Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold398
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: 1204187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:322 original size:156 final size:157
Alignment explanation
Indices: 24--1146 Score: 1273
Period size: 156 Copynumber: 7.2 Consensus size: 157
14 ACCGAGTCTG
* *
24 CTTTTATGC-GAAAGTGGGTATTTAGGATAGGTT-AGTCCCTTTTATAGTCCTTTTTATGTCCTT
1 CTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCA-TCCCTTTTATAGTCCTTTTTAAGTCCTT
* ** * * *
87 TAGGGGTATTGGGATATTTTCACGTCGAAGGTATCTCTTAGGGGCATTTTTGTACTTTTTCAGAA
65 TAGGGGTACTGGGATATTTTCACGTCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAGAA
* * *
152 C-CAAGTCCTAGGTTATCATCGGGTCCA
130 CTCGAGTCCTAGGTTATCACCAGGTCCA
* ** * *
179 TTTTTATGCTGAAATTGGGTATTTAGGATAGGTTCATCCTTTTTATAGTCCTTTTTAAGTCTTTT
1 CTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTTT
* * *
244 AGGGGTACTGGGATATTTTCACGTCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTTTAGAAC
66 AGGGGTACTGGGATATTTTCACGTCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAGAAC
* * * *
309 T-AAGTCTTAGGTTATCAGCAGATCCA
131 TCGAGTCCTAGGTTATCACCAGGTCCA
* * * *
335 CTTTTATTCCT-AAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTAAAGTCTTT
1 CTTTTA-TGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * *
399 TAAGGGTA-TCGGGGTACTTTT-ACGTCGAAGGTATCTCCTAGGGGTATTTTTGTAAGTTTTCA-
65 TAGGGGTACT-GGGATA-TTTTCACGTCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAG
* * ***
461 AAATCGAGTCCTAGGTTATCACCGGGTTTG
128 AACTCGAGTCCTAGGTTATCACCAGGTCCA
*
491 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCC-TTTATAGTCCTTTTTAAGTCCTTT
1 CTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTTT
* * *
555 AGCGGTATTGGGATATTTTCACGTCGAAAGTATC-CCATAGGGGTATTTTTGTAATTTTTTAGAA
66 AGGGGTACTGGGATATTTTCACGTCGAAGGTATCTCCA-AGGGGTATTTTTGTAATTTTTTAGAA
* *
619 CT-GAGTCCTTGGTTATCATCAGGTCCA
130 CTCGAGTCCTAGGTTATCACCAGGTCCA
* *
646 -TGTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCCTTTAAAGTCCTT
1 CT-TTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* *** * *
710 TAGGGGTACTGTGATATTTTCACGTTCGAAGGTATCTTTTAGGGGCATTTTTGTAATTTTCTAGA
65 TAGGGGTACTGGGATATTTTCACG-TCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAGA
*
775 A-TCGAGTCTTAGGTTATCACC-GAGTCCA
129 ACTCGAGTCCTAGGTTATCACCAG-GTCCA
* * *
803 CTTTTATTCCT-AAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTAAGTCCTT
1 CTTTTA-TGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * * * * *
867 TAAGGGTACCAGGG-TACTTTT-ACATCGAAGGTATCTCTAAGGGGTATGTTCGTAAGTTTTCA-
65 TAGGGGTA-CTGGGATA-TTTTCACGTCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAG
* * *
929 AAATCGAGTCCTAGGTTATCACCAGGTTCG
128 AACTCGAGTCCTAGGTTATCACCAGGTCCA
*
959 CTTTTATG-TCGAAGGTGGGTATTTAGGATAGGTTCATCCC-TTTATAGTCCTTTTTTAGTCCTT
1 CTTTTATGCT-GAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTT
* * * * * *
1022 TAGCGGTATTGGGATATTTTCACGTAGAAAGTATC-CCATAGGGGTATTTTTATACTTTTTTAGA
65 TAGGGGTACTGGGATATTTTCACGTCGAAGGTATCTCCA-AGGGGTATTTTTGTAATTTTTTAGA
* * * *
1086 A-TCGAGTCATAGGTTATCTCTAGGTCCG
129 ACTCGAGTCCTAGGTTATCACCAGGTCCA
*
1114 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGT
1 CTTTTATGCTGAAGGTGGGTATTTAGGATAGGT
1147 AAATCCTAAG
Statistics
Matches: 820, Mismatches: 117, Indels: 62
0.82 0.12 0.06
Matches are distributed among these distances:
154 17 0.02
155 251 0.31
156 414 0.50
157 127 0.15
158 11 0.01
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (157 bp):
CTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTCCTTT
AGGGGTACTGGGATATTTTCACGTCGAAGGTATCTCCAAGGGGTATTTTTGTAATTTTTTAGAAC
TCGAGTCCTAGGTTATCACCAGGTCCA
Found at i:912 original size:468 final size:465
Alignment explanation
Indices: 5--1146 Score: 1702
Period size: 468 Copynumber: 2.4 Consensus size: 465
1 GTCT
* * * *
5 TAGGTTATTACCGAGTCTGCTTTTATGCGAAAGTGGGTATTTAGGATAGGTT-AGTCCCTTTTAT
1 TAGGTTATCACCGGGTTTGCTTTTATGCGAAGGTGGGTATTTAGGATAGGTTCA-TCCC-TTTAT
* * * * * *
69 AGTCCTTTTTATGTCCTTTAGGGGTATTGGGATATTTTCACGTCGAAGGTATCTCTTAGGGGCAT
64 AGTCCTTTTTAAGTCCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTAT
* ** * **
134 TTTTGTACTTTTTCAGAACCAAGTCCTAGGTTATCATCGGGTCCATTTTTATGCTGAAATTGGGT
129 TTTTGTACTTTTTTAGAACTGAGTCCTAGGTTATCATCAGGTCCA-TTTTATGCTGAAGGTGGGT
* * * *
199 ATTTAGGATAGGTTCATCCTTTTTATAGTCCTTTTTAAGTCTTTTAGGGGTACTGGGATATTTTC
193 ATTTAGGATAGGTTCATCCCTTTTATAGTCCCTTTAAAGTCCTTTAGGGGTACTGGGATATTTTC
* *
264 ACGTCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTTTAGAACTAAGTCTTAGGTTATCAGCA
258 ACGTCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTCTAGAACTAAGTCTTAGGTTATCACCA
*
329 GATCCACTTTTATTCCTAAGGTGGGTATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTAAAG
323 GATCCACTTTTATTCCTAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTAAAG
* * * * * *
394 TCTTTTAAGGGTATCGGGGTACTTTTACGTCGAAGGTATCTCCTAGGGGTATTTTTGTAAGTTTT
388 TCCTTTAAGGGTACCAGGGTACTTTTACATCGAAGGTATCTCCTAGGGGTATGTTCGTAAGTTTT
459 CAAAATCGAGTCC
453 CAAAATCGAGTCC
472 TAGGTTATCACCGGGTTTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTATA
1 TAGGTTATCACCGGGTTTGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTATA
537 GTCCTTTTTAAGTCCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTATT
65 GTCCTTTTTAAGTCCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTATT
* *
602 TTTGTAATTTTTTAGAACTGAGTCCTTGGTTATCATCAGGTCCATGTTTATGCTGAAGGTGGGTA
130 TTTGTACTTTTTTAGAACTGAGTCCTAGGTTATCATCAGGTCCAT-TTTATGCTGAAGGTGGGTA
*
667 TTTAGGATAGGTTCATCCCTTTTATAGTCCCTTTAAAGTCCTTTAGGGGTACTGTGATATTTTCA
194 TTTAGGATAGGTTCATCCCTTTTATAGTCCCTTTAAAGTCCTTTAGGGGTACTGGGATATTTTCA
* *** * *
732 CGTTCGAAGGTATCTTTTAGGGGCATTTTTGTAATTTTCTAGAA-TCGAGTCTTAGGTTATCACC
259 CG-TCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTCTAGAACT-AAGTCTTAGGTTATCACC
*
796 -GAGTCCACTTTTATTCCTAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTTA
322 AGA-TCCACTTTTATTCCTAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTAA
860 AGTCCTTTAAGGGTACCAGGGTACTTTTACATCGAAGGTATCT-CTAAGGGGTATGTTCGTAAGT
386 AGTCCTTTAAGGGTACCAGGGTACTTTTACATCGAAGGTATCTCCT-AGGGGTATGTTCGTAAGT
924 TTTCAAAATCGAGTCC
450 TTTCAAAATCGAGTCC
* *
940 TAGGTTATCACCAGGTTCGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTATA
1 TAGGTTATCACCGGGTTTGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTATA
* *
1005 GTCCTTTTTTAGTCCTTTAGCGGTATTGGGATATTTTCACGTAGAAAGTATCCCATAGGGGTATT
65 GTCCTTTTTAAGTCCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTATT
* * * *
1070 TTTATACTTTTTTAGAA-TCGAGTCATAGGTTATC-TCTAGGTCCGCTTTTATGCCGAAGGTGGG
130 TTTGTACTTTTTTAGAACT-GAGTCCTAGGTTATCATC-AGGTCC-ATTTTATGCTGAAGGTGGG
1133 TATTTAGGATAGGT
192 TATTTAGGATAGGT
1147 AAATCCTAAG
Statistics
Matches: 615, Mismatches: 50, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
466 1 0.00
467 214 0.35
468 398 0.65
469 2 0.00
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (465 bp):
TAGGTTATCACCGGGTTTGCTTTTATGCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTATAG
TCCTTTTTAAGTCCTTTAGCGGTATTGGGATATTTTCACGTCGAAAGTATCCCATAGGGGTATTT
TTGTACTTTTTTAGAACTGAGTCCTAGGTTATCATCAGGTCCATTTTATGCTGAAGGTGGGTATT
TAGGATAGGTTCATCCCTTTTATAGTCCCTTTAAAGTCCTTTAGGGGTACTGGGATATTTTCACG
TCAAAGGTATCTCCAAAGGGCATTTTTGTAATTTTCTAGAACTAAGTCTTAGGTTATCACCAGAT
CCACTTTTATTCCTAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATAGTCCTTTTAAAGTCC
TTTAAGGGTACCAGGGTACTTTTACATCGAAGGTATCTCCTAGGGGTATGTTCGTAAGTTTTCAA
AATCGAGTCC
Found at i:1160 original size:12 final size:12
Alignment explanation
Indices: 1143--1169 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1133 TATTTAGGAT
1143 AGGTAAATCCTA
1 AGGTAAATCCTA
1155 AGGTAAATCCTA
1 AGGTAAATCCTA
1167 AGG
1 AGG
1170 ATTCTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (12 bp):
AGGTAAATCCTA
Found at i:2107 original size:84 final size:84
Alignment explanation
Indices: 2008--2161 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
1998 CTAGTTGCCA
** * * * *
2008 AGGAGAGAAGGGGTTTATTGGGGACTGAGCC-CTCAAGTAAATAATGGATGAAGGTTGGCAGGAG
1 AGGAGAGAAAAGGTTTATCGGGGACTGAGCCAAT-AAGTAAATAATGGATAAAGGTTGACAGGAG
2072 ACTGAGCCGGCAGGTCACCG
65 ACTGAGCCGGCAGGTCACCG
* *
2092 AGGAGAGAAAAGGTTTATCGGGGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACCGGAGA
1 AGGAGAGAAAAGGTTTATCGGGGACTGAGCCAATAAGTAAATAATGGATAAAGGTTGACAGGAGA
2157 CTGAG
66 CTGAG
2162 TTGATAGGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 60 0.98
85 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.18
Consensus pattern (84 bp):
AGGAGAGAAAAGGTTTATCGGGGACTGAGCCAATAAGTAAATAATGGATAAAGGTTGACAGGAGA
CTGAGCCGGCAGGTCACCG
Found at i:2169 original size:41 final size:41
Alignment explanation
Indices: 2112--2233 Score: 115
Period size: 42 Copynumber: 3.0 Consensus size: 41
2102 AGGTTTATCG
* * *
2112 GGGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACC-
1 GGGACTGAGTCGATAGGCAAATAATGGATAAAGGTTGACCA
* * * *
2152 GGAGACTGAGTTGATAGGGACCATAA-GGGTAATAGGCTT-ACCA
1 GG-GACTGAGTCGATAGGCA-AATAATGGATAA-AGG-TTGACCA
*
2195 GGGACTGAGTCGATAGGCAAATAATGGATGAAGGTTGAC
1 GGGACTGAGTCGATAGGCAAATAATGGATAAAGGTTGAC
2234 TAAAGACTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
40 4 0.06
41 27 0.42
42 29 0.45
43 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (41 bp):
GGGACTGAGTCGATAGGCAAATAATGGATAAAGGTTGACCA
Found at i:2219 original size:167 final size:163
Alignment explanation
Indices: 2046--2646 Score: 514
Period size: 167 Copynumber: 3.6 Consensus size: 163
2036 GCCCTCAAGT
* * * * *
2046 AAATAATGGATGAAGGTTG-GCAGGAGACTGAGCCGGCAGGTCACCGAGGAGAGAAAAGGTTTAT
1 AAATAATGGATGAAGGTTGAACA-GAGACTGAGCTGACAGGTCACC-A-AAGAGAAAAGGCTTA-
* * * * *
2110 CGGGGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACCGGAGACTGAGTTGATAGGGACCA
62 CGAGGACTAAGCCAATAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGTTGATAGGCACCA
* *
2175 TAAGGGTAATAGGCTTACC-AGGGACTGAGTCGATAGGC
127 TAAGGGTAATGGGCTTACCGA-GGACTGAGCCGATA-GC
* * * **
2213 AAATAATGGATGAAGGTTG-ACTAAAGACTGAGCTGGCAAGTCACCATAA-AGGTAATGGGCTTA
1 AAATAATGGATGAAGGTTGAAC-AGAGACTGAGCTGACAGGTCACCA-AAGA-G-AAAAGGCTTA
* * * *
2276 CTGAGGACTAAGCCGACAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGCTGGCA-AGTCA
62 C-GAGGACTAAGCCAATAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAG-TTG-ATAGGCA
* ** * * * *
2340 CCAACAAAAG-AA-GGGATTTACCGAGGACTAAGCCGACAAC
124 CC-ATAAGGGTAATGGG-CTTACCGAGGACTGAGCCGATAGC
* * * * *
2380 TAAATAATGGATGAAGGTTGATCAGAGACTGAGCTGATAGGTCACCATAAGGGTAATGGCTTACC
1 -AAATAATGGATGAAGGTTGAACAGAGACTGAGCTGACAGGTCACCA-AAGAGAAAAGGCTTA-C
* * * *
2445 GAGGACTCAGCTAATAGGTAAATAATAGATGAAGGTTGACCAGAGACTGAGCTGATAGGTCACCA
63 GAGGACTAAGCCAATAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGTTGATAGG-CACCA
* *
2510 TAAGGGTAATGGGCTTACCGAGGATTGAGCCGATAAGT
127 TAAGGGTAATGGGCTTACCGAGGACTGAGCCGAT-AGC
* * ** *
2548 AAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTTTACT
1 AAATAATGGATGAAGGTTGAACAGAGACTGAGCTGACAGGTCACCA-AAGAG-AAAAGGCTTAC-
* * *
2613 GGGGACTAAGCCAATAGATAAACAATGAGATGAA
63 GAGGACTAAGCCAATAGGTAAATAAT-AGATGAA
2647 AGTTATTTCC
Statistics
Matches: 349, Mismatches: 64, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
165 2 0.01
166 11 0.03
167 221 0.63
168 101 0.29
169 14 0.04
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (163 bp):
AAATAATGGATGAAGGTTGAACAGAGACTGAGCTGACAGGTCACCAAAGAGAAAAGGCTTACGAG
GACTAAGCCAATAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGTTGATAGGCACCATAAG
GGTAATGGGCTTACCGAGGACTGAGCCGATAGC
Found at i:2301 original size:84 final size:84
Alignment explanation
Indices: 2113--2646 Score: 574
Period size: 84 Copynumber: 6.4 Consensus size: 84
2103 GGTTTATCGG
* * * * * * **
2113 GGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACCGGAGACTGAGTTGA-TAGGGACCATA
1 GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATA
*
2177 AGGGTAATAGGCTTACC-A
66 AGGGTAATGGGCTTACCGA
* * * * * *
2195 GGGACTGAGTCGATAGGCAAATAATGGATGAAGGTTGACTAAAGACTGAGCTGGCAAGTCACCAT
1 -GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCAT
* *
2260 AAAGGTAATGGGCTTACTGA
65 AAGGGTAATGGGCTTACCGA
* * * * *
2280 GGACTAAGCCGACAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGCTGGCAAGTCACCAAC
1 GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACC-AT
** *
2345 AAAAG-AA-GGGATTTACCGA
65 AAGGGTAATGGG-CTTACCGA
* ** * * *
2364 GGACTAAGCCGACAACTAAATAATGGATGAAGGTTGATCAGAGACTGAGCTGATAGGTCACCATA
1 GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATA
2429 AGGGTAAT-GGCTTACCGA
66 AGGGTAATGGGCTTACCGA
* ** * * *
2447 GGACTCAGCTAATAGGTAAATAATAGATGAAGGTTGACCAGAGACTGAGCTGATAGGTCACCATA
1 GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATA
2512 AGGGTAATGGGCTTACCGA
66 AGGGTAATGGGCTTACCGA
* * * *
2531 GGATTGAGCCGATAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATA
1 GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATA
* * *
2596 AGGGTAATGGGTTTACTGG
66 AGGGTAATGGGCTTACCGA
* * *
2615 GGACTAAGCCAATAGATAAACAATGAGATGAA
1 GGACTAAGCCGATAGGTAAATAATG-GATGAA
2647 AGTTATTTCC
Statistics
Matches: 380, Mismatches: 63, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
83 123 0.32
84 245 0.64
85 12 0.03
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (84 bp):
GGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAAGTCACCATA
AGGGTAATGGGCTTACCGA
Found at i:2443 original size:251 final size:251
Alignment explanation
Indices: 2041--2593 Score: 691
Period size: 251 Copynumber: 2.2 Consensus size: 251
2031 ACTGAGCCCT
* * * * ** *
2041 CAAGTAAATAATGGATGAAGGTTGGCAGGAGACTGAGCCGGCAGGTCACCGAGGAGAGAAAAGGT
1 CAAGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGGCAGGTCACCAACAAAAGAAAAGGT
* * * * ** * * *
2106 TTATCGGGGACTGAGCCAATAGGTAAATAATGGATAAAGGTTGACCGGAGACTGAGTTGATAGGG
66 TTACCGAGGACTAAGCCAACAACTAAATAATGGATAAAGGTTGACCAGAGACTGAGCTGATAGGC
* * *
2171 ACCATAAGGGTAATAGGCTTACC-AGGGACTGAG-TCGATAGGCAAATAATGGATGAAGGTTGAC
131 ACCATAAGGGTAATAGGCTTACCGA-GGACTCAGCT-AATAGGCAAATAATAGATGAAGGTTGAC
* * *
2234 TAAAGACTGAGCTGGCAAGTCACCATAAAGGTAATGGGCTTACTGAGGACTAAGCCGA
194 CAAAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGAGGACTAAGCCGA
* * * *
2292 CAGGTAAATAATAGATGAAGGTTGACCGGAGACTGAGCTGGCAAGTCACCAACAAAAG-AAGGGA
1 CAAGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGGCAGGTCACCAACAAAAGAAAAGG-
* * *
2356 TTTACCGAGGACTAAGCCGACAACTAAATAATGGATGAAGGTTGATCAGAGACTGAGCTGATAGG
65 TTTACCGAGGACTAAGCCAACAACTAAATAATGGATAAAGGTTGACCAGAGACTGAGCTGATAGG
*
2421 TCACCATAAGGGTAAT-GGCTTACCGAGGACTCAGCTAATAGGTAAATAATAGATGAAGGTTGAC
130 -CACCATAAGGGTAATAGGCTTACCGAGGACTCAGCTAATAGGCAAATAATAGATGAAGGTTGAC
* * * * * *
2485 CAGAGACTGAGCTGATAGGTCACCATAAGGGTAATGGGCTTACCGAGGATTGAGCCGA
194 CAAAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGAGGACTAAGCCGA
* * *
2543 TAAGTAAATAATGGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCA
1 CAAGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGGCAGGTCACCA
2594 TAAGGGTAAT
Statistics
Matches: 256, Mismatches: 42, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
250 4 0.02
251 236 0.92
252 16 0.06
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.19
Consensus pattern (251 bp):
CAAGTAAATAATGGATGAAGGTTGACCGGAGACTGAGCTGGCAGGTCACCAACAAAAGAAAAGGT
TTACCGAGGACTAAGCCAACAACTAAATAATGGATAAAGGTTGACCAGAGACTGAGCTGATAGGC
ACCATAAGGGTAATAGGCTTACCGAGGACTCAGCTAATAGGCAAATAATAGATGAAGGTTGACCA
AAGACTGAGCTGACAAGTCACCATAAAGGTAATGGGCTTACCGAGGACTAAGCCGA
Found at i:3223 original size:78 final size:78
Alignment explanation
Indices: 3134--3482 Score: 382
Period size: 78 Copynumber: 4.5 Consensus size: 78
3124 GAAACATGTA
* * * * * * *
3134 GGAAGTGCCCTTCATGGCCAAGTGATACATCAATACCATTTAGTATTTGAGAAGGAAGGATATGA
1 GGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAAGGAAGGATATAA
* *
3199 TTAGAAGTGTGTG
66 CTAGAAGTGAGTG
* *
3212 GGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTAAG-AGTGAAGAATATA
1 GGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAAG-GAAGGATATA
* *
3276 ACTCGAAGTGAATG
65 ACTAGAAGTGAGTG
* * *
3290 GGAAGTGCCCCTT-TTAGCCATGGGATGCATCAATATCATCTAGTGTTT-ATGAAGGAGGGATAT
1 GGAAGTG-CCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTGA-GAAGGAAGGATAT
* * *
3353 GACTATAAGCGAGT-
64 AACTAGAAGTGAGTG
* * * * * *
3367 GAAAGGTGCCCCTCTTGGCTATGTGATGCATCAATATCATCTAGTGTTTGAGAATGAGGGATACA
1 GGAA-GTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAAGGAAGGATATA
3432 ACTAGAAGTGAGTG
65 ACTAGAAGTGAGTG
* * *
3446 GGAAGTGCCCCTCATGGCCAAGTGATGCATCAATATC
1 GGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATC
3483 CTTTAGGGAT
Statistics
Matches: 227, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
77 10 0.04
78 206 0.91
79 11 0.05
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (78 bp):
GGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTGTTTGAGAAGGAAGGATATAA
CTAGAAGTGAGTG
Found at i:4369 original size:88 final size:86
Alignment explanation
Indices: 4183--4472 Score: 330
Period size: 88 Copynumber: 3.3 Consensus size: 86
4173 TTAGTAAAGT
* * * * *
4183 GGCAAATGCATATTAAATGATGCAAATTCCAATGTTATCTGAATGCAAATGCATGT-AAACTGAT
1 GGCAAATGCATATGAAATGATGCAAATACCAATGTTATCTAAATGCATATGTATGTGAAA-TGAT
* * *
4247 ACAAATTCAAGCATCAACAAAA
65 GCAAATGCAAGCATCAATAAAA
* * * * * *
4269 GGGCAAACGCATATGCAATGATGCAAATACCACTGTCATCTAAAGTGCATGTGTATGTGAAATAA
1 -GGCAAATGCATATGAAATGATGCAAATACCAATGTTATCTAAA-TGCATATGTATGTGAAATGA
*
4334 TGCAAATGCAAACATCAATAACAA
64 TGCAAATGCAAGCATCAATAA-AA
* * *
4358 GGCAAATGCATATGGAATAATGCAAATACCAATGTTATCTAAAATGCATATGTAGGTGAAATGAT
1 GGCAAATGCATATGAAATGATGCAAATACCAATGTTATCT-AAATGCATATGTATGTGAAATGAT
*
4423 GCAAATGCAAGCATCAATAGGAA
65 GCAAATGCAAGCATCAATA-AAA
* *
4446 GGCAAAAGCATATGAAAAGATGCAAAT
1 GGCAAATGCATATGAAATGATGCAAAT
4473 GCTGATGCAA
Statistics
Matches: 169, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
87 36 0.21
88 125 0.74
89 8 0.05
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (86 bp):
GGCAAATGCATATGAAATGATGCAAATACCAATGTTATCTAAATGCATATGTATGTGAAATGATG
CAAATGCAAGCATCAATAAAA
Found at i:5321 original size:19 final size:19
Alignment explanation
Indices: 5286--5333 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
5276 TAGAGCTTCA
*
5286 TTCTTTCC-ATTT-TTTTT
1 TTCTTTCCTTTTTCTTTTT
*
5303 TT-TTTGCTTTTTCTTTTT
1 TTCTTTCCTTTTTCTTTTT
5321 TTCTTTCCTTTTT
1 TTCTTTCCTTTTT
5334 ATTTATCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 7 0.28
19 9 0.36
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
TTCTTTCCTTTTTCTTTTT
Found at i:6948 original size:18 final size:19
Alignment explanation
Indices: 6921--6960 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6911 TTGAAAAACG
6921 TGTGTCATGAAAGAA-ATA
1 TGTGTCATGAAAGAATATA
* *
6939 TGTGTTATGAATGAATATA
1 TGTGTCATGAAAGAATATA
6958 TGT
1 TGT
6961 ACGTGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (19 bp):
TGTGTCATGAAAGAATATA
Found at i:8731 original size:12 final size:13
Alignment explanation
Indices: 8708--8743 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
8698 TAATAAGTAA
8708 AAATTAAAAATTC
1 AAATTAAAAATTC
8721 AAATT-AAAATTC
1 AAATTAAAAATTC
8733 AAATTCAAAAA
1 AAATT-AAAAA
8744 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.57
13 5 0.24
14 4 0.19
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAAAAATTC
Found at i:8977 original size:26 final size:26
Alignment explanation
Indices: 8847--8973 Score: 238
Period size: 26 Copynumber: 4.9 Consensus size: 26
8837 AAACATGAAT
8847 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
8873 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
8899 AGCATGGGAAAGGAAATAGAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
*
8925 AGCATGGGAAAGGAAATAAAAAATGC
1 AGCATGGGAAAGGAAATAGAAAATGC
8951 AGCATGGGAAAGGAAATA-AAAAT
1 AGCATGGGAAAGGAAATAGAAAAT
8974 TGCAATTGGA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
25 5 0.05
26 95 0.95
ACGTcount: A:0.52, C:0.07, G:0.29, T:0.12
Consensus pattern (26 bp):
AGCATGGGAAAGGAAATAGAAAATGC
Found at i:9316 original size:18 final size:18
Alignment explanation
Indices: 9291--9432 Score: 110
Period size: 18 Copynumber: 7.8 Consensus size: 18
9281 AACATGCAAA
9291 AGCAGCTCCAGCAGCAGC
1 AGCAGCTCCAGCAGCAGC
* *
9309 ACCAGCTCCAGCGGCAGC
1 AGCAGCTCCAGCAGCAGC
* * **
9327 -GACAGCTCTAGCACCCAAT
1 AG-CAGCTCCAGCA-GCAGC
* *
9346 AGCAGCTCCAACAGCAGT
1 AGCAGCTCCAGCAGCAGC
*
9364 AGCAACTCCAGCAGC-GAC
1 AGCAGCTCCAGCAGCAG-C
* *
9382 TGCAGCTCCAGCAGGCAAC
1 AGCAGCTCCAGCA-GCAGC
9401 AGCAGCTCCAGCAAG-AGC
1 AGCAGCTCCAGC-AGCAGC
*
9419 AGCAACTCCAGCAG
1 AGCAGCTCCAGCAG
9433 GTAGCAATCT
Statistics
Matches: 96, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
17 3 0.03
18 65 0.68
19 26 0.27
20 2 0.02
ACGTcount: A:0.30, C:0.37, G:0.24, T:0.08
Consensus pattern (18 bp):
AGCAGCTCCAGCAGCAGC
Found at i:9388 original size:55 final size:55
Alignment explanation
Indices: 9329--9432 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
9319 GCGGCAGCGA
* * *
9329 CAGCTCTAGCACCCAATAGCAGCTCCAAC-AGCAGTAGCAACTCCAGCAGCGACTG
1 CAGCTCCAGCACCCAACAGCAGCTCCAACAAG-AGCAGCAACTCCAGCAGCGACTG
** *
9384 CAGCTCCAGCAGGCAACAGCAGCTCCAGCAAGAGCAGCAACTCCAGCAG
1 CAGCTCCAGCACCCAACAGCAGCTCCAACAAGAGCAGCAACTCCAGCAG
9433 GTAGCAATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 40 0.95
56 2 0.05
ACGTcount: A:0.32, C:0.37, G:0.22, T:0.10
Consensus pattern (55 bp):
CAGCTCCAGCACCCAACAGCAGCTCCAACAAGAGCAGCAACTCCAGCAGCGACTG
Found at i:10409 original size:51 final size:51
Alignment explanation
Indices: 10354--11182 Score: 529
Period size: 51 Copynumber: 15.9 Consensus size: 51
10344 CAATTGCTCA
10354 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * * *** *
10405 TAATCAGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCA
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * *
10456 TAATGGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
* *
10507 TAATCGGGGATACTCTAACCCTGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
* * *
10560 TAATCGGGGATACTCCAACCTCGATTTTATTTTAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * ***** * ** ** *
10609 CATAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTTCAA-CCCCGT
1 --TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTT
* * * * *** *
10663 TACCTCCGAGGGGATACTCCAACCCAGGCTTTA-TTTCTAAAATATTGATTT-CTCA
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCT-T
* * *
10718 TAATGGGGGATACTCCAACCCCAGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCC-GGTTTTATTTTC-AAAACACCAA-TTTCCTT
* *
10770 TAATCGGGGATACTCTAACCCTGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
** * * *
10823 TAATCGGGGATACTCCAACCTGGGTTTT-TTTTAAAAACACCAATCTTTC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT-TTCCTT
* * * * * ***** * * ** *
10873 CAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTT
* * * * ***
10925 TACTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * * *
10980 TAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
* *
11031 TAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACAAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACAC-CAATTTCCTT
11084 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
* * * *
11135 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTT
11183 TTCACAATCG
Statistics
Matches: 598, Mismatches: 133, Indels: 93
0.73 0.16 0.11
Matches are distributed among these distances:
49 2 0.00
50 31 0.05
51 265 0.44
52 122 0.20
53 119 0.20
54 18 0.03
55 11 0.02
56 30 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:10880 original size:262 final size:262
Alignment explanation
Indices: 10411--11128 Score: 1276
Period size: 262 Copynumber: 2.7 Consensus size: 262
10401 CCTTTAATCA
10411 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
10476 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTTT
66 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTTT
* *
10541 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGATTTTATTTTAAAAACACCAATT
131 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
* *
10606 TTTCATAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTTCAACCCCGTTACCTCCG
196 TTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
10671 AG
261 AG
* *
10673 GGGATACTCCAACCCAGGCTTTATTTCTAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
10738 CCAGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTT
66 CC-GGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTT
*
10803 TCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTGGGTTTT-TTTTAAAAACACCAAT
130 TCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAAT
* *
10867 CTTTCACAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCC
195 CTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCC
10932 GAG
260 GAG
*
10935 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCTTAATGGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
* * *
11000 CCGGTTTCATTTCTAAAACACTAACTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
66 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTTT
* * *
11065 CAAAACACAAAATTTCCTTTAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT
131 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAAT
11129 TTCCTTTAAT
Statistics
Matches: 435, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
261 104 0.24
262 223 0.51
263 108 0.25
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (262 bp):
GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTTTT
CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
TTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
AG
Found at i:11225 original size:28 final size:29
Alignment explanation
Indices: 11189--11263 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
11179 ATTTTTCACA
* * * *
11189 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
11217 ATCGGGGATACTCCAACCCCGTTACCTCC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
*
11246 A-AGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
11264 TGGCTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 38 0.93
29 3 0.07
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACCTCC
Found at i:11240 original size:314 final size:313
Alignment explanation
Indices: 10672--11316 Score: 960
Period size: 314 Copynumber: 2.1 Consensus size: 313
10662 TTACCTCCGA
* * * * *
10672 GGGGATACTCCAACCCAGGCTTTATTTCTAAAATATTGATTTCTCATAATGGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACTAATTTCTCATAATCGGGGATACTCCAAC
* * * *
10737 CCCAGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCTGGTTTTATTT
66 CCCAGGTTTTATTTCTAAAACACAAAATTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTT
* * *
10802 TTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTGGGTTTTTTTTAAAAACACCAAT
131 TTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGATTTTTTTCAAAAACACCAAT
* *
10867 CTTTCACAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCC
196 CTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCC
* *
10932 GAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCTTAATG
261 AAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATG
*
10985 GGGGATACTCCAACCCCGG-TTTCATTTCTAAAACACTAACTTTC-CATAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCGGCTTT-ATTTCTAAAACACTAA-TTTCTCATAATCGGGGATACTCCA
* *
11048 ACCCC-GGTTTTATTTTTCAAAACACAAAATTTCCTTTAATCGGGGATACTCCAACCCCGGTTTT
64 ACCCCAGGTTTTATTTCT-AAAACACAAAATTTCC-ATAATCGGGGATACTCCAACCCCGGTTTT
11112 A-TTTTCAAAACACC-AATTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAA
127 ATTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCT-CGATTTT-TTT-CAAAAA
* *
11174 TACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGT
189 CACCAATCTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGT
* * *
11239 TACCTCCAAGGGGATACTCCAACCCTGGCTTTATTTCCAGAATATTGATTTCTCATAATT
254 TACCTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATG
*
11299 AGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
11317 TTATTTCCGA
Statistics
Matches: 300, Mismatches: 25, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
311 2 0.01
312 46 0.15
313 83 0.28
314 169 0.56
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (313 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACTAATTTCTCATAATCGGGGATACTCCAAC
CCCAGGTTTTATTTCTAAAACACAAAATTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTT
TTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGATTTTTTTCAAAAACACCAAT
CTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCC
AAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATG
Found at i:11352 original size:79 final size:79
Alignment explanation
Indices: 11221--11423 Score: 239
Period size: 79 Copynumber: 2.6 Consensus size: 79
11211 TATTTCATCG
** * * *
11221 GGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCTGGCTTTATTTCCAGAAT-ATT
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCTGACTTTATTTCC-CAATCATC
* **
11285 GATTTCTCATAATTA
65 GATTTCTCACAACCA
* * *
11300 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCC-GATTTTATTTCCCAATCATC
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA-CCCTGACTTTATTTCCCAATCATC
* *
11364 GATTTTTCACAACCG
65 GATTTCTCACAACCA
* *
11379 GGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCTG
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCTG
11424 CTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 6 0.06
79 95 0.91
80 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCTGACTTTATTTCCCAATCATCG
ATTTCTCACAACCA
Found at i:19647 original size:11 final size:11
Alignment explanation
Indices: 19617--19659 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
19607 TCTCTTCTAA
19617 AAAAAAAAATC
1 AAAAAAAAATC
* *
19628 AACAAAAAATT
1 AAAAAAAAATC
*
19639 AAAAAAAAAGAC
1 AAAAAAAAA-TC
19651 AAAAAAAAA
1 AAAAAAAAA
19660 ACCTGCTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:19660 original size:24 final size:24
Alignment explanation
Indices: 19614--19659 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19604 CCTTCTCTTC
*
19614 TAAAAAAAAAAATCAACAAAAAAT
1 TAAAAAAAAAAATCAAAAAAAAAT
*
19638 TAAAAAAAAAGA-CAAAAAAAAA
1 TAAAAAAAAAAATCAAAAAAAAA
19660 ACCTGCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.09
Consensus pattern (24 bp):
TAAAAAAAAAAATCAAAAAAAAAT
Found at i:20782 original size:95 final size:95
Alignment explanation
Indices: 20619--20830 Score: 379
Period size: 95 Copynumber: 2.2 Consensus size: 95
20609 TCTACTTTCC
20619 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAAGACGCCTT
1 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAAGACGCCTT
*
20684 TCAAAGCCCACACAAGTTGGTGGCACTTTT
66 TCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
20714 TAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTT
1 TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAAGACGCCTT
20779 TCAAAGCCCACACAAGTTGGTGGCACCTTT
66 TCAAAGCCCACACAAGTTGGTGGCACCTTT
*
20809 CAGTCCTCAAAGAGCAGGACGC
1 TAGTCCTCAAAGAGCAGGACGC
20831 CTTTCAAAGC
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 111 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (95 bp):
TAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTCCCCAAAGAGCAAGACGCCTT
TCAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:20814 original size:55 final size:55
Alignment explanation
Indices: 20749--21337 Score: 766
Period size: 55 Copynumber: 10.4 Consensus size: 55
20739 CTCCTTTCAC
*
20749 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
20804 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-A
** * * * *
20860 TTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAGAGCCCACACAAGCTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
*
20921 CCTTTCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
20976 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-A
** * *
21032 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
21087 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
*
21149 CC-TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-A
** * * *
21204 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
21259 CCTTTCAGTTCTCAAAGAGCAAGACGCCTTTCAAAGCCCATACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
21314 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
21338 TACACTTTAT
Statistics
Matches: 470, Mismatches: 47, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
54 20 0.04
55 201 0.43
56 144 0.31
57 6 0.01
58 2 0.00
59 4 0.01
60 25 0.05
61 27 0.06
62 41 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:20836 original size:26 final size:26
Alignment explanation
Indices: 20749--20836 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
20739 CTCCTTTCAC
*
20749 CCTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
20775 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
20804 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
20830 CCTTTCA
1 CCTTTCA
20837 AAGCCCACAT
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 6 0.14
28 6 0.14
29 10 0.23
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:20951 original size:26 final size:26
Alignment explanation
Indices: 20921--21009 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
20911 GCTGGTGGCA
20921 CCTTTCAATCCTCAAAGAGCAGGACG
1 CCTTTCAATCCTCAAAGAGCAGGACG
* * * ** *
20947 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC-AA-TCCTCA-AAG-AGCAGGACG
*
20976 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAATCCTCAAAGAGCAGGACG
21002 CCTTTCAA
1 CCTTTCAA
21010 AGCCCACATA
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 5 0.11
29 10 0.23
30 3 0.07
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (26 bp):
CCTTTCAATCCTCAAAGAGCAGGACG
Found at i:21043 original size:172 final size:166
Alignment explanation
Indices: 20749--21337 Score: 919
Period size: 172 Copynumber: 3.5 Consensus size: 166
20739 CTCCTTTCAC
*
20749 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
20814 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
* * *
20879 CAGGACACCTTTTCCTTTTAGAGCCCACACAAGCTGGTGGCA
131 CAGG--A-C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
20921 CCTTTCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
20986 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
21051 CAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
131 CAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
21087 TTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC-
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCT
21151 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCT
59 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCT
*
21216 CAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA
124 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
21259 CCTTTCAGTTCTCAAAGAGCAAGACGCCTTTCAAAGCCCATACGAGTTGGTGGCACTTTTTAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
21324 CTCAAAGAGCAGGA
66 CTCAAAGAGCAGGA
21338 TACACTTTAT
Statistics
Matches: 390, Mismatches: 19, Indels: 22
0.90 0.04 0.05
Matches are distributed among these distances:
165 21 0.05
166 51 0.13
167 21 0.05
168 3 0.01
169 3 0.01
170 4 0.01
171 20 0.05
172 243 0.62
173 24 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (166 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
CAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:21151 original size:228 final size:226
Alignment explanation
Indices: 20749--21337 Score: 955
Period size: 227 Copynumber: 2.6 Consensus size: 226
20739 CTCCTTTCAC
20749 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
20814 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAG
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-ATTTTTTAGTCCTCAAAGAG
*
20879 CAGGACACCTTTTCCTTTTAGAGCCCACACAAGCTGGTGGCACCTTTCAATCCTCAAAGAGCAGG
130 CAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC-TTCAATCCTCAAAGAGCAGG
20944 ACGCCTTTCAAAGCCCACACAAGTTGGTGGC-A
194 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCAA
* * ** *
20976 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-ACCTTTCAGT
*
21041 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGA
65 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT-TAGTCCTCAAAGA
* *
21106 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
129 GCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAAAGAGCAGG
*
21171 ACGCCTTTCAAAGCCCACATAAGTTGGTGGCAA
194 ACGCCTTTCAAAGCCCACACAAGTTGGTGGCAA
** * * *
21204 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * *
21269 CTCAAAGAGCAAGACGCCTTTCAAAGCCCATACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGC
21334 AGGA
131 AGGA
21338 TACACTTTAT
Statistics
Matches: 333, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
226 19 0.06
227 159 0.48
228 155 0.47
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (226 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGC
AGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAAAGAGCAGGAC
GCCTTTCAAAGCCCACACAAGTTGGTGGCAA
Found at i:21963 original size:6 final size:6
Alignment explanation
Indices: 21952--21978 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21942 TAATAATTAA
21952 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
21979 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:22187 original size:26 final size:26
Alignment explanation
Indices: 22082--22183 Score: 188
Period size: 26 Copynumber: 4.0 Consensus size: 26
22072 AAATCATGAA
22082 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
22108 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
22134 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
22160 CAGCATGGGAAAGGAAATA-AAAAT
1 CAGCATGGGAAAGGAAATAGAAAAT
22184 TGCAATTGGA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
25 5 0.07
26 70 0.93
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (26 bp):
CAGCATGGGAAAGGAAATAGAAAATG
Found at i:22603 original size:55 final size:55
Alignment explanation
Indices: 22492--22647 Score: 147
Period size: 55 Copynumber: 2.8 Consensus size: 55
22482 TAGCCAACGA
* * * * * * * *
22492 CTCCAACACGCAAAAGCAACTCCAGCAACAGCACCAGCTCCAGCGGC-AGC-GACAG
1 CTCCAGCACGCAACAGCAACTCCAACGAGAGCAGCAACTCCAGCAGCGA-CTG-CAG
* * *
22547 CTCTAGCATGCAACAGCAGCTCCAAC-AGTAGCAGCAACTCCAGCAGCGACTGCAG
1 CTCCAGCACGCAACAGCAACTCCAACGAG-AGCAGCAACTCCAGCAGCGACTGCAG
* *
22602 CTCCAGCACGCAACAGCAACTCCAGCGAGAGCAGCAACTCCTGCAG
1 CTCCAGCACGCAACAGCAACTCCAACGAGAGCAGCAACTCCAGCAG
22648 GTAGCAATCT
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
54 1 0.01
55 77 0.94
56 4 0.05
ACGTcount: A:0.32, C:0.38, G:0.21, T:0.09
Consensus pattern (55 bp):
CTCCAGCACGCAACAGCAACTCCAACGAGAGCAGCAACTCCAGCAGCGACTGCAG
Found at i:22638 original size:18 final size:17
Alignment explanation
Indices: 22560--22647 Score: 68
Period size: 18 Copynumber: 4.9 Consensus size: 17
22550 TAGCATGCAA
* *
22560 CAGCAGCTCCAACAGTAG
1 CAGCAACTCCAGCAG-AG
*
22578 CAGCAACTCCAGCAGCG
1 CAGCAACTCCAGCAGAG
* * *
22595 ACTGCAGCTCCAGCACGCAA
1 -CAGCAACTCCAGCA-G-AG
22615 CAGCAACTCCAGCGAGAG
1 CAGCAACTCCAGC-AGAG
*
22633 CAGCAACTCCTGCAG
1 CAGCAACTCCAGCAG
22648 GTAGCAATCT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.05
18 38 0.69
19 13 0.24
20 1 0.02
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.09
Consensus pattern (17 bp):
CAGCAACTCCAGCAGAG
Found at i:23734 original size:102 final size:104
Alignment explanation
Indices: 23552--24410 Score: 405
Period size: 104 Copynumber: 8.3 Consensus size: 104
23542 TAAGTTTCTC
* * * * * *
23552 AATTGCTCATAATCGGGGATACTCAAATCTCGGTTTCATTTTCAAAACACCAA-TTTCCTTTAAT
1 AATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTTTAAAAACACCAATTTTCC-ATAAT
* * **
23616 CAGGGATACTCCAACCCCGGCTTTA-TTTCCAAAATA-TT
65 CGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* * *
23654 GATTTCTCATAATGGGGGATACTCCAATCCCGGTTTTATTTCT-AAAACACTAATTTTCCATAAT
1 AATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTT-TAAAAACACCAATTTTCCATAAT
* * *
23718 CGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCA
65 CGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* *
23758 AATTTC-CTTTAATCGGGGATACTCCAA-CCTCGGTTTTATTTTAAAAACACCAATTTTTCATAA
1 AATTTCTC-ATAATCGGGGATACTCCAATCC-CGGTTTTATTTTAAAAACACCAATTTTCCATAA
* * * ** * *
23821 TCGAGGATACTCCAATCTC-G--TTATTTCATCGGGGATACTCC-
64 TCGGGGATACTCCAACCCCGGCTTTATTT--TC--CAAAACACCA
* * * * * ** * ***
23862 AA--CCCCGTTACCTCCGAGGGGATACTCCAA-CCCAGGCTTTATTTCCAAAATATTGA-TTTCT
1 AATTTCTC-ATA-AT-C--GGGGATACTCCAATCCC-GGTTTTATTTTAAAAACACCAATTTTC-
* * * * *
23923 CATAATGGGGGATACTCCAACCCCAGTTTTA-TTTCTAAAACACTA
59 CATAATCGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* * * * *
23968 ATTTTC-CATAATCGGGGATACTCTAA-CCACGGTTTTATTTTTCAAAACACCAAATTTCCTTTA
1 AATTTCTCATAATCGGGGATACTCCAATCC-CGGTTTTA-TTTTAAAAACACCAATTTTCC-ATA
* * *
24031 ATCGGGGATACTCCAACCTCGGTTTTATTTT-AAAAACACC-
63 ATCGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* ** * * * ** **
24071 AATCTT-TCACAATCAAGGATATTCCAA-CCTCGTTATTTCATCGGGGTTACTCCAAC-CC-CGT
1 AAT-TTCTCATAATCGGGGATACTCCAATCC-CGGT-TTT-AT----TTTA--AAAACACCAATT
* **** * **
24132 TACC-TCCGAGGGGATACTCCAACCCCGGCTTTA-TTTCCAAAATA-TT
56 TTCCATAATCGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* * * * * * * *
24178 GATTTATCTTAATGGGGGATACTCCAACCCCGGTTTCATTTCT-AAAACACTAACTTTCCATAAT
1 AATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTT-TAAAAACACCAATTTTCCATAAT
* * * *
24242 CGGGGATACTCTAACCCCGGTTTTATTTTTCGAAACACCA
65 CGGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
* * * *
24282 AATTTC-CTTTAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA-TTTCCTTTAA
1 AATTTCTC-ATAATCGGGGATACTCCAATCCCGGTTTTATTTTAAAAACACCAATTTTCC-ATAA
* **
24345 TC-GGGATACTCCAACTCCGATTTTA-TTTCCAAAAACACC-
64 TCGGGGATACTCCAACCCCGGCTTTATTTTCC-AAAACACCA
* * *
24384 AATTTTTCACAATCGAGGATACTCCAA
1 AATTTCTCATAATCGGGGATACTCCAA
24411 CCTCGTTATT
Statistics
Matches: 571, Mismatches: 132, Indels: 108
0.70 0.16 0.13
Matches are distributed among these distances:
99 3 0.01
100 1 0.00
101 11 0.02
102 140 0.25
103 82 0.14
104 178 0.31
105 20 0.04
106 15 0.03
107 101 0.18
108 4 0.01
109 8 0.01
110 5 0.01
111 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (104 bp):
AATTTCTCATAATCGGGGATACTCCAATCCCGGTTTTATTTTAAAAACACCAATTTTCCATAATC
GGGGATACTCCAACCCCGGCTTTATTTTCCAAAACACCA
Found at i:23870 original size:28 final size:28
Alignment explanation
Indices: 23820--23894 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
23810 ATTTTTCATA
* * * **
23820 ATCGAGGATACTCCAATCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
23848 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
23876 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
23895 AGGCTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:24042 original size:211 final size:211
Alignment explanation
Indices: 23668--24051 Score: 524
Period size: 211 Copynumber: 1.8 Consensus size: 211
23658 TCTCATAATG
* * *
23668 GGGGATACTCCAATCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAATCCCGGCTTTATTTCCAAAACACTAATTTTCCATAATCGGGGATACTCCAAC
* * * *
23733 CCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATT
66 CCCAGTTTTATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCCAACCACGGTTTTATT
* * *
23798 TTAAAAACACCAATTTTTCATAATCGAGGATACTCCAATCTCGTTATTTCATCGGGGATACTCCA
131 TTAAAAACACCAAATTTCCATAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
23863 ACCCCGTTACCTCCGA
196 ACCCCGTTACCTCCGA
* * * *
23879 GGGGATACTCCAA-CCCAGGCTTTATTTCCAAAATATTGA-TTTCTCATAATGGGGGATACTCCA
1 GGGGATACTCCAATCCC-GGCTTTATTTCCAAAACACTAATTTTC-CATAATCGGGGATACTCCA
* * *
23942 ACCCCAGTTTTATTTCT-AAAACACTAATTTTCC-ATAATCGGGGATACTCTAACCACGGTTTTA
64 ACCCCAGTTTTATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCCAACCACGGTTTTA
* * *
24005 TTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCG
129 -TTTTAAAAACACCAAATTTCC-ATAATCGAGGATACTCCAACCTCG
24052 GTTTTATTTT
Statistics
Matches: 149, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
209 27 0.18
210 39 0.26
211 83 0.56
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (211 bp):
GGGGATACTCCAATCCCGGCTTTATTTCCAAAACACTAATTTTCCATAATCGGGGATACTCCAAC
CCCAGTTTTATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCCAACCACGGTTTTATT
TTAAAAACACCAAATTTCCATAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
ACCCCGTTACCTCCGA
Found at i:24105 original size:262 final size:262
Alignment explanation
Indices: 23618--24335 Score: 1283
Period size: 262 Copynumber: 2.7 Consensus size: 262
23608 CCTTTAATCA
*
23618 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAATC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
23683 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
66 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
*
23748 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATT
131 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
* * *
23813 TTTCATAATCGAGGATACTCCAATCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
196 TTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
23878 AG
261 AG
*
23880 GGGATACTCCAACCCAGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
* *
23945 CCAGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCACGGTTTTATTTTT
66 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
24010 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
131 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
* *
24075 TTTCACAATCAAGGATATTCCAACCTCGTTATTTCATCGGGGTTACTCCAACCCCGTTACCTCCG
196 TTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
24140 AG
261 AG
* *
24142 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTATCTTAATGGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
* *
24207 CCGGTTTCATTTCTAAAACACTAACTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
66 CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
* * *
24272 CGAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT
131 CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAAT
24336 TTCCTTTAAT
Statistics
Matches: 436, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 436 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (262 bp):
GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACC
CCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCCCGGTTTTATTTTT
CAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATC
TTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCG
AG
Found at i:24398 original size:51 final size:51
Alignment explanation
Indices: 23559--24412 Score: 516
Period size: 51 Copynumber: 16.4 Consensus size: 51
23549 CTCAATTGCT
* * * *
23559 CATAATCGGGGATACTCAAATCTCGGTTTCATTTTCAAAACACCAA-TTTC
1 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
* * * * * ***
23609 CTTTAATCAGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTC
1 C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
* * *
23660 TCATAATGGGGGATACTCCAATCCCGGTTTTA-TTTCTAAAACACTAATTTTC
1 -CATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTC
* *
23712 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTC
1 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACCAATTTTC
* * * *
23764 CTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
* * * * ***** * * **
23816 CATAATCGAGGATACTCCAATCTCGTTATTTCATCGGGGATACTCCAA--CCC
1 CATAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTTC
* * * * * * ***
23867 CGTTACCTCCGAGGGGATACTCCAACCCAGGCTTTATTTCCAAAATATTGA-TTTC
1 C-ATA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
* * *
23922 TCATAATGGGGGATACTCCAACCCCAGTTTTA-TTTCTAAAACACTAATTTTC
1 -CATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTC
* * *
23974 CATAATCGGGGATACTCTAACCACGGTTTTATTTTTCAAAACACCAAATTTC
1 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACCAATTTTC
* * *
24026 CTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAATCTTT-
1 C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT-TTTC
* ** * * * * ** *
24078 CACAATCAAGGATATTCCAACCTCGTTATTTCATCGGGGTTACTC-CAAC-CC-CGTTAC
1 CATAATCGGGGATACTCCAACCCCGGT-TTT-AT-----TT--TCAAAACACCAATTTTC
**** * * * ***
24135 C-TCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTAT-
1 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-TC
* * * * *
24185 CTTAATGGGGGATACTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTC
1 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTC
* * *
24236 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCGAAACACCAAATTTC
1 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACCAATTTTC
*
24288 CTTTAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA-TTTC
1 C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
* * * * *
24339 CTTTAATC-GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTC
* *
24391 CACAATCGAGGATACTCCAACC
1 CATAATCGGGGATACTCCAACC
24413 TCGTTATTTC
Statistics
Matches: 612, Mismatches: 147, Indels: 88
0.72 0.17 0.10
Matches are distributed among these distances:
47 1 0.00
48 2 0.00
49 2 0.00
50 39 0.06
51 280 0.46
52 121 0.20
53 109 0.18
54 9 0.01
55 9 0.01
56 31 0.05
57 1 0.00
58 4 0.01
59 3 0.00
60 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
Found at i:24431 original size:28 final size:29
Alignment explanation
Indices: 24395--24471 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
24385 ATTTTTCACA
* * * *
24395 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
24423 ATCGGGGATACTCCAACCCCGTTACCTCC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
*
24452 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
24472 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 40 0.93
29 3 0.07
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACCTCC
Found at i:24517 original size:79 final size:79
Alignment explanation
Indices: 24425--24659 Score: 267
Period size: 79 Copynumber: 3.0 Consensus size: 79
24415 GTTATTTCAT
** *
24425 CGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAGAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
*
24490 TGATTTCTCATAAT
66 TGATTTCTCATAAC
* * * * * *
24504 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCCGATTTTATTTCC-CAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT-A
* * *
24568 TCGATTTTTCACAAC
65 TTGATTTCTCATAAC
* * * *
24583 CGGGGATACTCCAACCCCATTATTTTCAACGGGATACTCCAACCCC-ACTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACT-TTATTTCCAAAATA
*
24647 TTAAATTTCTCAT
65 TT-GATTTCTCAT
24660 CAGGACAGAT
Statistics
Matches: 126, Mismatches: 26, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 111 0.88
80 10 0.08
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
TGATTTCTCATAAC
Found at i:24521 original size:313 final size:313
Alignment explanation
Indices: 23879--24522 Score: 949
Period size: 313 Copynumber: 2.1 Consensus size: 313
23869 TTACCTCCGA
* * * * *
23879 GGGGATACTCCAACCCAGGCTTTATTTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAACACTAATTTCTCATAATCGGGGATACTCCAAC
* * *
23944 CCCAGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAACCACGGTTTTATTTT
66 CCCAGTTTTATTTCTAAAACACCAAATTTCCATAATCGGGGATACTCCAACCACGGTTTTATTTT
* *
24009 TCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGGTTTTATTTTAAAAACACCAAT
131 TCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGATTTTATTTCAAAAACACCAAT
* *
24074 CTTTCACAATCAAGGATATTCCAACCTCGTTATTTCATCGGGGTTACTCCAACCCCGTTACCTCC
196 CTTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCC
* * *
24139 GAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTATCTTAATG
261 AAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTATCATAATG
* *
24192 GGGGATACTCCAACCCCGG-TTTCATTTCTAAAACACTAACTTTC-CATAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCGGCTTT-ATTTCCAAAACACTAA-TTTCTCATAATCGGGGATACTCCA
* * * * *
24255 ACCCCGGTTTTATTTTTCGAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCCCGGTTTTA
64 ACCCCAGTTTTATTTCT-AAAACACCAAATTTCC-ATAATCGGGGATACTCCAACCACGGTTTTA
24320 -TTTTCAAAACACC-AATTTCCTTTAATC-GGGATACTCCAA-CTCCGATTTTATTTCCAAAAAC
127 TTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCT-CGATTTTATTT-CAAAAAC
* *
24381 ACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTT
190 ACCAATCTTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTT
* * *
24446 ACCTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAGAATATTGATTTCTCATAATT
255 ACCTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTATCATAATG
24505 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
24523 TTATTTCCGA
Statistics
Matches: 298, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
311 2 0.01
312 25 0.08
313 214 0.72
314 30 0.10
315 27 0.09
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (313 bp):
GGGGATACTCCAACCCCGGCTTTATTTCCAAAACACTAATTTCTCATAATCGGGGATACTCCAAC
CCCAGTTTTATTTCTAAAACACCAAATTTCCATAATCGGGGATACTCCAACCACGGTTTTATTTT
TCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACCTCGATTTTATTTCAAAAACACCAAT
CTTTCACAATCAAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCC
AAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTATCATAATG
Found at i:32276 original size:34 final size:35
Alignment explanation
Indices: 32238--32304 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
32228 CCTTACAACA
32238 CTATC-TTTCAA-GGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAGGGCTAAGATAG-AACCTCTCTCT
32272 CTATCTTTTTCAAGGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAGGGCTAAGATAGAACCTCTC
32305 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 14 0.47
37 11 0.37
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAGGGCTAAGATAGAACCTCTCTCT
Found at i:34952 original size:23 final size:24
Alignment explanation
Indices: 34907--34953 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
34897 CAAAGAATTG
*
34907 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
34931 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
34954 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:35999 original size:84 final size:84
Alignment explanation
Indices: 35844--36008 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
35834 CATTTTCCAC
* * * *
35844 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
35909 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
35928 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
35990 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
36009 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:37572 original size:34 final size:35
Alignment explanation
Indices: 37534--37600 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
37524 CCTTACAACA
37534 CTATC-TTTCAA-GGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAGGGCTAAGATAG-AACCTCTCTCT
37568 CTATCTTTTTCAAGGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAGGGCTAAGATAGAACCTCTC
37601 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 14 0.47
37 11 0.37
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAGGGCTAAGATAGAACCTCTCTCT
Found at i:38077 original size:13 final size:13
Alignment explanation
Indices: 38059--38084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38049 CAATTTTTTG
38059 TGTATCGATACAT
1 TGTATCGATACAT
38072 TGTATCGATACAT
1 TGTATCGATACAT
38085 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38099 original size:32 final size:33
Alignment explanation
Indices: 38039--38102 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
38029 TACAAGCCAA
** *
38039 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
38072 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
38103 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:48618 original size:18 final size:18
Alignment explanation
Indices: 48579--48619 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
48569 AAACTATGTG
* *
48579 TCAAAATGATTTCCAGTG
1 TCAAAATGATTTCCAATA
*
48597 TCAAAATGATTTTCAATA
1 TCAAAATGATTTCCAATA
48615 TCAAA
1 TCAAA
48620 GATGTTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (18 bp):
TCAAAATGATTTCCAATA
Found at i:48681 original size:21 final size:22
Alignment explanation
Indices: 48641--48681 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48631 GACAAGTCTA
*
48641 AATGTTTTTCAAACATTAAATC
1 AATGTTTTTCAAACAGTAAATC
48663 AATGTTTTTCAAA-AGTAAA
1 AATGTTTTTCAAACAGTAAA
48682 AATACTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (22 bp):
AATGTTTTTCAAACAGTAAATC
Found at i:60779 original size:29 final size:29
Alignment explanation
Indices: 60737--60796 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60727 TACTCAAAGT
60737 TTTAAATGAGGCCTATGTCCCACCAGATA
1 TTTAAATGAGGCCTATGTCCCACCAGATA
60766 TTTAAATGAGGCCTATGTCCCACCAGATA
1 TTTAAATGAGGCCTATGTCCCACCAGATA
60795 TT
1 TT
60797 CCAATAGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (29 bp):
TTTAAATGAGGCCTATGTCCCACCAGATA
Found at i:65600 original size:9 final size:9
Alignment explanation
Indices: 65588--65617 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
65578 AACAAAATCA
65588 AAAAAAGAG
1 AAAAAAGAG
65597 AAAAAA-AG
1 AAAAAAGAG
65605 AAAAAAGAG
1 AAAAAAGAG
65614 AAAA
1 AAAA
65618 GAAAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:65602 original size:10 final size:9
Alignment explanation
Indices: 65587--65626 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
65577 AAACAAAATC
65587 AAAAAAAGA
1 AAAAAAAGA
65596 GAAAAAAAGA
1 -AAAAAAAGA
*
65606 AAAAAGAGA
1 AAAAAAAGA
65615 AAAGAAAAGA
1 AAA-AAAAGA
65625 AA
1 AA
65627 CTACTTAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 11 0.41
10 16 0.59
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:65609 original size:19 final size:19
Alignment explanation
Indices: 65587--65626 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
65577 AAACAAAATC
65587 AAAAAAAGAGAAA-AAAAGA
1 AAAAAAAGA-AAAGAAAAGA
*
65606 AAAAAGAGAAAAGAAAAGA
1 AAAAAAAGAAAAGAAAAGA
65625 AA
1 AA
65627 CTACTTAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAGAAAAGA
Found at i:66253 original size:13 final size:13
Alignment explanation
Indices: 66235--66261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66225 ACATTATGCT
66235 TTGTATCGATACA
1 TTGTATCGATACA
66248 TTGTATCGATACA
1 TTGTATCGATACA
66261 T
1 T
66262 GATCATTGTA
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:66259 original size:33 final size:32
Alignment explanation
Indices: 66217--66280 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
66207 ACACTTAGAA
* *
66217 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATGAT-CATTGTATCGATACATT
66250 GTATCGATACATGATCATTGTATCGATACAT
1 GTATCGATACATGATCATTGTATCGATACAT
66281 GAAACTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
GTATCGATACATGATCATTGTATCGATACATT
Found at i:66270 original size:19 final size:19
Alignment explanation
Indices: 66246--66282 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
66236 TGTATCGATA
66246 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
66265 CATTGTATCGATACATGA
1 CATTGTATCGATACATGA
66283 AACTGGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:66335 original size:20 final size:20
Alignment explanation
Indices: 66310--66363 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
66300 CTACCACTGT
* *
66310 TTGTATTGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
66330 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
66350 TTGTATCGATACAT
1 TTGTATCGATACAT
66364 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:72429 original size:13 final size:13
Alignment explanation
Indices: 72411--72437 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72401 ACAACATTCC
72411 TTGTATCGATACA
1 TTGTATCGATACA
72424 TTGTATCGATACA
1 TTGTATCGATACA
72437 T
1 T
72438 GGGTTACTAT
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:74390 original size:28 final size:28
Alignment explanation
Indices: 74350--74415 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
74340 TTTTTTTATC
74350 TAGGGGGAGATAATCTCGTTAACCCATT
1 TAGGGGGAGATAATCTCGTTAACCCATT
*
74378 TAGGGGGAGATAATCTCGTTAACCGATT
1 TAGGGGGAGATAATCTCGTTAACCCATT
*
74406 AAGGGGGAGA
1 TAGGGGGAGA
74416 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (28 bp):
TAGGGGGAGATAATCTCGTTAACCCATT
Found at i:75027 original size:18 final size:19
Alignment explanation
Indices: 75004--75059 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
74994 ACATTATGCT
**
75004 TTGTATCGATACAT-AGTA
1 TTGTATCGATACATGAAAA
*
75022 TTGTATCAATACAATGAAAA
1 TTGTATCGATAC-ATGAAAA
75042 TTGTATCGATACATGAAA
1 TTGTATCGATACATGAAA
75060 CTAGCAGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.34
19 8 0.25
20 13 0.41
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATGAAAA
Found at i:75130 original size:20 final size:20
Alignment explanation
Indices: 75085--75138 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
75075 TTACCACTGT
75085 TTGTATCGATACATAGTACA
1 TTGTATCGATACATAGTACA
*
75105 TCGTATCGATACAT-GATGA-A
1 TTGTATCGATACATAG-T-ACA
75125 TTGTATCGATACAT
1 TTGTATCGATACAT
75139 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAGTACA
Found at i:76636 original size:61 final size:61
Alignment explanation
Indices: 76541--77296 Score: 814
Period size: 61 Copynumber: 12.4 Consensus size: 61
76531 CCTTTTATCT
* * * **
76541 TTTCAGTCCTCAAAGCA-TAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATA
1 TTTCAGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
76602 TTTCAGTCCTCGAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACA
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
76663 TTTTAGTCCTCGAAGAGCAGGATGCCTTTTCATTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
76724 TTTCAGTCCTTAAAGAGCAGGATGTCTTTTCCTTTTACAA-CCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA-AAGCCCACACAAGTTGGTGGCACC
* * *
76785 TTTCAGTCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * ** ** * *
76846 TTTCAGTCCTTAAAGAACAGGACATCTTTTCCTTTTAAAGCTTACAAAAGTTGGTGGGACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
76907 TTTCA-ACTCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCACC
1 TTTCAGTC-CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
76968 TTGT-AGTCCTTAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCGCACAAGTTGGTTGAACC
1 TT-TCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * ** ** *
77029 TTTTAGTCCTCAAAGAGTAAGATACCTTTTCCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
77090 TTTCAATCCTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCATACATA-TTAGTGGCAGC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA-AGTTGGTGGCACC
* * * * ** *
77151 TTTTAGTCCTCAAAGAGTAGGACGTCTTTCCCTTTTAAAGCCCGTACAAGTGGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
77212 -TTCTAGTCCCCAAAAAGCATG-C-CACTTTT--TTTTAAAGCCCACACAAGCTGATGGCACC
1 TTTC-AGTCCTCAAAGAGCAGGACGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
77270 -TTCTAGTCTTCAAAGAGCAGGACGCCT
1 TTTC-AGTCCTCAAAGAGCAGGACGCCT
77297 CTCTCTGTTT
Statistics
Matches: 593, Mismatches: 89, Indels: 28
0.84 0.13 0.04
Matches are distributed among these distances:
58 41 0.07
59 3 0.01
60 14 0.02
61 530 0.89
62 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (61 bp):
TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:77886 original size:50 final size:50
Alignment explanation
Indices: 77827--77962 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 50
77817 TTTCACAATT
*
77827 TGTATCGATACATCCTTCATTGTATCGATACATTCTGGG-TTTT-ACCTAGA
1 TGTATCGATACAT-TTTCATTGTATCGATACATTCTGGGTTTTTAACC-AGA
* *
77877 TGTATCGATACATTTTTCATTGTATTGATACATTTTGGGTTTTTAACCAGA
1 TGTATCGATACA-TTTTCATTGTATCGATACATTCTGGGTTTTTAACCAGA
*
77928 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTT-TCATTGTATCGATACATTC
77963 AGGCATTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
50 37 0.49
51 36 0.47
52 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (50 bp):
TGTATCGATACATTTTCATTGTATCGATACATTCTGGGTTTTTAACCAGA
Found at i:77942 original size:51 final size:50
Alignment explanation
Indices: 77827--77962 Score: 193
Period size: 51 Copynumber: 2.7 Consensus size: 50
77817 TTTCACAATT
**
77827 TGTATCGATACATCCTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
* *
77877 TGTATCGATACATTTTTCATTGTATTGATACATTTTGGGTTTTTAACC-AGA
1 TGTATCGATACATTTTTCATTGTATCGATACATTCTGGG-TTTT-ACCTAGA
* *
77928 TGTATCGATACATTTCTCAATGTATCGATACATTC
1 TGTATCGATACATTTTTCATTGTATCGATACATTC
77963 AGGCATTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
50 35 0.46
51 38 0.50
52 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (50 bp):
TGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTACCTAGA
Found at i:80346 original size:15 final size:15
Alignment explanation
Indices: 80326--80355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
80316 CTGTTATTTT
*
80326 TGAGGGACAACTCTA
1 TGAGGGAAAACTCTA
80341 TGAGGGAAAACTCTA
1 TGAGGGAAAACTCTA
80356 ACCCCAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (15 bp):
TGAGGGAAAACTCTA
Found at i:86679 original size:13 final size:13
Alignment explanation
Indices: 86661--86687 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86651 CACCCAGAAG
86661 TATCGATACATTA
1 TATCGATACATTA
86674 TATCGATACATTA
1 TATCGATACATTA
86687 T
1 T
86688 CATTGTATCG
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:86778 original size:20 final size:20
Alignment explanation
Indices: 86753--86806 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
86743 CTACCACTAT
* *
86753 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATAAA
86773 TTGTATCGATACATGATAAA
1 TTGTATCGATACATGATAAA
86793 TTGTATCGATACAT
1 TTGTATCGATACAT
86807 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATAAA
Found at i:89161 original size:52 final size:51
Alignment explanation
Indices: 89036--89339 Score: 220
Period size: 52 Copynumber: 5.9 Consensus size: 51
89026 CATCTCTTTC
* * ** * *
89036 TAAGTCTAGTGTCGCTGGTATTGAATTAGCACATTAGCACTCTTT-T-ATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTTATCA-TTT
* * * * *
89087 TAAGTCTAATGTCACTAGCCTTGAATCAGCACATTGGTACCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCAT-TT
* * * * * *
89139 TAAGTCCGATATCGCTGGCCTTGAATCCA-CATATTAGCGCTTTTATCATTT
1 TAAGTCCAATGTCGCTGGCCTTGAAT-CAGCACATTGGCACCTTTATCATTT
* *
89190 TGAAGCCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTTT
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA-TTT
* * * ** * *
89243 TAAGTCCAATGTCGATGGCCTTAAATTAGCACATTGATA-GTCTTCTCATTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATCATTT
* * * * *
89294 TCAAGTCTAATGTCGTTGGCCTTAAATTAGCTCATTGGCACTCTTT
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTT
89340 CTATCCTTAT
Statistics
Matches: 200, Mismatches: 42, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
50 4 0.02
51 44 0.22
52 143 0.71
53 8 0.04
54 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (51 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTT
Found at i:89292 original size:104 final size:104
Alignment explanation
Indices: 89094--89339 Score: 244
Period size: 104 Copynumber: 2.4 Consensus size: 104
89084 TTTTAAGTCT
* * * * * *
89094 AATGTCACTAGCCTTGAATCAGCACATTGGTACCTTTGTCATCTTTAAGTCCGATATCGCTGGCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGATGGCC
* * * * *
89159 TTGAATCCACATATTAGCGCTTTTATCATTTTGAAGCCC
66 TTAAATCCACATATGAGAGCTCTTATCATTTTCAAGCCC
* * *
89198 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATTTTTAAGTCCAATGTCGATGGCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGATGGCC
* * * * *
89263 TTAAATTAGCACAT-TGATAG-TCTTCTCATTTTCAAGTCT
66 TTAAA-T-CCACATATGAGAGCTCTTATCATTTTCAAGCCC
* * * *
89302 AATGTCGTTGGCCTTAAATTAGCTCATTGGCACTCTTT
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTT
89340 CTATCCTTAT
Statistics
Matches: 115, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
104 102 0.89
105 8 0.07
106 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (104 bp):
AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCATCTTTAAGTCCAATATCGATGGCC
TTAAATCCACATATGAGAGCTCTTATCATTTTCAAGCCC
Found at i:90066 original size:20 final size:21
Alignment explanation
Indices: 90041--90095 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
90031 ACAATAGGGT
*
90041 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
** **
90061 AATGTATTAATACATGTCTGA
1 AATGTATCGATACATAACTGA
90082 AATGTATCGATACA
1 AATGTATCGATACA
90096 GGACCATATC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:90210 original size:51 final size:52
Alignment explanation
Indices: 90131--90255 Score: 180
Period size: 51 Copynumber: 2.4 Consensus size: 52
90121 TCTTGAATGA
* *
90131 AAATGTATCGATACATTTTTCATTGTATCGATGCATTATGGG-TTTTGACCC
1 AAATGTATCGATACATTCTTCATCGTATCGATGCATTATGGGTTTTTGACCC
* * * *
90182 AAATGTATCGATATATTCTTCATCGTATCGATGCATTTTGGGTTTTTGATCT
1 AAATGTATCGATACATTCTTCATCGTATCGATGCATTATGGGTTTTTGACCC
*
90234 AAATGCATCGATACATTCTTCA
1 AAATGTATCGATACATTCTTCA
90256 ATGTATGGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 38 0.58
52 27 0.42
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATCGTATCGATGCATTATGGGTTTTTGACCC
Found at i:90934 original size:370 final size:370
Alignment explanation
Indices: 90253--90993 Score: 1347
Period size: 370 Copynumber: 2.0 Consensus size: 370
90243 GATACATTCT
90253 TCAATGTATGGATACATGCAAGCAAATTTACACATTTTGTGACATTTTCTTCCATTGCCACACCA
1 TCAATGTATGGATACATGCAAGCAAATTTACACATTTTGTGACATTTTCTTCCATTGCCACACCA
90318 CATTTAATGCCTGGTTCAAATGAGCTTTTCATAGCAGAAATAATCAGAATTCATGTCAATATCAA
66 CATTTAATGCCTGGTTCAAATGAGCTTTTCATAGCAGAAATAATCAGAATTCATGTCAATATCAA
*
90383 TTATCAAACTTCAAATTCAAGCTTTGATCATTTTGGGAGCTCAAGGCATTGCATTAATGAGAGAT
131 TTATCAAACTTCAAATTCAAGCTTTGATCATTTTGGGAGCTCAAGGCATTGCATTAACGAGAGAT
*
90448 GGCATGATAGAGCTCATTATCAACCTTGGCTACTGAGCATTAACTCTAACCACCCCATCTTTCCT
196 GGCAAGATAGAGCTCATTATCAACCTTGGCTACTGAGCATTAACTCTAACCACCCCATCTTTCCT
* *
90513 TCTGAGTTCTAGCAAGCCACCATAGCATTAGTATCAGCTACCCTACTTAGCCACCTCTTCCAACA
261 TCTGAGTTCTAGCAAGCCACCATAGCATTAGCATCAGCTACCCTACTTAGCCACCTCTACCAACA
* *
90578 AACACCATTAATGCTATGAGAGGGAAATATCTTAAATACCCTTAA
326 AACACCATTAATGCTAAGAGAAGGAAATATCTTAAATACCCTTAA
*
90623 TCAATGTATGGATACATGCAAGCAAATTTACACATTTTGTGACATTTTCTTCCATTGCCACGCCA
1 TCAATGTATGGATACATGCAAGCAAATTTACACATTTTGTGACATTTTCTTCCATTGCCACACCA
* ** *
90688 CATTTAATGCCTGGTTCAAATGAGTTTTTTGTAGCATAAATAATCAGAATTCATGTCAATATCAA
66 CATTTAATGCCTGGTTCAAATGAGCTTTTCATAGCAGAAATAATCAGAATTCATGTCAATATCAA
90753 TTATCAAACTTCAAATTCAAGCTTTGATCATTTTGGGAGCTCAAGGCATTGCATTAACGAGAGAT
131 TTATCAAACTTCAAATTCAAGCTTTGATCATTTTGGGAGCTCAAGGCATTGCATTAACGAGAGAT
*
90818 GGCAAGATAGAGCTCATTATCAACCTTGGCTGCTGAGCATTAACTCTAACCACCCCATCTTTCCT
196 GGCAAGATAGAGCTCATTATCAACCTTGGCTACTGAGCATTAACTCTAACCACCCCATCTTTCCT
* * *
90883 TTTGAGTTCTAGCAAGCCACCATAGCATTAGCATTAGCTACCCTACTTAGCCACCTCTACCAGCA
261 TCTGAGTTCTAGCAAGCCACCATAGCATTAGCATCAGCTACCCTACTTAGCCACCTCTACCAACA
90948 AACACCATTAATGCTAAGAGAAGGAAATATCTTAAATACCCTTAA
326 AACACCATTAATGCTAAGAGAAGGAAATATCTTAAATACCCTTAA
90993 T
1 T
90994 TTTGGCTCTA
Statistics
Matches: 356, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
370 356 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (370 bp):
TCAATGTATGGATACATGCAAGCAAATTTACACATTTTGTGACATTTTCTTCCATTGCCACACCA
CATTTAATGCCTGGTTCAAATGAGCTTTTCATAGCAGAAATAATCAGAATTCATGTCAATATCAA
TTATCAAACTTCAAATTCAAGCTTTGATCATTTTGGGAGCTCAAGGCATTGCATTAACGAGAGAT
GGCAAGATAGAGCTCATTATCAACCTTGGCTACTGAGCATTAACTCTAACCACCCCATCTTTCCT
TCTGAGTTCTAGCAAGCCACCATAGCATTAGCATCAGCTACCCTACTTAGCCACCTCTACCAACA
AACACCATTAATGCTAAGAGAAGGAAATATCTTAAATACCCTTAA
Found at i:96361 original size:22 final size:22
Alignment explanation
Indices: 96336--96377 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
96326 TTCTTTATAT
96336 AAAATT-AAAAATCAAAAAATTA
1 AAAATTAAAAAAT-AAAAAATTA
96358 AAAATTAAAAAATAAAAAAT
1 AAAATTAAAAAATAAAAAAT
96378 CAATCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAAATAAAAAATTA
Found at i:96400 original size:15 final size:15
Alignment explanation
Indices: 96336--96430 Score: 72
Period size: 15 Copynumber: 6.5 Consensus size: 15
96326 TTCTTTATAT
*
96336 AAAATTAAAAATCAA
1 AAAATAAAAAATCAA
* *
96351 AAAATTAAAAATTAA
1 AAAATAAAAAATCAA
96366 AAAATAAAAAATC-A
1 AAAATAAAAAATCAA
**
96380 ATCA-AAAAAATCAA
1 AAAATAAAAAATCAA
96394 AAACA-AAAAAAT-AA
1 AAA-ATAAAAAATCAA
* * *
96408 AATATAAAATATAAA
1 AAAATAAAAAATCAA
96423 AATAATAA
1 AA-AATAA
96431 TTAATTAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
13 9 0.14
14 15 0.23
15 37 0.57
16 4 0.06
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAAATCAA
Found at i:96409 original size:7 final size:7
Alignment explanation
Indices: 96336--96424 Score: 65
Period size: 7 Copynumber: 12.4 Consensus size: 7
96326 TTCTTTATAT
*
96336 AAAATTA
1 AAAATAA
96343 AAAATCAA
1 AAAAT-AA
96351 AAAATTAA
1 AAAA-TAA
*
96359 AAATTAA
1 AAAATAA
96366 AAAATAA
1 AAAATAA
*
96373 AAAATCA
1 AAAATAA
**
96380 ATCA-AA
1 AAAATAA
96386 AAAATCAA
1 AAAAT-AA
96394 AAACA-AA
1 AAA-ATAA
96401 AAAATAA
1 AAAATAA
*
96408 AATATAA
1 AAAATAA
*
96415 AATATAA
1 AAAATAA
96422 AAA
1 AAA
96425 TAATAATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
6 4 0.06
7 44 0.68
8 15 0.23
9 2 0.03
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:96424 original size:35 final size:35
Alignment explanation
Indices: 96334--96425 Score: 82
Period size: 35 Copynumber: 2.6 Consensus size: 35
96324 GTTTCTTTAT
* **
96334 ATAAAAT-TAAAA-ATCAAAAAATTAAAAATTAAAAA
1 ATAAAATATAAAATAT--AAAAATCAAAAACAAAAAA
* * *
96369 ATAAAAAAT-CAATCAAAAAAATCAAAAACAAAAAA
1 ATAAAATATAAAAT-ATAAAAATCAAAAACAAAAAA
96404 ATAAAATATAAAATATAAAAAT
1 ATAAAATATAAAATATAAAAAT
96426 AATAATTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
35 39 0.89
36 4 0.09
37 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (35 bp):
ATAAAATATAAAATATAAAAATCAAAAACAAAAAA
Found at i:96617 original size:88 final size:88
Alignment explanation
Indices: 96468--96632 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 88
96458 AAAAAAGGTC
*
96468 CATGCATTTCATACTTTTATGTAAAGCTTAAGAAACATTTCATGCATTGCATTCATTTCATTGTA
1 CATGCATTTCATACTTTCATGTAAAGCTTAAGAAACATTTCATGCATTGCATTCATTTCATTGTA
*
96533 TTGGTTTCATGCCTTCATGCATA
66 TTGCTTTCATGCCTTCATGCATA
*
96556 CATGCATTTCATACTTTCATGTGAAA-CTTAGGAAACATTTCATGCATTGCATTCATTTCATTGT
1 CATGCATTTCATACTTTCATGT-AAAGCTTAAGAAACATTTCATGCATTGCATTCATTTCATTGT
96620 ATTGCTTTCATGC
65 ATTGCTTTCATGC
96633 ATGCATTTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
88 70 0.96
89 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.42
Consensus pattern (88 bp):
CATGCATTTCATACTTTCATGTAAAGCTTAAGAAACATTTCATGCATTGCATTCATTTCATTGTA
TTGCTTTCATGCCTTCATGCATA
Found at i:97443 original size:13 final size:13
Alignment explanation
Indices: 97425--97450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97415 ACTATTTATG
97425 ATGTATCGATACA
1 ATGTATCGATACA
97438 ATGTATCGATACA
1 ATGTATCGATACA
97451 TGAATAGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:97562 original size:22 final size:22
Alignment explanation
Indices: 97507--97562 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
97497 CGTGAACAGT
97507 ATGAACAGTGATGCATCGATAC
1 ATGAACAGTGATGCATCGATAC
97529 ATGAA-AGTGATGCATCGATAC
1 ATGAACAGTGATGCATCGATAC
97550 ATGAACAGTGATG
1 ATGAACAGTGATG
97563 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (22 bp):
ATGAACAGTGATGCATCGATAC
Found at i:97569 original size:10 final size:10
Alignment explanation
Indices: 97550--97580 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
97540 GCATCGATAC
97550 ATGAACAGTG
1 ATGAACAGTG
*
97560 ATGAATAGTG
1 ATGAACAGTG
97570 ATGAACAGTG
1 ATGAACAGTG
97580 A
1 A
97581 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:97670 original size:53 final size:53
Alignment explanation
Indices: 97605--97740 Score: 236
Period size: 53 Copynumber: 2.6 Consensus size: 53
97595 CTACTGCCAA
97605 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
97658 TGTATCGATACATATTCTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
97711 GGTATCGATACATATTGTGTATATCGATAC
1 TGTATCGATACATATTGTGTGTATCGATAC
97741 TATGCAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 78 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:99779 original size:79 final size:79
Alignment explanation
Indices: 99691--100267 Score: 472
Period size: 79 Copynumber: 7.3 Consensus size: 79
99681 AAATTTCTAT
* * * *
99691 AATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAG-TTTTTTTTTCAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCT-AAA
*
99755 ACATCGACTTTTCAC
65 ACATCGATTTTTCAC
** * * * * **
99770 AATCGGGGATACTCCAACCTTGTTATTTTTGAGGGGATACTCAAATCCTGGCCCTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
*
99835 CATCGA-TTTTCTAT
66 CATCGATTTTTC-AC
* * * **** * *
99849 AATTGGGGATACTCCAACCCCGTTATTTCTAAAGGGATACTCCAACCTCAAATTTTTTTTTCCAA
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC-C-CGGCTTTATTTCTAA
* * *
99914 AACACCGACTCTTCAC
64 AACATCGATTTTTCAC
* * * * *
99930 AATCAGAGATACTCCAACCCCGTTATTTTCT-AGGGGATACTCCAATCTCGGCCTTATTTCTAAA
1 AATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAA
* *
99994 ACATAGATTTTTCAT
65 ACATCGATTTTTCAC
** * * **
100009 AATCGGGGATACT-CAATCCCTATTATTTTTGAGGGGATACACCAACCCCGATTTTATTT-TCAA
1 AATCGGGGATACTCCAA-CCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCT-AA
* *
100072 AACACCGATTTTTCCC
64 AACATCGATTTTTCAC
** * *
100088 AAT-GGGGATACTCCAACCCTATTATTT-TCGAGGAGATACTCCAACCCTGGCTTTATTTCTAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGGCTTTATTTCTAAA
100151 ACATCGATTTTTCAC
65 ACATCGATTTTTCAC
* * *** * *
100166 AATCGGGGATACTCTAGCCCCGTTATTTCTGAGACAACACTCCAACCCCGGTCTGT-TTTC-AAA
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGG-CTTTATTTCTAAA
*
100229 ACAAT-AATTTTTCAC
65 AC-ATCGATTTTTCAC
* ** **
100244 CATTAGGGATACTTAAACCCCGTT
1 AATCGGGGATACTCCAACCCCGTT
100268 TCTATCTCCA
Statistics
Matches: 393, Mismatches: 89, Indels: 33
0.76 0.17 0.06
Matches are distributed among these distances:
77 1 0.00
78 108 0.27
79 214 0.54
80 10 0.03
81 51 0.13
82 9 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
CATCGATTTTTCAC
Found at i:99948 original size:160 final size:158
Alignment explanation
Indices: 99684--100195 Score: 656
Period size: 160 Copynumber: 3.2 Consensus size: 158
99674 AATACCAAAA
*
99684 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAGTTTTTTT
1 TTTC-ATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAATTTTTTT
* * *
99749 TTCAAAACATCGACTTTTCACAATCGGGGATACTCCAACCTTGTTATTTTTGAGGGGATACTCAA
65 TTCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCA
*
99814 ATCCTGGCCCTATTTCTAAAACATCGA-T
130 ATCCTGGCCTTATTTCTAAAACATCGATT
* * *
99842 TTTCTATAATTGGGGATACTCCAACCCCGTTATTTCTAAAGGGATACTCCAACCTCAAATTTTTT
1 TTTC-ATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACC-CCAATTTTTT
* * * *
99907 TTTCCAAAACACCGACTCTTCACAATCAGAGATACTCCAACCCCGTTATTTTCT-AGGGGATACT
64 TTT-CAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTT-TGAGGGGATACT
*
99971 CCAAT-CTCGGCCTTATTTCTAAAACATAGATT
127 CCAATCCT-GGCCTTATTTCTAAAACATCGATT
** * * * * *
100003 TTTCATAATCGGGGATACT-CAATCCCTATTATTTTTGAGGGGATACACCAACCCCGATTTTATT
1 TTTCATAATCGGGGATACTCCAA-CCCCGTTATTTCTAAGGGGATACTCCAACCCCAATTTTTTT
* * * * *
100067 TTCAAAACACCGATTTTTCCCAAT-GGGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCA
65 TTCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCA
* *
100131 ACCCTGGCTTTATTTCTAAAACATCGATT
130 ATCCTGGCCTTATTTCTAAAACATCGATT
* * *
100160 TTTCACAATCGGGGATACTCTAGCCCCGTTATTTCT
1 TTTCATAATCGGGGATACTCCAACCCCGTTATTTCT
100196 GAGACAACAC
Statistics
Matches: 304, Mismatches: 41, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
157 84 0.28
158 74 0.24
159 26 0.09
160 114 0.38
161 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
TTTCATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAATTTTTTTT
TCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAA
TCCTGGCCTTATTTCTAAAACATCGATT
Found at i:100253 original size:157 final size:156
Alignment explanation
Indices: 99684--100256 Score: 596
Period size: 160 Copynumber: 3.6 Consensus size: 156
99674 AATACCAAAA
* *
99684 TTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAGTTTTTTT
1 TTTC-ATAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACCCC-GTTTTTTT
* * * * *
99749 TTCAAAACATCGACTTTTCACAATCGGGGATACTCCAACCTTGTTATTTTTGAGGGGATACTCAA
64 TTCAAAACAACGACTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCA
*
99814 ATCCTGGCCCTATTTCTAAAACATCGA-T
129 A-CCTGGCCTTATTTCTAAAACATCGATT
* * **
99842 TTTCTATAATTGGGGATACTCCAACCCCGTTATTTCT-AAAGGGATACTCCAACCTCAAATTTTT
1 TTTC-ATAATCGGGGATACTCCAACCCCGTTATTTCTGAGA-GGATACTCCAACC-C-CGTTTTT
* * * * *
99906 TTTTCCAAAACACCGACTCTTCACAATCAGAGATACTCCAACCCCGTTATTTTCTAGGGGATACT
62 TTTT-CAAAACAACGACTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACT
* *
99971 CCAATCTCGGCCTTATTTCTAAAACATAGATT
126 CCAACCT-GGCCTTATTTCTAAAACATCGATT
** * * * *
100003 TTTCATAATCGGGGATACT-CAATCCCTATTATTTTTGAGGGGATACACCAACCCCGATTTTATT
1 TTTCATAATCGGGGATACTCCAA-CCCCGTTATTTCTGAGAGGATACTCCAACCCCG-TTTTTTT
* * * * * *
100067 TTCAAAACACCGATTTTTCCCAAT-GGGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCA
64 TTCAAAACAACGACTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCA
*
100131 ACCCTGGCTTTATTTCTAAAACATCGATT
129 A-CCTGGCCTTATTTCTAAAACATCGATT
* * * ** * * * *
100160 TTTCACAATCGGGGATACTCTAGCCCCGTTATTTCTGAGACAACACTCCAACCCCGGTCTGTTTT
1 TTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACCCCGTTTTTTTTT
** * * *
100225 CAAAACAATAATTTTTCACCATTAGGGATACT
66 CAAAACAACGACTTTTCACAATCAGGGATACT
100257 TAAACCCCGT
Statistics
Matches: 344, Mismatches: 59, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
156 23 0.07
157 109 0.32
158 71 0.21
159 24 0.07
160 111 0.32
161 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (156 bp):
TTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACCCCGTTTTTTTTT
CAAAACAACGACTTTTCACAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAAC
CTGGCCTTATTTCTAAAACATCGATT
Found at i:100263 original size:157 final size:157
Alignment explanation
Indices: 99937--100263 Score: 361
Period size: 157 Copynumber: 2.1 Consensus size: 157
99927 CACAATCAGA
* ** * * *
99937 GATACTCCAACCCCGTTATTTTCTAGGGGATACTCCAATCTCGGCCTTATTTCTAAAACATAGAT
1 GATACTCAAACCCTATTATTTTCGAGGAGATACTCCAACCTCGGCCTTATTTCTAAAACATAGAT
* * * * *** * * *
100002 TTTTCATAATCGGGGATACTCAATCCCTATTATTTTTGAGGGGATACACCAACCCCGATTTTATT
66 TTTTCACAATCGGGGATACTCAAGCCCCATTATTTCTGAGACAACACACCAACCCCGAGTCTATT
* * *
100067 TTCAAAACACCGATTTTTCCCAATGGG
131 TTCAAAACAACAATTTTTCCCAATAGG
* * *
100094 GATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACC-CTGGCTTTATTTCTAAAACATCGA
1 GATACTCAAACCCTATTATTTTCGAGGAGATACTCCAACCTC-GGCCTTATTTCTAAAACATAGA
* * * *
100158 TTTTTCACAATCGGGGATACTCTAGCCCCGTTATTTCTGAGACAACACTCCAACCCCG-GTCTGT
65 TTTTTCACAATCGGGGATACTCAAGCCCCATTATTTCTGAGACAACACACCAACCCCGAGTCTAT
* *
100222 TTTCAAAACAATAATTTTTCACCATTAGG
130 TTTCAAAACAACAATTTTTC-CCAATAGG
*
100251 GATACTTAAACCC
1 GATACTCAAACCC
100264 CGTTTCTATC
Statistics
Matches: 140, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
156 21 0.15
157 119 0.85
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (157 bp):
GATACTCAAACCCTATTATTTTCGAGGAGATACTCCAACCTCGGCCTTATTTCTAAAACATAGAT
TTTTCACAATCGGGGATACTCAAGCCCCATTATTTCTGAGACAACACACCAACCCCGAGTCTATT
TTCAAAACAACAATTTTTCCCAATAGG
Found at i:106864 original size:20 final size:20
Alignment explanation
Indices: 106834--106889 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
106824 CAAATTATAG
*
106834 CCATTTATCGATACAAT-TCA
1 CCATGTATCGATACAATGT-A
*
106854 TCATGTATCGATACAATGTA
1 CCATGTATCGATACAATGTA
106874 CCATGTATCGATACAA
1 CCATGTATCGATACAA
106890 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
CCATGTATCGATACAATGTA
Found at i:106962 original size:19 final size:19
Alignment explanation
Indices: 106917--106971 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
106907 ACTGCCAGTT
*
106917 TCATGTATCGATACAATTG
1 TCATGTATTGATACAATTG
106936 TCCATGTATTGATACAA-TG
1 T-CATGTATTGATACAATTG
106955 ATCATGTATTGATACAA
1 -TCATGTATTGATACAA
106972 AGCATAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
TCATGTATTGATACAATTG
Found at i:106983 original size:20 final size:19
Alignment explanation
Indices: 106939--106983 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
106929 ACAATTGTCC
* *
106939 ATGTATTGATACAATGATC
1 ATGTATTGATACAAAGATA
106958 ATGTATTGATACAAAGCATA
1 ATGTATTGATACAAAG-ATA
106978 ATGTAT
1 ATGTAT
106984 CAATACATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGTATTGATACAAAGATA
Found at i:107615 original size:24 final size:24
Alignment explanation
Indices: 107587--107635 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
107577 TCAGTTAAAG
107587 AGATTTTCTCCC-CCTAGATAAAAA
1 AGATTTTCTCCCTCC-AGATAAAAA
107611 AGATTTTCTCCCTCCAGATAAAAA
1 AGATTTTCTCCCTCCAGATAAAAA
107635 A
1 A
107636 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (24 bp):
AGATTTTCTCCCTCCAGATAAAAA
Found at i:115700 original size:19 final size:19
Alignment explanation
Indices: 115655--115708 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
115645 ACTTCTAGTT
*
115655 TCATGCATCGATACAATTG
1 TCATGTATCGATACAATTG
115674 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
115693 ATCATGTATCGATACA
1 -TCATGTATCGATACA
115709 TCCAGGTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:117221 original size:13 final size:13
Alignment explanation
Indices: 117203--117230 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
117193 ACTTTTCACT
117203 ATGTATTGATACA
1 ATGTATTGATACA
117216 ATGTATTGATACA
1 ATGTATTGATACA
117229 AT
1 AT
117231 CTCCCATGTA
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:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:125342 original size:13 final size:13
Alignment explanation
Indices: 125324--125348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125314 CATTATGCTT
125324 TGTATCGATACAA
1 TGTATCGATACAA
125337 TGTATCGATACA
1 TGTATCGATACA
125349 TGTTCATTGT
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:125345 original size:33 final size:32
Alignment explanation
Indices: 125303--125365 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
125293 ATACACCTAG
*
125303 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
125336 ATGTATCGATACATGTTCATTGTATCGATA
1 ATGTATCGATACATGTTCATTGTATCGATA
125366 TATGAAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:125442 original size:33 final size:33
Alignment explanation
Indices: 125399--125463 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
125389 TACCACTGTT
* *
125399 TGTATTGATACATG-GGACATTGTATTGATACAA
1 TGTATCGATACATGCGGA-ATTGTATCGATACAA
*
125432 TGTATCGATACATGCTGAATTGTATCGATACA
1 TGTATCGATACATGCGGAATTGTATCGATACA
125464 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGCGGAATTGTATCGATACAA
Found at i:136136 original size:15 final size:15
Alignment explanation
Indices: 136116--136146 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
136106 TAAAAATGTC
*
136116 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
136131 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
136146 C
1 C
136147 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:138231 original size:45 final size:44
Alignment explanation
Indices: 138160--138266 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 44
138150 AAATGTCCAA
*
138160 AATGTATCGATACATGTTTTTGTGTATCGATACATCTGGA-AATTC
1 AATGTATCGATACAT-TTTTTGTGTATCGATACAT-TGGACAATAC
* * *
138205 AATGTATCGATACATTTTTCTTTGTATCGATACATTGTATCGATAC
1 AATGTATCGATACATTTTT-TGTGTATCGATACATTGGA-CAATAC
138251 AATGTATCGATACATT
1 AATGTATCGATACATT
138267 GTATCGATAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 7 0.13
45 29 0.53
46 19 0.35
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (44 bp):
AATGTATCGATACATTTTTTGTGTATCGATACATTGGACAATAC
Found at i:138244 original size:13 final size:13
Alignment explanation
Indices: 138226--138290 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
138216 ACATTTTTCT
138226 TTGTATCGATACA
1 TTGTATCGATACA
138239 TTGTATCGATACA
1 TTGTATCGATACA
*
138252 ATGTATCGATACA
1 TTGTATCGATACA
138265 TTGTATCGATACA
1 TTGTATCGATACA
*
138278 ATGTATCGATACA
1 TTGTATCGATACA
138291 GGGTGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:138263 original size:26 final size:26
Alignment explanation
Indices: 138227--138290 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
138217 CATTTTTCTT
138227 TGTATCGATACATTGTATCGATACAA
1 TGTATCGATACATTGTATCGATACAA
138253 TGTATCGATACATTGTATCGATACAA
1 TGTATCGATACATTGTATCGATACAA
138279 TGTATCGATACA
1 TGTATCGATACA
138291 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAA
Found at i:138454 original size:20 final size:20
Alignment explanation
Indices: 138411--138456 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
138401 AAATCTTTTG
138411 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
138432 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
138452 CAAAA
1 CAAAA
138457 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:140855 original size:13 final size:13
Alignment explanation
Indices: 140837--140862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
140827 TACAGCAAGT
140837 ATGTATCGATACA
1 ATGTATCGATACA
140850 ATGTATCGATACA
1 ATGTATCGATACA
140863 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:140947 original size:20 final size:21
Alignment explanation
Indices: 140917--140955 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
140907 CTATATTTTC
140917 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
140938 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
140956 TACACGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:144110 original size:235 final size:235
Alignment explanation
Indices: 143699--144172 Score: 930
Period size: 235 Copynumber: 2.0 Consensus size: 235
143689 TCTTACTGCT
143699 AATAGACCGGATATTATGTTTAGCATATGTCTATGTGCCCGTTTTCAATCCGCACCTAGGGAGTC
1 AATAGACCGGATATTATGTTTAGCATATGTCTATGTGCCCGTTTTCAATCCGCACCTAGGGAGTC
143764 TCATTTACTTGCCATAAAAAGAATTTTTAAATATTTACGAGACACTCCAAACCTAGGATTGTGGT
66 TCATTTACTTGCCATAAAAAGAATTTTTAAATATTTACGAGACACTCCAAACCTAGGATTGTGGT
143829 ACCCTAAGGAATCCTACCTAGTTTTACATGCTTACTCGGATGCAGATTTTTGTGGTTGTAAAATA
131 ACCCTAAGGAATCCTACCTAGTTTTACATGCTTACTCGGATGCAGATTTTTGTGGTTGTAAAATA
*
143894 GATTTGAAAGAGCACTTCCAATACTTGTCAATTCTTTGAC
196 GATTTGAAAGAGCACTTCCAATACTTGTCAATTCTTTGAA
143934 AATAGACCGGATATTATGTTTAGCATATGTCTATGTGCCCGTTTTCAATCCGCACCTAGGGAGTC
1 AATAGACCGGATATTATGTTTAGCATATGTCTATGTGCCCGTTTTCAATCCGCACCTAGGGAGTC
143999 TCATTTACTTGCCATAAAAAGAATTTTTAAATATTTACGAGACACTCCAAACCTAGGATTGTGGT
66 TCATTTACTTGCCATAAAAAGAATTTTTAAATATTTACGAGACACTCCAAACCTAGGATTGTGGT
*
144064 ACCTTAAGGAATCCTACCTAGTTTTACATGCTTACTCGGATGCAGATTTTTGTGGTTGTAAAATA
131 ACCCTAAGGAATCCTACCTAGTTTTACATGCTTACTCGGATGCAGATTTTTGTGGTTGTAAAATA
144129 GATTTGAAAGAGCACTTCCAATACTTGTCAATTCTTTGAA
196 GATTTGAAAGAGCACTTCCAATACTTGTCAATTCTTTGAA
144169 AATA
1 AATA
144173 TGCTCAAATC
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
235 237 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (235 bp):
AATAGACCGGATATTATGTTTAGCATATGTCTATGTGCCCGTTTTCAATCCGCACCTAGGGAGTC
TCATTTACTTGCCATAAAAAGAATTTTTAAATATTTACGAGACACTCCAAACCTAGGATTGTGGT
ACCCTAAGGAATCCTACCTAGTTTTACATGCTTACTCGGATGCAGATTTTTGTGGTTGTAAAATA
GATTTGAAAGAGCACTTCCAATACTTGTCAATTCTTTGAA
Found at i:147520 original size:13 final size:13
Alignment explanation
Indices: 147502--147526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147492 CATTATGCTT
147502 TGTATCGATACAA
1 TGTATCGATACAA
147515 TGTATCGATACA
1 TGTATCGATACA
147527 TGTTCATTGT
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:147557 original size:20 final size:20
Alignment explanation
Indices: 147515--147567 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
147505 ATCGATACAA
* *
147515 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
147534 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
147554 TGTATCGATACATG
1 TGTATCGATACATG
147568 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:151369 original size:17 final size:18
Alignment explanation
Indices: 151339--151380 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
151329 CAGATTTTAA
151339 AGCATTTAAATCTAACTT
1 AGCATTTAAATCTAACTT
*
151357 AGGATTT-AATCTAACTT
1 AGCATTTAAATCTAACTT
151374 AGCATTT
1 AGCATTT
151381 TAAAGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (18 bp):
AGCATTTAAATCTAACTT
Found at i:153861 original size:101 final size:101
Alignment explanation
Indices: 153685--153886 Score: 323
Period size: 101 Copynumber: 2.0 Consensus size: 101
153675 CTTTAACACT
*
153685 TGGGTGGTCAAATGGTTTAGTAGATCCTACTCTCGATCTATGAACATGATTAATAAGATTGAGAA
1 TGGGTGGTCAAATGATTTAGTAGATCCTACTCTCGATCTATGAACATGATTAATAAGATTGAGAA
*
153750 TGTTCTTTGCCAACAAGTTGGAAAACTAATGGGTCA
66 TGTTCATTGCCAACAAGTTGGAAAACTAATGGGTCA
* * * * * *
153786 TGGGTGGTCAGATGATTTAGTAGATCTTGCTCTTGATCTATGAACATTATTAATAAGATTGATAA
1 TGGGTGGTCAAATGATTTAGTAGATCCTACTCTCGATCTATGAACATGATTAATAAGATTGAGAA
*
153851 TGTTCATTGCCAACATGTTGGAAAACTAATGGGTCA
66 TGTTCATTGCCAACAAGTTGGAAAACTAATGGGTCA
153887 CACACAATAA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (101 bp):
TGGGTGGTCAAATGATTTAGTAGATCCTACTCTCGATCTATGAACATGATTAATAAGATTGAGAA
TGTTCATTGCCAACAAGTTGGAAAACTAATGGGTCA
Found at i:154377 original size:13 final size:13
Alignment explanation
Indices: 154359--154390 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
154349 ACATTATGCT
154359 TTGTATCGATACA
1 TTGTATCGATACA
154372 TTGTATCGATACA
1 TTGTATCGATACA
154385 TGTGTA
1 T-TGTA
154391 GACACCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:162953 original size:34 final size:35
Alignment explanation
Indices: 162915--162981 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
162905 CCTTACAACA
162915 CTATC-TTTC-AAGGCTAAGACAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGACAG-AACCTCTCTCT
*
162949 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGACAGAACCTCTC
162982 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGACAGAACCTCTCTCT
Found at i:163454 original size:20 final size:20
Alignment explanation
Indices: 163429--163482 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
163419 GTATGAACAG
163429 TGATGTATCGATACTATTTA
1 TGATGTATCGATACTATTTA
163449 TGATGTATCGATACTATTTA
1 TGATGTATCGATACTATTTA
163469 TGATGTATCGATAC
1 TGATGTATCGATAC
163483 ACTGTATCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (20 bp):
TGATGTATCGATACTATTTA
Found at i:163490 original size:13 final size:13
Alignment explanation
Indices: 163472--163496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163462 CTATTTATGA
163472 TGTATCGATACAC
1 TGTATCGATACAC
163485 TGTATCGATACA
1 TGTATCGATACA
163497 TGAATAGTGA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:163575 original size:21 final size:22
Alignment explanation
Indices: 163544--163599 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
163534 ACTGTGACCT
163544 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
163566 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
163587 ATGAATAGTGATG
1 ATGAACAGTGATG
163600 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:163602 original size:10 final size:10
Alignment explanation
Indices: 163587--163617 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
163577 GTATCGATAC
163587 ATGAATAGTG
1 ATGAATAGTG
163597 ATGAATAGTG
1 ATGAATAGTG
*
163607 ATGAACAGTG
1 ATGAATAGTG
163617 A
1 A
163618 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:163705 original size:53 final size:53
Alignment explanation
Indices: 163641--163777 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
163631 CTACTTCCAA
163641 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * * * *
163694 TGTATCGATACATATTGTGTGTATCAATACAAATTTGGCTATTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
163747 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
163778 TATGCAATCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 64 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:163813 original size:21 final size:20
Alignment explanation
Indices: 163765--163816 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
163755 TACATATTTG
**
163765 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
163785 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
163806 TGTGTATCGAT
1 TGTGTATCGAT
163817 CCTTTTCAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:163884 original size:21 final size:21
Alignment explanation
Indices: 163858--163898 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
163848 GTCAACCTTG
163858 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
163879 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
163899 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:165891 original size:20 final size:21
Alignment explanation
Indices: 165852--165893 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
165842 AAGTATAGAA
*
165852 GTTTTTCAAGCGTAACAATAAT
1 GTTTTTCAA-CGTAAAAATAAT
165874 GTTTTTCAA-GTAAAAATAAT
1 GTTTTTCAACGTAAAAATAAT
165894 TCAAAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
GTTTTTCAACGTAAAAATAAT
Found at i:166026 original size:13 final size:13
Alignment explanation
Indices: 166008--166032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165998 ATATTGCTTA
166008 GTATCGATACATT
1 GTATCGATACATT
166021 GTATCGATACAT
1 GTATCGATACAT
166033 GTTCTTGGTA
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:166049 original size:32 final size:33
Alignment explanation
Indices: 165987--166050 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
165977 CATACCTAGA
165987 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* *
166020 TGTATCGATACATGTT-CTTGGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
166051 CCTTGAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:166675 original size:32 final size:36
Alignment explanation
Indices: 166599--166678 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 36
166589 ATTAAGAGGC
**
166599 TCTATCTTAGCCTTTGAAAAAGATATGGAGAGAGAT
1 TCTATCTTAGCCCGTGAAAAAGATATGGAGAGAGAT
*
166635 TCTATCTTAGCCCGTG-AAAAGATA-GG-GAG-GTT
1 TCTATCTTAGCCCGTGAAAAAGATATGGAGAGAGAT
166667 TCTATCTTAGCC
1 TCTATCTTAGCC
166679 TTGAAAGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 14 0.34
33 3 0.07
34 2 0.05
35 8 0.20
36 14 0.34
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (36 bp):
TCTATCTTAGCCCGTGAAAAAGATATGGAGAGAGAT
Found at i:171710 original size:19 final size:19
Alignment explanation
Indices: 171686--171722 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
171676 ACTGCCAGTT
171686 TCATGTATCGATACAATGA
1 TCATGTATCGATACAATGA
171705 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
171723 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Done.