Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 29
Found at i:2590013 original size:18 final size:17
Alignment explanation
Indices: 2589992--2590025 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2589982 CCCTATTATT
2589992 ATTATATACTATATTTTC
1 ATTAT-TACTATATTTTC
*
2590010 ATTATTATTATATTTT
1 ATTATTACTATATTTT
2590026 ACTCCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTACTATATTTTC
Found at i:2590126 original size:18 final size:18
Alignment explanation
Indices: 2590083--2590120 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2590073 TTATTATATT
*
2590083 TATATATATATATACCCA
1 TATATATATATATACACA
2590101 TATATATATATATACACA
1 TATATATATATATACACA
2590119 TA
1 TA
2590121 ACTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (18 bp):
TATATATATATATACACA
Found at i:2600836 original size:1 final size:1
Alignment explanation
Indices: 2600830--2600882 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
2600820 CCTAAGTTGG
* * * * * *
2600830 AAAAAAAAAAAACAAAAACAAAACAAAAAAAAAAACAAAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2600883 GAGAAGAACG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2600852 original size:12 final size:12
Alignment explanation
Indices: 2600831--2600882 Score: 79
Period size: 12 Copynumber: 4.4 Consensus size: 12
2600821 CTAAGTTGGA
2600831 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
2600843 -AAAAACAAAAC
1 AAAAAAAAAAAC
2600854 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
2600866 AAAAACAAAAAC
1 AAAAAAAAAAAC
2600878 AAAAA
1 AAAAA
2600883 GAGAAGAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:2600861 original size:23 final size:24
Alignment explanation
Indices: 2600831--2600882 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
2600821 CTAAGTTGGA
2600831 AAAAAAAAAAACAAAAAC-AAAAC
1 AAAAAAAAAAACAAAAACAAAAAC
2600854 AAAAAAAAAAACAAAAACAAAAAC
1 AAAAAAAAAAACAAAAACAAAAAC
2600878 AAAAA
1 AAAAA
2600883 GAGAAGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAACAAAAACAAAAAC
Found at i:2601892 original size:105 final size:105
Alignment explanation
Indices: 2601709--2602011 Score: 552
Period size: 105 Copynumber: 2.9 Consensus size: 105
2601699 CAGGTTTTAC
* *
2601709 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACGACGCATGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
2601774 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
* * *
2601814 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCGACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
2601879 GACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
2601919 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
2601984 GACGAAGGGACCGCTGGTTGTCAACAAA
66 GACGAAGGGACCGCTGGTTGTCAACAAA
2602012 GTTTCCCAAT
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 188 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
Found at i:2602155 original size:164 final size:167
Alignment explanation
Indices: 2601865--2602175 Score: 425
Period size: 164 Copynumber: 1.9 Consensus size: 167
2601855 CAGACAACGT
*
2601865 AAGTTCGACTTCACGACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTCCAGAGCCAAT
1 AAGTTCGACTTCACGACGAAGGGACCGCTGCTTGTCAACAAACAATTCTC-A--CCAGAGCCAAT
* *
2601930 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
63 TTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGAC
**
2601995 CGCTGGTTGTCAACAAAGTTTCCCAATTTAAAGACAGCAC
128 CGCTGACTGTCAACAAAGTTTCCCAATTTAAAGACAGCAC
* * *
2602035 AAGTTCTACTTCACGACGAAGGGGCCGCTGGC-TGTCAACAAACAATT-TC-CCA-ATCCAATTT
1 AAGTTCGACTTCACGACGAAGGGACCGCT-GCTTGTCAACAAACAATTCTCACCAGAGCCAATTT
* * * * *
2602096 CAACTTCACAGA-AAATGATATTGGACTCGAGACAGCTCAAGTTCAACTTCACAACGAAGGGGCC
65 CAACTTCACA-ACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACC
2602160 GCTGACTGTCAACAAA
129 GCTGACTGTCAACAAA
2602176 CAATTTTCAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
164 77 0.61
165 4 0.03
169 2 0.02
170 41 0.33
171 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (167 bp):
AAGTTCGACTTCACGACGAAGGGACCGCTGCTTGTCAACAAACAATTCTCACCAGAGCCAATTTC
AACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGC
TGACTGTCAACAAAGTTTCCCAATTTAAAGACAGCAC
Found at i:2602197 original size:99 final size:99
Alignment explanation
Indices: 2602026--2602375 Score: 549
Period size: 99 Copynumber: 3.5 Consensus size: 99
2602016 CCCAATTTAA
* * * * * *
2602026 AGACAGCACAAGTTCTACTTCACGACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCA-ATC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTT-TCAGAGC
2602090 CAATTTCAACTTCACAGAAAATGATATTGGACTCG
65 CAATTTCAACTTCACAGAAAATGATATTGGACTCG
2602125 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
*
2602190 AAGTTCAACTTCACAGAAAATGATATTGGACTCG
66 AATTTCAACTTCACAGAAAATGATATTGGACTCG
2602224 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
* ** *
2602289 AATTTCAACTTCATAGCGAAGGATATTGGACTCG
66 AATTTCAACTTCACAGAAAATGATATTGGACTCG
* * **
2602323 AGACAACGCAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAACA
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACA
2602376 CTTTCCAAGT
Statistics
Matches: 234, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
98 2 0.01
99 232 0.99
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (99 bp):
AGACAGCTCAAGTTCAACTTCACAACGAAGGGGCCGCTGACTGTCAACAAACAATTTTCAGAGCC
AATTTCAACTTCACAGAAAATGATATTGGACTCG
Found at i:2604245 original size:174 final size:174
Alignment explanation
Indices: 2603948--2604296 Score: 653
Period size: 174 Copynumber: 2.0 Consensus size: 174
2603938 GCGAGAGATT
2603948 TGCGTTTTGGTTCTCCAGTTTCAAAAACACTTAATTTGGTCATCTGAATCGATTATTGAACCTGA
1 TGCGTTTTGGTTCTCCAGTTTCAAAAACACTTAATTTGGTCATCTGAATCGATTATTGAACCTGA
*
2604013 AATCCTTGTAAATTGACCCTTGAGTTTATTTTGTTTTCAATTTAATCCCTACTATTATTATATAC
66 AATCCTTGTAAATTGACCCTTGAGTTTATTTCGTTTTCAATTTAATCCCTACTATTATTATATAC
2604078 TATATTTTCATTATTATTATATTTTACTCCCTTATTTATATATA
131 TATATTTTCATTATTATTATATTTTACTCCCTTATTTATATATA
** *
2604122 TGCGTTTTGGTTCTCCAGTTTCAAAAACGTTTAATTTGGTCCTCTGAATCGATTATTGAACCTGA
1 TGCGTTTTGGTTCTCCAGTTTCAAAAACACTTAATTTGGTCATCTGAATCGATTATTGAACCTGA
*
2604187 AATCCTTGTAAATTGACCCTTGAGTTTATTTCGTTTTCAATTTAATCCCTATTATTATTATATAC
66 AATCCTTGTAAATTGACCCTTGAGTTTATTTCGTTTTCAATTTAATCCCTACTATTATTATATAC
2604252 TATATTTTCATTATTATTATATTTTACTCCCTTATTTATATATA
131 TATATTTTCATTATTATTATATTTTACTCCCTTATTTATATATA
2604296 T
1 T
2604297 ATATCTTATG
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (174 bp):
TGCGTTTTGGTTCTCCAGTTTCAAAAACACTTAATTTGGTCATCTGAATCGATTATTGAACCTGA
AATCCTTGTAAATTGACCCTTGAGTTTATTTCGTTTTCAATTTAATCCCTACTATTATTATATAC
TATATTTTCATTATTATTATATTTTACTCCCTTATTTATATATA
Found at i:2604264 original size:18 final size:17
Alignment explanation
Indices: 2604243--2604276 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2604233 CCCTATTATT
2604243 ATTATATACTATATTTTC
1 ATTAT-TACTATATTTTC
*
2604261 ATTATTATTATATTTT
1 ATTATTACTATATTTT
2604277 ACTCCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTACTATATTTTC
Found at i:2604341 original size:2 final size:2
Alignment explanation
Indices: 2604328--2604371 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
2604318 TTTATTTTAT
* ** *
2604328 TA TA TT TA TA TA TA TA TA TA CC CA 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
2604370 TA
1 TA
2604372 CATAACTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2613084 original size:27 final size:23
Alignment explanation
Indices: 2613025--2613085 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
2613015 CTGAATGATT
2613025 CAGTGCTGATTGATTTAACAAAA
1 CAGTGCTGATTGATTTAACAAAA
2613048 CAGTGCTGATTGATTTAACAAAA
1 CAGTGCTGATTGATTTAACAAAA
* *
2613071 TAGTGCTGAATGATT
1 CAGTGCTGATTGATT
2613086 CAGAACAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (23 bp):
CAGTGCTGATTGATTTAACAAAA
Found at i:2613188 original size:16 final size:16
Alignment explanation
Indices: 2613167--2613222 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
2613157 ACAGAGCCTC
2613167 TGAATCATTCAACATT
1 TGAATCATTCAACATT
2613183 TGAATCATTCAACATT
1 TGAATCATTCAACATT
* *
2613199 TGAATCATTCAGCGTT
1 TGAATCATTCAACATT
2613215 T-AATCATT
1 TGAATCATT
2613223 ATGAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 7 0.18
16 31 0.82
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:2616498 original size:2 final size:2
Alignment explanation
Indices: 2616491--2616523 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2616481 TCATTTCTTG
2616491 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
2616524 TGTATGAAAT
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:2619562 original size:63 final size:63
Alignment explanation
Indices: 2619417--2619565 Score: 280
Period size: 63 Copynumber: 2.4 Consensus size: 63
2619407 ACATAACATA
* *
2619417 TGAGAAAATTTCTATACAAAGTCCAATTCACGATCATAATACAAACTATCCTCCTTTTATGTT
1 TGAGAAAAATTCTATACAATGTCCAATTCACGATCATAATACAAACTATCCTCCTTTTATGTT
2619480 TGAGAAAAATTCTATACAATGTCCAATTCACGATCATAATACAAACTATCCTCCTTTTATGTT
1 TGAGAAAAATTCTATACAATGTCCAATTCACGATCATAATACAAACTATCCTCCTTTTATGTT
2619543 TGAGAAAAATTCTATACAATGTC
1 TGAGAAAAATTCTATACAATGTC
2619566 TGATTTGCAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (63 bp):
TGAGAAAAATTCTATACAATGTCCAATTCACGATCATAATACAAACTATCCTCCTTTTATGTT
Found at i:2629112 original size:15 final size:15
Alignment explanation
Indices: 2629089--2629119 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2629079 AGACCTTACT
*
2629089 CGCCTCACATCCGCC
1 CGCCCCACATCCGCC
2629104 CGCCCCACATCCGCC
1 CGCCCCACATCCGCC
2629119 C
1 C
2629120 TCCCACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.65, G:0.13, T:0.10
Consensus pattern (15 bp):
CGCCCCACATCCGCC
Found at i:2636833 original size:88 final size:88
Alignment explanation
Indices: 2636713--2636884 Score: 335
Period size: 88 Copynumber: 2.0 Consensus size: 88
2636703 TGAGATTAAC
*
2636713 TATTTGTTTTTTTAGTTAATATCTTTTTATTTTCCAAAATCATTTAAATATATCAAATAATATTT
1 TATTTGTTTTTTTAGTTAATATCTTTTCATTTTCCAAAATCATTTAAATATATCAAATAATATTT
2636778 AAATAAAAATGTTTATAAATTAG
66 AAATAAAAATGTTTATAAATTAG
2636801 TATTTGTTTTTTTAGTTAATATCTTTTCATTTTCCAAAATCATTTAAATATATCAAATAATATTT
1 TATTTGTTTTTTTAGTTAATATCTTTTCATTTTCCAAAATCATTTAAATATATCAAATAATATTT
2636866 AAATAAAAATGTTTATAAA
66 AAATAAAAATGTTTATAAA
2636885 CTAATTTATT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (88 bp):
TATTTGTTTTTTTAGTTAATATCTTTTCATTTTCCAAAATCATTTAAATATATCAAATAATATTT
AAATAAAAATGTTTATAAATTAG
Found at i:2647023 original size:12 final size:12
Alignment explanation
Indices: 2647006--2647047 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
2646996 ACAAAAACAC
2647006 TTTATTATATTA
1 TTTATTATATTA
2647018 TTTATTATTATTA
1 TTTATTA-TATTA
2647031 -TTATTAATATT-
1 TTTATT-ATATTA
2647042 TTTATT
1 TTTATT
2647048 TTTTGTAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTATATTA
Found at i:2660850 original size:3 final size:3
Alignment explanation
Indices: 2660838--2660875 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
2660828 CAAAAACACT
2660838 TTA TTA -TA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
2660876 TGTAGGCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2662260 original size:26 final size:26
Alignment explanation
Indices: 2662224--2662285 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
2662214 CGAACCCTAA
*
2662224 GAATCTCCTAAGGAATGGTTACTCTC
1 GAATCTCCTAAGGAATGGCTACTCTC
2662250 GAATCTCCTAAGGAATGGCTACTCTC
1 GAATCTCCTAAGGAATGGCTACTCTC
* *
2662276 GTAGCTCCTA
1 GAATCTCCTA
2662286 CAACCTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (26 bp):
GAATCTCCTAAGGAATGGCTACTCTC
Found at i:2665029 original size:19 final size:20
Alignment explanation
Indices: 2665001--2665038 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2664991 CCCACTAACT
2665001 TTTTCCTTCATTTT-TTTTG
1 TTTTCCTTCATTTTATTTTG
*
2665020 TTTTCTTTCATTTTATTTT
1 TTTTCCTTCATTTTATTTT
2665039 TATCATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCCTTCATTTTATTTTG
Found at i:2665944 original size:45 final size:46
Alignment explanation
Indices: 2665880--2665987 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 46
2665870 CGGTGCACTA
* * * *
2665880 AGAGTTCATCGATGCATCAAGTGCATTTGATG-TTTCA-AAATAGCC
1 AGAGTGCATCGATGTATCAAATGCATTCGATGTTTTCATAAA-AGCC
*
2665925 AGAGTGCATCGATGTATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGTATCAAATGCATTCGATGTTTTCATAAAAGCC
**
2665971 TCAGTGCATCGATGTAT
1 AGAGTGCATCGATGTAT
2665988 GGTATGAGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 28 0.52
46 23 0.43
47 3 0.06
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (46 bp):
AGAGTGCATCGATGTATCAAATGCATTCGATGTTTTCATAAAAGCC
Found at i:2666467 original size:16 final size:17
Alignment explanation
Indices: 2666413--2666493 Score: 60
Period size: 16 Copynumber: 4.8 Consensus size: 17
2666403 TACTCCCCTT
2666413 ACTTTAACACTTCTC-C
1 ACTTTAACACTTCTCAC
* * * *
2666429 TCTTTAAAACATTTTAAC
1 ACTTTAACAC-TTCTCAC
2666447 ACTTTAACACTTCTCAC
1 ACTTTAACACTTCTCAC
* * *
2666464 -CTTTAAAACATTTTAAC
1 ACTTTAACAC-TTCTCAC
2666481 AC-TTAACACTTCT
1 ACTTTAACACTTCT
2666494 TCCCCTTTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
16 19 0.40
17 19 0.40
18 10 0.21
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (17 bp):
ACTTTAACACTTCTCAC
Found at i:2666501 original size:34 final size:34
Alignment explanation
Indices: 2666413--2666501 Score: 144
Period size: 34 Copynumber: 2.6 Consensus size: 34
2666403 TACTCCCCTT
*
2666413 ACTTTAACACTTCTCCTCTTTAAAACATTTTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
*
2666447 ACTTTAACACTTCTCACCTTTAAAACATTTTAAC
1 ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
2666481 AC-TTAACACTTCTTCCCCTTT
1 ACTTTAACACTTC-TCCCCTTT
2666502 TTGTTAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
33 10 0.20
34 41 0.80
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.40
Consensus pattern (34 bp):
ACTTTAACACTTCTCCCCTTTAAAACATTTTAAC
Found at i:2668391 original size:19 final size:18
Alignment explanation
Indices: 2668367--2668411 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
2668357 GTTTAATTTC
2668367 GAAAATTCAAAAATTCTTT
1 GAAAATTCAAAAA-TCTTT
*
2668386 GAAAATTTGAAAAATCTTT
1 GAAAA-TTCAAAAATCTTT
2668405 GAAAATT
1 GAAAATT
2668412 TGTGAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (18 bp):
GAAAATTCAAAAATCTTT
Found at i:2668412 original size:19 final size:20
Alignment explanation
Indices: 2668375--2668413 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
2668365 TCGAAAATTC
2668375 AAAAATTCTTTGAAAATTTG
1 AAAAATTCTTTGAAAATTTG
2668395 AAAAA-TCTTTGAAAATTTG
1 AAAAATTCTTTGAAAATTTG
2668414 TGAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATTCTTTGAAAATTTG
Found at i:2674424 original size:65 final size:64
Alignment explanation
Indices: 2674291--2674447 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 64
2674281 TGCACTAAGA
* * *
2674291 GTGCATTGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATACATGGTTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATACATGGTTG
* * * *
2674355 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCATTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATACATGGT-
2674419 T-
63 TG
*
2674420 GTGCATCGATGCATGAAATGCATTCGAT
1 GTGCATCGATGCATCAAATGCATTCGAT
2674448 ATTCAATTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
64 27 0.33
65 51 0.62
66 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATACATGGTTG
Found at i:2675959 original size:55 final size:53
Alignment explanation
Indices: 2675890--2676022 Score: 144
Period size: 53 Copynumber: 2.5 Consensus size: 53
2675880 TTGAAACAAT
* * * *
2675890 ATTTCAACTCCACGACGGAAGATATCAAACTCAAAACCAACTTTCTCGATA-TTGG
1 ATTTCAACTTCACGACGGAAGATATCAAACTC-AAACCAA-TAT-ACAATACTTGG
* *
2675945 ATTTCAACTTCACGAC-GAAGGATATCCAACTCAAAGCAATATACAATACTTGG
1 ATTTCAACTTCACGACGGAA-GATATCAAACTCAAACCAATATACAATACTTGG
* *
2675998 ATTTCAACTTAACGACGAAAGATAT
1 ATTTCAACTTCACGACGGAAGATAT
2676023 TCAAGTCAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
52 4 0.06
53 26 0.39
54 11 0.16
55 26 0.39
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (53 bp):
ATTTCAACTTCACGACGGAAGATATCAAACTCAAACCAATATACAATACTTGG
Found at i:2676478 original size:84 final size:84
Alignment explanation
Indices: 2676382--2676829 Score: 480
Period size: 84 Copynumber: 5.4 Consensus size: 84
2676372 GATATCGTGT
* *
2676382 TCATTTGCAACATAAATCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCAACTA
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
2676447 CGCTCAGCTCCAAGGCACG
66 CGCTCAGCTCCAAGGCACA
* * * * * *
2676466 TCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGTCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
2676531 CGCTCAGCTCCAAGGCATA
66 CGCTCAGCTCCAAGGCACA
* *
2676550 TCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
2676615 CGCTCAGCTCCAAGGCACA
66 CGCTCAGCTCCAAGGCACA
* * * * * *
2676634 TCATTTGCAGCATAACTCAAGGCCAGAAGGTTTATCTG----CCAAAGACCTTCGATTTCGATTC
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* * *
2676695 CACTCAACTCAAAGGCACCA
66 CGCTCAGCTCCAAGGCA-CA
* ** ** * * * * * * *
2676715 TCATTTGCAGCATAGTTTGAGTCGAGAAGAGCTATTTG----CTAAAGACCTTCGAGTTTGACTA
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
2676776 CGCTCAGCTCGAAGGCACA
66 CGCTCAGCTCCAAGGCACA
* * * * *
2676795 TCATTTACAGCTTAGCTCAAGGCAAGAAGGGTTAT
1 TCATTTGCAACATAACTCAAGGCTAGAAGGGTTAT
2676830 ATGTCAACAA
Statistics
Matches: 308, Mismatches: 55, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 62 0.20
81 62 0.20
84 184 0.60
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (84 bp):
TCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACA
Found at i:2677108 original size:15 final size:14
Alignment explanation
Indices: 2677088--2677128 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
2677078 CAAAAACACT
2677088 TTATTATATTATTTA
1 TTATTATATT-TTTA
2677103 TTATTATTATTTTTA
1 TTATTA-TATTTTTA
2677118 TT-TT-TATTTTT
1 TTATTATATTTTT
2677129 TGTAGGTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.28
14 2 0.08
15 12 0.48
16 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTATATTTTTA
Found at i:2677119 original size:12 final size:12
Alignment explanation
Indices: 2677094--2677128 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2677084 CACTTTATTA
2677094 TATTATTTATTAT
1 TATTATTT-TTAT
2677107 TATTATTTTTAT
1 TATTATTTTTAT
*
2677119 TTTTATTTTT
1 TATTATTTTT
2677129 TGTAGGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTATTTTTAT
Found at i:2679127 original size:15 final size:15
Alignment explanation
Indices: 2679107--2679188 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
2679097 TTCCAGAAAA
2679107 TGAATTACTGGAATT
1 TGAATTACTGGAATT
2679122 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* **
2679137 TGAATTACTGAAAAG
1 TGAATTACTGGAATT
2679152 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
2679167 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
2679181 TGAATTAC
1 TGAATTAC
2679189 ATTTCTGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:2679165 original size:45 final size:43
Alignment explanation
Indices: 2679102--2679188 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 43
2679092 TGGTTTTCCA
**
2679102 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACT
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACT
2679146 GAAAAGTGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAA-TGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
2679189 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (43 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:2679194 original size:20 final size:20
Alignment explanation
Indices: 2679171--2679261 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
2679161 GGAATTTGAA
2679171 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
2679191 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
2679211 TTCTGGAAAATGAATTACATT
1 TTCTGGAAAATGAATTACA-T
*
2679232 TTTTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
2679252 TTCTGGAAAA
1 TTCTGGAAAA
2679262 CGTTTTATGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
20 47 0.71
21 19 0.29
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:2679254 original size:41 final size:40
Alignment explanation
Indices: 2679171--2679261 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 40
2679161 GGAATTTGAA
*
2679171 TTCTGGAAAATGAATTACATTTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACATTTCTGGAAAATGAATTACAT
*
2679211 TTCTGGAAAATGAATTACATTTTTTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACA-TTTCTGGAAAATGAATTACAT
2679252 TTCTGGAAAA
1 TTCTGGAAAA
2679262 CGTTTTATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 19 0.40
41 29 0.60
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (40 bp):
TTCTGGAAAATGAATTACATTTCTGGAAAATGAATTACAT
Found at i:2679430 original size:49 final size:50
Alignment explanation
Indices: 2679333--2679431 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
2679323 TACAAATATT
*
2679333 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
2679383 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
2679432 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:2679506 original size:100 final size:96
Alignment explanation
Indices: 2679376--2679560 Score: 212
Period size: 98 Copynumber: 1.9 Consensus size: 96
2679366 TTAATATTAT
* * * * ** *
2679376 TATTTTAAAATATTAAAATAATTTATTTA-TTATTAAA-TATTATTTTTATAATTTTATTAATAA
1 TATTATAAAATATTAAAATAATTTAATTATTTATTAAAGTAATAGTGCTAT-ATTATATT-ATAA
2679439 AAATATTAATATCAGTATATTTTAGTGAAATAAAA
64 AAATATTAAT-T-AGTATATTTTAGTGAAATAAAA
* * *
2679474 TATTATAAAATATTATTAATTATATTAATTATTTATTAAAGTAATAGTGCTATATTATATTTTAA
1 TATTATAAAATATTA-AAATAAT-TTAATTATTTATTAAAGTAATAGTGCTATATTATATTATAA
2679539 AAATATTAATTAGTATATTTTA
64 AAATATTAATTAGTATATTTTA
2679561 AATATCTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
98 25 0.34
99 6 0.08
100 19 0.26
101 15 0.21
102 8 0.11
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (96 bp):
TATTATAAAATATTAAAATAATTTAATTATTTATTAAAGTAATAGTGCTATATTATATTATAAAA
ATATTAATTAGTATATTTTAGTGAAATAAAA
Found at i:2679704 original size:15 final size:16
Alignment explanation
Indices: 2679666--2679719 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
2679656 ATAATATCTT
2679666 ATATTATTATAATATA
1 ATATTATTATAATATA
*
2679682 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
2679699 ATATTA--AAAATATA
1 ATATTATTATAATATA
2679713 ATATTAT
1 ATATTAT
2679720 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
15 4 0.13
16 2 0.06
17 8 0.26
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:2679720 original size:22 final size:24
Alignment explanation
Indices: 2679695--2679739 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
2679685 GATTATTTTA
2679695 TATAATATT-AAAAATA-TAATAT
1 TATAATATTAAAAAATATTAATAT
*
2679717 TATATTATTAAAAAATATTAATA
1 TATAATATTAAAAAATATTAATA
2679740 AAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATAATATTAAAAAATATTAATAT
Found at i:2679988 original size:42 final size:42
Alignment explanation
Indices: 2679936--2680055 Score: 195
Period size: 42 Copynumber: 2.9 Consensus size: 42
2679926 ATGAATTACA
* *
2679936 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
2679978 TTCTGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
2680020 TTCCGGAAAACGAATTACTTGAAACAAACACGGGAA
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAA
2680056 TTCGGGGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:2682626 original size:25 final size:26
Alignment explanation
Indices: 2682573--2682626 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
2682563 GTATGTAATG
* * *
2682573 TTACGTCAATCAATATTTTTAATATA
1 TTACATCAATCAATATTTTTAACAAA
*
2682599 TTACATCAATTAATA-TTTTAACAAA
1 TTACATCAATCAATATTTTTAACAAA
2682624 TTA
1 TTA
2682627 ATTCATTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (26 bp):
TTACATCAATCAATATTTTTAACAAA
Found at i:2683238 original size:19 final size:20
Alignment explanation
Indices: 2683202--2683243 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2683192 TTTATTAATT
*
2683202 TTTAAATTTGATAGTTTTTA
1 TTTAAATTTGATAGTTTTAA
*
2683222 TTTAAATTTTA-AGTTTTAA
1 TTTAAATTTGATAGTTTTAA
2683241 TTT
1 TTT
2683244 TTTTGGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTAAATTTGATAGTTTTAA
Found at i:2683494 original size:17 final size:18
Alignment explanation
Indices: 2683472--2683505 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2683462 AGTCAAAATG
2683472 TAACTT-TATCACTATAT
1 TAACTTCTATCACTATAT
*
2683489 TAACTTCTATCATTATA
1 TAACTTCTATCACTATA
2683506 AATTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (18 bp):
TAACTTCTATCACTATAT
Found at i:2683551 original size:2 final size:2
Alignment explanation
Indices: 2683544--2683591 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2683534 GTCATTTTAG
*
2683544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2683586 TA TA TA
1 TA TA TA
2683592 GCCTTATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2684797 original size:17 final size:17
Alignment explanation
Indices: 2684772--2684810 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2684762 TATCTTGTAC
*
2684772 TTTAGATAAAATATTAA
1 TTTAAATAAAATATTAA
*
2684789 TTTAAATAAAATATTCA
1 TTTAAATAAAATATTAA
2684806 TTTAA
1 TTTAA
2684811 CCCTTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAATAAAATATTAA
Found at i:2684958 original size:31 final size:32
Alignment explanation
Indices: 2684870--2684945 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
2684860 TCCACGGATG
* *
2684870 TTTTATCTAAAATTTAAG-GCTCAATTCTATA
1 TTTTATCTAAAATTTAAGTGTTAAATTCTATA
2684901 TTTTATCTAAAATTTAAGTGTTAAATT-TATA
1 TTTTATCTAAAATTTAAGTGTTAAATTCTATA
*
2684932 TTTTATTTAAAATT
1 TTTTATCTAAAATT
2684946 AATGATTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 35 0.85
32 6 0.15
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (32 bp):
TTTTATCTAAAATTTAAGTGTTAAATTCTATA
Found at i:2686177 original size:20 final size:20
Alignment explanation
Indices: 2686154--2686196 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2686144 TTTTTTTGAT
2686154 GAATTAGCATACAAGATAAG
1 GAATTAGCATACAAGATAAG
* *
2686174 GAATTTGCATACAAGATGAG
1 GAATTAGCATACAAGATAAG
2686194 GAA
1 GAA
2686197 AAAGCCTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (20 bp):
GAATTAGCATACAAGATAAG
Found at i:2690663 original size:40 final size:41
Alignment explanation
Indices: 2690595--2690674 Score: 126
Period size: 40 Copynumber: 1.9 Consensus size: 41
2690585 GGAAGTTCGT
2690595 TTATGTTCGTTTATTTATTAAATGAACGAACATGAACAAAATC
1 TTATGTTCGTTTA--TATTAAATGAACGAACATGAACAAAATC
*
2690638 TTATGTTCGTTTA-ATTAAATGAACGAACATTAACAAA
1 TTATGTTCGTTTATATTAAATGAACGAACATGAACAAA
2690675 TAGTCCATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 23 0.64
43 13 0.36
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (41 bp):
TTATGTTCGTTTATATTAAATGAACGAACATGAACAAAATC
Found at i:2691025 original size:14 final size:14
Alignment explanation
Indices: 2690997--2691036 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2690987 TTTTTTTTGT
2690997 GTTTATGTT-GTTC
1 GTTTATGTTCGTTC
2691010 GTTTATGTTCGTTC
1 GTTTATGTTCGTTC
**
2691024 GTTCGTGTTCGTT
1 GTTTATGTTCGTT
2691037 TATGTTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.05, C:0.12, G:0.25, T:0.57
Consensus pattern (14 bp):
GTTTATGTTCGTTC
Found at i:2698159 original size:21 final size:20
Alignment explanation
Indices: 2698083--2698179 Score: 59
Period size: 21 Copynumber: 4.7 Consensus size: 20
2698073 TCAGTTTCCA
*
2698083 AAATCGCAACGCGATTCTTG
1 AAATCGCAACGCGATTCTTC
* ** *
2698103 ACAATCGCAATGCGATAGTAC
1 A-AATCGCAACGCGATTCTTC
** *
2698124 AAATTCGCATTGCGATTTTTC
1 AAA-TCGCAACGCGATTCTTC
* * **
2698145 AGAATCGCAACGCGAATATGA
1 A-AATCGCAACGCGATTCTTC
2698166 AAATCGCAACGCGA
1 AAATCGCAACGCGA
2698180 ACACATAAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
20 16 0.27
21 41 0.69
22 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
AAATCGCAACGCGATTCTTC
Found at i:2698241 original size:20 final size:20
Alignment explanation
Indices: 2698147--2698339 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
2698137 GATTTTTCAG
* ** *
2698147 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2698167 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2698187 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2698207 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2698227 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2698247 AATCGTAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2698267 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2698287 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
2698308 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2698328 AATCGCAACGCG
1 AATCGCAACGCG
2698340 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 129 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2698758 original size:33 final size:33
Alignment explanation
Indices: 2698719--2698789 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2698709 TTCACTTAGA
2698719 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2698752 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2698785 TTTCA
1 TTTCA
2698790 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2698894 original size:21 final size:20
Alignment explanation
Indices: 2698868--2698974 Score: 84
Period size: 21 Copynumber: 5.5 Consensus size: 20
2698858 TGCAGAAGAG
2698868 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* * **
2698889 TCGCAACGTGAACATGACTA
1 TCGCAACGAGAAAATGAAAA
2698909 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
2698931 TCGCAACTAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
2698945 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
2698964 TCGCAACGAGA
1 TCGCAACGAGA
2698975 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 8 0.12
21 24 0.36
22 9 0.14
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:2698960 original size:33 final size:33
Alignment explanation
Indices: 2698922--2699001 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
2698912 GCAACGAGAA
*
2698922 AAATGAAAATCGCAACTAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
2698955 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
2698988 AAACCAAAATCGCA
1 AAATGAAAATCGCA
2699002 TTGCGATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:2698981 original size:14 final size:14
Alignment explanation
Indices: 2698929--2698985 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2698919 GAAAAATGAA
*
2698929 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
2698943 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2698962 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2698976 AATCGCAACG
1 AATCGCAACG
2698986 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2699070 original size:40 final size:41
Alignment explanation
Indices: 2699026--2699109 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
2699016 CGCGTTGCGA
***
2699026 TTCTCTCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
*
2699066 TTCTCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
2699107 TTC
1 TTC
2699110 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.49
41 20 0.51
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.48
Consensus pattern (41 bp):
TTCTCTCGTTGCGACAGTCATTCTCGCGTTGCGATTTTCAT
Found at i:2699091 original size:20 final size:20
Alignment explanation
Indices: 2699025--2699107 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
2699015 TCGCGTTGCG
2699025 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2699045 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
2699064 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
2699085 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
2699105 ATT
1 ATT
2699108 TCAACCAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.30
20 24 0.45
21 13 0.25
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2700955 original size:89 final size:89
Alignment explanation
Indices: 2700781--2700998 Score: 368
Period size: 89 Copynumber: 2.4 Consensus size: 89
2700771 TAGATTGCTT
*
2700781 AGTAAATTTATTCGGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
1 AGTAAATTTGTTCGG-TTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAAATAGT
2700846 ATTTGTCTTGTTTGTCTTTTGGTTGAA
63 ATTTGTCTTGTTTGTCTTTTGGTTGAA
2700873 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTTT-A-ACTGTGAAATAGTATT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTTTAACACTGTGAAATAGTATT
2700936 TGTCTTTGTTTTGTCTTTTGGTTGAA
66 TGTC-TTG-TTTGTCTTTTGGTTGAA
2700962 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2700999 AATACCCTGA
Statistics
Matches: 123, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
87 20 0.16
88 4 0.03
89 64 0.52
91 21 0.17
92 14 0.11
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (89 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTTTAACACTGTGAAATAGTATT
TGTCTTGTTTGTCTTTTGGTTGAA
Found at i:2701131 original size:14 final size:14
Alignment explanation
Indices: 2701112--2701168 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2701102 ACGAAACTTA
2701112 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2701126 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2701145 AATCGCAACGATAG
1 AATCGCAACGAGAG
2701159 AATCGCAACG
1 AATCGCAACG
2701169 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2701132 original size:33 final size:33
Alignment explanation
Indices: 2701095--2701215 Score: 163
Period size: 33 Copynumber: 3.7 Consensus size: 33
2701085 TAGTTTACTT
* * *
2701095 TCGCAACACGAAACTTAAATCGCAACGAGAGAA
1 TCGCAACGCGAAACTAAAATCGCAACGACAGAA
*
2701128 TCGCAACGCGAAA-TGAAAATCGCAACGATAGAA
1 TCGCAACGCGAAACT-AAAATCGCAACGACAGAA
* *
2701161 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACTAAAATCGCAACGACAGAA
*
2701194 TCGCAACGCGAAACCAAAATCG
1 TCGCAACGCGAAACTAAAATCG
2701216 TATTGCGATT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.99
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACTAAAATCGCAACGACAGAA
Found at i:2701150 original size:19 final size:18
Alignment explanation
Indices: 2701126--2701206 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 18
2701116 GCAACGAGAG
2701126 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAAT-AA
*
2701145 AATCGCAA--CG--ATAG
1 AATCGCAACGCGAAATAA
*
2701159 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-TAA
*
2701178 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAATAA
2701192 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
2701207 CCAAAATCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 19
0.69 0.04 0.26
Matches are distributed among these distances:
14 20 0.40
15 3 0.06
16 4 0.08
17 4 0.08
18 2 0.04
19 17 0.34
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (18 bp):
AATCGCAACGCGAAATAA
Found at i:2701213 original size:19 final size:19
Alignment explanation
Indices: 2701159--2701215 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
2701149 GCAACGATAG
2701159 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2701178 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
2701192 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2701211 AATCG
1 AATCG
2701216 TATTGCGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.48
ACGTcount: A:0.47, C:0.30, G:0.16, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:2701240 original size:19 final size:19
Alignment explanation
Indices: 2701218--2701335 Score: 131
Period size: 19 Copynumber: 6.5 Consensus size: 19
2701208 CAAAATCGTA
2701218 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
2701237 TTGCGA--TTC-TGT--CG
1 TTGCGATTTTCATTTCGCG
2701251 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
**
2701269 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCG
** *
2701288 TTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCG
*
2701307 TTGCGATTCTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
2701326 TTGCGATTTT
1 TTGCGATTTT
2701336 AAGTTTCGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 4 0.05
17 3 0.04
18 8 0.10
19 58 0.69
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:2701294 original size:51 final size:54
Alignment explanation
Indices: 2701218--2701335 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 54
2701208 CAAAATCGTA
2701218 TTGCGATTTTCATTTCGCGTTGCGATTCT-G-TCGTTGCGATT-TCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGGTTCGTTGCGATTCTCATTTCGCG
** *
2701269 TTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGG--T-TCGTTGCGATTCTCATTTCGCG
2701326 TTGCGATTTT
1 TTGCGATTTT
2701336 AAGTTTCGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
51 26 0.45
52 1 0.02
56 11 0.19
57 20 0.34
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (54 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGGTTCGTTGCGATTCTCATTTCGCG
Found at i:2703368 original size:320 final size:319
Alignment explanation
Indices: 2702783--2703421 Score: 1212
Period size: 320 Copynumber: 2.0 Consensus size: 319
2702773 AGAGGAGATT
2702783 GTGGTCCTCTCGTTGCTTGGCGTTGGAGCGTTTTGACACGGGAAGCACCAAGTATCTACCTCCCA
1 GTGGTCCTCTCGTTGCTTGGCGTTGGAGCGTTTTGACACGGGAAGCACCAAGTATCTACCTCCCA
2702848 CCGATAGAGATAGAGCTGCAGTAGGCTTGTGGTTTCGGCATTATATGGCTAAATCGATATATACG
66 CCGATAGAGATAGAGCTGCAGTAGGCTTGTGGTTTCGGCATTATATGGCTAAATCGATATATACG
2702913 AGACGCTGCCTACTTGCATCTGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTTATAGACT
131 AGACGCTGCCTACTTGCATCTGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTTATAGACT
2702978 TTTGGTTTGAAATGTTTGGGTTAAGTACCTAGAATAGAATAATTTGCTGTTTGTAGGTTTAGAGG
196 TTTGGTTTGAAATGTTTGGGTTAAGTACCTAGAATAGAATAATTTGCTGTTTGTAGGTTTAGAGG
2703043 TGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCTCAGAAGTGAAC
261 TGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCTCAGAAGTGAAC
2703102 GTGGTCCTCTCGTATGCTTGGCGTTGGAGCG-TTTGACGACGGGAAGCACCAAGTATCTACCTCC
1 GTGGTCCTCTCGT-TGCTTGGCGTTGGAGCGTTTTGAC-ACGGGAAGCACCAAGTATCTACCTCC
2703166 CACCGATAGAGATAGAGCTGCAGTAGGCTTGTGGTTTCGGCATTATATGGCTAAATCGATATATA
64 CACCGATAGAGATAGAGCTGCAGTAGGCTTGTGGTTTCGGCATTATATGGCTAAATCGATATATA
2703231 CGAGACGCTGCCTACTTGCATCTGCGTTATAAAAATGTCCATAAACAATTGGTAAG-TTTATAGA
129 CGAGACGCTGCCTACTTGCATCTGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTTATAGA
2703295 CTTTTGGTTTGAAAATGTTT-GGTTAAGTACCTAGAATAGAATAATTTGCTGTTTGTAGGTTTTA
194 CTTTTGGTTTG-AAATGTTTGGGTTAAGTACCTAGAATAGAATAATTTGCTGTTTGTAGG-TTTA
*
2703359 GATGTGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCTCAGAAGTGAAC
257 GAGGTGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCTCAGAAGTGAAC
2703422 TGCGTGAAAA
Statistics
Matches: 315, Mismatches: 1, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
319 77 0.24
320 238 0.76
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (319 bp):
GTGGTCCTCTCGTTGCTTGGCGTTGGAGCGTTTTGACACGGGAAGCACCAAGTATCTACCTCCCA
CCGATAGAGATAGAGCTGCAGTAGGCTTGTGGTTTCGGCATTATATGGCTAAATCGATATATACG
AGACGCTGCCTACTTGCATCTGCGTTATAAAAATGTCCATAAACAATTGGTAAGTTTTATAGACT
TTTGGTTTGAAATGTTTGGGTTAAGTACCTAGAATAGAATAATTTGCTGTTTGTAGGTTTAGAGG
TGTAGAAAGTGTTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCTCAGAAGTGAAC
Found at i:2703580 original size:14 final size:14
Alignment explanation
Indices: 2703561--2703596 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2703551 ATTGTTTAAT
2703561 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2703575 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2703589 TGATTTGT
1 TGATTTGT
2703597 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2703711 original size:19 final size:19
Alignment explanation
Indices: 2703687--2703774 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
2703677 GCATTATGTT
2703687 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2703706 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
2703723 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2703739 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2703758 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
2703775 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.48
20 16 0.26
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:2703806 original size:53 final size:53
Alignment explanation
Indices: 2703687--2703793 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
2703677 GCATTATGTT
2703687 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
2703739 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
2703792 GA
1 GA
2703794 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 19 0.35
53 35 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:2703811 original size:19 final size:19
Alignment explanation
Indices: 2703783--2704025 Score: 274
Period size: 19 Copynumber: 13.7 Consensus size: 19
2703773 AACGAGAGAA
*
2703783 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2703802 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2703821 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2703838 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2703855 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2703871 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2703888 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2703905 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2703922 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2703941 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2703960 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2703979 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
2703997 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
2704013 TCGCATTGCGATT
1 TCGCATTGCGATT
2704026 CTCTCGTTGC
Statistics
Matches: 192, Mismatches: 9, Indels: 46
0.78 0.04 0.19
Matches are distributed among these distances:
14 28 0.15
16 20 0.10
17 18 0.09
18 10 0.05
19 85 0.44
20 31 0.16
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2703846 original size:14 final size:14
Alignment explanation
Indices: 2703827--2703915 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
2703817 CATTTCCGCA
2703827 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
2703841 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
2703858 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
2703874 TTGCGATTTTCATTTCCG
1 TTGCGA--TTC-TCT-CG
2703892 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
2703908 TTGCGATT
1 TTGCGATT
2703916 TTCATTTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 22
0.70 0.05 0.26
Matches are distributed among these distances:
14 20 0.33
16 12 0.20
17 11 0.18
18 5 0.08
19 6 0.10
20 6 0.10
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:2703852 original size:53 final size:54
Alignment explanation
Indices: 2703789--2704025 Score: 239
Period size: 53 Copynumber: 4.5 Consensus size: 54
2703779 AGAATCGCAA
2703789 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG-T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGAT
* * *
2703842 TGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTTTC-ATT-TC-CGCAT
1 TGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCCGCA-TTGCGATTCTCTCG-AT
* *
2703895 TGCGA--TTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG-AT
* *
2703947 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTG-T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGAT
*
2704000 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
2704026 CTCTCGTTGC
Statistics
Matches: 153, Mismatches: 12, Indels: 38
0.75 0.06 0.19
Matches are distributed among these distances:
46 7 0.05
47 5 0.03
48 8 0.05
49 2 0.01
50 4 0.03
51 6 0.04
52 12 0.08
53 62 0.41
54 11 0.07
55 9 0.06
56 2 0.01
57 15 0.10
58 10 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (54 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGAT
Found at i:2703865 original size:33 final size:33
Alignment explanation
Indices: 2703807--2703972 Score: 260
Period size: 34 Copynumber: 4.8 Consensus size: 33
2703797 TCATTTCGCA
2703807 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
2703841 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
2703874 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
2703908 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
2703944 CATTGCGATTTTCATTTCGCATTGCGATT
1 --TTGCGATTTTCATTTCGCATTGCGATT
2703973 TTCATTTCCG
Statistics
Matches: 125, Mismatches: 1, Indels: 10
0.92 0.01 0.07
Matches are distributed among these distances:
33 43 0.34
34 48 0.38
35 3 0.02
36 6 0.05
38 25 0.20
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:2703896 original size:67 final size:70
Alignment explanation
Indices: 2703783--2703972 Score: 289
Period size: 67 Copynumber: 2.7 Consensus size: 70
2703773 AACGAGAGAA
* *
2703783 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGAT
2703848 TTTCATT
64 TTTCATT
2703855 TCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTT
1 TCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTT
2703917 TCATT
66 TCATT
*
2703922 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT
1 TCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCCGCATTGCGATT
2703973 TTCATTTCCG
Statistics
Matches: 110, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
67 59 0.54
69 7 0.06
70 7 0.06
71 12 0.11
72 25 0.23
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (70 bp):
TCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTT
TCATT
Found at i:2703991 original size:91 final size:86
Alignment explanation
Indices: 2703841--2704025 Score: 289
Period size: 91 Copynumber: 2.1 Consensus size: 86
2703831 GATTCTCTCG
2703841 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTCT
2703906 CGTTGCGATTTTCATTTCGCA
66 CGTTGCGATTTTCATTTCGCA
*
2703927 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGAT
* * *
2703992 TTTCTTGTTGGGATTTTCATTTCGCA
61 TCTCTCGTTGCGATTTTCATTTCGCA
2704018 TTGCGATT
1 TTGCGATT
2704026 CTCTCGTTGC
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
86 25 0.28
88 3 0.03
89 4 0.04
91 58 0.64
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (86 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTCTCT
CGTTGCGATTTTCATTTCGCA
Found at i:2704023 original size:33 final size:33
Alignment explanation
Indices: 2703927--2704039 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 33
2703917 TCATTTCGCA
2703927 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTC--TT-G
2703963 CATTGCGATTTTCATTTCCGCATTGCGATTTTCTTG
1 --TTGCGATTTTCATTT-CGCATTGCGATTTTCTTG
* * *
2703999 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCTTG
2704032 TTGCGATT
1 TTGCGATT
2704040 GTAATTTCCG
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
33 23 0.33
34 14 0.20
36 1 0.01
37 2 0.03
38 15 0.21
39 15 0.21
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCTTG
Found at i:2706331 original size:12 final size:12
Alignment explanation
Indices: 2706314--2706338 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2706304 TCTTCGGGGA
2706314 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2706326 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2706338 C
1 C
2706339 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2706547 original size:24 final size:24
Alignment explanation
Indices: 2706513--2706559 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2706503 CTGAAACATC
2706513 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2706537 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2706560 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2707277 original size:20 final size:20
Alignment explanation
Indices: 2707249--2707477 Score: 226
Period size: 20 Copynumber: 11.4 Consensus size: 20
2707239 AATTTTCAGT
* * *
2707249 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2707269 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2707289 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2707309 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
2707329 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
2707349 GTTGCGATATACGGATACGT
1 GTTGCGATTTACGGATTCGC
* *
2707369 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
2707389 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
2707409 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
2707429 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
2707449 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
2707469 GTTGCGATT
1 GTTGCGATT
2707478 CTTGAAAATC
Statistics
Matches: 179, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:2707495 original size:21 final size:20
Alignment explanation
Indices: 2707445--2707543 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
2707435 ATTTATGTGT
* * * *
2707445 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
2707465 TCGCGTTGCGATTCTTGAAAA
1 TCGCATTGCGATT-TTGAAAA
* * **
2707486 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTG-AAAA
*
2707507 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
2707528 TCGCATTGCGATTTTG
1 TCGCATTGCGATTTTG
2707544 GAAACTGATT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 17 0.27
21 45 0.73
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:2708394 original size:27 final size:27
Alignment explanation
Indices: 2708356--2708593 Score: 271
Period size: 27 Copynumber: 8.8 Consensus size: 27
2708346 CATTACAACA
*
2708356 ACCGGCCTCCCCACCAGCAATTCGATT
1 ACCGGCCTCCCCACCAGCAATTCGATC
2708383 ACCGGCCTCCCCACCAGCAATTCGATC
1 ACCGGCCTCCCCACCAGCAATTCGATC
*
2708410 ACCGGCCTCCCCGCCAGCAATTCGATC
1 ACCGGCCTCCCCACCAGCAATTCGATC
2708437 ACCGGCCTCCCCACCAGCAATTCGATC
1 ACCGGCCTCCCCACCAGCAATTCGATC
*
2708464 ACCGGCCTCCCCACCATCAATTCGATC
1 ACCGGCCTCCCCACCAGCAATTCGATC
* * * *
2708491 AACGGCC-CACCCAGCAGCAGTTCGAAC
1 ACCGGCCTC-CCCACCAGCAATTCGATC
** * * *
2708518 ACCGGCCTAGCCAGCAGCGATTCGAGC
1 ACCGGCCTCCCCACCAGCAATTCGATC
** * * *
2708545 ACCGGCCTAGCCAGCAGCCATTCGAAC
1 ACCGGCCTCCCCACCAGCAATTCGATC
* ** *
2708572 AGCGGCCTATCCAGCAGCAATT
1 ACCGGCCTCCCCACCAGCAATT
2708594 TGAGAACCCT
Statistics
Matches: 189, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
ACGTcount: A:0.24, C:0.43, G:0.19, T:0.14
Consensus pattern (27 bp):
ACCGGCCTCCCCACCAGCAATTCGATC
Found at i:2714640 original size:22 final size:22
Alignment explanation
Indices: 2714591--2714639 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2714581 ATAAATTATT
**
2714591 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2714613 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
2714636 TAAA
1 TAAA
2714640 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2714684 original size:80 final size:79
Alignment explanation
Indices: 2714594--2715217 Score: 452
Period size: 80 Copynumber: 7.9 Consensus size: 79
2714584 AATTATTTAA
2714594 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
2714659 CCATACAACTACAA-T
66 CCATACAA-TA-AATT
*
2714674 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* ** *
2714739 CTATA-TTTTAA--
66 CCATACAATAAATT
*
2714750 AATAAATCAATTCATATTTTAAAATAAATCAA--T-T-C--AT--A-T-TTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
*
2714805 TCATACTAATAAATTATTT
66 CCATAC-AAT-AA--A-TT
2714824 AAAATAAATCAATCCATATTTTAAAATAAATCAATC----C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
2714879 ATCCATACTAATAAATT
64 ATCCATAC-AATAAATT
* * * * ** **
2714896 ATTTAAAATAAAT-CA-ATTCATACAACTACAAT-AATAAAT-C-AATCCA-TATTTTAAAATAA
1 A-AT-AAATCAATCCATATT-TTA-AAATA-AATCAATCTATACTAATAAATTA-TTTAAAATAA
*
2714955 ATCAATCTATACAAATAAATT
60 ATCAATCCATAC-AATAAATT
* * * * * * * * *
2714976 ATTTAAAATAAAT-CA-ATTCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAA
1 A-AT-AAATCAATCCATATT-TTA-AAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAA
2715038 TAAATCAATCCATACTAATAAATTATTT
57 TAAATCAATCCATAC-AAT-AA--A-TT
*
2715066 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
2715131 ATCCATACAACTACAA-T
64 ATCCATACAA-TA-AATT
*
2715148 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
2715213 CCATA
66 CCATA
2715218 TTTTAAAATA
Statistics
Matches: 461, Mismatches: 40, Indels: 86
0.79 0.07 0.15
Matches are distributed among these distances:
66 19 0.04
67 1 0.00
68 2 0.00
69 1 0.00
70 6 0.01
71 6 0.01
72 17 0.04
73 5 0.01
74 1 0.00
75 3 0.01
76 94 0.20
77 2 0.00
78 3 0.01
79 6 0.01
80 193 0.42
82 6 0.01
84 1 0.00
85 3 0.01
86 51 0.11
87 4 0.01
89 1 0.00
90 22 0.05
91 10 0.02
92 4 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
CCATACAATAAATT
Found at i:2714739 original size:54 final size:54
Alignment explanation
Indices: 2714674--2715262 Score: 349
Period size: 54 Copynumber: 11.1 Consensus size: 54
2714664 CAACTACAAT
2714674 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
*
2714728 AATAAATCAATCTATATTTTAAAATAAATC-A-AT-T-C--AT--A-T-TTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
*
2714772 AATAAATCAATTCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATAT-ATACTAATAAATTATTTAA
** ** * ** *
2714826 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
** ** *
2714878 AATCCATACTAATAAAT-TATTTAAAATAAATCAAT-TCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATAT-ATACTAA-TAAATTATTTAA
* *
2714928 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
* * * * * * * * **
2714982 AATAAATCAATTCATA-CTAATAAATTATTTAAAATA-AATCAATCCA-TATTTTAA
1 AATAAATCAATCCATATTTTA-AAATAAATCAATATATACT-AATAAATTA-TTTAA
* * * * * * * **
2715036 AATAAATCAATCCATA-CTAATAAATTATTTAAAATA-AATCAATCCA-TATTTTAA
1 AATAAATCAATCCATATTTTA-AAATAAATCAATATATACT-AATAAATTA-TTTAA
** * ** * * * * * *
2715090 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA--CAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATATAT-ACT-AATA-AATTATTTAA
**
2715147 TAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
2715202 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATAT-ATACTAATAAATTATTTAA
2715256 AATAAAT
1 AATAAAT
2715263 TATTTTAAAA
Statistics
Matches: 431, Mismatches: 63, Indels: 82
0.75 0.11 0.14
Matches are distributed among these distances:
44 33 0.08
45 3 0.01
46 1 0.00
47 1 0.00
48 31 0.07
49 5 0.01
50 9 0.02
51 2 0.00
52 9 0.02
53 22 0.05
54 258 0.60
55 12 0.03
56 10 0.02
57 10 0.02
58 22 0.05
59 1 0.00
60 2 0.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAA
Found at i:2714797 original size:98 final size:98
Alignment explanation
Indices: 2714674--2715262 Score: 399
Period size: 98 Copynumber: 5.6 Consensus size: 98
2714664 CAACTACAAT
2714674 AATAAATCAATCCATATTTTAAAATAAATCAATAT-ATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAA
* *
2714738 TCTATATTTTAAAATAAATCAATTCATATTTTAA
65 TCCATATTTTAAAATAAATCAATCCATATTTTAA
*
2714772 AATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
2714837 CCATATTTTAAAATAAATCAATCCATATTTTAA
66 CCATATTTTAAAATAAATCAATCCATATTTTAA
*
2714870 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATTCATACTAA-TAAATTATTTAA
2714928 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAA
55 AATAAATCAATCCATATTTTAAAATAAATCAATC----C--AT--A-T-TTTAA
* * * * * * *
2714982 AATAAATCAATTCATA--CT--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAA
2715042 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA
61 TCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATATTTTAA
* *
2715090 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATTCATACTAA-TAAATTATTTAA
2715148 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
55 AATAAATCAATCCATATTTTAAAATAAATCAAT-C---C--AT--A-T-TTTAA
2715202 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
2715263 TATTTTAAAA
Statistics
Matches: 390, Mismatches: 24, Indels: 144
0.70 0.04 0.26
Matches are distributed among these distances:
97 6 0.02
98 113 0.29
99 2 0.01
100 1 0.00
102 75 0.19
103 6 0.02
104 7 0.02
106 12 0.03
107 3 0.01
108 66 0.17
109 2 0.01
110 3 0.01
111 4 0.01
112 47 0.12
114 6 0.02
116 2 0.01
117 2 0.01
118 17 0.04
120 1 0.00
121 2 0.01
122 9 0.02
123 4 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (98 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATATTTTAA
Found at i:2714818 original size:22 final size:22
Alignment explanation
Indices: 2714723--2714809 Score: 158
Period size: 22 Copynumber: 4.0 Consensus size: 22
2714713 TAATAAATTA
2714723 TTTAAAATAAATCAA-TCTATAT
1 TTTAAAATAAATCAATTC-ATAT
2714745 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
2714767 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
2714789 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
2714810 CTAATAAATT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
22 62 0.97
23 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:2714825 original size:76 final size:76
Alignment explanation
Indices: 2714745--2715105 Score: 515
Period size: 76 Copynumber: 4.6 Consensus size: 76
2714735 CAATCTATAT
* *
2714745 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
2714810 CTAATAAATTA
66 CTAATAAATTA
*
2714821 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
2714886 CTAATAAATTA
66 CTAATAAATTA
* **
2714897 TTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATTCAT---ATTTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATC
* *
2714962 TATACAAATAAATTA
62 CATACTAATAAATTA
2714977 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAA-T--T-C--AT--A-T-TTTAAAATAAATCAATCCATATTTTAAAATAAA
2715042 TCAATCCATACTAATAAATTA
56 TCAATCCATACTAATAAATTA
*
2715063 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
2715106 CTAATAAATT
Statistics
Matches: 257, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
76 113 0.44
77 1 0.00
78 1 0.00
79 4 0.02
80 64 0.25
81 1 0.00
82 1 0.00
83 1 0.00
84 1 0.00
85 3 0.01
86 64 0.25
87 3 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (76 bp):
TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
CTAATAAATTA
Found at i:2714894 original size:22 final size:22
Alignment explanation
Indices: 2714821--2714885 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
2714811 TAATAAATTA
2714821 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2714843 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2714865 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2714886 CTAATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2714984 original size:14 final size:14
Alignment explanation
Indices: 2714967--2715020 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2714957 CAATCTATAC
2714967 AAATAAATTATTTA
1 AAATAAATTATTTA
*
2714981 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
2714998 CTAATAAATTATTTA
1 -AAATAAATTATTTA
2715013 AAATAAAT
1 AAATAAAT
2715021 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:2714984 original size:32 final size:33
Alignment explanation
Indices: 2714945--2715140 Score: 176
Period size: 32 Copynumber: 6.8 Consensus size: 33
2714935 CAATCCATAT
2714945 TTTAAAATAAATCAATCT-ATACAAATAAATTA
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
*
2714977 TTTAAAATAAATCAAT-TCATACTAATAAATTA
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
2715009 TTTAAAATAAATCAA--TC---C--AT--A-T-
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
*
2715031 TTTAAAATAAATCAATC-CATACTAATAAATTA
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
2715063 TTTAAAATAAATCAA--TC---C--AT--A-T-
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
*
2715085 TTTAAAATAAATCAATC-CATACTAATAAATTA
1 TTTAAAATAAATCAATCTCATACAAATAAATTA
2715117 TTTAAAATAAATCAATC-CATACAA
1 TTTAAAATAAATCAATCTCATACAA
2715141 CTACAATAAT
Statistics
Matches: 138, Mismatches: 2, Indels: 48
0.73 0.01 0.26
Matches are distributed among these distances:
22 30 0.22
23 4 0.03
24 2 0.01
26 6 0.04
28 6 0.04
30 2 0.01
31 6 0.04
32 82 0.59
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (33 bp):
TTTAAAATAAATCAATCTCATACAAATAAATTA
Found at i:2715000 original size:188 final size:185
Alignment explanation
Indices: 2714594--2715262 Score: 623
Period size: 188 Copynumber: 3.6 Consensus size: 185
2714584 AATTATTTAA
*
2714594 AATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCAATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAA
* ** ** * *
2714658 TCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATATATACTAATAAAT
65 TCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAAATAAATAAAATAAAT-C-AATAAAT
* * **
2714721 -TATTTAAAATAAATCAAT-C-TA-T-AT---T-TTAAAATAAATCAATTCAT---ATTTTAA-
124 AT-TTTAAAATAAATCAATCCATACTAATAAATATT-AAATAAATCAATCCATACAACTAAAAT
2714772 AATAAATCAATTC-ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAA-TCAATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
** * **
2714836 TCCATATTTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TAT
65 TCCATATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAAT-C-AATAAATAT-T
* * ***
2714898 TTAAAATAAATCAATTCATAC-AACTACA-A-T-AATAAATCAATCCATA-TTTTAAAAT
127 TTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATACAACTAAAAT
* *
2714953 AAATCAATCTATACAAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATA
1 -AATAAATCAAT-C-AAT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATA
* ** **
2715018 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
59 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAAT
*
2715083 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
124 ATTTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATACAACTAAAAT
* *
2715148 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCAATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
* * **
2715213 CCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
66 CCATATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAAT
2715263 TATTTTAAAA
Statistics
Matches: 426, Mismatches: 32, Indels: 56
0.83 0.06 0.11
Matches are distributed among these distances:
174 63 0.15
175 5 0.01
176 2 0.00
177 1 0.00
178 78 0.18
179 4 0.01
180 5 0.01
181 1 0.00
182 9 0.02
184 2 0.00
186 1 0.00
187 1 0.00
188 200 0.47
189 13 0.03
190 7 0.02
192 3 0.01
193 1 0.00
194 25 0.06
195 5 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (185 bp):
AATAAATCAATCAATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAATATTTTAA
AATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATACAACTAAAAT
Found at i:2715035 original size:22 final size:22
Alignment explanation
Indices: 2715009--2715051 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2714999 TAATAAATTA
2715009 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2715031 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2715052 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2715060 original size:22 final size:22
Alignment explanation
Indices: 2715011--2715059 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2715001 ATAAATTATT
**
2715011 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2715033 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2715056 TAAA
1 TAAA
2715060 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2715089 original size:22 final size:22
Alignment explanation
Indices: 2715063--2715105 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2715053 TAATAAATTA
2715063 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2715085 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2715106 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2715114 original size:22 final size:22
Alignment explanation
Indices: 2715065--2715113 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2715055 ATAAATTATT
**
2715065 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2715087 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2715110 TAAA
1 TAAA
2715114 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2715194 original size:22 final size:23
Alignment explanation
Indices: 2715119--2715193 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
2715109 ATAAATTATT
2715119 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
2715141 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
2715167 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
2715190 TAAA
1 TAAA
2715194 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:2715204 original size:32 final size:31
Alignment explanation
Indices: 2715165--2715262 Score: 115
Period size: 32 Copynumber: 3.4 Consensus size: 31
2715155 CAATCCATAT
2715165 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
2715197 TTTAAAATAAATCAATC---C--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
2715219 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TCATACTAATAAATTA
2715251 TTTAAAATAAAT
1 TTTAAAATAAAT
2715263 TATTTTAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
22 15 0.27
23 3 0.05
24 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 2 0.04
32 28 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:2715223 original size:22 final size:22
Alignment explanation
Indices: 2715197--2715239 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2715187 TAATAAATTA
2715197 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2715219 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
2715240 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2715248 original size:22 final size:22
Alignment explanation
Indices: 2715199--2715247 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2715189 ATAAATTATT
**
2715199 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2715221 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2715244 TAAA
1 TAAA
2715248 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2715259 original size:14 final size:15
Alignment explanation
Indices: 2715242--2715277 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2715232 AATTCATACT
2715242 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2715256 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2715271 AATAAAT
1 AATAAAT
2715278 AACCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2715713 original size:28 final size:29
Alignment explanation
Indices: 2715660--2715719 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
2715650 TTTTGCATAG
* *
2715660 TTTAATTTAAGATTATTTTAAAATAA-AT
1 TTTAATTTAAGAATATTATAAAATAATAT
*
2715688 TTTAATTTAA-AATATTATACATATAATAT
1 TTTAATTTAAGAATATTATA-AAATAATAT
2715717 TTT
1 TTT
2715720 CGATTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 15 0.56
29 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTAATTTAAGAATATTATAAAATAATAT
Found at i:2716894 original size:43 final size:43
Alignment explanation
Indices: 2716844--2716980 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
2716834 GTTTGTGAAC
* *
2716844 AAAAACGCCGCAAAAGATCCAGCTCTATAGCAGCGTTTTTAAT
1 AAAAACGCCGCAAAAGGTCCAGATCTATAGCAGCGTTTTTAAT
* * * * *
2716887 AAAAACGCCACAAAAGGTCAAGATCAATAG-TGTCGTTTTTAGT
1 AAAAACGCCGCAAAAGGTCCAGATCTATAGCAG-CGTTTTTAAT
* * *
2716930 AAAAACGCCGCAAAAGGT-CATGGTCTATAGCGGCGTTTTCAA-
1 AAAAACGCCGCAAAAGGTCCA-GATCTATAGCAGCGTTTTTAAT
2716972 AAAAACGCC
1 AAAAACGCC
2716981 AAGGTCATGG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 11 0.14
43 65 0.84
44 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAACGCCGCAAAAGGTCCAGATCTATAGCAGCGTTTTTAAT
Found at i:2719865 original size:42 final size:41
Alignment explanation
Indices: 2719751--2719885 Score: 112
Period size: 41 Copynumber: 3.3 Consensus size: 41
2719741 GTGGCGTTTG
* * *
2719751 TATAAAAACGCCACTATAGGTAAACACTATTGCGGCATTTG
1 TATAAAAACGCCACAATAGGTAAACTCTATTGCGGCATTTA
* * * * *
2719792 TATAAAAACGCCGCTAA-AGTTCTAA-TATATTGCGGCGTTTA
1 TATAAAAACGCCAC-AATAGGT-AAACTCTATTGCGGCATTTA
* * * * *
2719833 TTTAAAAAACGCCACAATAGGTGAACTCTATTGTGGTATTTT
1 TAT-AAAAACGCCACAATAGGTAAACTCTATTGCGGCATTTA
2719875 TATAAAAACGC
1 TATAAAAACGC
2719886 TGCTAAAGTT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
41 42 0.59
42 29 0.41
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (41 bp):
TATAAAAACGCCACAATAGGTAAACTCTATTGCGGCATTTA
Found at i:2719881 original size:83 final size:81
Alignment explanation
Indices: 2719739--2720049 Score: 320
Period size: 82 Copynumber: 3.8 Consensus size: 81
2719729 TATTGATAAA
* *
2719739 TTGTGGCGTTT-GTATAAAAACGCCACTATAGGTAAACACTATTGCGGCATTTGTATAAAAACGC
1 TTGTGGCGTTTATTA-AAAAACGCCACTATAGGTGAAC-CTATTGCGGCATTTGTATAAAAACGC
*
2719803 CGCTAAAGTTCTAATATA
64 CGCTAAAGTTCTAATATG
* * * * *
2719821 TTGCGGCGTTTATTTAAAAAACGCCACAATAGGTGAACTCTATTGTGGTATTTTTATAAAAACGC
1 TTGTGGCGTTTA-TTAAAAAACGCCACTATAGGTGAAC-CTATTGCGGCATTTGTATAAAAACGC
* *
2719886 TGCTAAAGTTCTAATTTG
64 CGCTAAAGTTCTAATATG
* * * * * *
2719904 TTGTTGCGTTTATTAAAAAATGGCACTATAGAG-GTCACCTATTGCGGCGTTTGTATTAAAACGC
1 TTGTGGCGTTTATTAAAAAACGCCACTATAG-GTG-AACCTATTGCGGCATTTGTATAAAAACGC
* * *
2719968 CGCTAAAATACTAATCTG
64 CGCTAAAGTTCTAATATG
* * * * * **
2719986 TTGTGGCGTTTATTGAAAAACGCCACTATAGATGGACCTATTGTGGCGTTTGTCGAAAAACGCC
1 TTGTGGCGTTTATTAAAAAACGCCACTATAGGTGAACCTATTGCGGCATTTGTATAAAAACGCC
2720050 ACTATATATA
Statistics
Matches: 188, Mismatches: 36, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
81 25 0.13
82 90 0.48
83 71 0.38
84 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (81 bp):
TTGTGGCGTTTATTAAAAAACGCCACTATAGGTGAACCTATTGCGGCATTTGTATAAAAACGCCG
CTAAAGTTCTAATATG
Found at i:2720181 original size:12 final size:12
Alignment explanation
Indices: 2720164--2720189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2720154 GTTTACTCTC
2720164 AAAACGCCGCTA
1 AAAACGCCGCTA
2720176 AAAACGCCGCTA
1 AAAACGCCGCTA
2720188 AA
1 AA
2720190 GAACAGTTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:2721012 original size:79 final size:79
Alignment explanation
Indices: 2720881--2721038 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
2720871 CATGAAGTTG
2720881 AAATCATGCACTTTTCTATTGGAAATACTATACCTGGAAGGCTTTATGGTGGCAATTCCATAGAT
1 AAATCATGCACTTTTCTATTGGAAATACTATACCTGGAAGGCTTTATGGTGGCAATTCCATAGAT
2720946 AACAGAGAGGGAAA
66 AACAGAGAGGGAAA
2720960 AAATCATGCACTTTTCTATTGGAAATACTATACCTGGAAGGCTTTATGGTGGCAATTCCATAGAT
1 AAATCATGCACTTTTCTATTGGAAATACTATACCTGGAAGGCTTTATGGTGGCAATTCCATAGAT
2721025 AACAGAGAGGGAAA
66 AACAGAGAGGGAAA
2721039 TGGAGGTGAC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (79 bp):
AAATCATGCACTTTTCTATTGGAAATACTATACCTGGAAGGCTTTATGGTGGCAATTCCATAGAT
AACAGAGAGGGAAA
Found at i:2723293 original size:16 final size:18
Alignment explanation
Indices: 2723256--2723296 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2723246 TGATTATACG
2723256 TATATGTATGACATAAAT
1 TATATGTATGACATAAAT
*
2723274 TATATGTATG-CAT-GAT
1 TATATGTATGACATAAAT
2723290 TATATGT
1 TATATGT
2723297 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 3 0.14
18 10 0.45
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (18 bp):
TATATGTATGACATAAAT
Found at i:2725613 original size:20 final size:20
Alignment explanation
Indices: 2725588--2725641 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2725578 GACCAACAAA
2725588 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
2725608 TTCGCAAC-CCATTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
*
2725628 TTTGCAACGCGAAT
1 TTCGCAACGCGAAT
2725642 ATGTAAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:2725690 original size:21 final size:21
Alignment explanation
Indices: 2725631--2725696 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
2725621 TTCCAATTTT
*
2725631 GCAACGCGAATATGTAAATT-
1 GCAACGCGAATTTGTAAATTC
*** * **
2725651 GCGTTGCGATTTTCCAAATTC
1 GCAACGCGAATTTGTAAATTC
2725672 GCAACGCGAATTTGTAAA-TC
1 GCAACGCGAATTTGTAAATTC
2725692 GCAAC
1 GCAAC
2725697 ACAGAAGCCA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (21 bp):
GCAACGCGAATTTGTAAATTC
Found at i:2725713 original size:20 final size:20
Alignment explanation
Indices: 2725690--2725736 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2725680 AATTTGTAAA
2725690 TCGCAACACAGA-AGCCAAAT
1 TCGCAACAC-GATAGCCAAAT
*
2725710 TCGCAACACGATAGTCAAAT
1 TCGCAACACGATAGCCAAAT
*
2725730 TTGCAAC
1 TCGCAAC
2725737 GCGAAAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (20 bp):
TCGCAACACGATAGCCAAAT
Found at i:2725745 original size:20 final size:20
Alignment explanation
Indices: 2725705--2725763 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2725695 ACACAGAAGC
* * *
2725705 CAAATTCGCAACACGATAGT
1 CAAATTTGCAACGCGAAAGT
2725725 CAAATTTGCAACGCGAAAGT
1 CAAATTTGCAACGCGAAAGT
**
2725745 CAAATGTTTTAACGCGAAA
1 CAAAT-TTGCAACGCGAAA
2725764 CACAATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (20 bp):
CAAATTTGCAACGCGAAAGT
Found at i:2725905 original size:22 final size:22
Alignment explanation
Indices: 2725877--2725949 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
2725867 CTACGGCGAC
* *
2725877 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATTTCTGACGAA
*
2725899 ATTCGTCCCCATTTCTGACGAA
1 ATCCGTCCCCATTTCTGACGAA
2725921 ATCCGTCCCCATTTCTGACGAA
1 ATCCGTCCCCATTTCTGACGAA
2725943 ATCCGTC
1 ATCCGTC
2725950 TATTTCCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.26
Consensus pattern (22 bp):
ATCCGTCCCCATTTCTGACGAA
Found at i:2726176 original size:13 final size:13
Alignment explanation
Indices: 2726158--2726189 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2726148 AGTATTTGTC
2726158 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
2726171 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
2726184 TTTGTT
1 TTTGTT
2726190 AAAGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:2726258 original size:19 final size:20
Alignment explanation
Indices: 2726221--2726260 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2726211 ACCAAATTCA
2726221 CAACGCGAAAATGAAAATCG
1 CAACGCGAAAATGAAAATCG
*
2726241 CAACGCGAAACT-AAAATCG
1 CAACGCGAAAATGAAAATCG
2726260 C
1 C
2726261 GTTGCGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.10
Consensus pattern (20 bp):
CAACGCGAAAATGAAAATCG
Found at i:2729761 original size:14 final size:14
Alignment explanation
Indices: 2729742--2729781 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2729732 TTTTGATTAA
2729742 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
2729756 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
2729770 TTGATTTGTAAA
1 TTGATTTGTAAA
2729782 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2729793 original size:61 final size:62
Alignment explanation
Indices: 2729692--2729831 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 62
2729682 TTTTACATTG
* *
2729692 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAAATGATTTGTA
** * *
2729752 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAAATGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAAATGATTTGT
2729817 A
62 A
2729818 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
2729832 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
60 17 0.25
61 17 0.25
64 4 0.06
66 30 0.44
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAAATGATTTGTA
Found at i:2729915 original size:20 final size:20
Alignment explanation
Indices: 2729890--2729947 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
2729880 GTTGAAGGTA
2729890 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAATGCGAAAGT
2729910 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAATGCGAAAGT
2729930 CAAATTCGCAATGCGAAA
1 CAAATTCGCAATGCGAAA
2729948 TAAGCGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAATGCGAAAGT
Found at i:2730041 original size:17 final size:17
Alignment explanation
Indices: 2730019--2730064 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
2730009 TGATTGCAAC
2730019 ATACAACATCAAGGTAT
1 ATACAACATCAAGGTAT
2730036 ATACAACATCAAGGTAT
1 ATACAACATCAAGGTAT
2730053 ATACAACATCAA
1 ATACAACATCAA
2730065 TCACATTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.22
Consensus pattern (17 bp):
ATACAACATCAAGGTAT
Found at i:2730257 original size:39 final size:39
Alignment explanation
Indices: 2730203--2730289 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
2730193 TAAAGTTGTA
*
2730203 GATTTTGATTTCCTTTTGCTTTACACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
* *
2730242 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
2730281 GATTTTGAT
1 GATTTTGAT
2730290 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:2731007 original size:13 final size:12
Alignment explanation
Indices: 2730987--2731021 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
2730977 ATTATTTTTC
2730987 CAAATAATGTAT
1 CAAATAATGTAT
2730999 CATAATAATGT-T
1 CA-AATAATGTAT
2731011 CAAATAATGTA
1 CAAATAATGTA
2731022 CCTACAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.38
12 5 0.24
13 8 0.38
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (12 bp):
CAAATAATGTAT
Found at i:2731119 original size:20 final size:20
Alignment explanation
Indices: 2731096--2731137 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2731086 AGATCTGTTG
2731096 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
2731116 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
2731136 AA
1 AA
2731138 TAAGCGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Done.