Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009140.1 Hibiscus syriacus cultivar Beakdansim tig00112647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 511116
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:209938 original size:36 final size:37
Alignment explanation
Indices: 209870--209997 Score: 104
Period size: 36 Copynumber: 3.5 Consensus size: 37
209860 AGGGTAATGA
* * * * *
209870 TTTAGGGTTTAGGGTTT-TGATATTAGAGTTTAGGGT
1 TTTAGGGTTTAGAGTTTAGGTTTTTAGAGTTTAGAGT
209906 TTTAGGGTTTAGAGTTTAGGTTTTTAGA-TTTAGAGT
1 TTTAGGGTTTAGAGTTTAGGTTTTTAGAGTTTAGAGT
** *
209942 TTTAGTTTTTAGA-TTTAGAG-TTTTAGGGTTTTAG-GT
1 TTTAGGGTTTAGAGTTTAG-GTTTTTAGAG-TTTAGAGT
* * *
209978 TTAAGGATTTACAGTTTAGG
1 TTTAGGGTTTAGAGTTTAGG
209998 GCTTAAATTC
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
35 11 0.15
36 47 0.63
37 17 0.23
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (37 bp):
TTTAGGGTTTAGAGTTTAGGTTTTTAGAGTTTAGAGT
Found at i:209974 original size:43 final size:43
Alignment explanation
Indices: 209868--209980 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 43
209858 TAAGGGTAAT
*
209868 GATTTAGGGTTTAGGGTTTT-GATATTAGAGTTTAGGGTTTTAG
1 GATTTAGAGTTTAGGGTTTTAGAT-TTAGAGTTTAGGGTTTTAG
* * *
209911 GGTTTAGAGTTTAGGTTTTTAGATTTAGAGTTTTA-GTTTTTA-
1 GATTTAGAGTTTAGGGTTTTAGATTTAGAG-TTTAGGGTTTTAG
*
209953 GATTTAGAGTTTTAGGGTTTTAGGTTTA
1 GATTTAGAG-TTTAGGGTTTTAGATTTA
209981 AGGATTTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 8 0.13
43 45 0.75
44 7 0.12
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.50
Consensus pattern (43 bp):
GATTTAGAGTTTAGGGTTTTAGATTTAGAGTTTAGGGTTTTAG
Found at i:224346 original size:21 final size:20
Alignment explanation
Indices: 224322--224363 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
224312 GTCATACAAC
*
224322 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
224343 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
224363 T
1 T
224364 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:224382 original size:34 final size:34
Alignment explanation
Indices: 224344--224425 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
224334 TATAATGCAT
224344 AATAATGGTTCATAATGCATTGTAAGTTGGCAAC
1 AATAATGGTTCATAATGCATTGTAAGTTGGCAAC
224378 AATAATGGTTCATAATGCATTGTAAGTTGGCAAC
1 AATAATGGTTCATAATGCATTGTAAGTTGGCAAC
224412 AATAATGGTTCATA
1 AATAATGGTTCATA
224426 GTTGGCACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (34 bp):
AATAATGGTTCATAATGCATTGTAAGTTGGCAAC
Found at i:230367 original size:19 final size:19
Alignment explanation
Indices: 230343--230383 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
230333 ACGTGACAAC
230343 AAGTCGGGCAGAAATTACA
1 AAGTCGGGCAGAAATTACA
230362 AAGTCGGGCAGAAATTACA
1 AAGTCGGGCAGAAATTACA
230381 AAG
1 AAG
230384 GTTGTGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.15
Consensus pattern (19 bp):
AAGTCGGGCAGAAATTACA
Found at i:232489 original size:3 final size:3
Alignment explanation
Indices: 232481--232528 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
232471 TATTACTAAT
232481 TAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
232525 TAA T
1 TAA T
232529 TTATAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:232494 original size:22 final size:22
Alignment explanation
Indices: 232468--232528 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
232458 TACAAAAATG
*
232468 TAATATTACTAAT-TAATAATAA
1 TAATAATA-TAATATAATAATAA
232490 TAATAATATAATATAATAATAA
1 TAATAATATAATATAATAATAA
232512 TAATAATA-ATATATAAT
1 TAATAATATA-ATATAAT
232529 TTATAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 5 0.14
22 31 0.86
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAATATAATATAATAATAA
Found at i:232536 original size:20 final size:20
Alignment explanation
Indices: 232483--232528 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
232473 TTACTAATTA
232483 ATAATAATAATAAT-ATAAT
1 ATAATAATAATAATAATAAT
232502 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
232522 AT-ATAAT
1 ATAATAAT
232529 TTATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:239198 original size:14 final size:13
Alignment explanation
Indices: 239168--239209 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
239158 TCAAATACCT
239168 AAAAACATCTTTT-
1 AAAAACAT-TTTTA
239181 AAAAACAATTTTTA
1 AAAAAC-ATTTTTA
239195 AAAAAGCATTTTTA
1 AAAAA-CATTTTTA
239209 A
1 A
239210 GACAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.38
14 15 0.58
15 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAAACATTTTTA
Found at i:242021 original size:3 final size:3
Alignment explanation
Indices: 242013--242102 Score: 157
Period size: 3 Copynumber: 30.3 Consensus size: 3
242003 TATTACTAAT
242013 TAA TAA TAA TAA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
242059 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T
242103 TTATAATATT
Statistics
Matches: 84, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.05
3 77 0.92
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:245695 original size:23 final size:23
Alignment explanation
Indices: 245661--245704 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
245651 CGAAGCCATC
245661 TTCTTGTCGGTTATGTTGGAATT
1 TTCTTGTCGGTTATGTTGGAATT
* *
245684 TTCTTGTTGGTTGTGTTGGAA
1 TTCTTGTCGGTTATGTTGGAA
245705 ATCGGTAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.07, G:0.30, T:0.52
Consensus pattern (23 bp):
TTCTTGTCGGTTATGTTGGAATT
Found at i:246368 original size:21 final size:22
Alignment explanation
Indices: 246342--246384 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
246332 CCAAGACAGG
246342 GAGTATCGGTAC-TCCTTTAAT
1 GAGTATCGGTACTTCCTTTAAT
*
246363 GAGTATTGGTACTTCCTTTAAT
1 GAGTATCGGTACTTCCTTTAAT
246385 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (22 bp):
GAGTATCGGTACTTCCTTTAAT
Found at i:247152 original size:52 final size:52
Alignment explanation
Indices: 247090--247192 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
247080 AAATTGGACA
247090 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
247142 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
247193 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:251746 original size:52 final size:52
Alignment explanation
Indices: 251684--251786 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
251674 AAATTGGACA
251684 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
251736 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
251787 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:252091 original size:77 final size:80
Alignment explanation
Indices: 251953--252105 Score: 249
Period size: 77 Copynumber: 1.9 Consensus size: 80
251943 ATTTTTTTAA
*
251953 AAAAGTTTTAGAGAAATTTAAAGTTTTTTAAAATAATAATTTTATATTTTTATTTAAATAAAATA
1 AAAAGTTTTAGAGAAATTTAAAGTTTTTTAAAATAATAATTTTATACTTTTATTTAAATAAAATA
252018 TTCAAAAAATACAAT
66 TTCAAAAAATACAAT
* * *
252033 AAAA-TTTTAGAGAATTTTAAAG-TTTTT-AAATAATAATTTTGTACTTTTATTTATATAAAATA
1 AAAAGTTTTAGAGAAATTTAAAGTTTTTTAAAATAATAATTTTATACTTTTATTTAAATAAAATA
252095 TTCAAAAAATA
66 TTCAAAAAATA
252106 TAAATGTATA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
77 43 0.62
78 5 0.07
79 17 0.25
80 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (80 bp):
AAAAGTTTTAGAGAAATTTAAAGTTTTTTAAAATAATAATTTTATACTTTTATTTAAATAAAATA
TTCAAAAAATACAAT
Found at i:255000 original size:42 final size:42
Alignment explanation
Indices: 254941--255020 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
254931 TTTGTAACAG
254941 AATTTTTATATAAAAAGTAGTTCAAAATTATTAATTTATTTA
1 AATTTTTATATAAAAAGTAGTTCAAAATTATTAATTTATTTA
*
254983 AATTTTTATATAAAAAGTAGTTCAAAATTATTCATTTA
1 AATTTTTATATAAAAAGTAGTTCAAAATTATTAATTTA
255021 CCATCTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (42 bp):
AATTTTTATATAAAAAGTAGTTCAAAATTATTAATTTATTTA
Found at i:261073 original size:21 final size:22
Alignment explanation
Indices: 261024--261074 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
261014 ATACCCCCAT
261024 AAGGGAACTGATTCCCCCTTTG
1 AAGGGAACTGATTCCCCCTTTG
261046 AATGGGAACTGATTCCCTCC-TTG
1 AA-GGGAACTGATTCCC-CCTTTG
261069 -AGGGAA
1 AAGGGAA
261075 TCGATACCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 3 0.11
23 17 0.63
24 2 0.07
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (22 bp):
AAGGGAACTGATTCCCCCTTTG
Found at i:266063 original size:7 final size:7
Alignment explanation
Indices: 266047--266077 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
266037 TTTTTTAAAA
266047 TAAA-AC
1 TAAATAC
266053 TAAATAC
1 TAAATAC
266060 TAAATAC
1 TAAATAC
266067 TAAATAC
1 TAAATAC
266074 TAAA
1 TAAA
266078 AAATTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAATAC
Found at i:266105 original size:20 final size:20
Alignment explanation
Indices: 266054--266119 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
266044 AAATAAAACT
*
266054 AAATACTAAATACTAAATACTAA
1 AAATACTAAATA-T--ATATTAA
*
266077 AAA-ATTAAATATATATTAA
1 AAATACTAAATATATATTAA
*
266096 AAATACTAAA-ATACCATTAA
1 AAATACTAAATATA-TATTAA
266116 AAAT
1 AAAT
266120 TATTAGAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 12 0.32
20 14 0.38
21 1 0.03
22 7 0.19
23 3 0.08
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATACTAAATATATATTAA
Found at i:266843 original size:27 final size:26
Alignment explanation
Indices: 266803--266853 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
266793 TCATCAACAC
*
266803 TTAATATATATTTAATTTTTTAATTT
1 TTAATATATATTTAATATTTTAATTT
* *
266829 TTAATGATATTTTTAGTATTTTAAT
1 TTAAT-ATATATTTAATATTTTAAT
266854 ATACATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTAATATATATTTAATATTTTAATTT
Found at i:266935 original size:16 final size:17
Alignment explanation
Indices: 266914--266950 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
266904 AATTTTTTAA
266914 ATATTTG-AATATTTTT
1 ATATTTGAAATATTTTT
266930 ATATTTGAAATATTTTT
1 ATATTTGAAATATTTTT
266947 -TATT
1 ATATT
266951 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
ATATTTGAAATATTTTT
Found at i:277242 original size:16 final size:17
Alignment explanation
Indices: 277216--277247 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
277206 ATTATACCTC
277216 TACCATAACCATTTCTA
1 TACCATAACCATTTCTA
277233 TACC-TAACCATTTCT
1 TACCATAACCATTTCT
277248 TCGTGATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:279582 original size:12 final size:12
Alignment explanation
Indices: 279565--279590 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
279555 TTGTTGTGCT
279565 TGCTCCTCGGGC
1 TGCTCCTCGGGC
279577 TGCTCCTCGGGC
1 TGCTCCTCGGGC
279589 TG
1 TG
279591 TTCAGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:281237 original size:21 final size:22
Alignment explanation
Indices: 281213--281270 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 22
281203 CAGTATCCCA
*
281213 GGGGGGTATCGATTCCCCT-GT
1 GGGGGGTATCGATTCCCCTCAT
* *
281234 GGGGGGAATCGGTT-CCCTCAT
1 GGGGGGTATCGATTCCCCTCAT
281255 -GGGGGTATCGATTCCC
1 GGGGGGTATCGATTCCC
281271 TCTGCACCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCCTCAT
Found at i:285096 original size:22 final size:21
Alignment explanation
Indices: 285054--285093 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
285044 GAGTTTATTT
*
285054 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
285075 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
285094 ACAATTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:288575 original size:26 final size:25
Alignment explanation
Indices: 288526--288576 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
288516 GAAAGAAAAT
*
288526 AAAAAGAAGAGAAAAAATTTCAAAG
1 AAAAAGAAGAGAAAAAATTGCAAAG
* *
288551 AAAAAGAAGTGAAGAAAGTTGCAAAG
1 AAAAAGAAGAGAA-AAAATTGCAAAG
288577 TACACTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.12
Consensus pattern (25 bp):
AAAAAGAAGAGAAAAAATTGCAAAG
Found at i:288806 original size:16 final size:17
Alignment explanation
Indices: 288780--288813 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
288770 ATTATACCTC
288780 TACCATAACCATTTCTA
1 TACCATAACCATTTCTA
288797 TACC-TAACCATTTCTA
1 TACCATAACCATTTCTA
288813 T
1 T
288814 TAAGTTGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:291009 original size:15 final size:16
Alignment explanation
Indices: 290969--291009 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
290959 AAAGTTTTAA
290969 TATAGTTATTTTCATC
1 TATAGTTATTTTCATC
290985 TATA-TATATTTT-ATC
1 TATAGT-TATTTTCATC
291000 TATAGTTATT
1 TATAGTTATT
291010 ATGACTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (16 bp):
TATAGTTATTTTCATC
Found at i:306744 original size:23 final size:22
Alignment explanation
Indices: 306696--306745 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
306686 TAAAATTGTT
* *
306696 ATAA-TATTATATAAAAATTAA
1 ATAATTATTAAATAAAAAATAA
306717 A-AATTATTAAATAAATAAATAA
1 ATAATTATTAAATAAA-AAATAA
306739 ATAATTA
1 ATAATTA
306746 AATATATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 11 0.46
22 6 0.25
23 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATTATTAAATAAAAAATAA
Found at i:309363 original size:396 final size:394
Alignment explanation
Indices: 308616--309387 Score: 1138
Period size: 396 Copynumber: 1.9 Consensus size: 394
308606 ATATCAATTG
* *
308616 GATACTGATAAGTATTAATACATGATTGTCTAGACATTGATCGAAAGCAATGTTCGGATAGGTCG
1 GATACTGATAAGTATTAATACATGATTGTCTAGACATAGATCGAAAGCAAAGTTCGGATAGGTCG
* * *
308681 TCAGAGTAAGTTACGCAAGAAAGAGAAAGAGCTTGGTAGTGTTATTGGTACATGGTATGAAGTGT
66 TCAGAGTAAGATACGC-A-AAAGAGAAAGAGCTTGGTAGTGTTAGTGGTACATGATATGAAGTGT
*
308746 AGTTATGTTAAGGAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACTAG
129 AGTTATGTT-A--AATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACCAG
*
308811 ATGTAAGCAGGTAGTGATATGATGTTTAGAGAAATTCGAGTCTATGGATATGTTGAGATGTAATT
191 ATGTAAGCAGGTAGTGA-ATGATG--TAGAGAAATTCGAGTCTATGCATATGTTGAGATGTAATT
* *
308876 GCTTCTCTATGTTTGATCTAGGTGAATATGCCTTGTACATTACATTTTATGAGATGTGTGTTGTA
253 GCCTCTCTATGTTTGATCTAGGTGAATATGCCTTGTACATTACATGTTATGAGA-GTGTGTTGTA
308941 TGATAGTGATCTATGAGATATTGATAATAAGTCATAAGATTACATGCATATGAGAAGGTATATGA
317 TGATAGTGATCTATGAGATATTGATAAT-AGTCATAAGATTACATGCATATGAGAAGGTATATGA
309006 ACTATATGAAATGT
381 ACTATATGAAATGT
309020 GATACTG-TAAGTATTAATACATGATTGTGC-AGACATAGATCGAAAGCAAAGTTCGGATA-GTC
1 GATACTGATAAGTATTAATACATGATTGT-CTAGACATAGATCGAAAGCAAAGTTCGGATAGGTC
309082 GTCAGAGTAAGATACGC-AAAGAG-AA-AGCTTGGTAGTTATGGTGATCAGGTGAGTACATGATA
65 GTCAGAGTAAGATACGCAAAAGAGAAAGAGCTTGGTAG---T-GT--T-A-GTG-GTACATGATA
*
309144 TGAAGTGTAGTTATGTT-AA-TATGAGTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGT
121 TGAAGTGTAGTTATGTTAAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGT
309207 ACCCAGATGTAAGCAGGTAGTG-AT-ATG-AGAGAAATTCGAGTCTATGCATATG-TGAGATGTA
186 A-CCAGATGTAAGCAGGTAGTGAATGATGTAGAGAAATTCGAGTCTATGCATATGTTGAGATGTA
*
309268 ATTGCCTCTCTATGTTTGTGATCTAGGTGAATATGCCTTGTTGCATTACATGTTATGAGA-TGTG
250 ATTGCCTCTCTATG-TT-TGATCTAGGTGAATATGCCTTG-TACATTACATGTTATGAGAGTGTG
309332 TTGTATGATAGTGATCTATGAGATATTGATAATAGTCATAAGATTACATGCATATG
312 TTGTATGATAGTGATCTATGAGATATTGATAATAGTCATAAGATTACATGCATATG
309388 TAATATAAGT
Statistics
Matches: 343, Mismatches: 11, Indels: 37
0.88 0.03 0.09
Matches are distributed among these distances:
395 45 0.13
396 63 0.18
397 32 0.09
398 19 0.06
399 9 0.03
400 3 0.01
401 46 0.13
402 40 0.12
403 49 0.14
404 9 0.03
405 2 0.01
406 26 0.08
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.34
Consensus pattern (394 bp):
GATACTGATAAGTATTAATACATGATTGTCTAGACATAGATCGAAAGCAAAGTTCGGATAGGTCG
TCAGAGTAAGATACGCAAAAGAGAAAGAGCTTGGTAGTGTTAGTGGTACATGATATGAAGTGTAG
TTATGTTAAATTATGACTTGCGAGAAGTCTAATTCTGATATTAGGTAATATGAGTACCAGATGTA
AGCAGGTAGTGAATGATGTAGAGAAATTCGAGTCTATGCATATGTTGAGATGTAATTGCCTCTCT
ATGTTTGATCTAGGTGAATATGCCTTGTACATTACATGTTATGAGAGTGTGTTGTATGATAGTGA
TCTATGAGATATTGATAATAGTCATAAGATTACATGCATATGAGAAGGTATATGAACTATATGAA
ATGT
Found at i:313209 original size:21 final size:21
Alignment explanation
Indices: 313183--313240 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
313173 TGTGTTATAT
313183 GTGGTCCTTCGGGACATCTAA
1 GTGGTCCTTCGGGACATCTAA
* *
313204 GTGGTCCTTCAGGACATTTAA
1 GTGGTCCTTCGGGACATCTAA
* *
313225 GTGGTCATTCGAGACA
1 GTGGTCCTTCGGGACA
313241 AATTCTACGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATCTAA
Found at i:318791 original size:24 final size:24
Alignment explanation
Indices: 318759--318816 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
318749 ACCACGTGCA
318759 AGACACCAATCAAGAAGCATGGCC
1 AGACACCAATCAAGAAGCATGGCC
318783 AGACACCAATCAAGAAGCATGGCC
1 AGACACCAATCAAGAAGCATGGCC
*
318807 AGAAACCAAT
1 AGACACCAAT
318817 TAGATCATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.09
Consensus pattern (24 bp):
AGACACCAATCAAGAAGCATGGCC
Found at i:325756 original size:2 final size:2
Alignment explanation
Indices: 325745--325776 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
325735 TATTATAAAT
325745 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
325777 TTATTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:327029 original size:17 final size:17
Alignment explanation
Indices: 326991--327032 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
326981 TATACTTTTA
*
326991 ATATTTTATTTATACGT
1 ATATTTTATTTATACAT
*
327008 CTATTATTATTT-TACAT
1 ATATT-TTATTTATACAT
327025 ATATTTTA
1 ATATTTTA
327033 ATCACTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 6 0.29
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
ATATTTTATTTATACAT
Found at i:327126 original size:18 final size:17
Alignment explanation
Indices: 327089--327162 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 17
327079 ATATGTTTTC
327089 TTTTTTATTTTATTTT-A
1 TTTTTTA-TTTATTTTAA
327106 TTTATTTATTTATTTTAA
1 TTT-TTTATTTATTTTAA
* *
327124 TTTTCTTCTCTATTTTAA
1 TTTT-TTATTTATTTTAA
* *
327142 TTTTTTTCTTTATTTTTA
1 -TTTTTTATTTATTTTAA
327160 TTT
1 TTT
327163 CCTTGAGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
17 15 0.31
18 30 0.61
19 4 0.08
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTATTTTAA
Found at i:327277 original size:5 final size:6
Alignment explanation
Indices: 327244--327293 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
327234 TGTGTTTTAC
*
327244 TTATTT ATTATTTCT TTATTT TTATTT TTATTT TTA--T TCATTT TTATTT
1 TTATTT -TTA-TT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
327293 T
1 T
327294 CTTTATCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 3 0.08
6 23 0.62
7 5 0.14
8 5 0.14
9 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:327289 original size:22 final size:20
Alignment explanation
Indices: 327244--327293 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
327234 TGTGTTTTAC
327244 TTATTTATTATTTCTTTATTT
1 TTATTT-TTATTTCTTTATTT
*
327265 TTATTTTTATTTTTATTCATTT
1 TTATTTTTATTTCT-TT-ATTT
327287 TTATTTT
1 TTATTTT
327294 CTTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTATTTCTTTATTT
Found at i:327369 original size:25 final size:24
Alignment explanation
Indices: 327322--327369 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
327312 CTGTCATTTC
* *
327322 TTTATTTCTTTTGTTTTTCTCTAT
1 TTTATTTATTTTATTTTTCTCTAT
*
327346 TTTATTTATTTTCATTTTTTTCTA
1 TTTATTTATTTT-ATTTTTCTCTA
327370 ACTTTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTATTTATTTTATTTTTCTCTAT
Found at i:337441 original size:41 final size:41
Alignment explanation
Indices: 337387--337870 Score: 400
Period size: 41 Copynumber: 11.6 Consensus size: 41
337377 GGTTCATCGA
* * *
337387 TAGTGGCGTTTTT-TCAACAAACGCTGCAAAAGAGTAGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGAATAGTACTT
* * * *
337429 TAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCGTAATT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * *
337470 TAGTGGCATTTTTATATAAACGCCGCTATAGAATTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
** * * *
337511 TAGTGGCGTTTTTATACAAACGCCATTATACACAT-GTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGA-ATAGTACTT
* * *
337552 TAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCA-TAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGAAT-AGTACTT
* *
337595 TAGTGGCATTTTTATACAAACGCCGCTAAAGACTCA-TACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAAT-AGTACTT
* * * * *
337636 TAGTGGCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGAATAGTACTT
* ** * *
337679 TAGTGGCATTTTTATACAAACATCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * * * *
337720 TATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACGT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * *
337761 TAGTGGCGTTTTTATTCAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* * * * * * *
337802 TAGTGGCATTTTTATTCAAACGCCGCTATACATTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
* *
337843 TAGTGGCCTTTGTGTTTACAAACGCCGC
1 TAGTGGCGTTT-T-TATACAAACGCCGC
337871 AAGTTTACAA
Statistics
Matches: 373, Mismatches: 58, Indels: 21
0.83 0.13 0.05
Matches are distributed among these distances:
41 278 0.75
42 20 0.05
43 75 0.20
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGAATAGTACTT
Found at i:337607 original size:84 final size:84
Alignment explanation
Indices: 337427--337829 Score: 336
Period size: 84 Copynumber: 4.9 Consensus size: 84
337417 AGAGTAGTAC
** * * * * * * * *
337427 TTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTT-T-TATATAAA
1 TTTAGTGGCATTTTTATACAAACGCCACTAAACACTCATACTATAGTGGCGTTTGTGTTTACAAA
* * ** *
337490 CGCCGCTATAGAATTGTAC
66 CGCCGCTAAAGACTCATAA
* * * *
337509 TTTAGTGGCGTTTTTATACAAACGCCATTATACACAT-GTACTATAGTGGCGTTTGTGTTTACAA
1 TTTAGTGGCATTTTTATACAAACGCCACTAAACAC-TCATACTATAGTGGCGTTTGTGTTTACAA
337573 ACGCCGCTAAAGACTCATAA
65 ACGCCGCTAAAGACTCATAA
* * *
337593 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTGTGTTTACAAA
1 TTTAGTGGCATTTTTATACAAACGCCACTAAACACTCATACTATAGTGGCGTTTGTGTTTACAAA
* *
337658 CGTCGCTAAAGACTCGTAA
66 CGCCGCTAAAGACTCATAA
** * * * * * * * *
337677 TTTAGTGGCATTTTTATACAAACATCGCTAAAGACTCGTACTTTATTGACATTT-T-TATACAAA
1 TTTAGTGGCATTTTTATACAAACGCCACTAAACACTCATACTATAGTGGCGTTTGTGTTTACAAA
* *
337740 CGCCGCTAAAGACTCGTAC
66 CGCCGCTAAAGACTCATAA
* * * * * * * *
337759 GTTAGTGGCGTTTTTATTCAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTT-T-TATT-CAA
1 TTTAGTGGCATTTTTATACAAACGCCACTAAACACTCATACTATAGTGGCGTTTGTGT-TTACAA
337821 ACGCCGCTA
65 ACGCCGCTA
337830 TACATTTGTA
Statistics
Matches: 275, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
82 129 0.47
83 5 0.02
84 141 0.51
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (84 bp):
TTTAGTGGCATTTTTATACAAACGCCACTAAACACTCATACTATAGTGGCGTTTGTGTTTACAAA
CGCCGCTAAAGACTCATAA
Found at i:337847 original size:82 final size:82
Alignment explanation
Indices: 337404--337870 Score: 483
Period size: 82 Copynumber: 5.6 Consensus size: 82
337394 GTTTTTTCAA
* * * * * *
337404 CAAACGCTGCAAAAGAGTAGTACTTTAGTGGTGTTTTTATACAAACGCCGCTAAAGACTCGTAAT
1 CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACT
337469 TTAGTGGCATTTTTATAT
66 TTAGTGGCATTTTTAT-T
* * * ** * *
337487 -AAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGCCATTATACACAT-GTAC
1 CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGAC-TCGTAC
* *
337550 TATAGTGGCGTTTGTGT-TT
65 TTTAGTGGCATTT-T-TATT
* * * *
337569 ACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATAC
1 -CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
*
337634 TTTAGTGGCGTTTGTGT-TT
65 TTTAGTGGCATTT-T-TATT
* * * **
337653 ACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACATCGCTAAAGACTCGTAC
1 -CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * *
337718 TTTATTGACATTTTTATA
65 TTTAGTGGCATTTTTATT
* *
337736 CAAACGCCGCTAAAGACTCGTACGTTAGTGGCGTTTTTATTCAAACGCCGCTAAAGACTCGTACT
1 CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACT
337801 TTAGTGGCATTTTTATT
66 TTAGTGGCATTTTTATT
* * * * * * *
337818 CAAACGCCGCTATACATTTGTACTATAGTGGCCTTTGTGTTTACAAACGCCGC
1 CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTT-T-TATACAAACGCCGC
337871 AAGTTTACAA
Statistics
Matches: 322, Mismatches: 53, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
82 164 0.51
83 7 0.02
84 151 0.47
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (82 bp):
CAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACT
TTAGTGGCATTTTTATT
Found at i:337870 original size:125 final size:122
Alignment explanation
Indices: 337387--337829 Score: 528
Period size: 125 Copynumber: 3.6 Consensus size: 122
337377 GGTTCATCGA
* * * * **
337387 TAGTGGCGTTTTTTCAACAAACGCTGCAAAAGAGTAGTACTTTAGTGGTGTTTTTATACAAACGC
1 TAGTGGCGTTTTTT--ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGC
* * * *
337452 CGCTAAAGACTCGTAATTTAGTGGCATTTTTATATAAACGCCGCTATAGAATTGTACTT
64 CGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
** * * * * *
337511 TAGTGGCGTTTTTATACAAACGCCATTATACACAT-GTACTATAGTGGCGTTTGTGTTTACAAAC
1 TAGTGGCGTTTTT-TACAAACGCCGCTAAAGAC-TCGTACTTTAGTGGCATTT-T-TATACAAAC
* *
337575 GCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTT
62 GCCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
* * *
337636 TAGTGGCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACA
1 TAGTGGCG-TT-T-TTTACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
* * * * *
337701 TCGCTAAAGACTCGTACTTTATTGACATTTTTATACAAACGCCGCTAAAGACTCGTACGT
63 CCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
* *
337761 TAGTGGCGTTTTTATTCAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATTCAAACGCC
1 TAGTGGCGTTTTT-TACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCC
337826 GCTA
65 GCTA
337830 TACATTTGTA
Statistics
Matches: 271, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
122 2 0.01
123 76 0.28
124 17 0.06
125 141 0.52
126 4 0.01
127 29 0.11
128 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (122 bp):
TAGTGGCGTTTTTTACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCG
CTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTT
Found at i:339369 original size:23 final size:23
Alignment explanation
Indices: 339339--339397 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
339329 TGGGGCATTA
339339 ACAA-CTTTCAAACTTGTCATGC
1 ACAACCTTTCAAACTTGTCATGC
339361 ACAACCTTTCAAACTTGTCATGC
1 ACAACCTTTCAAACTTGTCATGC
339384 ACAACCTTTCAAAC
1 ACAACCTTTCAAAC
339398 ACTATAGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.11
23 32 0.89
ACGTcount: A:0.34, C:0.31, G:0.07, T:0.29
Consensus pattern (23 bp):
ACAACCTTTCAAACTTGTCATGC
Found at i:341883 original size:130 final size:130
Alignment explanation
Indices: 341735--341986 Score: 310
Period size: 130 Copynumber: 1.9 Consensus size: 130
341725 AAAACGCCGC
* * * * *
341735 TATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAATGCCGTTATAGGTATGACATTTTGCGGC
1 TATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACATTTTGCGGC
* * *
341800 GTTTGTGTCCAAAAACGCCACTATAGGTC-TGACCTTTTACGGCGTTTGTTCTAAAAAAATGCCA
66 GTTT-TGTCCAAAAACGCCACTATAGATCATAACCTTTTACGGCGTTTATTCTAAAAAAATGCCA
341864 G
130 G
* * *
341865 TATAGGTCTTA-TCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGG
1 TATAGGTCTGACT-TTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACATTTTGCGG
* * * * * * *
341929 CGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTGCGGCGTTTATTCTAAAAA
65 CGTTTTGTCCAAAAACGCCACTATAGATCATAACCTTTTACGGCGTTTATTCTAAAAA
341987 CGCCGCTATA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
129 19 0.19
130 83 0.81
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (130 bp):
TATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACATTTTGCGGC
GTTTTGTCCAAAAACGCCACTATAGATCATAACCTTTTACGGCGTTTATTCTAAAAAAATGCCAG
Found at i:342010 original size:173 final size:172
Alignment explanation
Indices: 341709--342029 Score: 441
Period size: 173 Copynumber: 1.9 Consensus size: 172
341699 AAGGTAATTA
* * *
341709 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAATG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
* * * * * * *
341774 CCGTTATAGGTATGACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTA
66 CCGCTATAGATATAACATTTTGCGGCGTTTATGTCCAAAAACGCCACTATAGATATAACCTTTTA
341839 CGGCGTTTGTTCTAAAAAAATGCCAGTATAGGTCTTATCTTTT
131 CGGCGTTTGTTC-AAAAAAATGCCAGTATAGGTCTTATCTTTT
*
341882 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTT-T-TTCTAGAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTTC-AAAAAC
* * * *
341945 GCCGCTATATATCATAACTTTTTGCGGCGTTTAT-TCTAAAAACGCCGCTATAGATATCAACCTT
65 GCCGCTATAGAT-ATAACATTTTGCGGCGTTTATGTCCAAAAACGCCACTATAGATAT-AACCTT
*
342009 TTGCGGCGTTTGTTCAAAAAA
128 TTACGGCGTTTGTTCAAAAAA
342030 TGCTGTAATA
Statistics
Matches: 129, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
171 3 0.02
172 39 0.30
173 87 0.67
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (172 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
CCGCTATAGATATAACATTTTGCGGCGTTTATGTCCAAAAACGCCACTATAGATATAACCTTTTA
CGGCGTTTGTTCAAAAAAATGCCAGTATAGGTCTTATCTTTT
Found at i:342029 original size:43 final size:42
Alignment explanation
Indices: 341709--342029 Score: 320
Period size: 43 Copynumber: 7.5 Consensus size: 42
341699 AAGGTAATTA
*
341709 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * *
341752 GCGGCGTTTGTGTTCAAAAATGCCGTTATAGGTATGACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTT
*
341795 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * *
341838 ACGGCGTTTGTTCTAAAAAAATGCCAG-TATAGGTCTTATCTTTT
1 GCGGCGTTTGTTC--CAAAAACGCC-GCTATAGGTCTGACCTTTT
*
341882 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * ** * *
341925 GCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTC-TGACCTTTT
* * * * *
341968 GCGGCGTTTATTCTAAAAACGCCGCTATAGATATCAACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCT-GACCTTTT
*
342011 GCGGCGTTTGTTCAAAAAA
1 GCGGCGTTTGTTCCAAAAA
342030 TGCTGTAATA
Statistics
Matches: 234, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
42 23 0.10
43 176 0.75
44 33 0.14
45 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:342059 original size:86 final size:84
Alignment explanation
Indices: 341709--342062 Score: 361
Period size: 86 Copynumber: 4.1 Consensus size: 84
341699 AAGGTAATTA
* *
341709 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTC-AAAAAT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCG-TT-TGTTCAAAAAAT
* *
341773 GCCGTTATAGGTATGACATTTT
64 GCCG-TATAGATATGACCTTTT
* * * *
341795 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAAAAT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTC--AAAAAAT
* * * *
341860 GCCAGTATAGGTCTTATCTTTT
64 GCC-GTATAGATATGACCTTTT
* * * *
341882 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCAAAAAATGC
* * *
341947 CGCTATATATCATAACTTTTT
66 CG-TATAGAT-ATGACCTTTT
* * * *
341968 GCGGCGTTTAT-TCTAAAAACGCCGCTATAGATATCAACCTTTTGCGGCGTTTGTTCAAAAAATG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCAAAAAATG
* *
342032 CTGTAATAGATATTGACCTATT
65 CCGT-ATAGATA-TGACCTTTT
*
342054 ACGGCGTTT
1 GCGGCGTTT
342063 TTTGTTCTCA
Statistics
Matches: 223, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
84 6 0.03
85 37 0.17
86 106 0.48
87 73 0.33
88 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (84 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCAAAAAATGC
CGTATAGATATGACCTTTT
Found at i:349953 original size:42 final size:42
Alignment explanation
Indices: 349906--350025 Score: 177
Period size: 42 Copynumber: 2.9 Consensus size: 42
349896 TTTCCCTGAA
* **
349906 TTCCTGTGTTTGTTTTACGTAATTCGTTTTTCGGAAAATTTT
1 TTCCTGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATT
* *
349948 TTCCTGTGTTTGTTTCACGTAATTTGTTTTCCGGAAAACATT
1 TTCCTGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATT
* *
349990 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTTGGAA
1 TTCCTGTGTTTGTTTCACGTAATTCGTTTTTCGGAA
350026 TGTAATTCAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (42 bp):
TTCCTGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACATT
Found at i:350248 original size:19 final size:18
Alignment explanation
Indices: 350226--350268 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
350216 TATTTAAAAT
350226 ATATTTATTAATATTTATA
1 ATATTTATT-ATATTTATA
* *
350245 ATATAATATTATATTTTTA
1 ATAT-TTATTATATTTATA
350264 ATATT
1 ATATT
350269 ATATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTTATTATATTTATA
Found at i:350272 original size:19 final size:20
Alignment explanation
Indices: 350214--350300 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
350204 TAATTATTAA
* *
350214 AATATTTAAAATATATTTATT
1 AATATTTATAATAT-TATATT
*
350235 AATATTTATAATATAATATT
1 AATATTTATAATATTATATT
* *
350255 -ATATTTTTAATATTATATAA
1 AATATTTATAATATTATAT-T
* * *
350275 AATAATTAATTATATTATAAT
1 AAT-ATTTATAATATTATATT
350296 AATAT
1 AATAT
350301 AAGATATTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 16 0.31
20 6 0.12
21 18 0.35
22 12 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTATAATATTATATT
Found at i:350290 original size:31 final size:32
Alignment explanation
Indices: 350206--350300 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 32
350196 CAAAATATTA
* *
350206 ATTAT-TAAAATATTTAAAATATATTTATTAAT
1 ATTATATAAAATAATT-AATTATATTTATTAAT
*
350238 ATT-TATAATATAA-T-ATTATATTT-TTAAT
1 ATTATATAAAATAATTAATTATATTTATTAAT
*
350266 ATTATATAAAATAATTAATTATATTATAATAAT
1 ATTATATAAAATAATTAATTATATT-TATTAAT
350299 AT
1 AT
350301 AAGATATTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
28 8 0.15
29 17 0.33
30 1 0.02
31 10 0.19
32 10 0.19
33 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTATATAAAATAATTAATTATATTTATTAAT
Found at i:350298 original size:18 final size:19
Alignment explanation
Indices: 350266--350311 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
350256 TATTTTTAAT
*
350266 ATTATA-TAAAATAAT-TA
1 ATTATATTATAATAATATA
350283 ATTATATTATAATAATATA
1 ATTATATTATAATAATATA
*
350302 A-GATATTATA
1 ATTATATTATA
350312 TTTTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTATATTATAATAATATA
Found at i:350323 original size:28 final size:26
Alignment explanation
Indices: 350237--350330 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 26
350227 TATTTATTAA
350237 TATTTATAATAT-AATATTATATTTT
1 TATTTATAATATAAATATTATATTTT
350262 TAATATTAT-ATA-AAATAATTA-ATTATAT
1 T-AT-TTATAATATAAAT-ATTATATT-T-T
*
350290 TA-TAATAATATAAGATATTATATTTT
1 TATTTATAATATAA-ATATTATATTTT
350316 TATTTAATAATATAA
1 TATTT-ATAATATAA
350331 TAAATTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
25 4 0.07
26 17 0.31
27 18 0.33
28 16 0.29
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TATTTATAATATAAATATTATATTTT
Found at i:350347 original size:28 final size:28
Alignment explanation
Indices: 350285--350382 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
350275 AATAATTAAT
* *
350285 TATATTATAATAATATAAGATATTATATTT-
1 TATATT-TAATAATATAATAAATT-T-TTTA
350315 T-TATTTAATAATATAATAAATTTTTTA
1 TATATTTAATAATATAATAAATTTTTTA
* *
350342 TATATTTAATAAT-GAAT-AA-TATTTA
1 TATATTTAATAATATAATAAATTTTTTA
350367 TATATTTCAATAATAT
1 TATATTT-AATAATAT
350383 TTTAGTAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
25 12 0.20
26 11 0.19
27 5 0.08
28 26 0.44
29 4 0.07
30 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
TATATTTAATAATATAATAAATTTTTTA
Found at i:350744 original size:20 final size:20
Alignment explanation
Indices: 350706--350745 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
350696 TTTTCCAGAT
**
350706 GTTTTCCAGAAATGTAATTC
1 GTTTTCCAGAAATCAAATTC
*
350726 GTTTTCCAGAATTCAAATTC
1 GTTTTCCAGAAATCAAATTC
350746 CAGTAATTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
GTTTTCCAGAAATCAAATTC
Found at i:350771 original size:30 final size:29
Alignment explanation
Indices: 350719--350800 Score: 119
Period size: 30 Copynumber: 2.8 Consensus size: 29
350709 TTCCAGAAAT
*
350719 GTAATTCGTTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
350748 GTAATTCATTTTCCAGAAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
**
350778 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAG-AATTCA
350801 TTTTCCGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 15 0.31
30 33 0.69
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:350806 original size:15 final size:15
Alignment explanation
Indices: 350729--350800 Score: 110
Period size: 15 Copynumber: 4.9 Consensus size: 15
350719 GTAATTCGTT
350729 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
**
350743 TTCCAGTAATTCATT
1 TTCCAGTAATTCAAA
*
350758 TTCCAGAAATTCAAA
1 TTCCAGTAATTCAAA
350773 TTCCAGTAATTCAAA
1 TTCCAGTAATTCAAA
350788 TTCCAGTAATTCA
1 TTCCAGTAATTCA
350801 TTTTCCGGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 6 0.12
15 45 0.88
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.35
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:352613 original size:23 final size:23
Alignment explanation
Indices: 352582--352649 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
352572 TTTAATTTTT
*
352582 TTACCTTTGTGGCATGTTTTTCA
1 TTACCTTTGTGGCACGTTTTTCA
**
352605 TTGTCTTTGTGGCACGTTTTTCA
1 TTACCTTTGTGGCACGTTTTTCA
* *
352628 TTACCTTTGTGACTCGTTTTTC
1 TTACCTTTGTGGCACGTTTTTC
352650 GTCTTCTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.10, C:0.19, G:0.18, T:0.53
Consensus pattern (23 bp):
TTACCTTTGTGGCACGTTTTTCA
Found at i:355375 original size:25 final size:26
Alignment explanation
Indices: 355325--355377 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
355315 TACAAGTTTT
355325 TATGTAAAATAATTTTAATTTAGAATA
1 TATGTAAAATAATTTT-ATTTAGAATA
*
355352 TATG-AAATTAATTTT-TTTATGAATA
1 TATGTAAAATAATTTTATTTA-GAATA
355377 T
1 T
355378 GGAATTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 6 0.25
26 10 0.42
27 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATGTAAAATAATTTTATTTAGAATA
Found at i:356417 original size:29 final size:29
Alignment explanation
Indices: 356333--356419 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
356323 TTGATTCTTC
* *
356333 CAACTTTTAAAAGTTATAAAATAATTCTT
1 CAACTTTTAAAAGTTACAAAATAATCCTT
*
356362 CAAATTTTAAAAGTTACAAAATAATCCTT
1 CAACTTTTAAAAGTTACAAAATAATCCTT
* *
356391 CAACTTTTTAAAGTTACAAAATGATCCTT
1 CAACTTTTAAAAGTTACAAAATAATCCTT
356420 TGACTATAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (29 bp):
CAACTTTTAAAAGTTACAAAATAATCCTT
Found at i:358410 original size:18 final size:19
Alignment explanation
Indices: 358384--358446 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
358374 GTTATAATAA
358384 AATATTAATTATGATAATT
1 AATATTAATTATGATAATT
* **
358403 AA-ATTAATAAACATAATT
1 AATATTAATTATGATAATT
358421 AATATATTAATTATGATAATT
1 -A-ATATTAATTATGATAATT
358442 AATAT
1 AATAT
358447 ACTTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.37
19 7 0.20
20 2 0.06
21 13 0.37
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATTAATTATGATAATT
Found at i:358431 original size:21 final size:21
Alignment explanation
Indices: 358405--358447 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
358395 TGATAATTAA
358405 ATTAATAAACATAATTAATAT
1 ATTAATAAACATAATTAATAT
* **
358426 ATTAATTATGATAATTAATAT
1 ATTAATAAACATAATTAATAT
358447 A
1 A
358448 CTTTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAATAAACATAATTAATAT
Found at i:358480 original size:22 final size:22
Alignment explanation
Indices: 358451--358650 Score: 147
Period size: 22 Copynumber: 9.2 Consensus size: 22
358441 TAATATACTT
358451 TATA-TTTAATACTTATATTTA
1 TATACTTTAATACTTATATTTA
358472 TATACTTTAATACTTTATATTTA
1 TATACTTTAATAC-TTATATTTA
*
358495 -ATACTTATATTAC--ATAGTTTA
1 TATACTT-TAATACTTATA-TTTA
358516 -ATACTTT-ATA-TTATATACTT-
1 TATACTTTAATACTTATAT--TTA
*
358536 TAGTAC-TTATATATTTATATACTT-
1 TA-TACTTTA-ATACTTATAT--TTA
358560 TATA-TTTAATACTTATATTTA
1 TATACTTTAATACTTATATTTA
**
358581 TATACTTTAATACTTATATCCA
1 TATACTTTAATACTTATATTTA
* *
358603 AACACTTTAATACTT-TATATTA
1 TATACTTTAATACTTATAT-TTA
*
358625 TATATTTTAATACTT-TATATTA
1 TATACTTTAATACTTATAT-TTA
358647 TATA
1 TATA
358651 GTATATATAT
Statistics
Matches: 150, Mismatches: 12, Indels: 33
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.02
20 9 0.06
21 26 0.17
22 78 0.52
23 22 0.15
24 12 0.08
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (22 bp):
TATACTTTAATACTTATATTTA
Found at i:358486 original size:36 final size:36
Alignment explanation
Indices: 358445--358599 Score: 219
Period size: 36 Copynumber: 4.3 Consensus size: 36
358435 GATAATTAAT
358445 ATACTTTATATTTAATACTTATATTTATATACTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
* *
358481 ATACTTTATATTTAATACTTATA-TTACATAGTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
*
358516 ATACTTTATA-TTATATACTTTAGTACTTATATA-TTTA
1 ATACTTTATATTTA-ATAC-TTA-TATTTATATACTTTA
358553 TATACTTTATATTTAATACTTATATTTATATACTTTA
1 -ATACTTTATATTTAATACTTATATTTATATACTTTA
358590 ATAC-TTATAT
1 ATACTTTATAT
358600 CCAAACACTT
Statistics
Matches: 108, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
34 3 0.03
35 30 0.28
36 39 0.36
37 13 0.12
38 20 0.19
39 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (36 bp):
ATACTTTATATTTAATACTTATATTTATATACTTTA
Found at i:358517 original size:73 final size:76
Alignment explanation
Indices: 358440--358592 Score: 212
Period size: 73 Copynumber: 2.1 Consensus size: 76
358430 ATTATGATAA
*
358440 TTAATATACTTTATATT-TAATAC-TTA-TATTTATATACTTTA-ATACTTTATATTTAATACTT
1 TTAATATACTTTATATTAT-ATACTTTAGTACTTATATA-TTTATATACTTTATATTTAATACTT
*
358501 ATA-TTACATAGT
64 ATATTTACATACT
358513 TT-A-ATACTTTATATTATATACTTTAGTACTTATATATTTATATACTTTATATTTAATACTTAT
1 TTAATATACTTTATATTATATACTTTAGTACTTATATATTTATATACTTTATATTTAATACTTAT
*
358576 ATTTATATACT
66 ATTTACATACT
358587 TTAATA
1 TTAATA
358593 CTTATATCCA
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
71 16 0.23
72 9 0.13
73 34 0.49
74 9 0.13
75 1 0.01
76 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.54
Consensus pattern (76 bp):
TTAATATACTTTATATTATATACTTTAGTACTTATATATTTATATACTTTATATTTAATACTTAT
ATTTACATACT
Found at i:358563 original size:109 final size:113
Alignment explanation
Indices: 358443--358650 Score: 325
Period size: 109 Copynumber: 1.8 Consensus size: 113
358433 ATGATAATTA
358443 ATATACTTTATATTTAATACTTATATTTATATACTTTAATACTT-TAT-A-TTTAATAC-TTATA
1 ATATACTTTATATTTAATACTTATATTTATATACTTTAATACTTATATAACTTTAATACTTTATA
358504 TTACATAGTTTAATACTTTATATTATATACTTTAGTACTTATATATTT
66 TTACATAGTTTAATACTTTATATTATATACTTTAGTACTTATATATTT
358552 ATATACTTTATATTTAATACTTATATTTATATACTTTAATACTTATATCCAAACACTTTAATACT
1 ATATACTTTATATTTAATACTTATATTTATATACTTTAATACTTATAT----A-ACTTTAATACT
* *
358617 TTATATTATATATTTTAATACTTTATATTATATA
61 TTATATTACATAGTTTAATACTTTATATTATATA
358651 GTATATATAT
Statistics
Matches: 88, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
109 44 0.50
110 3 0.03
116 1 0.01
117 8 0.09
118 32 0.36
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (113 bp):
ATATACTTTATATTTAATACTTATATTTATATACTTTAATACTTATATAACTTTAATACTTTATA
TTACATAGTTTAATACTTTATATTATATACTTTAGTACTTATATATTT
Found at i:358598 original size:14 final size:13
Alignment explanation
Indices: 358445--358587 Score: 91
Period size: 14 Copynumber: 10.5 Consensus size: 13
358435 GATAATTAAT
358445 ATACTTTATATTTA
1 ATAC-TTATATTTA
358459 ATACTTATATTT-
1 ATACTTATATTTA
*
358471 ATA--TA-CTTTA
1 ATACTTATATTTA
358481 ATACTTTATATTTA
1 ATAC-TTATATTTA
358495 ATACTTATA-TTA
1 ATACTTATATTTA
*
358507 CATAGTTTAATACTTT-
1 -ATA-CTT-ATA-TTTA
*
358523 ATATTATATACTTTA
1 ATACT-TATA-TTTA
*
358538 GTACTTATATATTTA
1 ATAC-T-TATATTTA
358553 TATACTTTATATTTA
1 -ATAC-TTATATTTA
358568 ATACTTATATTTA
1 ATACTTATATTTA
358581 TATACTT
1 -ATACTT
358588 TAATACTTAT
Statistics
Matches: 108, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.03
10 5 0.05
12 6 0.06
13 27 0.25
14 33 0.31
15 21 0.19
16 11 0.10
17 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.55
Consensus pattern (13 bp):
ATACTTATATTTA
Found at i:359300 original size:25 final size:24
Alignment explanation
Indices: 359253--359299 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
359243 TTGATGAGGG
*
359253 ATGAAATTGAATTAATTATAAAAT
1 ATGAAACTGAATTAATTATAAAAT
359277 ATGAAACTGATATTAA-TATAAAA
1 ATGAAACTGA-ATTAATTATAAAA
359300 AATGGACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (24 bp):
ATGAAACTGAATTAATTATAAAAT
Found at i:359611 original size:516 final size:505
Alignment explanation
Indices: 358662--359673 Score: 1577
Period size: 516 Copynumber: 2.0 Consensus size: 505
358652 TATATATATA
** **
358662 TAAAGTACCAAATTGAACAAACTTGAAATTGGAAATAAAAAATTGAATAAATTAAACAACATGCA
1 TAAAGTACCAAATTGAACAAAAATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACA
* *
358727 TTGATGAGGGATGAAATTGAATTAATTATAAAATGTGAAGCTGATATTAATATAAAAATGGACTA
66 TTGATGAGGGATGAAATTGAATTAATTATAAAATATGAAACTGATATTAATATAAAAATGGACTA
* * *
358792 AATTGTATACATTTAAAAAGTTGTTGAACATAATTTGAAAAGAAATTTATTATGTAATTTACATT
131 AATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACATT
* * *
358857 TTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGTTTAATTTCATATACAAATATA
196 TTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATA
*
358922 ATTTGAAGGATTAAATTAAAAAATATGAAATTAAAAATTAAAATCTAAATAAAATAAAAACATAA
261 ATTTGAAGGACTAAATTAAAAAATATGAAATTAAAAATTAAAATCTAAATAAAATAAAAACATAA
* *
358987 AAGGATCAAGTCAAAGAAATTGTAAAATGTGAGGAAAATTGTAAAATGGACTGAATTGCATTAAT
326 AAGGATCAAATCAAAAAAATTGTAAAATGTGAGGAAAATTGTAAAATGGACTGAATTGCATTAAT
359052 TTCAAAAGTTGGGAAAATTAAAACAATTATAATATATATATATATATATATAATATGTATAATGA
391 TTCAAAAGTTGGGAAAATTAAAAC----ATAA-AT-T-TATA-ATATATATAATATGTATAATGA
*
359117 ATGTTGTGATAATATGATGCATGTATATATATATATACATATATACTTATACTTTATAGTT
448 ATGTT-AGATAATATGATGCATGTATATATA-ATATACAT-TATACTTATACTTTATAGTT
*
359178 TAAAGTACCAAATTGAACAAAAATGAAATTGGAAATAAAATATTGAATAAATTAAACAACACACA
1 TAAAGTACCAAATTGAACAAAAATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACA
359243 TTGATGAGGGATGAAATTGAATTAATTATAAAATATGAAACTGATATTAATATAAAAAATGGACT
66 TTGATGAGGGATGAAATTGAATTAATTATAAAATATGAAACTGATATTAATAT-AAAAATGGACT
* *
359308 AAATTGCATACATTTAAAAATTTGGTGAACATAATTTGAAAA-AAAATTATTATGTGATTTACAT
130 AAATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACAT
*
359372 TTTATAGGGTTTTAATTAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATAT
195 TTTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATAT
* * * *
359437 AATTTGAAGGACTAAATTCAACAATTATGAAATTACAAATTAAAAT-TAAAATACAATAAACAAC
260 AATTTGAAGGACTAAATT-AAAAAATATGAAATTAAAAATTAAAATCT-AAATAAAATAAA-AAC
359501 ATAAAAGGATCAAATCAAAAAAATTGTAAAATGTGAGGAAAATTTGTAAAATGGACTGAATTGCA
322 ATAAAAGGATCAAATCAAAAAAATTGTAAAATGTGAGGAAAA-TTGTAAAATGGACTGAATTGCA
*
359566 TTAATTTCAAACGTTGGGGGGAAAATTAAAAC---AA-TTATAATATATATAATATGTATAATGA
386 TTAATTTCAAAAGTT---GGGAAAATTAAAACATAAATTTATAATATATATAATATGTATAATGA
*
359627 ATGTTAGATAATATGATGCATGTATATATAATGTACATTATACTTAT
448 ATGTTAGATAATATGATGCATGTATATATAATATACATTATACTTAT
359674 GCATAAATTA
Statistics
Matches: 462, Mismatches: 26, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
507 9 0.02
508 7 0.02
509 24 0.05
510 27 0.06
511 4 0.01
512 1 0.00
514 1 0.00
515 1 0.00
516 210 0.45
517 85 0.18
518 43 0.09
519 36 0.08
522 14 0.03
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.33
Consensus pattern (505 bp):
TAAAGTACCAAATTGAACAAAAATGAAATTGGAAATAAAAAATTGAATAAATTAAACAACACACA
TTGATGAGGGATGAAATTGAATTAATTATAAAATATGAAACTGATATTAATATAAAAATGGACTA
AATTGCATACATTTAAAAAGTTGGTGAACATAATTTGAAAAGAAAATTATTATGTAATTTACATT
TTATAGGGTTTTAAGTAAATTACAAAAATATAAATAAGTATGGGTCAATTTCATATAAAAATATA
ATTTGAAGGACTAAATTAAAAAATATGAAATTAAAAATTAAAATCTAAATAAAATAAAAACATAA
AAGGATCAAATCAAAAAAATTGTAAAATGTGAGGAAAATTGTAAAATGGACTGAATTGCATTAAT
TTCAAAAGTTGGGAAAATTAAAACATAAATTTATAATATATATAATATGTATAATGAATGTTAGA
TAATATGATGCATGTATATATAATATACATTATACTTATACTTTATAGTT
Found at i:359763 original size:27 final size:27
Alignment explanation
Indices: 359725--359786 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
359715 TTAAATATAC
*
359725 ATATATAAAAAGAGTATAAGTAT-AAGT
1 ATATATAAAAAGAGTA-AACTATAAAGT
* *
359752 ATATATATAAAGTGTAAACTATAAAGT
1 ATATATAAAAAGAGTAAACTATAAAGT
359779 ATATATAA
1 ATATATAA
359787 TATATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (27 bp):
ATATATAAAAAGAGTAAACTATAAAGT
Found at i:359783 original size:29 final size:29
Alignment explanation
Indices: 359751--359917 Score: 106
Period size: 29 Copynumber: 6.0 Consensus size: 29
359741 TAAGTATAAG
*
359751 TATATATATAAAGTGTAAACTATAAAGTA
1 TATATATATAAAGTATAAACTATAAAGTA
* *
359780 TATATAATATATA-TAAAAACTAT-AAGATA
1 TATAT-ATATAAAGTATAAACTATAAAG-TA
* * *
359809 TATATACTTTAAAGTATAAAGTATATA-TA
1 TATATA-TATAAAGTATAAACTATAAAGTA
* *
359838 TATATATATATA-TATATA-TATAAAGTA
1 TATATATATAAAGTATAAACTATAAAGTA
*
359865 TA-AGTATATTATAAGTAT--A-TATATA-TA
1 TATA-TATA-TA-AAGTATAAACTATAAAGTA
*
359892 TATA-ATATAAAGTATATA-TATAAAGT
1 TATATATATAAAGTATAAACTATAAAGT
359918 TTTAGTATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
24 6 0.06
25 2 0.02
26 15 0.14
27 18 0.17
28 17 0.16
29 33 0.30
30 17 0.16
31 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (29 bp):
TATATATATAAAGTATAAACTATAAAGTA
Found at i:359837 original size:2 final size:2
Alignment explanation
Indices: 359830--359913 Score: 86
Period size: 2 Copynumber: 42.0 Consensus size: 2
359820 AAGTATAAAG
*
359830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
*
359873 T- TA TA -A GTA TA TA TA TA TA TA TA -A TA TA AA GTA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
359914 AAGTTTTAGT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
1 4 0.06
2 62 0.89
3 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:359969 original size:81 final size:79
Alignment explanation
Indices: 359779--360062 Score: 273
Period size: 81 Copynumber: 3.5 Consensus size: 79
359769 ACTATAAAGT
* * *
359779 ATATATAATATATATAAAAACTATAAGATATATATACTTTAAAGTATAAAGTATATATATATA--
1 ATATATAATA-ATAT--AAAGTATAAG-TATATATA-TAT-AA-TATAAAGTATATATATAAAGT
* *
359842 TATA-TATATA-TATATATA-
59 TTTAGTATAAAGTATATATAC
359860 A-AGTATAAGT-ATATTATAAGTAT-A-TATATATATATAATATAAAGTATATATATAAAGTTTT
1 ATA-TATAA-TAATA-TA-AAGTATAAGTATATATATATAATATAAAGTATATATATAAAGTTTT
* * *
359921 AGTATAAAGTGTCTATAG
62 AGTATAAAGTATATATAC
*
359939 GTATATAATAATATAAAGTCTATAAGTATATATATA-AACTATAAAGTATATATATAAAGTTTTA
1 ATATATAATAATATAAAG--TATAAGTATATATATATAA-TATAAAGTATATATATAAAGTTTTA
360003 GTATAAAGTATATATAC
63 GTATAAAGTATATATAC
360020 ATATATAATAATATAAAGTATAAGTATATTATATATACATATA
1 ATATATAATAATATAAAGTATAAGTATA-TATATATA-ATATA
360063 TAATAATATA
Statistics
Matches: 172, Mismatches: 12, Indels: 38
0.77 0.05 0.17
Matches are distributed among these distances:
74 18 0.10
75 2 0.01
76 5 0.03
77 16 0.09
78 9 0.05
79 23 0.13
80 19 0.11
81 78 0.45
82 2 0.01
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (79 bp):
ATATATAATAATATAAAGTATAAGTATATATATATAATATAAAGTATATATATAAAGTTTTAGTA
TAAAGTATATATAC
Found at i:360018 original size:2 final size:2
Alignment explanation
Indices: 360011--360099 Score: 50
Period size: 2 Copynumber: 46.5 Consensus size: 2
360001 TAGTATAAAG
* *
360011 TA TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA -A GTA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* *
360051 TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA -A GTA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
360091 TA TA TA TA T
1 TA TA TA TA T
360100 CAAAAGTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
1 8 0.12
2 55 0.82
3 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:360062 original size:38 final size:38
Alignment explanation
Indices: 359940--360099 Score: 189
Period size: 38 Copynumber: 4.1 Consensus size: 38
359930 TGTCTATAGG
*
359940 TATATAATAATATAAAGTCTATAAGTATA-TATATAAAC-
1 TATATAATAATATAAAG--TATAAGTATATTATATATACA
* * * *
359978 TATAAAGTATATATATAAAGTTTTAGTATAAAGTATATATACA
1 TATATA--ATA-ATATAAAGTATAAGTAT--ATTATATATACA
360021 TATATAATAATATAAAGTATAAGTATATTATATATACA
1 TATATAATAATATAAAGTATAAGTATATTATATATACA
*
360059 TATATAATAATATAAAGTATAAGTATATTATATATATA
1 TATATAATAATATAAAGTATAAGTATATTATATATACA
360097 TAT
1 TAT
360100 CAAAAGTATA
Statistics
Matches: 106, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
38 56 0.53
39 7 0.07
40 18 0.17
41 12 0.11
42 8 0.08
43 5 0.05
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (38 bp):
TATATAATAATATAAAGTATAAGTATATTATATATACA
Found at i:360474 original size:18 final size:18
Alignment explanation
Indices: 360447--360486 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
360437 TTTTGTGTAC
360447 CGATGAACAACCATGCAT
1 CGATGAACAACCATGCAT
*
360465 CGATGCACAACCATGCAT
1 CGATGAACAACCATGCAT
360483 CGAT
1 CGAT
360487 ACACTCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (18 bp):
CGATGAACAACCATGCAT
Found at i:360574 original size:65 final size:64
Alignment explanation
Indices: 360465--360597 Score: 180
Period size: 65 Copynumber: 2.1 Consensus size: 64
360455 AACCATGCAT
* * * *
360465 CGATGCACAACCATGCATCGATACACTCCTGATTTTATTGAAACATCGAAT-TCATTTTATGTAC
1 CGATGCACAACCATGCATCGATACACTCCTGATCTTATTAAAACATCGAATGT-AATTAATGTAC
*
360529 CGATGCACATACCATGCATCGATACACTCCTGGCTCTT-TTAAAACATCGAATGTAATTAATGTA
1 CGATGCACA-ACCATGCATCGATACACTCCT-GATCTTATTAAAACATCGAATGTAATTAATGTA
360593 C
64 C
360594 CGAT
1 CGAT
360598 TCACCCCAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 9 0.15
65 47 0.77
66 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (64 bp):
CGATGCACAACCATGCATCGATACACTCCTGATCTTATTAAAACATCGAATGTAATTAATGTAC
Found at i:363360 original size:20 final size:20
Alignment explanation
Indices: 363335--363372 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
363325 TGAAAAATTA
363335 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
363355 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
363373 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:370030 original size:22 final size:21
Alignment explanation
Indices: 369988--370027 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
369978 GAGTTTATTT
*
369988 TCATTTTTAAATTTTGAAACA
1 TCATTTTTAAATTTTAAAACA
*
370009 TCATTTTTATATTTTAAAA
1 TCATTTTTAAATTTTAAAA
370028 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTAAATTTTAAAACA
Found at i:372099 original size:45 final size:46
Alignment explanation
Indices: 372013--372101 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 46
372003 GAAAAAGCTA
* * * *
372013 GAGTGCATCAATGCATGGTCTTGTGCATTGATGCATCAAATGCACT
1 GAGTGCATCAATGCATGATCATGTGCATCGATGCATAAAATGCACT
*
372059 GAGTGCATCGATGCATGAT-ATGTGCATCGATGCATAAAATGCA
1 GAGTGCATCAATGCATGATCATGTGCATCGATGCATAAAATGCA
372102 TTCGATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (46 bp):
GAGTGCATCAATGCATGATCATGTGCATCGATGCATAAAATGCACT
Found at i:372146 original size:20 final size:20
Alignment explanation
Indices: 372121--372158 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
372111 TGAAAAATTA
372121 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
372141 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
372159 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:376173 original size:7 final size:7
Alignment explanation
Indices: 376158--376340 Score: 57
Period size: 7 Copynumber: 26.0 Consensus size: 7
376148 TATATATATA
376158 TATACTT
1 TATACTT
*
376165 TATAGTT
1 TATACTT
*
376172 TATA-TA
1 TATACTT
*
376178 TACAC-T
1 TATACTT
376184 TATACTT
1 TATACTT
376191 TATA-TAT
1 TATACT-T
376198 ATATACTT
1 -TATACTT
* *
376206 TGTAGTT
1 TATACTT
*
376213 TATA-TA
1 TATACTT
376219 TATACTT
1 TATACTT
376226 ATATACTT
1 -TATACTT
376234 TAGT-CTT
1 TA-TACTT
*
376241 TATA-AT
1 TATACTT
376247 TATACTTT
1 TATAC-TT
*
376255 TGATA-TA
1 T-ATACTT
*
376262 TATA-TAA
1 TATACT-T
376269 TATAC-T
1 TATACTT
376275 TATA-TT
1 TATACTT
376281 TAATACTT
1 T-ATACTT
376289 ATATACTT
1 -TATACTT
*
376297 TAT-TTT
1 TATACTT
376303 ATATACTT
1 -TATACTT
*
376311 ATATACAT
1 -TATACTT
376319 TATA-TT
1 TATACTT
*
376325 ATATGCTT
1 -TATACTT
376333 ATATACTT
1 -TATACTT
376341 CAGTCTTTAT
Statistics
Matches: 134, Mismatches: 20, Indels: 43
0.68 0.10 0.22
Matches are distributed among these distances:
6 33 0.25
7 55 0.41
8 41 0.31
9 5 0.04
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (7 bp):
TATACTT
Found at i:376195 original size:41 final size:41
Alignment explanation
Indices: 376150--376228 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
376140 AGTGTGTATA
376150 TATATATATATACTTTATAGTTTATATATACACTTATACTT
1 TATATATATATACTTTATAGTTTATATATACACTTATACTT
* *
376191 TATATATATATACTTTGTAGTTTATATATATACTTATA
1 TATATATATATACTTTATAGTTTATATATACACTTATA
376229 TACTTTAGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (41 bp):
TATATATATATACTTTATAGTTTATATATACACTTATACTT
Found at i:376242 original size:28 final size:28
Alignment explanation
Indices: 376197--376253 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
376187 ACTTTATATA
*
376197 TATATACTTTGTAGTTTAT-ATATATACT
1 TATATACTTTGTACTTTATAAT-TATACT
376225 TATATACTTTAGT-CTTTATAATTATACT
1 TATATACTTT-GTACTTTATAATTATACT
376253 T
1 T
376254 TTGATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (28 bp):
TATATACTTTGTACTTTATAATTATACT
Found at i:376249 original size:22 final size:20
Alignment explanation
Indices: 376219--376358 Score: 70
Period size: 22 Copynumber: 6.5 Consensus size: 20
376209 AGTTTATATA
*
376219 TATACTTATATACTTTAGTCTT
1 TATAATTATATACTTTA-T-TT
*
376241 TATAA-T-TATACTTT-TGATA
1 TATAATTATATACTTTAT--TT
*
376260 TATATATAATATACTTATATTT
1 TATA-ATTATATACTT-TATTT
* *
376282 AATACTTATATACTTTATTT
1 TATAATTATATACTTTATTT
*
376302 TATATACTTATATACATTATATTA
1 TATA-A-TTATATAC-TT-TATTT
** *
376326 TATGCTTATATACTTCAGTCTT
1 TATAATTATATACTTTA-T-TT
376348 TATAATTATAT
1 TATAATTATAT
376359 TATATATATA
Statistics
Matches: 89, Mismatches: 17, Indels: 24
0.68 0.13 0.18
Matches are distributed among these distances:
18 1 0.01
19 5 0.06
20 18 0.20
21 13 0.15
22 41 0.46
23 3 0.03
24 8 0.09
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAATTATATACTTTATTT
Found at i:376287 original size:35 final size:34
Alignment explanation
Indices: 376184--376314 Score: 81
Period size: 35 Copynumber: 3.7 Consensus size: 34
376174 TATATACACT
* *
376184 TATACTTTATATATATATACTTTGTAGTTTATA--TA
1 TATACTATATATA-ATATAC-TTATA-TTTATACTTA
* * * *
376219 TATACT-TATATACTTTAGTCTTTATAATTATACTTT
1 TATACTATATATAATATA--C-TTATATTTATACTTA
376255 TGATA-TATATATAATATACTTATATTTAATACTTA
1 T-ATACTATATATAATATACTTATATTT-ATACTTA
* * *
376290 TATACTTTATTTTATATACTTATAT
1 TATACTATATATAATATACTTATAT
376315 ACATTATATT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.04
34 21 0.28
35 37 0.49
36 3 0.04
37 12 0.16
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (34 bp):
TATACTATATATAATATACTTATATTTATACTTA
Found at i:376357 original size:44 final size:43
Alignment explanation
Indices: 376260--376358 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
376250 ACTTTTGATA
* *
376260 TATATA-TAATATACTTATATTTAATACTTATATACTTTATTT
1 TATATACTTATATACTTATATTTAATACTTATATACTTCATTT
*
376302 TATATACTTATATACATTATA-TTATATGCTTATATACTTCAGTCTT
1 TATATACTTATATAC-TTATATTTA-ATACTTATATACTTCA-T-TT
376348 TATA-A-TTATAT
1 TATATACTTATAT
376359 TATATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
42 6 0.12
43 10 0.20
44 25 0.51
45 2 0.04
46 6 0.12
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (43 bp):
TATATACTTATATACTTATATTTAATACTTATATACTTCATTT
Found at i:376420 original size:2 final size:2
Alignment explanation
Indices: 376354--376411 Score: 68
Period size: 2 Copynumber: 30.0 Consensus size: 2
376344 TCTTTATAAT
*
376354 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
376396 -A T- TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
376412 CTTTATATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.06
2 44 0.92
3 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:376434 original size:107 final size:107
Alignment explanation
Indices: 376184--376421 Score: 269
Period size: 106 Copynumber: 2.3 Consensus size: 107
376174 TATATACACT
* ** *
376184 TATACTTTATATATATATACTT-TGTAGTTTATA-TATATACTTATATACTTTAGTCTTTATAAT
1 TATACTTTA-ATATATATACTTATATACATTATATTATATACTTATATACTTCAGTCTTTATAAT
* * *
376247 TATACTTTTGATATATATATAATATACTTATATTTAATACTTA
65 TATACTTATGATATATATATAATATACTTATATATAATACGTA
* * *
376290 TATACTTTATTTTATATACTTATATACATTATATTATATGCTTATATACTTCAGTCTTTATAATT
1 TATACTTTAATATATATACTTATATACATTATATTATATACTTATATACTTCAGTCTTTATAATT
376355 ATA-TTAT-ATATATATATATATATA-TATATATATAA-A-GTA
66 ATACTTATGATATATATATA-ATATACT-TATATATAATACGTA
376394 TA-A-TTATAAATATATATACTTTATATAC
1 TATACTT-T-AATATATATAC-TTATATAC
376422 TTTAGTCTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
102 2 0.02
103 2 0.02
104 13 0.12
105 31 0.27
106 33 0.29
107 32 0.28
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (107 bp):
TATACTTTAATATATATACTTATATACATTATATTATATACTTATATACTTCAGTCTTTATAATT
ATACTTATGATATATATATAATATACTTATATATAATACGTA
Found at i:378035 original size:2 final size:2
Alignment explanation
Indices: 378023--378664 Score: 99
Period size: 2 Copynumber: 322.0 Consensus size: 2
378013 CTTTATAGTT
* * *
378023 TA TA TA CA TA TA TA TA TA TA TA TA TA CA CTA T- TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
378064 TA T- TA TA TA CT- TA TA TA CT- TA TA AA CTT TA GTA TT TA TA -A
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA TA
* *
378104 T- TA TA CTT TA TA TA TA TA TA TA TA -A TA TA CT- TA TA CTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* *
378144 TA T- TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
378187 TA TA CT- TA TA TA CTT TA TA TT TA AA CTA TA TA AA CTA TA TA -A
1 TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA
* * * *
378229 TT TA TA CA TA GTA TA TA TA -A TT TA TA -A T- TA TA CA TA -A TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** * * *
378268 TA TA AA TA TA GG T- TG TA TA TA TT TA AA TA TA -A T- TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * * *
378308 TA GTT TA TA TA TA AA CTA TA TA -A TT TA TA T- TA -A TA AA CTA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
378348 TA TA GTG TA TA TA TA GT- TCA -A TA GT- TCA TA TA TA AA CTC TA
1 TA TA -TA TA TA TA TA -TA T-A TA TA -TA T-A TA TA TA TA -TA TA
* * * * *
378389 TA GTT TA TA CA TGG TA TA TA TA GTT TA TA CA TA -A TA TA TA TA
1 TA -TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
378431 TA CA -A TT TA TA TA TA GTT TA TA T- TA -A TA -A TA TA AA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
378470 AA CTA TA TA GTT TA TA TA TA TA TA -A TA TA TA -A TT TA TA TA TGA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * * * * *
378513 CA TA TA -A TA -A TA TA AA TA TA CA CTG TA TA GTT TA TT TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
* * * *
378556 TA TA T- TA -A TA AA CTA TA TA GTT TA TA CA TA -A TA TA TA TA GTT
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * *
378598 TT TA TA TA TA -A TA TA TA CTT TA -A T- TA TA AA CTA TA TA -A TT
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
*
378638 TA TA CA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
378665 CACACAAATT
Statistics
Matches: 446, Mismatches: 112, Indels: 164
0.62 0.16 0.23
Matches are distributed among these distances:
1 42 0.09
2 366 0.82
3 38 0.09
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:378140 original size:30 final size:29
Alignment explanation
Indices: 378015--378277 Score: 139
Period size: 32 Copynumber: 8.8 Consensus size: 29
378005 TACTTTTACT
* *
378015 TTATAGTTTATATACATATATATATATATA
1 TTATACTTTATATATATATATATA-ATATA
* * *
378045 TATACACTATTATATTTTATATTATATACT-TA
1 T-TATACT-TTATA-TATATA-TATATAATATA
* * *
378077 -TATAC-TTATAAACTTTAGTAT-TTATA-A
1 TTATACTTTATATA-TATA-TATATAATATA
378104 TTATACTTTATATATATATATATAATATA
1 TTATACTTTATATATATATATATAATATA
378133 CTTATACTTTATATTATATATATATATATATA
1 -TTATACTTTATA-TATATATATATA-ATATA
* * *
378165 TATATAGTTTATAGTTTATATATATACT-TA
1 T-TATACTTTATA-TATATATATATAATATA
* *
378195 -TATACTTTATATTTAAACTATATAA-ACTA
1 TTATACTTTATATATATA-TATATAATA-TA
* *
378224 -TATAATTTATACATAGTATATATAATTTATAA
1 TTATACTTTATATATA-TATATATAA--TAT-A
* * *
378256 TTATACATAATATATAAATATA
1 TTATACTTTATATATATATATA
378278 GGTTGTATAT
Statistics
Matches: 179, Mismatches: 31, Indels: 44
0.70 0.12 0.17
Matches are distributed among these distances:
27 11 0.06
28 39 0.22
29 28 0.16
30 20 0.11
31 19 0.11
32 40 0.22
33 16 0.09
34 6 0.03
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (29 bp):
TTATACTTTATATATATATATATAATATA
Found at i:378217 original size:32 final size:29
Alignment explanation
Indices: 378034--378234 Score: 141
Period size: 30 Copynumber: 6.9 Consensus size: 29
378024 ATATACATAT
* *
378034 ATATATATATA-TATACACTATTATATTTT
1 ATATATATATACTATATACT-TTATATTTA
*
378063 ATAT-TATATACTTATATACTTATAAACTTTA
1 ATATATATATAC-TATATACTT-TATA-TTTA
* * *
378094 GTAT-T-TATAAT-TATACTTTATATATA
1 ATATATATATACTATATACTTTATATTTA
378120 TATATATAATATACT-TATACTTTATATTATA
1 -ATATAT-ATATACTATATACTTTATATT-TA
* * *
378151 TATATATATATATATATATAGTTTATAGTT-
1 -ATATATATATA-CTATATACTTTATATTTA
378181 -TATATATATACTTATATACTTTATATTTA
1 ATATATATATAC-TATATACTTTATATTTA
* *
378210 A-ACTATATAAACTATATAATTTATA
1 ATA-TATATATACTATATACTTTATA
378235 CATAGTATAT
Statistics
Matches: 139, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
26 3 0.02
27 6 0.04
28 38 0.27
29 19 0.14
30 44 0.32
31 18 0.13
32 11 0.08
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (29 bp):
ATATATATATACTATATACTTTATATTTA
Found at i:378265 original size:17 final size:17
Alignment explanation
Indices: 378225--378277 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
378215 TATAAACTAT
*
378225 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
378245 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
378262 ATAATATATAAATATA
1 ATAATTTATAATTATA
378278 GGTTGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:378327 original size:20 final size:19
Alignment explanation
Indices: 378303--378664 Score: 150
Period size: 20 Copynumber: 18.9 Consensus size: 19
378293 AATATAATTC
378303 ATATATAGTTTATATATAA
1 ATATATAGTTTATATATAA
*
378322 ACTATATAATTTATATTAATAA
1 A-TATATAGTTTATA-T-ATAA
* *
378344 ACTATATAGTGTATATATAG
1 A-TATATAGTTTATATATAA
* *
378364 TTCA-ATAGTTCATATATAA
1 AT-ATATAGTTTATATATAA
* * **
378383 ACTCTATAGTTTATACATGGT
1 A-TATATAGTTTATATAT-AA
*
378404 ATATATAGTTTATACAT-A
1 ATATATAGTTTATATATAA
* * **
378422 ATATATA-TATACA-ATTT
1 ATATATAGTTTATATATAA
378439 ATATATAGTTTATAT-T-A
1 ATATATAGTTTATATATAA
*
378456 ATA-ATA---TAAATATAA
1 ATATATAGTTTATATATAA
378471 ACTATATAGTTTATATATATATA
1 A-TATATAG-TT-TATATATA-A
* *
378494 ATATATAATTTATATATGAC
1 ATATATAGTTTATATAT-AA
378514 ATATA-A---TA-ATATAA
1 ATATATAGTTTATATATAA
* * * *
378528 ATATACACTGTATAGT-T-T
1 ATATATAGTTTATA-TATAA
*
378546 ATTTATAGTTTATATTAATAA
1 ATATATAGTTTATA-T-ATAA
*
378567 ACTATATAGTTTATACATAA
1 A-TATATAGTTTATATATAA
*
378587 TATATATAGTTTTTATATATA
1 -ATATATAGTTTATATATA-A
*
378608 ATATATACTTTA-ATTATAA
1 ATATATAGTTTATA-TATAA
* *
378627 ACTATATAATTTATACATAA
1 A-TATATAGTTTATATATAA
*
378647 TATATATA-TATATATATA
1 -ATATATAGTTTATATATA
378665 CACACAAATT
Statistics
Matches: 262, Mismatches: 44, Indels: 74
0.69 0.12 0.19
Matches are distributed among these distances:
13 4 0.02
14 7 0.03
15 7 0.03
16 9 0.03
17 17 0.06
18 25 0.10
19 28 0.11
20 110 0.42
21 11 0.04
22 42 0.16
23 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATATAGTTTATATATAA
Found at i:378463 original size:35 final size:33
Alignment explanation
Indices: 378403--378500 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 33
378393 TTATACATGG
*
378403 TATATATAGTTTATACATAAT-ATATATATACAA
1 TATATATAGTTTATA-TTAATAATATATATACAA
* *
378436 TTTATATATAGTTTATATTAATAATATAAATATAA
1 --TATATATAGTTTATATTAATAATATATATACAA
378471 -ACTATATAGTTTATATATATATAATATATA
1 TA-TATATAGTTTATAT-TA-ATAATATATA
378501 ATTTATATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.02
33 14 0.25
34 6 0.11
35 34 0.62
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (33 bp):
TATATATAGTTTATATTAATAATATATATACAA
Found at i:378528 original size:63 final size:67
Alignment explanation
Indices: 378405--378552 Score: 196
Period size: 63 Copynumber: 2.3 Consensus size: 67
378395 ATACATGGTA
* **
378405 TATATAGTTTATACATAATATATATATACAATTTATATATAGTTTATATTAATAATATAAATATA
1 TATATAGTTTATATAT-ATATATATATACAATTTATATATAGTACATATTAATAATATAAATATA
378470 AAC
65 AAC
* *
378473 TATATAGTTTATATATATATA-ATATATAATTTATATAT-G-ACATA-TAATAATATAAATATAC
1 TATATAGTTTATATATATATATATATACAATTTATATATAGTACATATTAATAATATAAATATAA
378534 AC
66 AC
* *
378536 TGTATAGTTTATTTATA
1 TATATAGTTTATATATA
378553 GTTTATATTA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
63 33 0.45
64 3 0.04
65 1 0.01
66 16 0.22
67 5 0.07
68 15 0.21
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (67 bp):
TATATAGTTTATATATATATATATATACAATTTATATATAGTACATATTAATAATATAAATATAA
AC
Found at i:378573 original size:63 final size:63
Alignment explanation
Indices: 378454--378573 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
378444 TAGTTTATAT
**
378454 TAATAATATAAATATAAACTATATAGTTTATATATATATAATATATAATTTATATATGACATA
1 TAATAATATAAATATAAACTATATAGTTTATATATATATAATATATAATAAATATATGACATA
* * * *
378517 TAATAATATAAATATACACTGTATAGTTTATTTATAGT-TTATAT-TAATAAACTATAT
1 TAATAATATAAATATAAACTATATAGTTTATATATA-TATAATATATAATAAA-TATAT
378574 AGTTTATACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 5 0.10
63 43 0.88
64 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (63 bp):
TAATAATATAAATATAAACTATATAGTTTATATATATATAATATATAATAAATATATGACATA
Found at i:378593 original size:33 final size:32
Alignment explanation
Indices: 378405--378593 Score: 102
Period size: 33 Copynumber: 5.8 Consensus size: 32
378395 ATACATGGTA
**
378405 TATATAGTTTATACATAATATATATATACAATTTA-
1 TATATAGTTTATA-ATAATATATAT-T--AATAAAC
* *
378440 TATATAGTTTATATTAATA-ATATAAATATAAAC
1 TATATAGTTTATAATAATATATAT-TA-ATAAAC
* **
378473 TATATAGTTTAT-AT-ATATATAATATATAATT
1 TATATAGTTTATAATAATATATATTA-ATAAAC
** * *
378504 TATATATGACATATAATAATATA-AAT-ATACAC
1 TATATA-G-TTTATAATAATATATATTAATAAAC
* * * *
378536 TGTATAGTTTATTTATAGTTTATATTAATAAAC
1 TATATAGTTTA-TAATAATATATATTAATAAAC
378569 TATATAGTTTATACATAATATATAT
1 TATATAGTTTATA-ATAATATATAT
378594 AGTTTTTATA
Statistics
Matches: 117, Mismatches: 26, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
30 2 0.02
31 24 0.21
32 19 0.16
33 44 0.38
34 10 0.09
35 18 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (32 bp):
TATATAGTTTATAATAATATATATTAATAAAC
Found at i:378614 original size:11 final size:11
Alignment explanation
Indices: 378403--378664 Score: 78
Period size: 11 Copynumber: 23.5 Consensus size: 11
378393 TTATACATGG
* *
378403 TATATATAGTT
1 TATATATAATA
*
378414 TATACATAATA
1 TATATATAATA
*
378425 TATATATACAATT
1 TATATAT--AATA
* *
378438 TATATATAGTT
1 TATATATAATA
378449 TATAT-TAATA
1 TATATATAATA
378459 -ATATA-AATA
1 TATATATAATA
*
378468 TAAACTAT-ATA
1 TATA-TATAATA
*
378479 GTTTATATATATA
1 -TATATATA-ATA
*
378492 TAATATATAATT
1 T-ATATATAATA
* *
378504 TATATATGACA
1 TATATATAATA
378515 TATA-ATAATA
1 TATATATAATA
378525 TA-A-AT-ATA
1 TATATATAATA
* * * *
378533 CACTGTATAGTT
1 TA-TATATAATA
* * *
378545 TATTTATAGTT
1 TATATATAATA
378556 TATAT-TAATA
1 TATATATAATA
* * *
378566 AACTATATAGTT
1 TA-TATATAATA
*
378578 TATACATAATA
1 TATATATAATA
* *
378589 TATATAGT-TTT
1 TATATA-TAATA
378600 TATATATAATA
1 TATATATAATA
*
378611 TATACTTTAATTA
1 TATA-TATAA-TA
*
378624 TAAACTATATAATT
1 T--A-TATATAATA
*
378638 TATACATAATA
1 TATATATAATA
378649 TATATAT-ATA
1 TATATATAATA
378659 TATATA
1 TATATA
378665 CACACAAATT
Statistics
Matches: 183, Mismatches: 45, Indels: 47
0.67 0.16 0.17
Matches are distributed among these distances:
8 4 0.02
9 11 0.06
10 25 0.14
11 94 0.51
12 18 0.10
13 22 0.12
14 2 0.01
15 5 0.03
16 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATAATA
Found at i:379069 original size:2 final size:2
Alignment explanation
Indices: 379062--379089 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
379052 GGCTACAAGA
379062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
379090 TTCAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:379734 original size:96 final size:96
Alignment explanation
Indices: 379601--379802 Score: 395
Period size: 96 Copynumber: 2.1 Consensus size: 96
379591 ATAAAGATCC
379601 GACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTTCCGA
1 GACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTTCCGA
379666 ACCTGAATTAACCTGGTCTTTATCTGCTCCG
66 ACCTGAATTAACCTGGTCTTTATCTGCTCCG
379697 GACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTTCCGA
1 GACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTTCCGA
379762 ACCTGAATTAACCTGGTCTTTATCTGCTCCG
66 ACCTGAATTAACCTGGTCTTTATCTGCTCCG
*
379793 AACCTGAACT
1 GACCTGAACT
379803 GTTTTAACCT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 105 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (96 bp):
GACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTTCCGA
ACCTGAATTAACCTGGTCTTTATCTGCTCCG
Found at i:379859 original size:96 final size:92
Alignment explanation
Indices: 379598--379854 Score: 241
Period size: 96 Copynumber: 2.7 Consensus size: 92
379588 CTGATAAAGA
* ** * *
379598 TCCG-ACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTT
1 TCCGAACCTGAACTTTACCTG-CAATGACATCACCTGAACTGAAAGAGATCCGCCTGAA--CC-T
379662 CCGAACCTGAATTAACCTGGTCTTTATCTGC
62 CCGAACCTGAATTAACCTGGTCTTTATCTGC
* * ** * *
379693 TCCGGACCTGAACTTTATCTGCCAATGATGTCACCTGATCTGAATGAGATCCGCCTGAAGTCCTT
1 TCCGAACCTGAACTTTACCTG-CAATGACATCACCTGAACTGAAAGAGATCCGCCTGAA--CC-T
379758 CCGAACCTGAATTAACCTGGTCTTTATCTGC
62 CCGAACCTGAATTAACCTGGTCTTTATCTGC
*
379789 TCCGAACCTGAACTGTTTTAACCTG-AACTGACATCGATCTGAACTGAAAGTA-ATCCGACCTGA
1 TCCGAACCTGAAC---TTT-ACCTGCAA-TGACATC-ACCTGAACTGAAAG-AGATCCG-CCTGA
379852 ACC
58 ACC
379855 CGAACTGTAC
Statistics
Matches: 146, Mismatches: 7, Indels: 14
0.87 0.04 0.08
Matches are distributed among these distances:
95 4 0.03
96 103 0.71
98 2 0.01
99 10 0.07
100 20 0.14
101 7 0.05
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
TCCGAACCTGAACTTTACCTGCAATGACATCACCTGAACTGAAAGAGATCCGCCTGAACCTCCGA
ACCTGAATTAACCTGGTCTTTATCTGC
Found at i:380180 original size:3 final size:3
Alignment explanation
Indices: 380174--380212 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
380164 AAATAAAAAA
380174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
380213 GCCAAGACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:382290 original size:14 final size:14
Alignment explanation
Indices: 382273--382324 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
382263 ATAGTGAACA
382273 GTGAACAATATCCC
1 GTGAACAATATCCC
* *
382287 GTGAACAATGA-ACA
1 GTGAACAAT-ATCCC
382301 GTGAACAATATCCC
1 GTGAACAATATCCC
* *
382315 ATGAAAAATA
1 GTGAACAATA
382325 CATATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (14 bp):
GTGAACAATATCCC
Found at i:391020 original size:24 final size:23
Alignment explanation
Indices: 390993--391050 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
390983 ATATATAAGT
*
390993 ACATCATCCATGAGTTCATAAAGA
1 ACAT-ATCCATGAGTTCATAAAAA
* *
391017 ACATGTGCATGAGTTCATAAAAA
1 ACATATCCATGAGTTCATAAAAA
*
391040 ACATATGCATG
1 ACATATCCATG
391051 TATATCGTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (23 bp):
ACATATCCATGAGTTCATAAAAA
Found at i:391027 original size:23 final size:23
Alignment explanation
Indices: 391001--391050 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
390991 GTACATCATC
* *
391001 CATGAGTTCATAAAGAACATGTG
1 CATGAGTTCATAAAAAACATATG
391024 CATGAGTTCATAAAAAACATATG
1 CATGAGTTCATAAAAAACATATG
391047 CATG
1 CATG
391051 TATATCGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (23 bp):
CATGAGTTCATAAAAAACATATG
Found at i:392191 original size:14 final size:14
Alignment explanation
Indices: 392172--392199 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
392162 ATTAATTTAA
392172 AAAAACATAAATTC
1 AAAAACATAAATTC
392186 AAAAACATAAATTC
1 AAAAACATAAATTC
392200 TGATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAACATAAATTC
Found at i:394035 original size:20 final size:21
Alignment explanation
Indices: 393997--394036 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
393987 AATTGGAACG
*
393997 CGAATGAATCTCGAATTAGAA
1 CGAATGAATCTCAAATTAGAA
394018 CGAATGAAT-TCAAATTAGA
1 CGAATGAATCTCAAATTAGA
394037 TTCGTGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (21 bp):
CGAATGAATCTCAAATTAGAA
Found at i:398396 original size:24 final size:24
Alignment explanation
Indices: 398352--398397 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
398342 TAAGAATAAT
*
398352 TTTATCTTTGTGACACGTTTTTTC
1 TTTATCTTTGTGACACATTTTTTC
* *
398376 TTTATCTTTGTGGCATATTTTT
1 TTTATCTTTGTGACACATTTTT
398398 CATCTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (24 bp):
TTTATCTTTGTGACACATTTTTTC
Found at i:398616 original size:3 final size:3
Alignment explanation
Indices: 398608--398653 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
398598 TTTTTCAGCA
*
398608 TAT TAT TAT TAT TAT T-T TAT TAT TAT TAC TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
398654 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:399056 original size:13 final size:14
Alignment explanation
Indices: 399038--399066 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
399028 CCTCACCTGC
399038 AAAAG-AAGAAAAA
1 AAAAGAAAGAAAAA
399051 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
399065 AA
1 AA
399067 GAGGATAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:399909 original size:23 final size:23
Alignment explanation
Indices: 399883--399954 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
399873 ACATGTTTAA
399883 ATTATTGCTTTAATTATTATTTT
1 ATTATTGCTTTAATTATTATTTT
*
399906 ATTATTAC-TT--TTA-TATTTT
1 ATTATTGCTTTAATTATTATTTT
*
399925 ATTTATTGCTTTAATTATTATTTA
1 A-TTATTGCTTTAATTATTATTTT
399949 ATTATT
1 ATTATT
399955 ATTTTTATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
19 7 0.17
20 9 0.22
21 2 0.05
22 2 0.05
23 15 0.37
24 6 0.15
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTATTGCTTTAATTATTATTTT
Found at i:399909 original size:43 final size:41
Alignment explanation
Indices: 399858--399947 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 41
399848 TTTCATTTTG
399858 TTTTTATTACTTTCAACATGTTTAAATTATTGCTTTAATTATTA
1 TTTTTATTACTTT-AACAT-TTT-AATTATTGCTTTAATTATTA
* * *
399902 TTTTATTATTACTTTTATATTTTATTTATTGCTTTAATTATTA
1 -TTT-TTATTACTTTAACATTTTAATTATTGCTTTAATTATTA
399945 TTT
1 TTT
399948 AATTATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.07
43 19 0.46
44 3 0.07
45 6 0.15
46 10 0.24
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (41 bp):
TTTTTATTACTTTAACATTTTAATTATTGCTTTAATTATTA
Found at i:399911 original size:11 final size:11
Alignment explanation
Indices: 399895--399959 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
399885 TATTGCTTTA
399895 ATTATTATTTT
1 ATTATTATTTT
*
399906 ATTATTA-CTT
1 ATTATTATTTT
399916 -TTA-TATTTT
1 ATTATTATTTT
* *
399925 ATTTATTGCTTTA
1 A-TTATT-ATTTT
*
399938 ATTATTATTTA
1 ATTATTATTTT
399949 ATTATTATTTT
1 ATTATTATTTT
399960 TATCTTAGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 2 0.05
9 5 0.12
10 2 0.05
11 24 0.56
12 6 0.14
13 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:399919 original size:20 final size:20
Alignment explanation
Indices: 399896--399962 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
399886 ATTGCTTTAA
399896 TTATTATTTTATTATTACTT
1 TTATTATTTTATTATTACTT
*
399916 TTA-TATTTTATTTATTGCTTT
1 TTATTATTTTA-TTATTAC-TT
* *
399937 AATTATTATTTAATTATTATTT
1 --TTATTATTTTATTATTACTT
399959 TTAT
1 TTAT
399963 CTTAGTCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.18
20 13 0.34
21 2 0.05
22 2 0.05
23 8 0.21
24 6 0.16
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (20 bp):
TTATTATTTTATTATTACTT
Found at i:399937 original size:19 final size:20
Alignment explanation
Indices: 399900--399948 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
399890 CTTTAATTAT
399900 TATTTTA-TTATTACTTTTA
1 TATTTTATTTATTACTTTTA
*
399919 TATTTTATTTATTGC-TTTA
1 TATTTTATTTATTACTTTTA
399938 -ATTATTATTTA
1 TATT-TTATTTA
399949 ATTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 18 0.67
20 6 0.22
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTATTTATTACTTTTA
Found at i:399978 original size:2 final size:2
Alignment explanation
Indices: 399971--400021 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
399961 ATCTTAGTCT
399971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
400013 TA TA TA TA T
1 TA TA TA TA T
400022 TTGTTTAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:400435 original size:23 final size:21
Alignment explanation
Indices: 400403--400444 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
400393 CATTTTCTAA
*
400403 TATTTCTAAATAATTAAATATCT
1 TATTTATAAAT-A-TAAATATCT
400426 TATTTATAAATATAAATAT
1 TATTTATAAATATAAATAT
400445 TTTCTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTATAAATATAAATATCT
Found at i:409898 original size:73 final size:73
Alignment explanation
Indices: 409791--410173 Score: 651
Period size: 73 Copynumber: 5.2 Consensus size: 73
409781 TCATAGTTCT
*
409791 GACCTACAGTGCATGATGTTTTCAAACAA-CCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGT
1 GACCTACAGTGCATGATGTTTTCAAA-AAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGT
*
409855 CATCAGTAA
65 CATCTGTAA
* * *
409864 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAACCTTAGGGTT
1 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
409929 ATCTGTAA
66 ATCTGTAA
* * *
409937 GACCTACAGTGCATAATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATCCTAAAACCTCAGGGTC
1 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
410002 ATCTGTAA
66 ATCTGTAA
410010 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
1 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
410075 ATCTGTAA
66 ATCTGTAA
*
410083 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGTC
1 GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
410148 ATCTGTAA
66 ATCTGTAA
* *
410156 GACCTACATTGCAGGATG
1 GACCTACAGTGCATGATG
410174 ATAGGACATT
Statistics
Matches: 294, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
72 2 0.01
73 292 0.99
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (73 bp):
GACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGCCTCAGGGTC
ATCTGTAA
Found at i:410332 original size:3 final size:3
Alignment explanation
Indices: 410324--410364 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
410314 TTTTTAAGCA
* * *
410324 TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
410365 AATAAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Done.