Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold30
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: 2650045
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.30
Warning! 144233 characters in sequence are not A, C, G, or T
File 2 of 17
Found at i:155465 original size:61 final size:61
Alignment explanation
Indices: 155323--155478 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
155313 CACCTTTTGT
* * * * * * *
155323 CATCTTTAAGCCTAATATCGTTAGCCTTGAATTAGCATATTGGCACCCTTATCATTTTTCT
1 CATCCTTAAGCCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCCTTATCATTCTTCG
* * * * *
155384 CAT-CTTCATGCCCGATATCGCTGGCCGTGAATCAGCATATTGGTACCTTTATCATTCTTCG
1 CATCCTT-AAGCCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCCTTATCATTCTTCG
* * *
155445 CATCCTTAAGCCCAACATCGCTAACCTTGAATCA
1 CATCCTTAAGCCCAATATCGCTAGCCGTGAATCA
155479 ACACTTTAGT
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
60 2 0.03
61 70 0.93
62 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (61 bp):
CATCCTTAAGCCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCCTTATCATTCTTCG
Found at i:156159 original size:13 final size:13
Alignment explanation
Indices: 156141--156165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156131 TTTAACAACT
156141 TGTATCGATACAA
1 TGTATCGATACAA
156154 TGTATCGATACA
1 TGTATCGATACA
156166 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:156178 original size:19 final size:19
Alignment explanation
Indices: 156154--156224 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
156144 ATCGATACAA
156154 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
***
156173 TGTATCGATACATTATA-CAA
1 TGTATCGATACA-TA-AGTTT
156193 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
156212 TGTATCGATACAT
1 TGTATCGATACAT
156225 TATACAATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 27 0.63
20 14 0.33
21 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:156198 original size:20 final size:20
Alignment explanation
Indices: 156173--156284 Score: 129
Period size: 20 Copynumber: 5.7 Consensus size: 20
156163 ACATAAGTTT
156173 TGTATCGATACATTATACAA
1 TGTATCGATACATTATACAA
***
156193 TGTATCGATACA-TA-AGTTT
1 TGTATCGATACATTATA-CAA
156212 TGTATCGATACATTATACAA
1 TGTATCGATACATTATACAA
* *
156232 TGTATCCATACATTATTCAA
1 TGTATCGATACATTATACAA
* * *
156252 TGTATTGATAAATTATTCAA
1 TGTATCGATACATTATACAA
156272 TGTATCGATACAT
1 TGTATCGATACAT
156285 GCAGGCAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
18 1 0.01
19 14 0.18
20 60 0.79
21 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTATACAA
Found at i:156202 original size:39 final size:39
Alignment explanation
Indices: 156148--156284 Score: 195
Period size: 39 Copynumber: 3.5 Consensus size: 39
156138 ACTTGTATCG
156148 ATACAATGTATCGATACATAAGTTTTGTATCGATACATT
1 ATACAATGTATCGATACATAAGTTTTGTATCGATACATT
156187 ATACAATGTATCGATACATAAGTTTTGTATCGATACATT
1 ATACAATGTATCGATACATAAGTTTTGTATCGATACATT
* * * * *
156226 ATACAATGTATCCATACATTA-TTCAATGTATTGATAAATT
1 ATACAATGTATCGATACATAAGTT--TTGTATCGATACATT
*
156266 ATTCAATGTATCGATACAT
1 ATACAATGTATCGATACAT
156285 GCAGGCAAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.02
39 58 0.65
40 29 0.33
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (39 bp):
ATACAATGTATCGATACATAAGTTTTGTATCGATACATT
Found at i:163001 original size:98 final size:98
Alignment explanation
Indices: 162810--163004 Score: 293
Period size: 99 Copynumber: 2.0 Consensus size: 98
162800 AAAGCCATAA
* ***
162810 GAATATAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTAATTTTTAAAAAATTC
1 GAATATAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTAATTTTCAAAAAAAAA
*
162875 ATTTCGTACCTTAATGGAGAACCGAAAAGATAG
66 ATTTCGTACATTAATGGAGAACCGAAAAGATAG
* *
162908 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTGATTTTTAA-TTTCAAAAAAAA
1 GAATA-TAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTAATTTTCAAAAAAAA
* *
162972 AATTTCGTACATTAATTGAGAATCGAAAAGATA
65 AATTTCGTACATTAATGGAGAACCGAAAAGATA
163005 CGAAAAGTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 43 0.49
99 44 0.51
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (98 bp):
GAATATAGAAATCTTGAAAAATTAAGACAATAATTTTTATTTAATTTTTAATTTTCAAAAAAAAA
ATTTCGTACATTAATGGAGAACCGAAAAGATAG
Found at i:163354 original size:142 final size:140
Alignment explanation
Indices: 162908--163344 Score: 601
Period size: 142 Copynumber: 3.1 Consensus size: 140
162898 GAAAAGATAG
162908 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTGATTTTTAATTTCAAAAAAAAA
1 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTT-ATTTTTAATTTCAAAAAAAAA
* * *
162973 --ATTTCGTACATTAATTGAGAATCGAAAAGATACGAAAAGTTTTAAAAATTTCTATACCCCTAC
65 TCATTTCGTACATTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTAC
163036 AAAAAACCATAA
130 -AAAAACCATAA
* * * *
163048 GAATGTTAGAAATCTTGAAAAATTAAGATAATATTTTTTATTTAATTTTTAATTTCTAAAAACAA
1 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTT-ATTTTTAATTTCAAAAAAAAA
* * *
163113 TCATTTCGTACTTTAGTGGAGAA-CAAAAATGATACGAAAAGTTTTGAAGATTTCTATACCCCTA
65 TCATTTCGTACATTAATGGAGAATCGAAAA-GATACGAAAAGTTTTGAAGATTTCTATACCCCTA
* *
163177 CGAAAAATCATAG
129 C-AAAAACCATAA
* *
163190 GAATATTTGAAATCTTGAAAAATTAAGATAATAATTTTTATTTATTTTTTAATTTAAAAAAAAAA
1 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA-TTTTTAATTTCAAAAAAAAA
* * * * * *
163255 TCATTTTGTACCTTAATGGAGAATCGAGAAGATATGAAAAGTTTTGAAGCTTTTTATACCCCTAC
65 TCATTTCGTACATTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTAC
163320 AAATAACCATAA
130 AAA-AACCATAA
*
163332 GAATAATAGAAAT
1 GAATATTAGAAAT
163345 ATATAAAAAT
Statistics
Matches: 259, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
140 60 0.23
141 9 0.03
142 186 0.72
143 4 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (140 bp):
GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTATTTTTAATTTCAAAAAAAAAT
CATTTCGTACATTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTACA
AAAACCATAA
Found at i:164581 original size:517 final size:517
Alignment explanation
Indices: 163602--164637 Score: 1937
Period size: 517 Copynumber: 2.0 Consensus size: 517
163592 CAATTTAGTC
163602 CCTATGTGATTAAATACACCAAAAATCAATAAATTACAAGGCAATTTACATGATAACATATTAAA
1 CCTATGTGATTAAATACACCAAAAATCAATAAATTACAAGGCAATTTACATGATAACATATTAAA
163667 CATATTGAATAGATATCATACAAATGGTCATGACAAACAAAATAAAGCCAAAATTGTCATTTTAT
66 CATATTGAATAGATATCATACAAATGGTCATGACAAACAAAATAAAGCCAAAATTGTCATTTTAT
163732 CCTATTTTACAAAATGGTCCCTAAACTTTCCAAATTTGCATTTTAATCCCTAATCAACTAAAATA
131 CCTATTTTACAAAATGGTCCCTAAACTTTCCAAATTTGCATTTTAATCCCTAATCAACTAAAATA
163797 TCATACAAACACACCATTAAGTCATCAAATCAGCTTGGGACCAGCAGCAAAACATGGTGAAAATG
196 TCATACAAACACACCATTAAGTCATCAAATCAGCTTGGGACCAGCAGCAAAACATGGTGAAAATG
163862 TCTTCCAAGATTCGGCCAAGCATGTATTTTCATGGAATATAATTTATTCACTTTTTGCTATTTAG
261 TCTTCCAAGATTCGGCCAAGCATGTATTTTCATGGAATATAATTTATTCACTTTTTGCTATTTAG
* * *
163927 TCCTTAAGTTTAATGTTGCTGCAAAATGGTCCATAAACACTAAATCTAAGCTAAATCACCCAAGA
326 TCCCTAAGTTTAATGATGCTGCAAAACGGTCCATAAACACTAAATCTAAGCTAAATCACCCAAGA
* * * *
163992 ATCAACATCATTGGCATAAAATTAGGTTCAACAAAATGGGATTTCTCAGGCAAACAATAATCTTC
391 ATCAACATCATTGGCACAAAATCAGGTTCAACAAAATGGGATTTCTCAAGCAAACAACAATCTTC
* *
164057 CTGGTGAAAATCATATGAAAAACATATGAAAACATGATTTTTAAGCTTAAAGCTACTAGCTT
456 ATGGTGAAAATCATATGAAAAACACATGAAAACATGATTTTTAAGCTTAAAGCTACTAGCTT
*
164119 CCTATGTGATTAAATACACCAAAAATCAATAAATTACGAGGCAATTTACATGATAACATATTAAA
1 CCTATGTGATTAAATACACCAAAAATCAATAAATTACAAGGCAATTTACATGATAACATATTAAA
164184 CATATTGAATAGATATCATACAAATGGTCATGACAAACAAAATAAAGCCAAAATTGTCATTTTAT
66 CATATTGAATAGATATCATACAAATGGTCATGACAAACAAAATAAAGCCAAAATTGTCATTTTAT
* *
164249 CCTATTTTGCAAAGTGGTCCCTAAACTTTCCAAATTTGCATTTTAATCCCTAATCAACTAAAATA
131 CCTATTTTACAAAATGGTCCCTAAACTTTCCAAATTTGCATTTTAATCCCTAATCAACTAAAATA
164314 TCATACAAACACACCATTAAGTCATCAAATCAGCTTGGGACCAGCAGCAAAACATGGTGAAAATG
196 TCATACAAACACACCATTAAGTCATCAAATCAGCTTGGGACCAGCAGCAAAACATGGTGAAAATG
*
164379 TCTTCCAAGATTCGGCTAAGCATGTATTTTCATGGAATATAATTTATTCACTTTTTGCTATTTAG
261 TCTTCCAAGATTCGGCCAAGCATGTATTTTCATGGAATATAATTTATTCACTTTTTGCTATTTAG
164444 TCCCTAAGTTTAATGATGCTGCAAAACGGTCCATAAACACTAAATCTAAGCTAAATCACCCAAGA
326 TCCCTAAGTTTAATGATGCTGCAAAACGGTCCATAAACACTAAATCTAAGCTAAATCACCCAAGA
* *
164509 ATCAACATCATTGGCACAAAATCAGGTTCAGCAAAATGGGATTTCTCAAGCAAACAACAATTTTC
391 ATCAACATCATTGGCACAAAATCAGGTTCAACAAAATGGGATTTCTCAAGCAAACAACAATCTTC
164574 ATGGTGAAAATCATATGAAAAACACATGAAAACATGATTTTTAAGCTTAAAGCTACTAGCTT
456 ATGGTGAAAATCATATGAAAAACACATGAAAACATGATTTTTAAGCTTAAAGCTACTAGCTT
164636 CC
1 CC
164638 AAGTATATAT
Statistics
Matches: 504, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
517 504 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (517 bp):
CCTATGTGATTAAATACACCAAAAATCAATAAATTACAAGGCAATTTACATGATAACATATTAAA
CATATTGAATAGATATCATACAAATGGTCATGACAAACAAAATAAAGCCAAAATTGTCATTTTAT
CCTATTTTACAAAATGGTCCCTAAACTTTCCAAATTTGCATTTTAATCCCTAATCAACTAAAATA
TCATACAAACACACCATTAAGTCATCAAATCAGCTTGGGACCAGCAGCAAAACATGGTGAAAATG
TCTTCCAAGATTCGGCCAAGCATGTATTTTCATGGAATATAATTTATTCACTTTTTGCTATTTAG
TCCCTAAGTTTAATGATGCTGCAAAACGGTCCATAAACACTAAATCTAAGCTAAATCACCCAAGA
ATCAACATCATTGGCACAAAATCAGGTTCAACAAAATGGGATTTCTCAAGCAAACAACAATCTTC
ATGGTGAAAATCATATGAAAAACACATGAAAACATGATTTTTAAGCTTAAAGCTACTAGCTT
Found at i:164809 original size:9 final size:10
Alignment explanation
Indices: 164788--164832 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
164778 CTTTGCTTGA
164788 TTTTC-CTAT
1 TTTTCTCTAT
164797 TTTTCTCTAT
1 TTTTCTCTAT
*
164807 TTTTCTCAATTT
1 TTTTCTC--TAT
164819 TTTTCTCTAT
1 TTTTCTCTAT
164829 TTTT
1 TTTT
164833 TTCTCCTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 5 0.16
10 17 0.55
12 9 0.29
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTCTCTAT
Found at i:164823 original size:12 final size:12
Alignment explanation
Indices: 164806--164837 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
164796 TTTTTCTCTA
164806 TTTTTCTCAATT
1 TTTTTCTCAATT
*
164818 TTTTTCTCTATT
1 TTTTTCTCAATT
164830 TTTTTCTC
1 TTTTTCTC
164838 CTCCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTCTCAATT
Found at i:169739 original size:14 final size:13
Alignment explanation
Indices: 169702--169748 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 13
169692 TGCTGGCAAA
169702 TTTCCTTTTTTTC
1 TTTCCTTTTTTTC
*
169715 TCT-C-TTTTTTC
1 TTTCCTTTTTTTC
169726 TTT-C--TTTTTC
1 TTTCCTTTTTTTC
169736 TTTCCTTTTTTTC
1 TTTCCTTTTTTTC
169749 ACTCTACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 1 0.03
13 8 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCCTTTTTTTC
Found at i:170605 original size:167 final size:165
Alignment explanation
Indices: 170229--170991 Score: 1010
Period size: 167 Copynumber: 4.6 Consensus size: 165
170219 AACAAGGAAA
* * * * *
170229 TTTCAAGG-AAAAA-TGAAAAAC-TCATGAAAATACATGAATTTTTCAAAACTGATTTAATATGA
1 TTTCAAGGAAAAAATTG-AAAACTTTATAAAAATAAATGAATTTTT-GAAACTGATTTAACATGA
* * *
170291 ATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAA-AAGAAA-CCCTTTCAAAAATA
64 ATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAA-AAATCCC-TCCAAAAACA
* * *
170354 -TTACAGACTAGAAAACTTCGTATTTCGAAAATAGGAGAT
127 TTTACAAAGTAGAAAA-TTCGTATTTCGAAAATAAGAGAT
170393 TTTCAA--AAAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAAAGCTGATTTAACATGAA
1 TTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAAA-CTGATTTAACATGAA
* *
170456 TTAAATAATAATATTTTATAAATTTTAAAAATTAACAACCAAGAAAAATCCCTCCAAAAACATTT
65 TTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTT
170521 ACAAAGTAGAAAATTCTGTATTTCGAAAATAAGAGAT
130 ACAAAGTAGAAAATTC-GTATTTCGAAAATAAGAGAT
*
170558 TTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAAATTTTGAACACTGATTTAACATGAA
1 TTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAA-ACTGATTTAACATGAA
170623 TTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTT
65 TTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTT
* *
170688 ACAGAGTAGAAAACTCCGTATTTCGAAAAT-AGAAGAT
130 ACAAAGTAGAAAA-TTCGTATTTCGAAAATAAG-AGAT
* *
170725 TTTCAAGGACAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAGAAAACTGATTTAGCATG
1 TTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAATTTTT--G-AAACTGATTTAACATG
* *
170790 AATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA--AATGAAAAAATCCCTCTAAAAAC
63 AATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAA-G-AAAAATCCCTCCAAAAAC
* * * * * * *
170853 ATATACGAAGTAGAAAGCTTCGTATTTTGGAAACATGAGAT
126 ATTTACAAAGTAGAAA-ATTCGTATTTCGAAAATAAGAGAT
* *
170894 TTTCAAGGAAAAAATTGAACAA-TTTATGAAAATAAATGAATTTTTGTAAACTGATCTAACATGA
1 TTTCAAGGAAAAAATTGAA-AACTTTATAAAAATAAATGAATTTTTG-AAACTGATTTAACATGA
*
170958 ATTAAATAATAATATTTGATGAATTTTAAAAATT
64 ATTAAATAATAATATTTGATAAATTTTAAAAATT
170992 TTGGATCAAT
Statistics
Matches: 541, Mismatches: 37, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
163 13 0.02
164 94 0.17
165 43 0.08
166 2 0.00
167 241 0.45
168 4 0.01
169 139 0.26
170 5 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (165 bp):
TTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAAACTGATTTAACATGAAT
TAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTTA
CAAAGTAGAAAATTCGTATTTCGAAAATAAGAGAT
Found at i:170843 original size:336 final size:330
Alignment explanation
Indices: 170212--171116 Score: 1095
Period size: 336 Copynumber: 2.7 Consensus size: 330
170202 AAACTCAATT
* * * *
170212 TTTCAAAAACAAG-GAAATTTCAAGG-AAAAA-TGAAAAAC-TCATGAAAATACATGAATTTTTC
1 TTTCGAAAACAAGAG-ATTTTCAAGGAAAAAATTG-AAAACTTTATGAAAATAAATGAATTTTT-
* * *
170273 AAAACTGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAA-AAG
63 GAAACTGATTTAACATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAA-
* * *
170337 AAA-CCCTTTC-AAAAATATTACAGACTAGAAAACTTCGTATTTCGAAAATAGGAGATTTTCAAA
127 AAATCCC-TTCAAAAAAT-TTACAGAGTAGAAAACTCCGTATTTCGAAAATAGAAGATTTTCAAA
*
170400 AAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAAAGCTGATTTAACATGAATTAAATAAT
190 AAAAATTGAAAACTTTATAAAAATAAATGAATTTTTGAAAACTGATTTAACATGAATTAAATAAT
* * *
170465 AATATTTTATAAATTTTAAAAATTAACAACCAAGAAAAATCCCTCCAAAAACATTTACAAAGTAG
255 AATATTTGATAAATTTTAAAAATTAACAACAAAGAAAAATCCCTCCAAAAACATATACAAAGTAG
170530 AAA-ATTCTGTA
320 AAAGATTC-GTA
* * *
170541 TTTCGAAAATAAGAGATTTTCAAGGAAAAAATTGAAAACTTTATAAAAATAAATGAAATTTTGAA
1 TTTCGAAAACAAGAGATTTTCAAGGAAAAAATTGAAAACTTTATGAAAATAAATGAATTTTTGAA
170606 CACTGATTTAACATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAA
66 -ACTGATTTAACATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAA
* *
170671 TCCCTCCAAAAACATTTACAGAGTAGAAAACTCCGTATTTCGAAAATAGAAGATTTTCAAGGACA
130 TCCCTTCAAAAA-ATTTACAGAGTAGAAAACTCCGTATTTCGAAAATAGAAGATTTTCAA--AAA
*
170736 AAATTGAAAACTTTATAAAAATAAATGAATTTTTGAGAAAACTGATTTAGCATGAATTAAATAAT
192 AAATTGAAAACTTTATAAAAATAAATGAATTTTT--GAAAACTGATTTAACATGAATTAAATAAT
* * *
170801 AATATTTGATGAATTTTAAAAATTAA-AA-AAATGAAAAAATCCCTCTAAAAACATATACGAAGT
255 AATATTTGATAAATTTTAAAAATTAACAACAAA-G-AAAAATCCCTCCAAAAACATATACAAAGT
*
170864 AGAAAGCTTCGTA
318 AGAAAGATTCGTA
* * *
170877 TTTTGGAAACATGAGATTTTCAAGGAAAAAATTGAACAA-TTTATGAAAATAAATGAATTTTTGT
1 TTTCGAAAACAAGAGATTTTCAAGGAAAAAATTGAA-AACTTTATGAAAATAAATGAATTTTTG-
* * **** *
170941 AAACTGATCTAACATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTGGATCAATG-AA
64 AAACTGATTTAACATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAA-GAAA
* * * * *
171005 AATCCTCTTGAAAAAATTTAC-GAAGTAGAAAACTCCGTATTTTGAAAACAAGAAGAATTCCAAA
128 AATCC-CTTCAAAAAATTTACAG-AGTAGAAAACTCCGTATTTCGAAAA-TAGAAGATTTTCAAA
* * * *
171069 AGAAAATT-AACAA-GTCAT-AAAATAAAAAGAATTTTTCAAAACTGATTT
190 A-AAAATTGAA-AACTTTATAAAAAT-AAATGAATTTTTGAAAACTGATTT
171117 TATGGTGATT
Statistics
Matches: 503, Mismatches: 48, Indels: 46
0.84 0.08 0.08
Matches are distributed among these distances:
329 20 0.04
330 13 0.03
331 81 0.16
332 51 0.10
333 13 0.03
334 43 0.09
335 21 0.04
336 235 0.47
337 26 0.05
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (330 bp):
TTTCGAAAACAAGAGATTTTCAAGGAAAAAATTGAAAACTTTATGAAAATAAATGAATTTTTGAA
ACTGATTTAACATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAAT
CCCTTCAAAAAATTTACAGAGTAGAAAACTCCGTATTTCGAAAATAGAAGATTTTCAAAAAAAAT
TGAAAACTTTATAAAAATAAATGAATTTTTGAAAACTGATTTAACATGAATTAAATAATAATATT
TGATAAATTTTAAAAATTAACAACAAAGAAAAATCCCTCCAAAAACATATACAAAGTAGAAAGAT
TCGTA
Found at i:176940 original size:52 final size:52
Alignment explanation
Indices: 176858--176979 Score: 199
Period size: 52 Copynumber: 2.3 Consensus size: 52
176848 TGAAAAGTTG
*
176858 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
* *
176910 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
* *
176962 CTTGCATGTATCGGTACA
1 CCTGCATGTATCGATACA
176980 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
Found at i:176992 original size:52 final size:52
Alignment explanation
Indices: 176858--176999 Score: 180
Period size: 52 Copynumber: 2.7 Consensus size: 52
176848 TGAAAAGTTG
*
176858 CCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTA
*** * *
176910 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTA
* *
176962 CTTGCATGTATCGGTACA-AAGATCAGTGTATCGATACA
1 CCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
177000 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 75 0.95
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
CCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:177006 original size:13 final size:13
Alignment explanation
Indices: 176988--177012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
176978 CAAAGATCAG
176988 TGTATCGATACAA
1 TGTATCGATACAA
177001 TGTATCGATACA
1 TGTATCGATACA
177013 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:179013 original size:20 final size:20
Alignment explanation
Indices: 178963--179016 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
178953 TTCCAGAATA
*
178963 TATCGATACAATGTTCTAAG
1 TATCGATACATTGTTCTAAG
* *
178983 AATGGATACATTGTTCTAAG
1 TATCGATACATTGTTCTAAG
179003 TATCGATACATTGT
1 TATCGATACATTGT
179017 ATCGATACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TATCGATACATTGTTCTAAG
Found at i:179020 original size:13 final size:13
Alignment explanation
Indices: 179002--179038 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
178992 ATTGTTCTAA
179002 GTATCGATACATT
1 GTATCGATACATT
179015 GTATCGATACATT
1 GTATCGATACATT
*
179028 GTATGGATACA
1 GTATCGATACA
179039 AGGTTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:181663 original size:13 final size:13
Alignment explanation
Indices: 181645--181720 Score: 116
Period size: 13 Copynumber: 5.8 Consensus size: 13
181635 TTATGCTTTG
181645 TATCGATACATTA
1 TATCGATACATTA
181658 TATCGATACATTA
1 TATCGATACATTA
* *
181671 TATCAATACATTG
1 TATCGATACATTA
*
181684 TATTGATACATTA
1 TATCGATACATTA
*
181697 TATCGATACATTG
1 TATCGATACATTA
181710 TATCGATACAT
1 TATCGATACAT
181721 GTTCATTGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 56 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:181693 original size:39 final size:39
Alignment explanation
Indices: 181642--181720 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
181632 ACATTATGCT
181642 TTGTATCGATACATTATATCGATACATTATATCAATACA
1 TTGTATCGATACATTATATCGATACATTATATCAATACA
* * *
181681 TTGTATTGATACATTATATCGATACATTGTATCGATACA
1 TTGTATCGATACATTATATCGATACATTATATCAATACA
181720 T
1 T
181721 GTTCATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (39 bp):
TTGTATCGATACATTATATCGATACATTATATCAATACA
Found at i:181729 original size:19 final size:19
Alignment explanation
Indices: 181705--181760 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
181695 TATATCGATA
*
181705 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGCT
* * **
181724 CATTGTATTGATATACACT
1 CATTGTATCGATACATGCT
181743 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
181761 AAACTAGTAG
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:181814 original size:20 final size:20
Alignment explanation
Indices: 181789--181854 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
181779 CTATCACTAT
181789 TTGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
*
181809 TTGTATTGATAC-----A-A
1 TTGTATCGATACATGGGACA
181823 -TGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
*
181842 TTGTATTGATACA
1 TTGTATCGATACA
181855 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 22 0.61
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGGGACA
Found at i:181832 original size:33 final size:33
Alignment explanation
Indices: 181790--181868 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
181780 TATCACTATT
181790 TGTATCGATACATGGGACATTGTATTGATACAA
1 TGTATCGATACATGGGACATTGTATTGATACAA
181823 TGTATCGATACATGGGACATTGTATTGATACAA
1 TGTATCGATACATGGGACATTGTATTGATACAA
181856 TGTATCGATACAT
1 TGTATCGATACAT
181869 TGTGCCCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGGACATTGTATTGATACAA
Found at i:189959 original size:25 final size:23
Alignment explanation
Indices: 189931--189995 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 23
189921 GAAGTATGAG
189931 TTAAGGGAGAGTATTAAATATTTTA
1 TTAAGGG-GAGTA-TAAATATTTTA
189956 TTAAGGGGGAG-A-AAA-ATTTTA
1 TTAA-GGGGAGTATAAATATTTTA
189977 TTAAGGTGGAGTACTAAAT
1 TTAAGG-GGAGTA-TAAAT
189996 TGAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
22 4 0.12
24 4 0.12
25 7 0.21
26 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (23 bp):
TTAAGGGGAGTATAAATATTTTA
Found at i:193575 original size:11 final size:11
Alignment explanation
Indices: 193549--193594 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
193539 TGCTAGCAAA
*
193549 TTTCCTTGTTTT
1 TTTCCTT-TCTT
*
193561 TTTCCTCTCTT
1 TTTCCTTTCTT
193572 TTT-CTTTC-T
1 TTTCCTTTCTT
193581 TTTCCTTTCTT
1 TTTCCTTTCTT
193592 TTT
1 TTT
193595 TCAATCTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 4 0.14
10 9 0.31
11 10 0.34
12 6 0.21
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTCCTTTCTT
Found at i:194104 original size:20 final size:22
Alignment explanation
Indices: 194062--194105 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
194052 TCGATTTTTC
*
194062 AAAAATAGAAAAATTTCAAGAA
1 AAAAATAGAAAAATCTCAAGAA
*
194084 AAAAAT-GAAAAA-CTCATGAA
1 AAAAATAGAAAAATCTCAAGAA
194104 AA
1 AA
194106 TACATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 6 0.30
22 6 0.30
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (22 bp):
AAAAATAGAAAAATCTCAAGAA
Found at i:194480 original size:165 final size:161
Alignment explanation
Indices: 194044--194642 Score: 601
Period size: 165 Copynumber: 3.7 Consensus size: 161
194034 ATCTATAGAA
* * *
194044 TAGAAAACTCGATTTTTCAAAAATAGAAA-AATTTCAAGAAAAAAATGAAAAACTCATGAAAATA
1 TAGAAAACTC-ATATTTCAAAAACA-AAAGAATTTCAAGAAAAAATTGAAAAACTCATGAAAATA
* * * * * *
194108 CATAAATTCTT-AAAAAATGAGTTAATATG-ATCTAAATAATAATATTTGATAAATTTTAAAAAT
64 AAT-AATTTTTGAAAACA-GATTTAACATGAAT-TAAATAATAATATTTGATAAA-TTTACAAAT
* ** *
194171 TAAAAACTAAGAGAAATCCTCTTGAAAAAATTATGGAG
125 TAAAAACTAAGAAAAATCC-CTCCAAAAATTTATGGAG
* * * * * *
194209 AAGAAAACTTATATTTCGAAAACAAGAGAATTTCAAGGAAAAATTCAAAAACTCATG--AAT--A
1 TAGAAAACTCATATTTCAAAAACAAAAGAATTTCAAGAAAAAATTGAAAAACTCATGAAAATAAA
194270 -AATTTTTGAAAACAGATTT-ACTATGAATTAAATAATAATATTTGATAAATTTACAAATTAAAA
66 TAATTTTTGAAAACAGATTTAAC-ATGAATTAAATAATAATATTTGATAAATTTACAAATTAAAA
* *
194333 ACCAAGACAAATCCCTCCAAAATATTTATGGAG
130 ACTAAGAAAAATCCCTCCAAAA-ATTTATGGAG
* * * * *
194366 TAGAAAACTCCGTATTTCAAAAATAAAAGATTTTCAAGGAAAAAATTGAAAAATTTATGAAAATA
1 TAGAAAACT-CATATTTCAAAAACAAAAGAATTTCAA-GAAAAAATTGAAAAACTCATGAAAATA
* * *
194431 AATGAATTTTTGAAAACTA-ATTTAACATGAATTAAATAATAAAATTTGATGAATTTTCAAAATT
64 AAT-AATTTTTGAAAAC-AGATTTAACATGAATTAAATAATAATATTTGATAAATTTAC-AAATT
**
194495 AAAAACTAAGAAAAATCCCTCCAAAAACATTTA-CAACG
126 AAAAACTAAGAAAAATCCCTCC-AAAA-ATTTATGGA-G
* * * * *
194533 TAGAAAACTCCATATTTCAAAAACAAGAGATTTTCAAGAAAAAATTAAAAAAATTATGAAAATAA
1 TAGAAAACT-CATATTTCAAAAACAAAAGAATTTCAAGAAAAAATTGAAAAACTCATGAAAATAA
* *
194598 ATACAATTTTG-AAACAGATTTAACATTAATTAAATAATAATATTT
65 ATA-ATTTTTGAAAACAGATTTAACATGAATTAAATAATAATATTT
194643 AATGACTTTT
Statistics
Matches: 368, Mismatches: 46, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
156 6 0.02
157 43 0.12
158 55 0.15
159 24 0.07
160 1 0.00
161 3 0.01
162 3 0.01
163 3 0.01
164 38 0.10
165 85 0.23
166 63 0.17
167 44 0.12
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (161 bp):
TAGAAAACTCATATTTCAAAAACAAAAGAATTTCAAGAAAAAATTGAAAAACTCATGAAAATAAA
TAATTTTTGAAAACAGATTTAACATGAATTAAATAATAATATTTGATAAATTTACAAATTAAAAA
CTAAGAAAAATCCCTCCAAAAATTTATGGAG
Found at i:194592 original size:166 final size:165
Alignment explanation
Indices: 193917--194659 Score: 632
Period size: 166 Copynumber: 4.5 Consensus size: 165
193907 GATATATACA
* *
193917 AAAAAATT-CAAAAATTATG-AAATAAATTGAAATTTTT-AAATCTAATTT-A-ATGTAAGTTAA
1 AAAAAATTGAAAAAATTATGAAAATAAA-T--AATTTTTGAAAACTAATTTAACATG-AA-TTAA
* * * ** * * * * * * *
193977 ATGACAATATTTGATGAATTCTAAAAATTTTATATTGAGAAATATCCCCCCGAAAACATCTATAG
61 ATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTAT-G
* * * *
194042 AA-TAGAAAACTCGATTTTTCAAAAA-TAGAAAAATTTCAAG
125 AAGTAGAAAACTCCATATTTCAAAAACAAG-AGAATTTCAAG
* * * * * * * * * *
194082 AAAAAAATGAAAAACTCATGAAAATACATAAATTCTTAAAAAATGAGTTAATATG-ATCTAAATA
1 AAAAAATTGAAAAAATTATGAAAATAAAT-AATTTTTGAAAACTAATTTAACATGAAT-TAAATA
* * ** *
194146 ATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAGAAATCCTCTTGAAAAA-A-TTATGGAG
64 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC-CTCCAAAAACATTTATGAAG
* * *
194209 AAGAAAACT-TATATTTCGAAAACAAGAGAATTTCAAG
128 TAGAAAACTCCATATTTCAAAAACAAGAGAATTTCAAG
* * * *
194246 GAAAAATTCAAAAACTCATG--AAT--A-AATTTTTGAAAAC-AGATTT-ACTATGAATTAAATA
1 AAAAAATTGAAAAAATTATGAAAATAAATAATTTTTGAAAACTA-ATTTAAC-ATGAATTAAATA
* * * * * *
194304 ATAATATTTGAT-AAATTTACAAATTAAAAACCAAGACAAATCCCTCC-AAAATATTTATGGAGT
64 ATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTATGAAGT
* * * *
194367 AGAAAACTCCGTATTTCAAAAATAAAAGATTTTCAAGG
129 AGAAAACTCCATATTTCAAAAACAAGAGAATTTCAA-G
*
194405 AAAAAATTGAAAAATTTATGAAAATAAATGAATTTTTGAAAACTAATTTAACATGAATTAAATAA
1 AAAAAATTGAAAAAATTATGAAAATAAAT-AATTTTTGAAAACTAATTTAACATGAATTAAATAA
* * *
194470 TAAAATTTGATGAATTTTCAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTA-CAACGT
65 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTATGAA-GT
*
194534 AGAAAACTCCATATTTCAAAAACAAGAGATTTTCAAG
129 AGAAAACTCCATATTTCAAAAACAAGAGAATTTCAAG
* * *
194571 AAAAAATTAAAAAAATTATGAAAATAAATACAATTTTG-AAAC-AGATTTAACATTAATTAAATA
1 AAAAAATTGAAAAAATTATGAAAATAAATA-ATTTTTGAAAACTA-ATTTAACATGAATTAAATA
* *
194634 ATAATATTTAATGACTTTTAAAAATT
64 ATAATATTTGATGAATTTTAAAAATT
194660 TTGGATCAAT
Statistics
Matches: 470, Mismatches: 79, Indels: 58
0.77 0.13 0.10
Matches are distributed among these distances:
155 4 0.01
156 3 0.01
157 44 0.09
158 55 0.12
159 19 0.04
160 1 0.00
161 3 0.01
162 3 0.01
163 1 0.00
164 40 0.09
165 113 0.24
166 125 0.27
167 56 0.12
168 3 0.01
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (165 bp):
AAAAAATTGAAAAAATTATGAAAATAAATAATTTTTGAAAACTAATTTAACATGAATTAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTATGAAGTAG
AAAACTCCATATTTCAAAAACAAGAGAATTTCAAG
Found at i:200674 original size:20 final size:20
Alignment explanation
Indices: 200649--200702 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
200639 GTTTGAGACA
200649 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
200669 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
200689 ATGTATCGATACAA
1 ATGTATCGATACAA
200703 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:200789 original size:13 final size:13
Alignment explanation
Indices: 200771--200797 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
200761 TACAGTGATC
200771 ATGTATCGATACA
1 ATGTATCGATACA
200784 ATGTATCGATACA
1 ATGTATCGATACA
200797 A
1 A
200798 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:204465 original size:18 final size:17
Alignment explanation
Indices: 204426--204465 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
204416 AAAAAGTCAA
*
204426 CAAAAAATCAAAATTTT
1 CAAAAAATCAAAATCTT
*
204443 TAAAAAATCAAAATACTT
1 CAAAAAATCAAAAT-CTT
204461 CAAAA
1 CAAAA
204466 TAAAAGCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (17 bp):
CAAAAAATCAAAATCTT
Found at i:210041 original size:13 final size:13
Alignment explanation
Indices: 210023--210049 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
210013 ACATTATGCT
210023 TTGTATCGATACA
1 TTGTATCGATACA
210036 TTGTATCGATACA
1 TTGTATCGATACA
210049 T
1 T
210050 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:210058 original size:19 final size:19
Alignment explanation
Indices: 210034--210090 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
210024 TGTATCGATA
210034 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
210052 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-GAC
*
210073 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
210091 GATTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:210136 original size:13 final size:13
Alignment explanation
Indices: 210118--210167 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
210108 CTACCACTGT
*
210118 TTGTATTGATACA
1 TTGTATCGATACA
210131 TTGTATCGATACA
1 TTGTATCGATACA
210144 -TG-AT-GA-A-A
1 TTGTATCGATACA
210152 TTGTATCGATACA
1 TTGTATCGATACA
210165 TTG
1 TTG
210168 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:212396 original size:21 final size:21
Alignment explanation
Indices: 212372--212419 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
212362 GCAAGTTGAT
*
212372 AATAAAGAATTGGCTAATG-AA
1 AATAAAGAATTAGCTAA-GAAA
*
212393 AATAATGAATTAGCTAAGAAA
1 AATAAAGAATTAGCTAAGAAA
212414 AATAAA
1 AATAAA
212420 AACTTGCACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (21 bp):
AATAAAGAATTAGCTAAGAAA
Found at i:218771 original size:19 final size:20
Alignment explanation
Indices: 218729--218799 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
218719 ATACTTCAAA
*
218729 GTATCGATACATAGGTATTT
1 GTATCGATACATAGCTATTT
218749 GTATCGATACAT-GCTCA-TT
1 GTATCGATACATAGCT-ATTT
*
218768 GTATCGATACATAGAC-AATT
1 GTATCGATACATAG-CTATTT
*
218788 GTATCAATACAT
1 GTATCGATACAT
218800 GAGATTGGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
19 17 0.38
20 27 0.60
21 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
GTATCGATACATAGCTATTT
Found at i:218847 original size:13 final size:13
Alignment explanation
Indices: 218829--218911 Score: 69
Period size: 13 Copynumber: 7.2 Consensus size: 13
218819 CTACCACTGT
218829 TTGTATCGATACA
1 TTGTATCGATACA
*
218842 TTGTATTGATACA
1 TTGTATCGATACA
218855 -TG-AT-GA-A-A
1 TTGTATCGATACA
*
218863 TTATATCGATACA
1 TTGTATCGATACA
*
218876 TTGTATCAATACA
1 TTGTATCGATACA
218889 -TG-AT-GA-A-A
1 TTGTATCGATACA
218897 TTGTATCGATACA
1 TTGTATCGATACA
218910 TT
1 TT
218912 ACTTGTAACG
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
8 2 0.04
9 5 0.09
10 7 0.13
11 8 0.15
12 6 0.11
13 27 0.49
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:218875 original size:34 final size:34
Alignment explanation
Indices: 218832--218911 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
218822 CCACTGTTTG
**
218832 TATCGATACATTGTATTGATACATGATGAAATTA
1 TATCGATACATTGTATCAATACATGATGAAATTA
*
218866 TATCGATACATTGTATCAATACATGATGAAATTG
1 TATCGATACATTGTATCAATACATGATGAAATTA
218900 TATCGATACATT
1 TATCGATACATT
218912 ACTTGTAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (34 bp):
TATCGATACATTGTATCAATACATGATGAAATTA
Found at i:225905 original size:20 final size:20
Alignment explanation
Indices: 225877--225945 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
225867 GCCTGTATGT
* *
225877 ATCGATACATCGAATAATGC
1 ATCGATACATTGAGTAATGC
*
225897 ATTGATACATTGAGTAATGC
1 ATCGATACATTGAGTAATGC
*
225917 ATCGATACATTGAGTAATGT
1 ATCGATACATTGAGTAATGC
225937 ATCGATACA
1 ATCGATACA
225946 AATTGTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (20 bp):
ATCGATACATTGAGTAATGC
Found at i:228622 original size:13 final size:13
Alignment explanation
Indices: 228604--228631 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
228594 CATTACTCAA
228604 TGTATCGATACAT
1 TGTATCGATACAT
228617 TGTATCGATACAT
1 TGTATCGATACAT
228630 TG
1 TG
228632 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:228626 original size:33 final size:33
Alignment explanation
Indices: 228584--228649 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
228574 GCCAAGGGAA
228584 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
228617 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
228650 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:230837 original size:26 final size:26
Alignment explanation
Indices: 230808--230875 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
230798 TTTATTCATC
230808 GGGGACACTCCAACCCATTCCTCCAA
1 GGGGACACTCCAACCCATTCCTCCAA
*
230834 GGGGACACTCCAACCCATTCCTCCGA
1 GGGGACACTCCAACCCATTCCTCCAA
*
230860 GAGGACACTCCAACCC
1 GGGGACACTCCAACCC
230876 CGTTTTCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.26, C:0.43, G:0.18, T:0.13
Consensus pattern (26 bp):
GGGGACACTCCAACCCATTCCTCCAA
Found at i:235670 original size:12 final size:12
Alignment explanation
Indices: 235655--235713 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 12
235645 TCACAAGTGG
235655 AAACAC-AAAAA
1 AAACACAAAAAA
235666 AAA-AC-AAAAA
1 AAACACAAAAAA
235676 AAACA-AAAAAA
1 AAACACAAAAAA
*
235687 AAA-AGAAACAAA
1 AAACACAAA-AAA
*
235699 AAACGCAAAAAA
1 AAACACAAAAAA
235711 AAA
1 AAA
235714 GAAGAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
10 11 0.27
11 15 0.37
12 12 0.29
13 3 0.07
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:235676 original size:9 final size:9
Alignment explanation
Indices: 235662--235712 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
235652 TGGAAACACA
235662 AAAAAAAAC
1 AAAAAAAAC
235671 AAAAAAAAC
1 AAAAAAAAC
235680 -AAAAAAA-
1 AAAAAAAAC
*
235687 AAAAGAAAC
1 AAAAAAAAC
**
235696 AAAAAACGC
1 AAAAAAAAC
235705 AAAAAAAA
1 AAAAAAAA
235713 AGAAGAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 13 0.38
9 21 0.62
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:235718 original size:26 final size:25
Alignment explanation
Indices: 235661--235720 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
235651 GTGGAAACAC
235661 AAAAAA-AAACAAAAAAAACAAAAA
1 AAAAAAGAAACAAAAAAAACAAAAA
**
235685 AAAAAAGAAACAAAAAACGCAAAAA
1 AAAAAAGAAACAAAAAAAACAAAAA
235710 AAAAGAAGAAA
1 AAAA-AAGAAA
235721 AGAGAGTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 6 0.19
25 20 0.62
26 6 0.19
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAACAAAAAAAACAAAAA
Found at i:237072 original size:33 final size:31
Alignment explanation
Indices: 236998--237140 Score: 171
Period size: 32 Copynumber: 4.5 Consensus size: 31
236988 ATCTCTCTTC
* *
236998 TCAAAGTCCATGACTCAGTGGCATC-TCTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* *
237028 TCTAAGTCCACGACTTAGTGGCATCCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTTT
*
237060 GTCAAAGTCCACGACTCAGTGGCATTCTTTTCT
1 -TCAAAGTCCACGACTCAGTGGCA-TCTTTTTT
* *
237093 TCAAAGTCCACGACTTAATGGCATCTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTT-T
*
237125 TCAAAGTCCACAACTC
1 TCAAAGTCCACGACTC
237141 CATGGCGCTT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.22
31 7 0.07
32 40 0.42
33 27 0.28
34 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTTT
Found at i:237122 original size:63 final size:64
Alignment explanation
Indices: 236998--237140 Score: 195
Period size: 63 Copynumber: 2.2 Consensus size: 64
236988 ATCTCTCTTC
* *
236998 TCAAAGTCCATGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTTT-G
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAATGGCATCCTTTTTTCG
237061 TCAAAGTCCACGACTCAGTGGCAT-TCTTTTCTTCAAAGTCCACGACTTAATGGCAT-C-TTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTC-T--AAGTCCACGACTTAATGGCATCCTTTTTT
*
237123 CT
63 CG
*
237125 TCAAAGTCCACAACTC
1 TCAAAGTCCACGACTC
237141 CATGGCGCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
62 7 0.10
63 29 0.40
64 16 0.22
65 20 0.28
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (64 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAGTCCACGACTTAATGGCATCCTTTTTTCG
Found at i:237146 original size:32 final size:32
Alignment explanation
Indices: 237046--237256 Score: 117
Period size: 33 Copynumber: 6.5 Consensus size: 32
237036 CACGACTTAG
*
237046 TGGCATCCTTTTT-TGTCAAAGTCCACGACT-CA
1 TGGCAT-CTTTTTCT-TCAAAGTCCACAACTCCA
* **
237078 GTGGCAT-TCTTTTCTTCAAAGTCCACGACTTAA
1 -TGGCATCT-TTTTCTTCAAAGTCCACAACTCCA
237111 TGGCATCTTTTTCTTCAAAGTCCACAACTCCA
1 TGGCATCTTTTTCTTCAAAGTCCACAACTCCA
* ** *
237143 TGGC-GCTTTGTTCCTTTTAAGTCCACAACTCCG
1 TGGCATCTTT-TT-CTTCAAAGTCCACAACTCCA
* * ** *
237176 TGG-AGCCTTGTTCCTTTTAAGTCCACAAGTCCA
1 TGGCA-TCTT-TTTCTTCAAAGTCCACAACTCCA
** * * ** *
237209 TGGCGCCTTGGTCCTTTTAAGTCCACAACTCCG
1 TGGCATCTT-TTTCTTCAAAGTCCACAACTCCA
*
237242 TGGCATCTTTCTCTT
1 TGGCATCTTTTTCTT
237257 TTAAAGCCCA
Statistics
Matches: 147, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
31 5 0.03
32 55 0.37
33 82 0.56
34 4 0.03
35 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (32 bp):
TGGCATCTTTTTCTTCAAAGTCCACAACTCCA
Found at i:237167 original size:33 final size:33
Alignment explanation
Indices: 237128--237245 Score: 182
Period size: 33 Copynumber: 3.6 Consensus size: 33
237118 TTTTTCTTCA
*
237128 AAGTCCACAACTCCATGGCGCTTTGTTCCTTTT
1 AAGTCCACAACTCCATGGCGCCTTGTTCCTTTT
* *
237161 AAGTCCACAACTCCGTGGAGCCTTGTTCCTTTT
1 AAGTCCACAACTCCATGGCGCCTTGTTCCTTTT
* *
237194 AAGTCCACAAGTCCATGGCGCCTTGGTCCTTTT
1 AAGTCCACAACTCCATGGCGCCTTGTTCCTTTT
*
237227 AAGTCCACAACTCCGTGGC
1 AAGTCCACAACTCCATGGC
237246 ATCTTTCTCT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (33 bp):
AAGTCCACAACTCCATGGCGCCTTGTTCCTTTT
Found at i:237268 original size:66 final size:65
Alignment explanation
Indices: 237111--237272 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 65
237101 CACGACTTAA
* * * *
237111 TGGCATCTTTT-TCTTCAAAGTCCACAACTCCATGGCGCTTTGTTCCTTTTAAGTCCACAACTCC
1 TGGCATCTTTTCT-TTTAAAGTCCACAAGTCCATGGCGCCTTGGTCCTTTTAAGTCCACAACTCC
237175 G
65 G
*
237176 TGG-AGCCTTGTTCCTTTT-AAGTCCACAAGTCCATGGCGCCTTGGTCCTTTTAAGTCCACAACT
1 TGGCA-TCTT-TT-CTTTTAAAGTCCACAAGTCCATGGCGCCTTGGTCCTTTTAAGTCCACAACT
237239 CCG
63 CCG
*
237242 TGGCATCTTTCTCTTTTAAAGCCCACAAGTC
1 TGGCATCTTT-TCTTTTAAAGTCCACAAGTC
237273 AGTGGCACCC
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
64 1 0.01
65 12 0.14
66 66 0.80
67 3 0.04
68 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (65 bp):
TGGCATCTTTTCTTTTAAAGTCCACAAGTCCATGGCGCCTTGGTCCTTTTAAGTCCACAACTCCG
Found at i:237295 original size:30 final size:29
Alignment explanation
Indices: 237259--237384 Score: 141
Period size: 29 Copynumber: 4.3 Consensus size: 29
237249 TTTCTCTTTT
237259 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCC-TTTCA
* * *
237289 AAAGCCCATAAGTCGGTGGCACCCCTTT-T
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTCA
*
237318 AAAGCCCACAAGTCAGTGGCAACC-TTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCA
* **
237346 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCCTTTCA
237375 AAAGCCCACA
1 AAAGCCCACA
237385 CAAGTTGGTG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
27 4 0.05
28 19 0.24
29 32 0.40
30 22 0.28
31 3 0.04
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCA
Found at i:237319 original size:59 final size:56
Alignment explanation
Indices: 237254--237384 Score: 172
Period size: 57 Copynumber: 2.3 Consensus size: 56
237244 GCATCTTTCT
* * * *
237254 CTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCATAAGTCGGTGGCACCC
1 CTTTTAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCACACAAGTCGGT-GCAACC
*
237313 CTTTTAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGTGCAACC
1 CTTTTAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACC
*
237369 CTTTCAAAAGCCCACA
1 CTTT-TAAAGCCCACA
237385 CAAGTTGGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
56 9 0.14
57 28 0.43
59 28 0.43
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (56 bp):
CTTTTAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACC
Found at i:237524 original size:48 final size:48
Alignment explanation
Indices: 237401--238139 Score: 623
Period size: 48 Copynumber: 15.9 Consensus size: 48
237391 GGTGACGCCT
* * * *
237401 TCTTCTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTCA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-A
* * * *
237451 TCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
*
237499 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
237547 TCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGG---C--A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
237590 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
237634 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG---C--A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * *
237677 -C---AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * *
237721 TCTTTAAGATCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C--A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
237766 ----T--GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * *
237808 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGCCACCCTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * * * *
237856 TCTTTTAGACCAATGTTGCTGGCCTTGAATTAACACATTGG---C--A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * * **
237899 -C---AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-T-A
* * * *
237947 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTACA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCT-TA
* * *
237996 TCTTTAAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--T-A
* * * **
238048 TCTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-A
* * * * * **
238097 GCTTTAAGTCCAATATCGTTGGCCTTAAATCAGTGTATTGGCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
238140 TCTTTAACAT
Statistics
Matches: 556, Mismatches: 90, Indels: 87
0.76 0.12 0.12
Matches are distributed among these distances:
39 122 0.22
40 1 0.00
41 1 0.00
42 7 0.01
43 2 0.00
44 2 0.00
45 6 0.01
46 1 0.00
47 1 0.00
48 218 0.39
49 116 0.21
50 6 0.01
51 1 0.00
52 72 0.13
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTA
Found at i:237610 original size:39 final size:39
Alignment explanation
Indices: 237556--237803 Score: 208
Period size: 39 Copynumber: 5.9 Consensus size: 39
237546 ATCTTTAAGA
* *
237556 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* *
237595 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A-C---AAGC
* *
237643 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
237682 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A-C---AAGC
* * * *
237730 TCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
*
237769 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
237804 CTTATCTTTA
Statistics
Matches: 167, Mismatches: 24, Indels: 36
0.74 0.11 0.16
Matches are distributed among these distances:
39 93 0.56
42 4 0.02
43 2 0.01
44 2 0.01
45 4 0.02
48 62 0.37
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:237657 original size:87 final size:87
Alignment explanation
Indices: 237508--237847 Score: 599
Period size: 87 Copynumber: 3.9 Consensus size: 87
237498 ATCTTTAAGA
* *
237508 CCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
237573 AAATCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
*
237595 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
237660 GAATCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* * *
237682 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGATCAATGTTGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
237747 GAATCAGCACATTGGCACATGC
66 GAATCAGCACATTGGCACAAGC
237769 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
237834 GAATCAGCATATTG
66 GAATCAGCACATTG
237848 CCACCCTGTC
Statistics
Matches: 240, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 240 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:237742 original size:135 final size:132
Alignment explanation
Indices: 237603--238037 Score: 375
Period size: 135 Copynumber: 3.2 Consensus size: 132
237593 GCCCAATATC
* *
237603 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGC
1 GCTGGCCTTGAATCAGCACATTGGCA-C--A-C--TAAGACCAATATCGTTGGCCTTGAATCAGC
* * *
237668 ACATTGG-CA-C-AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
60 ACATTGGCCATCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
*
237730 TCAATGTT
125 CCAATGTT
* * *
237738 GCTGGCCTTGAATCAGCACATTGGCACA-T--GCCCAATATCGCTGGCCTTGAATCAGCATATTG
1 GCTGGCCTTGAATCAGCACATTGGCACACTAAGACCAATATCGTTGGCCTTGAATCAGCACATTG
* * * *
237800 GCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGCCACCCTGTCTTTTAGA
66 G--CC--ATC--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
237865 CCAATGTT
125 CCAATGTT
* * * *
237873 GCTGGCCTTGAATTAACACATTGG--CAC-AAGTCCAATATCGTTGGCCTTGAATCAGCATATTG
1 GCTGGCCTTGAATCAGCACATTGGCACACTAAGACCAATATCGTTGGCCTTGAATCAGCACATT-
* * * *
237935 GTGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTACATCTT
65 G-G-C-----CATC--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCT-TATCTT
* * *
238000 TAAGGCCAATATC
120 TAAGACCAATGTT
*
238013 GCTGGCCTTGAATCAGCATATTGGC
1 GCTGGCCTTGAATCAGCACATTGGC
238038 GCCTTCGTCA
Statistics
Matches: 247, Mismatches: 32, Indels: 36
0.78 0.10 0.11
Matches are distributed among these distances:
126 30 0.12
128 1 0.00
129 1 0.00
131 1 0.00
132 2 0.01
133 2 0.01
134 1 0.00
135 129 0.52
136 2 0.01
137 1 0.00
139 42 0.17
140 34 0.14
141 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
GCTGGCCTTGAATCAGCACATTGGCACACTAAGACCAATATCGTTGGCCTTGAATCAGCACATTG
GCCATCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATG
TT
Found at i:237773 original size:174 final size:178
Alignment explanation
Indices: 237411--237847 Score: 630
Period size: 174 Copynumber: 2.4 Consensus size: 178
237401 TCTTCTAAGT
* * * * * * *
237411 CCAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTCATCTTCAAGCCCAATATCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCTGGCCT
* *
237476 TGAATCAGCATATTAGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCATATTGGC
65 TGAATCAGCATATT-G-ACC-TATC--TAAGACCAATATCACTAGCCTTGAATCAGCATATTGGC
237541 ACCTTATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGC
125 ACCTTATCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGC
*
237595 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
* * * *
237660 GAATCAGCACATTG-GC-A-C-AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTA
66 GAATCAGCATATTGACCTATCTAAGACCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTA
* * * *
237721 TCTTTAAGATCAATGTTGCTGGCCTTGAATCAGCACATTGGCACATGC
131 TCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGC
237769 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
237834 GAATCAGCATATTG
66 GAATCAGCATATTG
237848 CCACCCTGTC
Statistics
Matches: 233, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
174 160 0.69
177 1 0.00
178 1 0.00
180 1 0.00
182 1 0.00
183 35 0.15
184 34 0.15
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (178 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCATATTGACCTATCTAAGACCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTA
TCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGC
Found at i:237978 original size:52 final size:51
Alignment explanation
Indices: 237900--238129 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 51
237890 ACATTGGCAC
* *
237900 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCGCCTTT-TCATCTTT
* * * * *
237952 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC--TACATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCGCCTTTTCATCTTT
* * * *
238001 AAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCGCCTT-TTCATCTTT
* * * * *
238053 AAGACCAATGTCGTTGGCCTTGAATTAGCACATT-G-GCATTTTCAGCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCGCCTTTTCATCTTT
*
238102 AAGTCCAATATCGTTGGCCTTAAATCAG
1 AAGTCCAATATCGTTGGCCTTGAATCAG
238130 TGTATTGGCA
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 73 0.49
50 5 0.03
51 1 0.01
52 70 0.47
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (51 bp):
AAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCGCCTTTTCATCTTT
Found at i:238137 original size:49 final size:49
Alignment explanation
Indices: 237900--238444 Score: 264
Period size: 52 Copynumber: 10.8 Consensus size: 49
237890 ACATTGGCAC
*
237900 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATT-G-GCATTT-TCATCTTT
* * * * ** *
237952 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTACATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATTTTCATCTTT
* * * *
238001 AAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATT-G-GCATT-TTCATCTTT
* * * * *
238053 AAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTCAGCTTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATTTTCATCTTT
* ** *
238102 AAGTCCAATATCGTTGGCCTTAAATCAGTGTATTGGCATCTTTAACAT-TCCT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAT-TTT--CATCT-TT
* * * ** *
238154 AAGCCCAATGTCATTGGCCTTGTCTCAGCACATTGGCA--TTC-T-TTT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATTTTCATCTTT
* * * * * *
238199 GCAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTC
1 --AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATT-TT--CATCTTT
* * * * * * * **
238253 CAGCCCAATATCGCTAGCC--GCACATTAGCTCTTTTATCATTTTCCTCATCTTT
1 AAGTCCAATATCGTTGGCCTTG-A-ATCAGC-ATATTGGCA-TTT--TCATCTTT
* * *
238306 AAGTCTAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACAT-TCCT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAT-TTT--CATCT-TT
* * * ** * * **
238358 ATGACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATTTT--TCTAC
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATTTTCATCTTT
* * * * *
238405 AAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATT
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATT
238445 CTTCGCATCT
Statistics
Matches: 370, Mismatches: 94, Indels: 63
0.70 0.18 0.12
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 65 0.18
48 1 0.00
49 78 0.21
50 15 0.04
51 11 0.03
52 158 0.43
53 32 0.09
54 5 0.01
55 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATTTTCATCTTT
Found at i:238162 original size:101 final size:101
Alignment explanation
Indices: 237900--238439 Score: 339
Period size: 101 Copynumber: 5.3 Consensus size: 101
237890 ACATTGGCAC
*** ** * *
237900 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTTGTCA-TCTTTAAGTCCAATGTC
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTC-CTAAGACCAATGTC
* * ** * *
237964 GCTGGCCTTGAATCAGTACATTGGCACCTACATCTTT
65 GTTGGCCTTGAATCAGCACATTGGCATTTTCAGCTTT
* * ** *** *
238001 AAGGCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA-TCTTTAAGACCAATGTC
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTC-CTAAGACCAATGTC
*
238065 GTTGGCCTTGAATTAGCACATTGGCATTTTCAGCTTT
65 GTTGGCCTTGAATCAGCACATTGGCATTTTCAGCTTT
* ** * *
238102 AAGTCCAATATCGTTGGCCTTAAATCAGTGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCA
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGACCAATGTCG
** **
238167 TTGGCCTTGTCTCAGCACATTGGCATTCTTTTGC---
66 TTGGCCTTGAATCAGCACATTGGCATT-TTCAGCTTT
* * * * * ** * *
238201 AAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCAT-TCTTCGCATCTTCC--AGCCCAATA
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCT-TTAACA--TTCCTAAGACCAATG
* * * * * ** *
238263 TCGCTAGCC--GCACATTAGCTCTTTTATCATTTTCCTCATCTTT
63 TCGTTGGCCTTG-A-ATCAGCAC-ATTGGCA-TTT--TCAGCTTT
* * *
238306 AAGTCTAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTATGACCAATGTCG
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGACCAATGTCG
** * * **
238371 TTGGCCTTGTCTCAACACATTGGCATTTT--TCTAC
66 TTGGCCTTGAATCAGCACATTGGCATTTTCAGCTTT
* * * *
238405 AAGTCTAATGTCGTTGGCCATGAATCAGCACATTG
1 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTG
238440 TCATTCTTCG
Statistics
Matches: 340, Mismatches: 80, Indels: 40
0.74 0.17 0.09
Matches are distributed among these distances:
97 1 0.00
98 1 0.00
99 88 0.26
100 5 0.01
101 169 0.50
102 8 0.02
103 7 0.02
104 4 0.01
105 55 0.16
106 1 0.00
107 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (101 bp):
AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGACCAATGTCG
TTGGCCTTGAATCAGCACATTGGCATTTTCAGCTTT
Found at i:238341 original size:204 final size:204
Alignment explanation
Indices: 238098--238545 Score: 727
Period size: 204 Copynumber: 2.2 Consensus size: 204
238088 GCATTTTCAG
* * *
238098 CTTTAAGTCCAATATCGTTGGCCTTAAATCAGTGTATTGGCATCTTTAACATTCCTAAGCCCAAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGACCAAT
* *
238163 GTCATTGGCCTTGTCTCAGCACATTGGCATTCTTT-TGCAAGTCTAATGTCGTTGGCCATGAATC
66 GTCATTGGCCTTGTCTCAACACATTGGCATT-TTTCTACAAGTCTAATGTCGTTGGCCATGAATC
*
238227 AGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATCGCTAGCCGCACATTAGCTCTTTTATCA
130 AGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATCGCTAGCCGCACATTAGCTCCTTTATCA
238292 TTTTCCTCAT
195 TTTTCCTCAT
* *
238302 CTTTAAGTCTAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTATGACCAAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGACCAAT
*
238367 GTCGTTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATGTCGTTGGCCATGAATCA
66 GTCATTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATGTCGTTGGCCATGAATCA
* * ** *
238432 GCACATTGTCATTCTTCGCATCTTCGAGCCCAATATCGCTAGCTGCTTATTAGCTCCTTTATCCT
131 GCACATTGTCATTCTTCGCATCTTCCAGCCCAATATCGCTAGCCGCACATTAGCTCCTTTATCAT
238497 TTTCCTCAT
196 TTTCCTCAT
* * *
238506 CTTTAAGCCCAATATCATTGGCCGTGAATCAGCGTATTGG
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGG
238546 TCCCTTTATC
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
203 3 0.01
204 222 0.99
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (204 bp):
CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGACCAAT
GTCATTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATGTCGTTGGCCATGAATCA
GCACATTGTCATTCTTCGCATCTTCCAGCCCAATATCGCTAGCCGCACATTAGCTCCTTTATCAT
TTTCCTCAT
Found at i:238429 original size:99 final size:98
Alignment explanation
Indices: 238054--238433 Score: 268
Period size: 99 Copynumber: 3.8 Consensus size: 98
238044 GTCATCTTTA
** * * * ** *
238054 AGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTCAGCTTTAAGTCCAATATCGTTGG
1 AGACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATTTT--TCTACAAGTCTAATATCGTTGG
* * *
238119 CCTTAAATCAGTGTATTGGCATCTTTAACATTCCT
64 CCATGAATCAGCGTATTGGCATCTTTAACATTCCT
* * * * *
238154 AAGCCCAATGTCATTGGCCTTGTCTCAGCACATTGGCATTCTTT-TGCAAGTCTAATGTCGTTGG
1 -AGACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATT-TTTCTACAAGTCTAATATCGTTGG
** * **
238218 CCATGAATCAGCACATTGTCAT-TCTTCGCATCTTCC-
64 CCATGAATCAGCGTATTGGCATCT-TTAACA--TTCCT
* * * * * * * ** *
238254 AGCCCAATATCGCTAGCC--G-CACATTAGCTCTTTTATCATTTTCCTCATCTTTAAGTCTAATA
1 AGACCAATGTCGTTGGCCTTGTCTCA--A-CAC-ATTGGCATTTTTCT-A-C---AAGTCTAATA
*
238316 TCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCT
57 TCGTTGGCCATGAATCAGCGTATTGGCATCTTTAACATTCCT
*
238358 ATGACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATGTCGTTGGC
1 A-GACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATATCGTTGGC
238423 CATGAATCAGC
65 CATGAATCAGC
238434 ACATTGTCAT
Statistics
Matches: 210, Mismatches: 49, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
96 3 0.01
97 1 0.00
98 1 0.00
99 81 0.39
100 7 0.03
101 38 0.18
102 4 0.02
103 5 0.02
104 11 0.05
105 53 0.25
106 2 0.01
107 1 0.00
108 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (98 bp):
AGACCAATGTCGTTGGCCTTGTCTCAACACATTGGCATTTTTCTACAAGTCTAATATCGTTGGCC
ATGAATCAGCGTATTGGCATCTTTAACATTCCT
Found at i:238500 original size:99 final size:99
Alignment explanation
Indices: 238200--238506 Score: 241
Period size: 99 Copynumber: 3.0 Consensus size: 99
238190 CATTCTTTTG
238200 CAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATC
1 CAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATC
** *
238265 GCTAGCCGCACATTAGCTCTTTTATCATTTTCCTCAT
66 GCTAG-CGCTTATTAGCTCATTTATC-TTTT-CTCAT
* * ** * * * *
238302 CTTTAAGTCTAATATCGTTGGCCTTGAATCAGCGTATTGGCA-TCTT--TAACATTCCTATGACC
1 C---AAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATC-TTCC-A-GCCC
* * * * * * *
238364 AATGTCGTTGGC-CTTGTCTCAACACATTGGCAT-TTTTCT-A-
60 AATATCGCTAGCGCTTAT-T-AGCTCATT--TATCTTTTCTCAT
*
238404 CAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGCCCAATATC
1 CAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATC
*
238469 GCTAGCTGCTTATTAGCTCCTTTATCCTTTTCCTCAT
66 GCTAGC-GCTTATTAGCTCATTTAT-CTTTT-CTCAT
238506 C
1 C
238507 TTTAAGCCCA
Statistics
Matches: 150, Mismatches: 35, Indels: 40
0.67 0.16 0.18
Matches are distributed among these distances:
97 2 0.01
99 54 0.36
100 8 0.05
101 8 0.05
102 7 0.05
103 7 0.05
104 9 0.06
105 53 0.35
107 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (99 bp):
CAAGTCTAATGTCGTTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCCAGCCCAATATC
GCTAGCGCTTATTAGCTCATTTATCTTTTCTCAT
Found at i:241811 original size:61 final size:56
Alignment explanation
Indices: 241728--242440 Score: 722
Period size: 55 Copynumber: 12.4 Consensus size: 56
241718 GTGCATCTTA
** **
241728 CTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A-GAAAGGCGTCCTG
* * * * *
241789 CTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----AGA-AAGGCGTCCTG
* * *
241850 CTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-GAAAGGCGTCCTA
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
* * * * * *
241905 TTCTTTGAGGACTAGAAAATGCCACCAACTGGTGTGGGCTTT-GAAAGGCATCGTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
* * * *
241960 CTTTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGATTTGAAAAGGAAAGGCGTCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A-GAAAGGCGTCCTG
* * * * * *
242021 CTTTTTGAGGACTGGAAGGTACCACCAAATTGTGTGGGCTTTGCAAAGAGAAAGCATCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----AGA-AAGGCGTCCTG
* * *
242082 CTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGATTT-GAAAGGCGTCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
**
242137 CTCTTTGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTT-GAAAGGCGTCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
*
242192 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGGCGTCCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
* *
242247 CTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAAGGCGTCTTG
1 CTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAG-AAAGGCGTCCTG
* *
242304 CTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCCTG
1 CTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCGTCCTG
* ** * *
242366 CTCTTTGAGAACT-GAAAGTGCCACCGGCTTGTGTGGGCTTTA-AAAGGCATTCTG
1 CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
*
242420 CTCTTTGAGGACTGAAAAGTG
1 CTCTTTGAGGACTGGAAAGTG
242441 GAAAGAGAAG
Statistics
Matches: 566, Mismatches: 67, Indels: 44
0.84 0.10 0.06
Matches are distributed among these distances:
54 20 0.04
55 228 0.40
56 28 0.05
57 55 0.10
60 26 0.05
61 187 0.33
62 22 0.04
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (56 bp):
CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTG
Found at i:241940 original size:116 final size:111
Alignment explanation
Indices: 241776--242437 Score: 705
Period size: 116 Copynumber: 5.8 Consensus size: 111
241766 CTTTGAAAAG
*
241776 GAAAGGCGTCCTGCTT-TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGA
1 GAAAGGCGTCCT-CTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAA-AG-
*
241840 AAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT
62 --GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
241892 GAAAGGCGTCCTATTCTTTGAGGACTAGAAAATGCCACCAACTGGTGTGGGCTTTG-AAAGGCAT
1 GAAAGGCGTCCTCTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCAT
* * * *
241956 CGTGCTTTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGATTT
66 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
242002 GAAAAGGAAAGGCGTCCTGCTT-TTTGAGGACTGGAAGGTACCACCAAATTGTGTGGGCTTTGCA
1 ------GAAAGGCGTCCT-CTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTG-A
* *
242066 AAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGATTT
58 AA-AG---GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* ** *
242124 GAAAGGCGTCCTGC-TCTTTGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTTG-AAAGGCG
1 GAAAGGCGTCCT-CTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
* *
242187 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT
65 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
242234 AAAAGGCGTCCTGC-TCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
1 GAAAGGCGTCCT-CTTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGGC
* * * *
242298 GTCTTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTT
64 ATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
* * **
242347 GAAAGGAGAAGGTGTCCTGC-TCTTTGAGAACT-GAAAGTGCCACCGGCTTGTGTGGGCTTT-AA
1 -----GA-AAGGCGTCCT-CTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAA
*
242409 AAGGCATTCTGCTCTTTGAGGACT-GAAAA
59 AAGGCATCCTGCTCTTTGAGGACTGGAAAA
242438 GTGGAAAGAG
Statistics
Matches: 478, Mismatches: 44, Indels: 50
0.84 0.08 0.09
Matches are distributed among these distances:
110 119 0.25
111 23 0.05
112 27 0.06
113 28 0.06
114 4 0.01
115 7 0.01
116 167 0.35
117 24 0.05
118 7 0.01
119 24 0.05
122 48 0.10
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (111 bp):
GAAAGGCGTCCTCTTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCAT
CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:242144 original size:232 final size:229
Alignment explanation
Indices: 241728--242437 Score: 929
Period size: 232 Copynumber: 3.1 Consensus size: 229
241718 GTGCATCTTA
* *
241728 CTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTTT
1 CTCTTTGAGGACTGAAAA-TGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTTT
*
241793 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGA
65 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGA
* **
241858 GGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTATTCTTTGAGGACTAGAAA
130 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAA
*
241923 ATGCCACCAACTGGTGTGGGCTTTGAAAGGCATCGTG
194 ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC-TG
* *
241960 CTTTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGATTTGAAAAGGAAAGGCGTCCTGCTTT
1 CTCTTTGAGGACT-GAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTTT
* *
242025 TTGAGGACTGGAAGGTACCACCAAATTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGA
65 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGA
* *
242090 GGACTGGAAAATGCCACCAACTCGTGTGGGATTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAA
130 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAA
* *
242155 AAGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
194 ATGCCACCAACTTGTGTGGGCTTTGAAAGGCAT-CTG
* * * *
242192 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----A--AAAGGCGTCCTGCTCT
1 CTCTTTGAGGACT-GAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTTT
* * *
242251 TTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAA-AG---GCGTCTTGCTCTTTG
65 TTGAGGAC-TGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTG
* * * *
242311 AGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCCTGCTCTTTGAGA
129 AGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGG
* ** *
242376 ACTGAAAGTGCCACCGGCTTGTGTGGGCTTTAAAAGGCATTCTG
187 ACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA-TCTG
242420 CTCTTTGAGGACTGAAAA
1 CTCTTTGAGGACTGAAAA
242438 GTGGAAAGAG
Statistics
Matches: 426, Mismatches: 41, Indels: 27
0.86 0.08 0.05
Matches are distributed among these distances:
222 23 0.05
223 21 0.05
225 2 0.00
226 26 0.06
227 31 0.07
228 49 0.12
229 23 0.05
232 246 0.58
233 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (229 bp):
CTCTTTGAGGACTGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTTTT
TGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAT
GCCACCAACTTGTGTGGGCTTTGAAAGGCATCTG
Found at i:243400 original size:1 final size:1
Alignment explanation
Indices: 243390--243463 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
243380 CTTAAGCAGA
* * * * * * * *
243390 TTTTTCTTTTTTTTTCTCTTTTTTCTTTGTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
243455 GTTTTTTTT
1 TTTTTTTTT
243464 AAAAAGAATG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:243414 original size:19 final size:17
Alignment explanation
Indices: 243390--243463 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 17
243380 CTTAAGCAGA
* *
243390 TTTTTCTTTTTT-TTTC
1 TTTTTTTTTTTTGTTTT
* *
243406 TCTTTTTTCTTTGTTTT
1 TTTTTTTTTTTTGTTTT
243423 TTGTTTTTTTTTTGTTTTT
1 TT-TTTTTTTTTTG-TTTT
243442 TTGTTTTTTTTTTGTTTT
1 TT-TTTTTTTTTTGTTTT
243460 TTTT
1 TTTT
243464 AAAAAGAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
16 9 0.18
17 6 0.12
18 16 0.33
19 18 0.37
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTGTTTT
Found at i:243424 original size:30 final size:30
Alignment explanation
Indices: 243390--243463 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
243380 CTTAAGCAGA
*
243390 TTTTTCTTTTTTTTTCT-CTTTTTTCTTTGT
1 TTTTTGTTTTTTTTT-TGCTTTTTTCTTTGT
* * *
243420 TTTTTGTTTTTTTTTTGTTTTTTTGTTTTT
1 TTTTTGTTTTTTTTTTGCTTTTTTCTTTGT
243450 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
243464 AAAAAGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (30 bp):
TTTTTGTTTTTTTTTTGCTTTTTTCTTTGT
Found at i:255975 original size:78 final size:78
Alignment explanation
Indices: 255845--256044 Score: 222
Period size: 78 Copynumber: 2.6 Consensus size: 78
255835 ATAATAACGA
* * ** * *
255845 GATTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT
1 GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTT
*
255909 AGGAAAAAAATCAG
65 AGGAAAAAAACCAG
*
255923 GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTT
1 GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTT
* * * *
255988 GGGAATAAAGCCGG
65 AGGAAAAAAACCAG
* * * **
256002 GGTTGGAGTATACCCTCAGAGGTAACGGGGTTGGAGTATCCCC
1 GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
256045 GATGAAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.52
79 48 0.47
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
GATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTA
GGAAAAAAACCAG
Found at i:256055 original size:28 final size:28
Alignment explanation
Indices: 255999--256075 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
255989 GGAATAAAGC
**
255999 CGGGGTTGGAGTATACCCTC-A-GAGGTAA
1 CGGGGTTGGAGTAT-CCC-CGATGAAATAA
256027 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
256055 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
256076 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 38 0.88
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:256121 original size:52 final size:52
Alignment explanation
Indices: 256059--256181 Score: 167
Period size: 52 Copynumber: 2.4 Consensus size: 52
256049 AAATAACGAG
* ** *
256059 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTG-TTTTGAAAATAAAATCGGA
* *
256111 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
*
256163 GTTGGAGTATCCCCAATTA
1 GTTGGAGTATCCCCGATTA
256182 TGAACAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
52 52 0.83
53 11 0.17
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:258006 original size:15 final size:16
Alignment explanation
Indices: 257986--258019 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
257976 TAATGGAATA
257986 GTGTTTTTT-TTTTTT
1 GTGTTTTTTGTTTTTT
258001 GTGTTTTTTGGTTTTTT
1 GTGTTTTTT-GTTTTTT
258018 GT
1 GT
258020 TGCTAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (16 bp):
GTGTTTTTTGTTTTTT
Found at i:258571 original size:13 final size:13
Alignment explanation
Indices: 258553--258579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
258543 ACAAAGATCG
258553 ATGTATCGATACA
1 ATGTATCGATACA
258566 ATGTATCGATACA
1 ATGTATCGATACA
258579 A
1 A
258580 AACTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:258575 original size:33 final size:32
Alignment explanation
Indices: 258533--258597 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
258523 AACTTCCTAG
258533 ATGTATCGATACAAAGA-TCGATGTATCGATACA
1 ATGTATCGATACAAA-ACT-GATGTATCGATACA
*
258566 ATGTATCGATACAAAACTTATGTATCGATACA
1 ATGTATCGATACAAAACTGATGTATCGATACA
258598 TTTACTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAACTGATGTATCGATACA
Found at i:260688 original size:13 final size:13
Alignment explanation
Indices: 260670--260696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
260660 ACATATTACT
260670 TTGTATCGATACA
1 TTGTATCGATACA
260683 TTGTATCGATACA
1 TTGTATCGATACA
260696 T
1 T
260697 GTTCTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:266905 original size:13 final size:13
Alignment explanation
Indices: 266887--266911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
266877 TACGTTCTTA
266887 GTATCGATACATT
1 GTATCGATACATT
266900 GTATCGATACAT
1 GTATCGATACAT
266912 GGGCAATATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:271844 original size:21 final size:21
Alignment explanation
Indices: 271804--271844 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
271794 TTAAGTATAA
*
271804 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
271825 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
271845 TATCCAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:283592 original size:33 final size:33
Alignment explanation
Indices: 283566--283646 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
283556 ATACCTTTTA
283566 CCATGTATCGATATAACGTATCGATACAATGTC
1 CCATGTATCGATATAACGTATCGATACAATGTC
*
283599 CCATGTATTGATATAACGTATCGATACAATGTC
1 CCATGTATCGATATAACGTATCGATACAATGTC
283632 CCATGTATCGATATA
1 CCATGTATCGATATA
283647 TTTCACTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (33 bp):
CCATGTATCGATATAACGTATCGATACAATGTC
Found at i:283710 original size:20 final size:20
Alignment explanation
Indices: 283675--283729 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
283665 CTGCAAATTT
* *
283675 CATGTATTGATGCAATTGAG
1 CATGTATCGATACAATTGAG
*
283695 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
*
283714 CATATATCGATACAAT
1 CATGTATCGATACAAT
283730 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:284217 original size:51 final size:50
Alignment explanation
Indices: 284161--284279 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 50
284151 GAAAAATTTA
284161 ATATTTTGGAGATAAAAATGGGGTGGGAGTAT-CCTCGATGGTGAGAAA-TCG
1 ATATTTTGGA-ATAAAAATGGGGTGGGAGTATCCCT-GATGGTGA-AAAGTCG
*
284212 ATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCTGATGGTGAAAAGTCG
1 ATATTTTGG-AATAAAAATGGGGTGGGAGTATCCCTGATGGTGAAAAGTCG
* *
284263 GTGTTTTGGAA-AAAAAT
1 ATATTTTGGAATAAAAAT
284280 CAGGGTTAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
49 6 0.10
50 5 0.08
51 47 0.76
52 4 0.06
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (50 bp):
ATATTTTGGAATAAAAATGGGGTGGGAGTATCCCTGATGGTGAAAAGTCG
Found at i:284312 original size:28 final size:30
Alignment explanation
Indices: 284266--284324 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
284256 AAAGTCGGTG
284266 TTTTGGAAAAAAATCAGGGTTAGAGTATCC
1 TTTTGGAAAAAAATCAGGGTTAGAGTATCC
* *
284296 TTTT-GAAAATAAT-AGGGTTGGAGTATCC
1 TTTTGGAAAAAAATCAGGGTTAGAGTATCC
284324 T
1 T
284325 AATTGGTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 15 0.56
29 8 0.30
30 4 0.15
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (30 bp):
TTTTGGAAAAAAATCAGGGTTAGAGTATCC
Found at i:284383 original size:79 final size:78
Alignment explanation
Indices: 284232--284403 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 78
284222 AATAAAAATG
* *
284232 GGGTTGGAGTATCCCTGATGGTGAAAAGTCGGTGTTTTGGAAAAAAATCAGGGTTAGAGTATCCT
1 GGGTTGGAGTATCCCTAATGGTGAAAAGTCGGTGTTTTGGAAAAAAATCAGGGTTAGAGTATCCC
* *
284297 TTTGAAAATAATA
66 CTCGAAAATAATA
* * *
284310 GGGTTGGAGTAT-CCTAATTGGTGGAAAA-TGGGTGTTTTGAGAATAAAATCAGGGTTGGAGTAT
1 GGGTTGGAGTATCCCTAA-TGGT-GAAAAGTCGGTGTTTTG-GAAAAAAATCAGGGTTAGAGTAT
*
284373 CCCCTCGAAAATAA-C
63 CCCCTCGAAAATAATA
*
284388 GAGATTGGAGTATCCC
1 G-GGTTGGAGTATCCC
284404 CTCGGAAACA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
77 4 0.05
78 27 0.34
79 47 0.59
80 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTAATGGTGAAAAGTCGGTGTTTTGGAAAAAAATCAGGGTTAGAGTATCCC
CTCGAAAATAATA
Found at i:284396 original size:28 final size:28
Alignment explanation
Indices: 284364--284431 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
284354 AAAATCAGGG
*
284364 TTGGAGTATCCCCTCGAAAATAACGAGA
1 TTGGAGTATCCCCTCGAAAACAACGAGA
* * *
284392 TTGGAGTATCCCCTCGGAAACAACGTGG
1 TTGGAGTATCCCCTCGAAAACAACGAGA
284420 TTGGAGTATCCC
1 TTGGAGTATCCC
284432 TGATGGTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCTCGAAAACAACGAGA
Found at i:284475 original size:79 final size:78
Alignment explanation
Indices: 284392--284859 Score: 428
Period size: 79 Copynumber: 5.9 Consensus size: 78
284382 AATAACGAGA
** *
284392 TTGGAGTATCCCCTCGGAAACAACGTGGTTGGAGTATCCCTGATGGT-GAACAATC-AGTGTTTT
1 TTGGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCTGATGGTGGAA-AATCGA-TGTTTT
284455 AGAAATAAAATTAGGG
63 AGAAATAAAATTAGGG
** * * * * *
284471 TTGGAGTATCTTCTTAGAAAGAACATGGTTGGAGTATCCCTGATGGTGGAAAATCGATTTTTTAG
1 TTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAG
* *
284536 AAATAACATTGGGG
65 AAATAAAATTAGGG
* * * *
284550 TTGGAGTATCCCCTCAAAAATAATGGGGTTAGCGTATCCAC-GATGGTGGAAAA-CTAGTGTTTT
1 TTGGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCC-CTGATGGTGGAAAATCGA-TGTTTT
* *
284613 AAAAATAAAATCAGGG
63 AGAAATAAAATTAGGG
* * * * *
284629 TTGGAATATCCCTTTAAAAATAACAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTCAG
1 TTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAG
**
284694 AAATAAAATCGGGG
65 AAATAAAATTAGGG
* * * * * *
284708 TTGAAATATCTCCTCAAAAATAATAGGGTTGGAGTAT-CCTCGATGGT-GAGAAATTGGTGTTTT
1 TTGGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCT-GATGGTGGA-AAATCGATGTTTT
*
284771 AGAAATAAAACT-GAGG
63 AGAAATAAAATTAG-GG
** ** * *
284787 TTGGAGTATCCTTTCGGAAATAACAGGGTTGGTGTATCCTTGATGGTGGAAAATCGATGTTTTAG
1 TTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAG
284852 AAATAAAA
65 AAATAAAA
284860 ACATCAATGA
Statistics
Matches: 315, Mismatches: 58, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
78 8 0.03
79 296 0.94
80 11 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
TTGGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGA
AATAAAATTAGGG
Found at i:284503 original size:107 final size:107
Alignment explanation
Indices: 284311--284510 Score: 239
Period size: 107 Copynumber: 1.9 Consensus size: 107
284301 AAAATAATAG
**
284311 GGTTGGAGTATCCTAATTGGTGGAAAATGGGTGTTTTGAGAATAAAATCAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCTAATTGGTGGAAAATCAGTGTTTTGAGAATAAAATCAGGGTTGGAGTATCCC
* *
284376 CTCGAAAATAACGAGATTGGAGTATCCCCTCGGAAACAACGT
66 CTAGAAAAGAACGAGATTGGAGTATCCCCTCGGAAACAACGT
* *
284418 GGTTGGAGTATCCCTGA-TGGT-GAACAATCAGTGTTTT-AGAAATAAAATTAGGGTTGGAGTAT
1 GGTTGGAGTAT-CCTAATTGGTGGAA-AATCAGTGTTTTGAG-AATAAAATCAGGGTTGGAGTAT
* * *
284480 CTTCTTAG-AAAGAAC-ATGGTTGGAGTATCCC
63 C-CCCTAGAAAAGAACGA-GATTGGAGTATCCC
284511 TGATGGTGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
106 6 0.08
107 66 0.84
108 7 0.09
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (107 bp):
GGTTGGAGTATCCTAATTGGTGGAAAATCAGTGTTTTGAGAATAAAATCAGGGTTGGAGTATCCC
CTAGAAAAGAACGAGATTGGAGTATCCCCTCGGAAACAACGT
Found at i:284553 original size:186 final size:185
Alignment explanation
Indices: 284233--284572 Score: 456
Period size: 186 Copynumber: 1.8 Consensus size: 185
284223 ATAAAAATGG
* *
284233 GGTTGGAGTATCCCTGATGGTGAAAAGTCGGTGTTTTGGAAAAAAATCAGGGTTAGAGTATCCTT
1 GGTTGGAGTATCCCTGATGGTGAAAAGTCAGTGTTTTAGAAAAAAATCAGGGTTAGAGTATCCTT
* * * *
284298 TTGAAAATAATAGGGTTGGAGTATCCTAATTGGTGGAAAATGGGTGTTTTGAGAATAAAATCAGG
66 TTGAAAAGAACAGGGTTGGAGTATCCTAATTGGTGGAAAATCGATGTTTTGAGAATAAAATCAGG
*
284363 GTTGGAGTATCCCCTCGAAAATAACGAGATTGGAGTATCCCCTCGGAAACAACGT
131 GTTGGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCTCGGAAACAACGT
* *
284418 GGTTGGAGTATCCCTGATGGTGAACAA-TCAGTGTTTTAGAAATAAAATTAGGGTTGGAGTAT-C
1 GGTTGGAGTATCCCTGATGGTGAA-AAGTCAGTGTTTTAGAAA-AAAATCAGGGTTAGAGTATCC
* * * *
284481 TTCTT-AGAAAGAACATGGTTGGAGTATCCCTGA-TGGTGGAAAATCGAT-TTTTTAGAAATAAC
64 TT-TTGA-AAAGAACAGGGTTGGAGTAT-CCTAATTGGTGGAAAATCGATGTTTTGAG-AATAAA
**
284543 ATTGGGGTTGGAGTATCCCCTCAAAAATAA
125 ATCAGGGTTGGAGTATCCCCTCAAAAATAA
284573 TGGGGTTAGC
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
185 47 0.35
186 83 0.62
187 4 0.03
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (185 bp):
GGTTGGAGTATCCCTGATGGTGAAAAGTCAGTGTTTTAGAAAAAAATCAGGGTTAGAGTATCCTT
TTGAAAAGAACAGGGTTGGAGTATCCTAATTGGTGGAAAATCGATGTTTTGAGAATAAAATCAGG
GTTGGAGTATCCCCTCAAAAATAACGAGATTGGAGTATCCCCTCGGAAACAACGT
Found at i:284666 original size:28 final size:30
Alignment explanation
Indices: 284610--284669 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 30
284600 AAACTAGTGT
284610 TTTAAAAATAAAATCAGGGTTGGAATATCCC
1 TTTAAAAAT-AAATCAGGGTTGGAATATCCC
*
284641 TTTAAAAAT-AA-CAGGGTTGGAGTATCCC
1 TTTAAAAATAAATCAGGGTTGGAATATCCC
284669 T
1 T
284670 GATGGTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 17 0.61
29 2 0.07
31 9 0.32
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (30 bp):
TTTAAAAATAAATCAGGGTTGGAATATCCC
Found at i:284675 original size:237 final size:237
Alignment explanation
Indices: 284418--284859 Score: 550
Period size: 237 Copynumber: 1.9 Consensus size: 237
284408 GAAACAACGT
* * * * *
284418 GGTTGGAGTATCCCTGATGGTGAACAATC-AGTGTTTTAGAAATAAAATTAGGGTTGGAGTATCT
1 GGTTGGAGTATCCCTGATGGTGAAAAATCGA-TGTTTCAGAAATAAAATCAGGGTTGAAATATCT
* * * * * * *
284482 TCTTAGAAAGAACATGGTTGGAGTATCC-CTGATGGTG-GAAAATCGATTTTTTAGAAATAACAT
65 CCTCAAAAAGAACAGGGTTGGAGTATCCTC-GATGGTGAG-AAATCGATGTTTTAGAAATAAAAC
* **
284545 TGGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGCGTATCCACGATGGTGGAAAACTAG-TG
128 TGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGCGTATCCACGATGGTGGAAAA-TAGATG
284609 TTTTAAAAATAAAATCAGGGTTGGAATATCCCTTTAAAAATAACAG
192 TTTTAAAAATAAAATCAGGGTTGGAATATCCCTTTAAAAATAACAG
*
284655 GGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTCAGAAATAAAATCGGGGTTGAAATATCTC
1 GGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTCAGAAATAAAATCAGGGTTGAAATATCTC
* * * *
284720 CTCAAAAATAATAGGGTTGGAGTATCCTCGATGGTGAGAAATTGGTGTTTTAGAAATAAAACTGA
66 CTCAAAAAGAACAGGGTTGGAGTATCCTCGATGGTGAGAAATCGATGTTTTAGAAATAAAACTGA
** ** * * ** *
284785 GGTTGGAGTATCCTTTCGGAAATAACAGGGTTGGTGTATCCTTGATGGTGGAAAATCGATGTTTT
131 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGCGTATCCACGATGGTGGAAAATAGATGTTTT
*
284850 AGAAATAAAA
196 AAAAATAAAA
284860 ACATCAATGA
Statistics
Matches: 171, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
236 2 0.01
237 166 0.97
238 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (237 bp):
GGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTCAGAAATAAAATCAGGGTTGAAATATCTC
CTCAAAAAGAACAGGGTTGGAGTATCCTCGATGGTGAGAAATCGATGTTTTAGAAATAAAACTGA
GGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGCGTATCCACGATGGTGGAAAATAGATGTTTT
AAAAATAAAATCAGGGTTGGAATATCCCTTTAAAAATAACAG
Found at i:284872 original size:158 final size:156
Alignment explanation
Indices: 284418--284859 Score: 557
Period size: 158 Copynumber: 2.8 Consensus size: 156
284408 GAAACAACGT
* * *
284418 GGTTGGAGTATCCCTGATGGTGA-ACAATCAGTGTTTTAGAAATAAAATTAGGGTTGGAGTATCT
1 GGTTGGAGTATCCC-GATGGTGAGA-AATTAGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCC
* * * * *
284482 TCTTAGAAAGAACATGGTTGGAGTATCCCTGATGGTGGAAAATCGATTTTTTAGAAATAACATTG
64 T-TTAGAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAATCG
* * *
284547 GGGTTGGAGTATCCCCTCAAAAATAATGG
128 GGGTTGAAATATCCCCTCAAAAATAATAG
* * * * *
284576 GGTTAGCGTATCCACGATGGTG-GAAAACTAGTGTTTTAAAAATAAAATCAGGGTTGGAATATCC
1 GGTTGGAGTATCC-CGATGGTGAG-AAATTAGTGTTTTAGAAATAAAATCAGGGTTGGAGTAT-C
* * *
284640 CTTTAAAAATAACAGGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTCAGAAATAAAATCG
63 CTTTAGAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAATCG
*
284705 GGGTTGAAATATCTCCTCAAAAATAATAG
128 GGGTTGAAATATCCCCTCAAAAATAATAG
* *
284734 GGTTGGAGTATCCTCGATGGTGAGAAATTGGTGTTTTAGAAATAAAA-CTGAGGTTGGAGTATCC
1 GGTTGGAGTATCC-CGATGGTGAGAAATTAGTGTTTTAGAAATAAAATCAG-GGTTGGAGTATCC
* * *
284798 TTTCGGAAATAACAGGGTTGGTGTATCCTTGATGGTGGAAAATCGATGTTTTAGAAATAAAA
64 TTT-AGAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAA
284860 ACATCAATGA
Statistics
Matches: 243, Mismatches: 34, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
157 7 0.03
158 231 0.95
159 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (156 bp):
GGTTGGAGTATCCCGATGGTGAGAAATTAGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCCTT
TAGAAATAACAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAATCGGGG
TTGAAATATCCCCTCAAAAATAATAG
Found at i:290877 original size:61 final size:61
Alignment explanation
Indices: 290812--291509 Score: 593
Period size: 61 Copynumber: 10.8 Consensus size: 61
290802 GCATTTTTTC
* *
290812 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCT
* * * * *
290873 TTTAAAGCCCACTATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGCCCACAACTCCGTGGCACCCT
* * * * * * *
290935 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCTACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGCCCACAACTCCGTGGCACCCT
*
290997 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACC-----
291061 CT
60 CT
*
291063 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT--AAGCCCACAACTCCGTGGCACC--
291128 TTTCT
60 ---CT
** *
291133 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGCCTCCGTGGCACTC
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT--AAGCCCACAACTCCGTGGCACCC
291198 -
61 T
* * *
291198 TTTAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACAACTCTGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCA-C--C-
291262 TCT
60 -CT
* * * *
291265 TTTCAAAGCCCACGACTCCGTGGCA-C-TCTT--TTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC-C-CT
* * *
291325 TTCCTCCTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
1 TT--T--AAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC
291390 T
61 T
* * * *
291391 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAGCCCACAACTCCGTGGCA-C-----
291455 TTCCTT
59 --CC-T
* * *
291461 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACT
291510 TTGTGGCATC
Statistics
Matches: 548, Mismatches: 50, Indels: 69
0.82 0.07 0.10
Matches are distributed among these distances:
60 14 0.03
61 141 0.26
62 92 0.17
63 43 0.08
64 25 0.05
65 4 0.01
66 16 0.03
67 25 0.05
68 48 0.09
69 7 0.01
70 50 0.09
71 83 0.15
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCT
Found at i:290926 original size:34 final size:33
Alignment explanation
Indices: 290789--291509 Score: 475
Period size: 34 Copynumber: 22.2 Consensus size: 33
290779 GTCTCAAAGT
* * *
290789 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
290820 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
290853 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
290881 CCACTATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
290915 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
290943 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
290977 CTACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
291004 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
291038 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
291071 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
291108 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
291142 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
** *
291179 CCACGCCTCCGTGGCAC-----TCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
291206 CCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
291240 CCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
291274 CCACGACTCCGTGGCAC--TCTT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
291303 CCACAACTCCGTGGCACTCTTTTTC-CTCCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCT-TTAAGC
*
291337 CCACAACTCTGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
291371 CCACAACTCCGTGGCAC-----CCT-TTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* *
291398 CCATAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
291432 CCACAACTCCGTGGCACCTTTTTTTCCTTTTTAAAGC
1 CCACAACTCCGTGGCA-C-TTTTTT-CTCTTT-AAGC
* * * *
291469 CCACAACTCCGTGGCACCTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
291502 CCACAACT
1 CCACAACT
291510 TTGTGGCATC
Statistics
Matches: 566, Mismatches: 62, Indels: 122
0.75 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 67 0.12
28 42 0.07
29 23 0.04
31 20 0.04
32 18 0.03
33 65 0.11
34 225 0.40
35 21 0.04
36 23 0.04
37 61 0.11
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:291009 original size:27 final size:27
Alignment explanation
Indices: 290970--291021 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
290960 TTTTTTCATC
* *
290970 TTTAAGTCTACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
290997 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
291022 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:291060 original size:95 final size:96
Alignment explanation
Indices: 290812--291486 Score: 622
Period size: 95 Copynumber: 7.0 Consensus size: 96
290802 GCATTTTTTC
* * *
290812 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACC-----
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* * **
290871 CT-TTTAAAGCCCACTATTCCGTGGCACTTT
66 CTCTTTAAAGCCCACAACTCCGTGGCACCCT
* * *
290901 TTTCATCTTTAAGTCCACAACTCCGTGGCACC-----C-TTTTAAAGCCCACAATTCTGTGGCAC
1 TTT-A-----AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
* * * *
290960 TTTTTTCATCTTT-AAGTCTACAACTCCGTGGCACCCG
60 CTTTTTC-TCTTTAAAGCCCACAACTCCGTGGCACCCT
290997 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
*
291061 CT-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
66 CTCTTTAAAGCCCACAACTCCGTGGCA--------CCCT
*
291099 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
** *
291164 TTCTCTTTTCAAAGCCCACGCCTCCGTGGCACTC-
64 TTCTC-TTT-AAAGCCCACAACTCCGTGGCACCCT
* * * * *
291198 TTTAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
291263 CT-TTTCAAAGCCCACGACTCCGTGGCACTCTT
66 CTCTTT-AAAGCCCACAACTCCGTGGCAC-CCT
* ** *
291295 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
291359 TTC-CTTCT-AAGCCCACAACTCCGTGGCACCCT
64 TTCTCTT-TAAAGCCCACAACTCCGTGGCACCCT
* * * *
291391 TTT-AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTAAAGCCCACAACTCCGTGGCACC--TT
*
291454 TTTCCTTTTTAAAGCCCACAACTCCGTGGCACC
63 TTT-CTCTTTAAAGCCCACAACTCCGTGGCACC
291487 TTGTTCTTTT
Statistics
Matches: 487, Mismatches: 52, Indels: 85
0.78 0.08 0.14
Matches are distributed among these distances:
89 28 0.06
90 20 0.04
93 3 0.01
94 26 0.05
95 117 0.24
96 31 0.06
97 77 0.16
98 90 0.18
99 4 0.01
100 2 0.00
102 6 0.01
104 54 0.11
105 8 0.02
107 3 0.01
108 18 0.04
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (96 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
CTCTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:291307 original size:63 final size:63
Alignment explanation
Indices: 291201--291387 Score: 187
Period size: 63 Copynumber: 2.8 Consensus size: 63
291191 GGCACTCTTT
* *
291201 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTCTTCT
1 AAAGCCCACAACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCCGTGGCACTCTTCTTC-
* *
291265 TTTC
60 CTCC
* *
291269 AAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTCC
* * *
291332 TAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 AAAGCCCACAACTCCGTGGCACTC--TTT--TT-AAAGCCCACAACTCCGTGGCAC
291388 CCTTTTAAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
63 44 0.43
64 10 0.10
65 4 0.04
66 2 0.02
67 3 0.03
68 40 0.39
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.29
Consensus pattern (63 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTCC
Found at i:291420 original size:27 final size:27
Alignment explanation
Indices: 291361--291414 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
291351 CACTCTTTTT
*
291361 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
291388 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
291415 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:291572 original size:33 final size:33
Alignment explanation
Indices: 291530--291720 Score: 280
Period size: 33 Copynumber: 5.8 Consensus size: 33
291520 TTTCACCATT
291530 TCTAAAGCCCACACAAGTCGGTGGCAAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAAACCTTC
291563 TCTAAAGCCCACACAAGTCGGTGGCAAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAAA-CCTTC
291597 TCTAAAGCCCACACAAGTCGGTGGC-AACCTTCC
1 TCTAAAGCCCACACAAGTCGGTGGCAAACCTT-C
* *
291630 TCTAAAGCCCACACAAGTTGGTGGCAATCCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-ACCTTC
** *
291664 -CCGAAGCCCACACAAGTTGGTGGC-AACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAAACC-TTC
291696 TCTAAAGCCCACACAAGTCGGTGGC
1 TCTAAAGCCCACACAAGTCGGTGGC
291721 CCTGAATCAG
Statistics
Matches: 144, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.01
32 8 0.06
33 98 0.68
34 32 0.22
35 4 0.03
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.18
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAAACCTTC
Found at i:291616 original size:67 final size:66
Alignment explanation
Indices: 291530--291720 Score: 303
Period size: 67 Copynumber: 2.9 Consensus size: 66
291520 TTTCACCATT
291530 TCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGC-AACCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCT
291595 TC
65 TC
* *
291597 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATCCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCTT-CTCTAAAGCCCACACAAGTCGGTGGCAAACCCT
291662 TC
65 TC
** *
291664 -CCGAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGC
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTCTAAAGCCCACACAAGTCGGTGGC
291721 CCTGAATCAG
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
66 56 0.48
67 60 0.52
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.18
Consensus pattern (66 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCCTT
C
Found at i:291780 original size:49 final size:49
Alignment explanation
Indices: 291717--292369 Score: 935
Period size: 49 Copynumber: 13.4 Consensus size: 49
291707 CACAAGTCGG
* *
291717 TGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * *
291766 TGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * *
291815 TGGTCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * *
291864 TGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * *
291913 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
291962 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
292011 TGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATATAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * *
292059 TGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * *
292108 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
292157 TCGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
*
292206 TGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* *
292254 TGGCCTTGAATTAGCACATTGGCA----C--CTTTAAGTCCAATATAGC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * *
292297 TGGCCTTGAATTAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTAGC
292349 TGGCCTTGAATCAGCACATTG
1 TGGCCTTGAATCAGCACATTG
292370 ACATCCTTTT
Statistics
Matches: 540, Mismatches: 54, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
43 39 0.07
45 1 0.00
48 90 0.17
49 375 0.69
50 1 0.00
52 34 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
Found at i:292132 original size:195 final size:195
Alignment explanation
Indices: 291717--292369 Score: 1039
Period size: 195 Copynumber: 3.4 Consensus size: 195
291707 CACAAGTCGG
* * * *
291717 TGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
1 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* * * * * *
291782 CATTGGCACCTTCACCATTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACCTTTATC
66 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATC
291847 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCG
130 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCG
291912 C
195 C
291913 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
291978 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCT
66 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCT
*
292043 TTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
131 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
*
292108 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTCGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
*
292173 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCT
66 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCT
* * *
292238 TTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA-C-----CTTTAAGTCCAATATAGC
131 TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
* * ** *
292297 TGGCCTTGAATTAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCATATTGGCA--TCAT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
292362 GCACATTG
63 GCACATTG
292370 ACATCCTTTT
Statistics
Matches: 431, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
189 39 0.09
191 2 0.00
192 40 0.09
194 1 0.00
195 234 0.54
196 115 0.27
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (195 bp):
TGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCT
TTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
Found at i:292297 original size:43 final size:43
Alignment explanation
Indices: 292188--292325 Score: 195
Period size: 43 Copynumber: 3.1 Consensus size: 43
292178 GCACCTTCAT
*
292188 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGG-----CAC
292236 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
* * *
292279 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATCGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
292322 CTTT
1 CTTT
292326 TCCATCTTTA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
43 47 0.55
48 39 0.45
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
Found at i:292492 original size:66 final size:65
Alignment explanation
Indices: 292383--292505 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 65
292373 TCCTTTTTCA
* * *
292383 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATACTTTTCTCATC
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTTTAT-CTTTTCTCATC
292448 T
65 T
* * * *
292449 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTTTATCTTT
292506 AAGTCCAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
65 4 0.08
66 46 0.92
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (65 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTTTATCTTTTCTCATCT
Found at i:293232 original size:13 final size:13
Alignment explanation
Indices: 293214--293238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293204 CATAAAATGT
293214 TGTATCGATACAA
1 TGTATCGATACAA
293227 TGTATCGATACA
1 TGTATCGATACA
293239 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:293236 original size:33 final size:33
Alignment explanation
Indices: 293194--293260 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
293184 TTCAACGATT
293194 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
293227 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
293260 T
1 T
293261 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:296801 original size:20 final size:20
Alignment explanation
Indices: 296776--296852 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
296766 ATCGATACAT
296776 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAATA
*
296796 TGTATCGATAC-AATGTATCGATAAAA
1 TGTATCGATACTAA-G---C---AATA
296822 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAATA
296842 TGTATCGATAC
1 TGTATCGATAC
296853 ATTTGGGCGT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
19 2 0.04
20 26 0.55
23 2 0.04
26 15 0.32
27 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACTAAGCAATA
Found at i:296804 original size:33 final size:32
Alignment explanation
Indices: 296744--296823 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 32
296734 CATTTCAAGG
*
296744 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAATGAACATGTATCGATACAA
*
296776 TGTATCGATACTAA-GCAATATGTATCGATACAA
1 TGTATCGATAC-AATG-AACATGTATCGATACAA
*
296809 TGTATCGATAAAATG
1 TGTATCGATACAATG
296824 TATCGATACT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 14 0.33
33 28 0.67
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAATGAACATGTATCGATACAA
Found at i:296813 original size:13 final size:13
Alignment explanation
Indices: 296795--296832 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
296785 ACTAAGCAAT
296795 ATGTATCGATACA
1 ATGTATCGATACA
*
296808 ATGTATCGATAAA
1 ATGTATCGATACA
296821 ATGTATCGATAC
1 ATGTATCGATAC
296833 TAAGCAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:296829 original size:46 final size:46
Alignment explanation
Indices: 296762--296853 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
296752 TACAATGAAC
* *
296762 ATGTATCGATACATTGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCGATAAAATGTATCGATACTAAGCAATATGTATCGATACA
296808 ATGTATCGATAAAATGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCGATAAAATGTATCGATACTAAGCAATATGTATCGATACA
296854 TTTGGGCGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (46 bp):
ATGTATCGATAAAATGTATCGATACTAAGCAATATGTATCGATACA
Found at i:298304 original size:20 final size:20
Alignment explanation
Indices: 298279--298380 Score: 132
Period size: 20 Copynumber: 5.0 Consensus size: 20
298269 AATTGTAAGC
298279 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTTCTT
298299 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTTCTT
* ****
298319 ATGTATAGATACAATTGTAAGC
1 ATGTATCGATAC-ATT-TTCTT
298341 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTTCTT
*
298361 ATGTATCAATACATTTTCTT
1 ATGTATCGATACATTTTCTT
298381 GGCAGTATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 51 0.74
21 6 0.09
22 12 0.17
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTTTCTT
Found at i:298334 original size:62 final size:62
Alignment explanation
Indices: 298257--298380 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
298247 ATAATGAGAA
* *
298257 ATGTATTGATACAATTGTAAGCATGTATCGATACATTTTCTTATGTATCGATACATTTTCTT
1 ATGTATAGATACAATTGTAAGCATGTATCGATACATTTTCTTATGTATCAATACATTTTCTT
298319 ATGTATAGATACAATTGTAAGCATGTATCGATACATTTTCTTATGTATCAATACATTTTCTT
1 ATGTATAGATACAATTGTAAGCATGTATCGATACATTTTCTTATGTATCAATACATTTTCTT
298381 GGCAGTATGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (62 bp):
ATGTATAGATACAATTGTAAGCATGTATCGATACATTTTCTTATGTATCAATACATTTTCTT
Found at i:299900 original size:76 final size:77
Alignment explanation
Indices: 299775--300139 Score: 347
Period size: 76 Copynumber: 4.8 Consensus size: 77
299765 GTGTCTACAA
* ** *
299775 AGTTTGTTTTAGTTATTGAT-AAAATGGTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTC
1 AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAACAACATATTCCCCATCATGTTCTTCTTCTTC
299839 -AGCTTATTTTC
66 AAGCTTATTTTC
*** * * **
299850 AGTTTGTTTCAATTATTGATAAAAATTGTAAAAATGACATATTCCCCATCATGTTCTTCTTCTTC
1 AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAACAACATATTCCCCATCATGTTCTTCTTCTTC
*
299915 AAGC--ATTTATT
66 AAGCTTATTT-TC
* * *
299926 AGTTTGTTTTGGTTGTTGATAAAAATTTTAGAAACAACATATTCCCCTTCATGTTCTTTTTCTTC
1 AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAACAACATATTCCCCATCATGTTCTTCTTCTTC
299991 AAGTCGTTA--TT-
66 AAG-C-TTATTTTC
* * * * **
300002 AGCTTGTTTTGGCTGTTGATGAAAATTTTAGAAATC-ACATATTCCGTATCATGTTCTT-TTCCT
1 AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAA-CAACATATTCCCCATCATGTTCTTCTT-CT
* * **
300065 T-TAGCCTATCATC
64 TCAAGCTTATTTTC
* * * *
300078 AATTTGTTTTGATTATTGATAAAAATTTTAGAAAC-ACATATTCCCCATTATGTTCTCCTTCT
1 AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAACAACATATTCCCCATCATGTTCTTCTTCT
300140 CCAACTTGTC
Statistics
Matches: 242, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
73 2 0.01
74 1 0.00
75 48 0.20
76 183 0.76
77 6 0.02
78 1 0.00
80 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (77 bp):
AGTTTGTTTTGGTTATTGATAAAAATTTTAGAAACAACATATTCCCCATCATGTTCTTCTTCTTC
AAGCTTATTTTC
Found at i:300498 original size:20 final size:20
Alignment explanation
Indices: 300458--300498 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
300448 AATTCTAAGC
* **
300458 ATGTATCGATATATTTTCCT
1 ATGTATCGATACATTCCCCT
300478 ATGTATCGATACATTCCCCT
1 ATGTATCGATACATTCCCCT
300498 A
1 A
300499 GCAGTATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCCCCT
Found at i:302016 original size:76 final size:76
Alignment explanation
Indices: 301891--302249 Score: 377
Period size: 76 Copynumber: 4.7 Consensus size: 76
301881 GTCTACACAG
* * *
301891 TTTGTTTTGGTTATTGAT-AAAATTGTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTCAG
1 TTTGTTTTGATTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTCAG
*
301955 CTTATTTTCAA
66 CTTATTATCAA
** * * * **
301966 TTTGTTTCAATTATTAATAAAAATTGTAAAAATGACATATTCCCCATCATGTTCTTCTTCTTCAT
1 TTTGTTTTGATTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTCA-
* *
302031 GC-TGTTATCAG
65 GCTTATTATCAA
* * *
302042 TTTGTTTTGGTTGTTGATAAAAATTTTATAAACAACATATTCCCCATCATGTTCTTTTTCTTCAG
1 TTTGTTTTGATTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTCAG
* ** * *
302107 GTCGTTATTAG
66 CTTATTATCAA
* * * * *
302118 CTTGTTTTGGTTGTTGATGAAAATTTTAGAAATC-ACATATTCCCCATCATGTTCTT-TTCCTTT
1 TTTGTTTTGATTGTTGATAAAAATTTTA-AAAACAACATATTCCCCATCATGTTCTTCTT-CTTC
* *
302181 AGCCTATCATCAA
64 AGCTTATTATCAA
* *
302194 TTTGTTTTGATTGTTGATAAAAATTTTAGAAAC-ACATATTCACCAATCATGTTCTT
1 TTTGTTTTGATTGTTGATAAAAATTTTAAAAACAACATATTC-CCCATCATGTTCTT
302250 ATTTTTTAGC
Statistics
Matches: 238, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
75 28 0.12
76 205 0.86
77 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (76 bp):
TTTGTTTTGATTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTTCAG
CTTATTATCAA
Found at i:302163 original size:152 final size:152
Alignment explanation
Indices: 301888--302249 Score: 428
Period size: 152 Copynumber: 2.4 Consensus size: 152
301878 GGTGTCTACA
* *
301888 CAGTTTGTTTTGGTTATTGAT-AAAATTGTAAAAACAACATATTCCCCATCATGTTCTTCTTCTT
1 CAGTTTGTTTTGGTTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTT
* * *
301952 CAGCTTATTTTCAATTTGTTTCAATTATTAATAAAAATTGTAAAAATGACATATTCCCCATCATG
66 CAGCTCATTTTCAACTTGTTTCAATTATTAATAAAAATTGTAAAAATCACATATTCCCCATCATG
* *
302017 TTCTTCTT-CTTCATG-CTGTTAT
131 TTCTT-TTCCTTCA-GCCTATCAT
* *
302039 CAGTTTGTTTTGGTTGTTGATAAAAATTTTATAAACAACATATTCCCCATCATGTTCTTTTTCTT
1 CAGTTTGTTTTGGTTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTT
* * * *** * * * * *
302104 CAGGTCGTTATT-AGCTTGTTTTGGTTGTTGATGAAAATTTTAGAAATCACATATTCCCCATCAT
66 CAGCTCATT-TTCAACTTGTTTCAATTATTAATAAAAATTGTAAAAATCACATATTCCCCATCAT
*
302168 GTTCTTTTCCTTTAGCCTATCAT
130 GTTCTTTTCCTTCAGCCTATCAT
* * * *
302191 CAATTTGTTTTGATTGTTGATAAAAATTTTAGAAAC-ACATATTCACCAATCATGTTCTT
1 CAGTTTGTTTTGGTTGTTGATAAAAATTTTAAAAACAACATATTC-CCCATCATGTTCTT
302250 ATTTTTTAGC
Statistics
Matches: 181, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
151 31 0.17
152 148 0.82
153 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (152 bp):
CAGTTTGTTTTGGTTGTTGATAAAAATTTTAAAAACAACATATTCCCCATCATGTTCTTCTTCTT
CAGCTCATTTTCAACTTGTTTCAATTATTAATAAAAATTGTAAAAATCACATATTCCCCATCATG
TTCTTTTCCTTCAGCCTATCAT
Found at i:303096 original size:65 final size:65
Alignment explanation
Indices: 303026--303265 Score: 331
Period size: 65 Copynumber: 3.7 Consensus size: 65
303016 CTTAGTTTAT
* * * * *
303026 GTGATGATTTTACCCTAGTTAACTTTTTTTCGACTTAGGTTTCGCCTTGGTCACCCTTTGTTGAC
1 GTGATGGTTTTGCCCTAATCAACTTCTTTTCGACTTAGGTTTCGCCTTGGTCACCCTTTGTTGAC
* ** *
303091 GTGATGGTTTTGCCCTAATTAACTTCTTTTTAACTTAGGTTTCGCCTTGGTTACCCTTTGTTGAC
1 GTGATGGTTTTGCCCTAATCAACTTCTTTTCGACTTAGGTTTCGCCTTGGTCACCCTTTGTTGAC
**
303156 GTGATGGTTTTGCCCTGGTCAACTTCTTTTCGACTTCA-GTTTCGCC-TGAGTCACCCTTTGTTG
1 GTGATGGTTTTGCCCTAATCAACTTCTTTTCGACTT-AGGTTTCGCCTTG-GTCACCCTTTGTTG
303219 AC
64 AC
* *
303221 ATGATGGTTTTGTCCTAATCAACTTCTTTTCGACTTAGGTTTCGC
1 GTGATGGTTTTGCCCTAATCAACTTCTTTTCGACTTAGGTTTCGC
303266 TCTAATCAAC
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
64 3 0.02
65 151 0.97
66 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (65 bp):
GTGATGGTTTTGCCCTAATCAACTTCTTTTCGACTTAGGTTTCGCCTTGGTCACCCTTTGTTGAC
Found at i:303271 original size:32 final size:32
Alignment explanation
Indices: 303235--303295 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
303225 TGGTTTTGTC
303235 CTAATCAACTTCTTTTCGACTTAGGTTTCGCT
1 CTAATCAACTTCTTTTCGACTTAGGTTTCGCT
303267 CTAATCAACTTCTTTTCGACTTAGGTTTC
1 CTAATCAACTTCTTTTCGACTTAGGTTTC
303296 CTCCTCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (32 bp):
CTAATCAACTTCTTTTCGACTTAGGTTTCGCT
Found at i:303327 original size:97 final size:97
Alignment explanation
Indices: 303174--303360 Score: 243
Period size: 97 Copynumber: 1.9 Consensus size: 97
303164 TTTGCCCTGG
* *
303174 TCAACTTCTTTTCGACTTCAGTTTCGCCTGAGTCACCCTTTGTTGACATGATGGTTTTGTCCTAA
1 TCAACTTCTTTTCGACTTCAGTTTCGCCTCAGTCACCCTTTGTTGACATGATGGTTTTGCCCTAA
303239 TCAACTTCTTTTCGACTTAGGTTTCGCTCTAA
66 TCAACTTCTTTTCGACTTAGGTTTCGCTCTAA
* * * **
303271 TCAACTTCTTTTCGACTT-AGGTTTCCTCCTCA-TCACCTTTTTTTGATGTGATGGTTTTGCCCT
1 TCAACTTCTTTTCGACTTCA-GTTT-CGCCTCAGTCACCCTTTGTTGACATGATGGTTTTGCCCT
* * * *
303334 AGTCATCTTTTTTTTGACTTAGGTTTC
64 AATCAACTTCTTTTCGACTTAGGTTTC
303361 ACCTTGGTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
96 1 0.01
97 71 0.92
98 5 0.06
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.46
Consensus pattern (97 bp):
TCAACTTCTTTTCGACTTCAGTTTCGCCTCAGTCACCCTTTGTTGACATGATGGTTTTGCCCTAA
TCAACTTCTTTTCGACTTAGGTTTCGCTCTAA
Found at i:303359 original size:32 final size:32
Alignment explanation
Indices: 303226--303359 Score: 112
Period size: 32 Copynumber: 4.2 Consensus size: 32
303216 TTGACATGAT
*
303226 GGTTTTGTCCTAATCAACTTCTTTTCGACTTA
1 GGTTTTGCCCTAATCAACTTCTTTTCGACTTA
* *
303258 GGTTTCGCTCTAATCAACTTCTTTTCGACTTA
1 GGTTTTGCCCTAATCAACTTCTTTTCGACTTA
* * * *
303290 GG-TTTCCTCCTCATCACCTT-TTTTTGA-TGTGA
1 GGTTTTGC-CCTAATCAACTTCTTTTCGACT-T-A
* * * *
303322 TGGTTTTGCCCTAGTCATCTTTTTTTTGACTTA
1 -GGTTTTGCCCTAATCAACTTCTTTTCGACTTA
303355 GGTTT
1 GGTTT
303360 CACCTTGGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
30 1 0.01
31 10 0.12
32 46 0.56
33 12 0.15
34 12 0.15
35 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (32 bp):
GGTTTTGCCCTAATCAACTTCTTTTCGACTTA
Found at i:304738 original size:13 final size:13
Alignment explanation
Indices: 304717--304804 Score: 64
Period size: 13 Copynumber: 6.8 Consensus size: 13
304707 TTATGCTTTA
*
304717 TATCAATACATTG
1 TATCGATACATTG
304730 TATCGATACA-TG
1 TATCGATACATTG
304742 T-TC-AT----TG
1 TATCGATACATTG
304749 TATCGATACATTG
1 TATCGATACATTG
304762 TATCGATATATGTTCATTG
1 TATCG--ATA----CATTG
304781 TATCGATACATTG
1 TATCGATACATTG
304794 TATCGATACAT
1 TATCGATACAT
304805 GTTCATTGTA
Statistics
Matches: 62, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 2 0.03
10 2 0.03
11 2 0.03
12 3 0.05
13 32 0.52
15 3 0.05
17 3 0.05
19 10 0.16
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:304749 original size:19 final size:19
Alignment explanation
Indices: 304725--304834 Score: 127
Period size: 19 Copynumber: 6.4 Consensus size: 19
304715 TATATCAATA
304725 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
304744 CATTGTATCGAT--A----
1 CATTGTATCGATACATGTT
*
304757 CATTGTATCGATATATGTT
1 CATTGTATCGATACATGTT
304776 CATTGTATCGAT--A----
1 CATTGTATCGATACATGTT
304789 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
304808 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
304827 CATTGTAT
1 CATTGTAT
304835 ACATGGACAA
Statistics
Matches: 79, Mismatches: 0, Indels: 24
0.77 0.00 0.23
Matches are distributed among these distances:
13 24 0.30
15 2 0.03
17 2 0.03
19 51 0.65
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Done.