAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCATATTCTGAAGAGAATATCAG
* *
365407 ATTTGAGGGA
259 ATTGGAGAGA
* * * * * *
365417 GTTGATCCATT-TCGTTGTCACTCAGGGAAGATTGTATCGGGGAAGACTTGTTCCACTGTCATTA
1 GTTGATCCATTCT-GCTGTCACTCAAGGAAGATTGAATTGGGGCAGACTTGTTCCACTGTCACTA
* * *
365481 AGGGAATATCAAATCTTGGAAAAGAGGGACCTGTT-T-CATTTCTTCTGAA-AAGAATATCAGAT
65 AGGGAATATCAAATCTTGGAAAAGAAGGACTTGTTCTGC--TTCTTCTGAAGGA-AATATCAGAT
* * ** * *
365543 CTGGGAGAGTTGATCCATTTCGCTGTTACTCAGGGAAGATTGAATTAGGGCTCACTTGTTTC-GT
127 CTGGGAGAGTTGATCCATTCCGCTGTTACTCAGGGAAGATTGAATCAGGGAACACTTGTTCCACT
* * * * *
365607 GTCTC-TAAAGG-AATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCTTCTTTTGAAGGGAATA
192 GTCACGT--AGGAAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCATATTCTGAAGAGAATA
365670 TCAGATCTGGA-AGA
255 TCAGAT-TGGAGAGA
* *
365684 GTTGATCCATTCTGCTGCCACTCAAGGAAGATTGAATTGGGGCATACTTGTTCCACTGTCACTAA
1 GTTGATCCATTCTGCTGTCACTCAAGGAAGATTGAATTGGGGCAGACTTGTTCCACTGTCACTAA
*
365749 GGGAATATCAAATCTTGGAAAATAAGGACTTGTTCTGCTTCTTCTGAAGGAAATATCA
66 GGGAATATCAAATCTTGGAAAAGAAGGACTTGTTCTGCTTCTTCTGAAGGAAATATCA
365807 TATATGCAAA
Statistics
Matches: 326, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
266 3 0.01
267 238 0.73
268 84 0.26
269 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (268 bp):
GTTGATCCATTCTGCTGTCACTCAAGGAAGATTGAATTGGGGCAGACTTGTTCCACTGTCACTAA
GGGAATATCAAATCTTGGAAAAGAAGGACTTGTTCTGCTTCTTCTGAAGGAAATATCAGATCTGG
GAGAGTTGATCCATTCCGCTGTTACTCAGGGAAGATTGAATCAGGGAACACTTGTTCCACTGTCA
CGTAGGAAATATCAAATCTTGGAAAAGAGGGACCTGTTCCGCATATTCTGAAGAGAATATCAGAT
TGGAGAGA
Found at i:367572 original size:1 final size:1
Alignment explanation
Indices: 367524--367553 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
367514 TTCTTACTTA
*
367524 TTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
367554 CATCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:369253 original size:16 final size:17
Alignment explanation
Indices: 369232--369264 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
369222 TGAAAGAGTA
369232 GTATCGATACCA-AGAG
1 GTATCGATACCAGAGAG
369248 GTATCGATACCAGAGAG
1 GTATCGATACCAGAGAG
369265 AAAGTATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (17 bp):
GTATCGATACCAGAGAG
Found at i:369566 original size:18 final size:18
Alignment explanation
Indices: 369543--369588 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
369533 TCGATCTAAG
369543 GTGCTAAGTGTTTAGCTT
1 GTGCTAAGTGTTTAGCTT
369561 GTGCTAAGTGTTTAGCTT
1 GTGCTAAGTGTTTAGCTT
369579 GTGCTAAGTG
1 GTGCTAAGTG
369589 AGGCCAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.41
Consensus pattern (18 bp):
GTGCTAAGTGTTTAGCTT
Found at i:370394 original size:23 final size:23
Alignment explanation
Indices: 370319--370426 Score: 80
Period size: 22 Copynumber: 4.9 Consensus size: 23
370309 TACGCAGTTA
* * *
370319 TTCGGGATAATTCTACTTGGTCC
1 TTCGGGACAATTCTACGTGGTTC
* * *
370342 TTCGAGACATTTCTACGCGG-TC
1 TTCGGGACAATTCTACGTGGTTC
*
370364 TTCAGGACAATTCTACGTGGTTC
1 TTCGGGACAATTCTACGTGGTTC
* * *
370387 TTTGGGAC-A-TCTATGTGGTCC
1 TTCGGGACAATTCTACGTGGTTC
* *
370408 TTCGTGAC-ATTCTATGTGG
1 TTCGGGACAATTCTACGTGG
370427 CACTTCGGTG
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
21 17 0.25
22 27 0.40
23 23 0.34
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (23 bp):
TTCGGGACAATTCTACGTGGTTC
Found at i:371730 original size:18 final size:18
Alignment explanation
Indices: 371709--371743 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
371699 TTATAAATCA
371709 ATTTTTGAAATCAATTTT
1 ATTTTTGAAATCAATTTT
*
371727 ATTTTTGAAATGAATTT
1 ATTTTTGAAATCAATTT
371744 AGAAATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (18 bp):
ATTTTTGAAATCAATTTT
Found at i:372091 original size:24 final size:24
Alignment explanation
Indices: 372064--372124 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
372054 TAACAAATTT
* *
372064 AAACATTCAAATTAAAATAATCCA
1 AAACATCCAAAATAAAATAATCCA
372088 AAACATCCAAAATAAAATAATCCA
1 AAACATCCAAAATAAAATAATCCA
372112 AAACATCCAAAAT
1 AAACATCCAAAAT
372125 GTTTTAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.20
Consensus pattern (24 bp):
AAACATCCAAAATAAAATAATCCA
Found at i:373642 original size:20 final size:22
Alignment explanation
Indices: 373609--373652 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
373599 TGTAGTTTTC
*
373609 AAAACAACATAA-TTA-AATCA
1 AAAACAACAAAATTTATAATCA
*
373629 AAAACATCAAAATTTATAATCA
1 AAAACAACAAAATTTATAATCA
373651 AA
1 AA
373653 CCAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAACAACAAAATTTATAATCA
Found at i:377980 original size:22 final size:21
Alignment explanation
Indices: 377938--377977 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
377928 GAGATTATTT
*
377938 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
377959 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
377978 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:379974 original size:65 final size:63
Alignment explanation
Indices: 379903--380057 Score: 170
Period size: 65 Copynumber: 2.4 Consensus size: 63
379893 TACACTAGGG
* * * * *
379903 GTGCATCGATACACTAATTATATTCGATGTTT-AAAAAGATCCAGGAGTTCATCGATGCATGGTC
1 GTGCATCGATACACAAAATACATTCGATGTTTCAAAAA-ATCCAAGAGTGCAT-GATGCATGG-C
379967 T
63 T
* * * *
379968 GTGCATCGGTACACAAAATGCATTCGATGTTTCAATAAATTCAAGAGTGCATGATGCATGGCT
1 GTGCATCGATACACAAAATACATTCGATGTTTCAAAAAATCCAAGAGTGCATGATGCATGGCT
*
380031 GTGCATC-AGTACACAAAATGCATTCGA
1 GTGCATCGA-TACACAAAATACATTCGA
380058 AATGGGGTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 27 0.35
64 9 0.12
65 38 0.49
66 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (63 bp):
GTGCATCGATACACAAAATACATTCGATGTTTCAAAAAATCCAAGAGTGCATGATGCATGGCT
Found at i:380045 original size:63 final size:65
Alignment explanation
Indices: 379924--380057 Score: 193
Period size: 63 Copynumber: 2.1 Consensus size: 65
379914 CACTAATTAT
* * *
379924 ATTCGATGTTTAAAAAGATCCAGGAGTTCATCGATGCATGGTCTGTGCATCGGTACACAAAATGC
1 ATTCGATGTTTAAAAAGATCCAAGAGTGCATCGATGCATGGTCTGTGCATCAGTACACAAAATGC
* *
379989 ATTCGATGTTTCAATAA-ATTCAAGAGTGCAT-GATGCATGG-CTGTGCATCAGTACACAAAATG
1 ATTCGATGTTT-AAAAAGATCCAAGAGTGCATCGATGCATGGTCTGTGCATCAGTACACAAAATG
380051 C
65 C
380052 ATTCGA
1 ATTCGA
380058 AATGGGGTGT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
63 28 0.44
64 9 0.14
65 22 0.35
66 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (65 bp):
ATTCGATGTTTAAAAAGATCCAAGAGTGCATCGATGCATGGTCTGTGCATCAGTACACAAAATGC
Found at i:381665 original size:10 final size:10
Alignment explanation
Indices: 381652--381684 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
381642 AAGTGTCAAA
381652 AATGATAAAG
1 AATGATAAAG
381662 AATG-TAAAG
1 AATGATAAAG
*
381671 AATGACAAAG
1 AATGATAAAG
381681 AATG
1 AATG
381685 TGAAAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.58, C:0.03, G:0.21, T:0.18
Consensus pattern (10 bp):
AATGATAAAG
Found at i:384355 original size:21 final size:21
Alignment explanation
Indices: 384331--384370 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
384321 CTCTTAGGTC
*
384331 TTATA-CATTAGTTTACATATG
1 TTATATCATTA-TGTACATATG
384352 TTATATCATTATGTACATA
1 TTATATCATTATGTACATA
384371 GCTCATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TTATATCATTATGTACATATG
Found at i:388956 original size:13 final size:13
Alignment explanation
Indices: 388940--388979 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
388930 AGGAAACTAG
388940 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
388953 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
388966 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
388980 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:395240 original size:21 final size:21
Alignment explanation
Indices: 395216--395255 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
395206 CTCTTAGGTC
*
395216 TTATA-CATTAGTTTACATATG
1 TTATATCATTA-TGTACATATG
395237 TTATATCATTATGTACATA
1 TTATATCATTATGTACATA
395256 GCTCATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TTATATCATTATGTACATATG
Found at i:400193 original size:23 final size:23
Alignment explanation
Indices: 400144--400194 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
400134 ATACAAGGTG
*
400144 CCATGTCAAGGACTAAGTTTGTG
1 CCATGTCAAGGACTAAGTTTGTA
*
400167 CCATGTCAAGGA-TAAATTTTGTA
1 CCATGTCAAGGACT-AAGTTTGTA
400190 CCATG
1 CCATG
400195 ATTATTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (23 bp):
CCATGTCAAGGACTAAGTTTGTA
Found at i:405006 original size:3 final size:3
Alignment explanation
Indices: 404980--405135 Score: 162
Period size: 3 Copynumber: 53.7 Consensus size: 3
404970 GTCTGCCAAA
* *
404980 AAT AA- AAT -AT ATT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
405026 AAT -AT AAT AAT GAT AAT GAT AAT GAT AAT GAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
405073 GAT AAT GAT -AT GAT AAT -AT AAT -AT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
405116 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
405136 AGATAGTGGG
Statistics
Matches: 126, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
2 12 0.10
3 111 0.88
4 3 0.02
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:406702 original size:45 final size:45
Alignment explanation
Indices: 406653--406929 Score: 337
Period size: 45 Copynumber: 6.2 Consensus size: 45
406643 AATACATCAT
* *
406653 TATGCATTTTAAACTCTAACAT-CTTTTCTGTTGATAATGCACCCA
1 TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
406698 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * *
406743 TATACATTTCAAC-CATAGTATACTTTTCTGTTGATAATGTA-CCA
1 TATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGCACCCA
* *
406787 TATACATTTCAACTTTAGCATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
*
406832 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * ***
406877 TATGCATTTCAACTATGGCAT-CATTTCATGCCAATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTC-TGTTGATAATGCACCCA
406922 TATGCATT
1 TATGCATT
406930 ATTCTTTTAT
Statistics
Matches: 205, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
44 56 0.27
45 149 0.73
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:406819 original size:89 final size:90
Alignment explanation
Indices: 406675--406929 Score: 354
Period size: 89 Copynumber: 2.8 Consensus size: 90
406665 ACTCTAACAT
* *
406675 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCAC
406740 CCATATACATTTCAAC-CATAGTATA
66 CCATATACATTTCAACTC-TAGTATA
* * * *
406765 CTTTTCTGTTGATAATGTA-CCATATACATTTCAACTTTAGCATACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCAC
*
406829 CCATATGCATTTCAACTCTAGTATA
66 CCATATACATTTCAACTCTAGTATA
* * ***
406854 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCAT-CATTTCATGCCAATAATGCA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATAC-TTTTATGTTGATAATGCA
*
406918 CCCATATGCATT
65 CCCATATACATT
406930 ATTCTTTTAT
Statistics
Matches: 146, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
89 81 0.55
90 65 0.45
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCAC
CCATATACATTTCAACTCTAGTATA
Found at i:406914 original size:134 final size:135
Alignment explanation
Indices: 406675--406929 Score: 370
Period size: 134 Copynumber: 1.9 Consensus size: 135
406665 ACTCTAACAT
*
406675 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
* * *** *
406740 CCATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTA-CCATATACATTTCAACTTTA
66 CCATATACATTTCAACCATAGCATACATTTCTGCCAATAATGCACCCATATACATTTCAACTTTA
406804 GCATA
131 GCATA
* *
406809 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
* * * *
406874 CCATATGCATTTCAACTATGGCAT-CATTTCATGCCAATAATGCACCCATATGCATT
66 CCATATACATTTCAACCATAGCATACATTTC-TGCCAATAATGCACCCATATACATT
406930 ATTCTTTTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
133 5 0.05
134 91 0.86
135 10 0.09
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (135 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
CCATATACATTTCAACCATAGCATACATTTCTGCCAATAATGCACCCATATACATTTCAACTTTA
GCATA
Found at i:407448 original size:20 final size:20
Alignment explanation
Indices: 407423--407495 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 20
407413 TATGACCCTC
407423 TGGTATCGATACCCTACTTA
1 TGGTATCGATACCCTACTTA
407443 TGGTATCGATACTACCCTA-TTA
1 TGGTATCG--A-TACCCTACTTA
*
407465 GGGTATCGATACCC--CTTCA
1 TGGTATCGATACCCTACTT-A
407484 T-GTATCGATACC
1 TGGTATCGATACC
407496 AAAATTACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 13 0.28
19 6 0.13
20 9 0.20
22 11 0.24
23 7 0.15
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (20 bp):
TGGTATCGATACCCTACTTA
Found at i:407472 original size:22 final size:23
Alignment explanation
Indices: 407432--407476 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
407422 CTGGTATCGA
*
407432 TACCCTACTTATGGTATCGATAC
1 TACCCTACTTAGGGTATCGATAC
407455 TACCCTA-TTAGGGTATCGATAC
1 TACCCTACTTAGGGTATCGATAC
407477 CCCTTCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
TACCCTACTTAGGGTATCGATAC
Found at i:407558 original size:41 final size:40
Alignment explanation
Indices: 407513--407591 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
407503 CCTTGATGTT
* *
407513 TACTA-GTATCGATACCCTTACCATTGGTATTGATACCACTA
1 TACTAGGTACCGATACCCTTA-CATT-GTATCGATACCACTA
*
407554 TACTATGGTACCGATACCCTTATATTGTATCGATACCA
1 TACTA-GGTACCGATACCCTTACATTGTATCGATACCA
407592 AAATTAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 16 0.48
42 3 0.09
43 14 0.42
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (40 bp):
TACTAGGTACCGATACCCTTACATTGTATCGATACCACTA
Found at i:407569 original size:22 final size:20
Alignment explanation
Indices: 407544--407591 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
407534 CATTGGTATT
407544 GATACCACTATACTATGGTACC
1 GATACCACT-TA-TATGGTACC
* *
407566 GATACC-CTTATATTGTATC
1 GATACCACTTATATGGTACC
407585 GATACCA
1 GATACCA
407592 AAATTAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 2 0.09
22 6 0.26
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
GATACCACTTATATGGTACC
Found at i:413068 original size:21 final size:22
Alignment explanation
Indices: 413027--413069 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
413017 TACATAATGA
* *
413027 TAACATTATCATTATTAACATT
1 TAACATGATCATTAGTAACATT
413049 TAACATGATC-TTAGTAACATT
1 TAACATGATCATTAGTAACATT
413070 ATCACCAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (22 bp):
TAACATGATCATTAGTAACATT
Found at i:413764 original size:45 final size:45
Alignment explanation
Indices: 413704--413919 Score: 276
Period size: 45 Copynumber: 4.8 Consensus size: 45
413694 TCATACATTT
*
413704 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
*** ** *
413749 TTTTAACTTGATAATGTTCCCATATACATTTCAACTATAGTATAT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* * *
413794 TTTTCTGTTGATAATGTACCCATATACATTTCAACTTTAGCATAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* *
413839 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTCA-AGTATAT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACT-ATAGTATAC
* *
413884 TTTTCTGTTGATAATGCA--CACACACATTTCAACTAT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
413920 GGCATCCTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 13 0.09
45 133 0.90
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.41
Consensus pattern (45 bp):
TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
Found at i:414497 original size:22 final size:21
Alignment explanation
Indices: 414448--414504 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
414438 CTGACCCTCT
* *
414448 GGTATCGATACCCCTGCTTAT
1 GGTATCGATACCCCTGATTAG
414469 GGTATCGATACTACCCT-ATTAG
1 GGTATCGATAC--CCCTGATTAG
414491 GGTATCGATACCCC
1 GGTATCGATACCCC
414505 CTTCATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 14 0.44
23 4 0.12
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCCCTGATTAG
Found at i:416456 original size:29 final size:31
Alignment explanation
Indices: 416399--416456 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
416389 CAATATGACC
* *
416399 AGACAAAAGGAAATCAATGTTAGTAGAAACG
1 AGACAAAAAGAAATCAATGTTAATAGAAACG
*
416430 AGACAAAAAG-AATCAA-GTTAATTGAAA
1 AGACAAAAAGAAATCAATGTTAATAGAAA
416457 TGATTAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 6 0.25
31 9 0.38
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (31 bp):
AGACAAAAAGAAATCAATGTTAATAGAAACG
Found at i:418591 original size:54 final size:54
Alignment explanation
Indices: 418432--418872 Score: 538
Period size: 54 Copynumber: 8.3 Consensus size: 54
418422 TTTGGGGTGA
* * * * * *
418432 ACACGTAGTTCCGATATGGTCGTTCACAAAATCATTATGAA-TTC-T--G-TGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* * * *
418481 ACACTTGGTGTCGATACAGTCGTTCAT-AACTTATTATGAATTTCGTGGGTTTC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* *
418534 ACACTTAGTACCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* * * * *
418588 ACACTTAGTGCTGACACGGTCGATCAT-AACTTATTATCAATTTCGTGGGTTAC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* * *
418641 ACACTTAGTGCCGATACGGTTGTTCATAAACTTATTATGAATTCCATGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
*
418695 ACACTTAGTGCCGATACGATCGTTCATAAACTTATTATGAA-TTCTGTGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGTTGC
*** *
418749 ACACTTAGTGTTAATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* * * *
418803 ATACTTACTGCCGATACGGTCATTCATAAACTTATTATGAATTCCGTGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
* *
418857 ATACTTAGTGTCGATA
1 ACACTTAGTGCCGATA
418873 GTACACATAG
Statistics
Matches: 335, Mismatches: 48, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
48 11 0.03
49 23 0.07
50 1 0.00
52 1 0.00
53 73 0.22
54 224 0.67
55 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGC
Found at i:418808 original size:27 final size:27
Alignment explanation
Indices: 418724--418809 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
418714 TCGTTCATAA
* *
418724 ACTTATTATGAATTCTGTGGGTTGCAC
1 ACTTATTATGAATTCCGTGGGTTGCAT
* * * * * *
418751 ACTTAGTGTTAATACGGT-CGTT-CAT
1 ACTTATTATGAATTCCGTGGGTTGCAT
418776 AAACTTATTATGAATTCCGTGGGTTGCAT
1 --ACTTATTATGAATTCCGTGGGTTGCAT
418805 ACTTA
1 ACTTA
418810 CTGCCGATAC
Statistics
Matches: 42, Mismatches: 13, Indels: 8
0.67 0.21 0.13
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 31 0.74
28 3 0.07
29 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
ACTTATTATGAATTCCGTGGGTTGCAT
Found at i:420354 original size:15 final size:15
Alignment explanation
Indices: 420334--420369 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
420324 AGTTTGGGGA
*
420334 CTAAAATGTCAAGAT
1 CTAAAATATCAAGAT
*
420349 CTAAAATATCAAGTT
1 CTAAAATATCAAGAT
420364 CTAAAA
1 CTAAAA
420370 GACTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (15 bp):
CTAAAATATCAAGAT
Found at i:420733 original size:11 final size:11
Alignment explanation
Indices: 420727--420756 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
420717 GTATAAAAAC
420727 AACATAAAATA
1 AACATAAAATA
*
420738 AAAATAAAATA
1 AACATAAAATA
420749 AACATAAA
1 AACATAAA
420757 TACAAGGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AACATAAAATA
Found at i:420740 original size:16 final size:17
Alignment explanation
Indices: 420719--420761 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
420709 AAAAAATAGT
*
420719 ATAAAAACAACATAAA-
1 ATAAAAACAAAATAAAC
*
420735 ATAAAAATAAAATAAAC
1 ATAAAAACAAAATAAAC
*
420752 ATAAATACAA
1 ATAAAAACAA
420762 GGACCTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (17 bp):
ATAAAAACAAAATAAAC
Found at i:424872 original size:23 final size:23
Alignment explanation
Indices: 424826--424873 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
424816 CTCCCAATTT
** *
424826 TTTTAAAAAAAATATTTCATAAA
1 TTTTAAAAAAAATATTAAAAAAA
*
424849 TTTTATAAAAAATATTAAAAAAA
1 TTTTAAAAAAAATATTAAAAAAA
424872 TT
1 TT
424874 GACACGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTTAAAAAAAATATTAAAAAAA
Found at i:427893 original size:29 final size:29
Alignment explanation
Indices: 427861--427917 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
427851 AATTTGTAGA
427861 TTTTTAAACTAAATTATTAATAACATTATT
1 TTTTTAAA-TAAATTATTAATAACATTATT
*
427891 TTTTTAAATAAATTATTAATAATATTA
1 TTTTTAAATAAATTATTAATAACATTA
427918 ACATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTTTAAATAAATTATTAATAACATTATT
Found at i:428192 original size:22 final size:21
Alignment explanation
Indices: 428148--428192 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
428138 ATGTTGACAT
* **
428148 ATCACCATAAAATAATTTTAA
1 ATCACCATAAAATAAATAAAA
428169 ATCACCATTAAAATAAATAAAA
1 ATCACCA-TAAAATAAATAAAA
428191 AT
1 AT
428193 TATCACGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
ATCACCATAAAATAAATAAAA
Found at i:432034 original size:29 final size:30
Alignment explanation
Indices: 431964--432034 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
431954 AAGATTACCT
* *
431964 TTTTGGTCCCTAAACTTTTCAAAATTTATA
1 TTTTGGTCACTAAACTTTTCAAAACTTATA
* **
431994 CTTT-AACTACTAAACTTTT-AAAACTTATA
1 TTTTGGTC-ACTAAACTTTTCAAAACTTATA
432023 TTTTGGTCACTA
1 TTTTGGTCACTA
432035 CCCAAAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTTGGTCACTAAACTTTTCAAAACTTATA
Found at i:433539 original size:20 final size:20
Alignment explanation
Indices: 433514--433555 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
433504 GTAAGGTTTG
*
433514 GAATTTGAAAATCTCGTTGC
1 GAATTTGAAAATCGCGTTGC
*
433534 GAATTTGTAAATCGCGTTGC
1 GAATTTGAAAATCGCGTTGC
433554 GA
1 GA
433556 TAGTACTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (20 bp):
GAATTTGAAAATCGCGTTGC
Found at i:433610 original size:20 final size:20
Alignment explanation
Indices: 433584--433628 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
433574 TCAGTAATTA
433584 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* *
433604 TCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTGAAAATC
433624 GCGTT
1 GCGTT
433629 ACGATAGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:433641 original size:77 final size:77
Alignment explanation
Indices: 433514--433776 Score: 463
Period size: 77 Copynumber: 3.4 Consensus size: 77
433504 GTAAGGTTTG
* *
433514 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCAGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTACGATAGTACTGTTTACCTATATCGGT
433579 AATTAGCGTTGC
66 AATTAGCGTTGC
433591 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTACGATAGTACTGTTTACCTATATCGGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTACGATAGTACTGTTTACCTATATCGGT
*
433656 AATTAGTGTTGC
66 AATTAGCGTTGC
* *
433668 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGTGTTTCGATAGTACTGTTTACCTATATCGGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTACGATAGTACTGTTTACCTATATCGGT
433733 AATTAGCGTTGC
66 AATTAGCGTTGC
* *
433745 GAATTTGAAAATCTCGTTGTGAATTTGAAAAT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAAT
433777 AAGTACTGTT
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 178 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (77 bp):
GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTACGATAGTACTGTTTACCTATATCGGT
AATTAGCGTTGC
Found at i:433688 original size:20 final size:20
Alignment explanation
Indices: 433663--433700 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
433653 GGTAATTAGT
433663 GTTGCGAATTTGAAAATCTC
1 GTTGCGAATTTGAAAATCTC
*
433683 GTTGCGAATTTGTAAATC
1 GTTGCGAATTTGAAAATC
433701 GTGTTTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCTC
Found at i:433768 original size:20 final size:20
Alignment explanation
Indices: 433739--433776 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
433729 CGGTAATTAG
433739 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
*
433759 CGTTGTGAATTTGAAAAT
1 CGTTGCGAATTTGAAAAT
433777 AAGTACTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCT
Found at i:434088 original size:22 final size:22
Alignment explanation
Indices: 434060--434108 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
434050 TAATCTTATG
434060 TGAAGGATCCGATCGATACTTT
1 TGAAGGATCCGATCGATACTTT
434082 TGAAGGATCCGATCGATACTTT
1 TGAAGGATCCGATCGATACTTT
434104 TGAAG
1 TGAAG
434109 CATCGATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (22 bp):
TGAAGGATCCGATCGATACTTT
Found at i:435306 original size:20 final size:20
Alignment explanation
Indices: 435281--435322 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
435271 GTAAGGTTTG
*
435281 GAATTTGAAAATCTCGTTGC
1 GAATTTGAAAATCGCGTTGC
*
435301 GAATTTGTAAATCGCGTTGC
1 GAATTTGAAAATCGCGTTGC
435321 GA
1 GA
435323 TAGTACTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (20 bp):
GAATTTGAAAATCGCGTTGC
Found at i:435377 original size:20 final size:20
Alignment explanation
Indices: 435351--435399 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
435341 TCAGTAATTA
435351 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* * *
435371 TCGTTGCAAATTTGTAAATC
1 GCGTTGCGAATTTGAAAATC
435391 GCGTTGCGA
1 GCGTTGCGA
435400 TATTACTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:435408 original size:77 final size:77
Alignment explanation
Indices: 435281--435551 Score: 402
Period size: 77 Copynumber: 3.5 Consensus size: 77
435271 GTAAGGTTTG
* *
435281 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTCACCTATATCAGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
435346 AATTAGCGTTGC
66 AATTAGCGTTGC
* *
435358 GAATTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTGCGATATTACTGTTTACCTATATCGGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
435423 AATTAGCGTTGC
66 AATTAGCGTTGC
* *
435435 GAATTTGAAAATCTCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGT
1 GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
* *
435500 AATCAGTGTTGC
66 AATTAGCGTTGC
* * *
435512 G-ATTT-ACATATTCGCGTTGCGAATTTGGAAAATCGCGTTG
1 GAATTTGA-A-AATCTCGTTGCGAATTT-GTAAATCGCGTTG
435552 TGATTTTGGA
Statistics
Matches: 179, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
75 1 0.01
76 5 0.03
77 160 0.89
78 13 0.07
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (77 bp):
GAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGT
AATTAGCGTTGC
Found at i:435454 original size:20 final size:20
Alignment explanation
Indices: 435428--435476 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
435418 TCGGTAATTA
435428 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
*
435448 TCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
435468 GCGTTGCGA
1 GCGTTGCGA
435477 TAGTACTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:435532 original size:20 final size:20
Alignment explanation
Indices: 435507--435615 Score: 65
Period size: 20 Copynumber: 5.3 Consensus size: 20
435497 GGTAATCAGT
435507 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
** * *
435527 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACATATTCGC
* ** * **
435548 GTTGTGATTTTGGAAAACCGC
1 GTTGCGA-TTTACATATTCGC
* * **
435569 TTTGTGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
*
435589 GTTGCGATTTATATATTCGC
1 GTTGCGATTTACATATTCGC
435609 GTTGCGA
1 GTTGCGA
435616 ATTTGGAAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 35 0.51
21 33 0.49
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:446782 original size:21 final size:20
Alignment explanation
Indices: 446739--446787 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
446729 TAGTCCCAAA
* *
446739 TCAATATTCCAACTTAAAAT
1 TCAACATTCCAAATTAAAAT
*
446759 TCAACATTCCATAATTAAATT
1 TCAACATTCCA-AATTAAAAT
*
446780 TCAGCATT
1 TCAACATT
446788 GAATATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAACATTCCAAATTAAAAT
Found at i:451880 original size:19 final size:18
Alignment explanation
Indices: 451851--451890 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
451841 ATCAAGGGTA
451851 AAATAATAAATGAAACCC
1 AAATAATAAATGAAACCC
* *
451869 AAATAGATAAATTAAATCC
1 AAATA-ATAAATGAAACCC
451888 AAA
1 AAA
451891 ATAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (18 bp):
AAATAATAAATGAAACCC
Found at i:453176 original size:21 final size:21
Alignment explanation
Indices: 453150--453390 Score: 276
Period size: 21 Copynumber: 11.6 Consensus size: 21
453140 GTTTCCAGAT
*
453150 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
453171 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
453192 TCGCAATGTGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
*
453212 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
* *
453233 TCGCAACGCAAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
453254 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
**
453275 TCGCAATGTAAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
453296 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
453316 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
*
453337 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
453358 TCGTAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
453379 TCGCAATGCGAA
1 TCGCAATGCGAA
453391 TATGTAAATC
Statistics
Matches: 184, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
20 31 0.17
21 153 0.83
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:453265 original size:104 final size:104
Alignment explanation
Indices: 453150--453390 Score: 376
Period size: 104 Copynumber: 2.3 Consensus size: 104
453140 GTTTCCAGAT
* *
453150 TCGCAACGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGTGAATATGTAAATCG
1 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
* *
453215 CAATGCGA-ACTTCGACTATCGCAACGCAAACTTGGACTA
66 CAATGCGATA-GTCGACTATCGCAACGCAAACTTCGACTA
** *
453254 TCGCAATGCGAACTTGGACTATCGCAATGTAAACTTGGACTATCGCAATGCGAATATGTAAATCG
1 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
* *
453319 CAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTA
66 CAATGCGATAGTCGACTATCGCAACGCAAACTTCGACTA
*
453358 TCGTAATGCGAACTTGGACTATCGCAATGCGAA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGAA
453391 TATGTAAATC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
104 123 0.99
105 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (104 bp):
TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCG
CAATGCGATAGTCGACTATCGCAACGCAAACTTCGACTA
Found at i:453405 original size:83 final size:83
Alignment explanation
Indices: 453166--453416 Score: 323
Period size: 83 Copynumber: 3.0 Consensus size: 83
453156 CGCGAACTTG
* *
453166 GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAA-TATGTA-AATCGCAATGCGAACT-TC
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAACT-TGGACTATCGCAATGCGAA-TAT-
* * * * *
453228 G-ACTATCGCAACGC-AAACTTG
63 GTA-AATCGCAATGCGATA-GTC
* *
453249 GACTATCGCAATGCGAACTTGGACTATCGCAATGTAAACTTGGACTATCGCAATGCGAATATGTA
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAACTTGGACTATCGCAATGCGAATATGTA
453314 AATCGCAATGCGATAGTC
66 AATCGCAATGCGATAGTC
* *
453332 GACTATCGCAATGCGAACTTCGACTATCGTAATGCGAACTTGGACTATCGCAATGCGAATATGTA
1 GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAACTTGGACTATCGCAATGCGAATATGTA
453397 AATCGCAATGCGATAGTC
66 AATCGCAATGCGATAGTC
453415 GA
1 GA
453417 AGTTCGCGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
83 132 0.88
84 18 0.12
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (83 bp):
GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAACTTGGACTATCGCAATGCGAATATGTA
AATCGCAATGCGATAGTC
Found at i:453429 original size:21 final size:21
Alignment explanation
Indices: 453399--453533 Score: 102
Period size: 21 Copynumber: 6.6 Consensus size: 21
453389 AATATGTAAA
*
453399 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
453420 TCGCGTTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
453440 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
453461 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
* ** * *
453482 TTGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCGAAGT
453503 T--CATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
453522 TCGCGTTGCGAT
1 TCGCATTGCGAT
453534 TTATTCCAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
19 15 0.17
20 17 0.19
21 57 0.63
22 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:453430 original size:104 final size:104
Alignment explanation
Indices: 453150--453451 Score: 362
Period size: 104 Copynumber: 2.9 Consensus size: 104
453140 GTTTCCAGAT
* * * * *
453150 TCGCAACGCGAACTTGGACTATCGCAATGCGAACTTCGACTATCGCAATGTGAATATGTAAATCG
1 TCGCAATGCGAACTTGGACTATCGCAATGCAAACTTGGACAATCGCAATGCGAATATGTAAATCG
* * * *
453215 CAATGCGA-ACTTCGACTATCGCAACGCAAACTTGGACTA
66 CAATGCGATA-GTCGACTATCGCAATGCGAACTTCGACTA
* *
453254 TCGCAATGCGAACTTGGACTATCGCAATGTAAACTTGGACTATCGCAATGCGAATATGTAAATCG
1 TCGCAATGCGAACTTGGACTATCGCAATGCAAACTTGGACAATCGCAATGCGAATATGTAAATCG
453319 CAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTA
66 CAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTA
* * *
453358 TCGTAATGCGAACTTGGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCG-ATA-GTCGAAG
1 TCGCAATGCGAACTTGGACTATCGCAATGCAAACT-TGGACAATCGCAATGCGAATATGT--AA-
* ** *
453419 TTCGCGTTGCGATAGTCGACTATCGCATTGCGA
62 ATCGCAATGCGATAGTCGACTATCGCAATGCGA
453452 TTTACATATT
Statistics
Matches: 175, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
101 2 0.01
102 3 0.02
103 14 0.08
104 155 0.89
105 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (104 bp):
TCGCAATGCGAACTTGGACTATCGCAATGCAAACTTGGACAATCGCAATGCGAATATGTAAATCG
CAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTA
Found at i:453440 original size:62 final size:62
Alignment explanation
Indices: 453374--453493 Score: 147
Period size: 62 Copynumber: 1.9 Consensus size: 62
453364 TGCGAACTTG
* *
453374 GACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGTC
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *
453436 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTTGCATTGCGAT
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGAT
453494 TTTCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.06
62 43 0.86
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (62 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:453451 original size:83 final size:83
Alignment explanation
Indices: 453166--453451 Score: 289
Period size: 83 Copynumber: 3.4 Consensus size: 83
453156 CGCGAACTTG
* * * *
453166 GACTATCGCAATGCGAACTTCGACTATCGCAATGTGAA-TATGTA-AATCGCAATGCGAACT-TC
1 GACTATCGCAATGCGAACGTCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAA-TAT-
* * * * *
453228 G-ACTATCGCAACGC-AAACTTG
63 GTA-AATCGCAATGCGATA-GTC
* * **
453249 GACTATCGCAATGCGAACTTGGACTATCGCAATGTAAACTTGGACTATCGCAATGCGAATATGTA
1 GACTATCGCAATGCGAACGTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA
453314 AATCGCAATGCGATAGTC
66 AATCGCAATGCGATAGTC
* *
453332 GACTATCGCAATGCGAACTTCGACTATCGTAATGCGAACTTGGACTATCGCAATGCGAATATGTA
1 GACTATCGCAATGCGAACGTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA
453397 AATCGCAATGCGATAGTC
66 AATCGCAATGCGATAGTC
* ** *
453415 GAAGT-TCGCGTTGCGATA-GTCGACTATCGCATTGCGA
1 G-ACTATCGCAATGCGA-ACGTCGACTATCGCAATGCGA
453452 TTTACATATT
Statistics
Matches: 177, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
83 156 0.88
84 21 0.12
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (83 bp):
GACTATCGCAATGCGAACGTCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA
AATCGCAATGCGATAGTC
Found at i:453522 original size:40 final size:40
Alignment explanation
Indices: 453425--453558 Score: 146
Period size: 42 Copynumber: 3.3 Consensus size: 40
453415 GAAGTTCGCG
* * *
453425 TTGCGATAGTCG-ACTATCGCATTGCGA-TTTACATATTCGCA
1 TTGCGATAGTCGAAGT-TCGCATTGCGATTTTCCAAATT--CA
* *
453466 TTGCGATAGTCCAAGTTTGCATTGCGATTTTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCA
* *
453506 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCATTGCGA-TT-TTCCAAATTCA
453548 TTGCGATAGTC
1 TTGCGATAGTC
453559 CAAAATCGCA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
40 26 0.32
41 23 0.29
42 31 0.39
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCA
Found at i:454190 original size:6 final size:6
Alignment explanation
Indices: 454162--454205 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
454152 GTCCGTCTCG
* *
454162 GGTCG- GGTCGG GGTCGT GGTCGT GGTCGT GGTTGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
454206 AATACGTGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.00, C:0.14, G:0.55, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:454344 original size:21 final size:20
Alignment explanation
Indices: 454291--454477 Score: 150
Period size: 21 Copynumber: 8.9 Consensus size: 20
454281 CGTTGCGATT
454291 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
454310 TT-GAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
454332 TTCGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
454351 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* *
454374 TTAGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
454393 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
454416 TTCGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
454435 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
454458 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
454478 TATATAAATC
Statistics
Matches: 135, Mismatches: 16, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.02
19 31 0.23
20 7 0.05
21 54 0.40
22 7 0.05
23 33 0.24
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:454371 original size:42 final size:42
Alignment explanation
Indices: 454294--454471 Score: 313
Period size: 42 Copynumber: 4.3 Consensus size: 42
454284 TGCGATTTTG
454294 GACTATCGCAACGAACTT-GAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
454335 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
454377 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
454419 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
454461 GACTATCGCAA
1 GACTATCGCAA
454472 TGCGAATATA
Statistics
Matches: 129, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 18 0.14
42 111 0.86
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:454434 original size:84 final size:83
Alignment explanation
Indices: 454294--454496 Score: 329
Period size: 84 Copynumber: 2.4 Consensus size: 83
454284 TGCGATTTTG
* *
454294 GACTATCGCAACGAACTTGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATA
1 GACTATCGCAACGAATTTGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATA
454359 AATCGCAACGCGAACTTA
66 AATCGCAACGCGAACTTA
454377 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAATTT-GAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
454442 AAATCGCAACGCGAACTTG
65 AAATCGCAACGCGAACTTA
*
454461 GACTATCGCAATGCGAATAT--ATAAATCGCAATGCGA
1 GACTATCGCAA--CGAATTTGAATAAATCGCAATGCGA
454497 TAGTCGAAGT
Statistics
Matches: 113, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
83 33 0.29
84 74 0.65
86 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (83 bp):
GACTATCGCAACGAATTTGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATA
AATCGCAACGCGAACTTA
Found at i:459745 original size:16 final size:15
Alignment explanation
Indices: 459724--459753 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
459714 GCTTGTAATT
459724 TTTTTGAATTTTTTTA
1 TTTTTG-ATTTTTTTA
459740 TTTTTGATTTTTTT
1 TTTTTGATTTTTTT
459754 CTATATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTGATTTTTTTA
Found at i:468445 original size:25 final size:24
Alignment explanation
Indices: 468391--468447 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
468381 TTAGGGGTTT
468391 TTAAA-ATTATTTCGAATTAATAAA
1 TTAAATATTATTTC-AATTAATAAA
*
468415 TAAAATATTATTT-AATTAATACAAA
1 TTAAATATTATTTCAATTAAT--AAA
468440 TTAAATAT
1 TTAAATAT
468448 ACATTAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 4 0.14
25 17 0.61
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
TTAAATATTATTTCAATTAATAAA
Found at i:469094 original size:123 final size:123
Alignment explanation
Indices: 468875--469125 Score: 493
Period size: 123 Copynumber: 2.0 Consensus size: 123
468865 AATAGACACA
*
468875 AGTCTTAGAATAGTCATACTTGTATAGCCCATCTATTGTTTCTTTATATCTAGAGTAGACTATAA
1 AGTCTTAGAATAATCATACTTGTATAGCCCATCTATTGTTTCTTTATATCTAGAGTAGACTATAA
468940 TTAACGAATAATTTGTGATATCACATATCAACTTATTCGAGCATGGCCATGCATTTCT
66 TTAACGAATAATTTGTGATATCACATATCAACTTATTCGAGCATGGCCATGCATTTCT
468998 AGTCTTAGAATAATCATACTTGTATAGCCCATCTATTGTTTCTTTATATCTAGAGTAGACTATAA
1 AGTCTTAGAATAATCATACTTGTATAGCCCATCTATTGTTTCTTTATATCTAGAGTAGACTATAA
469063 TTAACGAATAATTTGTGATATCACATATCAACTTATTCGAGCATGGCCATGCATTTCT
66 TTAACGAATAATTTGTGATATCACATATCAACTTATTCGAGCATGGCCATGCATTTCT
469121 AGTCT
1 AGTCT
469126 CACTCAATCA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (123 bp):
AGTCTTAGAATAATCATACTTGTATAGCCCATCTATTGTTTCTTTATATCTAGAGTAGACTATAA
TTAACGAATAATTTGTGATATCACATATCAACTTATTCGAGCATGGCCATGCATTTCT
Found at i:477564 original size:19 final size:18
Alignment explanation
Indices: 477535--477574 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
477525 ATCAAGGGTG
477535 AAATAATAAATGAAATCC
1 AAATAATAAATGAAATCC
* *
477553 AAATAGATAAATTAAATTC
1 AAATA-ATAAATGAAATCC
477572 AAA
1 AAA
477575 ATAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (18 bp):
AAATAATAAATGAAATCC
Found at i:479140 original size:17 final size:18
Alignment explanation
Indices: 479102--479142 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
479092 AACTTTTATT
*
479102 TAATATGATAATACATAA
1 TAATATAATAATACATAA
*
479120 -AATATAATAATA-GTAA
1 TAATATAATAATACATAA
479136 TAATATA
1 TAATATA
479143 TAACATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (18 bp):
TAATATAATAATACATAA
Found at i:479405 original size:3 final size:3
Alignment explanation
Indices: 479390--479462 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
479380 TTTTAACTGT
*
479390 GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
479438 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
479463 TAGTAGTAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:480202 original size:28 final size:27
Alignment explanation
Indices: 480145--480218 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
480135 AAATTCCTTT
* * *
480145 AAAAAAGCCTAAATTCTATAAATCCCA
1 AAAAAACCCTAAATTCTAAAAATCACA
* *
480172 AAAAAACCCTAAATTCCTAAAAATTATA
1 AAAAAACCCTAAATT-CTAAAAATCACA
* *
480200 AAAAAA-TCTAAACTCTAAA
1 AAAAAACCCTAAATTCTAAA
480219 TCATAATCCC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.13
27 20 0.51
28 14 0.36
ACGTcount: A:0.57, C:0.19, G:0.01, T:0.23
Consensus pattern (27 bp):
AAAAAACCCTAAATTCTAAAAATCACA
Found at i:482654 original size:20 final size:20
Alignment explanation
Indices: 482629--482673 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
482619 GCATTGGTCT
* *
482629 ATGAATTTGAAATATGAGAC
1 ATGAATCTGAAATATAAGAC
*
482649 ATGAATCTGAAATATAAGAT
1 ATGAATCTGAAATATAAGAC
482669 ATGAA
1 ATGAA
482674 ACTCAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGAATCTGAAATATAAGAC
Found at i:482681 original size:20 final size:20
Alignment explanation
Indices: 482638--482681 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
482628 TATGAATTTG
* * *
482638 AAATATGAGACATGAATCTG
1 AAATATAAGACATGAAACTC
*
482658 AAATATAAGATATGAAACTC
1 AAATATAAGACATGAAACTC
482678 AAAT
1 AAAT
482682 GTGAAAGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (20 bp):
AAATATAAGACATGAAACTC
Found at i:483856 original size:17 final size:15
Alignment explanation
Indices: 483821--483861 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
483811 TTTTATTTGT
*
483821 AAATAATATATTATA
1 AAATAATATAATATA
483836 AAATAATATAAATATTA
1 AAATAATAT-AATA-TA
483853 AAATAATAT
1 AAATAATAT
483862 TACATAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATAATATAATATA
Found at i:485541 original size:2 final size:2
Alignment explanation
Indices: 485534--485605 Score: 70
Period size: 2 Copynumber: 40.0 Consensus size: 2
485524 TAACGATGAT
*
485534 TA TA TA TA TA TA TA TA TA TA TA TA TG T- TA T- TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
485573 TA -A TA TA -A TA T- TA TA TA TA T- TA T- TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
485606 GCCCGAAGGC
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
1 8 0.14
2 51 0.86
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:486120 original size:20 final size:20
Alignment explanation
Indices: 486095--486132 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
486085 ACCTGCAAAC
486095 AAGAACGAA-AGCAAGAGAAT
1 AAGAAC-AACAGCAAGAGAAT
486115 AAGAACAACAGCAAGAGA
1 AAGAACAACAGCAAGAGA
486133 GAGATCGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.61, C:0.13, G:0.24, T:0.03
Consensus pattern (20 bp):
AAGAACAACAGCAAGAGAAT
Found at i:488307 original size:47 final size:45
Alignment explanation
Indices: 488234--488376 Score: 165
Period size: 47 Copynumber: 3.3 Consensus size: 45
488224 TATAAAATCT
* *
488234 CTTACCATTTATACCTTAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
488279 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
488326 CTTGCCA-TTATT-CGTAAGCTCGTAAGCTTA-TTTA-C---ATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
488364 CTTACCATTTATT
1 CTTACCATTTATT
488377 AACAAATAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
38 9 0.10
39 5 0.06
41 1 0.01
42 3 0.03
43 17 0.20
44 3 0.03
45 10 0.11
46 2 0.02
47 37 0.43
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:491672 original size:22 final size:21
Alignment explanation
Indices: 491645--491702 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
491635 ATTCTTTTAT
491645 ATTATAATATTAGTATCTAA-A
1 ATTATAATATTAGTAT-TAATA
* * *
491666 ATTTATATTCTTTGTATTAATA
1 A-TTATAATATTAGTATTAATA
491688 A-TATAATATTAGTAT
1 ATTATAATATTAGTAT
491703 ATTCTAAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 11 0.38
21 4 0.14
22 14 0.48
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
ATTATAATATTAGTATTAATA
Done.