Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 100 of 208
Found at i:33766109 original size:27 final size:27
Alignment explanation
Indices: 33766079--33766132 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33766069 CTAGGAATTA
33766079 CTTAGCTAAATAGGGAAATGGGCTGGG
1 CTTAGCTAAATAGGGAAATGGGCTGGG
33766106 CTTAGCTAAATAGGGAAATGGGCTGGG
1 CTTAGCTAAATAGGGAAATGGGCTGGG
33766133 TGGAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.37, T:0.22
Consensus pattern (27 bp):
CTTAGCTAAATAGGGAAATGGGCTGGG
Found at i:33774493 original size:29 final size:29
Alignment explanation
Indices: 33774459--33774515 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33774449 TAATCTAATG
*
33774459 TGTAATGTTATATATAAAATTTAATTTTA
1 TGTAATGTTATAAATAAAATTTAATTTTA
* *
33774488 TGTAATTTTATAAATAAAATTTTATTTT
1 TGTAATGTTATAAATAAAATTTAATTTT
33774516 GATTGGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
TGTAATGTTATAAATAAAATTTAATTTTA
Found at i:33779313 original size:112 final size:112
Alignment explanation
Indices: 33779116--33779330 Score: 412
Period size: 112 Copynumber: 1.9 Consensus size: 112
33779106 GCAACGCGTA
*
33779116 TTTACTCCCCCTCATGAAAACATCACATATTTTCTCATATTCTACATATTCAATCTTGAATACTA
1 TTTACTCCCCCTCATGAAAACATCACATATTTTCTCATATTCTACATATCCAATCTTGAATACTA
33779181 GCTTTTCAAATGACTATTTGAATGTATTTGATAAGCATGCACTCGTG
66 GCTTTTCAAATGACTATTTGAATGTATTTGATAAGCATGCACTCGTG
*
33779228 TTTACTCCCTCTCATGAAAACATCACATATTTTCTCATATTCTACATATCCAATCTTGAATACTA
1 TTTACTCCCCCTCATGAAAACATCACATATTTTCTCATATTCTACATATCCAATCTTGAATACTA
33779293 GCTTTTCAAATGACTATTTGAATGTATTTGATAAGCAT
66 GCTTTTCAAATGACTATTTGAATGTATTTGATAAGCAT
33779331 TTTATATTAT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (112 bp):
TTTACTCCCCCTCATGAAAACATCACATATTTTCTCATATTCTACATATCCAATCTTGAATACTA
GCTTTTCAAATGACTATTTGAATGTATTTGATAAGCATGCACTCGTG
Found at i:33784715 original size:28 final size:28
Alignment explanation
Indices: 33784682--33784747 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
33784672 TTATGCTTTC
33784682 TTAAAAATTTTAAATAATTTTT-AATTT
1 TTAAAAATTTTAAATAATTTTTGAATTT
* *
33784709 TTAAAAATATTAAATATTTTTTGAATTT
1 TTAAAAATTTTAAATAATTTTTGAATTT
*
33784737 TTAAAAGTTTT
1 TTAAAAATTTT
33784748 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTAAAAATTTTAAATAATTTTTGAATTT
Found at i:33785390 original size:20 final size:20
Alignment explanation
Indices: 33785365--33785407 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
33785355 TTTAAGAGTG
33785365 TTTGCTAAGACCCACCCCTC
1 TTTGCTAAGACCCACCCCTC
33785385 TTTGCTAAGACCCACCCCTC
1 TTTGCTAAGACCCACCCCTC
33785405 TTT
1 TTT
33785408 CTTGGTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.42, G:0.09, T:0.30
Consensus pattern (20 bp):
TTTGCTAAGACCCACCCCTC
Found at i:33786551 original size:22 final size:22
Alignment explanation
Indices: 33786501--33786544 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33786491 ATAAAATATG
33786501 GATACTTGGCTAAAAAGGTATC
1 GATACTTGGCTAAAAAGGTATC
33786523 GATACTTGGCTAAAAAGGTATC
1 GATACTTGGCTAAAAAGGTATC
33786545 TGTACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
GATACTTGGCTAAAAAGGTATC
Found at i:33786765 original size:17 final size:16
Alignment explanation
Indices: 33786739--33786770 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33786729 CATCATTTTG
33786739 TTAATTTTATTCAAAT
1 TTAATTTTATTCAAAT
33786755 TTAACTTTTATTCAAA
1 TTAA-TTTTATTCAAA
33786771 AATACTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTTTATTCAAAT
Found at i:33789253 original size:20 final size:20
Alignment explanation
Indices: 33789230--33789307 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 20
33789220 TAGAGCTATC
33789230 AGGGGCACCGAAGTGCAAAT
1 AGGGGCACCGAAGTGCAAAT
* *
33789250 AGGGGCACCGCAGTGCAAAC
1 AGGGGCACCGAAGTGCAAAT
* * **
33789270 AAGGGCACCCAAGTGTGAAT
1 AGGGGCACCGAAGTGCAAAT
*
33789290 AGGGG-ACCAAAGTGCAAA
1 AGGGGCACCGAAGTGCAAA
33789308 CTCATACAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 10 0.22
20 36 0.78
ACGTcount: A:0.36, C:0.22, G:0.33, T:0.09
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAAAT
Found at i:33789276 original size:40 final size:39
Alignment explanation
Indices: 33789232--33789308 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
33789222 GAGCTATCAG
* **
33789232 GGGCACCGAAGTGCAAATAGGGGCACCGCAGTGCAAACAA
1 GGGCACCCAAGTGCAAATAGGGG-ACCAAAGTGCAAACAA
**
33789272 GGGCACCCAAGTGTGAATAGGGGACCAAAGTGCAAAC
1 GGGCACCCAAGTGCAAATAGGGGACCAAAGTGCAAAC
33789309 TCATACAAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 12 0.38
40 20 0.62
ACGTcount: A:0.35, C:0.23, G:0.32, T:0.09
Consensus pattern (39 bp):
GGGCACCCAAGTGCAAATAGGGGACCAAAGTGCAAACAA
Found at i:33789705 original size:20 final size:20
Alignment explanation
Indices: 33789673--33789711 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33789663 AGCCCAGCCC
33789673 ATATTAAATATATATATTTA
1 ATATTAAATATATATATTTA
33789693 ATATATAAA-ATATATATTT
1 ATAT-TAAATATATATATTT
33789712 GATTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAAATATATATATTTA
Found at i:33789720 original size:18 final size:18
Alignment explanation
Indices: 33789675--33789722 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
33789665 CCCAGCCCAT
*
33789675 ATTAAATATATATATTTA
1 ATTAAAAATATATATTTA
*
33789693 ATATATAAAATATATATTTG
1 AT-TA-AAAATATATATTTA
33789713 ATTAAAAATA
1 ATTAAAAATA
33789723 AAATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAAAATATATATTTA
Found at i:33789736 original size:25 final size:26
Alignment explanation
Indices: 33789702--33789760 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 26
33789692 AATATATAAA
33789702 ATATATATTTGATTAAAAA-TAAAAT
1 ATATATATTTGATTAAAAATTAAAAT
33789727 ATATATATTTGATTAAAAATTTTAAAAT
1 ATATATATTTGATTAAAAA--TTAAAAT
33789755 ATATAT
1 ATATAT
33789761 GTAATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 19 0.61
28 12 0.39
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
ATATATATTTGATTAAAAATTAAAAT
Found at i:33790653 original size:21 final size:21
Alignment explanation
Indices: 33790611--33790653 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33790601 ATTATGTTTT
*
33790611 ATTATATATTATATTATTATA
1 ATTATATATTATATTATAATA
33790632 ATTATATA-TATATATATAATA
1 ATTATATATTATAT-TATAATA
33790653 A
1 A
33790654 AGTAACGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATATATTATATTATAATA
Found at i:33797224 original size:42 final size:42
Alignment explanation
Indices: 33797177--33797259 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
33797167 TAGATCGACA
33797177 TTAGCAAATTGAAGCTTGAAAATTTTGGAGCCCTAACCGTTG
1 TTAGCAAATTGAAGCTTGAAAATTTTGGAGCCCTAACCGTTG
33797219 TTAGCAAATTGAAGCTTGAAAATTTTGGAGCCCTAACCGTT
1 TTAGCAAATTGAAGCTTGAAAATTTTGGAGCCCTAACCGTT
33797260 CGTCTTCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (42 bp):
TTAGCAAATTGAAGCTTGAAAATTTTGGAGCCCTAACCGTTG
Found at i:33798169 original size:25 final size:25
Alignment explanation
Indices: 33798121--33798169 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33798111 CATTATTCAA
* *
33798121 AATATTCAAAAATTTATAATTATAG
1 AATATTAAAAAATTTATAAATATAG
33798146 AATATTAAATAAATTTA-AAATATA
1 AATATTAAA-AAATTTATAAATATA
33798170 AAAATAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AATATTAAAAAATTTATAAATATAG
Found at i:33798216 original size:8 final size:8
Alignment explanation
Indices: 33798190--33798247 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
33798180 AACTCAACCA
33798190 TTAATAATT
1 TTAAT-ATT
33798199 TT-ATATTT
1 TTAATA-TT
33798207 TTAATATT
1 TTAATATT
33798215 TTAATATT
1 TTAATATT
33798223 TT-ATAATT
1 TTAAT-ATT
*
33798231 ATAAT-TT
1 TTAATATT
33798238 TTAAATATT
1 TT-AATATT
33798247 T
1 T
33798248 AGAATAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 6 0.15
8 25 0.61
9 10 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTAATATT
Found at i:33798217 original size:16 final size:18
Alignment explanation
Indices: 33798190--33798229 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33798180 AACTCAACCA
33798190 TTAATAATTTT-ATATTT
1 TTAATAATTTTAATATTT
33798207 TTAAT-ATTTTAATATTT
1 TTAATAATTTTAATATTT
33798224 TATAAT
1 T-TAAT
33798230 TATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATAATTTTAATATTT
Found at i:33798244 original size:24 final size:24
Alignment explanation
Indices: 33798196--33798247 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33798186 ACCATTAATA
* * *
33798196 ATTTTATATTTTTAATATTTTAAT
1 ATTTTATAATTATAATATTTAAAT
*
33798220 ATTTTATAATTATAATTTTTAAAT
1 ATTTTATAATTATAATATTTAAAT
33798244 ATTT
1 ATTT
33798248 AGAATAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTATAATTATAATATTTAAAT
Found at i:33802359 original size:42 final size:42
Alignment explanation
Indices: 33802257--33802371 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
33802247 ACGGCCTGCG
* * * * **
33802257 ACACGGTCATGTGTCACAAGTCAAAGAGTTACACGATTTGGC
1 ACACGGCCGTGTGTCCCAACTCAAAGAGTTACACGAGCTGGC
* * * *
33802299 ACACGGCCGTGTGACCCAACTCAATGAGTTACACGGGCTGGG
1 ACACGGCCGTGTGTCCCAACTCAAAGAGTTACACGAGCTGGC
* *
33802341 ACATGGCCTTGTGTCCCAACTTCAAA-AGTTA
1 ACACGGCCGTGTGTCCCAAC-TCAAAGAGTTA
33802372 AAAGGCCTAG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (42 bp):
ACACGGCCGTGTGTCCCAACTCAAAGAGTTACACGAGCTGGC
Found at i:33804438 original size:21 final size:20
Alignment explanation
Indices: 33804388--33804438 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
33804378 GGGATGTTAT
*
33804388 AGTAGGGTTTTGGTTTTTAA
1 AGTAGGGTTTTGGTTTGTAA
*
33804408 TGTTAGGGTTTTAGGTTTGTAA
1 AG-TAGGGTTTT-GGTTTGTAA
*
33804430 AGTAAGGTT
1 AGTAGGGTT
33804439 ATTTGGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (20 bp):
AGTAGGGTTTTGGTTTGTAA
Found at i:33812261 original size:14 final size:14
Alignment explanation
Indices: 33812242--33812283 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
33812232 GGATCATTAT
33812242 TAAAAATAATTTAA
1 TAAAAATAATTTAA
33812256 TAAAAATAA-TT-A
1 TAAAAATAATTTAA
33812268 -AAAAATAATTTAA
1 TAAAAATAATTTAA
33812281 TAA
1 TAA
33812284 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.32
12 3 0.12
13 3 0.12
14 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAATAATTTAA
Found at i:33812271 original size:11 final size:13
Alignment explanation
Indices: 33812237--33812283 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
33812227 TAATAGGATC
*
33812237 ATTATTAAAAATA
1 ATTAATAAAAATA
33812250 ATTTAATAAAAATA
1 A-TTAATAAAAATA
33812264 ATT-A-AAAAATA
1 ATTAATAAAAATA
33812275 ATTTAATAA
1 A-TTAATAA
33812284 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 8 0.28
12 3 0.10
13 4 0.14
14 14 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATAAAAATA
Found at i:33814257 original size:30 final size:29
Alignment explanation
Indices: 33814223--33814286 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
33814213 AATTTGTGAG
*
33814223 AATTGGACGAAATTAAAACTTCATGTATAA
1 AATTGGAC-AAAATAAAACTTCATGTATAA
* * * *
33814253 AATTGTACAAAATCAAAGTTCATGTATAG
1 AATTGGACAAAATAAAACTTCATGTATAA
33814282 AATTG
1 AATTG
33814287 CACATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.31
Consensus pattern (29 bp):
AATTGGACAAAATAAAACTTCATGTATAA
Found at i:33814275 original size:29 final size:30
Alignment explanation
Indices: 33814242--33814312 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
33814232 AAATTAAAAC
*
33814242 TTCATGTATAAAATTGTACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAATCAAAG
*
33814271 TTCATGTATAGAATTGCACATTAAATCAAAG
1 TTCATGTATAAAATTGCACA-TAAATCAAAG
*
33814302 TTCATGAATAA
1 TTCATGTATAA
33814313 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAATCAAAG
Found at i:33815819 original size:24 final size:24
Alignment explanation
Indices: 33815792--33815860 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
33815782 AAATTTTCGA
33815792 TTTAATCGAGTTCACGAGTCATAT
1 TTTAATCGAGTTCACGAGTCATAT
* * *
33815816 TTT-ATC-A--TC-CTAATC-GA-
1 TTTAATCGAGTTCACGAGTCATAT
33815833 TTTAATCGAGTTCACGAGTCATAT
1 TTTAATCGAGTTCACGAGTCATAT
33815857 TTTA
1 TTTA
33815861 TCATCCTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 5 0.16
20 2 0.06
21 2 0.06
22 5 0.16
23 4 0.12
24 7 0.22
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (24 bp):
TTTAATCGAGTTCACGAGTCATAT
Found at i:33815833 original size:41 final size:41
Alignment explanation
Indices: 33815788--33815869 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
33815778 TGAAAAATTT
33815788 TCGATTTAATCGAGTTCACGAGTCATATTTTATCATCCTAA
1 TCGATTTAATCGAGTTCACGAGTCATATTTTATCATCCTAA
33815829 TCGATTTAATCGAGTTCACGAGTCATATTTTATCATCCTAA
1 TCGATTTAATCGAGTTCACGAGTCATATTTTATCATCCTAA
33815870 CTCAATTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (41 bp):
TCGATTTAATCGAGTTCACGAGTCATATTTTATCATCCTAA
Found at i:33817839 original size:14 final size:14
Alignment explanation
Indices: 33817812--33817851 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
33817802 TGAGAATCAT
33817812 TTTATATAATTTTTA
1 TTTAT-TAATTTTTA
* *
33817827 TTTATTTATTTTTG
1 TTTATTAATTTTTA
33817841 TTTATTAATTT
1 TTTATTAATTT
33817852 GGTGAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTATTAATTTTTA
Found at i:33819023 original size:8 final size:8
Alignment explanation
Indices: 33819010--33819039 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
33819000 TACCTATTGA
33819010 TTGTTTCC
1 TTGTTTCC
33819018 TTGTTTCC
1 TTGTTTCC
33819026 TTGTTTCC
1 TTGTTTCC
33819034 TTGTTT
1 TTGTTT
33819040 TGTGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (8 bp):
TTGTTTCC
Found at i:33827582 original size:55 final size:55
Alignment explanation
Indices: 33827517--33827626 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
33827507 AAACTAACCA
33827517 GAACAATCTGTTTAAAATTAAGGTGATCCAGAAATGGTCCATATAACACATTTAG
1 GAACAATCTGTTTAAAATTAAGGTGATCCAGAAATGGTCCATATAACACATTTAG
33827572 GAACAATCTGTTTAAAATTAAGGTGATCCAGAAATGGTCCATATAACACATTTAG
1 GAACAATCTGTTTAAAATTAAGGTGATCCAGAAATGGTCCATATAACACATTTAG
33827627 TTTAGTTACT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (55 bp):
GAACAATCTGTTTAAAATTAAGGTGATCCAGAAATGGTCCATATAACACATTTAG
Found at i:33834107 original size:39 final size:36
Alignment explanation
Indices: 33834063--33834136 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 36
33834053 AAACACCAAA
33834063 AAAAATATTTTAAATATAAAAAGAATAAAAAAGTATTTT
1 AAAAATATTTTAAA-AT-AAAAGAATAAAAAA-TATTTT
*
33834102 AAAAATATTTTAAAATTAAAGAATAAAAAATATTT
1 AAAAATATTTTAAAATAAAAGAATAAAAAATATTT
33834137 ATTATATTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 5 0.15
37 13 0.38
38 2 0.06
39 14 0.41
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (36 bp):
AAAAATATTTTAAAATAAAAGAATAAAAAATATTTT
Found at i:33834699 original size:12 final size:13
Alignment explanation
Indices: 33834682--33834713 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
33834672 AAAAATTATA
33834682 TTAGGGTTAAGG-
1 TTAGGGTTAAGGT
33834694 TTAGGGTTAAGGT
1 TTAGGGTTAAGGT
33834707 TTAGGGT
1 TTAGGGT
33834714 GTTTTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (13 bp):
TTAGGGTTAAGGT
Found at i:33834871 original size:229 final size:225
Alignment explanation
Indices: 33834313--33834874 Score: 859
Period size: 229 Copynumber: 2.5 Consensus size: 225
33834303 GAACACCTCT
* *
33834313 AGTTTAGGGTTTGTCAATTAAATTATTTAT-AATTTT-CATAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGAGTTTGTCAATTAAATTATTTATAAATTTTCCAAAATTGGATTAGTTTTCGTGTTTAT
33834376 TATTTTTTAAG-AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAT
66 TA-TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAT
*
33834440 TTTAAAAATTAAATTAGGGTTAGGGTTAGGGTTAAGGTTTGAGTTTAGGGTGTTTTTAAGTTAAG
130 TTTAAAAATTAAATTAGGGTTAAGGTTAGGGTTAA----TGAGTTTAGGGTGTTTTTAAGTTAAG
33834505 GGTTTTAAGGAAAAAGCAAATAAATTAGGGTTTAG
191 GGTTTTAAGGAAAAAGCAAATAAATTAGGGTTTAG
*
33834540 AGTTTAGAGTTTGTCAATTAAATTATTTATAAATTTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGAGTTTGTCAATTAAATTATTTATAAATTTTCCAAAATTGGATTAGTTTTCGTGTTTAT
*
33834605 TATTGTTTAAGAAAAAATCAATTAAATTAGAGTTTAGGGTTACTTGAGTAATTTAATTAAAAAA-
66 TATT-TTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAT
*
33834669 TTTAAAAATTATATTAGGGTTAAGGTTAGGGTTAA-G-GTTTAGGGTGTTTTTAAGTTAAGGGTT
130 TTTAAAAATTAAATTAGGGTTAAGGTTAGGGTTAATGAGTTTAGGGTGTTTTTAAGTTAAGGGTT
*
33834732 TTAAAGGAAAAAATCAAATAAATTAGGGTTTAG
195 TT-AAGG-AAAAAGCAAATAAATTAGGGTTTAG
* *
33834765 AGTTTA-AGGTTTGTCAATTTAATTATTTATAAATATTCGTAGCCCAAATTGGATTAGTTTTCGT
1 AGTTTAGA-GTTTGTCAATTAAATTATTTATAAAT-TT--T--CCAAAATTGGATTAGTTTTCGT
*
33834829 GTTTATTATTTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTT
60 GTTTATTATTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTT
33834875 TGTCAAGTAA
Statistics
Matches: 312, Mismatches: 11, Indels: 22
0.90 0.03 0.06
Matches are distributed among these distances:
223 29 0.09
224 6 0.02
225 55 0.18
226 2 0.01
227 29 0.09
228 9 0.03
229 101 0.32
230 81 0.26
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (225 bp):
AGTTTAGAGTTTGTCAATTAAATTATTTATAAATTTTCCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATT
TTAAAAATTAAATTAGGGTTAAGGTTAGGGTTAATGAGTTTAGGGTGTTTTTAAGTTAAGGGTTT
TAAGGAAAAAGCAAATAAATTAGGGTTTAG
Found at i:33835229 original size:21 final size:21
Alignment explanation
Indices: 33835190--33835230 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33835180 TTTGTCTAGC
*
33835190 TTCCGGCGAGGGTTGTGGTTG
1 TTCCGGCGAGGGTTCTGGTTG
33835211 TTCCGGCG-GGGATTCTGGTT
1 TTCCGGCGAGGG-TTCTGGTT
33835231 CCTCCGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.05, C:0.17, G:0.44, T:0.34
Consensus pattern (21 bp):
TTCCGGCGAGGGTTCTGGTTG
Found at i:33835519 original size:18 final size:18
Alignment explanation
Indices: 33835493--33835535 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
33835483 GACTCGAAAA
* *
33835493 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
33835511 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
33835529 AGGATAC
1 AGGATAC
33835536 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:33838073 original size:21 final size:20
Alignment explanation
Indices: 33838040--33838080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
33838030 ATCATTTTAA
*
33838040 TATTAAATTAATATAATATT
1 TATTAAATAAATATAATATT
*
33838060 TATTAAAATAAATATTATATT
1 TATT-AAATAAATATAATATT
33838081 AAATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAAATAAATATAATATT
Found at i:33838090 original size:21 final size:21
Alignment explanation
Indices: 33838039--33838091 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 21
33838029 AATCATTTTA
33838039 ATATTAAATTAATATAATATT
1 ATATTAAATTAATATAATATT
33838060 -TATT-AA--AATA-AATATT
1 ATATTAAATTAATATAATATT
33838076 ATATTAAATTTAATAT
1 ATATTAAA-TTAATAT
33838092 TAAATCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 2 0.08
19 2 0.08
20 4 0.15
21 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAAATTAATATAATATT
Found at i:33838150 original size:62 final size:59
Alignment explanation
Indices: 33838040--33838156 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
33838030 ATCATTTTAA
* * *
33838040 TATTAAATTAATATAATATTTATTAAAATAAATATTATATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATTAAAATAAATATTAAATTAAATTTAATATTAAATCT
* *
33838099 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAATTAAGTTTAATATTAA
1 TATTAAAATAATAGAATATTTAT-TA-AA-ATAAATATTAAATTAAATTTAATATTAA
33838157 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 2 0.04
62 26 0.52
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATTAAAATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:33838237 original size:19 final size:18
Alignment explanation
Indices: 33838130--33838242 Score: 83
Period size: 19 Copynumber: 6.1 Consensus size: 18
33838120 ATCTACAAGA
33838130 TAAATATTAAATTAAGT-T
1 TAAATATTAAATTAA-TAT
33838148 T-AATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAAT-A-T
* *
33838167 TTAATATTAAATTAATAA
1 TAAATATTAAATTAATAT
*
33838185 AATAATATTAAGA-TAAGTAT
1 TA-AATATTAA-ATTAA-TAT
*
33838205 TAAAT-TTAATTTAATAT
1 TAAATATTAAATTAATAT
33838222 TAAACTATTAAATTAATAT
1 TAAA-TATTAAATTAATAT
33838241 TA
1 TA
33838243 TTTTTGAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 23
0.72 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 18 0.24
18 10 0.13
19 31 0.41
20 16 0.21
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:33840412 original size:22 final size:23
Alignment explanation
Indices: 33840387--33840446 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
33840377 TGGACTGAAT
33840387 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
33840409 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
33840431 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
33840447 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:33840414 original size:4 final size:4
Alignment explanation
Indices: 33840396--33840429 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33840386 TATAAAAATT
33840396 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
33840430 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33841834 original size:23 final size:22
Alignment explanation
Indices: 33841783--33841834 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33841773 CATCGTCTTT
*
33841783 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33841805 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33841828 TTCTTTT
1 TTCTTTT
33841835 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33841849 original size:18 final size:18
Alignment explanation
Indices: 33841828--33841866 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33841818 TTTCTTCAAC
* *
33841828 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
33841846 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
33841864 TTC
1 TTC
33841867 ACTCTTAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:33844234 original size:22 final size:22
Alignment explanation
Indices: 33844209--33844263 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
33844199 TGGACTGAAT
33844209 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAA-TAAATAAAA
*
33844231 ATAAATAA-ATAAATAAATAAAA
1 ATAAA-AATTTAAATAAATAAAA
*
33844253 ATAAAACTTTA
1 ATAAAAATTTA
33844264 CACCTTGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.22
22 19 0.70
23 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAAATTTAAATAAATAAAA
Found at i:33844236 original size:4 final size:4
Alignment explanation
Indices: 33844218--33844251 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33844208 TATAAAAATT
33844218 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
33844252 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33852453 original size:22 final size:22
Alignment explanation
Indices: 33852393--33852450 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
33852383 AATCTTCAAG
33852393 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33852412 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33852434 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33852451 GATTTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33855296 original size:51 final size:53
Alignment explanation
Indices: 33855236--33855346 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
33855226 AATTTTTGTA
*
33855236 TGTCAATGGCCGACATCA-CAGTAC-AA-AAAAATAAATTTTTTGGTGCTGGCC
1 TGTCAATGGCCGACAGCAGCAGTACGAACAAAAA-AAATTTTTTGGTGCTGGCC
*
33855287 TGTCAATGGCCGACGGCAGCAGTACGAACCAAAAAAAATTTTTTGGTGCTGGCC
1 TGTCAATGGCCGACAGCAGCAGTACGAA-CAAAAAAAATTTTTTGGTGCTGGCC
*
33855341 TATCAA
1 TGTCAA
33855347 ATTTATCTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
51 16 0.30
52 6 0.11
53 2 0.04
54 24 0.45
55 5 0.09
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (53 bp):
TGTCAATGGCCGACAGCAGCAGTACGAACAAAAAAAATTTTTTGGTGCTGGCC
Found at i:33855535 original size:21 final size:21
Alignment explanation
Indices: 33855483--33855538 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
33855473 ATATTATAGG
33855483 AAATTTAAATGAAACTAAAATA
1 AAATTT-AATGAAACTAAAATA
* *
33855505 AAAATTAATGAAATTAAAAT-
1 AAATTTAATGAAACTAAAATA
33855525 AAATTTGAATGAAA
1 AAATTT-AATGAAA
33855539 AAAAGGTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
AAATTTAATGAAACTAAAATA
Found at i:33855887 original size:96 final size:94
Alignment explanation
Indices: 33855750--33855978 Score: 264
Period size: 94 Copynumber: 2.4 Consensus size: 94
33855740 AAAAAAAAAA
* * ** ** ** *
33855750 TTTCGTACTGCTGGTGCTGGCCATTGACAGGCCAACTCCCAAATTTTTTTTCGTATTGGTGGTGT
1 TTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAACACCC-AATCGTTTTTCGTA-TACTAATGC
**
33855815 CGGTCATTGAC-AGGCCAGCACCCAAAATTTT
64 CGACCATTGACAAGG-CAGCACCCAAAATTTT
* * *
33855846 TTTCGTACTGGTGGTGCCGGCTATTGACAGGCCAGCACCCAATCGTTTTTCGTATACTAATGCCG
1 TTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAACACCCAATCGTTTTTCGTATACTAATGCCG
*
33855911 ACCATTGACAATGCAGCACCCAAAATTTT
66 ACCATTGACAAGGCAGCACCCAAAATTTT
* *
33855940 TTTTGTA-TACTGGTGCCGGCCATTGACAGGCCAACACCC
1 TTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAACACCC
33855979 CAAAAATTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
93 28 0.25
94 35 0.31
95 14 0.12
96 35 0.31
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (94 bp):
TTTCGTACTGCTGGTGCCGGCCATTGACAGGCCAACACCCAATCGTTTTTCGTATACTAATGCCG
ACCATTGACAAGGCAGCACCCAAAATTTT
Found at i:33855942 original size:47 final size:48
Alignment explanation
Indices: 33855750--33855990 Score: 208
Period size: 48 Copynumber: 5.1 Consensus size: 48
33855740 AAAAAAAAAA
* * * * *
33855750 TTTCGTACTGCTGGTGCTGGCCATTGAC-AGGCCAACTCCCAAATTTTT
1 TTTCGTA-TACTGGTGCCGGCCATTGACAAGGCCAGCACCCAAAATTTT
** * *
33855798 TTTCGTATTGGTGGTGTCGGTCATTGAC-AGGCCAGCACCCAAAATTTT
1 TTTCGTA-TACTGGTGCCGGCCATTGACAAGGCCAGCACCCAAAATTTT
** * *
33855846 TTTCGTACTGGTGGTGCCGGCTATTGAC-AGGCCAGCACCC--AATCGTT
1 TTTCGTA-TACTGGTGCCGGCCATTGACAAGGCCAGCACCCAAAAT-TTT
** * *
33855893 TTTCGTATACTAATGCCGACCATTGACAATG-CAGCACCCAAAATTTT
1 TTTCGTATACTGGTGCCGGCCATTGACAAGGCCAGCACCCAAAATTTT
* * *
33855940 TTTTGTATACTGGTGCCGGCCATTGAC-AGGCCAACACCCCAAAAATTT
1 TTTCGTATACTGGTGCCGGCCATTGACAAGGCCAGCA-CCCAAAATTTT
33855988 TTT
1 TTT
33855991 AAAAAATTTT
Statistics
Matches: 159, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
46 27 0.17
47 40 0.25
48 92 0.58
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (48 bp):
TTTCGTATACTGGTGCCGGCCATTGACAAGGCCAGCACCCAAAATTTT
Found at i:33856555 original size:46 final size:46
Alignment explanation
Indices: 33856457--33856557 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 46
33856447 AAAAAAAAAA
** *
33856457 ACAAAAAAATTTGGGATGCTGGCTTGTCAATGGCCGCACCACCAGT
1 ACAAAAAAATTTGGGATGCTAACTTGTCAATGGCCGCACCACCAAT
* * * *
33856503 ACAAAAAATTTTGGG-TGCTAACTTGTCAATGGCTGCACTAGCAAT
1 ACAAAAAAATTTGGGATGCTAACTTGTCAATGGCCGCACCACCAAT
33856548 ACGAAAAAAA
1 AC-AAAAAAA
33856558 ATTGTGTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 26 0.57
46 20 0.43
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (46 bp):
ACAAAAAAATTTGGGATGCTAACTTGTCAATGGCCGCACCACCAAT
Found at i:33856628 original size:51 final size:47
Alignment explanation
Indices: 33856481--33856633 Score: 132
Period size: 46 Copynumber: 3.2 Consensus size: 47
33856471 GATGCTGGCT
* * ** * * * *
33856481 TGTCAATGGCC-GCACCACCAGTAC-AAAAAATTTTGGGTGCTAACT
1 TGTCAATGGCCGGCACCAGCAATACGAAAAAAAATTGTGTGTTGACC
* * *
33856526 TGTCAATGG-CTGCACTAGCAATACGAAAAAAAATTGTGTGTTGGCC
1 TGTCAATGGCCGGCACCAGCAATACGAAAAAAAATTGTGTGTTGACC
* *
33856572 TGTCAATGGCCGGCACCAGCATTACGAAAAAAAATTTTTTAGGTGTTGACC
1 TGTCAATGGCCGGCACCAGCAATACGAAAAAAAA--TTGT--GTGTTGACC
33856623 TGTCAATGGCC
1 TGTCAATGGCC
33856634 TATTATAGTG
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 19 0.22
46 23 0.27
47 21 0.24
49 3 0.03
51 19 0.22
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (47 bp):
TGTCAATGGCCGGCACCAGCAATACGAAAAAAAATTGTGTGTTGACC
Found at i:33857170 original size:48 final size:46
Alignment explanation
Indices: 33857071--33857205 Score: 173
Period size: 47 Copynumber: 2.9 Consensus size: 46
33857061 TGTTGTGTCG
*
33857071 ACCATTGA-TGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCA
1 ACCATTGACTGGCCAGCACCAAAATTTTTTTTC-TACTGGTGGTGCA
33857117 ACCATTGACTGGCCAGCACACAAAATTTTTTTTCTACTGGTGGTGTCA
1 ACCATTGACTGGCCAGCAC-CAAAATTTTTTTTCTACTGGTGGTG-CA
* * * * * *
33857165 GCCATTGACAGGCTAGCACCCAAATTTTTTTACTAGTGGTG
1 ACCATTGACTGGCCAGCACCAAAATTTTTTTTCTACTGGTG
33857206 CGGTCATTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
46 8 0.10
47 40 0.51
48 31 0.39
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (46 bp):
ACCATTGACTGGCCAGCACCAAAATTTTTTTTCTACTGGTGGTGCA
Found at i:33857270 original size:45 final size:43
Alignment explanation
Indices: 33857080--33857284 Score: 146
Period size: 47 Copynumber: 4.5 Consensus size: 43
33857070 GACCATTGAT
** ** *
33857080 GGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCAACCATTGACT
1 GGCCAGCACC--AAATTTTTTT--TACTACTGGTGCAGTCATTGACA
*
33857127 GGCCAGCACACAAAATTTTTTTT-CTACTGGTGGTGTCAGCCATTGACA
1 GGCCAGCAC-C-AAATTTTTTTTACTAC---TGGTG-CAGTCATTGACA
* * *
33857175 GGCTAGCACCCAAA-TTTTTTTACTAGTGGTGCGGTCATTGACA
1 GGCCAGCA-CCAAATTTTTTTTACTACTGGTGCAGTCATTGACA
* * *
33857218 GGGCAGCACCTAATTTTTTTCGTA-TACTGGTGCCAGTCATTGATA
1 GGCCAGCACCAAATTTTTTT--TACTACTGGTG-CAGTCATTGACA
33857263 GGCCAGCACCCAAATTTTTTTT
1 GGCCAGCA-CCAAATTTTTTTT
33857285 TGTTTTTTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.03
43 22 0.17
44 15 0.12
45 20 0.15
46 18 0.14
47 31 0.24
48 19 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (43 bp):
GGCCAGCACCAAATTTTTTTTACTACTGGTGCAGTCATTGACA
Found at i:33857284 original size:91 final size:94
Alignment explanation
Indices: 33857072--33857285 Score: 210
Period size: 88 Copynumber: 2.3 Consensus size: 94
33857062 GTTGTGTCGA
* ** * *
33857072 CCATTGAT-GGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCAACCATTGACTGGCCAGCAC
1 CCATTGATAGGCCAGCACC-CAAATTTTTTTTTTACTAGTGGTGCAACCATTGACAGGCCAGCAC
** *
33857136 ACAAAATTTTTTTTCTACTGGTGGTGTCAG
65 ACAAAATTTTTTTTCTACTACTGGTGCCAG
* * *** *
33857166 CCATTGACAGGCTAGCACCCAAA---TTTTTTTACTAGTGGTGCGGTCATTGACAGGGCAGCAC-
1 CCATTGATAGGCCAGCACCCAAATTTTTTTTTTACTAGTGGTGCAACCATTGACAGGCCAGCACA
*
33857227 C-TAA-TTTTTTTCGTA-TACTGGTGCCAG
66 CAAAATTTTTTTTC-TACTACTGGTGCCAG
*
33857254 TCATTGATAGGCCAGCACCCAAATTTTTTTTT
1 CCATTGATAGGCCAGCACCCAAATTTTTTTTT
33857286 GTTTTTTTAT
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
88 37 0.38
89 4 0.04
90 1 0.01
91 36 0.37
94 10 0.10
95 9 0.09
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (94 bp):
CCATTGATAGGCCAGCACCCAAATTTTTTTTTTACTAGTGGTGCAACCATTGACAGGCCAGCACA
CAAAATTTTTTTTCTACTACTGGTGCCAG
Found at i:33858954 original size:18 final size:18
Alignment explanation
Indices: 33858931--33858966 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33858921 GGAGTTAGTC
33858931 GGATTCAGATCAGTAGCA
1 GGATTCAGATCAGTAGCA
33858949 GGATTCAGATCAGTAGCA
1 GGATTCAGATCAGTAGCA
33858967 TTGATCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (18 bp):
GGATTCAGATCAGTAGCA
Found at i:33861959 original size:20 final size:20
Alignment explanation
Indices: 33861917--33861959 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
33861907 TCAACATTTC
* *
33861917 AATAAATAAGAAAATAGTCA
1 AATAAATAAGAAAATAATAA
33861937 AATAAATAA-AAAATAAATAA
1 AATAAATAAGAAAAT-AATAA
33861957 AAT
1 AAT
33861960 TACATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
AATAAATAAGAAAATAATAA
Found at i:33862053 original size:98 final size:100
Alignment explanation
Indices: 33861955--33862301 Score: 403
Period size: 98 Copynumber: 3.5 Consensus size: 100
33861945 AAAAATAAAT
* * * *
33861955 AAAATTACATT-ATAACAAATCACAATACACATTAGACT-TA-ACAAATAATTTATAACCTAATC
1 AAAATTACATTCATAACAAATCACAATAAACACTAGACTAAATACAAACAATTTATAACCTAATC
* *
33862017 ATAACTTACTAACAAAATAATTTAAAACAC-AAAA
66 ATAAATTACTAACAAAATAATTTAAAAAACAAAAA
* * * * **
33862051 ATAATTACATT-ATAACAAGTCACAATAAACACTAAACTAAATACAAACAGTTTATAACCTAAAA
1 AAAATTACATTCATAACAAATCACAATAAACACTAGACTAAATACAAACAATTTATAACCTAATC
*
33862115 ATAAATTACTAACAAAATAATTAAAAAAAC-AAAA
66 ATAAATTACTAACAAAATAATTTAAAAAACAAAAA
33862149 AAAATTACATTCATAA-AAATCACAATAAACACT-GAACTAAATACAAACAA-TTATAACCTAAT
1 AAAATTACATTCATAACAAATCACAATAAACACTAG-ACTAAATACAAACAATTTATAACCTAAT
* **
33862211 CATAAATTACTAACAAAATAACTATAAAATAATTTAAAA
65 CATAAATTACTAACAAAATAA-TTTAAAA-AA-CAAAAA
* * *
33862250 AAAATTACATTCATAAGAAATCAC---AAACACTAAACTAAACACAAACAATTTA
1 AAAATTACATTCATAACAAATCACAATAAACACTAGACTAAATACAAACAATTTA
33862302 ATAATAATAA
Statistics
Matches: 216, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
96 33 0.15
97 32 0.15
98 94 0.44
99 27 0.12
100 3 0.01
101 20 0.09
102 7 0.03
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (100 bp):
AAAATTACATTCATAACAAATCACAATAAACACTAGACTAAATACAAACAATTTATAACCTAATC
ATAAATTACTAACAAAATAATTTAAAAAACAAAAA
Found at i:33862223 original size:195 final size:194
Alignment explanation
Indices: 33861936--33862301 Score: 458
Period size: 195 Copynumber: 1.9 Consensus size: 194
33861926 GAAAATAGTC
* * * * * *
33861936 AAATAAATAAAAAATAAATAAAATTACATTATAACAAATCACAATACACATTAGACTTAACAAAT
1 AAATAAATAAAAAACAAAAAAAATTACATTATAACAAATCACAATAAACATGAGACTAAACAAAC
* * * *
33862001 AATTTATAACCTAATCATAACTTACTAACAAAATAA-TTTAAAA-CA-CAAAAATAATTACATT-
66 AATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATCAAAAAAAATTACATTC
* * *
33862062 ATAACAAGTCACAATAAACACTAAACTAAATACAAACAGTTTATAACCTAAAAATAAATTACTAA
131 ATAACAAATCAC---AAACACTAAACTAAACACAAACAATTTATAACCTAAAAATAAATTACTAA
33862127 CA
193 CA
*
33862129 AAATAATTAAAAAAACAAAAAAAATTACATTCATAA-AAATCACAATAAACACTGA-ACTAAATA
1 AAATAAAT-AAAAAACAAAAAAAATTACATT-ATAACAAATCACAATAAACA-TGAGACT-AA-A
*
33862192 CAAACAA-TTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTTAAAAAAAATT
61 CAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAA-TCAAAAAAAATT
*
33862256 ACATTCATAAGAAATCACAAACACTAAACTAAACACAAACAATTTA
125 ACATTCATAACAAATCACAAACACTAAACTAAACACAAACAATTTA
33862302 ATAATAATAA
Statistics
Matches: 147, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
193 7 0.05
194 37 0.25
195 39 0.27
196 13 0.09
197 27 0.18
199 14 0.10
200 10 0.07
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (194 bp):
AAATAAATAAAAAACAAAAAAAATTACATTATAACAAATCACAATAAACATGAGACTAAACAAAC
AATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATCAAAAAAAATTACATTC
ATAACAAATCACAAACACTAAACTAAACACAAACAATTTATAACCTAAAAATAAATTACTAACA
Found at i:33863303 original size:47 final size:47
Alignment explanation
Indices: 33863205--33863423 Score: 212
Period size: 49 Copynumber: 4.6 Consensus size: 47
33863195 ATAAAAAAAC
*
33863205 AAAAAAAATTTGGGTGCTGGCCTATCAATGACTGG---CACCAGTAT
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGACTGGCACCACCAGTAT
* * * * *
33863249 ACGAAAAAAAATTAGGTGCTGCCCTGTCAATGACCGGCACCACTAGTAT
1 A--AAAAAAATTTGGGTGCTGGCCTGTCAATGACTGGCACCACCAGTAT
* * * *
33863298 AAAAAAAATTTGGGTGCTAGCCTGTCAATGGCTGACACCACCAGTACG
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGACTGGCACCACCAGTA-T
* * **
33863346 AAAAAAAATTTTGTGTGCTGGCCAGTCAATGGTTGGCACCACCAGTAT
1 AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGACTGGCACCACCAGTAT
* * *
33863394 GAAAAAAATTTTTGGTGC-GGCCTATCAATG
1 -AAAAAAAATTTGGGTGCTGGCCTGTCAATG
33863424 GTCGACACCA
Statistics
Matches: 141, Mismatches: 26, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
46 29 0.21
47 47 0.33
48 15 0.11
49 49 0.35
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (47 bp):
AAAAAAAATTTGGGTGCTGGCCTGTCAATGACTGGCACCACCAGTAT
Found at i:33863305 original size:49 final size:46
Alignment explanation
Indices: 33863205--33863315 Score: 114
Period size: 46 Copynumber: 2.4 Consensus size: 46
33863195 ATAAAAAAAC
* * * * *
33863205 AAAAAAAATTTGGGTGCTGGCCTATCAATGACTGGCACCAGTATAC
1 AAAAAAAAATTAGGTGCTGCCCTATCAATGACCGGCACCAGTATAA
* * * *
33863251 GAAAAAAAATTAGGTGCTGCCCTGTCAATGACCGGCACCACTAGTAT
1 AAAAAAAAATTAGGTGCTGCCCTATCAATGACCGGCACCAGTA-TAA
* *
33863298 AAAAAAAATTTGGGTGCT
1 AAAAAAAAATTAGGTGCT
33863316 AGCCTGTCAA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
46 36 0.68
47 17 0.32
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (46 bp):
AAAAAAAAATTAGGTGCTGCCCTATCAATGACCGGCACCAGTATAA
Found at i:33863384 original size:96 final size:95
Alignment explanation
Indices: 33863205--33863443 Score: 279
Period size: 96 Copynumber: 2.5 Consensus size: 95
33863195 ATAAAAAAAC
* * **
33863205 AAAAAAAATTTGGGTGCTGGCCTATCAATGACTGGCACCAGTA-TACGAAAAAAAATTAGGTGCT
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGACACCAACAGTACGAAAAAAAATTAGGTGCT
* *
33863269 GCCCTGTCAATGACCGGCACCACTAGTAT-
66 GCCCAGTCAATGACCGGCACCACCAGTATG
* * * *
33863298 AAAAAAAATTTGGGTGCTAGCCTGTCAATGGCTGACACCACCAGTACGAAAAAAAATTTTGTGTG
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGACACCAACAGTACGAAAAAAAA-TTAG-GTG
* ***
33863363 CTGGCCAGTCAATGGTTGGCACCACCAGTATG
64 CTGCCCAGTCAATGACCGGCACCACCAGTATG
* *
33863395 AAAAAAATTTTTGGTGC-GGCCTATCAATGG-TCGACACCAACAGTACGAA
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCT-GACACCAACAGTACGAA
33863444 CCAAAAAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
93 37 0.30
94 12 0.10
95 4 0.03
96 55 0.45
97 15 0.12
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (95 bp):
AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGACACCAACAGTACGAAAAAAAATTAGGTGCT
GCCCAGTCAATGACCGGCACCACCAGTATG
Found at i:33863424 original size:47 final size:48
Alignment explanation
Indices: 33863205--33863443 Score: 229
Period size: 47 Copynumber: 5.0 Consensus size: 48
33863195 ATAAAAAAAC
* **
33863205 AAAAAAAATTTGGGTGCTGGCCTATCAATGACTGGCACCAGTA-TACG
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCACCAGTACG
* * * * * * *
33863252 AAAAAAAA-TTAGGTGCTGCCCTGTCAATGACCGGCACCACTAGTA-T
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCACCAGTACG
* * *
33863298 AAAAAAAATTTGGGTGCTAGCCTGTCAATGGCTGACACCACCAGTACG
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCACCAGTACG
* * *
33863346 AAAAAAAATTTTGTGTGCTGGCC-AGTCAATGGTTGGCACCACCAGTATG
1 AAAAAAAA-TTTGGGTGCTGGCCTA-TCAATGGCTGGCACCACCAGTACG
* * * *
33863395 AAAAAAATTTTTGGTGC-GGCCTATCAATGG-TCGACACCAACAGTACG
1 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCT-GGCACCACCAGTACG
33863442 AA
1 AA
33863444 CCAAAAAAAA
Statistics
Matches: 159, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
46 38 0.24
47 65 0.41
48 16 0.10
49 40 0.25
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (48 bp):
AAAAAAAATTTGGGTGCTGGCCTATCAATGGCTGGCACCACCAGTACG
Found at i:33864061 original size:47 final size:47
Alignment explanation
Indices: 33863918--33864061 Score: 157
Period size: 47 Copynumber: 3.1 Consensus size: 47
33863908 AAATTTTTTC
* * * *
33863918 TTTTCGTAATGCTGGTGCCGGCCATTGACAGGCCAACACACAAATTTT
1 TTTTCGTACTGCTGGTGCCGGCCATTGACAAGCCAGCACCCAAA-TTT
* * * ** *
33863966 TTTTCGTATTGCTAGTG-CAGCCATTGACAAGTTAGCACCCAAAATT
1 TTTTCGTACTGCTGGTGCCGGCCATTGACAAGCCAGCACCCAAATTT
*
33864012 TTTT-GTACTGGTGGTGCCGGCCATTGACAAGCCAGCATCCCAAATTT
1 TTTTCGTACTGCTGGTGCCGGCCATTGACAAGCCAGCA-CCCAAATTT
33864059 TTT
1 TTT
33864062 GTTTTTTTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
45 9 0.12
46 23 0.29
47 31 0.40
48 15 0.19
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (47 bp):
TTTTCGTACTGCTGGTGCCGGCCATTGACAAGCCAGCACCCAAATTT
Found at i:33864672 original size:49 final size:48
Alignment explanation
Indices: 33864524--33864766 Score: 201
Period size: 49 Copynumber: 5.0 Consensus size: 48
33864514 AAAAATTTTT
* * ** *
33864524 AAAAAAATTTTGGGGTGTTGGCCTGTCAATGGCCGGCACCAGTA-TACAA
1 AAAAAAAATTT-GGGTGCTGGCCTGTCAAT-GCCGGCACCACCAGTACGA
* * ** **
33864573 AAAAAAAATTTTGGGTGCT-GCATGTCAATGGTC-GCATTAGTA-TACGA
1 AAAAAAAA-TTTGGGTGCTGGCCTGTCAAT-GCCGGCACCACCAGTACGA
**
33864620 AAAAACGA--TGGGTGCTGGCCTGTCAATAGCCGGCACCACCAGTACGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAAT-GCCGGCACCACCAGTACGA
* * *
33864667 AAAAAAATTTTGGGTGCTGGCCTGTCAATGACCGACACCACCAATACGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATG-CCGGCACCACCAGTACGA
* * * *
33864716 AAAAAAAATTTGGGAGTTGGCCTGTCAATGGCCAGCACCAGCAGTACGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAAT-GCCGGCACCACCAGTACGA
33864765 AA
1 AA
33864767 TTTTTTTTTG
Statistics
Matches: 158, Mismatches: 28, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
44 8 0.05
45 11 0.07
46 5 0.03
47 27 0.17
48 13 0.08
49 90 0.57
50 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (48 bp):
AAAAAAAATTTGGGTGCTGGCCTGTCAATGCCGGCACCACCAGTACGA
Found at i:33864997 original size:20 final size:21
Alignment explanation
Indices: 33864972--33865014 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
33864962 TCATTCAAAA
33864972 TTATTTTAATTTCATT-AATT
1 TTATTTTAATTTCATTAAATT
*
33864992 TTATTTTAGTTTCATTAAATT
1 TTATTTTAATTTCATTAAATT
33865013 TT
1 TT
33865015 CCTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTTAATTTCATTAAATT
Found at i:33865245 original size:52 final size:52
Alignment explanation
Indices: 33865155--33865265 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 52
33865145 TTTAGATAAT
* *
33865155 TTGATAGGCCAGCACCAAAAAATTTTTTTGGTTCGTACTGCTGCCGTC-GCCA
1 TTGACAGGCCAGCACCAAAAAATTTTTTT-GTTCGTACTGCTGACGTCGGCCA
* * *
33865207 TTGACAGGCCAGCACCAAAAAAATTTATTTT-TTTGTACTGGTGATGTCGGCCA
1 TTGACAGGCCAGCACC-AAAAAATTT-TTTTGTTCGTACTGCTGACGTCGGCCA
33865260 TTGACA
1 TTGACA
33865266 TACAAAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 28 0.55
53 19 0.37
54 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (52 bp):
TTGACAGGCCAGCACCAAAAAATTTTTTTGTTCGTACTGCTGACGTCGGCCA
Found at i:33868089 original size:21 final size:23
Alignment explanation
Indices: 33868063--33868108 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
33868053 TAAAGGGTAT
*
33868063 TTAC-AAATTAAATC-TCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
*
33868084 TTACAAAATCATATCTTCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
33868107 TT
1 TT
33868109 GCATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 9 0.43
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
TTACAAAATCAAATCTTCTAAGA
Found at i:33868107 original size:23 final size:22
Alignment explanation
Indices: 33868063--33868121 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
33868053 TAAAGGGTAT
* *
33868063 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
33868084 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
33868107 TTGCATATCATATCT
1 TTACAAATCATATCT
33868122 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.56
23 10 0.31
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:33872422 original size:39 final size:38
Alignment explanation
Indices: 33872372--33872481 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 38
33872362 AGAATATAAT
*
33872372 AATTATAATTACCATAATTATAATAATGTTTGACCAAAA
1 AATTATAATTACAATAATTATAATAATGTTTGACC-AAA
* * * ** *
33872411 AATTAAAATTACAATAATTATAATAATATTCGGTCATA
1 AATTATAATTACAATAATTATAATAATGTTTGACCAAA
*
33872449 AATTATAATTACAATAATTATAACAATGATTTG
1 AATTATAATTACAATAATTATAATAATG-TTTG
33872482 GTAAATTATG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 27 0.46
39 32 0.54
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATGTTTGACCAAA
Found at i:33876357 original size:4 final size:4
Alignment explanation
Indices: 33876343--33876380 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
33876333 AGGTGTAAAG
33876343 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA GTTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
33876381 AATTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33878746 original size:18 final size:18
Alignment explanation
Indices: 33878725--33878763 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33878715 GATTAAGAGT
* *
33878725 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
33878743 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
33878761 GAA
1 GAA
33878764 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:33880172 original size:12 final size:13
Alignment explanation
Indices: 33880155--33880183 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33880145 AAGTTTTATT
33880155 TTTATTTA-TTTA
1 TTTATTTATTTTA
33880167 TTTATTTATTTTA
1 TTTATTTATTTTA
33880180 TTTA
1 TTTA
33880184 GTTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:33880195 original size:21 final size:20
Alignment explanation
Indices: 33880143--33880196 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
33880133 GCCCAAGTTG
*
33880143 TAAAGTTTTATTTTTATTTAT
1 TAAATTTTTA-TTTTATTTAT
* *
33880164 TTATTTATTTATTTTATTTAGT
1 TAAATT-TTTATTTTATTTA-T
33880186 TAAATTTTTAT
1 TAAATTTTTAT
33880197 ATTCAGTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TAAATTTTTATTTTATTTAT
Found at i:33882355 original size:19 final size:18
Alignment explanation
Indices: 33882331--33882443 Score: 83
Period size: 19 Copynumber: 6.1 Consensus size: 18
33882321 ATTTCAAAAA
33882331 TAATATTAATTTAATAGTT
1 TAATATTAATTTAATA-TT
*
33882350 TAATATTAAATTAA-ATT
1 TAATATTAATTTAATATT
33882367 TAATACTT-ATCTTAATATT
1 TAATA-TTAAT-TTAATATT
**
33882386 ATTTTATTAATTTAATATT
1 -TAATATTAATTTAATATT
*
33882405 AAAGTGATT-ATCTTAATA-T
1 TAA-T-ATTAAT-TTAATATT
33882424 TAA-ACTTAATTTAATATT
1 TAATA-TTAATTTAATATT
33882442 TA
1 TA
33882444 TCTTGTAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 23
0.71 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 16 0.21
18 12 0.16
19 32 0.43
20 14 0.19
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (18 bp):
TAATATTAATTTAATATT
Found at i:33882517 original size:15 final size:16
Alignment explanation
Indices: 33882480--33882534 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
33882470 TAATAAGATT
*
33882480 TAATATTAAATTAATA
1 TAATATTATATTAATA
*
33882496 TAATATTATTTTAATA
1 TAATATTATATTAATA
*
33882512 -AATATTATATTAATT
1 TAATATTATATTAATA
33882527 TAATATTA
1 TAATATTA
33882535 AAATGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 13 0.38
16 21 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATATTATATTAATA
Found at i:33882529 original size:57 final size:62
Alignment explanation
Indices: 33882417--33882531 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 62
33882407 AGTGATTATC
* * *
33882417 TTAATATTAAACTTAATTTAATATTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAACTTAATATAATATTTATCTTGTAGATAAACATTATATTAATTTAATAAGAT
*
33882479 TTAATATTAAA-TTAATATAATA-TTAT-TT-TA-ATAAATATTATATTAATTTAATA
1 TTAATATTAAACTTAATATAATATTTATCTTGTAGATAAACATTATATTAATTTAATA
33882532 TTAAAATGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 20 0.41
58 2 0.04
59 2 0.04
60 4 0.08
61 10 0.20
62 11 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (62 bp):
TTAATATTAAACTTAATATAATATTTATCTTGTAGATAAACATTATATTAATTTAATAAGAT
Found at i:33885039 original size:17 final size:18
Alignment explanation
Indices: 33885004--33885045 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
33884994 ATGCAGGTGC
*
33885004 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
33885022 GTATCCTAA-CCTTATAT
1 GTATCCTAACCCTTATAT
*
33885039 GTTTCCT
1 GTATCCT
33885046 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:33885833 original size:12 final size:12
Alignment explanation
Indices: 33885816--33885846 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33885806 ACTTAAAAAC
33885816 ACCCTAACCTTA
1 ACCCTAACCTTA
33885828 ACCCTAACCTTA
1 ACCCTAACCTTA
33885840 ACCCTAA
1 ACCCTAA
33885847 TATAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCCTAACCTTA
Found at i:33886059 original size:224 final size:221
Alignment explanation
Indices: 33885657--33886207 Score: 791
Period size: 224 Copynumber: 2.5 Consensus size: 221
33885647 TTACTTGACA
*
33885657 AACCCTAAACCCTAATTTAATTAATTTTTTCTTAAAAATAATAAACACGAAAACTAATCCAATTT
1 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATAATAAACACGAAAACTAATCCAATTT
* * * * *
33885722 GGGCTACGATATTTATAAATAATTAAATTGACAAACCTTAAACTCTAACCCTAATTTATTTGATT
66 -TG--A-AAAATTTATAAATAATTTAATTGACAAACC-TAAACTCTAACCCTAATTTATTTGACT
*
33885787 TTTTCCTTTAAAACCCTTAACTTAAAAACACCCTAACCTTAACCCTAACCTTAACCCTAATATAA
126 TTTTCCTTTAAAACCCTTAACTTAAAAACACCCTAACCTTAACCCTAACCCTAACCCTAATATAA
33885852 TTTTT-AA-TTTTTAATT-AATTACTCAAGT
191 TTTTTAAATTTTTTAATTAAATTACTCAAGT
*
33885880 AACCCTAAACTCTAATTTAATTGATTTTTTCTTAAACAATAATAAACACGAAAACTAATCCAATT
1 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAA-AATAATAAACACGAAAACTAATCCAATT
33885945 TTGAAAAATTTATAAATAATTTAATTGACAAACTCTAAACTCTAAACCCTAATTTATTTG-CTTT
65 TTGAAAAATTTATAAATAATTTAATTGACAAAC-CTAAACTCT-AACCCTAATTTATTTGACTTT
33886009 TTCC-TTAAAACCCTTAACTT-AAAACACCCTAAACTCAACCTTAACCCTAACCCTAACCCTAAT
128 TTCCTTTAAAACCCTTAACTTAAAAACA-CC----CT-AACCTTAACCCTAACCCTAACCCTAAT
*
33886072 TTAATTTTTAAAATTTTTTAATTAAATTACTCAAGT
187 ATAATTTTT-AAATTTTTTAATTAAATTACTCAAGT
*
33886108 AACCCT-AACCCTAATTTAATTGA-TTTTTCTTAAAAATAATAAACACG-AAACTAATCCAATTA
1 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATAATAAACACGAAAACTAATCCAATTT
33886170 TG-AAAA-TTATAAATAATTTAATTGACAAACCCTAAACT
66 TGAAAAATTTATAAATAATTTAATTGACAAA-CCTAAACT
33886208 AGAGGTGTTC
Statistics
Matches: 303, Mismatches: 11, Indels: 29
0.88 0.03 0.08
Matches are distributed among these distances:
218 6 0.02
219 18 0.06
220 41 0.14
221 18 0.06
222 30 0.10
223 42 0.14
224 79 0.26
225 13 0.04
226 13 0.04
227 25 0.08
228 18 0.06
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (221 bp):
AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATAATAAACACGAAAACTAATCCAATTT
TGAAAAATTTATAAATAATTTAATTGACAAACCTAAACTCTAACCCTAATTTATTTGACTTTTTC
CTTTAAAACCCTTAACTTAAAAACACCCTAACCTTAACCCTAACCCTAACCCTAATATAATTTTT
AAATTTTTTAATTAAATTACTCAAGT
Found at i:33886454 original size:39 final size:36
Alignment explanation
Indices: 33886382--33886455 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 36
33886372 CGAATATAAT
33886382 AAATATTTTTTATTCTTTAATTTTAAAATATTTTTA
1 AAATATTTTTTATTCTTTAATTTTAAAATATTTTTA
*
33886418 AAATACTTTTTTATTCTTTTTATATTTAAAATATTTTT
1 AAATA-TTTTTTATTC-TTTAAT-TTTAAAATATTTTT
33886456 TTTGGTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 5 0.15
37 10 0.29
38 5 0.15
39 14 0.41
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (36 bp):
AAATATTTTTTATTCTTTAATTTTAAAATATTTTTA
Found at i:33909841 original size:19 final size:18
Alignment explanation
Indices: 33909734--33909846 Score: 83
Period size: 19 Copynumber: 6.1 Consensus size: 18
33909724 ATCTACAAGA
33909734 TAAATATTAAATTAAGT-T
1 TAAATATTAAATTAA-TAT
33909752 T-AATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAAT-A-T
* *
33909771 TTAATATTAAATTAATAA
1 TAAATATTAAATTAATAT
*
33909789 AATAATATTAAGA-TAAGTAT
1 TA-AATATTAA-ATTAA-TAT
*
33909809 TAAAT-TTAATTTAATAT
1 TAAATATTAAATTAATAT
33909826 TAAACTATTAAATTAATAT
1 TAAA-TATTAAATTAATAT
33909845 TA
1 TA
33909847 TTTTTGAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 23
0.72 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 18 0.24
18 10 0.13
19 31 0.41
20 16 0.21
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATATTAAATTAATAT
Found at i:33911830 original size:16 final size:17
Alignment explanation
Indices: 33911809--33911854 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
33911799 TGGACTGAAT
33911809 ATAAAAATTAAACT-AA
1 ATAAAAATTAAACTAAA
*
33911825 ATAAAAAATAAA-TAAA
1 ATAAAAATTAAACTAAA
*
33911841 ATAAAAATAAAACT
1 ATAAAAATTAAACT
33911855 TACAACTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAATTAAACTAAA
Found at i:33911840 original size:15 final size:16
Alignment explanation
Indices: 33911809--33911851 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
33911799 TGGACTGAAT
*
33911809 ATAAAAATTAAACTAA
1 ATAAAAAATAAACTAA
33911825 ATAAAAAATAAA-TAA
1 ATAAAAAATAAACTAA
33911840 A-ATAAAAATAAA
1 ATA-AAAAATAAA
33911852 ACTTACAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 13 0.52
16 11 0.44
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAAAAATAAACTAA
Found at i:33915609 original size:22 final size:22
Alignment explanation
Indices: 33915584--33915638 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
33915574 TGGACTGAAT
33915584 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAA-TAAATAAAA
*
33915606 ATAAATAA-ATAAATAAATAAAA
1 ATAAA-AATTTAAATAAATAAAA
*
33915628 ATAAAACTTTA
1 ATAAAAATTTA
33915639 CACCTTGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.22
22 19 0.70
23 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAAATTTAAATAAATAAAA
Found at i:33915611 original size:4 final size:4
Alignment explanation
Indices: 33915593--33915626 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33915583 TATAAAAATT
33915593 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
33915627 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33923921 original size:22 final size:22
Alignment explanation
Indices: 33923861--33923918 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
33923851 AATCTTCAAG
33923861 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33923880 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33923902 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33923919 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33923928 original size:22 final size:22
Alignment explanation
Indices: 33923887--33923932 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
33923877 TATGATATGC
*
33923887 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
33923910 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
33923931 AA
1 AA
33923933 ATACCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:33923931 original size:21 final size:23
Alignment explanation
Indices: 33923874--33923932 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
33923864 ATGCAATCTT
* *
33923874 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
33923896 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
33923918 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
33923933 ATACCCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:33926880 original size:54 final size:53
Alignment explanation
Indices: 33926783--33926897 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 53
33926773 AATTTTTGTA
*
33926783 TGTCAATGGCCGACATCACCAGTACAAAAAAATAAAATTTTTTTGGTGCTGGCC
1 TGTCAATGGCCGACAGCACCAGTACAAAAAAATAAAA-TTTTTTGGTGCTGGCC
* *
33926837 TGTCAATGGCCGACGGCAGCAGTACGAACCAAAAA-AAAATTTTTTGGTGCTGGCC
1 TGTCAATGGCCGACAGCACCAGTAC-AA--AAAAATAAAATTTTTTGGTGCTGGCC
*
33926892 TATCAA
1 TGTCAA
33926898 ATTTATCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
54 22 0.41
55 23 0.43
56 4 0.07
57 5 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (53 bp):
TGTCAATGGCCGACAGCACCAGTACAAAAAAATAAAATTTTTTGGTGCTGGCC
Found at i:33927070 original size:22 final size:21
Alignment explanation
Indices: 33927045--33927102 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
33927035 ATATTATAGG
33927045 AAAATTTAAATGAAACTAAAAT
1 AAAATTT-AATGAAACTAAAAT
* *
33927067 AAAAATTAATGAAATTAAAAT
1 AAAATTTAATGAAACTAAAAT
*
33927088 AAATTTTGAATGAAA
1 AAAATTT-AATGAAA
33927103 AAAAAGGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAATTTAATGAAACTAAAAT
Found at i:33927373 original size:50 final size:49
Alignment explanation
Indices: 33927287--33927567 Score: 255
Period size: 49 Copynumber: 5.7 Consensus size: 49
33927277 ACTATAAATA
* ****** *
33927287 GGCCATTGACAGGCCAGCACCAAAAAAAAAAATTTCGTACTGCTGGTGCT
1 GGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTA-TGCTGGTGCC
* * * *
33927337 GGCCATTGACAGGCCAACTCCCAAAATTTTTTTTTCGTATTGGTGGTGTC
1 GGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTA-TGCTGGTGCC
* *
33927387 GGTCATTGACAGGCCAGCACCCAAAA-TTTTTTTTCGTACTGGTGGTGCC
1 GGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTA-TGCTGGTGCC
* * * **
33927436 GGCTATTGACAGGCCAGCACCC--AATCGTTTTTTTCGTATACTAATGCC
1 GGCCATTGACAGGCCAGCACCCAAAAT-TTTTTTTTCGTATGCTGGTGCC
* * * *
33927484 GACCATTGACAATG-CAGCACCCAAAATTTTTTTTTTGTATACTGGTGCC
1 GGCCATTGAC-AGGCCAGCACCCAAAATTTTTTTTTCGTATGCTGGTGCC
* *
33927533 GGCCATTGACAGGCCAACACCCCAAAAATTTTTTT
1 GGCCATTGACAGGCCAGCA-CCCAAAATTTTTTTT
33927568 AAAAAATTTT
Statistics
Matches: 188, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.01
48 24 0.13
49 85 0.45
50 77 0.41
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (49 bp):
GGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTATGCTGGTGCC
Found at i:33928193 original size:48 final size:48
Alignment explanation
Indices: 33928051--33928201 Score: 171
Period size: 47 Copynumber: 3.1 Consensus size: 48
33928041 AAAAAAAAAC
* *
33928051 AAAAAAATTTGGGATGCTGGCTTGTCAATGGCCGGCACCACCAGTAC-A
1 AAAAAAATTTGGG-TGCTGGCTTGTCAATGGCCGGCACCAGCAATACGA
* ** * *
33928099 AAAAAATTTTGGGTGCTAACTTGTCAATGG-CTGCACTAGCAATACGA
1 AAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCAGCAATACGA
* * * *
33928146 AAAAAAATTTGTGTGTTGGCCTGTCAATGGCCGGCACCAGCATTACGA
1 AAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCAGCAATACGA
33928194 AAAGAAAA
1 AAA-AAAA
33928202 AATTTTTTAG
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
46 11 0.13
47 40 0.48
48 29 0.35
49 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (48 bp):
AAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCAGCAATACGA
Found at i:33928746 original size:48 final size:48
Alignment explanation
Indices: 33928695--33928914 Score: 216
Period size: 49 Copynumber: 4.6 Consensus size: 48
33928685 TTGGTGTCGA
*
33928695 CCATTGATAGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCCAA
1 CCATTGATAGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCCAG
* * *
33928743 CCATTGACT-GGCCAGCACACAAAATTTTTTTTCGTACTGGTGGTGTCAG
1 CCATTGA-TAGGCCAGCAC-CAAAAATTTTTTTCATACTGGTGGTGCCAG
* * * * *
33928792 CCATTGACAGGCTAGCACCCAAAATTTTTTT-ATACTAGTGGTGCCGG
1 CCATTGATAGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCCAG
* * * * * **
33928839 TCATTGACAGGGCAGCACC--TAATTTTTTTCGTA-TACTGGTGCCAG
1 CCATTGATAGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCCAG
* * *
33928884 TCATTGATAGGCCAGCACCCAAATTTTTTTT
1 CCATTGATAGGCCAGCACCAAAAATTTTTTT
33928915 TGTTTTTTTA
Statistics
Matches: 143, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
45 36 0.25
46 2 0.01
47 36 0.25
48 27 0.19
49 42 0.29
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (48 bp):
CCATTGATAGGCCAGCACCAAAAATTTTTTTCATACTGGTGGTGCCAG
Found at i:33929716 original size:21 final size:22
Alignment explanation
Indices: 33929691--33929743 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
33929681 GTTCGGTAGG
33929691 AGAAAGAAAGAG-GAA-AAGAA
1 AGAAAGAAAGAGAGAAGAAGAA
*
33929711 AGGAAAGGAAG-GAGAAGAAGAA
1 A-GAAAGAAAGAGAGAAGAAGAA
33929733 AGAAAGAAAGA
1 AGAAAGAAAGA
33929744 AAATGTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 19 0.70
22 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AGAAAGAAAGAGAGAAGAAGAA
Found at i:33930133 original size:199 final size:195
Alignment explanation
Indices: 33929831--33930204 Score: 486
Period size: 199 Copynumber: 1.9 Consensus size: 195
33929821 TTATTAATTA
* * * *
33929831 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTGTGATTTCTTATGAATGTAATTTTTTTTAAATT
1 TTATAAACTGTTTGTATTTAGTTTAGTGTTTTGTGACTTCTTATGAATGTAATTATTTTT-AATT
* * * * * *
33929896 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGT-TCAGTG
65 ATTTTAAAATTATTTTGTTAGTAAGTTATGATTAGGTTATAAATTATTTG--TTAAGTCT-AATG
* * * *
33929960 TTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTTTTTTTAATTATTTTGTTAGTAATTTATT
127 TGTATTGTGATTTGTTAT-AATGTAATTTTATTT-ATTTTTTAATTATTTTGTTAGTAATTTATT
33930025 TTTAGG
190 TTTAGG
* *
33930031 TTATAAACTGTTTGTATTTAGTTTAGTGTTTATTGTGACTTGTTAT-AATGTAATTATTTTT-GT
1 TTATAAACTGTTTGTATTTAGTTTAGTG-TT-TTGTGACTTCTTATGAATGTAATTATTTTTAAT
33930094 GT-TTTTAAAATTATTTTGTTAGTAAGTTATGATTAGGTTATAAATTATTTGTTAAGTCTAATGT
64 -TATTTTAAAATTATTTTGTTAGTAAGTTATGATTAGGTTATAAATTATTTGTTAAGTCTAATGT
*
33930158 GTATTGTGATTTGTTATAATGTAATTTTATTTATTTTTTATTTATTT
128 GTATTGTGATTTGTTATAATGTAATTTTATTTATTTTTTAATTATTT
33930205 GACTATTTTC
Statistics
Matches: 153, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
195 13 0.08
196 14 0.09
197 24 0.16
198 1 0.01
199 46 0.30
200 27 0.18
201 16 0.10
202 12 0.08
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (195 bp):
TTATAAACTGTTTGTATTTAGTTTAGTGTTTTGTGACTTCTTATGAATGTAATTATTTTTAATTA
TTTTAAAATTATTTTGTTAGTAAGTTATGATTAGGTTATAAATTATTTGTTAAGTCTAATGTGTA
TTGTGATTTGTTATAATGTAATTTTATTTATTTTTTAATTATTTTGTTAGTAATTTATTTTTAGG
Found at i:33930136 original size:100 final size:99
Alignment explanation
Indices: 33929831--33930204 Score: 456
Period size: 99 Copynumber: 3.8 Consensus size: 99
33929821 TTATTAATTA
* *
33929831 TTATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGATTTCTTATGAATGTAATTTTTTTTAAA
1 TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTT---
* *
33929894 TTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
63 GT-TTTTATAATTATTTTGTTAGTAATTTATGATTAGG
* *
33929932 TTATAAATTGTTTGTATTTAGTTCAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTTGTT
1 TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTT
* **
33929997 TTTTTAATTATTTTGTTAGTAATTTATTTTTAGG
66 TTTATAATTATTTTGTTAGTAATTTATGATTAGG
* *
33930031 TTATAAACTGTTTGTATTTAGTTTAGTGTTTATTGTGACTTGTTAT-AATGTAATTATTTTTGTG
1 TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATT-TTTTT-TG
* *
33930095 TTTTTAAAATTATTTTGTTAGTAAGTTATGATTAGG
64 TTTTTATAATTATTTTGTTAGTAATTTATGATTAGG
* * * * * * *
33930131 TTATAAATTATTTG--TTAAGTCTAATGTGTATTGTGATTTGTTAT-AATGTAATTTTATTTATT
1 TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTT
*
33930193 TTT-TATTTATTT
66 TTTATAATTATTT
33930205 GACTATTTTC
Statistics
Matches: 241, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
95 7 0.03
96 6 0.02
97 4 0.02
98 43 0.18
99 78 0.32
100 46 0.19
101 26 0.11
102 2 0.01
103 29 0.12
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.59
Consensus pattern (99 bp):
TTATAAATTGTTTGTATTTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAATTTTTTTTGTT
TTTATAATTATTTTGTTAGTAATTTATGATTAGG
Found at i:33933247 original size:18 final size:18
Alignment explanation
Indices: 33933224--33933259 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33933214 TCCAGATCAA
33933224 TGCTACTGATCTGAATCC
1 TGCTACTGATCTGAATCC
33933242 TGCTACTGATCTGAATCC
1 TGCTACTGATCTGAATCC
33933260 GACTAACTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
TGCTACTGATCTGAATCC
Found at i:33933867 original size:9 final size:10
Alignment explanation
Indices: 33933824--33933866 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
33933814 TCAACATTTG
33933824 AATAAAT-AA
1 AATAAATAAA
33933833 AATAAATAATCA
1 AATAAATAA--A
33933845 AATAAATCAAA
1 AATAAAT-AAA
33933856 AATAAATAAA
1 AATAAATAAA
33933866 A
1 A
33933867 TTACATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 7 0.23
10 5 0.17
11 8 0.27
12 8 0.27
13 2 0.07
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (10 bp):
AATAAATAAA
Found at i:33934043 original size:110 final size:108
Alignment explanation
Indices: 33933853--33934891 Score: 1220
Period size: 110 Copynumber: 9.6 Consensus size: 108
33933843 CAAATAAATC
* * * * *
33933853 AAAAATAAATAAAATTACATT-ATAACAAATCACAATACACATTAAACT-AA-ACAAATAATTTA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCACAA-A-ACACTAAACTAAACACAAACAATTTA
*
33933915 TAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAATTTA
64 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* * *
33933960 AAAAACACAAATAATTACATTTATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTA
* * *
33934025 TAATCTAATCATAGATTACTAACAAAATAACTTTAAAATAA-CT-
64 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* * *
33934068 ------AAAAAAATTTACATTCGTAAAAAATCACAATAAACACTAAACTAAACCCAAACAATTTA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTA
*
33934127 TAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAA
64 TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTT-A
** * * *
33934173 AAAAACAAAAAATTTTACA-TCTATAGAAAATCACAATAAACATTAAACTAAGCACAAACAATTT
1 AAAAACAAAAAAAATTACATTC-ATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTT
* * *
33934237 ATAACCTAACCATAAATTACTAACAAAATGACTTTAAAATAATTAAA
63 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT-TA
* *
33934284 AAAATACAAAAAAAAATACATTCATAAAAAAACACAAAACACTAAACTAAACACAAACAATTTAT
1 AAAA-ACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
* * *
33934349 AACCTGATAATAAATTACTAACAAAATAACTATAAAATAATTT-
65 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
**** * * *
33934392 ---TTTTAAAAAATTTACATTCATATATAAAAATCACAAAAGACTAAACTAGACACAAACAATTT
1 AAAAACAAAAAAAATTACATTC--ATA-AAAAATCACAAAACACTAAACTAAACACAAACAATTT
* * * *
33934454 ATAGCCTGATCATAAGTTACTAACAAAATAACTATAAAATAATTTAAA
63 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTT--A
*
33934502 AAAAACAAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTAT
1 AAAAAC-AAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
*
33934567 AACCTAATCATAAATTACTAACAAAATAACTATAAAAT-A---A
65 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* * * * *
33934607 AACAA-AAAAATATTTAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATA
* **
33934671 ACCTAATCATAAATTACTAAAAAACATAACAATAAAATAATTTAA
66 ACCTAATCATAAATTACTAACAAA-ATAACTTTAAAATAATTT-A
* *
33934716 AAAAACAAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATA
1 AAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATA
** *
33934781 AAGTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAA
66 ACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTT-A
* *
33934825 AAAAACAAAAAAATATTACATTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTAT
1 AAAAACAAAAAAA-ATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
33934890 AA
65 AA
33934892 TAATTAATAA
Statistics
Matches: 808, Mismatches: 88, Indels: 69
0.84 0.09 0.07
Matches are distributed among these distances:
102 91 0.11
103 78 0.10
104 25 0.03
105 6 0.01
106 3 0.00
107 93 0.12
108 20 0.02
109 40 0.05
110 244 0.30
111 167 0.21
112 25 0.03
113 2 0.00
114 14 0.02
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (108 bp):
AAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATA
ACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
Found at i:33934240 original size:323 final size:316
Alignment explanation
Indices: 33933853--33934891 Score: 1251
Period size: 323 Copynumber: 3.2 Consensus size: 316
33933843 CAAATAAATC
* * * *
33933853 AAAAATAAATAAA-ATTACATT-ATAACAAATCACAATACACATTAAACT-AA-ACAAATAATTT
1 AAAAACAAAAAAATATTACATTCATAA-AAATCACAA-AAACATTAAACTAAACACAAACAATTT
33933914 ATAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAATTTAAAAAACACAAATAATTACA
64 ATAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAA-TTAAAAAACA-AAATAATTACA
* * *
33933979 TTTATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAATCTAATCATAGATTAC
127 TTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTAC
*
33934044 TAACAAAATAACTTTAAAATAACTAAAAAAATTTACATTCGTAAAAAATCACAATAAACACTAAA
190 TAACAAAATAACTTTAAAATAACTAAAAAAATTTACATTCATAAAAAATCAC-A-AAACACTAAA
*
33934109 CTAAACCCAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAA
253 CTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAA
* *
33934173 AAAAAC-AAAAAATTTTACA-TCTATAGAAAATCACAATAAACATTAAACTAAGCACAAACAATT
1 AAAAACAAAAAAATATTACATTC-ATA-AAAATCACAA-AAACATTAAACTAAACACAAACAATT
* * *
33934236 TATAACCTAACCATAAATTACTAACAAAAT-GACTTTAAAATAATTAAAAAAATACAAAAAAAAA
63 TATAACCTAATCATAAATTACTAACAAAATAG-CTTTAAAATAATT--AAAAA-AC-AAAATAAT
* * *
33934300 TACATTCATAAAAAAACACAAAACACTAAACTAAACACAAACAATTTATAACCTGATAATAAATT
123 TACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATT
* * *
33934365 ACTAACAAAATAACTATAAAATAATTTTTTTAAAAAATTTACATTCATATATAAAAATCACAAAA
188 ACTAACAAAATAACTTTAAAATAA----CTAAAAAAATTTACATTC--ATA-AAAAATCACAAAA
* * * * * * *
33934430 GACTAAACTAGACACAAACAATTTATAGCCTGATCATAAGTTACTAACAAAATAACTATAAAATA
246 CACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATA
33934495 ATTTAAA
311 ATTT-AA
* * *
33934502 AAAAACAAAAAAAAATTACATTCATAAAAAATCAC-AAAACACTAAACTAAATACAAACAATTTA
1 AAAAACAAAAAAATATTACATTCAT-AAAAATCACAAAAACATTAAACTAAACACAAACAATTTA
* * * * *
33934566 TAACCTAATCATAAATTACTAACAAAATAACTATAAAATAA--AACAAA-AAAATATTTAAATTC
65 TAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAATTAAAAAACAAAATAATTACATTC
*
33934628 ATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAAAA
130 ATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACT----
* * * * *
33934693 AACATAACAATAAAATAATTTAAAAAAAC-AAAAAAAATTACATTCATAGAAAATCACAAAATAC
191 AAC--AA-AAT---A-ACTTTAAAATAACTAAAAAAATTTACATTCATAAAAAATCACAAAACAC
**
33934757 TAAACTAAACACAAACAATTTATAAAGTAATCATAAATTACTAACAAAATAACTTTCAAATAATT
249 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATT
33934822 TAA
314 TAA
33934825 AAAAACAAAAAAATATTACATTCATAAAGAATCACAAAATAC--TAAACTAAACACAAACAATTT
1 AAAAACAAAAAAATATTACATTCATAAA-AATCACAAAA-ACATTAAACTAAACACAAACAATTT
33934888 ATAA
64 ATAA
33934892 TAATTAATAA
Statistics
Matches: 620, Mismatches: 62, Indels: 71
0.82 0.08 0.09
Matches are distributed among these distances:
319 6 0.01
320 10 0.02
321 92 0.15
322 8 0.01
323 170 0.27
324 85 0.14
325 32 0.05
326 1 0.00
327 32 0.05
328 129 0.21
329 12 0.02
330 30 0.05
331 4 0.01
332 9 0.01
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (316 bp):
AAAAACAAAAAAATATTACATTCATAAAAATCACAAAAACATTAAACTAAACACAAACAATTTAT
AACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAATTAAAAAACAAAATAATTACATTCA
TAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAA
AATAACTTTAAAATAACTAAAAAAATTTACATTCATAAAAAATCACAAAACACTAAACTAAACAC
AAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAA
Found at i:33934258 original size:213 final size:208
Alignment explanation
Indices: 33933853--33934891 Score: 1063
Period size: 213 Copynumber: 4.8 Consensus size: 208
33933843 CAAATAAATC
* * * *
33933853 AAAAA-TAAATAAAATTACATT-ATAACAAATCACAATACACATTAAACT-AA-ACAAATAATTT
1 AAAAACTAAAAAAAATTACATTCATAAAAAATCACAA-A-ACACTAAACTAAACACAAACAATTT
* *
33933914 ATAACCTAATCATAAATTACTAACAAAATAGCTTTAAAATAATTTAAAAAACACAAATAA--TTA
64 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAA-ACAAAAAATTTTA
* * *
33933977 CATTTATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAATCTAATCATAGATT
128 CA-TTATAAAAAATCAC-A-AAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATT
33934042 ACTAACAAAATAACTTTAA
190 ACTAACAAAATAACTTTAA
* * * *
33934061 AATAACTAAAAAAATTTACATTCGTAAAAAATCACAATAAACACTAAACTAAACCCAAACAATTT
1 AAAAACTAAAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTT
*
33934126 ATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAAAAAAACAAAAAATTTTAC
64 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACAAAAAATTTTAC
* * *
33934191 ATCTATAGAAAATCACAATAA-ACATTAAACTAAGCACAAACAATTTATAACCTAACCATAAATT
129 AT-TATAAAAAATCACAA-AATAC--TAAACTAAACACAAACAATTTATAACCTAATCATAAATT
*
33934255 ACTAACAAAATGACTTTAAAATAATTA
190 ACTAACAAAATAAC-TT----T-A--A
* * *
33934282 AAAAAATACAAAAAAAAATACATTCATAAAAAAACACAAAACACTAAACTAAACACAAACAATTT
1 AAAAACT--AAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTT
* * * ****
33934347 ATAACCTGATAATAAATTACTAACAAAATAACTATAAAATAATTT----TTTTAAAAAA-TTTAC
64 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACAAAAAATTTTAC
* * * * *
33934407 ATTCATATATAAAAATCACAAAAGACTAAACTAGACACAAACAATTTATAGCCTGATCATAAGTT
129 A-T--TATA-AAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATT
33934472 ACTAACAAAATAACTATAAAATAATTTAAA
190 ACTAACAAAATAAC----------TTT-AA
* *
33934502 AAAAACAAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTAT
1 AAAAACTAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
* * * *
33934567 AACCTAATCATAAATTACTAACAAAATAACTATAAAAT-A---AAACAAA-AAAATA-TTTAAAT
66 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACAAAAAATTTTACAT
33934626 TCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAA
131 T-ATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACT--
*
33934691 AAAACATAACAATAAAATAATTTAA
193 --AAC--AA-AAT---A-ACTTTAA
* *
33934716 AAAAAC-AAAAAAAATTACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTAT
1 AAAAACTAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
** * *
33934780 AAAGTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTAAAAAAACAAAAAAATATTACA
66 AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAAC-AAAAAATTTTACA
*
33934845 TTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAA
130 TT-ATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAA
33934892 TAATTAATAA
Statistics
Matches: 701, Mismatches: 72, Indels: 104
0.80 0.08 0.12
Matches are distributed among these distances:
208 4 0.01
209 14 0.02
210 19 0.03
211 14 0.02
212 63 0.09
213 154 0.22
214 65 0.09
215 6 0.01
216 7 0.01
217 70 0.10
218 101 0.14
219 18 0.03
220 58 0.08
221 76 0.11
222 4 0.01
223 24 0.03
224 1 0.00
225 1 0.00
226 2 0.00
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (208 bp):
AAAAACTAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTAT
AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACAAAAAATTTTACAT
TATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAAC
AAAATAACTTTAA
Found at i:33934578 original size:51 final size:50
Alignment explanation
Indices: 33934523--33934683 Score: 150
Period size: 51 Copynumber: 3.1 Consensus size: 50
33934513 AAAATTACAT
*
33934523 TCATAAAAAATCACAAAACACTAAACTAAATACAAACAATTTATAACCTAA
1 TCATAAAAAATCACAAAAAACTAAACTAAA-ACAAACAATTTATAACCTAA
* * * * * *
33934574 TCATAAATTACTAACAAAATAACTATAAAATAAAACAAAAAAATATT-TAA---AT
1 TCATAAA-AAATCACAAAA-AAC--TAAACTAAAAC-AAACAAT-TTATAACCTAA
*
33934626 TCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAA
1 TCATAAAAAATCACAAAAAACTAAACTAAA-ACAAACAATTTATAACCTAA
33934677 TCATAAA
1 TCATAAA
33934684 TTACTAAAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
47 2 0.02
48 17 0.20
49 2 0.02
50 2 0.02
51 23 0.27
52 16 0.19
53 2 0.02
54 2 0.02
55 17 0.20
56 2 0.02
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (50 bp):
TCATAAAAAATCACAAAAAACTAAACTAAAACAAACAATTTATAACCTAA
Found at i:33934692 original size:59 final size:57
Alignment explanation
Indices: 33934621--33934895 Score: 158
Period size: 51 Copynumber: 5.0 Consensus size: 57
33934611 AAAAAATATT
33934621 TAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAACCTAATCA
1 TAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAA--TAATCA
* * ** *
33934680 TAAATT-ACTAAAAAA-CATAACAATAAAATAATTTAAA-A-AAACAA---A-AAAAAT--
1 TAAATTCA-TAAAAAATCACAA-AAT--ACTAAACTAAACACAAACAATTTATAATAATCA
* *
33934731 TACATTCATAGAAAATCACAAAATACTAAACTAAACACAAACAATTTATAAAGTAATCA
1 TAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTAT-AA-TAATCA
* ** ** **
33934790 TAAATT-ACTAACAAAATAACTTTCAA-A-TAATTTAAA-A-AAACAA---A-AA-AATAT
1 TAAATTCA-TAA-AAAATCAC--AAAATACTAAACTAAACACAAACAATTTATAATAATCA
* *
33934841 TACATTCATAAAGAATCACAAAATACTAAACTAAACACAAACAATTTATAATAAT
1 TAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAATAAT
33934896 TAATAACAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 62
0.64 0.11 0.25
Matches are distributed among these distances:
48 2 0.01
49 9 0.06
50 14 0.09
51 32 0.20
52 12 0.08
53 5 0.03
54 1 0.01
55 4 0.03
56 5 0.03
57 6 0.04
58 12 0.08
59 30 0.19
60 15 0.09
61 9 0.06
62 2 0.01
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.24
Consensus pattern (57 bp):
TAAATTCATAAAAAATCACAAAATACTAAACTAAACACAAACAATTTATAATAATCA
Found at i:33935637 original size:96 final size:98
Alignment explanation
Indices: 33935263--33935853 Score: 737
Period size: 96 Copynumber: 6.1 Consensus size: 98
33935253 AAATAAGGGT
* * * * *
33935263 TTAGGGTTTAGGATTTCTTAATTAAATTAATTATAAATTTT-AAAAAATTAGATTA-GGTTTTAG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAAG
* * *
33935326 TGTTTATGGTTTTTAAGGAAAAAATCAAATAAA
66 TGTTTAAGATTTTTAAAGAAAAAATCAAATAAA
* *
33935359 TTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAAAAA-TAGATTAGGGTTT-
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA--ATTTTAAAAAAATTAGATTAGGGTTTA
33935422 AGTGTTT-AGATTTTT-AAGAAAAAAATCAAATAAA
64 AGTGTTTAAGATTTTTAAAG-AAAAAATCAAATAAA
* * * *
33935456 TAAGGATTTAGGGTTTCTTAAGTAAATTAATTATAAAATTTTTAAAAAAA-TAGATTAGGGTTTA
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AAA-TTTTAAAAAAATTAGATTAGGGTTTA
* **
33935520 A---TTTAGGGGTTTT-AAGAAAAAAATCAAATAAA
64 AGTGTTTAAGATTTTTAAAG-AAAAAATCAAATAAA
* * *
33935552 TTAGGGTTT-GGGTTACTTGAGTAAATTAATTATAAACTTTAAAAAAATTAAATTACGGTTTAAG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAAG
33935616 -GTTTAAGATTTTTAAAGAAAAAATCAAATAAA
66 TGTTTAAGATTTTTAAAGAAAAAATCAAATAAA
* *
33935648 TAAGGGTTTAGGGTTTCTTGAGTAAATTAATTATAAAATTTTAAAAAAATTAGATTAGGGTTT-A
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AAATTTTAAAAAAATTAGATTAGGGTTTAA
* ** *
33935712 GTGTTTAGGGGTTTTAATGAAAAAATCAAATAAA
65 GTGTTTAAGATTTTTAAAGAAAAAATCAAATAAA
* * * *
33935746 TTAGGGTTT-GGGTGACTTGAGTAAATTAATTATAAACTTTAAAAAAATTAAATTACGGTTTAAG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAAG
33935810 -GTTTAAGATTTTTAAAGAAAAAATCAAATAAA
66 TGTTTAAGATTTTTAAAGAAAAAATCAAATAAA
33935842 TTAGGGTTTAGG
1 TTAGGGTTTAGG
33935854 ATTTAGGGTT
Statistics
Matches: 430, Mismatches: 47, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
93 10 0.02
94 16 0.04
95 25 0.06
96 158 0.37
97 128 0.30
98 82 0.19
99 11 0.03
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (98 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAAG
TGTTTAAGATTTTTAAAGAAAAAATCAAATAAA
Found at i:33935771 original size:289 final size:292
Alignment explanation
Indices: 33935231--33935853 Score: 802
Period size: 289 Copynumber: 2.1 Consensus size: 292
33935221 TAGATTTTAT
* * *
33935231 GGTTTTAAGAAAAAAATTAAATAAATAAGGGTTTAGGGTTTAGGATTTCTTAATTAAATTAATTA
1 GGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTT--GA--TCTTAAGTAAATTAATTA
* * * * * *
33935296 TAAATTTTAAAAAATTAGATTAGGTTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAAATAAATT
62 TAAATTTAAAAAAATTAAATTAGGTTTAAGTGTTTAAGATTTTTAAAGAAAAAATCAAATAAATT
**
33935361 AAGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAAAAATAGATTAGGGTTTAGTG
127 AAGGTTTAGGGTTACTTGAGTAAATTAATTATAATAATTTTAAAAAAATAGATTAGGGTTTAGTG
* **
33935426 TTTAGATTTTTAAGAAAAAAATCAAATAAATAAGGATTTAGGGTTTCTTAAGTAAATTAATTATA
192 TTTAGAGTTTTAAGAAAAAAATCAAATAAATAAGGATTTAGGGTGACTTAAGTAAATTAATTAT-
* * * *
33935491 AAATTTTTAAAAAAA-TAGATTAGGGTTTAA-TTTAGG
256 AAA-CTTTAAAAAAATTAAATTACGGTTTAAGTTTAAG
*
33935527 GGTTTTAAGAAAAAAATCAAATAAATTAGGGTTT-GGG-TT-A-CTTGAGTAAATTAATTATAAA
1 GGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTTGATCTTAAGTAAATTAATTATAAA
33935588 CTTTAAAAAAATTAAATTACGGTTTAAG-GTTTAAGATTTTTAAAGAAAAAATCAAATAAA-TAA
66 -TTTAAAAAAATTAAATTA-GGTTTAAGTGTTTAAGATTTTTAAAGAAAAAATCAAATAAATTAA
*
33935651 GGGTTTAGGGTTTCTTGAGTAAATTAATTATAA-AATTTTAAAAAAATTAGATTAGGGTTTAGTG
129 -GGTTTAGGGTTACTTGAGTAAATTAATTATAATAATTTTAAAAAAA-TAGATTAGGGTTTAGTG
* * * *
33935715 TTTAGGGGTTTTAATG-AAAAAATCAAATAAATTAGGGTTT-GGGTGACTTGAGTAAATTAATTA
192 TTTA-GAGTTTTAA-GAAAAAAATCAAATAAATAAGGATTTAGGGTGACTTAAGTAAATTAATTA
33935778 TAAACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAG
255 TAAACTTTAAAAAAATTAAATTACGGTTTAA-GTTTAAG
**
33935817 ATTTTTAA-AGAAAAAATCAAATAAATTAGGGTTTAGG
1 GGTTTTAAGA-AAAAAATCAAATAAATTAGGGTTTAGG
33935854 ATTTAGGGTT
Statistics
Matches: 290, Mismatches: 26, Indels: 27
0.85 0.08 0.08
Matches are distributed among these distances:
287 10 0.03
288 49 0.17
289 119 0.41
290 71 0.24
291 4 0.01
294 2 0.01
295 3 0.01
296 32 0.11
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (292 bp):
GGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTTGATCTTAAGTAAATTAATTATAAA
TTTAAAAAAATTAAATTAGGTTTAAGTGTTTAAGATTTTTAAAGAAAAAATCAAATAAATTAAGG
TTTAGGGTTACTTGAGTAAATTAATTATAATAATTTTAAAAAAATAGATTAGGGTTTAGTGTTTA
GAGTTTTAAGAAAAAAATCAAATAAATAAGGATTTAGGGTGACTTAAGTAAATTAATTATAAACT
TTAAAAAAATTAAATTACGGTTTAAGTTTAAG
Found at i:33935796 original size:194 final size:193
Alignment explanation
Indices: 33935265--33935853 Score: 899
Period size: 194 Copynumber: 3.1 Consensus size: 193
33935255 ATAAGGGTTT
* * *
33935265 AGGGTTTAGGATTTCTTAATTAAATTAATTAT-AAATTTT-AAAAAATTAGATTAGGTTTTAGTG
1 AGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
* * *
33935328 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATTAT
66 TTTAGGGGTTTTAA-GAAAAAATCAAATAAATTAGGGTTT-GGGTTACTTGAGTAAATTAATTAT
** * *
33935393 AATTTTTTTAAAAAAA-TAGATTAGGGTTT-AGTGTTT-AGATTTTT-AAGAAAAAAATCAAATA
129 AA--ACTTTAAAAAAATTAAATTACGGTTTAAG-GTTTAAGATTTTTAAAG-AAAAAATCAAATA
33935454 AATA
190 AATA
*
33935458 AGGATTTAGGGTTTCTTAAGTAAATTAATTATAAAATTTTTAAAAAAA-TAGATTAGGGTTTA--
1 AGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAAA-TTTTAAAAAAATTAGATTAGGGTTTAGT
*
33935520 ATTTAGGGGTTTTAAGAAAAAAATCAAATAAATTAGGGTTTGGGTTACTTGAGTAAATTAATTAT
65 GTTTAGGGGTTTTAAG-AAAAAATCAAATAAATTAGGGTTTGGGTTACTTGAGTAAATTAATTAT
33935585 AAACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAGATTTTTAAAGAAAAAATCAAATAAATA
129 AAACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAGATTTTTAAAGAAAAAATCAAATAAATA
*
33935650 AGGGTTTAGGGTTTCTTGAGTAAATTAATTATAAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
1 AGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
*
33935715 TTTAGGGGTTTTAATGAAAAAATCAAATAAATTAGGGTTTGGGTGACTTGAGTAAATTAATTATA
66 TTTAGGGGTTTTAA-GAAAAAATCAAATAAATTAGGGTTTGGGTTACTTGAGTAAATTAATTATA
*
33935780 AACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAGATTTTTAAAGAAAAAATCAAATAAATT
130 AACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAGATTTTTAAAGAAAAAATCAAATAAATA
33935844 AGGGTTTAGG
1 AGGGTTTAGG
33935854 ATTTAGGGTT
Statistics
Matches: 367, Mismatches: 17, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
190 10 0.03
191 26 0.07
192 102 0.28
193 67 0.18
194 138 0.38
195 18 0.05
196 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (193 bp):
AGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
TTTAGGGGTTTTAAGAAAAAATCAAATAAATTAGGGTTTGGGTTACTTGAGTAAATTAATTATAA
ACTTTAAAAAAATTAAATTACGGTTTAAGGTTTAAGATTTTTAAAGAAAAAATCAAATAAATA
Found at i:33936118 original size:126 final size:126
Alignment explanation
Indices: 33935893--33936177 Score: 421
Period size: 126 Copynumber: 2.3 Consensus size: 126
33935883 TAATTTAAAA
* * * **
33935893 AAGCTCTCACGTGAACGCTCTTTTGCTACAGTAGTTCTCTCCAAAATAATTTTAAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTCTCTAAAAAATAATTTTAAGAAGACGTTT
* * * *
33935958 CTGAGTAAATAGTGTCAAAAGCACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 ATGAGCAAATAGTATCAAAAGCACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
*
33936019 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATT-TCTGAAAAAATAATTTTGAA-AAGATGT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTCTCT-AAAAAATAATTTT-AAGAAGACGT
* *
33936082 TTATGAGCAAATAGTATCAAAAGCGCTTCAAGCAGGATGCAATGTCAGCAAAAGTATTGAAAG
64 TTATGAGCAAATAGTATCAAAAGCACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
*
33936145 AAGCTCCCACGTGGACGCTTTTTTGCTACAGTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTA
33936178 GTTCCTATTT
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
125 3 0.02
126 139 0.97
127 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTCTCTAAAAAATAATTTTAAGAAGACGTTT
ATGAGCAAATAGTATCAAAAGCACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:33936902 original size:96 final size:96
Alignment explanation
Indices: 33936766--33936944 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 96
33936756 CCTAAATCCC
* * * *
33936766 AAACCGTAATTTATTTTATTTTTTCTTTAAAAACCCTAAACACTAAACCCT-ATCTAATTTTTTT
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA--TTTTT
*
33936830 TAAAATTTATAATTAATTTACTCAAGTAATCTT
64 AAAAATTTATAATTAATTTACTCAAGTAATCTT
33936863 AAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTAA
1 AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTAA
33936927 AAATTTATAATTAATTTA
66 AAATTTATAATTAATTTA
33936945 ATTGAGAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 24 0.32
96 30 0.39
97 22 0.29
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (96 bp):
AAACCCTAATTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTAA
AAATTTATAATTAATTTACTCAAGTAATCTT
Found at i:33936970 original size:95 final size:94
Alignment explanation
Indices: 33936759--33936984 Score: 280
Period size: 95 Copynumber: 2.4 Consensus size: 94
33936749 AATTAACCCT
* * *
33936759 AAATCCCAAACCGTAATTTATTTTATTTTTTCTTTAAAAACCCTAAACACTAAACCCTATCTAAT
1 AAATCCCAAACCCTAATTTA-TTTA-TTTTTCCTTAAAAACCATAAACACTAAACCCTATCTAA-
* *
33936824 TTTTTTTAAAATTTATAATTAATTTACTCAAG
63 TTTTTTAAAAATTTATAATTAATTTAATCAAG
* **
33936856 TAATCTTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA-
1 AAATCCCAAACCCTAATTTATTT-ATTTTTCCTTAAAAACCATAAACACTAAACCCT-ATCTAAT
**
33936920 TTTTTAAAAATTTATAATTAATTTAATTGAG
64 TTTTTAAAAATTTATAATTAATTTAATCAAG
*
33936951 AAATCCCAAACCCTTATTTA---ATTTTTCCTTAAAA
1 AAATCCCAAACCCTAATTTATTTATTTTTCCTTAAAA
33936985 CCCTAAAATC
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
91 14 0.12
95 43 0.38
96 33 0.29
97 23 0.20
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (94 bp):
AAATCCCAAACCCTAATTTATTTATTTTTCCTTAAAAACCATAAACACTAAACCCTATCTAATTT
TTTAAAAATTTATAATTAATTTAATCAAG
Found at i:33937002 original size:16 final size:16
Alignment explanation
Indices: 33936981--33937022 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
33936971 ATTTTTCCTT
33936981 AAAACCCTAAAA-TCTA
1 AAAACCCTAAAACT-TA
* *
33936997 AAAACCCCAAAACTTC
1 AAAACCCTAAAACTTA
33937013 AAAACCCTAA
1 AAAACCCTAA
33937023 CCCTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAACCCTAAAACTTA
Found at i:33940180 original size:40 final size:40
Alignment explanation
Indices: 33940108--33940183 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
33940098 TAAACTGATG
*
33940108 CCACATCAGCAAATCGCGTCTTAGAGGGCGCGATTTGTGT
1 CCACATCAGCAAATCGCGTCTTAGAGGACGCGATTTGTGT
* *
33940148 CCACGTCAGCAAATCGCG-CTTACGTGGACGCGATTT
1 CCACATCAGCAAATCGCGTCTTA-GAGGACGCGATTT
33940184 CCTGGCGCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (40 bp):
CCACATCAGCAAATCGCGTCTTAGAGGACGCGATTTGTGT
Found at i:33955946 original size:19 final size:19
Alignment explanation
Indices: 33955897--33955946 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
33955887 CAAAAAAAAG
*
33955897 TTGTTTTTTTTTTGTTTTC
1 TTGTTTTTTTTTTATTTTC
* *
33955916 TTGCTGTTTTTTTATTTTC
1 TTGTTTTTTTTTTATTTTC
33955935 TTGTTTTTTTTT
1 TTGTTTTTTTTT
33955947 CACTATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (19 bp):
TTGTTTTTTTTTTATTTTC
Found at i:33956474 original size:18 final size:18
Alignment explanation
Indices: 33956453--33956506 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
33956443 GAACACTTTC
**
33956453 AAAATACCCTAAACCCTA
1 AAAATACCAAAAACCCTA
33956471 AAAATACCAAAAACCCTA
1 AAAATACCAAAAACCCTA
*
33956489 AAAA-ACCAAAAGCCCTA
1 AAAATACCAAAAACCCTA
33956506 A
1 A
33956507 CCCGTGAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.57, C:0.30, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAATACCAAAAACCCTA
Found at i:33956491 original size:17 final size:17
Alignment explanation
Indices: 33956453--33956506 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
33956443 GAACACTTTC
**
33956453 AAAATACCCTAAACCCT
1 AAAATACCAAAAACCCT
33956470 AAAAATACCAAAAACCCT
1 -AAAATACCAAAAACCCT
* *
33956488 AAAAAACCAAAAGCCCT
1 AAAATACCAAAAACCCT
33956505 AA
1 AA
33956507 CCCGTGAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.57, C:0.30, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAATACCAAAAACCCT
Found at i:33961872 original size:16 final size:16
Alignment explanation
Indices: 33961834--33961877 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
33961824 AGTTTATGAT
33961834 TTTTTTGGATTTAGGG
1 TTTTTTGGATTTAGGG
*** *
33961850 GGATTTGGGTTTAGGG
1 TTTTTTGGATTTAGGG
33961866 TTTTTTGGATTT
1 TTTTTTGGATTT
33961878 CAAATTTGAA
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (16 bp):
TTTTTTGGATTTAGGG
Found at i:33962283 original size:201 final size:202
Alignment explanation
Indices: 33962050--33962471 Score: 657
Period size: 202 Copynumber: 2.1 Consensus size: 202
33962040 AGGGTTTAGT
* * * *
33962050 GACAAATTAGTTCCCATTTGACAAATAAGTTTTTATTAAATTATTTGAAATTGTGTATGTCATTG
1 GACAAATCAATTCCTATTTGACAAAGAAGTTTTTATTAAATTATTTGAAATTGTGTATGTCATTG
* * * *
33962115 GATTATTCAAATATG-TTCAAAATATTTTTTAAATGTTGATTCAAATATGGTTATTGTTTGTATC
66 AAATATTCAAATATGATTCAAAATATTTTTTAAATGTTGATTCAAATATGATTATTATTTGTATC
* * * * *
33962179 AAACTGAATTGCATGTTTGGATTTTTGTAAACTTATTGTTTGCCATGTGCATACTAATTTCCTTA
131 AAACTGAATTGCAGGTTTGAATTTTTGTAAACTTATTATCTGCCATGTGCATACTAATTGCCTTA
*
33962244 GGAAAGA
196 AGAAAGA
*
33962251 GACAAATCAATTCCTATTTGACAAAGAAGTTTTTATTGAATTATTTGAAATTGTGTATGTCATTG
1 GACAAATCAATTCCTATTTGACAAAGAAGTTTTTATTAAATTATTTGAAATTGTGTATGTCATTG
*
33962316 AAATATTCAAATATGATTCAAAATATTTTTTAAATGTTGATTGAAATATGATTATTATTTGTATC
66 AAATATTCAAATATGATTCAAAATATTTTTTAAATGTTGATTCAAATATGATTATTATTTGTATC
*
33962381 AAATTGAATTGCAGGTTTGAATTTTTGTAAACTTATTATCTGCCATGTGCATACTAATTGCCTTA
131 AAACTGAATTGCAGGTTTGAATTTTTGTAAACTTATTATCTGCCATGTGCATACTAATTGCCTTA
*
33962446 AGTAAGA
196 AGAAAGA
* *
33962453 GTCAATTCAATTCCTATTT
1 GACAAATCAATTCCTATTT
33962472 TTATGACTAA
Statistics
Matches: 200, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
201 73 0.37
202 127 0.63
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (202 bp):
GACAAATCAATTCCTATTTGACAAAGAAGTTTTTATTAAATTATTTGAAATTGTGTATGTCATTG
AAATATTCAAATATGATTCAAAATATTTTTTAAATGTTGATTCAAATATGATTATTATTTGTATC
AAACTGAATTGCAGGTTTGAATTTTTGTAAACTTATTATCTGCCATGTGCATACTAATTGCCTTA
AGAAAGA
Found at i:33970143 original size:13 final size:12
Alignment explanation
Indices: 33970118--33970169 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
33970108 GTATTTATTT
33970118 ATATAAATAAAA
1 ATATAAATAAAA
33970130 ATATGAAATTAAAA
1 ATAT-AAA-TAAAA
**
33970144 ATATTTTATAAAA
1 ATA-TAAATAAAA
33970157 ATAATAAATAAAA
1 AT-ATAAATAAAA
33970170 TTAATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 4 0.12
13 17 0.53
14 10 0.31
15 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATAAATAAAA
Found at i:33970168 original size:26 final size:28
Alignment explanation
Indices: 33970124--33970184 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
33970114 ATTTATATAA
*
33970124 ATAAAAAT-ATGAAATTAAAAATATTTT
1 ATAAAAATAATGAAATTAAAAATAATTT
*
33970151 ATAAAAATAAT-AAA-TAAAATTAATTT
1 ATAAAAATAATGAAATTAAAAATAATTT
33970177 A-AAAAATA
1 ATAAAAATA
33970185 CTTTAACTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 7 0.23
26 11 0.35
27 11 0.35
28 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
ATAAAAATAATGAAATTAAAAATAATTT
Found at i:33973249 original size:18 final size:17
Alignment explanation
Indices: 33973226--33973269 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
33973216 ACTCTATAGA
33973226 TAGAGGAAAGGGTAAAGG
1 TAGAGGAAA-GGTAAAGG
* *
33973244 TAGAGGTATAGGTATAGG
1 TAGAGG-AAAGGTAAAGG
33973262 TAGAGGAA
1 TAGAGGAA
33973270 GTAGAAATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (17 bp):
TAGAGGAAAGGTAAAGG
Found at i:33975616 original size:16 final size:16
Alignment explanation
Indices: 33975595--33975625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33975585 AAAAAAAAAG
33975595 TATGTAGACATAAATA
1 TATGTAGACATAAATA
*
33975611 TATGTATACATAAAT
1 TATGTAGACATAAAT
33975626 TATAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
TATGTAGACATAAATA
Done.