Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_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: 2797279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:2552536 original size:10 final size:10
Alignment explanation
Indices: 2552521--2552581 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
2552511 TGATAACCCA
2552521 TTCGTTTATG
1 TTCGTTTATG
*
2552531 TTCGTTCAT-
1 TTCGTTTATG
* *
2552540 TT-ATTTTTG
1 TTCGTTTATG
2552549 TTCGTTTATG
1 TTCGTTTATG
* *
2552559 ATCATTTATG
1 TTCGTTTATG
*
2552569 TTTGTTTATG
1 TTCGTTTATG
2552579 TTC
1 TTC
2552582 TCCAGACCCG
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 30 0.81
ACGTcount: A:0.13, C:0.10, G:0.15, T:0.62
Consensus pattern (10 bp):
TTCGTTTATG
Found at i:2556412 original size:97 final size:99
Alignment explanation
Indices: 2556233--2556420 Score: 247
Period size: 97 Copynumber: 1.9 Consensus size: 99
2556223 AAATCGAATT
** * *
2556233 GAACCGAAAACTGTAGTTTTTATGTCATTTGGTTTCAGTTTTAATTTTTCAAAACACGCAATGCG
1 GAACCGAAAACTGTAGTTTTTATGTCATTCAGTTTCAGTTTCAATTTTTCAAAACACACAATGCG
* ** * *
2556298 TGGTTCGGTTTATATTTTAGTTAAAAACCGAACC
66 CGGTTCAATTTAGATTTTAGTGAAAAACCGAACC
*
2556332 GAACCGAAAA-TCGT-G-TTTTATGTCATTCAGTTTCAGTTTCAATTTTTCAAAACCCACAATGC
1 GAACCGAAAACT-GTAGTTTTTATGTCATTCAGTTTCAGTTTCAATTTTTCAAAACACACAATGC
*
2556394 GCGGTTTAATTTAGATTTTAGTGAAAA
65 GCGGTTCAATTTAGATTTTAGTGAAAA
2556421 TCGAACCAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
97 63 0.82
98 2 0.03
99 12 0.16
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (99 bp):
GAACCGAAAACTGTAGTTTTTATGTCATTCAGTTTCAGTTTCAATTTTTCAAAACACACAATGCG
CGGTTCAATTTAGATTTTAGTGAAAAACCGAACC
Found at i:2561337 original size:30 final size:30
Alignment explanation
Indices: 2561291--2561365 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 30
2561281 TTTAAATAGT
2561291 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTT-TATTAAATAATATTTA--TAAA
*
2561323 TATTATTTTTTATTAAATAATATTTATAAT
1 TATTATTTTTTATTAAATAATATTTATAAA
2561353 TATTATTTATTTA
1 TATTATTT-TTTA
2561366 GAATTATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 15 0.38
31 11 0.28
32 13 0.33
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTTTTTATTAAATAATATTTATAAA
Found at i:2561341 original size:17 final size:18
Alignment explanation
Indices: 2561313--2561347 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2561303 TATTAATATA
*
2561313 TTTATGTAAATATTATTT
1 TTTATGTAAATAATATTT
2561331 TTTAT-TAAATAATATTT
1 TTTATGTAAATAATATTT
2561348 ATAATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATGTAAATAATATTT
Found at i:2563116 original size:21 final size:21
Alignment explanation
Indices: 2563086--2563133 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2563076 GCAGGGGTAC
* *
2563086 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2563107 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2563128 ATGCCA
1 ATGCCA
2563134 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2563188 original size:21 final size:21
Alignment explanation
Indices: 2563137--2563188 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2563127 TATGCCATCT
*
2563137 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCGAGC
*
2563158 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCGAGC
2563179 CCGCAGGGTT
1 CCGCAGGGTT
2563189 TTATACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCGAGC
Found at i:2563760 original size:34 final size:34
Alignment explanation
Indices: 2563710--2563807 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
2563700 AAATGTTTTT
*
2563710 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
2563744 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
2563778 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
2563808 CATTAAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:2563942 original size:14 final size:14
Alignment explanation
Indices: 2563923--2563952 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2563913 TTTTATCATT
*
2563923 AACATATATATTAA
1 AACATATACATTAA
2563937 AACATATACATTAA
1 AACATATACATTAA
2563951 AA
1 AA
2563953 TCAACTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:2564466 original size:128 final size:128
Alignment explanation
Indices: 2564208--2564958 Score: 1345
Period size: 128 Copynumber: 5.9 Consensus size: 128
2564198 TTACCTGATT
2564208 TACTGATATA--TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAC--ATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2564269 TGACAAAATAATGGAAGGCGC-ACCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
2564331 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2564396 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACTCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
2564459 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
2564524 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
2564587 TATTGATATATCTAGTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2564652 TGACAAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
2564715 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
2564780 TGACAAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTAAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
2564843 TACTGATATATCTAGTGTTCCCGAGGGACATGAGTGACATAATAGGGTAATTG-TAACATATTCT
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAA-TGATAACATATTCT
* *
2564907 -TGACAAAATAATAGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGT
65 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
2564959 ACTCCGATTA
Statistics
Matches: 608, Mismatches: 14, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
123 10 0.02
125 45 0.07
127 76 0.12
128 475 0.78
129 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:2565042 original size:8 final size:8
Alignment explanation
Indices: 2565029--2565069 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2565019 TCACAAGCTT
2565029 TCAAATTC
1 TCAAATTC
2565037 TCAAATTC
1 TCAAATTC
* *
2565045 CCAAACTC
1 TCAAATTC
2565053 T-AAATTC
1 TCAAATTC
2565060 TCAAATTC
1 TCAAATTC
2565068 TC
1 TC
2565070 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:2574200 original size:14 final size:14
Alignment explanation
Indices: 2574181--2574210 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2574171 CAAATGACAA
2574181 CAAGAAGAGAAAGG
1 CAAGAAGAGAAAGG
*
2574195 CAAGAAGATAAAGG
1 CAAGAAGAGAAAGG
2574209 CA
1 CA
2574211 GGCAAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.10, G:0.30, T:0.03
Consensus pattern (14 bp):
CAAGAAGAGAAAGG
Found at i:2575861 original size:81 final size:81
Alignment explanation
Indices: 2575775--2576037 Score: 355
Period size: 81 Copynumber: 3.2 Consensus size: 81
2575765 TTAAGCAGCG
* * * *
2575775 AGTCCGTTCGCCGGTGAAAAATCACCTGGTGATGAGGTAGGAGAGCCGGAAATATCGATGGAAGA
1 AGTCCGTTCGCTGGTGAAAAATCACCTAGTGATGAGGTAGGGGAGCCGGAAATATCGATGGGAGA
*
2575840 AGACGTTCAACAAGAT
66 TGACGTTCAACAAGAT
* * * *
2575856 AGTCCGTTCGCTGGTGAAATATCAACTAGTGATGAGGCAGGGGAGCCGGAAATATCAATGGGAGA
1 AGTCCGTTCGCTGGTGAAAAATCACCTAGTGATGAGGTAGGGGAGCCGGAAATATCGATGGGAGA
*
2575921 TGACGTCCAACAAGAT
66 TGACGTTCAACAAGAT
* * *
2575937 GGTCCGTTCGCTGGTAAAAAAATCACCTAGTGACGAGGTAGGGGAGCCGGAAATATCGATGGGAG
1 AGTCCGTTCGCTGGT-GAAAAATCACCTAGTGATGAGGTAGGGGAGCCGGAAATATCGATGGGAG
* **
2576002 ATGACATTCAACGCGAT
65 ATGACGTTCAACAAGAT
* *
2576019 AGTTCGTTTGCTGGTGAAA
1 AGTCCGTTCGCTGGTGAAA
2576038 TACCACCCGA
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 88 0.56
82 68 0.44
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (81 bp):
AGTCCGTTCGCTGGTGAAAAATCACCTAGTGATGAGGTAGGGGAGCCGGAAATATCGATGGGAGA
TGACGTTCAACAAGAT
Found at i:2582040 original size:31 final size:31
Alignment explanation
Indices: 2581964--2582029 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
2581954 TAACGTCATC
* *
2581964 GTGACCACATCTTAATTAAAACGAAACGAAA
1 GTGACCACATATTAATTAAAACGAAACAAAA
*
2581995 GTTACCACATATTAATTAAAACGAAACAAAA
1 GTGACCACATATTAATTAAAACGAAACAAAA
2582026 GTGA
1 GTGA
2582030 TTACGAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (31 bp):
GTGACCACATATTAATTAAAACGAAACAAAA
Found at i:2587328 original size:43 final size:45
Alignment explanation
Indices: 2587279--2587395 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 45
2587269 AAACTCAATA
*
2587279 AAACCAACAATCAAACAGAAGTAAT-TCCATGTTCAGACATGTTG
1 AAACCAACAATCAAACAGAAGTAATATCCATATTCAGACATGTTG
2587323 -AACCAACAATCAAACAGAAGTAATGCAACTCCATATTCAGACATGTTG
1 AAACCAACAATCAAACAGAAGTAAT---A-TCCATATTCAGACATGTTG
2587371 AAACCAACAATCAAACAGAAGTAAT
1 AAACCAACAATCAAACAGAAGTAAT
2587396 GCAACTCTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
43 24 0.36
48 18 0.27
49 24 0.36
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (45 bp):
AAACCAACAATCAAACAGAAGTAATATCCATATTCAGACATGTTG
Found at i:2587391 original size:49 final size:49
Alignment explanation
Indices: 2587279--2587402 Score: 197
Period size: 49 Copynumber: 2.7 Consensus size: 49
2587269 AAACTCAATA
*
2587279 AAACCAACAATCAAACAGAAGTAAT-----TCCATGTTCAGACATGTTG
1 AAACCAACAATCAAACAGAAGTAATGCAACTCCATATTCAGACATGTTG
2587323 -AACCAACAATCAAACAGAAGTAATGCAACTCCATATTCAGACATGTTG
1 AAACCAACAATCAAACAGAAGTAATGCAACTCCATATTCAGACATGTTG
2587371 AAACCAACAATCAAACAGAAGTAATGCAACTC
1 AAACCAACAATCAAACAGAAGTAATGCAACTC
2587403 TCACAATCGC
Statistics
Matches: 73, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
43 24 0.33
48 18 0.25
49 31 0.42
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (49 bp):
AAACCAACAATCAAACAGAAGTAATGCAACTCCATATTCAGACATGTTG
Found at i:2590052 original size:38 final size:38
Alignment explanation
Indices: 2590001--2590075 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
2589991 AAATGGGCAG
2590001 CATACAACAACAAAATACTATTCTCATATGCAATGAGA
1 CATACAACAACAAAATACTATTCTCATATGCAATGAGA
2590039 CATACAACAACAAAATACTATTCTCATATGCAATGAG
1 CATACAACAACAAAATACTATTCTCATATGCAATGAG
2590076 GTAAGGGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (38 bp):
CATACAACAACAAAATACTATTCTCATATGCAATGAGA
Found at i:2592310 original size:13 final size:13
Alignment explanation
Indices: 2592292--2592328 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
2592282 ATATAATAAT
2592292 ATTTAAAATTAAA
1 ATTTAAAATTAAA
2592305 ATTTAAAA-TAAA
1 ATTTAAAATTAAA
2592317 ATTTTAAAATTA
1 A-TTTAAAATTA
2592329 CCAGAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 15 0.68
14 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:2592318 original size:12 final size:12
Alignment explanation
Indices: 2592286--2592326 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
2592276 TTTTTAATAT
*
2592286 AATAATATTTAA
1 AATAAAATTTAA
2592298 AATTAAAATTTAA
1 AA-TAAAATTTAA
2592311 AATAAAATTTTAA
1 AATAAAA-TTTAA
2592324 AAT
1 AAT
2592327 TACCAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATAAAATTTAA
Found at i:2592560 original size:21 final size:21
Alignment explanation
Indices: 2592536--2592575 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2592526 TAGGGTTATA
2592536 GTTTA-AGCTTTAAGATTTGGG
1 GTTTAGAG-TTTAAGATTTGGG
2592557 GTTTAGAGTTTAAGATTTG
1 GTTTAGAGTTTAAGATTTG
2592576 AAATTGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.45
Consensus pattern (21 bp):
GTTTAGAGTTTAAGATTTGGG
Found at i:2600386 original size:22 final size:22
Alignment explanation
Indices: 2600335--2600386 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
2600325 AAAGTAGCAG
2600335 GAGGAGGAGAAGAAGAGGAAGAA
1 GAGG-GGAGAAGAAGAGGAAGAA
*
2600358 GAAGGGAGAAG-AGAGAGAA-ACA
1 GAGGGGAGAAGAAGAG-GAAGA-A
2600380 GAGGGGA
1 GAGGGGA
2600387 CCCACTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 5 0.20
22 17 0.68
23 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (22 bp):
GAGGGGAGAAGAAGAGGAAGAA
Found at i:2600730 original size:21 final size:21
Alignment explanation
Indices: 2600714--2600791 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
2600704 GCGTTGCATT
2600714 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* *
2600735 TCACGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
**
2600756 TCGTATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2600777 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
2600792 CTACAATGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:2600833 original size:40 final size:41
Alignment explanation
Indices: 2600780--2600869 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
2600770 TTGAAAATCG
*
2600780 CGTTGCGATAGTCTACA-ATGTCATTGCGATTTTTCAAATT
1 CGTTGCGATAGTCTACAGATGTCATTGCGATTTTCCAAATT
* * *
2600820 CGTTGCGGTAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGATGTCATTGCGATTTTCCAAATT
2600861 CGTTGCGAT
1 CGTTGCGAT
2600870 TTTCCAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 16 0.36
41 28 0.64
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGATGTCATTGCGATTTTCCAAATT
Found at i:2600865 original size:19 final size:19
Alignment explanation
Indices: 2600841--2600888 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
2600831 TCTACAGTTG
2600841 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
2600860 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
2600879 TCGTTGCGAT
1 TCGTTGCGAT
2600889 AGTTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:2600975 original size:6 final size:6
Alignment explanation
Indices: 2600964--2601002 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
2600954 GACACGTATT
*
2600964 ACCACG ACCACG ACCACG ACCACG ACCACG ATCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2601003 CGAGACGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.33, C:0.49, G:0.15, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:2601503 original size:6 final size:6
Alignment explanation
Indices: 2601492--2601518 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2601482 TCTCGGGTCA
2601492 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
2601519 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2601679 original size:41 final size:41
Alignment explanation
Indices: 2601599--2601728 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 41
2601589 TTTTTTAACT
* *
2601599 ATCGCAACGACAACTGTACACTATCGCAA--CGAATTTGGAAA
1 ATCGCAACGACAATTGTA-ACTATCGCAACGCGAA-ATGGAAA
*
2601640 ATCGCAACGAC-ATTGTAGACTATCGTAACGCGAAATGGAAA
1 ATCGCAACGACAATTGTA-ACTATCGCAACGCGAAATGGAAA
* *
2601681 ATCGCAACG-CGATTTTCAACTATCGCAACGCGAAATGG-AA
1 ATCGCAACGACAATTGT-AACTATCGCAACGCGAAATGGAAA
2601721 A-CGCAACG
1 ATCGCAACG
2601729 CGACTGGAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
39 7 0.09
40 18 0.23
41 49 0.62
42 5 0.06
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGACAATTGTAACTATCGCAACGCGAAATGGAAA
Found at i:2601707 original size:21 final size:20
Alignment explanation
Indices: 2601681--2601827 Score: 124
Period size: 21 Copynumber: 7.5 Consensus size: 20
2601671 GAAATGGAAA
2601681 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
** **
2601702 ATCGCAACGCGAAATGGAA-
1 ATCGCAACGCGATTTTCAAT
* **
2601721 A-CGCAACGCGA-CTGGAA-
1 ATCGCAACGCGATTTTCAAT
2601738 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
** **
2601759 ATCGCAACGCGAAATGGAA-
1 ATCGCAACGCGATTTTCAAT
2601778 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
*
2601799 ATCGCAACGCGATTTTCATT
1 ATCGCAACGCGATTTTCAAT
2601819 ATCGCAACG
1 ATCGCAACG
2601828 TGAATTGCGA
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.06
18 20 0.19
19 19 0.18
20 10 0.10
21 48 0.47
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATTTTCAAT
Found at i:2601727 original size:18 final size:19
Alignment explanation
Indices: 2601661--2601789 Score: 109
Period size: 21 Copynumber: 6.6 Consensus size: 19
2601651 ATTGTAGACT
*
2601661 ATCGTAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGG-AA
** **
2601681 ATCGCAACGCGATTTTCAA
1 ATCGCAACGCGAAATGGAA
2601700 CTATCGCAACGCGAAATGGAA
1 --ATCGCAACGCGAAATGGAA
*
2601721 A-CGCAACGCG-ACTGGAA
1 ATCGCAACGCGAAATGGAA
** **
2601738 ATCGCAACGCGATTTTCAA
1 ATCGCAACGCGAAATGGAA
2601757 CTATCGCAACGCGAAATGGAA
1 --ATCGCAACGCGAAATGGAA
2601778 ATCGCAACGCGA
1 ATCGCAACGCGA
2601790 TTTTCAACTA
Statistics
Matches: 85, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
17 7 0.08
18 18 0.21
19 18 0.21
20 12 0.14
21 30 0.35
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGGAA
Found at i:2601744 original size:57 final size:59
Alignment explanation
Indices: 2601679--2601827 Score: 223
Period size: 57 Copynumber: 2.5 Consensus size: 59
2601669 GCGAAATGGA
*
2601679 AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA-CGCAACGCGA-CTGG
1 AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAATCGCAACGCGATCTGC
* *
2601736 AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAATCGCAACGCGATTTTC
1 AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAATCGCAACGCGATCTGC
*
2601795 AACTATCGCAACGCGATTTTC-ATTATCGCAACG
1 AA--ATCGCAACGCGATTTTCAACTATCGCAACG
2601828 TGAATTGCGA
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
57 43 0.51
58 10 0.12
59 3 0.04
60 11 0.13
61 17 0.20
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (59 bp):
AAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAATCGCAACGCGATCTGC
Found at i:2601784 original size:40 final size:40
Alignment explanation
Indices: 2601722--2601810 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
2601712 GAAATGGAAA
*
2601722 CGCAACGCG-ACTGGAAATCGCAACGCGATTTTCAACTAT
1 CGCAACGCGAAATGGAAATCGCAACGCGATTTTCAACTAT
2601761 CGCAACGCGAAATGGAAATCGCAACGCGATTTTCAACTAT
1 CGCAACGCGAAATGGAAATCGCAACGCGATTTTCAACTAT
2601801 CGCAACGCGA
1 CGCAACGCGA
2601811 TTTTCATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 9 0.19
40 39 0.81
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
CGCAACGCGAAATGGAAATCGCAACGCGATTTTCAACTAT
Found at i:2601866 original size:18 final size:18
Alignment explanation
Indices: 2601843--2601877 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2601833 TGCGATAGTG
2601843 GAGATCGCAATGCGATTA
1 GAGATCGCAATGCGATTA
*
2601861 GAGATCGCATTGCGATT
1 GAGATCGCAATGCGATT
2601878 TGTGGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (18 bp):
GAGATCGCAATGCGATTA
Found at i:2602255 original size:22 final size:24
Alignment explanation
Indices: 2602214--2602257 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
2602204 TATATCACAA
2602214 AAATATTAAATTGATGAAATTTTT
1 AAATATTAAATTGATGAAATTTTT
*
2602238 AAATA-TAAA-TGATTAAATTT
1 AAATATTAAATTGATGAAATTT
2602258 ATTTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
AAATATTAAATTGATGAAATTTTT
Found at i:2603102 original size:226 final size:226
Alignment explanation
Indices: 2602708--2603152 Score: 791
Period size: 226 Copynumber: 2.0 Consensus size: 226
2602698 ATTTGTTCCG
*
2602708 TTTCAATACTTTAACTTTCATTTTTTTAAAATCATACTTAGTGTTTAGTTTTTGTTTCATTTTAG
1 TTTCAATACTTTAACTTTCATTTTTTCAAAATCATACTTAGTGTTTAGTTTTTGTTTCATTTTAG
* * *
2602773 TATCTCATCGTTAAAAACTTAATGGACGGACTTGTCGGTCGCCACGTCTACAGTTTTCTTTCGTC
66 TATCTCATCGTTAAAAACTTAACGGACGGACTTGTCGGTCGCCACGTCTACAATTATCTTTCGTC
*
2602838 GTATCCGTCGGTCAATGAAATCCAAACTTTCTAGCTTGCACCTTTTTGACCCATTGGACATGATT
131 GTATCCGTCGGTCAATGAAATCCAAACTTTCTAGCTTGCACCTTTTTGACCCATTGAACATGATT
2602903 TCGATCCCCGTTTCACCGTAAAATGCTTTCA
196 TCGATCCCCGTTTCACCGTAAAATGCTTTCA
* *
2602934 TTTCAATACTTTAACTTTCATTTTTTCCAAATCATACTTAGTGTTTATTTTTTGTTTCATTTTAG
1 TTTCAATACTTTAACTTTCATTTTTTCAAAATCATACTTAGTGTTTAGTTTTTGTTTCATTTTAG
*
2602999 TATCTCATCGTTAAAAACTTAACGGACGGACTTGTCGGTCGCCATGTCTACAATTATCTTTCGTC
66 TATCTCATCGTTAAAAACTTAACGGACGGACTTGTCGGTCGCCACGTCTACAATTATCTTTCGTC
* *
2603064 GTATCTGTCGGTCAATGAAATCCAAACTTTCTAGCTTGCACCTTTTTGACCCATTGAACGTGATT
131 GTATCCGTCGGTCAATGAAATCCAAACTTTCTAGCTTGCACCTTTTTGACCCATTGAACATGATT
*
2603129 TCGATCTCCGTTTCACCGTAAAAT
196 TCGATCCCCGTTTCACCGTAAAAT
2603153 TCCCCGATCT
Statistics
Matches: 208, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
226 208 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (226 bp):
TTTCAATACTTTAACTTTCATTTTTTCAAAATCATACTTAGTGTTTAGTTTTTGTTTCATTTTAG
TATCTCATCGTTAAAAACTTAACGGACGGACTTGTCGGTCGCCACGTCTACAATTATCTTTCGTC
GTATCCGTCGGTCAATGAAATCCAAACTTTCTAGCTTGCACCTTTTTGACCCATTGAACATGATT
TCGATCCCCGTTTCACCGTAAAATGCTTTCA
Found at i:2604677 original size:34 final size:34
Alignment explanation
Indices: 2604639--2604719 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
2604629 GCTTTGACTT
2604639 AAATTAGGGTGATGGAGCTGCCACCGATCATTTA
1 AAATTAGGGTGATGGAGCTGCCACCGATCATTTA
2604673 AAATTAGGGTGATGGAGCTGCCACCGATCATTTA
1 AAATTAGGGTGATGGAGCTGCCACCGATCATTTA
*
2604707 AAATTAAGGTGAT
1 AAATTAGGGTGAT
2604720 TGGATACTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (34 bp):
AAATTAGGGTGATGGAGCTGCCACCGATCATTTA
Found at i:2608677 original size:31 final size:31
Alignment explanation
Indices: 2608553--2608674 Score: 138
Period size: 31 Copynumber: 3.9 Consensus size: 31
2608543 GTCGAGGGTA
2608553 TACCTATGTTCTACGGAACATATGGACAAATT
1 TACCTATGTTCTACGGAACATATGGAC-AATT
*** *
2608585 TACCTATG-TCTTTTGAGACATATGGACAATA
1 TACCTATGTTCTACGGA-ACATATGGACAATT
* *
2608616 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAATT
* * *
2608647 TACCTAAGTTCTTCGGAACCTATGGACA
1 TACCTATGTTCTACGGAACATATGGACA
2608675 GTTGCCGAGG
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
31 52 0.69
32 23 0.31
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAATT
Found at i:2608715 original size:30 final size:30
Alignment explanation
Indices: 2608664--2608730 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2608654 GTTCTTCGGA
*
2608664 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTATGGACAGTTACCGAGGATCTTTATG
* * *
2608694 ACCTCTGGATAGTTACCGAGGATCTTTGTG
1 ACCTATGGACAGTTACCGAGGATCTTTATG
*
2608724 ACATATG
1 ACCTATG
2608731 AATAAGTCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTATGGACAGTTACCGAGGATCTTTATG
Found at i:2612081 original size:64 final size:65
Alignment explanation
Indices: 2612013--2612169 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 65
2612003 TTGAAGGTAT
***
2612013 ATCGATGCA-CAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAGAAACATCGAATGCA-ATTAG
1 ATCGATGCATCAGGTAGTGCATCGATGCATC-CCAATAATAATA-AAACATCGAATGCATATTA-
2612074 TGC
63 TGC
* * * * *
2612077 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAATAATAATACAACATCGAATGTATTTTATGC
1 ATCGATGCATCAGGTAGTGCATCGATGCATCCCAATAATAATAAAACATCGAATGCATATTATGC
*
2612141 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCATCAGGTAGTGCATCGATGCAT
2612170 ACCCTTTTGA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 2 0.03
64 63 0.82
65 12 0.16
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (65 bp):
ATCGATGCATCAGGTAGTGCATCGATGCATCCCAATAATAATAAAACATCGAATGCATATTATGC
Found at i:2613347 original size:31 final size:31
Alignment explanation
Indices: 2613260--2613390 Score: 135
Period size: 31 Copynumber: 4.2 Consensus size: 31
2613250 AGAGTCAAGG
2613260 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
2613291 -TAATTACCTATG-TCTTTC-GAGACATATGAACA
1 GT-A-TACCTATGTTC-TACGGA-ACATATGGACA
*
2613323 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
2613354 GTTTACCTAAGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
2613385 GT-TACC
1 GTATACC
2613391 GAGGATCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
30 5 0.06
31 52 0.63
32 25 0.30
33 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:2613418 original size:30 final size:30
Alignment explanation
Indices: 2613374--2613445 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
2613364 GTTCTTCGGA
* *
2613374 ACCTATGGACAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
*
2613404 ACCTCTGGATAGTTACCGAGGATCTTTGTG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
2613434 ACCTCTGGATAG
1 ACCTCTGGATAG
2613446 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:2614298 original size:26 final size:26
Alignment explanation
Indices: 2614262--2614313 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2614252 TGAGATATGA
2614262 TAAAATCGTATTTTAATGATGTTTAT
1 TAAAATCGTATTTTAATGATGTTTAT
2614288 TAAAATCGTATTTTAATGATGTTTAT
1 TAAAATCGTATTTTAATGATGTTTAT
2614314 CAGTACCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (26 bp):
TAAAATCGTATTTTAATGATGTTTAT
Found at i:2614751 original size:3 final size:3
Alignment explanation
Indices: 2614743--2614783 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2614733 TCATATTTAA
2614743 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2614784 ATGTCTTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2615586 original size:26 final size:26
Alignment explanation
Indices: 2615556--2615617 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
2615546 TTTAGTAGCG
2615556 TCTTTCCTTAACCTTATATTAGGTTA
1 TCTTTCCTTAACCTTATATTAGGTTA
* ** *
2615582 TCTTTACTTAGTCTTATATTAGGTTG
1 TCTTTCCTTAACCTTATATTAGGTTA
2615608 TCTTTCCTTA
1 TCTTTCCTTA
2615618 CACATTCCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.53
Consensus pattern (26 bp):
TCTTTCCTTAACCTTATATTAGGTTA
Found at i:2616006 original size:20 final size:20
Alignment explanation
Indices: 2615981--2616020 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2615971 ATCTTGTCCC
2615981 GGTCTACAAAAACAAGGGCA
1 GGTCTACAAAAACAAGGGCA
*
2616001 GGTCTACAAAAACTAGGGCA
1 GGTCTACAAAAACAAGGGCA
2616021 AACCACCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (20 bp):
GGTCTACAAAAACAAGGGCA
Found at i:2617823 original size:3 final size:3
Alignment explanation
Indices: 2617815--2617842 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2617805 TTAAACTCAA
2617815 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2617843 GGGTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2619734 original size:32 final size:32
Alignment explanation
Indices: 2619693--2619753 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
2619683 TTAAAAGTTG
* *
2619693 TTGATGGAATTTGTTGCCTTCAACCTTCACCA
1 TTGATGGAATTTATGGCCTTCAACCTTCACCA
2619725 TTGATGGAATTTATGGCCTTCAACCTTCA
1 TTGATGGAATTTATGGCCTTCAACCTTCA
2619754 AACAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (32 bp):
TTGATGGAATTTATGGCCTTCAACCTTCACCA
Found at i:2626671 original size:65 final size:66
Alignment explanation
Indices: 2626602--2626734 Score: 250
Period size: 65 Copynumber: 2.0 Consensus size: 66
2626592 TCAAATATAT
2626602 GTAGAAGAGACGTTTAAATTCCAATGACAATGATTTTGCTAACAC-AACATGGAAATTCAAGCAT
1 GTAGAAGAGACGTTTAAATTCCAATGACAATGATTTTGCTAACACAAACATGGAAATTCAAGCAT
2626666 A
66 A
*
2626667 GTAGAAGAGACGTTTAAATTCCAATGACAATGATTTTGCTAACACAAACATGGAAATTCAGGCAT
1 GTAGAAGAGACGTTTAAATTCCAATGACAATGATTTTGCTAACACAAACATGGAAATTCAAGCAT
2626732 A
66 A
2626733 GT
1 GT
2626735 GTCATATATT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 45 0.68
66 21 0.32
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (66 bp):
GTAGAAGAGACGTTTAAATTCCAATGACAATGATTTTGCTAACACAAACATGGAAATTCAAGCAT
A
Found at i:2627857 original size:4 final size:4
Alignment explanation
Indices: 2627848--2627873 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2627838 GTGACAAACT
2627848 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
2627874 ACTCTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:2628110 original size:31 final size:31
Alignment explanation
Indices: 2628069--2628140 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
2628059 AAAAAATAAT
* * *
2628069 ATATGGTCACTTTCGTTTTTATTTAATTAAG
1 ATATGATCACTTCCGTCTTTATTTAATTAAG
*
2628100 CTATGATCACTTCCGTCTTTATTTAATTAAG
1 ATATGATCACTTCCGTCTTTATTTAATTAAG
*
2628131 ATATAATCAC
1 ATATGATCAC
2628141 CACATGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (31 bp):
ATATGATCACTTCCGTCTTTATTTAATTAAG
Found at i:2628425 original size:23 final size:23
Alignment explanation
Indices: 2628396--2628459 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
2628386 ATCATAAAAT
2628396 TAAGTTAATA-AAAATATATTTAA
1 TAAGTTAATATAAAA-ATATTTAA
**
2628419 TAAGTTAATATAAAAATATTTTT
1 TAAGTTAATATAAAAATATTTAA
2628442 TAAAGTTAATATATAAAA
1 T-AAGTTAATATA-AAAA
2628460 AAATATTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 17 0.47
24 15 0.42
25 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
TAAGTTAATATAAAAATATTTAA
Found at i:2628443 original size:26 final size:24
Alignment explanation
Indices: 2628396--2628459 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
2628386 ATCATAAAAT
2628396 TAAGTT-A-ATAAAAATATATTTAA
1 TAAGTTAATATAAAAATATATTT-A
*
2628419 TAAGTTAATATAAAAATAT-TTTT
1 TAAGTTAATATAAAAATATATTTA
2628442 TAAAGTTAATATATAAAA
1 T-AAGTTAATATA-AAAA
2628460 AAATATTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 7 0.19
24 15 0.42
25 14 0.39
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (24 bp):
TAAGTTAATATAAAAATATATTTA
Found at i:2628460 original size:26 final size:25
Alignment explanation
Indices: 2628396--2628459 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
2628386 ATCATAAAAT
2628396 TAAGTT-A-ATAAAAATATATTTAA
1 TAAGTTAATATAAAAATATATTTAA
* *
2628419 TAAGTTAATATAAAAATATTTTTTA
1 TAAGTTAATATAAAAATATATTTAA
2628444 -AAGTTAATATATAAAA
1 TAAGTTAATATA-AAAA
2628460 AAATATTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 6 0.17
24 12 0.33
25 18 0.50
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (25 bp):
TAAGTTAATATAAAAATATATTTAA
Found at i:2631742 original size:11 final size:11
Alignment explanation
Indices: 2631726--2631759 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2631716 TTTAAGTAAT
*
2631726 ATATATATGTG
1 ATATATATATG
2631737 ATATATATATG
1 ATATATATATG
2631748 ATATTATATATG
1 ATA-TATATATG
2631760 GATGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
ATATATATATG
Found at i:2632973 original size:14 final size:14
Alignment explanation
Indices: 2632954--2632985 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2632944 TTGTATAAAA
2632954 ACTCGAATAACTCG
1 ACTCGAATAACTCG
*
2632968 ACTCGAATAACTTG
1 ACTCGAATAACTCG
2632982 ACTC
1 ACTC
2632986 AAATTTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (14 bp):
ACTCGAATAACTCG
Found at i:2646756 original size:32 final size:32
Alignment explanation
Indices: 2646718--2646780 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2646708 TTTATTTTAT
2646718 TTGTTTATTATTATTATTATAAATATAATATG
1 TTGTTTATTATTATTATTATAAATATAATATG
2646750 TTGTTTATTATTATTATTATAAATATAATAT
1 TTGTTTATTATTATTATTATAAATATAATAT
2646781 TTTTATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (32 bp):
TTGTTTATTATTATTATTATAAATATAATATG
Found at i:2646761 original size:48 final size:49
Alignment explanation
Indices: 2646675--2646767 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
2646665 GTAAATTTTA
* * *
2646675 TATTATTTTTATTATAAATTTAATATTATTTCTTTTATT-TTATTTGTT
1 TATTATTATTATTATAAATATAATATTATTTCTATTATTATTATTTGTT
2646723 TATTATTATTATTATAAATATAATATGT-TGTT-TATTATTATTATT
1 TATTATTATTATTATAAATATAATAT-TAT-TTCTATTATTATTATT
2646768 ATAAATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 31 0.79
49 8 0.21
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (49 bp):
TATTATTATTATTATAAATATAATATTATTTCTATTATTATTATTTGTT
Found at i:2646895 original size:132 final size:132
Alignment explanation
Indices: 2646754--2647106 Score: 595
Period size: 132 Copynumber: 2.7 Consensus size: 132
2646744 AATATGTTGT
* *
2646754 TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAACATAAATAAACTTTATTTGTTAT
1 TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAAGATAAGTAAACTTTATTTGTTAT
* * *
2646819 TGTTTTCAATCTTTCAATAAGATTCTTATTTTTATATTCCTCTTAGATAACCTAAGTAAACTTTC
66 TGTTTTCAATCTTACAATAAGATTCTTATTTTTATATCCCTCTTAGATAACATAAGTAAACTTTC
2646884 TA
131 TA
* *
2646886 TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAAGATAAGTAAACTTTAATTGTTAA
1 TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAAGATAAGTAAACTTTATTTGTTAT
* *
2646951 TGTTTTAAATCTTACAATAAGATTCTTATTTTTATATCCCTCTTAGGTAACATAAGTAAACTTTC
66 TGTTTTCAATCTTACAATAAGATTCTTATTTTTATATCCCTCTTAGATAACATAAGTAAACTTTC
2647016 TA
131 TA
*
2647018 TTA-T-TT-TTATTATAAATCTAATATTTTTATTACAAGTAAGATAAGTAAACTTTATTTGTTAT
1 TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAAGATAAGTAAACTTTATTTGTTAT
2647080 TGTTTTCAATCTTACAATAAGATTCTT
66 TGTTTTCAATCTTACAATAAGATTCTT
2647107 CCTTTCGATT
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
129 79 0.38
130 2 0.01
131 1 0.00
132 126 0.61
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (132 bp):
TTATTATTATTATTATAAATATAATATTTTTATTACAAGTAAGATAAGTAAACTTTATTTGTTAT
TGTTTTCAATCTTACAATAAGATTCTTATTTTTATATCCCTCTTAGATAACATAAGTAAACTTTC
TA
Found at i:2647264 original size:16 final size:17
Alignment explanation
Indices: 2647222--2647268 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2647212 TTTGGGTTGA
* *
2647222 TTTCAGTTCGGGTTACT
1 TTTCGGTTCGGGTTAAT
*
2647239 TTTCGGTTCGTGTTAAT
1 TTTCGGTTCGGGTTAAT
2647256 TTT-GGTTCGGGTT
1 TTTCGGTTCGGGTT
2647269 GCTTCTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.09, C:0.13, G:0.28, T:0.51
Consensus pattern (17 bp):
TTTCGGTTCGGGTTAAT
Found at i:2651110 original size:14 final size:14
Alignment explanation
Indices: 2651091--2651127 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2651081 TATAAAGTAC
2651091 GGTTTCTGATTTTT
1 GGTTTCTGATTTTT
*
2651105 GGTTTCTGGTTTTT
1 GGTTTCTGATTTTT
*
2651119 GATTTCTGA
1 GGTTTCTGA
2651128 CACAAGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.59
Consensus pattern (14 bp):
GGTTTCTGATTTTT
Found at i:2653996 original size:6 final size:6
Alignment explanation
Indices: 2653985--2654011 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2653975 ATATGTAATC
2653985 CGGCAT CGGCAT CGGCAT CGGCAT CGG
1 CGGCAT CGGCAT CGGCAT CGGCAT CGG
2654012 TATAAGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (6 bp):
CGGCAT
Found at i:2655216 original size:2 final size:2
Alignment explanation
Indices: 2655211--2655235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2655201 TTCTTACATT
2655211 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 T
2655236 TAAAAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2655396 original size:13 final size:15
Alignment explanation
Indices: 2655378--2655409 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2655368 TCTTGCTTTT
2655378 TTTATG-AA-TTATG
1 TTTATGAAATTTATG
2655391 TTTATGAAATTTATG
1 TTTATGAAATTTATG
2655406 TTTA
1 TTTA
2655410 GACTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTATGAAATTTATG
Found at i:2656818 original size:20 final size:21
Alignment explanation
Indices: 2656795--2656834 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2656785 TAAAAATTGT
*
2656795 AACGCGAA-TTGGAAAATCGC
1 AACGCGAATTTAGAAAATCGC
2656815 AACGCGAATTTAGAAAATCG
1 AACGCGAATTTAGAAAATCG
2656835 TAAAATCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
AACGCGAATTTAGAAAATCGC
Found at i:2657291 original size:60 final size:60
Alignment explanation
Indices: 2657227--2657353 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 60
2657217 TGGAGTTCGC
* * * *
2657227 GTTGCGAATTTGAATTTTGTGTTACGAATTTGACTATCGCGTTTCGAATTTAACTTATGT
1 GTTGCGAATTTGAATATCGTGTTACGAATTTAACTATCGCGTTGCGAATTTAACTTATGT
* * * *
2657287 GTTGCGAATTTGACTATCGTGTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGAATATCGTGTTACGAATTTAACTATCGCGTTGCGAATTTAACTTATGT
2657347 GTTGCGA
1 GTTGCGA
2657354 TTTACAAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (60 bp):
GTTGCGAATTTGAATATCGTGTTACGAATTTAACTATCGCGTTGCGAATTTAACTTATGT
Found at i:2657308 original size:20 final size:20
Alignment explanation
Indices: 2657227--2657353 Score: 141
Period size: 20 Copynumber: 6.3 Consensus size: 20
2657217 TGGAGTTCGC
* * *
2657227 GTTGCGAATTTGAATTTTGT
1 GTTGCGAATTTGACTATCGT
* *
2657247 GTTACGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGT
* *
2657267 GTTTCGAATTTAACTTAT-GT
1 GTTGCGAATTTGAC-TATCGT
2657287 GTTGCGAATTTGACTATCGT
1 GTTGCGAATTTGACTATCGT
* *
2657307 GTTGCGAATTTAACTATCGC
1 GTTGCGAATTTGACTATCGT
2657327 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GT
2657347 GTTGCGA
1 GTTGCGA
2657354 TTTACAAATT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
19 5 0.06
20 82 0.91
21 3 0.03
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGT
Found at i:2657367 original size:40 final size:40
Alignment explanation
Indices: 2657227--2657378 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
2657217 TGGAGTTCGC
* * * * * *
2657227 GTTGCGAATTTGAATTTTGTGTTACGAATTTGACTATCGC
1 GTTGCGAATTTAAATATCGCGTTGCGAATTTGACTATCGT
* * *
2657267 GTTTCGAATTTAACTTAT-GTGTTGCGAATTTGACTATCGT
1 GTTGCGAATTTAA-ATATCGCGTTGCGAATTTGACTATCGT
*
2657307 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTAAATATCGCGTTGCGAATTTGACTATC-GT
*
2657347 GTTGCG-ATTTACAA-ATTCGCGTAGCGAATTTG
1 GTTGCGAATTTA-AATA-TCGCGTTGCGAATTTG
2657379 GAAAATCGCA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 11 0.11
40 83 0.86
41 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (40 bp):
GTTGCGAATTTAAATATCGCGTTGCGAATTTGACTATCGT
Found at i:2657374 original size:60 final size:60
Alignment explanation
Indices: 2657251--2657377 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
2657241 TTTTGTGTTA
* * * * *
2657251 CGAATTTGACTATCGCGTTTCGAATTTAACTTATGTGTTGCGAATTTGACTATCGTGTTG
1 CGAATTTAACTATCGCGTTGCGAATTTAACTTATGTGTTGCGAATTTGACAATCGCGTAG
* *
2657311 CGAATTTAACTATCGCGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAAATTCGCGTAG
1 CGAATTTAACTATCGCGTTGCGAATTTAACTTATGTGTTGCGAATTTGAC-AA-TCGCGTAG
2657371 CGAATTT
1 CGAATTT
2657378 GGAAAATCGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.03
59 5 0.09
60 51 0.88
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (60 bp):
CGAATTTAACTATCGCGTTGCGAATTTAACTTATGTGTTGCGAATTTGACAATCGCGTAG
Found at i:2657387 original size:21 final size:21
Alignment explanation
Indices: 2657371--2657410 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2657361 ATTCGCGTAG
2657371 CGAATTTGGAAAATCGCAACA
1 CGAATTTGGAAAATCGCAACA
2657392 CGAATTTGGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
2657411 TGTGATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (21 bp):
CGAATTTGGAAAATCGCAACA
Found at i:2657482 original size:23 final size:23
Alignment explanation
Indices: 2657449--2657511 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
2657439 TGGAAACTGG
2657449 GTTGCGAAATTTGTTGACTATCGT
1 GTTGC-AAATTTGTTGACTATCGT
2657473 GTTGCAAATTTGTTGACTATCGT
1 GTTGCAAATTTGTTGACTATCGT
2657496 GTTGCAAATTTGTTGA
1 GTTGCAAATTTGTTGA
2657512 TTATTTTAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
23 34 0.87
24 5 0.13
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (23 bp):
GTTGCAAATTTGTTGACTATCGT
Found at i:2658125 original size:2 final size:2
Alignment explanation
Indices: 2658118--2658171 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2658108 CAAGAAAATT
2658118 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
2658160 TA TA TA TA TA TA
1 TA TA TA TA TA TA
2658172 ATTTCCACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2661200 original size:14 final size:14
Alignment explanation
Indices: 2661179--2661212 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2661169 TATATCTTAC
*
2661179 CCCTAATTTA-AAA
1 CCCTAAATTATAAA
2661192 CCCTAAATTATAAA
1 CCCTAAATTATAAA
2661206 CCCTAAA
1 CCCTAAA
2661213 CCCTAACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAAATTATAAA
Found at i:2668715 original size:82 final size:87
Alignment explanation
Indices: 2668567--2668739 Score: 293
Period size: 82 Copynumber: 2.0 Consensus size: 87
2668557 ACCTTATGTA
2668567 GCAAGTCTGCTTTATTTCCTCGCATTCTTTTCATGTAATATCTTAAATCATTGCTCTTTTTTGAT
1 GCAAGTCTGCTTTATTTCCTCGCATTCTTTTCATGTAATATCTT--ATCATTGCTCTTTTTTGAT
2668632 AGGAATGGCAGGCCTCAAATCATT
64 AGGAATGGCAGGCCTCAAATCATT
2668656 GCAAGTCTGCTTTATTTCCTCGCA-T-TTTTCATGTAATATC-T-T-ATTGCTCTTTTTTGATAG
1 GCAAGTCTGCTTTATTTCCTCGCATTCTTTTCATGTAATATCTTATCATTGCTCTTTTTTGATAG
2668716 GAATGGCAGGCCTCAAATCATT
66 GAATGGCAGGCCTCAAATCATT
2668738 GC
1 GC
2668740 TCTTAAATGT
Statistics
Matches: 84, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
82 42 0.50
83 1 0.01
86 1 0.01
87 15 0.18
88 1 0.01
89 24 0.29
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.42
Consensus pattern (87 bp):
GCAAGTCTGCTTTATTTCCTCGCATTCTTTTCATGTAATATCTTATCATTGCTCTTTTTTGATAG
GAATGGCAGGCCTCAAATCATT
Found at i:2675100 original size:2 final size:2
Alignment explanation
Indices: 2675093--2675125 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2675083 TTAACATTAA
*
2675093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2675126 CAAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2679286 original size:24 final size:24
Alignment explanation
Indices: 2679259--2679306 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2679249 GCTAATGTGT
*
2679259 TATACGTCTTAAATGA-AGACATGA
1 TATACGTCTAAAATGATA-ACATGA
*
2679283 TATATGTCTAAAATGATAACATGA
1 TATACGTCTAAAATGATAACATGA
2679307 CACATATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (24 bp):
TATACGTCTAAAATGATAACATGA
Found at i:2690314 original size:2 final size:2
Alignment explanation
Indices: 2690307--2690371 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
2690297 AGTACTTATC
2690307 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
2690349 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
2690372 CTTTAATAGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2697971 original size:2 final size:2
Alignment explanation
Indices: 2697966--2697998 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2697956 TAAAAAATTA
2697966 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2697999 CATGAAACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2698153 original size:3 final size:3
Alignment explanation
Indices: 2698145--2698179 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2698135 GTATTAAAAT
2698145 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2698180 CAAATCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2699661 original size:25 final size:24
Alignment explanation
Indices: 2699623--2699670 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
2699613 TGAAAATAAA
*
2699623 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
2699647 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
2699671 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:2701817 original size:55 final size:55
Alignment explanation
Indices: 2701761--2702724 Score: 1484
Period size: 55 Copynumber: 17.7 Consensus size: 55
2701751 CGGGTTCGCT
* * * * * *
2701761 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2701816 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2701869 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2701924 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACCATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
**
2701979 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702034 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
* *
2702087 CCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702142 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
2702197 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
2702252 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702307 CCCTATTTCTTCAAAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702362 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
* * *
2702415 CCCTATTTCTTCAGAGAGTATAAAACTCGAGCAATCTTCAACAATCGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
2702470 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702525 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGAC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
*
2702580 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
* *
2702635 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCC
*
2702688 CCCTATTTCTTCATAGAGTATAAGACTCGAACAATCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCT
2702725 CCATCAAACG
Statistics
Matches: 843, Mismatches: 52, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
53 186 0.22
54 13 0.02
55 642 0.76
56 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCC
Found at i:2702116 original size:218 final size:220
Alignment explanation
Indices: 2701761--2702724 Score: 1484
Period size: 218 Copynumber: 4.4 Consensus size: 220
2701751 CGGGTTCGCT
* * * * *
2701761 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTC
* *
2701825 TTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGT
65 TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGT
* *
2701888 ATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
130 ATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
* *
2701953 AACAATCTTCAACCATCGCGTCTGTC
195 AACAATCTTCAACAATCGCGTCTGCC
*
2701979 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTCT
* *
2702044 TCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCCCCCTATTTCTTCAGAGAGT
66 TCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGT
* *
2702106 ATAAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
130 ATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCG
* *
2702171 AACAATCTTCAACAATCGTGTCTGTC
195 AACAATCTTCAACAATCGCGTCTGCC
**
2702197 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTCT
* *
2702262 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAAAGAGTA
66 TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
* *
2702327 TAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-C
131 TAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
*
2702390 ACAATCTTCATA-AATCGCGTATGCC
196 ACAATCTTCA-ACAATCGCGTCTGCC
* * * *
2702415 CCCTATTTCTTCAGAGAGTATAAAACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTCT
*
2702480 TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
* *
2702545 TAAGACTCGAACAATCTTCAACGATCGCGTCTGACCCCTATTTCTTCAGAGAGTATAAGACTCGA
131 TAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
*
2702610 ACAATCTTCAACGATCGCGTCTGCC
196 ACAATCTTCAACAATCGCGTCTGCC
* *
2702635 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTC-ATAAATCGCGTATGCCCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-AATCGCGTCTGCCCCCTATTTC
*
2702697 TTCATAGAGTATAAGACTCGAACAATCT
65 TTCAGAGAGTATAAGACTCGAACAATCT
2702725 CCATCAAACG
Statistics
Matches: 696, Mismatches: 40, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
217 1 0.00
218 542 0.78
219 9 0.01
220 144 0.21
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (220 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTA
TAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGA
ACAATCTTCAACAATCGCGTCTGCC
Found at i:2702225 original size:273 final size:273
Alignment explanation
Indices: 2701761--2702724 Score: 1614
Period size: 273 Copynumber: 3.5 Consensus size: 273
2701751 CGGGTTCGCT
* * * * * *
2701761 CCCTCTTTCTTTAGAGAGTAT-AGAACTCGGACAATCTTCAATAATCGTGTCTGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTC
* *
2701825 TTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTAT
65 TTCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTAT
*
2701890 AAGACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
130 AAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA
*
2701955 CAATCTTCAACCATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
195 CAATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
*
2702020 TGATCGCGTCTGCC
260 CGATCGCGTCTGCC
* *
2702034 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATA-AATCGCGTATGCCCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGCGTCTGCCCCCTATTTC
* * *
2702096 TTCAGAGAGTATAAGACTCGAGCAATCTTCA-ACAATCGTGTCTGCCCCCTATTTCTTCAGAGAG
65 TTCAGAGAGTATAAGAC-CCA-CAATCTTCATA-AATCGCGTATGCCCCCTATTTCTTCAGAGAG
*
2702160 TATAAGACTCGAACAATCTTCAACAATCGTGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTC
127 TATAAGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC
* *
2702225 GAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTT
192 GAACAATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTT
2702290 CAACGATCGCGTCTGCC
257 CAACGATCGCGTCTGCC
* *
2702307 CCCTATTTCTTCAAAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCT
2702372 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
66 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
* *
2702437 AAACTCGAGCAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
131 AGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
2702502 AATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
196 AATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
*
2702567 GATCGCGTCTGAC
261 GATCGCGTCTGCC
*
2702580 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCT
*
2702645 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCATAGAGTATA
66 TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
2702710 AGACTCGAACAATCT
131 AGACTCGAACAATCT
2702725 CCATCAAACG
Statistics
Matches: 651, Mismatches: 31, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
271 46 0.07
272 4 0.01
273 547 0.84
274 7 0.01
275 47 0.07
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (273 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACCCACAATCTTCATAAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATA
AGACTCGAACAATCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
AATCTTCAACAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
GATCGCGTCTGCC
Found at i:2715121 original size:25 final size:24
Alignment explanation
Indices: 2715083--2715130 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
2715073 TGAAAATAAA
*
2715083 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
2715107 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
2715131 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:2720170 original size:60 final size:61
Alignment explanation
Indices: 2720058--2720178 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 61
2720048 AGTTGCTTCT
2720058 GTTGTGTTTTTGTTTCGAATATATTTTTTTCTTCCATTTAGGTCTAGGGAGGTTTTTAACG
1 GTTGTGTTTTTGTTTCGAATATATTTTTTTCTTCCATTTAGGTCTAGGGAGGTTTTTAACG
2720119 GTTGTGTTTTTGTTTCGAATATA-TTTTTTCTTCCATTTAGGTCTAGGGAGGTTTTTAACG
1 GTTGTGTTTTTGTTTCGAATATATTTTTTTCTTCCATTTAGGTCTAGGGAGGTTTTTAACG
2720179 AGGCATTCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 37 0.62
61 23 0.38
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (61 bp):
GTTGTGTTTTTGTTTCGAATATATTTTTTTCTTCCATTTAGGTCTAGGGAGGTTTTTAACG
Found at i:2726350 original size:26 final size:26
Alignment explanation
Indices: 2726321--2726384 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
2726311 AACTGTTACA
2726321 TTAACCTGACATTATTTGTATCCAAT
1 TTAACCTGACATTATTTGTATCCAAT
*
2726347 TTAACCTGACATTATTTGTATGCAAT
1 TTAACCTGACATTATTTGTATCCAAT
2726373 TTAACCTGACAT
1 TTAACCTGACAT
2726385 GATAAGATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (26 bp):
TTAACCTGACATTATTTGTATCCAAT
Found at i:2727409 original size:36 final size:36
Alignment explanation
Indices: 2727369--2727472 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
2727359 TGAGGAGGAG
*
2727369 GTTGAAACTGCTGCAAATCAAATGCAACAACACACA
1 GTTGAAACTGCTGCAGATCAAATGCAACAACACACA
* *
2727405 GTTGAAACTGCTGCAGATCAAATGCAAAAACATACA
1 GTTGAAACTGCTGCAGATCAAATGCAACAACACACA
* * * *
2727441 GTTGTAACTACTGCAGATCAAGTTCAACAACA
1 GTTGAAACTGCTGCAGATCAAATGCAACAACA
2727473 AGCGCCGCCT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (36 bp):
GTTGAAACTGCTGCAGATCAAATGCAACAACACACA
Found at i:2730237 original size:2 final size:2
Alignment explanation
Indices: 2730230--2730258 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2730220 AAACAAAAAT
2730230 TA 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 T
2730259 TTAATCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2750863 original size:7 final size:7
Alignment explanation
Indices: 2750853--2750937 Score: 57
Period size: 7 Copynumber: 11.9 Consensus size: 7
2750843 TAGGGATAGA
2750853 GTTTAGG
1 GTTTAGG
2750860 GTTTA-G
1 GTTTAGG
* *
2750866 ATATTATG
1 GT-TTAGG
*
2750874 GTGTTATG
1 GT-TTAGG
2750882 GTTTAGG
1 GTTTAGG
*
2750889 GTTTAGAA
1 GTTTAG-G
2750897 GTTATAGG
1 GTT-TAGG
2750905 GTTTAGG
1 GTTTAGG
2750912 GTTTA-G
1 GTTTAGG
**
2750918 GTTTATA
1 GTTTAGG
*
2750925 ATTTAGG
1 GTTTAGG
2750932 GTTTAG
1 GTTTAG
2750938 ATTATAGGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
6 8 0.13
7 36 0.58
8 15 0.24
9 3 0.05
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:2750872 original size:29 final size:28
Alignment explanation
Indices: 2750822--2750952 Score: 101
Period size: 29 Copynumber: 4.6 Consensus size: 28
2750812 CCCTAAGTTA
* * *
2750822 AGGTTTAGGGTTTATATGTTATAGGGAT
1 AGGTTTAGGGTTTAGATATTATAGGGTT
2750850 AGAGTTTAGGGTTTAGATATTAT-GGTGTT
1 AG-GTTTAGGGTTTAGATATTATAGG-GTT
2750879 ATGGTTTAGGGTTTAGA-AGTTATAGGGTTT
1 A-GGTTTAGGGTTTAGATA-TTATAGGG-TT
*
2750909 AGGGTTTA-GGTTTATA-ATT-TAGGGTTT
1 A-GGTTTAGGGTTTAGATATTATAGGG-TT
* *
2750936 AGATTATAGGGTATAGA
1 AGGTT-TAGGGTTTAGA
2750953 ATGATGCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
26 3 0.03
27 11 0.13
28 13 0.15
29 48 0.55
30 12 0.14
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
AGGTTTAGGGTTTAGATATTATAGGGTT
Found at i:2750945 original size:14 final size:13
Alignment explanation
Indices: 2750849--2750952 Score: 66
Period size: 14 Copynumber: 7.3 Consensus size: 13
2750839 GTTATAGGGA
2750849 TAGAGTTTAGGGTT
1 TAGA-TTTAGGGTT
*
2750863 TAGATATTATGGTGT
1 TAGAT-TTAGGGT-T
*
2750878 TATGGTTTAGGGTT
1 TA-GATTTAGGGTT
2750892 TAGAAGTTATAGGGTT
1 TAG-A-TT-TAGGGTT
*
2750908 TAGGGTTTA-GGTT
1 TA-GATTTAGGGTT
*
2750921 TATAATTTAGGGTT
1 TA-GATTTAGGGTT
*
2750935 TAGATTATAGGGTA
1 TAGATT-TAGGGTT
2750949 TAGA
1 TAGA
2750953 ATGATGCAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
13 15 0.21
14 31 0.44
15 13 0.18
16 11 0.15
17 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (13 bp):
TAGATTTAGGGTT
Found at i:2751306 original size:17 final size:17
Alignment explanation
Indices: 2751284--2751316 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2751274 TGATAATATT
2751284 ATAAAAATATTAAATAA
1 ATAAAAATATTAAATAA
*
2751301 ATAAAAATTTTAAATA
1 ATAAAAATATTAAATA
2751317 TAAAACTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATATTAAATAA
Found at i:2752142 original size:2 final size:2
Alignment explanation
Indices: 2752135--2752167 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2752125 TATTTACCTT
2752135 TA TA TA 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
2752168 GAATCATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2758358 original size:39 final size:39
Alignment explanation
Indices: 2758300--2758385 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
2758290 CGGCGGCGGT
*
2758300 TCCATGGTTAACGGGTTTGAACCCATAAAGAAGGGAGGC
1 TCCATGGTTAACGGCTTTGAACCCATAAAGAAGGGAGGC
* * *
2758339 TCCATGGTTGACGGCTTTGAACCCGTAAAGAGGGGAGGC
1 TCCATGGTTAACGGCTTTGAACCCATAAAGAAGGGAGGC
2758378 TCCATGGT
1 TCCATGGT
2758386 AAATTACTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (39 bp):
TCCATGGTTAACGGCTTTGAACCCATAAAGAAGGGAGGC
Found at i:2762625 original size:15 final size:15
Alignment explanation
Indices: 2762605--2762634 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2762595 AATATATACT
2762605 GTGTCAATTTTTTAA
1 GTGTCAATTTTTTAA
*
2762620 GTGTCATTTTTTTAA
1 GTGTCAATTTTTTAA
2762635 TTATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (15 bp):
GTGTCAATTTTTTAA
Found at i:2771272 original size:45 final size:44
Alignment explanation
Indices: 2771214--2771307 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 44
2771204 TAATTATATG
* * * *
2771214 TCTTTATATTTAAAGAATAAATTTGTGTGTTGTATATTATTTGTT
1 TCTTTAGAGTTAAAGAATAAATTTGTGTGTTGTACAATATTT-TT
2771259 TCTTTAGAGTTAAAGAATAAATTTGTGTGTTGTACAATATTTTT
1 TCTTTAGAGTTAAAGAATAAATTTGTGTGTTGTACAATATTTTT
2771303 TCTTT
1 TCTTT
2771308 TTATGTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 7 0.16
45 38 0.84
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (44 bp):
TCTTTAGAGTTAAAGAATAAATTTGTGTGTTGTACAATATTTTT
Found at i:2774093 original size:1 final size:1
Alignment explanation
Indices: 2774087--2774165 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
2774077 CTTGATTCAA
** * * * * * * ** *
2774087 TTTTTTTTCCTTTTTTCTTTTTCTCTTTTCTTTTTTTCTTTTTCTTTCATTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
2774152 TTTTTTTTCTTTTT
1 TTTTTTTTTTTTTT
2774166 CTCTTTTCTC
Statistics
Matches: 57, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:2774106 original size:7 final size:7
Alignment explanation
Indices: 2774089--2774195 Score: 85
Period size: 7 Copynumber: 14.6 Consensus size: 7
2774079 TGATTCAATT
2774089 TTTTTTCC
1 TTTTTT-C
2774097 TTTTTTC
1 TTTTTTC
2774104 -TTTTTC
1 TTTTTTC
*
2774110 TCTTTTC
1 TTTTTTC
2774117 TTTTTT-
1 TTTTTTC
2774123 TCTTTTTC
1 T-TTTTTC
2774131 TTTCATTTTC
1 -TT--TTTTC
2774141 TTTTTT-
1 TTTTTTC
*
2774147 TTTTTTT
1 TTTTTTC
2774154 TTTTTTC
1 TTTTTTC
2774161 TTTTTCTC
1 TTTTT-TC
*
2774169 TTTTCTC
1 TTTTTTC
2774176 TTCTTTTC
1 TT-TTTTC
*
2774184 TCTTTTTA
1 T-TTTTTC
2774192 TTTT
1 TTTT
2774196 CTCTGATGGA
Statistics
Matches: 83, Mismatches: 6, Indels: 21
0.75 0.05 0.19
Matches are distributed among these distances:
6 13 0.16
7 38 0.46
8 23 0.28
9 4 0.05
10 5 0.06
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:2774107 original size:6 final size:6
Alignment explanation
Indices: 2774098--2774195 Score: 75
Period size: 6 Copynumber: 16.7 Consensus size: 6
2774088 TTTTTTTCCT
*
2774098 TTTTTC TTTTTC TCTTTTC TTTTT- TTCTTT- TTCTTTC ATTTTC -TTTT-
1 TTTTTC TTTTTC T-TTTTC TTTTTC TT-TTTC TT-TTTC TTTTTC TTTTTC
* *
2774145 TTTTT- TTTTT- TTTTTC TTTTTC TCTTTTC -TCTTC TTTTCTC TTTTTA
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTT-TC TTTTTC
2774192 TTTT
1 TTTT
2774196 CTCTGATGGA
Statistics
Matches: 80, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
5 24 0.30
6 38 0.47
7 18 0.22
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:2774118 original size:5 final size:5
Alignment explanation
Indices: 2774110--2774184 Score: 52
Period size: 5 Copynumber: 15.6 Consensus size: 5
2774100 TTTCTTTTTC
* * *
2774110 TCTTT TC-TT T-TTT TCTTT T-TCTT TCATTT TCTTT TTTTT TTTTT TTTTT
1 TCTTT TCTTT TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT TCTTT
* *
2774159 TC-TT T-TTC TCTTT TCTCT TCTTT TCT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCT
2774185 CTTTTTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 12 0.21
5 40 0.70
6 4 0.07
7 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:2774160 original size:44 final size:43
Alignment explanation
Indices: 2774091--2774199 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 43
2774081 ATTCAATTTT
* *
2774091 TTTTCCTTTTTTCTTTTTCTCTTTTCTTTTTTTCTTTT-TCTTTC
1 TTTT-CTTTTTTTTTTTTCTCTTTTCTTTTTCTCTTTTCTC-TTC
* *
2774135 ATTTTCTTTTTTTTTTTTTTTTTTTCTTTTTCTCTTTTCTCTTC
1 -TTTTCTTTTTTTTTTTTCTCTTTTCTTTTTCTCTTTTCTCTTC
* *
2774179 TTTTCTCTTTTTATTTTCTCT
1 TTTTCTTTTTTTTTTTTCTCT
2774200 GATGGATGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 17 0.31
44 32 0.58
45 6 0.11
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (43 bp):
TTTTCTTTTTTTTTTTTCTCTTTTCTTTTTCTCTTTTCTCTTC
Found at i:2777063 original size:43 final size:46
Alignment explanation
Indices: 2776982--2777075 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 46
2776972 AAAAGCATAA
* *
2776982 AAAGAAAAATAATAATGTACAACACACAAATTTATTCTTTAACTCT
1 AAAGAAAAATAATAATGTACAACACACAAATTTATTCTTTAAATAT
*
2777028 AAAGAAACA-AATAATGTAC-A-ACACAAATTTATTCTTTAAATAT
1 AAAGAAAAATAATAATGTACAACACACAAATTTATTCTTTAAATAT
2777071 AAAGA
1 AAAGA
2777076 CATATAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 26 0.58
44 1 0.02
45 10 0.22
46 8 0.18
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (46 bp):
AAAGAAAAATAATAATGTACAACACACAAATTTATTCTTTAAATAT
Found at i:2778171 original size:1 final size:1
Alignment explanation
Indices: 2778165--2778222 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2778155 CATCCATCAG
* * * ** * *
2778165 AAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAGAAAAGGAAAGAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2778223 GAGAAAGGGA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:2778200 original size:33 final size:33
Alignment explanation
Indices: 2778163--2778228 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2778153 CTCATCCATC
2778163 AGAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAA
1 AGAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAA
** * *
2778196 AGAAAAGGAAAGAAAAAAAAAAGAAAAGAGAAA
1 AGAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAA
2778229 GGGAAAAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (33 bp):
AGAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAA
Found at i:2778223 original size:5 final size:5
Alignment explanation
Indices: 2778163--2778229 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
2778153 CTCATCCATC
*
2778163 AGAAA A-AAA A-AAA A-AAA A-AAA AGAAAAA AGAAA AGAAA AGGAA AGAAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG--AAA AGAAA AGAAA AGAAA AG-AAA
*
2778212 AAAAA AGAAA AGAGAA AG
1 AGAAA AGAAA AGA-AA AG
2778230 GGAAAAGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
4 16 0.30
5 25 0.47
6 7 0.13
7 5 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:2778235 original size:21 final size:21
Alignment explanation
Indices: 2778163--2778229 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
2778153 CTCATCCATC
* * *
2778163 AGAAAAAAAAAAAAAAAAAAA
1 AGAAAAAAAAAGAAAAGAGAA
2778184 AGAAAAAAGAAAAGAAAAG-GAA
1 AG-AAAAA-AAAAGAAAAGAGAA
2778206 AGAAAAAAAAAAGAAAAGAGAA
1 AG-AAAAAAAAAGAAAAGAGAA
2778228 AG
1 AG
2778230 GGAAAAGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 12 0.30
22 20 0.50
23 8 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAAGAGAA
Found at i:2778235 original size:39 final size:38
Alignment explanation
Indices: 2778170--2778252 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
2778160 ATCAGAAAAA
*
2778170 AAAAAAAAAAAAAAAGAAAAAAGAAAAGA-AAAGGAAAG
1 AAAAAAAAAAAAAAAGAAAAAAGAAAAGAGAAAAG-AAG
* **
2778208 AAAAAAAAAAGAAAAGAGAAAGGGAAAAGAGAAAAGAAG
1 AAAAAAAAAAAAAAAGA-AAAAAGAAAAGAGAAAAGAAG
2778247 AAAAAA
1 AAAAAA
2778253 TTGAATCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 16 0.41
39 19 0.49
40 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (38 bp):
AAAAAAAAAAAAAAAGAAAAAAGAAAAGAGAAAAGAAG
Found at i:2778247 original size:28 final size:25
Alignment explanation
Indices: 2778163--2778250 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 25
2778153 CTCATCCATC
*
2778163 AGAAAAAA-AAAA-AAAA--AAAAA
1 AGAAAAAAGAAAAGAAAAGGAAAAG
*
2778184 AGAAAAAAGAAAAGAAAAGGAAAGAA
1 AGAAAAAAGAAAAGAAAAGGAAA-AG
*
2778210 AAAAAAAAGAAAAGAGAAAGGGAAAAG
1 AGAAAAAAGAAAAGA-AAA-GGAAAAG
2778237 AGAAAAGAAGAAAA
1 AGAAAA-AAGAAAA
2778251 AATTGAATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
21 8 0.14
22 4 0.07
23 4 0.07
25 3 0.05
26 16 0.29
27 9 0.16
28 12 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (25 bp):
AGAAAAAAGAAAAGAAAAGGAAAAG
Found at i:2780192 original size:62 final size:62
Alignment explanation
Indices: 2780087--2780212 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 62
2780077 TTTCCTATAA
* *
2780087 TCAATTTTTGACTTCCTCGTGAAGAGAAATCAACCTTTATTA-TTCATGACTCCCCAGTAGAG
1 TCAATTTTTGACTTCCTCGTGAAGAGAAATCAACATTTATTATTTC-TGACTCCCCAGCAGAG
* * *
2780149 TCAATTCTTT-ACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTCTGACTCCCTAGCAGAG
1 TCAATT-TTTGACTTCCTCGTGAAGAGAAATCAACATTTATTATTTCTGACTCCCCAGCAGAG
2780211 TC
1 TC
2780213 GCCAAGCTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 51 0.89
63 6 0.11
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (62 bp):
TCAATTTTTGACTTCCTCGTGAAGAGAAATCAACATTTATTATTTCTGACTCCCCAGCAGAG
Found at i:2781014 original size:40 final size:40
Alignment explanation
Indices: 2780959--2781039 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
2780949 ATTTTTATTA
2780959 TTAATAATAAAAATTAGAAAGTTGAGCACTATAATTATGG
1 TTAATAATAAAAATTAGAAAGTTGAGCACTATAATTATGG
*
2780999 TTAATAATAAAAATTAGAAAGTTGAGCATTATAATTATGG
1 TTAATAATAAAAATTAGAAAGTTGAGCACTATAATTATGG
2781039 T
1 T
2781040 GCTCCATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.35
Consensus pattern (40 bp):
TTAATAATAAAAATTAGAAAGTTGAGCACTATAATTATGG
Done.