Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 21
Found at i:3177856 original size:3 final size:3
Alignment explanation
Indices: 3177848--3177890 Score: 68
Period size: 3 Copynumber: 13.7 Consensus size: 3
3177838 GCTCAAAAGA
3177848 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AA
3177891 ACGTATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3178813 original size:14 final size:14
Alignment explanation
Indices: 3178794--3178823 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3178784 CGATTATATG
3178794 TTCATTTATGTTCA
1 TTCATTTATGTTCA
3178808 TTCATTTATGTTCA
1 TTCATTTATGTTCA
3178822 TT
1 TT
3178824 TATGTTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (14 bp):
TTCATTTATGTTCA
Found at i:3179158 original size:23 final size:23
Alignment explanation
Indices: 3179098--3179164 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
3179088 GTGTTTGTGT
* *
3179098 TGTTCGTTTATATTCATTTATTG
1 TGTTCGTTTATGTTCATTTATTA
3179121 TGTTCGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCATTTATTA
* *
3179144 TGTTCGTTTACGTTCGTTTAT
1 TGTTCGTTTATGTTCATTTAT
3179165 CATTTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTA
Found at i:3181230 original size:15 final size:14
Alignment explanation
Indices: 3181210--3181270 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
3181200 TTCAAATATT
3181210 TAAAAAATTTAAATA
1 TAAAAAA-TTAAATA
* *
3181225 TAAAAATACTAAAAA
1 TAAAAA-ATTAAATA
3181240 T-AAAAATTAAATTA
1 TAAAAAATTAAA-TA
3181254 CTAAAAAATTAAATA
1 -TAAAAAATTAAATA
3181269 TA
1 TA
3181271 CATATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
13 5 0.13
14 7 0.18
15 15 0.39
16 11 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAAATTAAATA
Found at i:3181267 original size:21 final size:23
Alignment explanation
Indices: 3181210--3181270 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
3181200 TTCAAATATT
3181210 TAAAAAATTTAAATATAAAAATAC
1 TAAAAAA-TTAAATATAAAAATAC
* * *
3181234 T-AAAAA-TAAAAATTAAATTAC
1 TAAAAAATTAAATATAAAAATAC
3181255 TAAAAAATTAAATATA
1 TAAAAAATTAAATATA
3181271 CATATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.43
22 5 0.17
23 11 0.37
24 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAAATTAAATATAAAAATAC
Found at i:3183783 original size:21 final size:22
Alignment explanation
Indices: 3183759--3183809 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
3183749 TTATATTATG
3183759 TTTACATATGTTTTAG-AT-TCA
1 TTTACATATGTTTT-GCATATCA
*
3183780 TTTA-TTATGTTTTGCATATCA
1 TTTACATATGTTTTGCATATCA
3183801 TTTACATAT
1 TTTACATAT
3183810 CATGGCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 11 0.44
22 3 0.12
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (22 bp):
TTTACATATGTTTTGCATATCA
Found at i:3184745 original size:19 final size:19
Alignment explanation
Indices: 3184721--3184768 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
3184711 CGGCCAAGAG
3184721 CATGTATCTTCATT-AAAAT
1 CATGTAT-TTCATTAAAAAT
3184740 CATGTATTATCATTAAAAAT
1 CATGTATT-TCATTAAAAAT
3184760 CATGTATTT
1 CATGTATTT
3184769 TCAAAGGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (19 bp):
CATGTATTTCATTAAAAAT
Found at i:3185218 original size:26 final size:26
Alignment explanation
Indices: 3185168--3185218 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
3185158 ATCACCATAG
*
3185168 AAACATCCTTCATTCATCATCAAGGA
1 AAACATCCTTCATTCATCATAAAGGA
3185194 AAACATCCATT-A-TCATCATTAAAGG
1 AAACATCC-TTCATTCATCA-TAAAGG
3185219 CTGAATCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 6 0.27
26 14 0.64
27 2 0.09
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAACATCCTTCATTCATCATAAAGGA
Found at i:3186140 original size:73 final size:73
Alignment explanation
Indices: 3186021--3186168 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
3186011 GAAAAAGCCA
3186021 AGAAACATATCACTGAGTGCAAACACGAGCGTGAGTGGAGTGAAATCTGAATTTTCTTTAGAGTG
1 AGAAACATATCACTGAGTGCAAACACGAGCGTGAGTGGAGTGAAATCTGAATTTTCTTTAGAGTG
3186086 ACCAAGTG
66 ACCAAGTG
3186094 AGAAACATATCACTGAGTGCAAACACGAGCGTGAGTGGAGTGAAATCTGAATTTTCTTTAGAGTG
1 AGAAACATATCACTGAGTGCAAACACGAGCGTGAGTGGAGTGAAATCTGAATTTTCTTTAGAGTG
3186159 ACCAAGTG
66 ACCAAGTG
3186167 AG
1 AG
3186169 GCTTTATGAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (73 bp):
AGAAACATATCACTGAGTGCAAACACGAGCGTGAGTGGAGTGAAATCTGAATTTTCTTTAGAGTG
ACCAAGTG
Found at i:3188004 original size:21 final size:22
Alignment explanation
Indices: 3187980--3188030 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
3187970 TTATATTATG
3187980 TTTACATATGTTTTAG-AT-TCA
1 TTTACATATGTTTT-GCATATCA
*
3188001 TTTA-TTATGTTTTGCATATCA
1 TTTACATATGTTTTGCATATCA
3188022 TTTACATAT
1 TTTACATAT
3188031 CATGGCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 10 0.40
21 11 0.44
22 3 0.12
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (22 bp):
TTTACATATGTTTTGCATATCA
Found at i:3188975 original size:19 final size:20
Alignment explanation
Indices: 3188953--3188995 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3188943 AGCATGTTTC
3188953 TTCATT-AAAATCATGTATT
1 TTCATTAAAAATCATGTATT
3188972 TTCATTAAAAATCATGTATT
1 TTCATTAAAAATCATGTATT
3188992 TTCA
1 TTCA
3188996 AAGGGGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:3192507 original size:11 final size:11
Alignment explanation
Indices: 3192491--3192544 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
3192481 ATACTAACTT
3192491 AAAAAAATAAA
1 AAAAAAATAAA
***
3192502 AAAAAATATTGT
1 AAAAAA-ATAAA
3192514 AAAAAAATAAA
1 AAAAAAATAAA
*
3192525 GAAAAAATAAA
1 AAAAAAATAAA
3192536 AAAAAAATA
1 AAAAAAATA
3192545 TAATAATCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:3192759 original size:28 final size:28
Alignment explanation
Indices: 3192719--3192783 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
3192709 TTGTTTGATT
*
3192719 CAATTATATATTAGATTAATTTTAATTA
1 CAATTATATATTAGAGTAATTTTAATTA
3192747 CAATTATATATTAGAGTAATTTTAATTA
1 CAATTATATATTAGAGTAATTTTAATTA
*
3192775 CAATCATAT
1 CAATTATAT
3192784 GTTGGGTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (28 bp):
CAATTATATATTAGAGTAATTTTAATTA
Found at i:3194457 original size:32 final size:31
Alignment explanation
Indices: 3194421--3194499 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
3194411 TTAGTTTGTG
3194421 CAATAAAATAAATGTTAGTAAGTTAATAAGAA
1 CAATAAAATAAA-GTTAGTAAGTTAATAAGAA
* * * *
3194453 CAATAAAA-AAA-ATAGTATGTTAGTATGAA
1 CAATAAAATAAAGTTAGTAAGTTAATAAGAA
3194482 CAATAAAATAAAAGTTAG
1 CAATAAAAT-AAAGTTAG
3194500 AATGTTAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 22 0.56
31 6 0.15
32 11 0.28
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.27
Consensus pattern (31 bp):
CAATAAAATAAAGTTAGTAAGTTAATAAGAA
Found at i:3194682 original size:3 final size:3
Alignment explanation
Indices: 3194674--3194717 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
3194664 AAGAAAATAA
3194674 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
3194718 AACCCTATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:3195810 original size:14 final size:13
Alignment explanation
Indices: 3195777--3195815 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
3195767 TCGAATAATG
*
3195777 TAAAAAAAT-ATA
1 TAAAAAAATAAAA
3195789 TAAAAAAATAAAA
1 TAAAAAAATAAAA
3195802 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
3195816 AGTTAGTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.38
13 6 0.25
14 9 0.38
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:3195976 original size:119 final size:120
Alignment explanation
Indices: 3195696--3196005 Score: 498
Period size: 119 Copynumber: 2.6 Consensus size: 120
3195686 AAAGTTAGCG
*
3195696 GTTAGTGGTTAGCAGAG-TCGAGACCATAATAATGTGGATCTTACCCCGGATAGGGTCACCACAA
1 GTTAGTGGTTAGCAGAGTTCGA-ACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAA
*
3195760 GGTCGAATCGAATAATGTAAAAAAATATATAAAAAAATAAAATAAAGAAAATAAAAA
65 GGTCGAATCGAATAATGCAAAAAAATATAT-AAAAAATAAAATAAAGAAAATAAAAA
* * **
3195817 GTTAGTGGTTAACAGAGTCCGAACCATAATAATGCAGATCTTACCCCGGATCGGGTCACCACAAG
1 GTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
* * *
3195882 GTCGAATCGAATAATGCAAACAAATATAT-AAAAATTAAATAAATAAAATAAAAA
66 GTCGAATCGAATAATGCAAAAAAATATATAAAAAATAAAATAAAGAAAATAAAAA
*
3195936 GTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCTCGGATCGGGTCACCACAAG
1 GTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
3196001 GTCGA
66 GTCGA
3196006 GTAATAAGAG
Statistics
Matches: 174, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
119 88 0.51
121 83 0.48
122 3 0.02
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.23
Consensus pattern (120 bp):
GTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
GTCGAATCGAATAATGCAAAAAAATATATAAAAAATAAAATAAAGAAAATAAAAA
Found at i:3198325 original size:220 final size:220
Alignment explanation
Indices: 3197935--3198613 Score: 936
Period size: 220 Copynumber: 3.1 Consensus size: 220
3197925 ATGATATTGT
** * * * * *
3197935 TCCTTCAG-GTTGAGGACTTCAGGTCAATCTGGATATAACTTGGTGTCGAAGATGACACTACTCA
1 TCCTTC-GCGTTGAGGAGATCAGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCA
* *
3197999 TCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTTGTTGAAGAAGACGTTGTTCCTTCT
65 TCCGTGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTTCCTTCT
* *
3198064 CGTTGAGAAAGTCGGGTCAATTTGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAA
130 CGTTGAGGAAGTCGGGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAA
*
3198129 GGT-TGATTGTCTAAGGATGACACTTC
195 -GTCTGATTGTCTAAGGATGACACTGC
* *
3198155 TCCTTCGCGTTGAGGAGATC-GAGTCAATATGGAGATAATTTGGTGTTGAAGATGACTTTGCTCA
1 TCCTTCGCGTTGAGGAGATCAG-GTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCA
* * * * *
3198219 TCCGTGTTGAAGAGATCTGATCACTTTCGGATAAATTGTTTATTGAAGATGACGATGTTCCTTCT
65 TCCGTGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTTCCTTCT
* * * * *
3198284 CGTTAAGGAAGTCGGGTCAATCTAGAGATAATTTGGAGACAACATGG-TCATTCGCGTTGAAGAA
130 CGTTGAGGAAGTCGGGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAA
* *
3198348 GTCTTATTGTCTAAGGATGAAACTGC
195 GTCTGATTGTCTAAGGATGACACTGC
* * * * *
3198374 TCATTCTCGTTGAGGAGATCAGGTTAATCTCGAGATAATTTGGTGTTGAAGACGACTCTGCTCAT
1 TCCTTCGCGTTGAGGAGATCAGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCAT
* *
3198439 CCGTGTTGAAGAGATCTGGTCGCTTTCAAATAAATTGTTTGTTGAAGATGACGTTTTTCCTTCTC
66 CCGTGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTC
* * * *
3198504 ATTGAGGAAGTCGAGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTTGCGTTGAGTAAG
131 GTTGAGGAAGTCGGGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAG
*
3198569 TCTGATTGTCTGAGGATGACACTGC
196 TCTGATTGTCTAAGGATGACACTGC
*
3198594 TCCTAT-GCATTGAGGAGATC
1 TCCT-TCGCGTTGAGGAGATC
3198614 TGGTTGGTGG
Statistics
Matches: 398, Mismatches: 55, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
218 2 0.01
219 192 0.48
220 203 0.51
221 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (220 bp):
TCCTTCGCGTTGAGGAGATCAGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCAT
CCGTGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTC
GTTGAGGAAGTCGGGTCAATCTGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAG
TCTGATTGTCTAAGGATGACACTGC
Found at i:3198783 original size:139 final size:139
Alignment explanation
Indices: 3198529--3199232 Score: 744
Period size: 139 Copynumber: 5.1 Consensus size: 139
3198519 TCAATCTGGA
** * * * * *
3198529 GATAATTTGGAGACAACACGGTTCCTTTGCGTTG-AGTAAGTCTGATTGTCTGAGGATGACACTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAAG-AAGTCTGATTGCCTAAGGATGACGCTG
* ** * * * *
3198593 CTCCTAT-GCATTGAGGAGATCTGGTTGGTGGACGACATTATTCCTTCGTGATGAGGACGTTTAG
65 CT-CTTTCGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTAGTGATGAGGACGTCTAG
*
3198657 CCATCTTTAGG
129 CCGTCTTTAGG
* * * *
3198668 GATAATTTGGAGACAACACGATTCCTACGTGATGAAGAAGTCTGGTTGTCTAAGGATGACGTTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTCTGATTGCCTAAGGATGACGCTGC
* * * * * * * *
3198733 TCTTTCGTGTTGAGGAGATCTAGTCGATGGAGGATAGTGTTTC-TATGTGATGAGGATG-CATAT
66 TCTTTCGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTA-GTGATGAGGACGTC-TAG
3198796 CCGTCTTTAGG
129 CCGTCTTTAGG
*
3198807 GATAATTTGGAGACAACACGGTTCCTACGTGATG-AGAAAGTCTGATTGCCTAAGGATGACGTTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAAG-AAGTCTGATTGCCTAAGGATGACGCTG
* * * * *
3198871 CTCCTGCACT-TTGAGGAGATCTGGTTGGTGGACGACATTGTT-CTTAATGATGAGGACGTCTAG
65 CTCTTTC-GTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTAGTGATGAGGACGTCTAG
* *
3198934 CTGTCTCTAGG
129 CCGTCTTTAGG
* * * * * * *
3198945 GATAATTTGGAGACAATACGGTTCGTTCGCGTTGAGGAAGTCTGATTGCCTGAGGATGACGCTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTCTGATTGCCTAAGGATGACGCTGC
* * *
3199010 T-TTTACGCGTTGAAGAGATCTGGTCGGTGGACGACATTATTCC-TACGTGATGAGGACGTCTAG
66 TCTTT-CGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTA-GTGATGAGGACGTCTAG
3199073 CCGTCTTTAGG
129 CCGTCTTTAGG
* * * * * *
3199084 GATAATTTGGAGACAATACGGTTCCTACGTGATGAGGAAGT-TCGATAGCCTGAGGATGGCACTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTCT-GATTGCCTAAGGATGACGCTG
* * * * * *
3199148 CTCTTACATGTTGAGGAGATATGGTAGGTAGACGACATTGTTCCTTCGTGATGAGGACGTCTAGC
65 CTCTTTCGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTAGTGATGAGGACGTCTAGC
3199213 CGTCTTTAGG
130 CGTCTTTAGG
3199223 GATAATTTGG
1 GATAATTTGG
3199233 CTTTGGAAAT
Statistics
Matches: 473, Mismatches: 76, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
137 1 0.00
138 117 0.25
139 349 0.74
140 6 0.01
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (139 bp):
GATAATTTGGAGACAACACGGTTCCTACGTGATGAAGAAGTCTGATTGCCTAAGGATGACGCTGC
TCTTTCGTGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTTAGTGATGAGGACGTCTAGCC
GTCTTTAGG
Found at i:3199087 original size:277 final size:277
Alignment explanation
Indices: 3198529--3199232 Score: 878
Period size: 277 Copynumber: 2.5 Consensus size: 277
3198519 TCAATCTGGA
** * * * *
3198529 GATAATTTGGAGACAACACGGTTCCTTTGCGTTGAGTAAGTCTGATTGTCTGAGGATGACACTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTGAGGATGACACTGC
* *
3198594 TCCTATGCA-TTGAGGAGATCTGGTTGGTGGACGACATTATTCCTTCGTGATGAGGACGTTTAGC
66 TCC--TGCATTTGAGGAGATCTGGTTGGTGGACGACATTGTTCCTTCGTGATGAGGACGTCTAGC
* * * *
3198658 CATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGTGATGAAGAAGTCTGGTTGTCTAAGG
129 CGTCTTTAGGGATAATTTGGAGACAACACGATTCCTACGCGATGAAGAAGTCTGATTGCCTAAGG
* * * * * * * *
3198723 ATGACGTTGCTCTTTCGTGTTGAGGAGATCTAGTCGATGGAGGATAGTGTTTCTATGTGATGAGG
194 ATGACGCTGCTCTTTCGCGTTGAAGAGATCTAGTCGATGGACGACAGTATTCCTACGTGATGAGG
* *
3198788 ATGCATATCCGTCTTTAGG
259 ACGCATAGCCGTCTTTAGG
* **
3198807 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTAAGGATGACGTTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTGAGGATGACACTGC
** *
3198872 TCCTGCACTTTGAGGAGATCTGGTTGGTGGACGACATTGTT-CTTAATGATGAGGACGTCTAGCT
66 TCCTGCA-TTTGAGGAGATCTGGTTGGTGGACGACATTGTTCCTTCGTGATGAGGACGTCTAGCC
* * * * * * * *
3198936 GTCTCTAGGGATAATTTGGAGACAATACGGTTCGTTCGCGTTGAGGAAGTCTGATTGCCTGAGGA
130 GTCTTTAGGGATAATTTGGAGACAACACGATTCCTACGCGATGAAGAAGTCTGATTGCCTAAGGA
* * *
3199001 TGACGCTGCT-TTTACGCGTTGAAGAGATCTGGTCGGTGGACGACATTATTCCTACGTGATGAGG
195 TGACGCTGCTCTTT-CGCGTTGAAGAGATCTAGTCGATGGACGACAGTATTCCTACGTGATGAGG
3199065 ACGTC-TAGCCGTCTTTAGG
259 ACG-CATAGCCGTCTTTAGG
* * * *
3199084 GATAATTTGGAGACAATACGGTTCCTACGTGATGAGGAAGT-TCGATAGCCTGAGGATGGCACTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCT-GATTGCCTGAGGATGACACTG
* * * * *
3199148 CTCTTACATGTTGAGGAGATATGGTAGGTAGACGACATTGTTCCTTCGTGATGAGGACGTCTAGC
65 CTCCTGCAT-TTGAGGAGATCTGGTTGGTGGACGACATTGTTCCTTCGTGATGAGGACGTCTAGC
3199213 CGTCTTTAGGGATAATTTGG
129 CGTCTTTAGGGATAATTTGG
3199233 CTTTGGAAAT
Statistics
Matches: 364, Mismatches: 55, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
276 9 0.02
277 226 0.62
278 129 0.35
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (277 bp):
GATAATTTGGAGACAACACGGTTCCTACGTGATGAGAAAGTCTGATTGCCTGAGGATGACACTGC
TCCTGCATTTGAGGAGATCTGGTTGGTGGACGACATTGTTCCTTCGTGATGAGGACGTCTAGCCG
TCTTTAGGGATAATTTGGAGACAACACGATTCCTACGCGATGAAGAAGTCTGATTGCCTAAGGAT
GACGCTGCTCTTTCGCGTTGAAGAGATCTAGTCGATGGACGACAGTATTCCTACGTGATGAGGAC
GCATAGCCGTCTTTAGG
Found at i:3199607 original size:66 final size:65
Alignment explanation
Indices: 3199549--3199764 Score: 193
Period size: 66 Copynumber: 3.2 Consensus size: 65
3199539 TGTTTCAAGT
* *
3199549 GAAACAATTTCAA-AATTTGTGTTTCAAGGGAAAACTGTCTCAAGCGAGATGAAATTTGTTTCGA
1 GAAACAATCTCAAGAATTTGTGTTTCAAGAG-AAA-TGTCTCAAGCGAGATGAAATTTGTTTCGA
3199613 AA
64 AA
** *
3199615 GAAACAATCTCAAGAATTTGTGTTTCAAGAGAAATGTCTCAAGCGAGACAAAATTTATTTTCAGA
1 GAAACAATCTCAAGAATTTGTGTTTCAAGAGAAATGTCTCAAGCGAGATGAAATTT-GTTTC-GA
*
3199680 TA
64 AA
* * * * * *
3199682 -AAACAATCTCAAGTGAGATCAATTTTGTTTCAAGAAAAATCGTCTGAAACGAGACGAAACTGTG
1 GAAACAATCTCAA--GA-AT---TTGTGTTTCAAGAGAAAT-GTCTCAAGCGAGATGAAA-TTTG
*
3199746 TTTCGAGA
58 TTTCGAAA
3199754 GAAACAATCTC
1 GAAACAATCTC
3199765 TAAGGTGACG
Statistics
Matches: 124, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
65 20 0.16
66 31 0.25
67 19 0.15
68 2 0.02
69 2 0.02
72 19 0.15
73 29 0.23
74 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (65 bp):
GAAACAATCTCAAGAATTTGTGTTTCAAGAGAAATGTCTCAAGCGAGATGAAATTTGTTTCGAAA
Found at i:3201094 original size:21 final size:21
Alignment explanation
Indices: 3201068--3201117 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
3201058 CTATTTTTTT
* *
3201068 CAAATAAAAAAGAACAAAAAA
1 CAAATAAAAAACAAAAAAAAA
3201089 CAAATAAAAAACAAAAAAAAA
1 CAAATAAAAAACAAAAAAAAA
3201110 CAAA-AAAA
1 CAAATAAAA
3201118 GCCAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.84, C:0.10, G:0.02, T:0.04
Consensus pattern (21 bp):
CAAATAAAAAACAAAAAAAAA
Found at i:3201124 original size:10 final size:10
Alignment explanation
Indices: 3201068--3201117 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
3201058 CTATTTTTTT
3201068 CAAATAAAAAA
1 CAAA-AAAAAA
* *
3201079 GAACAAAAAA
1 CAAAAAAAAA
3201089 CAAATAAAAAA
1 CAAA-AAAAAA
3201100 CAAAAAAAAA
1 CAAAAAAAAA
3201110 CAAAAAAA
1 CAAAAAAA
3201118 GCCAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 22 0.65
11 12 0.35
ACGTcount: A:0.84, C:0.10, G:0.02, T:0.04
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:3218388 original size:32 final size:29
Alignment explanation
Indices: 3218352--3218429 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
3218342 TTAGTTTGTG
3218352 CAATAAAATAAATGTTAGTAAGTTAATAAGAA
1 CAATAAAATAAA-GTTAGTAAGTTAAT-A-AA
* * * *
3218384 CAATAAAA-AAAATCAGTATGTTAGTAAA
1 CAATAAAATAAAGTTAGTAAGTTAATAAA
3218412 CAATAAAATAAAAGTTAG
1 CAATAAAAT-AAAGTTAG
3218430 AATATTAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 10 0.26
29 1 0.03
30 16 0.42
31 3 0.08
32 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (29 bp):
CAATAAAATAAAGTTAGTAAGTTAATAAA
Found at i:3218440 original size:30 final size:28
Alignment explanation
Indices: 3218382--3218440 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
3218372 AGTTAATAAG
* *
3218382 AACAATAAAAAAAATCAGTATGTTAGTA
1 AACAATAAAAAAAATCAGAATATTAGTA
*
3218410 AACAATAAAATAAAAGTTAGAATATTAGTA
1 AACAATAAAA-AAAA-TCAGAATATTAGTA
3218440 A
1 A
3218441 TTTAGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 10 0.38
29 4 0.15
30 12 0.46
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.25
Consensus pattern (28 bp):
AACAATAAAAAAAATCAGAATATTAGTA
Found at i:3219106 original size:14 final size:14
Alignment explanation
Indices: 3219089--3219122 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3219079 CGAATAATGT
3219089 ATAAAATATAA-AAA
1 ATAAAATA-AATAAA
3219103 ATAAAATAAATAAA
1 ATAAAATAAATAAA
3219117 ATAAAA
1 ATAAAA
3219123 CGTTAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAATAAATAAA
Found at i:3219170 original size:117 final size:115
Alignment explanation
Indices: 3219007--3219308 Score: 473
Period size: 117 Copynumber: 2.6 Consensus size: 115
3218997 AAAGTTAGCG
*
3219007 GTTAGTGGTTAACAGAGTC-GAGACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAA
1 GTTAGTGGTTAGCAGAGTCTGA-ACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAA
* *
3219071 GGTCGAATCGAATAATGTATA-AAATATAAAAAATAAAATAAATAAAATAAAAC
65 GGTCGAATCGAATAATGCAAACAAATATAAAAAATAAAAT--A-AAAATAAAAC
* *
3219124 GTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGACACAACAAG
1 GTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
* *
3219189 GTCGAATCGAATAATGCAAACAAATATATAAAATAAAATAAAAATAAAAG
66 GTCGAATCGAATAATGCAAACAAATATAAAAAATAAAATAAAAATAAAAC
* *
3219239 GATAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGAATCGGGTCACCACAAG
1 GTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
3219304 GTCGA
66 GTCGA
3219309 GTAATAAGAG
Statistics
Matches: 172, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
115 75 0.44
116 1 0.01
117 77 0.45
118 19 0.11
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (115 bp):
GTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAG
GTCGAATCGAATAATGCAAACAAATATAAAAAATAAAATAAAAATAAAAC
Found at i:3219285 original size:115 final size:116
Alignment explanation
Indices: 3219009--3219308 Score: 471
Period size: 115 Copynumber: 2.6 Consensus size: 116
3218999 AGTTAGCGGT
*
3219009 TAGTGGTTAACAGAGTC-GAGACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGG
1 TAGTGGTTAGCAGAGTCTGA-ACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGG
* * *
3219073 TCGAATCGAATAATGTATAAAATATAAAAAATAAAATAAATAAAATAAAACGT
65 TCGAATCGAATAATGCAAAAAATATAAAAAATAAAAT-AATAAAATAAAACGA
* *
3219126 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGACACAACAAGGT
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
* *
3219191 CGAATCGAATAATGCAAACAAATATATAAAATAAAAT-A-AAAATAAAAGGA
66 CGAATCGAATAATGCAAA-AAATATAAAAAATAAAATAATAAAATAAAACGA
*
3219241 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGAATCGGGTCACCACAAGGT
1 TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
3219306 CGA
66 CGA
3219309 GTAATAAGAG
Statistics
Matches: 170, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
115 75 0.44
116 1 0.01
117 75 0.44
118 19 0.11
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (116 bp):
TAGTGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCACAAGGT
CGAATCGAATAATGCAAAAAATATAAAAAATAAAATAATAAAATAAAACGA
Found at i:3219409 original size:29 final size:28
Alignment explanation
Indices: 3219353--3219421 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 28
3219343 ATGGTTAGAA
* * * *
3219353 TGCAAGAAAATAAAAGTCAGTGGTTAAT
1 TGCAAAAAAATAAAAGTCAATAGATAAT
*
3219381 GTGCAAAAAAATAAAAGTTAATAGATAAT
1 -TGCAAAAAAATAAAAGTCAATAGATAAT
*
3219410 T-CAAAATAATAA
1 TGCAAAAAAATAA
3219422 GAATGCATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 10 0.29
28 1 0.03
29 23 0.68
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (28 bp):
TGCAAAAAAATAAAAGTCAATAGATAAT
Found at i:3220872 original size:219 final size:218
Alignment explanation
Indices: 3220492--3221128 Score: 818
Period size: 216 Copynumber: 2.9 Consensus size: 218
3220482 TAGGACTTCA
* * * * **
3220492 GGTCAATTTGGATATAACTTGATGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTC
1 GGTCAATATGGAGATAATTTGGTGTTGAAGACGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
* * * * * * *
3220557 GCTTACAGATAAATTTTTGTTGAAGATGACATTTTTCCTTCTTGTTGAGAAAGTCGGGTCAATTT
66 ACTTTCAGATAAATTTTTGTTGAAGATGATA-TTTTCCTTCTCGTTGAGGAAGTCGAGTCAATCT
3220622 GGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGGT-TGATTGTCTGAGGATGACA
130 GGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAA-GTCTGATTGTCTGAGGATGACA
* * * *
3220686 CTTCTCCTTCGCGTTTACGAGATCG
194 CTACTCCTTCACATTAACGAGATCG
*
3220711 GGTCAATCTGGAGATAATTTGGTGTTGAAGACGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
1 GGTCAATATGGAGATAATTTGGTGTTGAAGACGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
* * * *
3220776 ACTTTCAGATAAATTGTTTATTGAAGATGATGATATTCCTTCTCGTTAAGGAAGTTGAGTCAATC
66 ACTTTCAGATAAATT-TTTGTTGAAGATGAT-ATTTTCCTTCTCGTTGAGGAAGTCGAGTCAATC
* * * * * *
3220841 TAGAGATAATTTGGAGACAACAC-GATCCTTCGCATTGAAGAAGTCTTATTGTCTAAGGATGA-A
129 TGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACA
3220904 --ACTCCTTCACATTAACGAGATCG
194 CTACTCCTTCACATTAACGAGATCG
* * * ** *
3220927 GTTTAATATGTAGATAATTTGGTGTTGATCAAGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
1 GGTCAATATGGAGATAATTTGGTGTTGAAGACGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
* *
3220992 ACTTTCAAATAAATTCTTTGTTGAAGATGACT-TTTTCCTTCTCATTGAGGAAGTCGAGTCAATC
66 ACTTTCAGATAAATT-TTTGTTGAAGATGA-TATTTTCCTTCTCGTTGAGGAAGTCGAGTCAATC
* * *
3221056 TGGAGATAATTTGTAGAGAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACG
129 TGGAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACA
*
3221121 CTGCTCCT
194 CTACTCCT
3221129 ATACATTGAG
Statistics
Matches: 359, Mismatches: 51, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
215 48 0.13
216 138 0.38
217 1 0.00
218 3 0.01
219 108 0.30
220 60 0.17
221 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (218 bp):
GGTCAATATGGAGATAATTTGGTGTTGAAGACGACTTTGCTCATCCATGTTGAAGAGATCTGGTC
ACTTTCAGATAAATTTTTGTTGAAGATGATATTTTCCTTCTCGTTGAGGAAGTCGAGTCAATCTG
GAGATAATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACACT
ACTCCTTCACATTAACGAGATCG
Found at i:3221313 original size:139 final size:139
Alignment explanation
Indices: 3221060--3221625 Score: 569
Period size: 139 Copynumber: 4.1 Consensus size: 139
3221050 TCAATCTGGA
* * * * * *
3221060 GATAATTTGTAGAGAACACGGTTCCTTCGCGT-TGAGGAAGTCTGATTGTCTGAGGATGACGCTG
1 GATAATTTGGAGACAACACGATTCC-T-ACGTATGAGGAAGTCTGATTGCCTAAGGATGACGCTG
* * * * * *
3221124 CTCCTATAC--ATTGAGGAGATATGGTTGGTGGACGACATTATTCCTTCGTGATGAGGACGTTTA
64 CTCCT-TACGTGTTGAGGAGATCTAGTCGGTGGACGACATTATTCCTACGTGATGAGGACGTCTA
3221187 GCCATCTTTAGG
128 GCCATCTTTAGG
* * * *
3221199 GATAATTTGGAGACAACACGATTCCTACGTAATGAAGAAGTCTGGTTGTCTAAGGATGATGCTGC
1 GATAATTTGGAGACAACACGATTCCTACGT-ATGAGGAAGTCTGATTGCCTAAGGATGACGCTGC
** * *
3221264 TCCTT-CGTGTTGAGGAGATCTAGTCAATGGACGACATTATTTCTACGTGATTAGGACGTCTAGC
65 TCCTTACGTGTTGAGGAGATCTAGTCGGTGGACGACATTATTCCTACGTGATGAGGACGTCTAGC
3221328 CATCTTTAGG
130 CATCTTTAGG
* * * * *
3221338 GATAATTTCGAGACAACACGGTTCCTATGTGATGAGGAATTCTGATTGCCTAAGGATGACGTTGC
1 GATAATTTGGAGACAACACGATTCCTACGT-ATGAGGAAGTCTGATTGCCTAAGGATGACGCTGC
* * * * ** *
3221403 TCCTTTAC-T-TTGAGGAGATCTGGTCGGTGGATGACATTGTTCTTATATGATGAGGACGTCTAT
65 TCC-TTACGTGTTGAGGAGATCTAGTCGGTGGACGACATTATTCCTACGTGATGAGGACGTCTAG
* *
3221466 CCGTCTCTAGG
129 CCATCTTTAGG
* * *
3221477 GATAATTAGGAGACAATAC-AGTTCGTTCT-CGT-TGAGGAAGTCTGATTGCCTGAGGATGACGC
1 GATAATTTGGAGACAACACGA-TTC---CTACGTATGAGGAAGTCTGATTGCCTAAGGATGACGC
* * * *
3221539 TGCT-CTTACGCGTTGAAGAGATCTAGTCGGTGGACG-CTATTGTTCCTTCGTGATGAGGACGTC
62 TGCTCCTTACGTGTTGAGGAGATCTAGTCGGTGGACGAC-ATTATTCCTACGTGATGAGGACGTC
* *
3221602 TAGTCGTCTTTAGG
126 TAGCCATCTTTAGG
3221616 GATAATTTGG
1 GATAATTTGG
3221626 CTTTGGAAAT
Statistics
Matches: 353, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
137 8 0.02
138 4 0.01
139 333 0.94
140 3 0.01
141 3 0.01
142 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (139 bp):
GATAATTTGGAGACAACACGATTCCTACGTATGAGGAAGTCTGATTGCCTAAGGATGACGCTGCT
CCTTACGTGTTGAGGAGATCTAGTCGGTGGACGACATTATTCCTACGTGATGAGGACGTCTAGCC
ATCTTTAGG
Found at i:3221562 original size:278 final size:277
Alignment explanation
Indices: 3221060--3221624 Score: 660
Period size: 278 Copynumber: 2.0 Consensus size: 277
3221050 TCAATCTGGA
* * * *
3221060 GATAATTTGTAGAGAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTGAGGATGACGCTGC
1 GATAATTTGTAGACAACACGGTTCCTTCGCGATGAGGAAGTCTGATTGCCTAAGGATGACGCTGC
* * *
3221125 TCCTATACATTGAGGAGATATGGTTGGTGGACGACATTATTCCTTCGTGATGAGGACGTTTAGCC
66 TCCTATACATTGAGGAGATATGGTCGGTGGACGACATTATTCCTTCATGATGAGGACGTCTAGCC
* * * *
3221190 ATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGTAATGAAGAAGTCTGGTTGTCTAAGGA
131 ATCTCTAGGGATAATTAGGAGACAACACGATTCCTACGT-ATGAAGAAGTCTGATTGCCTAAGGA
* * * * *
3221255 TGATGCTGCTCCTTCGTGTTGAGGAGATCTAGTCAATGGACGAC-ATTATTTCTACGTGATTAGG
195 TGACGCTGCTCCTTCGCGTTGAAGAGATCTAGTCAATGGACG-CTATTATTCCTACGTGATGAGG
3221319 ACGTCTAGCCATCTTTAGG
259 ACGTCTAGCCATCTTTAGG
* * *
3221338 GATAATTTCG-AGACAACACGGTTCCTAT-GTGATGAGGAATTCTGATTGCCTAAGGATGACGTT
1 GATAATTT-GTAGACAACACGGTTCCT-TCGCGATGAGGAAGTCTGATTGCCTAAGGATGACGCT
* * * * * *
3221401 GCTCCTTTACTTTGAGGAGATCTGGTCGGTGGATGACATTGTT-CTTATATGATGAGGACGTCTA
64 GCTCCTATACATTGAGGAGATATGGTCGGTGGACGACATTATTCCTT-CATGATGAGGACGTCTA
* * * *
3221465 TCCGTCTCTAGGGATAATTAGGAGACAATAC-AGTTCGTTCT-CGT-TGAGGAAGTCTGATTGCC
128 GCCATCTCTAGGGATAATTAGGAGACAACACGA-TTC---CTACGTATGAAGAAGTCTGATTGCC
* ** * *
3221527 TGAGGATGACGCTGCT-CTTACGCGTTGAAGAGATCTAGTCGGTGGACGCTATTGTTCCTTCGTG
189 TAAGGATGACGCTGCTCCTT-CGCGTTGAAGAGATCTAGTCAATGGACGCTATTATTCCTACGTG
* *
3221591 ATGAGGACGTCTAGTCGTCTTTAGG
253 ATGAGGACGTCTAGCCATCTTTAGG
3221616 GATAATTTG
1 GATAATTTG
3221625 GCTTTGGAAA
Statistics
Matches: 242, Mismatches: 36, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
277 9 0.04
278 226 0.93
279 2 0.01
280 3 0.01
281 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (277 bp):
GATAATTTGTAGACAACACGGTTCCTTCGCGATGAGGAAGTCTGATTGCCTAAGGATGACGCTGC
TCCTATACATTGAGGAGATATGGTCGGTGGACGACATTATTCCTTCATGATGAGGACGTCTAGCC
ATCTCTAGGGATAATTAGGAGACAACACGATTCCTACGTATGAAGAAGTCTGATTGCCTAAGGAT
GACGCTGCTCCTTCGCGTTGAAGAGATCTAGTCAATGGACGCTATTATTCCTACGTGATGAGGAC
GTCTAGCCATCTTTAGG
Found at i:3221976 original size:103 final size:101
Alignment explanation
Indices: 3221826--3222018 Score: 262
Period size: 103 Copynumber: 1.9 Consensus size: 101
3221816 GGTGAGATAA
* * *
3221826 AATTTTGTTTCGAGTGAAACATTTCAAAATTTGCATTTCAAGGGAAAACTGTCTCACGCAAGA-G
1 AATTTTGATTCAAGTGAAACATTTCAAAATTTGCATTTCAAGGGAAAACTGTCTCAAGCAAGATG
*
3221890 AAAATTTCTTTTTAAGAAAAACAATCTTAGATGTTATC
66 -AAATTT-GTTTTAAGAAAAACAATCTTAGATGTTATC
** * *
3221928 AATTTTGATTCAAGTGAAACAATTTCAAAATTTGTGTTTTAAGGGAAAACTGTCTCAAGCGAGAT
1 AATTTTGATTCAAGTGAAAC-ATTTCAAAATTTGCATTTCAAGGGAAAACTGTCTCAAGCAAGAT
* *
3221993 GAAATTTGTTTTGAGAGAAACAATCT
65 GAAATTTGTTTTAAGAAAAACAATCT
3222019 CAAGGATTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 34 0.43
103 44 0.56
104 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (101 bp):
AATTTTGATTCAAGTGAAACATTTCAAAATTTGCATTTCAAGGGAAAACTGTCTCAAGCAAGATG
AAATTTGTTTTAAGAAAAACAATCTTAGATGTTATC
Found at i:3222014 original size:66 final size:66
Alignment explanation
Indices: 3221943--3222086 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
3221933 TGATTCAAGT
* * * ** *
3221943 GAAACAATTTCAA-AATTTGTGTTTTAAGGGAAAACTGTCTCAAGCGAGATGAAATTTGTTTTGA
1 GAAACAATCTCAAGAATTTGTGTTTCAAGAG-AAACTGTCTCAAGCGAGAAAAAATTTGTTTTCA
3222007 GA
65 GA
* * *
3222009 GAAACAATCTCAAGGATTTGTGTTTCGAGAGAAATTGTCTCAAGCGAGAAAAAATTTGTTTTCAG
1 GAAACAATCTCAAGAATTTGTGTTTCAAGAGAAACTGTCTCAAGCGAGAAAAAATTTGTTTTCAG
3222074 A
66 A
3222075 GAAAACAATCTC
1 G-AAACAATCTC
3222087 TAGTGAGATC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
66 44 0.66
67 23 0.34
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (66 bp):
GAAACAATCTCAAGAATTTGTGTTTCAAGAGAAACTGTCTCAAGCGAGAAAAAATTTGTTTTCAG
A
Found at i:3232361 original size:26 final size:26
Alignment explanation
Indices: 3232326--3232377 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3232316 ATGATTCTAC
3232326 ATAATATTCCTAAATT-AGTAAGCTAA
1 ATAATATTCCTAAATTAAG-AAGCTAA
3232352 ATAATATTCCTAAATTAAGAAGCTAA
1 ATAATATTCCTAAATTAAGAAGCTAA
3232378 TCTCTGACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAATATTCCTAAATTAAGAAGCTAA
Found at i:3234078 original size:205 final size:203
Alignment explanation
Indices: 3233710--3234112 Score: 756
Period size: 205 Copynumber: 2.0 Consensus size: 203
3233700 TCAAAGTAAT
3233710 ATATTTTGATTACTCACATATTTGTTATAATTTAATTATTTTTTTAAAATAATCGGTATTCATTA
1 ATATTTTGATTACTCACATATTTGTTATAATTTAATTATTTTTTTAAAATAATCGGTATTCATTA
3233775 AAGTAAAATGGAGTTAGCATGTAGAACATGAATCCAGTGGGAATACAGAACTAAAATAGAGGCAT
66 AAGTAAAATGGAGTTAGCATGTAGAACATGAATCCAGTGGGAATACAGAACTAAAATAGAGGCAT
3233840 GATTGACGTCGTGGAGTAATTTACTAGAGCATGTGCCGC-CTGCCGGCCTTTCGCCTAGTAAACG
131 GATTGACGTCGTGGAGTAATTTACTAGAGCATGTGCCGCACTGCCGGCCTTTCGCCTAGTAAACG
3233904 GAAAAAGA
196 GAAAAAGA
3233912 ATATTTTGATTACTCACATATTTGTTATAATTTAATTATTTTTTTAAAAATAATCGGTATTCATT
1 ATATTTTGATTACTCACATATTTGTTATAATTTAATTATTTTTTT-AAAATAATCGGTATTCATT
3233977 -AAGTAAACATGGAGTTAGCATGTAGAACATGAATCCAGTTGGGAATTACAGAACTAAAATAGAG
65 AAAGTAAA-ATGGAGTTAGCATGTAGAACATGAATCCAG-TGGGAA-TACAGAACTAAAATAGAG
3234041 GCATGATTGACGTCGTGGAGTAATTTACTAGAGCATGTGCCGCACTGCCGGCCTTTCGCCTAGTA
127 GCATGATTGACGTCGTGGAGTAATTTACTAGAGCATGTGCCGCACTGCCGGCCTTTCGCCTAGTA
3234106 AACGGAA
192 AACGGAA
3234113 TTGAGATGTG
Statistics
Matches: 196, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
202 52 0.27
203 49 0.25
204 6 0.03
205 61 0.31
206 28 0.14
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (203 bp):
ATATTTTGATTACTCACATATTTGTTATAATTTAATTATTTTTTTAAAATAATCGGTATTCATTA
AAGTAAAATGGAGTTAGCATGTAGAACATGAATCCAGTGGGAATACAGAACTAAAATAGAGGCAT
GATTGACGTCGTGGAGTAATTTACTAGAGCATGTGCCGCACTGCCGGCCTTTCGCCTAGTAAACG
GAAAAAGA
Found at i:3247018 original size:17 final size:19
Alignment explanation
Indices: 3246996--3247030 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3246986 GCTTTTGTTC
3246996 AGTTTG-AGAGGG-AATCT
1 AGTTTGAAGAGGGCAATCT
3247013 AGTTTGAAGAGGGCAATC
1 AGTTTGAAGAGGGCAATC
3247031 GAGATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (19 bp):
AGTTTGAAGAGGGCAATCT
Found at i:3252873 original size:30 final size:30
Alignment explanation
Indices: 3252838--3252898 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3252828 TAGTTGACAA
3252838 TCTTAGATCGTTGGGGGGTTATAAATTGGG
1 TCTTAGATCGTTGGGGGGTTATAAATTGGG
*
3252868 TCTTAGATCTTTGGGGGGTTATAAATTGGG
1 TCTTAGATCGTTGGGGGGTTATAAATTGGG
3252898 T
1 T
3252899 TGCTAGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.34, T:0.39
Consensus pattern (30 bp):
TCTTAGATCGTTGGGGGGTTATAAATTGGG
Found at i:3261895 original size:3 final size:3
Alignment explanation
Indices: 3261883--3261934 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
3261873 TCTACAAAAA
*
3261883 TAT TATT TAT TAT TA- TAT TTT TAT TAT TAT TAT TA- TAT TAT T-T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3261926 TAAT TAT TA
1 T-AT TAT TA
3261935 ATAATTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 6 0.14
3 31 0.74
4 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3261906 original size:8 final size:8
Alignment explanation
Indices: 3261882--3261934 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
3261872 GTCTACAAAA
3261882 ATATTATT
1 ATATTATT
3261890 -TATTATT
1 ATATTATT
3261897 ATATT-TT
1 ATATTATT
3261904 -TATTA-T
1 ATATTATT
3261910 -TATTATT
1 ATATTATT
3261917 ATATTATT
1 ATATTATT
*
3261925 TTAATTATT
1 AT-ATTATT
3261934 A
1 A
3261935 ATAATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 10 0.26
7 10 0.26
8 12 0.32
9 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATATTATT
Found at i:3261907 original size:14 final size:15
Alignment explanation
Indices: 3261882--3261933 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
3261872 GTCTACAAAA
3261882 ATATTATTTATTATT
1 ATATTATTTATTATT
3261897 ATATT-TTTATTATT
1 ATATTATTTATTATT
3261911 ATTATTATATTATT-TT
1 A-TATTAT-TTATTATT
3261927 A-ATTATT
1 ATATTATT
3261934 AATAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 9 0.26
16 4 0.12
17 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTATTTATTATT
Found at i:3261923 original size:17 final size:16
Alignment explanation
Indices: 3261883--3261934 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
3261873 TCTACAAAAA
3261883 TATTATTTATTATTA-
1 TATTATTTATTATTAT
3261898 TATT-TTTATTATTAT
1 TATTATTTATTATTAT
3261913 TATTATATTATT-TTAAT
1 TATTAT-TTATTATT-AT
3261930 TATTA
1 TATTA
3261935 ATAATTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.30
15 8 0.24
16 3 0.09
17 12 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:3263463 original size:30 final size:30
Alignment explanation
Indices: 3263410--3263531 Score: 131
Period size: 29 Copynumber: 4.1 Consensus size: 30
3263400 TATTTGTTTA
*
3263410 TTTAGACCCTTAAG-TTATATTTTTACTAT
1 TTTAGACCCTTAAGTTTCTATTTTTACTAT
* * *
3263439 TTTAGACCTTTAAGTTTCTATTTTTGCCAT
1 TTTAGACCCTTAAGTTTCTATTTTTACTAT
* *
3263469 TTTAG-TCCTTAAGTTTCTATTTTTATTAT
1 TTTAGACCCTTAAGTTTCTATTTTTACTAT
* * * *
3263498 TTCAGTCCCTTAAGTTTCTTTTGTTTGCTAT
1 TTTAGACCCTTAAGTTTCTATT-TTTACTAT
3263529 TTT
1 TTT
3263532 GGTCCTTTTA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
29 36 0.48
30 31 0.41
31 8 0.11
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.57
Consensus pattern (30 bp):
TTTAGACCCTTAAGTTTCTATTTTTACTAT
Found at i:3263490 original size:59 final size:59
Alignment explanation
Indices: 3263417--3263538 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
3263407 TTATTTAGAC
* *
3263417 CCTTAAGTTATATTTTTACTATTTTAGACCTTTAAGTTTCTATT-TTTGCCATTTTAGT
1 CCTTAAGTTATATTTTTACTATTTCAGACCCTTAAGTTTCTATTGTTTGCCATTTTAGT
* * * * * *
3263475 CCTTAAGTTTCTATTTTTATTATTTCAGTCCCTTAAGTTTCTTTTGTTTGCTATTTTGGT
1 CCTTAAG-TTATATTTTTACTATTTCAGACCCTTAAGTTTCTATTGTTTGCCATTTTAGT
3263535 CCTT
1 CCTT
3263539 TTAAATAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
58 7 0.13
59 31 0.57
60 16 0.30
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57
Consensus pattern (59 bp):
CCTTAAGTTATATTTTTACTATTTCAGACCCTTAAGTTTCTATTGTTTGCCATTTTAGT
Found at i:3268880 original size:36 final size:37
Alignment explanation
Indices: 3268813--3268919 Score: 137
Period size: 38 Copynumber: 2.9 Consensus size: 37
3268803 GAGATTATCT
*
3268813 TCTTAAAAACAAAGTATCGTCTCG-TTAGAGACAA-TTC
1 TCTTAAAAACAAA-TTTCGTCTCGCTT-GAGACAACTTC
**
3268850 TCTTAAAAACAAATTTTATCTCGCTTGAGACAACTTTC
1 TCTTAAAAACAAATTTCGTCTCGCTTGAGACAAC-TTC
*
3268888 TCTTAAAAATAAATTTCGTCTCGCTTGAGACA
1 TCTTAAAAACAAATTTCGTCTCGCTTGAGACA
3268920 TTTTTCCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
36 14 0.23
37 15 0.25
38 32 0.52
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (37 bp):
TCTTAAAAACAAATTTCGTCTCGCTTGAGACAACTTC
Found at i:3269051 original size:25 final size:26
Alignment explanation
Indices: 3269008--3269057 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
3268998 CTTGAGACTT
*
3269008 TTTTTTCTCTGAGATACAAATTTAAA
1 TTTTTTCTCTGAGATACAAAGTTAAA
3269034 TTTTTTCATCTGA-A-ACAAAGTTAA
1 TTTTTTC-TCTGAGATACAAAGTTAA
3269058 TATCACTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 8 0.36
27 5 0.23
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (26 bp):
TTTTTTCTCTGAGATACAAAGTTAAA
Found at i:3270447 original size:92 final size:92
Alignment explanation
Indices: 3270317--3270491 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 92
3270307 GATAAGGTAT
* *
3270317 TATCGATACCATGGTAAGGTATCGATACCAGGTAACATCGAACCTAATTTTACTATCGATACC-A
1 TATCGATACCATGGTAAGGTATCGATACCAAGCAACATCGAACCTAATTTTACTATCGATACCAA
*
3270381 GGGGGTATCGGTACCATAACATAGTAA
66 GGGGGTATCGATACCATAACATAGTAA
* * * **
3270408 TATCGATACCATGGTGAGGGTATCGATACCAAGCCACATCGAAGCTAATTTTGGTATCGATACCG
1 TATCGATACCATGGT-AAGGTATCGATACCAAGCAACATCGAACCTAATTTTACTATCGATACC-
3270473 AAAGGGGGTATCGATACCA
64 -AAGGGGGTATCGATACCA
3270492 AGCCATATCG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
91 15 0.21
92 41 0.57
95 16 0.22
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (92 bp):
TATCGATACCATGGTAAGGTATCGATACCAAGCAACATCGAACCTAATTTTACTATCGATACCAA
GGGGGTATCGATACCATAACATAGTAA
Found at i:3270488 original size:53 final size:53
Alignment explanation
Indices: 3270425--3270597 Score: 319
Period size: 53 Copynumber: 3.3 Consensus size: 53
3270415 ACCATGGTGA
*
3270425 GGGTATCGATACCAAGCCACATCGAAGCTAATTTTGGTATCGATACCGAAAGG
1 GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGAAAGG
3270478 GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGAAAGG
1 GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGAAAGG
*
3270531 GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGGAAGG
1 GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGAAAGG
*
3270584 GGGTATCGGTACCA
1 GGGTATCGATACCA
3270598 TAGTAGAGTA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
53 117 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (53 bp):
GGGTATCGATACCAAGCCATATCGAAGCTAATTTTGGTATCGATACCGAAAGG
Found at i:3270611 original size:22 final size:22
Alignment explanation
Indices: 3270586--3270627 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3270576 CCGGAAGGGG
*
3270586 GTATCGGTACCATAGTAGAGTA
1 GTATCGATACCATAGTAGAGTA
* *
3270608 GTATCGATATCATGGTAGAG
1 GTATCGATACCATAGTAGAG
3270628 GCATCGATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTAGAGTA
Found at i:3271260 original size:54 final size:55
Alignment explanation
Indices: 3270960--3271244 Score: 337
Period size: 54 Copynumber: 5.3 Consensus size: 55
3270950 TTACCCAATA
* * * * *
3270960 GGCACTAAAATGTGCATTTCACGAAATTCATCATATGTGGATGAATAACTGTTTC
1 GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3271015 GGCACTATA-TGTGCATTTCACGGAATTCATCCTAGGTGGATGAATAATCGTTTT
1 GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3271069 GGCACT-TAGTGTGCATTTCACAGAATTCATCCTAGGTTGATGAATAACCGTTTC
1 GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
3271123 AGCACTA-AGTATGCATTTCACGGAATTTAGCCTATGTGGATGAATAACCATTTC
1 GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
** * * *
3271177 GATACTA-AGTGTGCATTTCATGGAATTCATCCTATGAGGATGAATAACCATTTC
1 GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
3271231 GGAACTATA-TGTGC
1 GGCACTATAGTGTGC
3271245 CAAGCACGGA
Statistics
Matches: 198, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 187 0.94
55 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
GGCACTATAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:3277835 original size:65 final size:65
Alignment explanation
Indices: 3277722--3277879 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 65
3277712 ATAAGACTTA
* * * ** *
3277722 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGACTGGAGTGCATCGATGCAT-GATA
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGACAAGAGTGCAACGATGCATGGAT-
3277786 T
65 T
* ** *
3277787 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCAACGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGACAAGAGTGCAACGATGCATGGATT
3277852 GTGCATCGGTACACAAAAATGCATTCGA
1 GTGCATCGGTACAC-AAAATGCATTCGA
3277880 AATGGGTGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 66 0.81
66 15 0.19
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGACAAGAGTGCAACGATGCATGGATT
Found at i:3279816 original size:34 final size:34
Alignment explanation
Indices: 3279773--3279845 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
3279763 CATTTTTATT
3279773 CTAAATGAATATATTCATGAA-TAATAAACAAACG
1 CTAAATGAATATATTCATGAACT-ATAAACAAACG
*
3279807 CTAAATGAATATGTTCATGAACTATAAACAAACG
1 CTAAATGAATATATTCATGAACTATAAACAAACG
*
3279841 TTAAA
1 CTAAA
3279846 CGAACATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (34 bp):
CTAAATGAATATATTCATGAACTATAAACAAACG
Found at i:3279855 original size:34 final size:34
Alignment explanation
Indices: 3279786--3279858 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
3279776 AATGAATATA
* *
3279786 TTCATGAATAATAAACAAACGCTAAATGAATATG
1 TTCATGAATAATAAACAAACGCTAAACGAACATG
*
3279820 TTCATGAACT-ATAAACAAACGTTAAACGAACATG
1 TTCATGAA-TAATAAACAAACGCTAAACGAACATG
3279854 TTCAT
1 TTCAT
3279859 AAACATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (34 bp):
TTCATGAATAATAAACAAACGCTAAACGAACATG
Found at i:3279862 original size:23 final size:23
Alignment explanation
Indices: 3279836--3279915 Score: 61
Period size: 23 Copynumber: 3.4 Consensus size: 23
3279826 AACTATAAAC
3279836 AAACGTTAAACGAACATGTTCAT
1 AAACGTTAAACGAACATGTTCAT
* * * *
3279859 AAACATTTAAACGAGCATATTCAC
1 AAAC-GTTAAACGAACATGTTCAT
* ** * *
3279883 GAATATTAAACAAACATGTTCGT
1 AAACGTTAAACGAACATGTTCAT
*
3279906 GAACGTTAAA
1 AAACGTTAAA
3279916 GAAACGAATA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
23 25 0.60
24 17 0.40
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (23 bp):
AAACGTTAAACGAACATGTTCAT
Found at i:3279871 original size:24 final size:23
Alignment explanation
Indices: 3279834--3279903 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
3279824 TGAACTATAA
*
3279834 ACAAACGTTAAACGAACATGTTC
1 ACAAACATTAAACGAACATGTTC
* * *
3279857 ATAAACATTTAAACGAGCATATTC
1 ACAAACA-TTAAACGAACATGTTC
* * *
3279881 ACGAATATTAAACAAACATGTTC
1 ACAAACATTAAACGAACATGTTC
3279904 GTGAACGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.26
Consensus pattern (23 bp):
ACAAACATTAAACGAACATGTTC
Found at i:3283109 original size:19 final size:19
Alignment explanation
Indices: 3283085--3283123 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3283075 GTATTTTGAG
3283085 TTAGTTCTATCTTGTAGAT
1 TTAGTTCTATCTTGTAGAT
3283104 TTAGTTCTATCTTGTAGAT
1 TTAGTTCTATCTTGTAGAT
3283123 T
1 T
3283124 AATGACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (19 bp):
TTAGTTCTATCTTGTAGAT
Found at i:3283379 original size:24 final size:24
Alignment explanation
Indices: 3283352--3283397 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3283342 CACAGGGCGA
3283352 CTATTTACGAT-GTGCAAAGAGGGT
1 CTATTTACGATGGT-CAAAGAGGGT
*
3283376 CTATTTATGATGGTCAAAGAGG
1 CTATTTACGATGGTCAAAGAGG
3283398 TGCAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (24 bp):
CTATTTACGATGGTCAAAGAGGGT
Found at i:3284100 original size:28 final size:28
Alignment explanation
Indices: 3284060--3284121 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
3284050 TTATGGGAGA
3284060 TTGAGCATCAACGACTGTAGTAAGGTGG
1 TTGAGCATCAACGACTGTAGTAAGGTGG
3284088 TTGAGCATCAACGACTGTAGTAAGGTGG
1 TTGAGCATCAACGACTGTAGTAAGGTGG
3284116 TTGAGC
1 TTGAGC
3284122 GTTCAATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGAGCATCAACGACTGTAGTAAGGTGG
Found at i:3285789 original size:12 final size:12
Alignment explanation
Indices: 3285769--3285808 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
3285759 TTCATCTTCA
3285769 TCTTCTCTTCTT
1 TCTTCTCTTCTT
*
3285781 TCTTATCTTTCTT
1 TCTTCTC-TTCTT
*
3285794 TCTTCTTTTCTT
1 TCTTCTCTTCTT
3285806 TCT
1 TCT
3285809 CTCCACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.70
Consensus pattern (12 bp):
TCTTCTCTTCTT
Found at i:3287421 original size:31 final size:31
Alignment explanation
Indices: 3287383--3287444 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
3287373 CACTTCAAAA
* *
3287383 TTTTTAAAAATTTTAATTTAAACCCCTAATT
1 TTTTTAAAAATTTTAAATTAAACCCCAAATT
* *
3287414 TTTTTAAAAGTTTTAAATTAGACCCCAAATT
1 TTTTTAAAAATTTTAAATTAAACCCCAAATT
3287445 CTATCACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAATTTTAAATTAAACCCCAAATT
Found at i:3288026 original size:21 final size:21
Alignment explanation
Indices: 3288000--3288040 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3287990 GATATCATTC
3288000 AACATG-TTTGAAAAGAAAATG
1 AACATGTTTTGAAAA-AAAATG
3288021 AACATGTTTTGAAAAAAAAT
1 AACATGTTTTGAAAAAAAAT
3288041 CAAGGGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.27
Consensus pattern (21 bp):
AACATGTTTTGAAAAAAAATG
Found at i:3289242 original size:6 final size:6
Alignment explanation
Indices: 3289231--3289267 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
3289221 GACACGTATT
*
3289231 ACCACG ACCACG ACCACG ACCACG GCCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
3289268 GCTGAGCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.49, G:0.19, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3292908 original size:40 final size:40
Alignment explanation
Indices: 3292853--3292930 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
3292843 TTATGTAGTA
3292853 GTGTTTTCCTCCTTTACTTTCAGTGTTTCTAAAATCTGCT
1 GTGTTTTCCTCCTTTACTTTCAGTGTTTCTAAAATCTGCT
3292893 GTGTTTTCCTCCTTTACTTTCAGTGTTTCTAAAATCTG
1 GTGTTTTCCTCCTTTACTTTCAGTGTTTCTAAAATCTG
3292931 AGATCAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.15, C:0.22, G:0.13, T:0.50
Consensus pattern (40 bp):
GTGTTTTCCTCCTTTACTTTCAGTGTTTCTAAAATCTGCT
Found at i:3293861 original size:85 final size:85
Alignment explanation
Indices: 3293732--3293902 Score: 317
Period size: 85 Copynumber: 2.0 Consensus size: 85
3293722 TAGGTAAGCT
3293732 TATCTTTTAAACGGTTGGCTACTTCATCTTCATATGACCCACAAGTTCTTCAAGCGAAAAGTCTC
1 TATCTTTTAAACGGTTGGCTACTTCATCTTCATATGACCCACAAGTTCTTCAAGCGAAAAGTCTC
3293797 TCTTCTTATGC-TAAGAGAG
66 TCTTCTTATGCTTAAGAGAG
*
3293816 TATCTTTTAAACGGTTGGCTACTTCAATCTTCATATGACCCACAAGTTCTTCAAGCGAAATGTCT
1 TATCTTTTAAACGGTTGGCTACTTC-ATCTTCATATGACCCACAAGTTCTTCAAGCGAAAAGTCT
3293881 CTCTTCTTATGCTTAAGAGAG
65 CTCTTCTTATGCTTAAGAGAG
3293902 T
1 T
3293903 TGCGGTAGTC
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
84 25 0.30
85 50 0.60
86 9 0.11
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (85 bp):
TATCTTTTAAACGGTTGGCTACTTCATCTTCATATGACCCACAAGTTCTTCAAGCGAAAAGTCTC
TCTTCTTATGCTTAAGAGAG
Found at i:3295321 original size:6 final size:6
Alignment explanation
Indices: 3295310--3295340 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3295300 GACACGTATT
3295310 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
3295341 GCCGAGCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3310295 original size:13 final size:13
Alignment explanation
Indices: 3310260--3310302 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
3310250 TTGACCCCTG
3310260 TTGACCGTTGACT
1 TTGACCGTTGACT
* * *
3310273 TTAACTGTTGCCT
1 TTGACCGTTGACT
3310286 TTGACCGTTGACT
1 TTGACCGTTGACT
3310299 TTGA
1 TTGA
3310303 TTGAAAAAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:3310636 original size:2 final size:2
Alignment explanation
Indices: 3310629--3310668 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3310619 AAATGCATGG
3310629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3310669 GATTGGTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3314068 original size:26 final size:26
Alignment explanation
Indices: 3314033--3314084 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3314023 TCTATTACTA
3314033 AAAGGATATTTTAATTATTTCTTATT
1 AAAGGATATTTTAATTATTTCTTATT
* *
3314059 AAAGGGTATTTTAATTCTTTCTTATT
1 AAAGGATATTTTAATTATTTCTTATT
3314085 TTAAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (26 bp):
AAAGGATATTTTAATTATTTCTTATT
Found at i:3314111 original size:15 final size:15
Alignment explanation
Indices: 3314093--3314141 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 15
3314083 TTTTAAAAGT
3314093 AAATATTTTAATTTA
1 AAATATTTTAATTTA
3314108 AAATA--TTAATTTA
1 AAATATTTTAATTTA
* *
3314121 TATTATTTTAA-TTA
1 AAATATTTTAATTTA
3314135 AAATATT
1 AAATATT
3314142 AAATTTGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 11 0.39
14 8 0.29
15 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATATTTTAATTTA
Found at i:3314116 original size:28 final size:28
Alignment explanation
Indices: 3314085--3314144 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
3314075 CTTTCTTATT
3314085 TTAAAAGTA-AATATTTTAATTTAAAATA
1 TTAAAAGTATAATATTTTAA-TTAAAATA
** *
3314113 TT-AATTTATATTATTTTAATTAAAATA
1 TTAAAAGTATAATATTTTAATTAAAATA
3314140 TTAAA
1 TTAAA
3314145 TTTGAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TTAAAAGTATAATATTTTAATTAAAATA
Found at i:3314154 original size:27 final size:26
Alignment explanation
Indices: 3314094--3314155 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
3314084 TTTAAAAGTA
3314094 AATATTTTAATTTAAAATATTAATTT
1 AATATTTTAATTTAAAATATTAATTT
3314120 ATATTATTTTAA-TTAAAATATTAAATTT
1 A-A-TATTTTAATTTAAAATATT-AATTT
3314148 GAATATTT
1 -AATATTT
3314156 CTTAGATCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 14 0.44
29 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AATATTTTAATTTAAAATATTAATTT
Found at i:3316783 original size:16 final size:17
Alignment explanation
Indices: 3316731--3316783 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 17
3316721 GATATATATA
*
3316731 CATATATATTTATA-TT
1 CATATAAATTTATATTT
*
3316747 -AT-TATATTTATATTT
1 CATATAAATTTATATTT
*
3316762 CTTATAAATTTA-ATTT
1 CATATAAATTTATATTT
3316778 CATATA
1 CATATA
3316784 TACCTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.32
15 4 0.13
16 10 0.32
17 7 0.23
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
CATATAAATTTATATTT
Found at i:3322173 original size:56 final size:56
Alignment explanation
Indices: 3322087--3322194 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
3322077 GTTTAAATGG
3322087 ACTAAGGGAGCTATTTATGTGTTTTGGGTCAATGCATAGTTGTTTTGGTGTGATGA
1 ACTAAGGGAGCTATTTATGTGTTTTGGGTCAATGCATAGTTGTTTTGGTGTGATGA
3322143 ACTAAGGGAGCTATTTATGTGTTTTGGGTCAATGCATAGTTGTTTTGGTGTG
1 ACTAAGGGAGCTATTTATGTGTTTTGGGTCAATGCATAGTTGTTTTGGTGTG
3322195 GACTTGAGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.20, C:0.07, G:0.31, T:0.42
Consensus pattern (56 bp):
ACTAAGGGAGCTATTTATGTGTTTTGGGTCAATGCATAGTTGTTTTGGTGTGATGA
Found at i:3326277 original size:13 final size:13
Alignment explanation
Indices: 3326259--3326283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3326249 ACATGGCACC
3326259 AATGGAAGAAACT
1 AATGGAAGAAACT
3326272 AATGGAAGAAAC
1 AATGGAAGAAAC
3326284 AAAAGGCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
AATGGAAGAAACT
Found at i:3337558 original size:14 final size:13
Alignment explanation
Indices: 3337533--3337564 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
3337523 AATCCAAAAG
3337533 AAGAAGGAAGAAC
1 AAGAAGGAAGAAC
3337546 AAGAAGAGAAGAAC
1 AAGAAG-GAAGAAC
3337560 AAGAA
1 AAGAA
3337565 AAATATGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.66, C:0.06, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAAGGAAGAAC
Found at i:3339158 original size:20 final size:20
Alignment explanation
Indices: 3339135--3339247 Score: 129
Period size: 20 Copynumber: 5.7 Consensus size: 20
3339125 GTTTCCAGAT
3339135 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* * *
3339155 TCGCAACGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
* *
3339175 TCGCAATGCGATTATGACTA
1 TCGCAACGCGATTCTGACTA
* *
3339195 TCGCAATGCGATTCTAACTA
1 TCGCAACGCGATTCTGACTA
*
3339215 TCGCAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
*
3339235 TCGCAATGCGATT
1 TCGCAACGCGATT
3339248 TTCAAATCAC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 77 0.97
21 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:3339246 original size:40 final size:38
Alignment explanation
Indices: 3339135--3339247 Score: 145
Period size: 40 Copynumber: 2.9 Consensus size: 38
3339125 GTTTCCAGAT
* *
3339135 TCGCAACGCGATTCTGACTATCGCAACGCGAATATGTAAA
1 TCGCAACGCGATTCTGACTATCGCAATGCG-AT-TCTAAA
* *
3339175 TCGCAATGCGATTATGACTATCGCAATGCGATTCTAACTA
1 TCGCAACGCGATTCTGACTATCGCAATGCGATTCTAA--A
*
3339215 TCGCAACGCGATTCTGACTGTCGCAATGCGATT
1 TCGCAACGCGATTCTGACTATCGCAATGCGATT
3339248 TTCAAATCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
38 4 0.06
39 2 0.03
40 58 0.91
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (38 bp):
TCGCAACGCGATTCTGACTATCGCAATGCGATTCTAAA
Found at i:3339863 original size:19 final size:19
Alignment explanation
Indices: 3339841--3339884 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
3339831 AGAATCGCAA
*
3339841 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCA-TTTCGCGC
3339860 TGCGATTTTCATTTCGCGC
1 TGCGATTTTCATTTCGCGC
3339879 TGCGAT
1 TGCGAT
3339885 AGTCAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGC
Found at i:3339915 original size:20 final size:20
Alignment explanation
Indices: 3339852--3339944 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
3339842 GCGATTTTAG
**
3339852 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATAGTCAT
* *
3339871 TTTCGCGCTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
3339891 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
** **
3339911 TTTCGTATTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
**
3339931 TTTCATGTTGCGAT
1 TTTCGCGTTGCGAT
3339945 TTTAAGTTTC
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
19 16 0.27
20 44 0.73
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:3339954 original size:20 final size:20
Alignment explanation
Indices: 3339918--3339955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3339908 CATTTTCGTA
* *
3339918 TTGCGATTTTCATTTTCATG
1 TTGCGATTTTAAGTTTCATG
3339938 TTGCGATTTTAAGTTTCA
1 TTGCGATTTTAAGTTTCA
3339956 GAAACTACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (20 bp):
TTGCGATTTTAAGTTTCATG
Found at i:3341838 original size:20 final size:20
Alignment explanation
Indices: 3341813--3341878 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
3341803 GTTTACTTTT
3341813 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
3341833 GCAACGCAAAAATGACTATC
1 GCAACGCGAAAATGACTATC
**
3341853 GCAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
3341873 GCAACG
1 GCAACG
3341879 AAAGAATCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:3341952 original size:20 final size:20
Alignment explanation
Indices: 3341923--3341996 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
3341913 GATTATCTCA
**
3341923 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCATTTTCGCG
*
3341943 TTGGGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
*
3341963 TTGTGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
3341983 TTGCGATAGTCATT
1 TTGCGATAGTCATT
3341997 CGTGTTGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:3342003 original size:18 final size:19
Alignment explanation
Indices: 3341923--3342007 Score: 100
Period size: 20 Copynumber: 4.4 Consensus size: 19
3341913 GATTATCTCA
*
3341923 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTC-ATTTCGCG
*
3341943 TTGGGATAGTCATTTTCGCG
1 TTGCGATAGTCA-TTTCGCG
*
3341963 TTGTGATAGTCATTTTCGCG
1 TTGCGATAGTCA-TTTCGCG
*
3341983 TTGCGATAGTCA-TTCGTG
1 TTGCGATAGTCATTTCGCG
3342001 TTGCGAT
1 TTGCGAT
3342008 TTTAAGTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
18 12 0.20
19 1 0.02
20 46 0.78
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (19 bp):
TTGCGATAGTCATTTCGCG
Found at i:3344065 original size:36 final size:30
Alignment explanation
Indices: 3343985--3344050 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
3343975 ATAAGAGTTG
3343985 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
3344015 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
3344045 ATTTGT
1 ATTTGT
3344051 GCTTGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:3344171 original size:20 final size:20
Alignment explanation
Indices: 3344146--3344443 Score: 213
Period size: 20 Copynumber: 15.8 Consensus size: 20
3344136 GCGATTTTCT
3344146 CGTTGCGATAGTCAAATTAC-
1 CGTTGCGATAGTCAAATT-CG
*
3344166 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3344186 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
* *
3344205 TGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
3344219 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
3344239 TGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
3344259 CATTGCGATAGTCATATTTG
1 CGTTGCGATAGTCAAATTCG
**
3344279 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
3344299 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
3344319 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
**
3344333 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
3344353 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* * *
3344367 CGTTGCGGTATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* * *
3344387 CGTTGCAATAGTCATATTCT
1 CGTTGCGATAGTCAAATTCG
*
3344407 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
3344427 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
3344444 GAGTGTGTAA
Statistics
Matches: 221, Mismatches: 38, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
14 29 0.13
16 3 0.01
17 1 0.00
18 2 0.01
19 16 0.07
20 170 0.77
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:3344244 original size:34 final size:34
Alignment explanation
Indices: 3344112--3344435 Score: 168
Period size: 34 Copynumber: 8.9 Consensus size: 34
3344102 ATCATATTCG
* * * * *
3344112 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTATCT
*
3344146 CGTTGCGATAGTCAAATTAC-CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATT-CGCGTTGCGAT--T---A-TCT
* *
3344186 CGTTGCGATAGTC-ATTTCGTGTTGCGATTATCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTATCT
*
3344219 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTTAAAT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCG--A-TT--ATCT
* * *
3344257 CGCATTGCGATAGTCATATTTGCGTTGCGATAGTCATTTTCG
1 CG--TTGCGATAGTCAAATTCGCGTTGCGAT--T-A---TCT
** * *
3344299 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTATCT
** * *
3344333 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTATCT
* * * *
3344367 CGTTGCGGTATTCAAATTCACGTTGCAATAGTCATATTCT
1 CGTTGCGATAGTCAAATTCGCGTTGC--GA-T--TA-TCT
*
3344407 CGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
3344436 AGTCAAATGA
Statistics
Matches: 231, Mismatches: 31, Indels: 53
0.73 0.10 0.17
Matches are distributed among these distances:
33 15 0.06
34 93 0.40
35 1 0.00
36 3 0.01
37 7 0.03
38 8 0.03
39 16 0.07
40 85 0.37
41 1 0.00
42 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTATCT
Found at i:3344641 original size:18 final size:18
Alignment explanation
Indices: 3344618--3344652 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3344608 AAGCCGGTTG
*
3344618 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
3344636 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
3344653 GCCTTTTGCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:3346706 original size:14 final size:14
Alignment explanation
Indices: 3346687--3346723 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3346677 TCCATTGGCA
3346687 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
3346701 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
3346715 TTCTTCTTC
1 TT-TTCTTC
3346724 TTCTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:3346947 original size:24 final size:24
Alignment explanation
Indices: 3346913--3346966 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3346903 CTGAAACATC
*
3346913 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGAACAAG
* *
3346937 ATCAAAGTCCGGGTATTGAACAAG
1 ATCAAAATCCGAGTATTGAACAAG
3346961 ATCAAA
1 ATCAAA
3346967 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGAACAAG
Found at i:3347825 original size:20 final size:20
Alignment explanation
Indices: 3347786--3347919 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
3347776 TTGAAATTCA
* * *
3347786 GCATTGCGACAGTTAGAATC
1 GCATTGCGATAGTCATAATC
*
3347806 GCGTTGCGATAGTCATAATC
1 GCATTGCGATAGTCATAATC
*
3347826 GCATTGTGATAGTCATAATC
1 GCATTGCGATAGTCATAATC
* *
3347846 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
* *
3347866 GCGTTGCGATAGTCATACTC
1 GCATTGCGATAGTCATAATC
* *
3347886 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
3347906 GCATTGCGATAGTC
1 GCATTGCGATAGTC
3347920 GGAAAATCGC
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.02
20 90 0.96
21 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (20 bp):
GCATTGCGATAGTCATAATC
Found at i:3347846 original size:40 final size:40
Alignment explanation
Indices: 3347781--3347919 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
3347771 CGAATTTGAA
* * * * *
3347781 ATTCAGCATTGCGACAGTTAGAATCGCGTTGCGATAGT-CAT
1 ATTC-GCATTGCGATAGTCATAATCGCATTGCGAT-TTACAT
* *
3347822 AATCGCATTGTGATAGTCATAATCGCATTGCGATTTACAT
1 ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
* *
3347862 ATTCGCGTTGCGATAGTCATACTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
3347902 ATTCGCATTGCGATAGTC
1 ATTCGCATTGCGATAGTC
3347920 GGAAAATCGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 81 0.95
41 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (40 bp):
ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
Found at i:3348564 original size:26 final size:26
Alignment explanation
Indices: 3348511--3348564 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
3348501 GAGTAAATAG
* * *
3348511 TATTGATACTGTTCTTACAGTATTGA
1 TATTGATACTATTCTTACAATATCGA
*
3348537 TATTGATACTATTCTTGCAATATCGA
1 TATTGATACTATTCTTACAATATCGA
3348563 TA
1 TA
3348565 CCAAAGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (26 bp):
TATTGATACTATTCTTACAATATCGA
Found at i:3360093 original size:29 final size:31
Alignment explanation
Indices: 3360050--3360134 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 31
3360040 AATTTTGGTT
* *
3360050 AGTGACCAAAATATAAATTTTG-AAAG-TTA
1 AGTGACTAAAGTATAAATTTTGAAAAGTTTA
*
3360079 AGTGACTAAAGTATAAACTTTAGAAAAGTTTA
1 AGTGACTAAAGTATAAA-TTTTGAAAAGTTTA
* *
3360111 AG-GACTAAAGTGT-AATTTTAAAAA
1 AGTGACTAAAGTATAAATTTTGAAAA
3360135 AGTTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 22 0.47
30 6 0.13
31 14 0.30
32 5 0.11
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (31 bp):
AGTGACTAAAGTATAAATTTTGAAAAGTTTA
Found at i:3360138 original size:30 final size:32
Alignment explanation
Indices: 3360072--3360138 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
3360062 ATAAATTTTG
*
3360072 AAAG-TTAAGTGACTAAAGTATAAACTTTAGA
1 AAAGTTTAAGTGACTAAAGTATAAACTTTAAA
* *
3360103 AAAGTTTAAG-GACTAAAGTGT-AATTTTAAA
1 AAAGTTTAAGTGACTAAAGTATAAACTTTAAA
3360133 AAAGTT
1 AAAGTT
3360139 ATATAATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 13 0.41
31 14 0.44
32 5 0.16
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.31
Consensus pattern (32 bp):
AAAGTTTAAGTGACTAAAGTATAAACTTTAAA
Found at i:3366039 original size:22 final size:22
Alignment explanation
Indices: 3366012--3366057 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
3366002 CTGAGAAAGG
3366012 ATTGTGTTTTAGAGAAATAGAA
1 ATTGTGTTTTAGAGAAATAGAA
*
3366034 ATTGTGTTTTAGAGAAATTGAA
1 ATTGTGTTTTAGAGAAATAGAA
3366056 AT
1 AT
3366058 AAACACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (22 bp):
ATTGTGTTTTAGAGAAATAGAA
Found at i:3369193 original size:14 final size:14
Alignment explanation
Indices: 3369176--3369204 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3369166 TGTTTATGTC
3369176 CGTTCATTTATATT
1 CGTTCATTTATATT
3369190 CGTTCATTTATATT
1 CGTTCATTTATATT
3369204 C
1 C
3369205 AGTCAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (14 bp):
CGTTCATTTATATT
Found at i:3375362 original size:12 final size:12
Alignment explanation
Indices: 3375345--3375377 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
3375335 CATACCATCC
3375345 CCAAACGGATGG
1 CCAAACGGATGG
3375357 CCAAACGGATGG
1 CCAAACGGATGG
3375369 CCAAACGGA
1 CCAAACGGA
3375378 AGTCATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.27, G:0.30, T:0.06
Consensus pattern (12 bp):
CCAAACGGATGG
Found at i:3386611 original size:8 final size:9
Alignment explanation
Indices: 3386595--3386629 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
3386585 TATTCACAAC
3386595 TTCATTTTT
1 TTCATTTTT
3386604 TTCATTTTT
1 TTCATTTTT
3386613 TTCA-TTTT
1 TTCATTTTT
3386621 TTCATTTTT
1 TTCATTTTT
3386630 AGTGGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCATTTTT
Found at i:3386620 original size:7 final size:8
Alignment explanation
Indices: 3386595--3386629 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
3386585 TATTCACAAC
3386595 TTCATTTTT
1 TTCA-TTTT
3386604 TTCATTTTT
1 TTCA-TTTT
3386613 TTCATTTT
1 TTCATTTT
3386621 TTCATTTT
1 TTCATTTT
3386629 T
1 T
3386630 AGTGGGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 13 0.50
9 13 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCATTTT
Found at i:3386620 original size:17 final size:18
Alignment explanation
Indices: 3386595--3386629 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
3386585 TATTCACAAC
3386595 TTCATTTTTTTCATTTTT
1 TTCATTTTTTTCATTTTT
3386613 TTCA-TTTTTTCATTTTT
1 TTCATTTTTTTCATTTTT
3386630 AGTGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCATTTTTTTCATTTTT
Found at i:3391712 original size:20 final size:20
Alignment explanation
Indices: 3391687--3391729 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3391677 TTTCTACCAC
*
3391687 ATGCATCTAAATGCTTCTAA
1 ATGCATCTAAATGCTCCTAA
* *
3391707 ATGCATCTACATGGTCCTAA
1 ATGCATCTAAATGCTCCTAA
3391727 ATG
1 ATG
3391730 AGCTCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGCATCTAAATGCTCCTAA
Found at i:3392190 original size:19 final size:18
Alignment explanation
Indices: 3392147--3392196 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
3392137 CATTTTTTAT
*
3392147 TTTCATATTCATAACCTA
1 TTTCAGATTCATAACCTA
3392165 TTTCAGATTCATAA-CTCA
1 TTTCAGATTCATAACCT-A
3392183 TCTTCAGATTCATA
1 T-TTCAGATTCATA
3392197 GTCCAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 2 0.07
18 15 0.52
19 12 0.41
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAGATTCATAACCTA
Found at i:3396675 original size:31 final size:31
Alignment explanation
Indices: 3396618--3396676 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
3396608 TTTCTTGTAT
*
3396618 ATTTTTTCTTCCTTTTTCTTTTTTGGTTTGG
1 ATTTTTTCTTCCTTTTTCTTTCTTGGTTTGG
3396649 ATTTTTTC-TCTCTTTTT-TATTCTTGGTT
1 ATTTTTTCTTC-CTTTTTCT-TTCTTGGTT
3396677 GTTTAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (31 bp):
ATTTTTTCTTCCTTTTTCTTTCTTGGTTTGG
Found at i:3405065 original size:100 final size:103
Alignment explanation
Indices: 3404857--3405109 Score: 293
Period size: 100 Copynumber: 2.5 Consensus size: 103
3404847 AAACATTTCA
* * * *
3404857 AAATTTGT-GTTTCAAAGGAAAATTATCTCAAGCGAGACAAAATTTGTTTTTAAGAAAAACAATC
1 AAATTTGTGGTTT-GAAGAAAAACTATCTCAAGCGAGACGAAATTTGTTTTTAAGAAAAACAATC
* * * * *
3404921 TCAAATGTTATCAATTTTGTTTCTAGTGAAACAATTTCC
65 TCAAATGTTATCAATTTTGTTTCAAATAAAAAAAATTCC
* * *
3404960 AAATTT-TGAGTTTG-AG-GAAAC-ATCTCAAGCGAGATGAAATTTGTTTTTAAGAAACACAATC
1 AAATTTGTG-GTTTGAAGAAAAACTATCTCAAGCGAGACGAAATTTGTTTTTAAGAAAAACAATC
*
3405021 TCAATTGTTATCAATTTTGTTTCAAATAAAAAAAATT-C
65 TCAAATGTTATCAATTTTGTTTCAAATAAAAAAAATTCC
* *
3405059 AGAATTTGTGTTTTGAAGAAAAAACTATCTCAAGTGAGACGAAATTTGTTT
1 A-AATTTGTGGTTTGAAG-AAAAACTATCTCAAGCGAGACGAAATTTGTTT
3405110 GAGAACATTC
Statistics
Matches: 126, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
99 2 0.02
100 77 0.61
101 7 0.06
102 3 0.02
103 10 0.08
104 27 0.21
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (103 bp):
AAATTTGTGGTTTGAAGAAAAACTATCTCAAGCGAGACGAAATTTGTTTTTAAGAAAAACAATCT
CAAATGTTATCAATTTTGTTTCAAATAAAAAAAATTCC
Found at i:3405518 original size:16 final size:16
Alignment explanation
Indices: 3405497--3405539 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
3405487 TCAAAATTTC
*
3405497 ATCTCAAGGGAAAACT
1 ATCTCAAGCGAAAACT
3405513 ATCTCAAGCGAAAACT
1 ATCTCAAGCGAAAACT
3405529 ATCTCAAGCGA
1 ATCTCAAGCGA
3405540 GACGAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (16 bp):
ATCTCAAGCGAAAACT
Found at i:3413784 original size:32 final size:33
Alignment explanation
Indices: 3413744--3413816 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
3413734 CCTTCATCTA
*
3413744 TTTTCTTTTTCTTG-T-ATATTTTTTCT-TCTTT
1 TTTTCTTTTT-TTGTTCAGATTTTTTCTCTCTTT
3413775 TTTTCCTTTTTTTGTTCAGATTTTTTCTCTCTTT
1 TTTT-CTTTTTTTGTTCAGATTTTTTCTCTCTTT
3413809 TTATTCTT
1 TT-TTCTT
3413817 GGTTGTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 7 0.19
32 7 0.19
33 10 0.28
34 10 0.28
35 2 0.06
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (33 bp):
TTTTCTTTTTTTGTTCAGATTTTTTCTCTCTTT
Found at i:3413823 original size:33 final size:33
Alignment explanation
Indices: 3413761--3413825 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
3413751 TTTCTTGTAT
**
3413761 ATTTTTTCTTCTTTTTTTCCTTTTTTTGTTCAG
1 ATTTTTTCTTCTTTTTTTCCTTTGGTTGTTCAG
3413794 ATTTTTTCTCTCTTTTTATT-C-TTGGTTGTTCA
1 ATTTTTTCT-TCTTTTT-TTCCTTTGGTTGTTCA
3413826 AAGTCTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 18 0.64
34 8 0.29
35 2 0.07
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (33 bp):
ATTTTTTCTTCTTTTTTTCCTTTGGTTGTTCAG
Found at i:3416275 original size:54 final size:54
Alignment explanation
Indices: 3416191--3416404 Score: 224
Period size: 54 Copynumber: 4.0 Consensus size: 54
3416181 TGAATATTAC
* *
3416191 AACTCATTAT-AAGTTATG-TGGTTTGCACACATAGTGTCAATACGGTAATTCACA
1 AACTCATTATGAA-TTACGTTGG-TTGCACACATAGTGTCGATACGGTAATTCACA
* * *
3416245 AACTCATTATGAATTACGTTGGTTGTACACATAGTGCCGATATGGTAA-TCACA
1 AACTCATTATGAATTACGTTGGTTGCACACATAGTGTCGATACGGTAATTCACA
* * * **
3416298 CACTCATTATGAATTAC-ATGGTTGCAAACA-AAAGTCTGATACGGTAATTCACA
1 AACTCATTATGAATTACGTTGGTTGCACACATAGTGTC-GATACGGTAATTCACA
* * * * *
3416351 AACTCACTATGAATTATGTAGGTTGCACACATAGTGTTGATACTGTAATT-ACA
1 AACTCATTATGAATTACGTTGGTTGCACACATAGTGTCGATACGGTAATTCACA
3416404 A
1 A
3416405 CATATACATT
Statistics
Matches: 131, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
51 3 0.02
52 19 0.15
53 44 0.34
54 57 0.44
55 8 0.06
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (54 bp):
AACTCATTATGAATTACGTTGGTTGCACACATAGTGTCGATACGGTAATTCACA
Found at i:3416751 original size:167 final size:172
Alignment explanation
Indices: 3416474--3416811 Score: 641
Period size: 167 Copynumber: 2.0 Consensus size: 172
3416464 TCACCTATTT
3416474 TGCCTCGCTATTATGCCCAAAAATGTAGTCCGATTATTCATCGTCTTTATCTTTGCCTTTCGATT
1 TGCCTCGCTATTATGCCCAAAAATGTAGTCCGATTATTCATCGTCTTTATCTTTGCCTTTCGATT
3416539 TGCTTGACTCAAGAGCATGATTACGGTCTACACAAGCATCCATAATCACACATTC-AATATGATG
66 TGCTTGACTCAAGAGCATGATTACGGTCTACACAAGCATCCATAATCACACATTCAAATATGATG
3416603 TT-A-ATA-TTACTAACATTATCCAAAGCAATAATACTCAAA
131 TTAATATACTTACTAACATTATCCAAAGCAATAATACTCAAA
3416642 TGCCTCGCTATTATGCCC-AAAATGTAGTCCGATTATTCATCGTCTTTATCTTTGCCTTTCGATT
1 TGCCTCGCTATTATGCCCAAAAATGTAGTCCGATTATTCATCGTCTTTATCTTTGCCTTTCGATT
3416706 TGCTTGACTCAAGAGCATGATTACGGTCTACACAAGCATCCATAATCACACATTCAAATATGATG
66 TGCTTGACTCAAGAGCATGATTACGGTCTACACAAGCATCCATAATCACACATTCAAATATGATG
3416771 TTAATATACTTACTAACATTATCCAAAGCAATAATACTCAA
131 TTAATATACTTACTAACATTATCCAAAGCAATAATACTCAA
3416812 GCACTATAAT
Statistics
Matches: 166, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
167 101 0.61
168 29 0.17
169 1 0.01
170 3 0.02
171 32 0.19
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (172 bp):
TGCCTCGCTATTATGCCCAAAAATGTAGTCCGATTATTCATCGTCTTTATCTTTGCCTTTCGATT
TGCTTGACTCAAGAGCATGATTACGGTCTACACAAGCATCCATAATCACACATTCAAATATGATG
TTAATATACTTACTAACATTATCCAAAGCAATAATACTCAAA
Found at i:3422531 original size:53 final size:56
Alignment explanation
Indices: 3422430--3422587 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 56
3422420 TGAATATTAC
* * * * * *
3422430 AACTCATTATAAATTCTGT-GGTTTTACACACATAGTGTCGATATGGTAA-TCATA
1 AACTCATTATGAATTATGTGGGTTGTACACACATAGCGTCGATAAGGTAATTCACA
3422484 AACTCATTATGAATTATGTGGGTTGTACACACA-A-CGTCGATAAGGTAATTCACA
1 AACTCATTATGAATTATGTGGGTTGTACACACATAGCGTCGATAAGGTAATTCACA
*
3422538 AACTCATTATGAATTATGTGGGTTG--CACACATAGTGTCGATATA-GTAATT
1 AACTCATTATGAATTATGTGGGTTGTACACACATAGCGTCGATA-AGGTAATT
3422588 ATAACATATG
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
52 6 0.07
53 13 0.14
54 60 0.65
55 13 0.14
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (56 bp):
AACTCATTATGAATTATGTGGGTTGTACACACATAGCGTCGATAAGGTAATTCACA
Found at i:3426992 original size:5 final size:5
Alignment explanation
Indices: 3426982--3427057 Score: 75
Period size: 5 Copynumber: 14.8 Consensus size: 5
3426972 AACGGTCAAC
* *
3426982 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCG GGTCAAC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTC--G
*
3427031 GGTCG GGTCG GGTC- AGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
3427058 AAACCGGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 6 0.10
5 46 0.77
7 8 0.13
ACGTcount: A:0.07, C:0.22, G:0.51, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:3427002 original size:22 final size:22
Alignment explanation
Indices: 3426975--3427057 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 22
3426965 AACGGTAAAC
3426975 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
3426997 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
* *
3427019 GGTC--GGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCGGGTCG
*
3427041 GGTCAGTCGGTCGGGTC
1 GGTCA-ACGGTCGGGTC
3427058 AAACCGGTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.08
22 40 0.77
23 4 0.08
25 4 0.08
ACGTcount: A:0.08, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:3427015 original size:27 final size:27
Alignment explanation
Indices: 3426982--3427059 Score: 129
Period size: 27 Copynumber: 2.8 Consensus size: 27
3426972 AACGGTCAAC
3426982 GGTCGGGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCGGGTCAACGGTCG
3427009 GGTCGGGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCGGGTCAACGGTCG
3427036 GGTCGGGTCAGTCGGTCGGGTCAA
1 GGTCGGGTC-G--GGTCGGGTCAA
3427060 ACCGGTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 36 0.75
28 1 0.02
30 11 0.23
ACGTcount: A:0.09, C:0.22, G:0.50, T:0.19
Consensus pattern (27 bp):
GGTCGGGTCGGGTCGGGTCAACGGTCG
Found at i:3427053 original size:18 final size:17
Alignment explanation
Indices: 3426975--3427057 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 17
3426965 AACGGTAAAC
3426975 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
* *
3426992 GGTC--GGGTCAACGGTCG
1 GGTCAACGGTC--GGGTCG
*
3427009 GGTC--GGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
3427024 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
3427041 GGTCAGTCGGTCGGGTC
1 GGTCA-ACGGTCGGGTC
3427058 AAACCGGTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
15 13 0.23
17 33 0.59
18 10 0.18
ACGTcount: A:0.08, C:0.23, G:0.49, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:3434244 original size:5 final size:5
Alignment explanation
Indices: 3434234--3434290 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
3434224 AACGGTCAAC
* * *
3434234 GGTCG GGTCG GGTCG GGCCAAC GGTCG GGTCG GGTCG GGTCAAT GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
3434283 GGTCG GGT
1 GGTCG GGT
3434291 TGGTCGGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 35 0.83
7 7 0.17
ACGTcount: A:0.07, C:0.21, G:0.53, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:3434256 original size:22 final size:22
Alignment explanation
Indices: 3434230--3434290 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
3434220 GGTCAACGGT
3434230 CAACGGTCGGGTCGGGTCGGGC
1 CAACGGTCGGGTCGGGTCGGGC
*
3434252 CAACGGTCGGGTCGGGTCGGGT
1 CAACGGTCGGGTCGGGTCGGGC
*
3434274 CAATGGTCGGGTCGGGT
1 CAACGGTCGGGTCGGGT
3434291 TGGTCGGTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
CAACGGTCGGGTCGGGTCGGGC
Found at i:3434327 original size:19 final size:19
Alignment explanation
Indices: 3434303--3434360 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
3434293 GTCGGTCTGA
*
3434303 TCAGACTGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
3434322 TCAGACCAGCCAAACCGGT
1 TCAGACCGGTCAAACCGGT
3434341 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
3434360 T
1 T
3434361 TGAACAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:3436613 original size:130 final size:129
Alignment explanation
Indices: 3436469--3436707 Score: 302
Period size: 130 Copynumber: 1.8 Consensus size: 129
3436459 CCTTTCATGC
* * *
3436469 CTTAAAATTTAATATCGATTCGAGTGAAAACA-ATAATATCTAATGATTTCCAATCAAGAATAAA
1 CTTAAAAATCAATATCGATTCG-G-GAAAA-AGATAATATCAAATGATTTCCAATCAAGAATAAA
* * * * *
3436533 TGACCT-GCATACCTTAAAGCATTCATTTATTGCTTCAATCGAAATAAAGAGATATCATTATTCT
63 TAACCTCGCATACCTTAAAGCAGTCATTTATTACTCCAACCGAAATAAAGAGATATCATTATTCT
3436597 GT
128 GT
* * * *
3436599 CTTAAAAATCAATATTGATTCGGGAAAAATGGTAATATCAAATTATTTCCAATCGAGAATAAATA
1 CTTAAAAATCAATATCGATTCGGGAAAAA-GATAATATCAAATGATTTCCAATCAAGAATAAATA
* *
3436664 ACCTCTCATGCCTTAAAGCAGTCATTTATTACTCCAACCGAAAT
65 ACCTCGCATACCTTAAAGCAGTCATTTATTACTCCAACCGAAAT
3436708 GAAAAAAATA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
127 1 0.01
128 5 0.05
129 34 0.37
130 52 0.57
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (129 bp):
CTTAAAAATCAATATCGATTCGGGAAAAAGATAATATCAAATGATTTCCAATCAAGAATAAATAA
CCTCGCATACCTTAAAGCAGTCATTTATTACTCCAACCGAAATAAAGAGATATCATTATTCTGT
Found at i:3441292 original size:131 final size:130
Alignment explanation
Indices: 3441062--3441418 Score: 432
Period size: 131 Copynumber: 2.7 Consensus size: 130
3441052 AGAGAAAAAT
* * * *
3441062 ATAATACCTAATTATTTCCCATCGAGAAT-AATGACCTTTCA-AGCCTTAAAACATTCATTTATT
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATA-CCTTAAAACAATCATTTATT
* * **
3441125 ACTCCAATCGAAATGAAAAGATATTACTATATTGTCTTAAAATTTAATATTGATTCGAGTGAAAA
65 ACTCCAATCGAAATGAAAAGATATTACTAT-TTGTCTTAAAAATCAATATTGATTCGAGAAAAAA
3441190 CA
129 CA
* * * *
3441192 ATAATATCTAATGATTTCCAATCAAGGATAAATGACCTCTCATACCTTAAAACAATCATTTATTG
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAACAATCATTTATTA
*
3441257 CTCCAATCGAAAT-AAAGAGATATCACTATTCTGTCTTAAAAATCAATATTGATTCGAGAAAAAA
66 CTCCAATCGAAATGAAA-AGATATTACTATT-TGTCTTAAAAATCAATATTGATTCGAGAAAAAA
*
3441321 CG
129 CA
* ** * * * **
3441323 TTAATATAGAATTATTTACAATCGAGAATAAATGACCTCTTATGCCTTAAAACGGTCATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAACAATCATTTATTA
* *
3441388 CTCCAGTCGAAATGAAAAAAATATTACTATT
66 CTCCAATCGAAATG-AAAAGATATTACTATT
3441419 ATCAATATCG
Statistics
Matches: 192, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
130 28 0.15
131 149 0.78
132 12 0.06
133 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (130 bp):
ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAACAATCATTTATTA
CTCCAATCGAAATGAAAAGATATTACTATTTGTCTTAAAAATCAATATTGATTCGAGAAAAAACA
Found at i:3443666 original size:17 final size:17
Alignment explanation
Indices: 3443635--3443672 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3443625 CTTGGCCTGC
*
3443635 AAAATAATAATAAAATG
1 AAAATAATAATAAAAAG
3443652 AAAATAA-AATAAAAAAG
1 AAAATAATAAT-AAAAAG
3443669 AAAA
1 AAAA
3443673 AGAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAATAATAAAAAG
Done.