Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004585.1 Hibiscus syriacus cultivar Beakdansim tig00010239_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: 66169
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:4110 original size:81 final size:80
Alignment explanation
Indices: 4015--4175 Score: 304
Period size: 81 Copynumber: 2.0 Consensus size: 80
4005 TAAATCATAG
4015 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTTTATTGA
1 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTA-TTTATTGA
*
4080 TCAAACTTTGGTTTGC
65 TCAAACTTTGGCTTGC
4096 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTTATTGAT
1 AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTTATTGAT
4161 CAAACTTTGGCTTGC
66 CAAACTTTGGCTTGC
4176 GATGAGCCAA
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 23 0.29
81 56 0.71
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
AAGTGGATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTAATTTGTACTTATTTATTGAT
CAAACTTTGGCTTGC
Found at i:4145 original size:39 final size:39
Alignment explanation
Indices: 4021--4145 Score: 94
Period size: 39 Copynumber: 3.1 Consensus size: 39
4011 ATAGAAGTGG
4021 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
1 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
* ** * ** * **
4060 ATTTGTACT-TAT-TTTATTGATCAAACTTTG-GTTTGCAAGTGG
1 ATTTGGA-TATATATAAAGTG-TC-AA-GGTGAG--TGCAATTTA
4102 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
1 ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
4141 ATTTG
1 ATTTG
4146 TACTTATTTA
Statistics
Matches: 59, Mismatches: 18, Indels: 18
0.62 0.19 0.19
Matches are distributed among these distances:
38 4 0.07
39 22 0.37
40 6 0.10
41 6 0.10
42 17 0.29
43 4 0.07
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (39 bp):
ATTTGGATATATATAAAGTGTCAAGGTGAGTGCAATTTA
Found at i:4930 original size:32 final size:32
Alignment explanation
Indices: 4889--5049 Score: 190
Period size: 32 Copynumber: 5.1 Consensus size: 32
4879 AGAGTCAAGA
4889 ATTACCTATGTCTTTCGGGACATATGGACAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGT
* * *
4921 ATTACCTATGT-TCTTCGGAACATATAGACAGG
1 ATTACCTATGTCT-TTCGGGACATATGGACAGT
* *
4953 ATTACCTATGTCTTTCGGGAAATATGGACAAT
1 ATTACCTATGTCTTTCGGGACATATGGACAGT
*
4985 -TTACCTATGT-TCTTCGAGACATATGGACA-T
1 ATTACCTATGTCT-TTCGGGACATATGGACAGT
*
5015 TTTACCTATGTTCTTT-GGGACATATGGACAG-
1 ATTACCTATG-TCTTTCGGGACATATGGACAGT
5046 ATTA
1 ATTA
5050 TTATATGAGC
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.02
31 51 0.46
32 55 0.50
33 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (32 bp):
ATTACCTATGTCTTTCGGGACATATGGACAGT
Found at i:5030 original size:63 final size:64
Alignment explanation
Indices: 4889--5044 Score: 221
Period size: 63 Copynumber: 2.5 Consensus size: 64
4879 AGAGTCAAGA
*
4889 ATTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTTCTTCGGAACATATAGACAGG
1 ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGAACATATAGACAGG
* * *
4953 ATTACCTATGTCTTTCGGGAAATATGGACAAT-TTACCTATGTTCTTC-GAGACATATGGACA-T
1 ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGA-ACATATAGACAGG
*
5015 TTTACCTATGTTCTTT-GGGACATATGGACA
1 ATTACCTATG-TCTTTCGGGACATATGGACA
5045 GATTATTATA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
62 24 0.29
63 30 0.36
64 30 0.36
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (64 bp):
ATTACCTATGTCTTTCGGGACATATGGACAATATTACCTATGTTCTTCGGAACATATAGACAGG
Found at i:14525 original size:126 final size:125
Alignment explanation
Indices: 14129--14587 Score: 543
Period size: 125 Copynumber: 3.7 Consensus size: 125
14119 GGTAACACTA
* * * * * *
14129 CTCCTACATAATGAGAAAATCTAGTCAAGTGATGACACTTCTCATCTGTTCATGAGTCTTGGCCA
1 CTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCTTGGCCA
* * ** * * * *
14194 TTTAAGGGTGATAACACTGCT-CA-TACT-AT-GATAAGTCTTGGTTATCTAGGATTGACACG
66 TCTAAGGGTGATAACACTGTTCCACT-CTGATGGGGACGAC-TGGTTATCTAAG-TTGACAAG
* * * * *
14253 ACTCCTAGATAATGAGGACATCTGATCATTTGATGACACTGCTCATCTATTCATGAGTCTTGACC
1 -CTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCTTGGCC
* * * * *
14318 ATCTAAGAGTGATAAC-CGGTTCCACTCTGCTGGGGACGGCTGGTTATCTAAGTTGACACAA
65 ATCTAAGGGTGATAACACTGTTCCACTCTGATGGGGACGACTGGTTATCTAAGTTGACA-AG
* *
14379 CTCCTACATAATGAGAAGATCTGG-CTATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCC
1 CTCCTACATAATGAGGAGATCTGGTC-ATGTGATGACACTGCTCATCTATTCATGAGTCTTGGCC
14443 ATCTAAGGGTGATAACACTGTTCCACTCTGATGGGGACGACTGGTTATCTAAGTTGACATAG
65 ATCTAAGGGTGATAACACTGTTCCACTCTGATGGGGACGACTGGTTATCTAAGTTGACA-AG
* * *
14505 CTCCTATATAATGAGGAGATCTGGTCAGGTGATGACACTACTCATCTATTCATGAGTCTTGGCCA
1 CTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCTTGGCCA
*
14570 TCTAAAGGTGATAACACT
66 TCTAAGGGTGATAACACT
14588 TCTCATACTA
Statistics
Matches: 285, Mismatches: 41, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
124 4 0.01
125 148 0.52
126 128 0.45
127 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (125 bp):
CTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTATTCATGAGTCTTGGCCA
TCTAAGGGTGATAACACTGTTCCACTCTGATGGGGACGACTGGTTATCTAAGTTGACAAG
Found at i:14802 original size:37 final size:38
Alignment explanation
Indices: 14761--14833 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
14751 AGATTCTTTA
*
14761 TGTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAAAT
1 TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAAT
* * * *
14798 TGTCTTAAGTGAGACAACATTTTGTTTCGAGAGAAA
1 TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAA
14834 CAACATCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (38 bp):
TGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAAT
Found at i:22804 original size:60 final size:61
Alignment explanation
Indices: 22678--22811 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 61
22668 GCATAATGGT
* * * * *
22678 GCATCCCTGGGGACGCGCTTTACCTGGGTTTTAGCTGACTGGGATGCCATACGGGTAAGGT
1 GCATCCCTGGGGACGAGCTTTACCGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
* * * **
22739 TCATCCCTGGGGACGAGCTTT-CACGGGGTTTT-GCTGAGTCGGATGTCACGGGGGTAAGGC
1 GCATCCCTGGGGACGAGCTTTAC-CGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
22799 GCATCCCTGGGGA
1 GCATCCCTGGGGA
22812 TGCGCCTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
60 34 0.56
61 27 0.44
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.25
Consensus pattern (61 bp):
GCATCCCTGGGGACGAGCTTTACCGGGGTTTTAGCTGACTCGGATGCCACACGGGTAAGGC
Found at i:23063 original size:17 final size:17
Alignment explanation
Indices: 23041--23096 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
23031 TATTTTTTAT
23041 TATTATATTTATATAAA
1 TATTATATTTATATAAA
*
23058 TATTAT-TTTTTATTAAA
1 TATTATATTTATA-TAAA
* *
23075 -ATAATATTTATATAAT
1 TATTATATTTATATAAA
23091 TATTAT
1 TATTAT
23097 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATTTATATAAA
Found at i:23065 original size:30 final size:31
Alignment explanation
Indices: 23031--23098 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 31
23021 ATAATTGTTA
*
23031 TATTTTTTATT-ATTATATTTATATAAATAT
1 TATTTTTTATTAATAATATTTATATAAATAT
*
23061 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTTTATT--AATAATATTTATATAAATAT
23094 TATTT
1 TATTT
23099 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 11 0.33
33 22 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTTTTTATTAATAATATTTATATAAATAT
Found at i:23087 original size:33 final size:32
Alignment explanation
Indices: 23045--23106 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
23035 TTTTATTATT
*
23045 ATATTTATATAAATATTATTTTTTATTAAAATA
1 ATATTTATATAAATATTATTTATT-TTAAAATA
*
23078 ATATTTATATAATTATTATTTATTTTAAA
1 ATATTTATATAAATATTATTTATTTTAAA
23107 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATATTTATATAAATATTATTTATTTTAAAATA
Found at i:23097 original size:15 final size:15
Alignment explanation
Indices: 23046--23127 Score: 60
Period size: 15 Copynumber: 5.3 Consensus size: 15
23036 TTTATTATTA
23046 TATTTATATAAATAT
1 TATTTATATAAATAT
* *
23061 TATTTTTTATTAAAATAA
1 TA-TTTATA-T-AAATAT
*
23079 TATTTATATAATTAT
1 TATTTATATAAATAT
*
23094 TATTTATTTTAAAT-T
1 TATTTA-TATAAATAT
* *
23109 TATTAAT-TAATTAT
1 TATTTATATAAATAT
23123 TATTT
1 TATTT
23128 GTGCTAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 18 0.35
16 11 0.21
17 6 0.12
18 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTATATAAATAT
Found at i:23141 original size:29 final size:31
Alignment explanation
Indices: 23073--23141 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
23063 TTTTTTATTA
* * **
23073 AAATAATATTTATATAATTATTATTTATTTT
1 AAATTATATTAATATAATTATTATTTATGCT
*
23104 AAATT-TATTAAT-TAATTATTATTTGTGCT
1 AAATTATATTAATATAATTATTATTTATGCT
23133 -AATTATATT
1 AAATTATATT
23142 TTTTGTCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 4 0.12
29 18 0.56
30 6 0.19
31 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
AAATTATATTAATATAATTATTATTTATGCT
Found at i:24934 original size:42 final size:42
Alignment explanation
Indices: 24836--24916 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
24826 TGTCACAGGG
* * *
24836 GTACATGCCCAGCCCTCTAGTTCAGATGTCATCTCCGCAAGT
1 GTACATGCCAAGCCCACCAGTTCAGATGTCATCTCCGCAAGT
* *
24878 GTATATGCCAAGCCCACCAGTTCATATGTCATCTCCGCA
1 GTACATGCCAAGCCCACCAGTTCAGATGTCATCTCCGCA
24917 GGGTGACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (42 bp):
GTACATGCCAAGCCCACCAGTTCAGATGTCATCTCCGCAAGT
Found at i:24946 original size:21 final size:21
Alignment explanation
Indices: 24912--24984 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
24902 TATGTCATCT
* *
24912 CCGCAGGGTGACATTCCTAGC
1 CCGCAAGGTTACATTCCTAGC
24933 CCGCAAGGTTACATTCCTAGC
1 CCGCAAGGTTACATTCCTAGC
* *
24954 CCGCCAGGTTACATGCCTAGC
1 CCGCAAGGTTACATTCCTAGC
*
24975 CCGCAGGGTT
1 CCGCAAGGTT
24985 TTATGACACC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAAGGTTACATTCCTAGC
Found at i:25568 original size:19 final size:19
Alignment explanation
Indices: 25530--25568 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25520 ATTATTCCAA
*
25530 TTGAAATTTAAAATTGTAT
1 TTGAAATTTAAAATTATAT
25549 TTGAAA-TTAAAAGTTATAT
1 TTGAAATTTAAAA-TTATAT
25568 T
1 T
25569 CAAATTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTGAAATTTAAAATTATAT
Found at i:26229 original size:139 final size:139
Alignment explanation
Indices: 25977--26869 Score: 1331
Period size: 139 Copynumber: 6.4 Consensus size: 139
25967 TGTGTCTCCG
* * * * * * * * *
25977 GGGACATGACTCACATGATAGGGAAATTATAACATATTCTCTGACATAACAATCGAATGTGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * * *
26042 TCTCCGGGAACACGCTTTCACCACTTTGCTATGTCCCCTCAAACATAATAGGTACTGACATGAAT
66 -C-CCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAAT
26107 AGTGCCCCCGA
129 AGTGCCCCCGA
* *
26118 GGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGGAAGGTGCACC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * *
26183 CCCGAAAACACGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGGCATGAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
26248 TG-CCCCGA
131 TGCCCCCGA
* * * **
26256 GGGACATAAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCG-CGT
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * *
26320 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTAATATAAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
26385 TGCCCCCGA
131 TGCCCCCGA
* * *** *
26394 GGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGACACGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
*
26459 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATTAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
26524 TGCCCCCGA
131 TGCCCCCGA
*
26533 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGGTGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTG-CCC
* * *
26598 CCCCAGAAATGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACGTAATAGGTACTGACATGAATA
65 CCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATA
26663 GTGCCCCCGA
130 GTGCCCCCGA
* * * *
26673 GGGACATGAGTGACATAATAGGGCAATTATAACATATTATCTGACAAAATAATGGAGGGTGCGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * *
26738 CCCGGAAACGCGCTTTGACCACTTTGCCAAGTCCCCTTAAACATAATAGGTACTAACATGAATAG
66 CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
26803 TGCCCCCGA
131 TGCCCCCGA
* *
26812 GGGACATGAGTGACATAATAGGACAATGGTAACATATTCTCTGACAAAATAATGGAAG
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAG
26870 TCACACCTCC
Statistics
Matches: 683, Mismatches: 66, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
137 61 0.09
138 124 0.18
139 313 0.46
140 131 0.19
141 54 0.08
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (139 bp):
GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
CCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAG
TGCCCCCGA
Found at i:26707 original size:279 final size:279
Alignment explanation
Indices: 25977--26869 Score: 1360
Period size: 279 Copynumber: 3.2 Consensus size: 279
25967 TGTGTCTCCG
* * * * * * * * *
25977 GGGACATGACTCACATGATAGGGAAATTATAACATATTCTCTGACATAACAATCGAATGTGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * * * *
26042 TCTCCGGGAACACGCTTTCACCACTTTGCTATGTCCCCTCAAACATAATAGGTACTGACATGAAT
66 -CCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAAT
26107 AGTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATG
130 AGTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATG
* * *
26172 GAAGGTGCACCCCCGAAAACACGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACT
195 GAAGGTGCGCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACT
*
26237 GGCATGAATAGTG-CCCCGA
260 GACATGAATAGTGCCCCCGA
* * * *
26256 GGGACATAAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAA-G-GCGCG
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * * *
26319 TCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTAATATAAATA
66 CCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATA
* * *
26384 GTGCCCCCGAGGGACATGAGTGACATAATATGGCAATGATAACATATTCTCTGAAAAAATAATGG
131 GTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGG
***
26449 AAGACACGCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTG
196 AAGGTGCGCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTG
*
26514 ACATTAATAGTGCCCCCGA
261 ACATGAATAGTGCCCCCGA
*
26533 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAAAAAATAATGGAAGGTGCCCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
* * *
26598 CCCCAGAAATGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACGTAATAGGTACTGACATGAATA
66 CCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATA
*
26663 GTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATTATAACATATTATCTGACAAAATAATGG
131 GTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGG
* * * *
26728 AGGGTGCGCCCCCGGAAACGCGCTTTGACCACTTTGCCAAGTCCCCTTAAACATAATAGGTACTA
196 AAGGTGCGCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTG
26793 ACATGAATAGTGCCCCCGA
261 ACATGAATAGTGCCCCCGA
* *
26812 GGGACATGAGTGACATAATAGGACAATGGTAACATATTCTCTGACAAAATAATGGAAG
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAG
26870 TCACACCTCC
Statistics
Matches: 552, Mismatches: 59, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
276 187 0.34
277 63 0.11
278 2 0.00
279 300 0.54
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (279 bp):
GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGTGCCCC
CCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATA
GTGCCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAATGG
AAGGTGCGCCCCCGGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTG
ACATGAATAGTGCCCCCGA
Found at i:31803 original size:20 final size:19
Alignment explanation
Indices: 31774--31827 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
31764 AAAAATAAAA
31774 AATT-AATAATTAATAATTT
1 AATTAAATAATTAA-AATTT
31793 AATTAAATAATATAAAATTT
1 AATTAAATAAT-TAAAATTT
* *
31813 CATTAAATTATTAAA
1 AATTAAATAATTAAA
31828 TTTGAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 20 0.65
21 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAATAATTAAAATTT
Found at i:32501 original size:26 final size:25
Alignment explanation
Indices: 32472--32525 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
32462 CATAAATTTT
* *
32472 ATACTTAAACCCTAAACCTCTAAATC
1 ATACTCAAACCCTAAACC-CAAAATC
* *
32498 ATACTCAATCCTTAAACCCAAAATC
1 ATACTCAAACCCTAAACCCAAAATC
32523 ATA
1 ATA
32526 TCCCCACTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (25 bp):
ATACTCAAACCCTAAACCCAAAATC
Found at i:34945 original size:186 final size:186
Alignment explanation
Indices: 34631--35004 Score: 748
Period size: 186 Copynumber: 2.0 Consensus size: 186
34621 AAATTAACGA
34631 GTTGCTCGCGAACTTATCAAGTCGAGCTGGACTTTGCTCAAATCAACTTGTTAAGGTCTCGAATC
1 GTTGCTCGCGAACTTATCAAGTCGAGCTGGACTTTGCTCAAATCAACTTGTTAAGGTCTCGAATC
34696 GAGTCATCTCAAGTCAAGTTTTTATCGAGCTTTGATCAAGTCGAGTTCGAGCTGTTCACGAGCTA
66 GAGTCATCTCAAGTCAAGTTTTTATCGAGCTTTGATCAAGTCGAGTTCGAGCTGTTCACGAGCTA
34761 CTCAACTCATATTTGATTATATTTCTAATAGAAAAATTCTACAACTCTCGTTGAGC
131 CTCAACTCATATTTGATTATATTTCTAATAGAAAAATTCTACAACTCTCGTTGAGC
34817 GTTGCTCGCGAACTTATCAAGTCGAGCTGGACTTTGCTCAAATCAACTTGTTAAGGTCTCGAATC
1 GTTGCTCGCGAACTTATCAAGTCGAGCTGGACTTTGCTCAAATCAACTTGTTAAGGTCTCGAATC
34882 GAGTCATCTCAAGTCAAGTTTTTATCGAGCTTTGATCAAGTCGAGTTCGAGCTGTTCACGAGCTA
66 GAGTCATCTCAAGTCAAGTTTTTATCGAGCTTTGATCAAGTCGAGTTCGAGCTGTTCACGAGCTA
34947 CTCAACTCATATTTGATTATATTTCTAATAGAAAAATTCTACAACTCTCGTTGAGC
131 CTCAACTCATATTTGATTATATTTCTAATAGAAAAATTCTACAACTCTCGTTGAGC
35003 GT
1 GT
35005 GGATGAGCAC
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 188 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (186 bp):
GTTGCTCGCGAACTTATCAAGTCGAGCTGGACTTTGCTCAAATCAACTTGTTAAGGTCTCGAATC
GAGTCATCTCAAGTCAAGTTTTTATCGAGCTTTGATCAAGTCGAGTTCGAGCTGTTCACGAGCTA
CTCAACTCATATTTGATTATATTTCTAATAGAAAAATTCTACAACTCTCGTTGAGC
Found at i:35027 original size:16 final size:16
Alignment explanation
Indices: 35006--35036 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34996 GTTGAGCGTG
35006 GATGAGCACCGTTAAC
1 GATGAGCACCGTTAAC
35022 GATGAGCACCGTTAA
1 GATGAGCACCGTTAA
35037 ATTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (16 bp):
GATGAGCACCGTTAAC
Found at i:36207 original size:3 final size:3
Alignment explanation
Indices: 36185--36243 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
36175 ATATTATAAA
* *
36185 TAT TAAT TA- TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
36230 TAA TATT TAT TAT T
1 TAT TA-T TAT TAT T
36244 TTACATTTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:36545 original size:18 final size:18
Alignment explanation
Indices: 36522--36557 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36512 GGTGGAGAGA
*
36522 AAAGAAATAAAAAGAGGG
1 AAAGAAAGAAAAAGAGGG
*
36540 AAAGAAAGAAAGAGAGGG
1 AAAGAAAGAAAAAGAGGG
36558 GGGTGGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAAAAGAGGG
Found at i:44994 original size:9 final size:9
Alignment explanation
Indices: 44973--45070 Score: 80
Period size: 9 Copynumber: 10.8 Consensus size: 9
44963 TTAAAGATAA
44973 AAAAAAATG
1 AAAAAAATG
44982 --AAAAATG
1 AAAAAAATG
44989 AAAAAAATG
1 AAAAAAATG
44998 AAAAAAATG
1 AAAAAAATG
45007 AAAAAAATAG
1 AAAAAAAT-G
45017 AAAAATAAAAT-
1 --AAA-AAAATG
*
45028 AGAAAAAT-
1 AAAAAAATG
45036 AGAAAAAATG
1 A-AAAAAATG
*
45046 GAAAAAAT-
1 AAAAAAATG
*
45054 AAAAAAAAG
1 AAAAAAATG
45063 AAGAAAAA
1 AA-AAAAA
45071 AAGAAGAAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
7 7 0.09
8 12 0.16
9 41 0.55
10 6 0.08
12 3 0.04
13 5 0.07
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:45028 original size:13 final size:13
Alignment explanation
Indices: 45010--45036 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45000 AAAAATGAAA
45010 AAAATAGAAAAAT
1 AAAATAGAAAAAT
45023 AAAATAGAAAAAT
1 AAAATAGAAAAAT
45036 A
1 A
45037 GAAAAAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAATAGAAAAAT
Found at i:45042 original size:30 final size:31
Alignment explanation
Indices: 45000--45072 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
44990 AAAAAATGAA
45000 AAAAATGAAAAAAATAG-AAAAATAAAATAG
1 AAAAATGAAAAAAATAGAAAAAATAAAATAG
*
45030 AAAAAT-AGAAAAAATGGAAAAAATAAAA-A-
1 AAAAATGA-AAAAAATAGAAAAAATAAAATAG
45059 AAAGAA-GAAAAAAA
1 AAA-AATGAAAAAAA
45073 GAAGAAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 10 0.26
30 18 0.47
31 10 0.26
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.10
Consensus pattern (31 bp):
AAAAATGAAAAAAATAGAAAAAATAAAATAG
Found at i:45045 original size:39 final size:37
Alignment explanation
Indices: 44974--45098 Score: 121
Period size: 39 Copynumber: 3.3 Consensus size: 37
44964 TAAAGATAAA
*
44974 AAAAAATGAAAAATGAAAAAAATGAAAAAAATGAAAAAAAT
1 AAAAAAT-AAAAA-GAAAAATA-G-AAAAAATGAAAAAAAT
*
45015 AGAAAAATAAAATAGAAAAATAGAAAAAATGGAAAAAAT
1 A-AAAAATAAAA-AGAAAAATAGAAAAAATGAAAAAAAT
* * * *
45054 AAAAAA-AAGAAGAAAAAAAG-AAGAA-GAAAAAAAC
1 AAAAAATAAAAAGAAAAATAGAAAAAATGAAAAAAAT
45088 AAAAAATAAAA
1 AAAAAATAAAA
45099 GGGGGGTTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 13 0.18
35 7 0.10
36 9 0.12
37 3 0.04
38 5 0.07
39 16 0.22
40 1 0.01
41 12 0.16
42 7 0.10
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (37 bp):
AAAAAATAAAAAGAAAAATAGAAAAAATGAAAAAAAT
Found at i:45060 original size:8 final size:8
Alignment explanation
Indices: 44973--45098 Score: 68
Period size: 9 Copynumber: 15.5 Consensus size: 8
44963 TTAAAGATAA
44973 AAAAAAAT
1 AAAAAAAT
*
44981 -GAAAAAT
1 AAAAAAAT
44988 GAAAAAAAT
1 -AAAAAAAT
44997 GAAAAAAAT
1 -AAAAAAAT
45006 GAAAAAAAT
1 -AAAAAAAT
*
45015 AGAAAAAT
1 AAAAAAAT
45023 ---AAAAT
1 AAAAAAAT
*
45028 AGAAAAAT
1 AAAAAAAT
45036 AGAAAAAAT
1 A-AAAAAAT
*
45045 GGAAAAAAT
1 -AAAAAAAT
45054 AAAAAAA-
1 AAAAAAAT
45061 AGAAGAAAA-
1 A-AA-AAAAT
*
45070 AAAGAAGAAG
1 AAA-AA-AAT
45080 AAAAAAA-
1 AAAAAAAT
*
45087 CAAAAAAT
1 AAAAAAAT
45095 AAAA
1 AAAA
45099 GGGGGGTTCA
Statistics
Matches: 98, Mismatches: 8, Indels: 24
0.75 0.06 0.18
Matches are distributed among these distances:
5 5 0.05
7 13 0.13
8 31 0.32
9 46 0.47
10 3 0.03
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:45071 original size:14 final size:14
Alignment explanation
Indices: 45054--45086 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
45044 TGGAAAAAAT
45054 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
*
45068 AAAAAGAAGAAGAA
1 AAAAAAAAGAAGAA
45082 AAAAA
1 AAAAA
45087 CAAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:45098 original size:14 final size:13
Alignment explanation
Indices: 44965--45098 Score: 54
Period size: 16 Copynumber: 9.1 Consensus size: 13
44955 GGTTTTGCTT
*
44965 AAAGATAAAAAAA
1 AAAGAAAAAAAAA
*
44978 AATGAAAAATGAAAA
1 AAAGAAAAA--AAAA
44993 AAATGAAAAAAATGAA
1 AAA-GAAAAAAA--AA
*
45009 AAAAATAGAAAAATAA
1 AAAGA-A-AAAAA-AA
45025 AATAGAAAAATAGAAA
1 AA-AGAAAAA-A-AAA
45041 AAATGGAAAAAATAAA
1 AAA--GAAAAAA-AAA
*
45057 AAA-AAGAAGAAAA
1 AAAGAA-AAAAAAA
*
45070 AAAGAAGAAGAAAA
1 AAAGAA-AAAAAAA
*
45084 AAACAAAAAATAAA
1 AAAGAAAAAA-AAA
45098 A
1 A
45099 GGGGGGTTCA
Statistics
Matches: 96, Mismatches: 10, Indels: 29
0.71 0.07 0.21
Matches are distributed among these distances:
13 18 0.19
14 24 0.25
15 11 0.11
16 29 0.30
17 14 0.15
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:46285 original size:55 final size:55
Alignment explanation
Indices: 46201--46356 Score: 244
Period size: 55 Copynumber: 2.8 Consensus size: 55
46191 TGAAGCAAAA
46201 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTT
* * * *
46256 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATA-GAAGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGA-GCAGACACGATCGTT
46311 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGTGG-GCAGAC
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAG-GGAGCAGAC
46357 CCGTAAGAAG
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
54 2 0.02
55 89 0.97
57 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTT
Found at i:46419 original size:52 final size:52
Alignment explanation
Indices: 46336--46917 Score: 948
Period size: 52 Copynumber: 11.2 Consensus size: 52
46326 CTTATACTCT
* *
46336 CTGAAGAAATAGTGGGCAGACCCGTAAGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAA-ATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* *
46389 CTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
46441 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
*
46493 TTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* *
46545 CTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
46597 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* * *
46649 TTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTTTTTGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* * * *
46701 CTGAAGAAAATTGGACAGTCTCATAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* *
46753 CTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* *
46805 CTGAAGAAAATTGGACAGACCCGTAGAAAGATTATTGTTCGAGTTCTAGTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
* * * * *
46857 CTGAAGAAAATTGGACAGTCTCGTAGGAAGATTATCGTTCGAGTTCTACTCC
1 CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
46909 CTGAAGAAA
1 CTGAAGAAA
46918 TAGAGAGTGA
Statistics
Matches: 496, Mismatches: 33, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
52 487 0.98
53 9 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (52 bp):
CTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCC
Found at i:47000 original size:55 final size:53
Alignment explanation
Indices: 46311--46988 Score: 217
Period size: 52 Copynumber: 12.9 Consensus size: 53
46301 CGCGATTGTT
* * * * * * *
46311 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGTGGGCAGACCCGTAAGAA
1 GAAGATTGTTCGAG--TTCTACTCCCTGAAGAAAAAGAGAGCAAACCCGTAAAAA
** * * ** * **
46366 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GCAGTCTCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * **
46418 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GCAGACCCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * * **
46470 GATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTG-G-GCAGACCCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * ** * **
46522 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GCAGTCTCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * **
46574 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GCAGACCCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * * **
46626 GATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTG-G-GCAGACCCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * * ** * * **
46678 GATTATTTTTTGAGTTCTAGTCCCTGAAGAAAATTG-GA-CAGTCTCATAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * ** * **
46730 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GCAGTCTCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * * *
46782 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-GA-CAGACCCGTAGAAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * ** * **
46834 GATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-GA-CAGTCTCGTAGGAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCAAACCCGTAAAAA
** * * **
46886 GATTATCGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGTGAACCCGTAAAAA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCAAACCCGTAAAAA
46939 GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGAGAGCAAACCCGT
1 GAAGATTGTTCGAGTTC--TACTCCCTGAAGAAAAAGAGAGCAAACCCGT
46989 TTGCAGAAGA
Statistics
Matches: 564, Mismatches: 51, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
51 1 0.00
52 485 0.86
53 37 0.07
54 1 0.00
55 40 0.07
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (53 bp):
GAAGATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCAAACCCGTAAAAA
Found at i:47210 original size:3 final size:3
Alignment explanation
Indices: 47185--47242 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
47175 ATATTATAAA
* *
47185 TAT TAAT TA- TAT TGT TA- TAT TAT TAT TAT TAT TAT TAT TAA TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
47229 TAA TATT TAT TAT T
1 TAT TA-T TAT TAT T
47243 TTACATTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:53895 original size:35 final size:34
Alignment explanation
Indices: 53856--53971 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 34
53846 TATGAGGAAC
53856 CATGATGCTTCACCAAGAGATGATTATGT-AAAGAA
1 CATGAT-CTTCACCAAGAGATGATTAT-TCAAAGAA
* * *
53891 CATGATTCTTCACCAAGAGATGCTTCTTCAAAGGA
1 CATGA-TCTTCACCAAGAGATGATTATTCAAAGAA
* *
53926 CATGATCTTTCACCAAGAGATGCTTCTTCAAA-AGA
1 CATGATC-TTCACCAAGAGATGATTATTCAAAGA-A
53961 CATGATGCTTC
1 CATGAT-CTTC
53972 TCCATAGGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
34 3 0.04
35 67 0.93
36 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (34 bp):
CATGATCTTCACCAAGAGATGATTATTCAAAGAA
Found at i:53969 original size:20 final size:20
Alignment explanation
Indices: 53909--53987 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
53899 TTCACCAAGA
*
53909 GATGCTTCTTCAAAGGACAT
1 GATGCTTCTTCAAAAGACAT
*
53929 GAT-C-T-TTCACCAAG--A-
1 GATGCTTCTTCA-AAAGACAT
53944 GATGCTTCTTCAAAAGACAT
1 GATGCTTCTTCAAAAGACAT
* * *
53964 GATGCTTCTCCATAGGACAT
1 GATGCTTCTTCAAAAGACAT
53984 GATG
1 GATG
53988 TTCCACCAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.07
16 2 0.04
17 8 0.17
18 7 0.15
19 2 0.04
20 24 0.52
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (20 bp):
GATGCTTCTTCAAAAGACAT
Found at i:53981 original size:55 final size:55
Alignment explanation
Indices: 53909--54031 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 55
53899 TTCACCAAGA
* * *
53909 GATGCTTCTTCAAAGGACATGATCTTTCACCAAGAGATGCTTCTTCAAAAGACAT
1 GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
* * *
53964 GATGCTTCTCCATAGGACATGATGTTCCACCAAGAGATGTTTCTTCAAAGGACAT
1 GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
* *
54019 GATTCTTCACCAT
1 GATGCTTCTCCAT
54032 GAGGTGATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (55 bp):
GATGCTTCTCCATAGGACATGATCTTCCACCAAGAGATGCTTCTTCAAAAGACAT
Found at i:54030 original size:35 final size:34
Alignment explanation
Indices: 53977--54138 Score: 141
Period size: 35 Copynumber: 4.7 Consensus size: 34
53967 GCTTCTCCAT
*
53977 AGGACATGATGT-TCCACCAAGAGATGTTTCTTCAA
1 AGGACATGAT-TCTTCACCAAGAGATGTTT-TTCAA
* * * *
54012 AGGACATGATTCTTCACCATGAGGTGATTCTCCAA
1 AGGACATGATTCTTCACCAAGAGATG-TTTTTCAA
* *
54047 AGGGCATGATGCTTCACCAAGAGATG-TTTTCAAA
1 AGGACATGATTCTTCACCAAGAGATGTTTTTC-AA
* * * * *
54081 AAGATATGATGCTTCACCAAGAGATGTCTTTCGA
1 AGGACATGATTCTTCACCAAGAGATGTTTTTCAA
54115 AGAGACATGATGT-TTCACCAAGAG
1 AG-GACATGAT-TCTTCACCAAGAG
54139 GTTCCTTCTA
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
33 3 0.03
34 28 0.27
35 69 0.68
36 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (34 bp):
AGGACATGATTCTTCACCAAGAGATGTTTTTCAA
Found at i:54102 original size:18 final size:18
Alignment explanation
Indices: 53857--54106 Score: 87
Period size: 18 Copynumber: 14.2 Consensus size: 18
53847 ATGAGGAACC
53857 ATGATGCTTCACCAAGAG
1 ATGATGCTTCACCAAGAG
** *
53875 ATGATTATGT-A--AAGAAC
1 ATGATGCT-TCACCAAG-AG
*
53892 ATGATTCTTCACCAAGAG
1 ATGATGCTTCACCAAGAG
* * *
53910 ATGCTTCTTCA--AAGGAC
1 ATGATGCTTCACCAA-GAG
53927 ATGAT-CTTTCACCAAGAG
1 ATGATGC-TTCACCAAGAG
* * * *
53945 ATGCTTCTTCA-AAAGAC
1 ATGATGCTTCACCAAGAG
* *
53962 ATGATGCTTCTCCATAGGAC
1 ATGATGCTTCACCA-A-GAG
53982 ATGATG-TTCCACCAAGAG
1 ATGATGCTT-CACCAAGAG
* * *
54000 ATGTTTCTTCA--AAGGAC
1 ATGATGCTTCACCAA-GAG
* *
54017 ATGATTCTTCACCATGAG
1 ATGATGCTTCACCAAGAG
* * * *
54035 GTGATTC-TC-CAAAGGG
1 ATGATGCTTCACCAAGAG
54051 CATGATGCTTCACCAAGAG
1 -ATGATGCTTCACCAAGAG
* ** *
54070 ATG-T-TTTCAAAAAGAT
1 ATGATGCTTCACCAAGAG
54086 ATGATGCTTCACCAAGAG
1 ATGATGCTTCACCAAGAG
54104 ATG
1 ATG
54107 TCTTTCGAAG
Statistics
Matches: 169, Mismatches: 40, Indels: 46
0.66 0.16 0.18
Matches are distributed among these distances:
16 24 0.14
17 52 0.31
18 61 0.36
19 19 0.11
20 13 0.08
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (18 bp):
ATGATGCTTCACCAAGAG
Found at i:54132 original size:69 final size:70
Alignment explanation
Indices: 53964--54138 Score: 187
Period size: 69 Copynumber: 2.5 Consensus size: 70
53954 CAAAAGACAT
* * * * *
53964 GATGCTTCTCCATAGGACATGATGTTCCACCAAGAGATGTTTCTTCAAAGGACATGATTCTTCAC
1 GATGATTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTCAAAAGACATGATGCTTCAC
*
54029 CATGA
66 CAAGA
* * * *
54034 GGTGATTCTCCAAAGGGCATGATGCTTCACCAAGAGATG-TT-TTCAAAAAGATATGATGCTTCA
1 GATGATTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTC-AAAAGACATGATGCTTCA
54097 CCAAGA
65 CCAAGA
* *
54103 GATG--TCTTTCGAAGAGACATGATGTTTCACCAAGAG
1 GATGATTC-TCCAAAG-GACATGATGTTTCACCAAGAG
54139 GTTCCTTCTA
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
67 2 0.02
68 8 0.09
69 44 0.51
70 33 0.38
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (70 bp):
GATGATTCTCCAAAGGACATGATGTTTCACCAAGAGATGTTTCTTCAAAAGACATGATGCTTCAC
CAAGA
Found at i:54624 original size:3 final size:3
Alignment explanation
Indices: 54616--54703 Score: 126
Period size: 3 Copynumber: 29.3 Consensus size: 3
54606 ATTTCTTTGA
* *
54616 TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT CT-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
54661 TAT TAT TAT TAT TAT TAT TAT TAT CT-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
54704 TTCAGGTTAC
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 73 0.95
4 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:56396 original size:24 final size:26
Alignment explanation
Indices: 56344--56405 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
56334 CATAATGTTT
* *
56344 TGTTGTTTTATTTTAGTCTATTTGCA
1 TGTTGTTTTATTTCAATCTATTTGCA
56370 TGTTGTTTTATTTCAAT-T-TTTGCA
1 TGTTGTTTTATTTCAATCTATTTGCA
56394 TGTTGATTTTAT
1 TGTTG-TTTTAT
56406 GTTATGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 11 0.33
25 7 0.21
26 15 0.45
ACGTcount: A:0.16, C:0.06, G:0.15, T:0.63
Consensus pattern (26 bp):
TGTTGTTTTATTTCAATCTATTTGCA
Found at i:58634 original size:20 final size:19
Alignment explanation
Indices: 58579--58634 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
58569 ACCTATTCAA
*
58579 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCATGAG
* *
58598 GGGAGTATCGATGCCATGAG
1 GTG-GTATCGATACCATGAG
58618 GATGGTATCGATACCAT
1 G-TGGTATCGATACCAT
58635 TGATCATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (19 bp):
GTGGTATCGATACCATGAG
Found at i:59123 original size:55 final size:55
Alignment explanation
Indices: 59028--59250 Score: 322
Period size: 55 Copynumber: 4.0 Consensus size: 55
59018 ATTACCAAAT
* * * *
59028 GGCACTAAGCGTGCAAAAACTTAAGAAATCCATACCAAGTGTATGAATTTTGGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* *
59085 GGCACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* * *
59140 GGCACTATGTGTGTAAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
* *
59195 GGCACTATGTGTGC-AAACTAAGAAATCCATACTAAGTGTATTAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
59249 GG
1 GG
59251 AAATATATGT
Statistics
Matches: 152, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
54 38 0.25
55 98 0.64
56 5 0.03
57 11 0.07
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATG
Found at i:59280 original size:109 final size:110
Alignment explanation
Indices: 59043--59261 Score: 323
Period size: 109 Copynumber: 2.0 Consensus size: 110
59033 TAAGCGTGCA
* * * * *
59043 AAAACTTAAGAAATCCATACCAAGTGTATGAATTTTGGTATGGGCACTTTGTGTGCAAAACTAAG
1 AAAAC-TAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGCAAAACTAAG
* * * *
59108 AAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGT
65 AAATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTGT
59154 AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGC-AAACTAAGA
1 AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGCAAAACTAAGA
* *
59218 AATCCATACTAAGTGTATTAATTTTTGTATGGGAAATATATGTG
66 AATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTG
59262 AAATTATCAG
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 47 0.48
110 45 0.46
111 5 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (110 bp):
AAAACTAAAAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGCAAAACTAAGA
AATCCATACTAAGTGTATGAATTTTCGTATGGGAAATATATGTGT
Found at i:59539 original size:68 final size:68
Alignment explanation
Indices: 59461--59919 Score: 785
Period size: 68 Copynumber: 6.8 Consensus size: 68
59451 AAAGATTAAT
* * *
59461 AGGCATAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59526 TTG
66 TTG
*
59529 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59594 TTG
66 TTG
* *
59597 AGGCCTAACTTTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59662 TTG
66 TTG
* *
59665 AGGCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59730 TTG
66 TTG
* *
59733 AGGCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGGTGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59798 TTG
66 TTG
* *
59801 AGGCCTAACTGTGCATTTGAAAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
59866 TTG
66 TTG
* *
59869 AGGCCTAACTGTGCATTTGACACAAAGGTGTCAATTATGTC-GTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
59920 CGGTTAAAGA
Statistics
Matches: 371, Mismatches: 20, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
67 10 0.03
68 361 0.97
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:60023 original size:81 final size:81
Alignment explanation
Indices: 59870--60106 Score: 291
Period size: 81 Copynumber: 2.9 Consensus size: 81
59860 GTGCCTTTGA
* * * * *
59870 GGCCTAACTGTGCATTTGACACAAAGGTGTCAATTATGTC-GTTAGATGAACGGTTAAAGACCGT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAACAT
59934 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* *
59950 GGCCTAGCTATGCATTTGCCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAACAT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAACAT
*
60015 TGAGTAAAATATAAAT
66 TGAGTAAAAGATAAAT
** * * * * *
60031 GGCCTAGCTGTGCATTTGGTAGACAA-GTGTCAATCATGCAACTTAGATGAAAGGTTAAA-TACA
1 GGCCTAGCTGTGCATTTGACAGA-AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAACA
*
60094 TTTTAGTAAAAGA
65 -TTGAGTAAAAGA
60107 CTAGATGTAT
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 38 0.28
81 96 0.71
82 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGAACAT
TGAGTAAAAGATAAAT
Found at i:60257 original size:46 final size:45
Alignment explanation
Indices: 60132--60350 Score: 287
Period size: 45 Copynumber: 4.8 Consensus size: 45
60122 TGTATAACGT
* * *
60132 TGTATAAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAG
1 TGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * * *
60177 TGTATAAAATGCATGAAATGATGCCATAACTGAAATGTATATTAG
1 TGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
*
60222 TGTATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATAATAG
1 TGTAT-AAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
*
60268 CT-TATAAAAGGCATGAAAGGATGCCATAAATGAAACGTATAATAG
1 -TGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * **
60313 TATATAAAAAGGCATGAAAGAATATCATAAATGAAATG
1 TGTAT-AAAAGGCATGAAAGGATGCCATAAATGAAATG
60351 CATATGGGTG
Statistics
Matches: 154, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 86 0.56
46 66 0.43
47 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
Found at i:60274 original size:91 final size:90
Alignment explanation
Indices: 60132--60350 Score: 298
Period size: 91 Copynumber: 2.4 Consensus size: 90
60122 TGTATAACGT
* * * *
60132 TGTAT-AAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAGTGTATAAAATGCATGAAAT
1 TGTATAAAAAGGCATGAAAGGATGC-ATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAG
* * *
60196 GATGCCATAACTGAAATGTATATTAG
65 GATGCCATAAATGAAACGTATAATAG
60222 TGTATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATAATAGCT-TATAAAAGGCATGAAA
1 TGTATAAAAAGGCATGAAAGGATGC-ATAAATGAAATGTATAATAG-TGTATAAAAGGCATGAAA
60286 GGATGCCATAAATGAAACGTATAATAG
64 GGATGCCATAAATGAAACGTATAATAG
* * *
60313 TATATAAAAAGGCATGAAAGAATATCATAAATGAAATG
1 TGTATAAAAAGGCATGAAAGGAT-GCATAAATGAAATG
60351 CATATGGGTG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
90 5 0.04
91 108 0.94
92 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (90 bp):
TGTATAAAAAGGCATGAAAGGATGCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGG
ATGCCATAAATGAAACGTATAATAG
Found at i:60378 original size:91 final size:90
Alignment explanation
Indices: 60187--60483 Score: 274
Period size: 91 Copynumber: 3.3 Consensus size: 90
60177 TGTATAAAAT
* * * *
60187 GCATGAAATGATGCCATAACTGAAATGTATATTAGTGTATAAAAAGGCATGAAAGGATGCGATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAATTC-ATAA
* * * * * *
60252 ATGAAATGTATAATAGCT-TATAAAAG
65 ATGAAATGCAT-ATGGGTGCATTATAG
* * *
60278 GCATGAAAGGATGCCATAAATGAAACGTATAATAGTATATAAAAAGGCATGAAAGAATATCATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAAT-TCATAA
*
60343 ATGAAATGCATATGGGTGCATTATCG
65 ATGAAATGCATATGGGTGCATTATAG
** * * * * * ** * * *
60369 GCACAAAAGGATGCCATAATTGAAATGCATATTGGTGCAT-TATCGGTATAAAATAATTTCATAA
1 GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAA-TTCATAA
* * *
60433 TTGAAATGCATATGAGTGCATTATTG
65 ATGAAATGCATATGGGTGCATTATAG
*
60459 GCATGAAAGAATGCCATAAATGAAA
1 GCATGAAAGGATGCCATAAATGAAA
60484 ATGCATAACG
Statistics
Matches: 167, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
90 64 0.38
91 102 0.61
92 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (90 bp):
GCATGAAAGGATGCCATAAATGAAATGTATATTAGTGTATAAAAAGGCATGAAAGAATTCATAAA
TGAAATGCATATGGGTGCATTATAG
Found at i:60378 original size:136 final size:136
Alignment explanation
Indices: 60134--60395 Score: 312
Period size: 136 Copynumber: 1.9 Consensus size: 136
60124 TATAACGTTG
* ** * *
60134 TATAAAAGGCATGAAATGATGCAATAAATGAAGTGTATAATAGTGTATAAAATGCATGAAATGAT
1 TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATATAAAAGGCATGAAATGAT
* * * * * ** *
60199 GCCATAACTGAAATGTATATTAGTGTATAAAAAGGCATGAAAGGATGCGATAAATGAAATGTATA
66 ACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATGTATA
60264 ATAGCT
131 ATAGCT
*
60270 TATAAAAGGCATGAAAGGATGCCATAAATGAAACGTATAATAGTATATAAAAAGGCATGAAA-GA
1 TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATAT-AAAAGGCATGAAATG-
* * * ** *
60334 ATATCATAAATGAAATGCATATGGGTGCAT-TATCGGCACAAAAGGATGCCATAATTGAAATG
64 ATACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATG
60396 CATATTGGTG
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
136 69 0.66
137 35 0.34
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (136 bp):
TATAAAAGGCATGAAAGGATGCAATAAATGAAACGTATAATAGTATATAAAAGGCATGAAATGAT
ACCATAAATGAAATGCATATGAGTGCATAAAAAGGCACAAAAGGATGCCATAAATGAAATGTATA
ATAGCT
Found at i:60406 original size:45 final size:45
Alignment explanation
Indices: 60323--60490 Score: 185
Period size: 45 Copynumber: 3.7 Consensus size: 45
60313 TATATAAAAA
* ** *
60323 GGCATGAAAGAATATCATAAATGAAATGCATATGGGTGCATTATC
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
* * *
60368 GGCACAAAAGGATGCCATAATTGAAATGCATATTGGTGCATTATC
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
* * ** * *
60413 GGTATAAAATAATTTCATAATTGAAATGCATA-TGAGTGCATTATT
1 GGCATAAAAGAATGCCATAAATGAAATGCATATTG-GTGCATTATC
*
60458 GGCATGAAAGAATGCCATAAATGAAAATGCATA
1 GGCATAAAAGAATGCCATAAATG-AAATGCATA
60491 ACGGTACATT
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
44 2 0.02
45 90 0.89
46 9 0.09
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCATAAAAGAATGCCATAAATGAAATGCATATTGGTGCATTATC
Found at i:62797 original size:41 final size:41
Alignment explanation
Indices: 62730--62811 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
62720 TCAGACACAC
62730 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
1 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
* *
62771 CCATCATGTATTTTAGCGGATCTAACTTGAAAATCAACTAA
1 CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
62812 GTGGTGTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (41 bp):
CCATCATGTATTTTAGAGGATATAACTTGAAAATCAACTAA
Found at i:64360 original size:17 final size:17
Alignment explanation
Indices: 64313--64360 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
64303 AGTATCCCAT
*
64313 ATGAAATGATGAAATTAA
1 ATGAAATGATG-AATAAA
*
64331 ATTAAAT-ATGAATAAA
1 ATGAAATGATGAATAAA
*
64347 ATGAAATGAAGAAT
1 ATGAAATGATGAAT
64361 GAAGAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (17 bp):
ATGAAATGATGAATAAA
Done.