Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:281933 original size:41 final size:41
Alignment explanation
Indices: 281879--282083 Score: 148
Period size: 41 Copynumber: 5.0 Consensus size: 41
281869 AGGTCGCCAC
* * *
281879 AGAATCCTACTTTAGTGGCGTTTATAAACAAACGCCGCAAA
1 AGAATCTTTCTTTAGTGGCGTTTTTAAACAAACGCCGCAAA
* * *
281920 AGAATCTTTCTTTAGTGCCATTTTTAAACAAACGCCGCAAT
1 AGAATCTTTCTTTAGTGGCGTTTTTAAACAAACGCCGCAAA
** * * ** * *
281961 AGGCTACATAT-ATT-GTGGTATTTTTATACAAACGCCGC-TA
1 AGAAT-C-TTTCTTTAGTGGCGTTTTTAAACAAACGCCGCAAA
* * * * * *
282001 A-AACCTAGTACTATAGTGGCGTTTCTGAACAAACGCCACAAA
1 AGAATCT--TTCTTTAGTGGCGTTTTTAAACAAACGCCGCAAA
*
282043 AGAATCGTTCTTTAGTGGCGTTTTTGAAACAAACGCCGCAA
1 AGAATCTTTCTTTAGTGGCGTTTTT-AAACAAACGCCGCAA
282084 TAGTTCGGAA
Statistics
Matches: 119, Mismatches: 36, Indels: 17
0.69 0.21 0.10
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 2 0.02
41 92 0.77
42 18 0.15
43 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
AGAATCTTTCTTTAGTGGCGTTTTTAAACAAACGCCGCAAA
Found at i:288795 original size:2 final size:2
Alignment explanation
Indices: 288747--288776 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
288737 TTACACAATA
288747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
288777 TAATTGCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:295122 original size:28 final size:27
Alignment explanation
Indices: 295078--295157 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 27
295068 CCCTAACTTA
*
295078 AAACCTTAAATTGATAATCCTAAACCCT
1 AAACCTTAAACT-ATAATCCTAAACCCT
295106 AAACCTTAAACATATAA-CCTATAAACCCT
1 AAACCTTAAAC-TATAATCC--TAAACCCT
295135 AAA-CTCTAAACTATAATCTCTAA
1 AAACCT-TAAACTATAATC-CTAA
295158 CTTAAAACCC
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
27 2 0.04
28 24 0.53
29 18 0.40
30 1 0.02
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (27 bp):
AAACCTTAAACTATAATCCTAAACCCT
Found at i:297758 original size:31 final size:31
Alignment explanation
Indices: 297705--297793 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
297695 ACTTTGATCG
* * *
297705 AATTGAAAGTTCAAATTGATATTTTATTTAA
1 AATTGAAAGATCAAATTAATATTTTATCTAA
* * *
297736 AATTTAAGGATCAAAATT-ATATTTCATCTAA
1 AATTGAAAGATC-AAATTAATATTTTATCTAA
297767 AATTGAAAGATCAAATTAATATTTTAT
1 AATTGAAAGATCAAATTAATATTTTAT
297794 ACAAAGTCTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 5 0.10
31 38 0.79
32 5 0.10
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (31 bp):
AATTGAAAGATCAAATTAATATTTTATCTAA
Found at i:298486 original size:26 final size:26
Alignment explanation
Indices: 298450--298508 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
298440 AATTACAGTA
298450 TAGTTATCGGGGAGTAGAAAATAATG
1 TAGTTATCGGGGAGTAGAAAATAATG
298476 TAGTTATCGGGGAGTAGAAAATAATG
1 TAGTTATCGGGGAGTAGAAAATAATG
*
298502 TATTTAT
1 TAGTTAT
298509 ATAATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.32
Consensus pattern (26 bp):
TAGTTATCGGGGAGTAGAAAATAATG
Found at i:298902 original size:28 final size:28
Alignment explanation
Indices: 298864--298932 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
298854 ATTATATAAT
298864 TTATTGGGTTTTTATATATAAAA-ACCAA
1 TTATTGGGTTTTTATATATAAAATA-CAA
298892 TTATTGGGTTTTTATATATAAAATACAA
1 TTATTGGGTTTTTATATATAAAATACAA
298920 --ATTGGGTTTTTAT
1 TTATTGGGTTTTTAT
298933 TTATTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 13 0.32
28 26 0.65
29 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (28 bp):
TTATTGGGTTTTTATATATAAAATACAA
Found at i:301280 original size:30 final size:30
Alignment explanation
Indices: 301223--301290 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
301213 CGGTCTGGCA
* *
301223 ATGAACCGGCTGAAAACCGGTAGAACCGGG
1 ATGAACCGGCTGAAAACCGGCAAAACCGGG
* *
301253 ATGAACCGGCTGAAAATCGGCAAAACCGGT
1 ATGAACCGGCTGAAAACCGGCAAAACCGGG
*
301283 TTGAACCG
1 ATGAACCG
301291 CTGGTTCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.29, T:0.13
Consensus pattern (30 bp):
ATGAACCGGCTGAAAACCGGCAAAACCGGG
Found at i:305210 original size:26 final size:26
Alignment explanation
Indices: 305159--305212 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
305149 TTTGTTTTTG
* * **
305159 CTCCTAAAATTTTATAAGTTTGTCTC
1 CTCCTAAAATTTTAAAAATTCATCTC
305185 CTCCTAAAATTTTAAAAATTCATCTC
1 CTCCTAAAATTTTAAAAATTCATCTC
305211 CT
1 CT
305213 AACATAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (26 bp):
CTCCTAAAATTTTAAAAATTCATCTC
Found at i:309601 original size:2 final size:2
Alignment explanation
Indices: 309589--309634 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
309579 TGTGAACAAG
309589 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
309632 AT A
1 AT A
309635 GGTTTATGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:310048 original size:32 final size:31
Alignment explanation
Indices: 310007--310131 Score: 110
Period size: 32 Copynumber: 4.0 Consensus size: 31
309997 AGTCGAGGGT
310007 TTACCTATGTTCTAAGGAACATATGGACAGAA
1 TTACCTATGTTCTAAGGAACATATGGACAG-A
** *
310039 TTACCTATG-TCTTTCGGGACATATGGACAG-
1 TTACCTATGTTC-TAAGGAACATATGGACAGA
* * *
310069 TATACTTTATATTCTAAGGAACATATGGACAGT
1 T-TAC-CTATGTTCTAAGGAACATATGGACAGA
* ** *
310102 TTACCTAGGTTCTTCGGAACCTATGGACAG
1 TTACCTATGTTCTAAGGAACATATGGACAG
310132 TTGCCGAGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
30 1 0.01
31 25 0.34
32 45 0.61
33 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (31 bp):
TTACCTATGTTCTAAGGAACATATGGACAGA
Found at i:310144 original size:30 final size:31
Alignment explanation
Indices: 310086--310144 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
310076 TATATTCTAA
*
310086 GGAACATATGGACAGTTTACCTAGGTTCTTC
1 GGAACATATGGACAGTTTACCGAGGTTCTTC
* *
310117 GGAACCTATGGACAG-TTGCCGAGGTTCT
1 GGAACATATGGACAGTTTACCGAGGTTCT
310145 GTATGACCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (31 bp):
GGAACATATGGACAGTTTACCGAGGTTCTTC
Found at i:310943 original size:12 final size:12
Alignment explanation
Indices: 310922--310979 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
310912 TTTTAACATT
310922 CGGTATTGTTCA
1 CGGTATTGTTCA
*
310934 CGGTACTGTTCA
1 CGGTATTGTTCA
**
310946 CAATATTGTTCA
1 CGGTATTGTTCA
*
310958 --TTATTGTTCA
1 CGGTATTGTTCA
*
310968 CGGTACTGTTCA
1 CGGTATTGTTCA
310980 TACCATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 9 0.24
12 28 0.76
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (12 bp):
CGGTATTGTTCA
Found at i:318738 original size:26 final size:26
Alignment explanation
Indices: 318707--318772 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
318697 GCATGGTCTT
318707 GTGCATCGATGCATCAAATGCACTAA
1 GTGCATCGATGCATCAAATGCACTAA
318733 GTGCATCGATGCATCAAATGCACTAA
1 GTGCATCGATGCATCAAATGCACTAA
318759 GTGCATCGATGCAT
1 GTGCATCGATGCAT
318773 GGTATGTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (26 bp):
GTGCATCGATGCATCAAATGCACTAA
Found at i:319305 original size:14 final size:14
Alignment explanation
Indices: 319266--319305 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
319256 GAGAAAAGAA
319266 TAAT-AAAAAATAT
1 TAATAAAAAAATAT
* *
319279 TAATATAATAATAT
1 TAATAAAAAAATAT
319293 TAATAAAAAAATA
1 TAATAAAAAAATA
319306 AATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAAAAAAATAT
Found at i:319407 original size:5 final size:5
Alignment explanation
Indices: 319388--319426 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
319378 TATATAAAGT
319388 AAAT- AAAT- AAA-A AAATA AAATA AAA-A AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
319427 AGAATAAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 14 0.44
5 18 0.56
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:319415 original size:14 final size:14
Alignment explanation
Indices: 319388--319433 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
319378 TATATAAAGT
319388 AAAT-AAAT-AAAA
1 AAATAAAATAAAAA
319400 AAATAAAATAAAAA
1 AAATAAAATAAAAA
319414 AAATAAAATAAAAA
1 AAATAAAATAAAAA
*
319428 GAATAA
1 AAATAA
319434 GACAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 4 0.13
13 4 0.13
14 23 0.74
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:319433 original size:9 final size:9
Alignment explanation
Indices: 319388--319426 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
319378 TATATAAAGT
319388 AAATAAATA
1 AAATAAATA
319397 AAA-AAATA
1 AAATAAATA
*
319405 AAATAAAAA
1 AAATAAATA
319414 AAATAAAATA
1 AAAT-AAATA
319424 AAA
1 AAA
319427 AGAATAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 11 0.42
10 7 0.27
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAATAAATA
Found at i:319738 original size:33 final size:33
Alignment explanation
Indices: 319701--319769 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
319691 TCCTACTTGA
* *
319701 ACTCAAATGC-TTCAGTTTTAGTGTTTCAATATG
1 ACTCAAATACGTT-AGTTTTAGTGTTTCAATAGG
*
319734 ACTCAAATACGTTGGTTTTAGTGTTTCAATAGG
1 ACTCAAATACGTTAGTTTTAGTGTTTCAATAGG
319767 ACT
1 ACT
319770 TAATTATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
ACTCAAATACGTTAGTTTTAGTGTTTCAATAGG
Found at i:330937 original size:22 final size:21
Alignment explanation
Indices: 330912--330984 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
330902 CTATATAAAA
330912 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
330934 TGATACATGTGATATGATATGAAA
1 TGATATATG-AATATGA-AT-ACG
*
330958 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
330980 TGATA
1 TGATA
330985 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 14 0.38
23 14 0.38
24 9 0.24
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:330949 original size:23 final size:22
Alignment explanation
Indices: 330922--330996 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
330912 TGATATATGA
330922 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
330945 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
330967 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
330991 ATATGA
1 ATATGA
330997 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:330966 original size:46 final size:46
Alignment explanation
Indices: 330904--331008 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
330894 CTATGTGACT
* *
330904 ATATAAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
330950 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
330996 ATATGAAAT-ACAT
1 ATATGAAATGACAT
331009 GGTTACACAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.07
46 52 0.93
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:331213 original size:38 final size:38
Alignment explanation
Indices: 331157--331252 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
331147 TATAAGACAT
* *
331157 ATGATAGGTCCTACGGGACACAGATTACATCATTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
* *
331195 ATGACAGGTCCTTCGGGACACAGATGACATCTTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
*
331233 ATGATAGGTCATTCGGGACA
1 ATGATAGGTCCTTCGGGACA
331253 TTTGTACAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
Found at i:336634 original size:22 final size:22
Alignment explanation
Indices: 336608--336667 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
336598 AGTATGTTCA
*
336608 GGGGGTATCGATTCCCTCTTGG
1 GGGGGAATCGATTCCCTCTTGG
336630 GGGGGAATCGATTCCCTCTTGG
1 GGGGGAATCGATTCCCTCTTGG
336652 GGGGGAATCGATTCCC
1 GGGGGAATCGATTCCC
336668 CCCTAAAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.13, C:0.23, G:0.37, T:0.27
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTCTTGG
Found at i:337110 original size:22 final size:21
Alignment explanation
Indices: 337085--337157 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
337075 CTATATGAAA
337085 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
337107 TGATACATGTGATATGATATGAAA
1 TGATATATG-AATATGA-AT-ACG
*
337131 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
337153 TGATA
1 TGATA
337158 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 14 0.38
23 14 0.38
24 9 0.24
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:337122 original size:23 final size:22
Alignment explanation
Indices: 337095--337169 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
337085 TGATATATGA
337095 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
337118 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
337140 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
337164 ATATGA
1 ATATGA
337170 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:337128 original size:46 final size:46
Alignment explanation
Indices: 337077--337181 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
337067 CTATGTGACT
*
337077 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
337123 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
337169 ATATGAAAT-ACAT
1 ATATGAAATGACAT
337182 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:337384 original size:17 final size:17
Alignment explanation
Indices: 337362--337423 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
337352 GATTACATCA
337362 TTCGGGATGACAGGTCC
1 TTCGGGATGACAGGTCC
*
337379 TTCGGGA-CACAGATGACATCC
1 TTCGGGATGACAG--G---TCC
*
337400 TTCGGGATGATAGGTCC
1 TTCGGGATGACAGGTCC
337417 TTCGGGA
1 TTCGGGA
337424 CATTTGTACG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 1 0.03
20 1 0.03
21 10 0.28
22 3 0.08
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (17 bp):
TTCGGGATGACAGGTCC
Found at i:337386 original size:38 final size:38
Alignment explanation
Indices: 337330--337425 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
337320 TATAAGACAT
* *
337330 ATGATAGGTCCTACGGGACACAGATTACATCATTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
* *
337368 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
337406 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
337426 TTTGTACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCATTCGGG
Found at i:342697 original size:2 final size:2
Alignment explanation
Indices: 342690--342766 Score: 140
Period size: 2 Copynumber: 39.5 Consensus size: 2
342680 AGTTATGGTA
342690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
342732 AT AT A- AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
342767 CACACATATG
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 71 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:346405 original size:19 final size:21
Alignment explanation
Indices: 346376--346414 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
346366 ACCCTAAACG
346376 TTTTTCTCTTTTTT-TTTTTT
1 TTTTTCTCTTTTTTCTTTTTT
346396 TTTTTC-CTTTTTTCTTTTT
1 TTTTTCTCTTTTTTCTTTTT
346415 CTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTCTCTTTTTTCTTTTTT
Found at i:346447 original size:86 final size:87
Alignment explanation
Indices: 346299--346458 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 87
346289 ACCCACCTTA
* * * *
346299 TTTTCTTTTCTTTTTCTTTTGTTCTTGTTTTTTCTTTTTTCAATTTAGGGCACCCTTTCGGGTTT
1 TTTTCTTTTCTTTTTCTTTTGTTCTTGTTTTATCTTTTTTCAACTTAGGACACCCTCTCGGGTTT
346364 TCACCCTAAACGTTTTTCTCTT
66 TCACCCTAAACGTTTTTCTCTT
* * *
346386 TTTTTTTTTTTTTTTCCTTTT-TTCTT-TTTCTAT-TTTTTTCAACTTAGGACGCCCTCTCGGGT
1 TTTTCTTTTCTTTTT-CTTTTGTTCTTGTTT-TATCTTTTTTCAACTTAGGACACCCTCTCGGGT
*
346448 TTTCATCCTAA
64 TTTCACCCTAA
346459 GCGAAGTACT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
86 38 0.60
87 20 0.32
88 5 0.08
ACGTcount: A:0.10, C:0.21, G:0.09, T:0.60
Consensus pattern (87 bp):
TTTTCTTTTCTTTTTCTTTTGTTCTTGTTTTATCTTTTTTCAACTTAGGACACCCTCTCGGGTTT
TCACCCTAAACGTTTTTCTCTT
Found at i:354162 original size:87 final size:86
Alignment explanation
Indices: 354017--354190 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 86
354007 AGTAAGCATG
354017 TCTCTGGAAGCAACGACATCCATTCGAATACTTTCTTCCATGACTCAGATGCTTCCTTGATCATC
1 TCTCTGGAAGCAACGACATCCATTCGAATACTTTCTTCCATGACTCAGATGCTTCCTTGATCATC
354082 TTATTATAACTATCACTGCTA
66 TTATTATAACTATCACTGCTA
*
354103 TCTCTGGCAGCAACGACATCCATTCGAAATACTTTCTTCCATGACTCAGATGCTTCCTTGATCAT
1 TCTCTGGAAGCAACGACATCCATTCG-AATACTTTCTTCCATGACTCAGATGCTTCCTTGATCAT
*
354168 CTTCTTATAACTATCACTGCTA
65 CTTATTATAACTATCACTGCTA
354190 T
1 T
354191 ACACAAACTC
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
86 25 0.29
87 60 0.71
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (86 bp):
TCTCTGGAAGCAACGACATCCATTCGAATACTTTCTTCCATGACTCAGATGCTTCCTTGATCATC
TTATTATAACTATCACTGCTA
Found at i:359535 original size:21 final size:22
Alignment explanation
Indices: 359509--359549 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
359499 CTAGCACAAG
359509 GAGTATCGATAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
*
359530 GAGTATTGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
359550 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:363532 original size:27 final size:27
Alignment explanation
Indices: 363477--363535 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
363467 GTATTCATTG
*
363477 TTTTTCTTTATTTTTATATTATCATTA
1 TTTTTCTTTATTTTTATATTATCAATA
*
363504 TTTTTCTTTGTTTTT-TAGTT-TCTAATA
1 TTTTTCTTTATTTTTATA-TTATC-AATA
363531 TTTTT
1 TTTTT
363536 ATCTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTTCTTTATTTTTATATTATCAATA
Found at i:364548 original size:23 final size:23
Alignment explanation
Indices: 364482--364551 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
364472 ACCATATAGT
** *
364482 ATTGTCCTGAATTACCGCGTAGA
1 ATTGTCCTGAAGAACAGCGTAGA
* * *
364505 AATGTCCCGAAGGACCA-CGTAGA
1 ATTGTCCTGAA-GAACAGCGTAGA
364528 ATTGTCCTGAAGAACAGCGTAGA
1 ATTGTCCTGAAGAACAGCGTAGA
364551 A
1 A
364552 CCCTCGAATC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
22 4 0.11
23 31 0.86
24 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (23 bp):
ATTGTCCTGAAGAACAGCGTAGA
Found at i:364548 original size:46 final size:46
Alignment explanation
Indices: 364458--364551 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
364448 TGGCACATAA
* * * ** *
364458 AAATTTCCCAAAGGACCATATAGTATTGTCCTGAATTACCGCGTAG
1 AAATGTCCCAAAGGACCACATAGAATTGTCCTGAAGAACAGCGTAG
* *
364504 AAATGTCCCGAAGGACCACGTAGAATTGTCCTGAAGAACAGCGTAG
1 AAATGTCCCAAAGGACCACATAGAATTGTCCTGAAGAACAGCGTAG
364550 AA
1 AA
364552 CCCTCGAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (46 bp):
AAATGTCCCAAAGGACCACATAGAATTGTCCTGAAGAACAGCGTAG
Found at i:368541 original size:46 final size:46
Alignment explanation
Indices: 368454--368551 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
368444 GAAGTTCCAT
* * *
368454 GTAGAAATGTTCCGAAGGACAACATAGAATTGTTCCAAAGGACGGC
1 GTAGAAATATCCCGAAGGACAACATAGAATTGTTCCAAAGGACCGC
* * * *
368500 GTAGAAATATCCCGAAGGACCACGTAGAATTG-TCCTGAAGGACCGT
1 GTAGAAATATCCCGAAGGACAACATAGAATTGTTCC-AAAGGACCGC
368546 GTAGAA
1 GTAGAA
368552 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 3 0.07
46 41 0.93
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (46 bp):
GTAGAAATATCCCGAAGGACAACATAGAATTGTTCCAAAGGACCGC
Found at i:368543 original size:23 final size:23
Alignment explanation
Indices: 368454--368543 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
368444 GAAGTTCCAT
*
368454 GTAGAAATGTTCCGAAGGACAAC
1 GTAGAAATGTTCCGAAGGACCAC
* * * **
368477 ATAGAATTGTTCCAAAGGACGGC
1 GTAGAAATGTTCCGAAGGACCAC
* *
368500 GTAGAAATATCCCGAAGGACCAC
1 GTAGAAATGTTCCGAAGGACCAC
*
368523 GTAGAATTG-TCCTGAAGGACC
1 GTAGAAATGTTCC-GAAGGACC
368544 GTGTAGAACC
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
22 2 0.04
23 49 0.96
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.19
Consensus pattern (23 bp):
GTAGAAATGTTCCGAAGGACCAC
Found at i:374083 original size:13 final size:13
Alignment explanation
Indices: 374065--374098 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
374055 ACATTAATGA
*
374065 ACAGTACCCTGCT
1 ACAGTACCCTACT
374078 ACAGTACCCTACT
1 ACAGTACCCTACT
*
374091 ACAATACC
1 ACAGTACC
374099 AGATTGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.38, G:0.09, T:0.21
Consensus pattern (13 bp):
ACAGTACCCTACT
Found at i:374761 original size:18 final size:18
Alignment explanation
Indices: 374734--374786 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
374724 ACTGAATATT
* *
374734 TGTCCAGAAGGAACACTA
1 TGTCCCGAAGGACCACTA
* *
374752 TGTCCCGAAGGACCAATG
1 TGTCCCGAAGGACCACTA
*
374770 TGTCCCAAAGGACCACT
1 TGTCCCGAAGGACCACT
374787 GTATAACCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:375049 original size:2 final size:2
Alignment explanation
Indices: 375042--375069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
375032 ACTGTATCCA
375042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
375070 GGACGCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:381574 original size:18 final size:18
Alignment explanation
Indices: 381551--381585 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
381541 ACTGAATATT
381551 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
381569 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
381586 GTATAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:385358 original size:23 final size:23
Alignment explanation
Indices: 385329--385455 Score: 179
Period size: 23 Copynumber: 5.6 Consensus size: 23
385319 GAACAGCAGA
385329 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTCAAGGC
385352 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTCAAGGC
*
385375 GTGCATAGATGCACATTCAAGGC
1 GTGCATCGATGCACATTCAAGGC
* *
385398 GTGCATCGATGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAAGGC
* *
385419 GTGAACCGATGCACATTCAAGG-
1 GTGCATCGATGCACATTCAAGGC
385441 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
385456 TAACTAGTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.16
22 5 0.05
23 72 0.78
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGC
Found at i:389288 original size:22 final size:21
Alignment explanation
Indices: 389246--389285 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
389236 AATACTATTT
389246 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
389267 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
389286 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:395140 original size:29 final size:29
Alignment explanation
Indices: 395097--395153 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
395087 AATGGGGAAG
* **
395097 TGATTGTTTTGTTACTTTTGTAATATTAA
1 TGATTGTTTTATTACTTTTAAAATATTAA
395126 TGATTGTTTTATTACTTTTAAAATATTA
1 TGATTGTTTTATTACTTTTAAAATATTA
395154 GTCAGAAAAA
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:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (29 bp):
TGATTGTTTTATTACTTTTAAAATATTAA
Found at i:396284 original size:23 final size:24
Alignment explanation
Indices: 396254--396309 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
396244 TTTAGCTTGC
*
396254 AAATGAACATGTTCACGAACGT-T
1 AAATGAACATGTTCACGAACATAT
* *
396277 AAATGAACATGTTCATGAGCATAT
1 AAATGAACATGTTCACGAACATAT
396301 AAATGAACA
1 AAATGAACA
396310 ATAAACGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (24 bp):
AAATGAACATGTTCACGAACATAT
Found at i:398743 original size:16 final size:16
Alignment explanation
Indices: 398724--398774 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
398714 AATATCGAAG
*
398724 AAAAAAATAATTAAAT
1 AAAAAAATAAATAAAT
398740 AAAAAGAA-AAATAAAT
1 AAAAA-AATAAATAAAT
**
398756 AAGTAAATAAATAAAT
1 AAAAAAATAAATAAAT
398772 AAA
1 AAA
398775 TCCAAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:398755 original size:4 final size:4
Alignment explanation
Indices: 398728--398775 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
398718 TCGAAGAAAA
* * *
398728 AAAT AATT AAAT AAA- AAGAA AAAT AAAT AAGT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
398776 CCAAGAAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
3 2 0.05
4 33 0.89
5 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:398762 original size:20 final size:20
Alignment explanation
Indices: 398724--398775 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
398714 AATATCGAAG
*
398724 AAAAAAATAATTAAATAAA-
1 AAAAAAATAAATAAATAAAT
*
398743 AAGAAAAATAAATAAGTAAAT
1 AA-AAAAATAAATAAATAAAT
*
398764 AAATAAATAAAT
1 AAAAAAATAAAT
398776 CCAAGAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAATAAATAAAT
Found at i:401348 original size:85 final size:85
Alignment explanation
Indices: 401206--401609 Score: 484
Period size: 85 Copynumber: 4.7 Consensus size: 85
401196 ATGTGCTGTC
* * * * * *
401206 GAGCTGAATGGAATCAGACTCGATAGTTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATT
1 GAGCTGAATGTAATCAAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
401271 CTGTAAATTTGATATGGCTTT
65 CTATAAATTTGATATGTCTTT
* * * * * *
401292 GAGATGAATGGAATCAAACTCGAAGGTATTTGTTGACAGATAATCCTTCTCACCTTGAGTTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* *
401357 TATAAATTTGATAAGTCCTT
66 TATAAATTTGATATGTCTTT
* * * *
401377 GAGCTAAATGTAATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
401442 TATAAATTTGATATGTCATT
66 TATAAATTTGATATGTCTTT
* * * * * *
401462 GAGCCGAATGTAATCGAACTCGAAGGTCTTTGTTGACTGATATCCCTTCTCGCTTTGAGCTATGT
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* **
401527 TGTAAATTTGATATCCCTTT
66 TATAAATTTGATATGTCTTT
* * * **
401547 TAGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGGCAGATAACCCTTCTCGTTTTGAGCTAT
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
401610 ACTGCGAATA
Statistics
Matches: 275, Mismatches: 43, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
85 254 0.92
86 21 0.08
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TATAAATTTGATATGTCTTT
Found at i:403437 original size:18 final size:18
Alignment explanation
Indices: 403414--403454 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
403404 GGACATGTGG
403414 ATAGTGGTCCTTCGAGAC
1 ATAGTGGTCCTTCGAGAC
*
403432 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGAGAC
403450 A-AGTG
1 ATAGTG
403455 AAGTGCCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.27
Consensus pattern (18 bp):
ATAGTGGTCCTTCGAGAC
Found at i:406131 original size:84 final size:87
Alignment explanation
Indices: 406014--406229 Score: 244
Period size: 90 Copynumber: 2.5 Consensus size: 87
406004 TGAATTCATG
* * *
406014 AAGCCGAGG-CGTTTAACCAATTGCTCTAGAGGGACAGCTCAA-TATTATA-ATCACCTT-T-AT
1 AAGCCG-GGACGTTTAACCAATTGCTCTAAAGGGACAACTCAATTATTATATAT-ACATTATAAT
406074 CAGGCTAGCTGAATCTTATCCATA
64 CAGGCTAGCTGAATCTTATCCATA
* * * * *
406098 AAGCTGGGACGTTTAACCAATTTCTTTAAAGGGACAACTCAAGTTTTATTGTATATATATTATAA
1 AAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACTCAA---TTATTATATATACATTATAA
*
406163 TCAGGCTAGCTTAATCTTATCCATA
63 TCAGGCTAGCTGAATCTTATCCATA
** *
406188 AAGCCGGGGTGTTTAACCAATTGCTCTACAGGGACAACTCAA
1 AAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACTCAA
406230 GCTTTATTGT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
83 2 0.02
84 34 0.31
88 9 0.08
89 3 0.03
90 61 0.56
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (87 bp):
AAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACTCAATTATTATATATACATTATAATCA
GGCTAGCTGAATCTTATCCATA
Found at i:406187 original size:90 final size:90
Alignment explanation
Indices: 406072--406247 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
406062 AATCACCTTT
* * *
406072 ATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGACGTTTAACCAATTTCTTTAAAGGGACAACT
1 ATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACT
* *
406137 CAAGTTTTATTGTATATATATTATA
66 CAAGCTTTATTGTATACATATTATA
* ** *
406162 ATCAGGCTAGCTTAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTACAGGGACAACT
1 ATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACT
406227 CAAGCTTTATTGTATACATAT
66 CAAGCTTTATTGTATACATAT
406248 AATATTATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (90 bp):
ATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAAAGGGACAACT
CAAGCTTTATTGTATACATATTATA
Found at i:408695 original size:29 final size:29
Alignment explanation
Indices: 408640--408765 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
408630 CATTTTACAC
* ** *
408640 AAATAGCACCCTTTTTAAAATATTTACCA
1 AAATAGCACCCATTTCGAATTATTTACCA
*
408669 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCGAATTATTTACCA
* * * **
408698 GAATAGCAGCAAAATCGAATTATTTACCA
1 AAATAGCACCCATTTCGAATTATTTACCA
* ***
408727 GAATAGCA-CCAAAACTGAATTATTTACCA
1 AAATAGCACCCATTTC-GAATTATTTACCA
*
408756 GAATAGCACC
1 AAATAGCACC
408766 AGTCAACGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.06
29 76 0.93
30 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (29 bp):
AAATAGCACCCATTTCGAATTATTTACCA
Found at i:408766 original size:29 final size:29
Alignment explanation
Indices: 408660--408766 Score: 144
Period size: 29 Copynumber: 3.7 Consensus size: 29
408650 CTTTTTAAAA
* * **
408660 TATTTACCAAAATAGCACCCATTTCGAAT
1 TATTTACCAGAATAGCACCAAAATCGAAT
* *
408689 TAATTACCAGAATAGCAGCAAAATCGAAT
1 TATTTACCAGAATAGCACCAAAATCGAAT
408718 TATTTACCAGAATAGCACCAAAA-CTGAAT
1 TATTTACCAGAATAGCACCAAAATC-GAAT
408747 TATTTACCAGAATAGCACCA
1 TATTTACCAGAATAGCACCA
408767 GTCAACGGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 1 0.01
29 68 0.99
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.25
Consensus pattern (29 bp):
TATTTACCAGAATAGCACCAAAATCGAAT
Found at i:408805 original size:18 final size:17
Alignment explanation
Indices: 408773--408811 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
408763 ACCAGTCAAC
408773 GGTCAACGATCGGGTCG
1 GGTCAACGATCGGGTCG
*
408790 GGTCAACGGGTCGGGTCG
1 GGTCAAC-GATCGGGTCG
408808 GGTC
1 GGTC
408812 GGGTCGGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCG
Found at i:416060 original size:29 final size:29
Alignment explanation
Indices: 416025--416090 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
416015 CATTTTACAC
* * *
416025 AAATAGCACCCTTTTTAAAATATTTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
416054 AAATAGCACCCATTTCAAATTAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
416083 GAATAGCA
1 AAATAGCA
416091 GCAAAACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:416101 original size:29 final size:29
Alignment explanation
Indices: 416069--416149 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
416059 GCACCCATTT
*
416069 CAAATTAATTACCAGAATAGCAGCAAAAC
1 CAAATTAATTACCAGAATAGCACCAAAAC
*
416098 CAAATTATTTACCAGAATAGCACCAAAAC
1 CAAATTAATTACCAGAATAGCACCAAAAC
** * * *
416127 TGAATTATTTATCAAAATAGCAC
1 CAAATTAATTACCAGAATAGCAC
416150 TGGTCAACGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (29 bp):
CAAATTAATTACCAGAATAGCACCAAAAC
Found at i:416190 original size:18 final size:18
Alignment explanation
Indices: 416158--416210 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
416148 ACTGGTCAAC
*
416158 GGTCAAC-GATCGGGTCG
1 GGTCAACGGGTCGGGTCG
416175 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
416193 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
416211 TGACCGGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:418348 original size:75 final size:75
Alignment explanation
Indices: 418225--418375 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
418215 TTAAGAGACA
418225 AAAAAACCCCTAAGTCTTCTAGACCCCGAATAGCTTCTGACAGGTTGATTCATCTTCCGCCTTTT
1 AAAAAACCCCTAAGTCTTCTAGACCCCGAATAGCTTCTGACAGGTTGATTCATCTTCCGCCTTTT
418290 TTTGTCATCG
66 TTTGTCATCG
418300 AAAAAACCCCTAAGTCTTCTAGACCCCGAATAGCTTCTGACAGGTTGATTCATCTTCCGCCTTTT
1 AAAAAACCCCTAAGTCTTCTAGACCCCGAATAGCTTCTGACAGGTTGATTCATCTTCCGCCTTTT
418365 TTTGTCATCG
66 TTTGTCATCG
418375 A
1 A
418376 TTGAATACCC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (75 bp):
AAAAAACCCCTAAGTCTTCTAGACCCCGAATAGCTTCTGACAGGTTGATTCATCTTCCGCCTTTT
TTTGTCATCG
Found at i:420431 original size:28 final size:29
Alignment explanation
Indices: 420400--420491 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
420390 AATAAAGCTT
420400 AGGACTAAAATGAATTAAACAAATAT-AA
1 AGGACTAAAATGAATTAAACAAATATAAA
420428 AGGAAC-ACACAAT--ATTAAACCAAATATAAA
1 AGG-ACTA-A-AATGAATTAAA-CAAATATAAA
*
420458 AGTGACTAAAATGAAATATTAACAAATATCAAA
1 AG-GACTAAAATG-AAT-TAAACAAATAT-AAA
420491 A
1 A
420492 CCAAAGTCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 19
0.72 0.01 0.27
Matches are distributed among these distances:
28 10 0.20
29 13 0.25
30 10 0.20
31 2 0.04
32 9 0.18
33 7 0.14
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.21
Consensus pattern (29 bp):
AGGACTAAAATGAATTAAACAAATATAAA
Found at i:421510 original size:15 final size:15
Alignment explanation
Indices: 421490--421521 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
421480 GGTCTGATTC
421490 TGGATCACTATTGAG
1 TGGATCACTATTGAG
421505 TGGATCACTATTGAG
1 TGGATCACTATTGAG
421520 TG
1 TG
421522 TTGGGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.34
Consensus pattern (15 bp):
TGGATCACTATTGAG
Found at i:421590 original size:3 final size:3
Alignment explanation
Indices: 421582--421615 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
421572 AATATTAGTT
*
421582 TAA TAA TAA TAA TAA TAA TAA T-A GAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
421616 CATATTATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:423438 original size:18 final size:19
Alignment explanation
Indices: 423398--423438 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
423388 ATGACCAACA
* *
423398 AATTCGTAACGCGATCTCG
1 AATTCGTAACGCGAACTCC
423417 AATTCG-AACGCGAACTCC
1 AATTCGTAACGCGAACTCC
423435 AATT
1 AATT
423439 TCGCAACAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (19 bp):
AATTCGTAACGCGAACTCC
Found at i:423530 original size:20 final size:20
Alignment explanation
Indices: 423505--423543 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
423495 AATTCGTTGC
423505 GATTTTCAAATTCGCAACGT
1 GATTTTCAAATTCGCAACGT
423525 GATTTTCAAATTCGCAACG
1 GATTTTCAAATTCGCAACG
423544 CGAATATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (20 bp):
GATTTTCAAATTCGCAACGT
Found at i:423721 original size:26 final size:27
Alignment explanation
Indices: 423687--423747 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
423677 TAAACAGTAT
*
423687 AATCGCAAATCATAACCTAAA-CCCTA
1 AATCACAAATCATAACCTAAACCCCTA
423713 AATCACAAATCATAACCTAAACCCCTA
1 AATCACAAATCATAACCTAAACCCCTA
423740 AATCACAA
1 AATCACAA
423748 CTCGTCCATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (27 bp):
AATCACAAATCATAACCTAAACCCCTA
Found at i:423816 original size:22 final size:22
Alignment explanation
Indices: 423790--423833 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
423780 GACATCCGTC
423790 CCCATCTCCGACAAAATCTGTT
1 CCCATCTCCGACAAAATCTGTT
* *
423812 CCCATCTCCGGCGAAATCTGTT
1 CCCATCTCCGACAAAATCTGTT
423834 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCTGTT
Found at i:424269 original size:20 final size:20
Alignment explanation
Indices: 424199--424269 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
424189 TCGCAACGCT
424199 ATTTT-AGTTTCGCGTTGCG
1 ATTTTCAGTTTCGCGTTGCG
* *
424218 ATTTTCATTTTAGCGTTGCG
1 ATTTTCAGTTTCGCGTTGCG
*
424238 ATTTTCATTTTCGCGTTGCG
1 ATTTTCAGTTTCGCGTTGCG
*
424258 ATTTTAAGTTTC
1 ATTTTCAGTTTC
424270 AGAAACTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 5 0.11
20 41 0.89
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTTCAGTTTCGCGTTGCG
Found at i:425921 original size:21 final size:21
Alignment explanation
Indices: 425897--425946 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
425887 GTTAGGGGAG
* *
425897 TTACGTGATGAGGTCAATGCT
1 TTACGTGAGGAGGTCAATACT
**
425918 TTACGTGAGGAGGTCGGTACT
1 TTACGTGAGGAGGTCAATACT
425939 TTACGTGA
1 TTACGTGA
425947 AGAAATGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACT
Found at i:426348 original size:21 final size:21
Alignment explanation
Indices: 426320--426423 Score: 117
Period size: 21 Copynumber: 5.0 Consensus size: 21
426310 GATTCACCTG
426320 TCATCGTTCAAGAGGCCTCTCC
1 TCATCGTTCAAGAGGCC-CTCC
**
426342 T-ATCGTTCAAGAGGCCCTTA
1 TCATCGTTCAAGAGGCCCTCC
*
426362 TCATCCTTCAAGAGGCCCTCC
1 TCATCGTTCAAGAGGCCCTCC
*
426383 -CA-CGTTCAAGAGGCCC-CTG
1 TCATCGTTCAAGAGGCCCTC-C
426402 TCATCGTTCAAGAGGTCCCTCC
1 TCATCGTTCAAGAGG-CCCTCC
426424 CACATTTCGA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.01
19 13 0.19
20 7 0.10
21 42 0.62
22 4 0.06
23 1 0.01
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCTCC
Found at i:426406 original size:40 final size:40
Alignment explanation
Indices: 426316--426426 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
426306 GCCCGATTCA
*
426316 CCTGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC-CTCCCA-CGTTCAAGAGGCC
* * *
426358 CTTATCATCCTTCAAGAGGCCCTCCCACGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCCCTCCCACGTTCAAGAGGCC
426398 CCTGTCATCGTTCAAGAGGTCCCTCCCAC
1 CCTGTCATCGTTCAAGAGG-CCCTCCCAC
426427 ATTTCGAGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 29 0.48
41 14 0.23
42 18 0.30
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (40 bp):
CCTGTCATCGTTCAAGAGGCCCTCCCACGTTCAAGAGGCC
Found at i:427781 original size:14 final size:14
Alignment explanation
Indices: 427762--427811 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
427752 GCTTATTTAA
427762 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
**
427776 TTGATTTGTTTAA-
1 TTGATTTGTAAAAG
427789 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
427803 TTGATTTGT
1 TTGATTTGT
427812 TTAATTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:427794 original size:13 final size:13
Alignment explanation
Indices: 427757--427820 Score: 74
Period size: 14 Copynumber: 4.8 Consensus size: 13
427747 TTTTTGCTTA
427757 TTTAATTGATTTG
1 TTTAATTGATTTG
**
427770 TAAAAGTTGATTTG
1 TTTAA-TTGATTTG
427784 TTTAATTGATTTG
1 TTTAATTGATTTG
**
427797 TAAAAGTTGATTTG
1 TTTAA-TTGATTTG
427811 TTTAATTGAT
1 TTTAATTGAT
427821 GTGTAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 19 0.46
14 22 0.54
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (13 bp):
TTTAATTGATTTG
Found at i:427795 original size:27 final size:27
Alignment explanation
Indices: 427757--427827 Score: 133
Period size: 27 Copynumber: 2.6 Consensus size: 27
427747 TTTTTGCTTA
427757 TTTAATTGATTTGTAAAAGTTGATTTG
1 TTTAATTGATTTGTAAAAGTTGATTTG
427784 TTTAATTGATTTGTAAAAGTTGATTTG
1 TTTAATTGATTTGTAAAAGTTGATTTG
*
427811 TTTAATTGATGTGTAAA
1 TTTAATTGATTTGTAAA
427828 TAATTCTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (27 bp):
TTTAATTGATTTGTAAAAGTTGATTTG
Found at i:427856 original size:91 final size:91
Alignment explanation
Indices: 427701--427873 Score: 292
Period size: 91 Copynumber: 1.9 Consensus size: 91
427691 AAATTGATGT
427701 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTATTTAATTGA
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTATTTAATTGA
427766 TTTGTAAAAGTTGATTTGTTTAATTG
66 TTTGTAAAAGTTGATTTGTTTAATTG
* * *** *
427792 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTGA
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTATTTAATTGA
427857 TTTGTAAAAGTTGATTT
66 TTTGTAAAAGTTGATTT
427874 TTTTGTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (91 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTATTTAATTGA
TTTGTAAAAGTTGATTTGTTTAATTG
Found at i:428271 original size:18 final size:18
Alignment explanation
Indices: 428248--428283 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
428238 AAGCCGGTTG
428248 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
428266 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
428284 CCTTTTGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:430393 original size:24 final size:24
Alignment explanation
Indices: 430359--430412 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
430349 CTGAAACATC
430359 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
430383 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
430407 ATCAAA
1 ATCAAA
430413 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:430559 original size:12 final size:12
Alignment explanation
Indices: 430538--430571 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
430528 GGTTGTGGGT
*
430538 TTTGAGATTGTG
1 TTTGATATTGTG
430550 TTTGATATTGTG
1 TTTGATATTGTG
*
430562 TTTGGTATTG
1 TTTGATATTG
430572 GAAATATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:431369 original size:17 final size:19
Alignment explanation
Indices: 431341--431387 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
431331 AAAACATTTG
* *
431341 TGTTGCAAAAATAAAA-CA
1 TGTTGCGAAATTAAAATCA
431359 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAA-TCA
431379 TGTTGCGAA
1 TGTTGCGAA
431388 TTCGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (19 bp):
TGTTGCGAAATTAAAATCA
Found at i:431403 original size:20 final size:20
Alignment explanation
Indices: 431380--431490 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
431370 TAAAATTCAT
431380 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
*
431400 GTTGTGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
431420 GTTGCGAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
* * *
431440 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTCGAAAATC-GA
* * *
431461 GTTACGAATTTGTAAATC-A
1 GTTGCGAATTCGAAAATCGA
431480 CGTTGCGAATT
1 -GTTGCGAATT
431491 TGGAAATCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.01
20 59 0.77
21 17 0.22
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:431491 original size:20 final size:19
Alignment explanation
Indices: 431380--431513 Score: 110
Period size: 20 Copynumber: 6.7 Consensus size: 19
431370 TAAAATTCAT
*
431380 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTG-AAATCGA
* *
431400 GTTGTGAATTCGAAAATCGA
1 GTTGCGAATTTG-AAATCGA
*
431420 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATT-TGAAATCGA
*
431440 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAA-TC-GA
*
431461 GTTACGAATTTGTAAATC-A
1 GTTGCGAATTTG-AAATCGA
431480 CGTTGCGAATTTGGAAATC-A
1 -GTTGCGAATTT-GAAATCGA
*
431500 CATTGCGAATTTGA
1 -GTTGCGAATTTGA
431514 CTTCTGTGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.06
20 74 0.75
21 16 0.16
22 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (19 bp):
GTTGCGAATTTGAAATCGA
Found at i:431544 original size:20 final size:20
Alignment explanation
Indices: 431521--431567 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
431511 TGACTTCTGT
431521 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAGATTCGC
*
431541 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAGATTCGC
431561 GTTGCGA
1 GTTGCGA
431568 ATTTGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCGC
Found at i:431737 original size:20 final size:20
Alignment explanation
Indices: 431714--431924 Score: 110
Period size: 20 Copynumber: 10.5 Consensus size: 20
431704 AAATCGCAAC
*
431714 GCGAATTTGTAAATCACGTT
1 GCGAATTTGAAAATCACGTT
* *
431734 GCGAAATT-AAAATTCATGTT
1 GCGAATTTGAAAA-TCACGTT
*
431754 GCGAATTCGAAAATCGA-GTT
1 GCGAATTTGAAAATC-ACGTT
* *
431774 GTGAATTCGAAAATCGA-GTT
1 GCGAATTTGAAAATC-ACGTT
* *
431794 GTGAATTCGAAAATCGA-GTT
1 GCGAATTTGAAAATC-ACGTT
*
431814 GCGAA-TTCAGAAATCGA-GTT
1 GCGAATTTGA-AAATC-ACGTT
* *
431834 GCGAATTTGAAATTCAGTGTT
1 GCGAATTTGAAAATCA-CGTT
* * * ***
431855 ACGAATTTGTAAATCGCAAC
1 GCGAATTTGAAAATCACGTT
* * *
431875 GCGAATTTGTAAAGCGCGTT
1 GCGAATTTGAAAATCACGTT
* * *
431895 ACGAATTTGGAAATCGCGTT
1 GCGAATTTGAAAATCACGTT
431915 GCGAATTTGA
1 GCGAATTTGA
431925 CTTCTCTGTT
Statistics
Matches: 155, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
19 6 0.04
20 126 0.81
21 23 0.15
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (20 bp):
GCGAATTTGAAAATCACGTT
Found at i:431780 original size:60 final size:58
Alignment explanation
Indices: 431714--431846 Score: 139
Period size: 60 Copynumber: 2.2 Consensus size: 58
431704 AAATCGCAAC
431714 GCGAATTTGTAAATC-ACGTTGCGAAATT-AAAATTC-ATGTTGCGAATTC-GAAAATCGAGTT
1 GCGAATTTG-AAATCGA-GTTGCG-AATTCAAAA-TCGA-GTTGCGAATTCAG-AAATCGAGTT
* * *
431774 GTGAATTCGAAAATCGAGTTGTGAATTCGAAAATCGAGTTGCGAATTCAGAAATCGAGTT
1 GCGAATTTG-AAATCGAGTTGCGAATTC-AAAATCGAGTTGCGAATTCAGAAATCGAGTT
431834 GCGAATTTGAAAT
1 GCGAATTTGAAAT
431847 TCAGTGTTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
59 8 0.13
60 47 0.76
61 7 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (58 bp):
GCGAATTTGAAATCGAGTTGCGAATTCAAAATCGAGTTGCGAATTCAGAAATCGAGTT
Found at i:431800 original size:40 final size:40
Alignment explanation
Indices: 431751--431845 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
431741 TAAAATTCAT
*
431751 GTTGCGAATTCGAAAATCGAGTTGTGAATTC-GAAAATCGA
1 GTTGCGAATTCGAAAATCGAGTTGCGAATTCAG-AAATCGA
*
431791 GTTGTGAATTCGAAAATCGAGTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCGAAAATCGAGTTGCGAATTCAGAAATCGA
*
431831 GTTGCGAATTTGAAA
1 GTTGCGAATTCGAAA
431846 TTCAGTGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (40 bp):
GTTGCGAATTCGAAAATCGAGTTGCGAATTCAGAAATCGA
Found at i:431958 original size:19 final size:19
Alignment explanation
Indices: 431889--431965 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
431879 ATTTGTAAAG
* * *
431889 CGCGTTACGAATTTGGAAAT
1 CGCGTTGCGAATTTAG-ATT
431909 CGCGTTGCGAATTT-GACTT
1 CGCGTTGCGAATTTAGA-TT
*
431928 CTCTGTTTGCGAATTTAGATT
1 CGC-G-TTGCGAATTTAGATT
431949 CGCGTTGCGAATTTAGA
1 CGCGTTGCGAATTTAGA
431966 AACTGAGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.02
19 17 0.35
20 15 0.31
21 14 0.29
22 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (19 bp):
CGCGTTGCGAATTTAGATT
Found at i:433443 original size:50 final size:51
Alignment explanation
Indices: 433362--433462 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
433352 ATCTAAAGTA
*
433362 TACGAAGAGTTTGACTTGCCCTTAGGCTCATCCCTGCACAATACCTACTTG
1 TACGAAGAGTTTGACTTGCCCTTAGGCTCATCCCTACACAATACCTACTTG
*
433413 TACG-AGAGTTTGACTTGCCCTTAGGTTCATCCCTACACAATACCTACTTG
1 TACGAAGAGTTTGACTTGCCCTTAGGCTCATCCCTACACAATACCTACTTG
433463 AAAAATATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 44 0.92
51 4 0.08
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (51 bp):
TACGAAGAGTTTGACTTGCCCTTAGGCTCATCCCTACACAATACCTACTTG
Found at i:435007 original size:27 final size:27
Alignment explanation
Indices: 434977--435032 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
434967 ATTTTTAGTT
*
434977 TATGTCTAATATGATTAAAAGTCTATG
1 TATGTCTAATATGATTAAAAATCTATG
*
435004 TATGTCTAATATGATTAAAAATCTCTG
1 TATGTCTAATATGATTAAAAATCTATG
435031 TA
1 TA
435033 ATAAATAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (27 bp):
TATGTCTAATATGATTAAAAATCTATG
Found at i:437140 original size:23 final size:23
Alignment explanation
Indices: 437114--437160 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
437104 ATTGCCCTCT
437114 TCAAGTGGGAATTAGAGCTTGTG
1 TCAAGTGGGAATTAGAGCTTGTG
437137 TCAAGTGGGAATTAGAGCTTGTG
1 TCAAGTGGGAATTAGAGCTTGTG
437160 T
1 T
437161 GTCAGCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.32
Consensus pattern (23 bp):
TCAAGTGGGAATTAGAGCTTGTG
Found at i:439738 original size:39 final size:40
Alignment explanation
Indices: 439684--439766 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 40
439674 TTCTCTTTTC
439684 ACGCTCATATCATGC-TATATATATAATCCTATATATCCA
1 ACGCTCATATCATGCATATATATATAATCCTATATATCCA
439723 ACGCTCATATCATGCTATATATATATATAATCCTATATATCCA
1 ACGCTCATATCATGC---ATATATATATAATCCTATATATCCA
439766 A
1 A
439767 TTACACAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
39 15 0.38
43 25 0.62
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (40 bp):
ACGCTCATATCATGCATATATATATAATCCTATATATCCA
Found at i:439892 original size:94 final size:95
Alignment explanation
Indices: 439729--439921 Score: 370
Period size: 94 Copynumber: 2.0 Consensus size: 95
439719 TCCAACGCTC
439729 ATATCATGCTATATATATATATAATCCTATATATCCAATTACACAACGTAGAATTTTATAGTTTT
1 ATATCATGC-ATATATATATATAATCCTATATATCCAATTACACAACGTAGAATTTTATAGTTTT
439794 GCATAGATTTAAGACCGTTGAATAAGTGAAA
65 GCATAGATTTAAGACCGTTGAATAAGTGAAA
439825 ATATCATGC-TATATATATATAATCCTATATATCCAATTACACAACGTAGAATTTTATAGTTTTG
1 ATATCATGCATATATATATATAATCCTATATATCCAATTACACAACGTAGAATTTTATAGTTTTG
439889 CATAGATTTAAGACCGTTGAATAAGTGAAA
66 CATAGATTTAAGACCGTTGAATAAGTGAAA
439919 ATA
1 ATA
439922 AACGATTGAA
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
94 88 0.91
96 9 0.09
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (95 bp):
ATATCATGCATATATATATATAATCCTATATATCCAATTACACAACGTAGAATTTTATAGTTTTG
CATAGATTTAAGACCGTTGAATAAGTGAAA
Found at i:440433 original size:17 final size:16
Alignment explanation
Indices: 440411--440444 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
440401 CATAATTGAC
440411 ATGTTCTATTTTATTAT
1 ATGTTC-ATTTTATTAT
*
440428 ATGTTCGTTTTATTAT
1 ATGTTCATTTTATTAT
440444 A
1 A
440445 AATTTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (16 bp):
ATGTTCATTTTATTAT
Found at i:441124 original size:22 final size:22
Alignment explanation
Indices: 441096--441139 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
441086 AGAATATAAT
441096 TTGGCCTAACAATTTTATTAAC
1 TTGGCCTAACAATTTTATTAAC
**
441118 TTGGCCTAATGATTTTATTAAC
1 TTGGCCTAACAATTTTATTAAC
441140 AAGGAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (22 bp):
TTGGCCTAACAATTTTATTAAC
Found at i:445696 original size:29 final size:30
Alignment explanation
Indices: 445657--445716 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
445647 AACTTTGTTC
* **
445657 GGTTCAGTTAATTATTTTTGAAAAAATTTT
1 GGTTCAGTTAATGATTAATGAAAAAATTTT
*
445687 GGTTC-GTTAATGATTAATGAAAAATTTTT
1 GGTTCAGTTAATGATTAATGAAAAAATTTT
445716 G
1 G
445717 ATTAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (30 bp):
GGTTCAGTTAATGATTAATGAAAAAATTTT
Found at i:448647 original size:2 final size:2
Alignment explanation
Indices: 448640--448681 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
448630 AGAATTTTAA
448640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
448682 GATAACTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:455574 original size:181 final size:181
Alignment explanation
Indices: 455221--455686 Score: 578
Period size: 182 Copynumber: 2.6 Consensus size: 181
455211 CGATCCAAAT
* * * * **
455221 TAAAAATATATCGATCCACAA-AGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGA
1 TAAAAATATATCGATCAACAACA-ATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGA
* * * * *
455285 TAAAACCGGTAAAGCGGTACCGAATATATTTAAAGTATC-AGTACTTTAATATAAGGATCGACAC
65 TAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGA-TACTTTAATATAAGGATCGACAC
*
455349 TTCGTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTT-
129 TTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTG
* * *
455401 TCAAAAAATATATCGATCAACAACAATATAATAGGTAAAAATATGATAAAACTGGTATCCAAATG
1 T--AAAAATATATCGATCAACAACAATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATG
* * * *
455466 ATGAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACAC
64 ATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACAC
* *
455530 TTTGTGAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATACTTG
129 TTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTG
* *
455583 T----ATCA-ATC-A--AACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGA
1 TAAAAAT-ATATCGATCAACAACAATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGA
* *
455640 TAAAACCGGTAAAATGATACTGGATATATTAAAAGTGTCGATACTTT
65 TAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
455687 CGTAAGTACA
Statistics
Matches: 251, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
173 84 0.33
175 1 0.00
176 5 0.02
177 1 0.00
180 1 0.00
181 65 0.26
182 92 0.37
183 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (181 bp):
TAAAAATATATCGATCAACAACAATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTG
Found at i:455655 original size:17 final size:19
Alignment explanation
Indices: 455616--455658 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
455606 ATGTAAAAAT
455616 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
455636 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
455653 ATGATA
1 ATGATA
455659 CTGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:461170 original size:182 final size:182
Alignment explanation
Indices: 460527--461548 Score: 1730
Period size: 182 Copynumber: 5.6 Consensus size: 182
460517 TTTTACATTT
* * *
460527 TTTAAAAGATAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
460592 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
460657 CGGTTATGTTGAAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
460709 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
460773 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
460838 CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
460888 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATAATTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
460952 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAGAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
461017 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGGCACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
461070 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTTTAGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
461135 AACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGACAAAATAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
461200 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
461252 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCAATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
461317 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAATCAAGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
461382 CGGATATGTTGAAAGTATCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
461434 -TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * * **
461498 TAATAATATAACATGTACAAATATGATAAAACCGGTCTATAAATGACAAAA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
461549 GGTGAATGCA
Statistics
Matches: 791, Mismatches: 43, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
178 4 0.01
179 18 0.02
180 151 0.19
181 153 0.19
182 461 0.58
183 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:461790 original size:87 final size:87
Alignment explanation
Indices: 461684--461846 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
461674 AAATAGGTCA
*
461684 ATATAAGCGCTACCTATTACATTATA-AAAGCGCTACCTAATATGTTATTGTATTTGATAATATT
1 ATATAAGCGCTACCTATTACATTATATAAA-CGCTACCTAATATGTTATTGTACTTGATAATATT
461748 TCCGGTTAAATACCTATTTTATT
65 TCCGGTTAAATACCTATTTTATT
* * *
461771 ATATAAGTGCTATCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
461836 CCGGTTAAATA
66 CCGGTTAAATA
461847 ATATAGCATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 68 0.96
88 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:464812 original size:2 final size:2
Alignment explanation
Indices: 464805--464848 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
464795 AATAATACCG
464805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
464847 AT
1 AT
464849 TACCATCGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:481733 original size:21 final size:21
Alignment explanation
Indices: 481707--481748 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
481697 ATGGGTCCGA
481707 CCAGAAACGACATATTTACAT
1 CCAGAAACGACATATTTACAT
481728 CCAGAAACGACATATTTACAT
1 CCAGAAACGACATATTTACAT
481749 ACATTGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (21 bp):
CCAGAAACGACATATTTACAT
Found at i:486412 original size:60 final size:58
Alignment explanation
Indices: 486274--486414 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 58
486264 ATGTGAAGCA
486274 TCGCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAATATTGATCGCTCAAGTGAGGCG
1 TCGCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAATATTGATCGCTCAAGTGAGGCG
* * * * * * * * * *
486332 TTGTTGAATCAAAGTATTGTGAATCGAGCCAAGGTTGAATGTTGATC-TTCAAGTGGGGCG
1 TCGCTGATTCGAAGTGTTGTGAATCGAG-CAAAG--AAATATTGATCGCTCAAGTGAGGCG
486392 TCGCTGATTCGAAGTGTTGTGAA
1 TCGCTGATTCGAAGTGTTGTGAA
486415 CCGAATAATA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
58 23 0.35
59 4 0.06
60 29 0.45
61 9 0.14
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (58 bp):
TCGCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAATATTGATCGCTCAAGTGAGGCG
Found at i:486540 original size:59 final size:59
Alignment explanation
Indices: 486460--486698 Score: 307
Period size: 59 Copynumber: 4.0 Consensus size: 59
486450 TTTCTATTGT
* * * * * * *
486460 AAATGTTGGTCCATCATGTGAGGCGTCGCTGATTTGCAGTGTTGTGAATCAAACAAAGA
1 AAATGTTGATCCATCAAGTGAGGCGTTGTTGATTCGAAGTGTTGTGAATCAAGCAAAGA
* * * *
486519 AAATGTTGATTCATCAAGTGAGGCGTTATTGATTCGAAGTGTTGTGAATCGAGCAAAGG
1 AAATGTTGATCCATCAAGTGAGGCGTTGTTGATTCGAAGTGTTGTGAATCAAGCAAAGA
* *
486578 AAATGTTGATCCCTCAAGTGAGGCATTGTTGATTCGAAGTGTTGTGAATCAAGCAAAGA
1 AAATGTTGATCCATCAAGTGAGGCGTTGTTGATTCGAAGTGTTGTGAATCAAGCAAAGA
* * * * *
486637 AAATGTTAATCCCTCACGTGAGGCTTTGTTGATTCGAAGTGTTGTGAATCGAGCAAAAGA
1 AAATGTTGATCCATCAAGTGAGGCGTTGTTGATTCGAAGTGTTGTGAATCAAGC-AAAGA
486697 AA
1 AA
486699 CGAAAACATC
Statistics
Matches: 158, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
59 151 0.96
60 7 0.04
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (59 bp):
AAATGTTGATCCATCAAGTGAGGCGTTGTTGATTCGAAGTGTTGTGAATCAAGCAAAGA
Found at i:486597 original size:211 final size:210
Alignment explanation
Indices: 486213--486625 Score: 517
Period size: 211 Copynumber: 2.0 Consensus size: 210
486203 AATCGATCCA
* * *
486213 AGGTTGAATAAGTTCTTCTCAAGAATTCTCTACTGGAAATGTCGGTTCCTTATGTGAAGCATCGC
1 AGGTCGAACAAGTTCTTCTCAAGAATTCTCTACTGGAAATGTCGGTTCCTCATGTGAAGCATCGC
* * * *
486278 TGATTCGAAGTGTTGTGAATCGAGCAAAGAAATATTGATCGCTCAAGTGAGGCGTTGTTGAATCA
66 TGATTCGAAGTGTTGTGAATCAAACAAAGAAATATTGATCGATCAAGTGAGGCGTTATTGAATCA
* * * * *
486343 AAGTATTGTGAATCGAGCCAAGGTTGAATGTTGATCTTCAAGTGGGGCGTCGCTGATTCGAAGTG
131 AAGTATTGTGAATCGAGCAAAGG-TAAATGTTGATCCTCAAGTGAGGCATCGCTGATTCGAAGTG
486408 TTGTGAACCGAATAAT
195 TTGTGAACCGAATAAT
* * * * * * *
486424 AGGTCGAACAAGTTCTTCTCATGAATTTTCTATTGTAAATGTTGG-TCCATCATGTGAGGCGTCG
1 AGGTCGAACAAGTTCTTCTCAAGAATTCTCTACTGGAAATGTCGGTTCC-TCATGTGAAGCATCG
* * * *
486488 CTGATTTGCAGTGTTGTGAATCAAACAAAGAAAATGTTGATTC-ATCAAGTGAGGCGTTATTGAT
65 CTGATTCGAAGTGTTGTGAATCAAACAAAG-AAATATTGA-TCGATCAAGTGAGGCGTTATTGAA
* * * *
486552 TCGAAGTGTTGTGAATCGAGCAAAGG-AAATGTTGATCCCTCAAGTGAGGCATTGTTGATTCGAA
128 TCAAAGTATTGTGAATCGAGCAAAGGTAAATGTTGAT-CCTCAAGTGAGGCATCGCTGATTCGAA
486616 GTGTTGTGAA
192 GTGTTGTGAA
486626 TCAAGCAAAG
Statistics
Matches: 171, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
210 12 0.07
211 108 0.63
212 49 0.29
213 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (210 bp):
AGGTCGAACAAGTTCTTCTCAAGAATTCTCTACTGGAAATGTCGGTTCCTCATGTGAAGCATCGC
TGATTCGAAGTGTTGTGAATCAAACAAAGAAATATTGATCGATCAAGTGAGGCGTTATTGAATCA
AAGTATTGTGAATCGAGCAAAGGTAAATGTTGATCCTCAAGTGAGGCATCGCTGATTCGAAGTGT
TGTGAACCGAATAAT
Found at i:486925 original size:59 final size:59
Alignment explanation
Indices: 486833--486945 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
486823 ACTTAAGCTA
* * * *
486833 ATTCGAAGTGTTTTGAATCGAACAAAGTAAATGTTAACCCCTCTAGTGGGGCGTTGATG
1 ATTCGAAGTGTTATGAATCGAACAAAGGAAATGTTAACCCCTCAAGTGAGGCGTTGATG
* *
486892 ATTCGAAGTGTTATGAATCTAGCAAAGGAAATGTTAACCCCTCAAGTGAGGCGT
1 ATTCGAAGTGTTATGAATCGAACAAAGGAAATGTTAACCCCTCAAGTGAGGCGT
486946 AGTTTGTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (59 bp):
ATTCGAAGTGTTATGAATCGAACAAAGGAAATGTTAACCCCTCAAGTGAGGCGTTGATG
Found at i:490256 original size:17 final size:18
Alignment explanation
Indices: 490234--490270 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
490224 AGTAATTTCA
*
490234 GTTATATGTTTATA-TGT
1 GTTATAAGTTTATATTGT
490251 GTTATAAGTTTATATTGT
1 GTTATAAGTTTATATTGT
490269 GT
1 GT
490271 GTCGACTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (18 bp):
GTTATAAGTTTATATTGT
Found at i:490443 original size:21 final size:22
Alignment explanation
Indices: 490417--490462 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
490407 ATTTCACGTC
490417 AAAATAAACTAAAA-CAAACAT
1 AAAATAAACTAAAAGCAAACAT
*
490438 AAAATAAACTAAAAGTAAACAT
1 AAAATAAACTAAAAGCAAACAT
490460 AAA
1 AAA
490463 TTTGACCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAATAAACTAAAAGCAAACAT
Found at i:490446 original size:11 final size:10
Alignment explanation
Indices: 490417--490462 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
490407 ATTTCACGTC
490417 AAAATAAACT
1 AAAATAAACT
*
490427 AAAACAAACAT
1 AAAATAAAC-T
490438 AAAATAAACT
1 AAAATAAACT
490448 AAAAGTAAACAT
1 AAAA-TAAAC-T
490460 AAA
1 AAA
490463 TTTGACCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 13 0.42
11 14 0.45
12 4 0.13
ACGTcount: A:0.72, C:0.11, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAATAAACT
Found at i:495088 original size:32 final size:32
Alignment explanation
Indices: 495046--495123 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
495036 TGGGTATAAG
* * *
495046 GAGCCAACCCAAGGGAACATCTTGGGGCCTGA
1 GAGCCTACCCAAGGGAACATCTCGGGGCCTCA
* * **
495078 GAGCTTACCCAA-GAAAGTTCTCGGGGCCTCA
1 GAGCCTACCCAAGGGAACATCTCGGGGCCTCA
495109 GAGCCTACCCAAGGG
1 GAGCCTACCCAAGGG
495124 TTGATATAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.14
Consensus pattern (32 bp):
GAGCCTACCCAAGGGAACATCTCGGGGCCTCA
Found at i:495681 original size:20 final size:20
Alignment explanation
Indices: 495658--495699 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
495648 CAGATTTACT
495658 AAGAGTGATTCCATTACTCA
1 AAGAGTGATTCCATTACTCA
495678 AAGAGTGATTCCATTACTCA
1 AAGAGTGATTCCATTACTCA
495698 AA
1 AA
495700 CAATCAGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (20 bp):
AAGAGTGATTCCATTACTCA
Found at i:496579 original size:23 final size:24
Alignment explanation
Indices: 496535--496580 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
496525 TATATTAGGC
*
496535 TTCAAGTATTCTAGTTCCTTTGAG
1 TTCAAGTATTCTAGTTCATTTGAG
496559 TTCAAGGTATT-T-GTTCATTTGA
1 TTCAA-GTATTCTAGTTCATTTGA
496581 TCATTGGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TTCAAGTATTCTAGTTCATTTGAG
Found at i:497955 original size:45 final size:46
Alignment explanation
Indices: 497886--497992 Score: 146
Period size: 45 Copynumber: 2.3 Consensus size: 46
497876 GGTGCACTAA
* * *
497886 GAGTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-AACAAGCCC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACCC
*
497931 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCC
*
497977 AAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
497993 GGTATGTGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 29 0.53
46 24 0.44
47 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCC
Found at i:500789 original size:23 final size:22
Alignment explanation
Indices: 500759--500840 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
500749 TGCATGGCTT
500759 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
500781 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
500803 GTGTATCGATGCATATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
500826 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
500841 TGTTCAGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
23 19 0.41
24 11 0.24
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:500860 original size:44 final size:43
Alignment explanation
Indices: 500763--500860 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 43
500753 TGGCTTGTGC
* *
500763 ATCGATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCATATTCAAGGAGTGCATCGATGCACCTTCA-GGTGT
*
500807 ATCGATGCATATTCAAAGG-GATGCATCGATGCACTGTTCA-GTGT
1 ATCGATGCATATTC-AAGGAG-TGCATCGATGCAC-CTTCAGGTGT
500851 ATCGATGCAT
1 ATCGATGCAT
500861 TAAGCACAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 28 0.58
45 16 0.33
46 4 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
ATCGATGCATATTCAAGGAGTGCATCGATGCACCTTCAGGTGT
Found at i:506752 original size:19 final size:19
Alignment explanation
Indices: 506718--506755 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
506708 CAACTCTAGC
*
506718 CAAAGTCAACATGTCGGGT
1 CAAAGTCAACAGGTCGGGT
*
506737 CAAAGTCAACGGGTCGGGT
1 CAAAGTCAACAGGTCGGGT
506756 TGACTCTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (19 bp):
CAAAGTCAACAGGTCGGGT
Found at i:508179 original size:2 final size:2
Alignment explanation
Indices: 508172--508222 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
508162 TCTTTGTCAT
*
508172 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
508214 -A TA TA TA TA
1 TA TA TA TA TA
508223 GACCTAGGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:514650 original size:85 final size:84
Alignment explanation
Indices: 514506--515469 Score: 659
Period size: 79 Copynumber: 11.8 Consensus size: 84
514496 GCGTCATCGA
* * * * * * * * *
514506 GCTGAATGGAATCGAACTCCACGGTTTTTCTTAACAGATAGCCCTTCTCA-ACTTAAGTTATGCT
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCT-AGCCTTGAGTTATGCT
514570 GTAAATTTGACATGTCCTTGT
65 GTAAATTTGACATG-CCTTGT
* * * * *
514591 GCTGAATAG-AGTCGAACTCGAAGATCTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTT
1 GCTGAAT-GTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
* *
514655 GTAAATTGGACGTGCCTT-T
65 GTAAATTTGACATGCCTTGT
* *
514674 GACCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAA-CC--CTAGCCTTGAGTTATGC
1 G--CTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
* *
514736 TGTAAA-TTGATATGCCTTTGA
64 TGTAAATTTGACATGCC-TTGT
* * * *
514757 GCTGAATGTAATCAAACCCGAAGGTCTTTGTTGGCAGATAACCCTTGTAGCCTTGAGTTATGCTG
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
* *
514822 CAAA--TG-CA--CCTTTGA
66 TAAATTTGACATGCC-TTGT
* * * * * *
514837 GCTGAGTGTAATCGAACTCAAAGGTCTTTG--GA-AGATAGCCCTTCTTGCCTTAAGCTATGCTG
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
* **
514899 CAAA--TGATGTGCCTT-T
66 TAAATTTGACATGCCTTGT
* * * *
514915 AAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATAC
1 --GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
** *
514980 TGTAAA--TGATGTGCCTTTGA
64 TGTAAATTTGACATGCC-TTGT
* * * * * *
515000 GCTGAGTGTAATCGATCTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTT-ATGCTACGCT
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGA-GTTATGCT
* ** *
515061 GCAAA--TGATGTGCCTTGA
65 GTAAATTTGACATGCCTTGT
* * * * **
515079 GCTGAGTGTAATCAAACTCGATGGACTTTG--G-CAGATAACCCTTCTAGGTTTGAGTTATGCTG
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
* ** *
515141 CAAA--TGATGTGCCTTGA
66 TAAATTTGACATGCCTTGT
* * * * * *
515158 GCTGAGTGTAATCGAACTCGTATGTCTTTG--G-CAGATAACCCTTCTTGCCTTAAGCTATG-TC
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT-
* ** *
515219 GCAAA--TGATGTGCCTTTGA
65 GTAAATTTGACATGCC-TTGT
* * **
515238 GCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCCAGCCTTGAGTTATATTG
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
** * *
515303 TAAA--TGATGTGCTTTTGA
66 TAAATTTGACATGC-CTTGT
* * * *
515321 GCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGAT-ACACCTTCTTGCCTTAAGCTATGCT
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAAC-CCTTCTAGCCTTGAGTTATGCT
* ** * *
515382 GCAAA--TGATGTACCTTGA
65 GTAAATTTGACATGCCTTGT
* *
515400 GCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTG
1 GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
515465 TAAAT
66 TAAAT
515470 GATGTTTCTT
Statistics
Matches: 736, Mismatches: 108, Indels: 72
0.80 0.12 0.08
Matches are distributed among these distances:
77 31 0.04
78 2 0.00
79 173 0.24
80 163 0.22
81 45 0.06
82 56 0.08
83 140 0.19
84 31 0.04
85 94 0.13
86 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (84 bp):
GCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
TAAATTTGACATGCCTTGT
Found at i:515152 original size:242 final size:239
Alignment explanation
Indices: 514602--516113 Score: 1510
Period size: 242 Copynumber: 6.4 Consensus size: 239
514592 CTGAATAGAG
* * * * * * *
514602 TCGAACTCGAAGATCTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTGGACG
1 TCGAACTCGAAGGTC--T-TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAA-T-GATG
* *
514667 TGCCTTTGACCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAA-CC--CTAGCCTTGA
61 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GACAGATAACCCTTCTAGCCTTGA
* * * * * *
514729 GTTATGCTGTAAATTGATATGCCTTTGAGCTGAATGTAATCAAACCCGAAGGTCTTTGTTGGCAG
124 GTTATACTGCAAA-TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAG
* * * *
514794 ATAACCCTTGTAGCCTTGAGTTATGCTGCAAATGCA----CCTTTGAGCTGAGTGTAA
185 ATAGCCCTTCTTGCCTT-AGCTATGCTGCAAATG-ATGTGCC-TTGAGCTGAGTGTAA
* * * * *
514848 TCGAACTCAAAGGTCTTTGGAAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGCCT
1 TCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
514913 TTAAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTAT
66 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GACAGATAACCCTTCTAGCCTTGAGTTAT
* *
514978 ACTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGATCTCGAAGGTCTTTGGCAGATAGCCCTT
129 ACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTT
*
515043 CTTGCCTTATGCTACGCTGCAAATGATGTGCCTTGAGCTGAGTGTAA
194 CTTGCCTTA-GCTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAA
* * * ** *
515090 TCAAACTCGATGGACTTTGGCAGATAACCCTTCTAGGTTTGAGTTATGCTGCAAATGATGTGCC-
1 TCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * * * * *
515154 TTGAGCTGAGTGTAATCGAACTCGTATGTCTTTGG-CAGATAACCCTTCTTGCCTTAAGCTAT-G
66 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGCCTTGAGTTATAC
*
515217 TCGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
131 T-GCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCC
** * ** * *
515282 TTCCAGCCTTGAGTTATATTGTAAATGATGTGCTTTTGAGCTGAGTGTAA
192 TTCTTGCCTT-AGCTATGCTGCAAATGATGTGC-CTTGAGCTGAGTGTAA
* * *
515332 TCGAACTCGAAGGTCTTTGGCAGAT-ACACCTTCTTGCCTTAAGCTATGCTGCAAATGATGTACC
1 TCGAACTCGAAGGTCTTTGGCAGATAAC-CCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCC
515396 -TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTA
65 TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GACAGATAACCCTTCTAGCCTTGAGTTA
* ** * *
515460 TACTGTAAATGATGTTTCTTTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGG-AGGATA----
128 TACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCA-GATAGCCC
* *
515520 -AC---CCTT--CTATGTTGCAAATGATGTGCCTTGAGCTGAGTGTAA
192 TTCTTGCCTTAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAA
* * * * *
515562 TCGAACTCGAAGGTCTTTGGCATATAGCCC-T-TA---TT--G---T-C-G-TAA-GCTATG---
1 TCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * * *
515610 TTAAGTTGAGTGT-ATCGAACTCGAAGGTCTTTGGA-GGATAACCCTTCTA----T--G-TGT--
66 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGCCTTGAGTTATAC
* *
515664 TGCAAATGATGTGCC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTAT
131 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCT
* * * *
515728 TGTCGTAAGCTATGTTGCAAATGATGTGCCTTGAACTGAGTGTAA
196 TG-CCTTAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAA
* * * *
515773 TCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTG
1 TCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG
* * * * *
515838 CCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTGG-CAAATAATCATTCTAGCCTTAAGTTA
63 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGCCTTGAGTTA
*
515902 TACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGATAGCCCT
128 TACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCT
515967 TCTTGCCTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
193 TCTTGCCTT-AGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGTGTAA
* * * * * **
516016 TCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTGCCTTGTGCAATTATGCAAATGATGTGCCT
1 TCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCT
* *
516081 CTGAGCTGAATGTAATCGAACTCGAAGGTCTTT
66 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
516114 TTTTGAAGGT
Statistics
Matches: 1059, Mismatches: 140, Indels: 140
0.79 0.10 0.10
Matches are distributed among these distances:
200 36 0.03
201 13 0.01
203 2 0.00
204 1 0.00
206 1 0.00
209 2 0.00
210 13 0.01
211 56 0.05
213 21 0.02
214 18 0.02
215 1 0.00
216 5 0.00
217 2 0.00
218 1 0.00
219 3 0.00
220 1 0.00
221 1 0.00
223 1 0.00
224 1 0.00
225 2 0.00
226 1 0.00
227 2 0.00
228 5 0.00
229 1 0.00
230 41 0.04
231 29 0.03
232 30 0.03
234 4 0.00
236 1 0.00
237 2 0.00
238 71 0.07
239 5 0.00
240 100 0.09
241 133 0.13
242 245 0.23
243 102 0.10
244 24 0.02
245 68 0.06
246 14 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (239 bp):
TCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCT
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGCCTTGAGTTATAC
TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCT
TGCCTTAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAA
Found at i:515206 original size:321 final size:319
Alignment explanation
Indices: 514602--516113 Score: 1650
Period size: 321 Copynumber: 4.8 Consensus size: 319
514592 CTGAATAGAG
* * * ** *
514602 TCGAACTCGAAGATCTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTGGACG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAA-T-GATG
* * * * *
514667 TGCCTTTGACCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACC--CTAGCCTTGAG
64 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATACCCTTCTTGCCTTAAG
* * * * * *
514730 TTATGCTGTAAATTGATATGCCTTTGAGCTGAATGTAATCAAACCCGAAGGTCTTTGTTGGCAGA
126 CTATGCTGCAAA-TGATGTGCC-TTGAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGA
*
514795 TAACCCTTGTAGCCTTGAGTTATGCTGCAAATGCA----CCTTTGAGCTGAGTGTAATCGAACTC
186 TAACCCTTCTAGCCTTGAGTTATGCTGCAAATG-ATGTGCC-TTGAGCTGAGTGTAATCGAACTC
* * * *
514856 AAAGGTCTTTGGAAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGTGCCTTTAAGCTG
249 GAAGGTCTTTGG-AGATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTG
*
514921 AGTATAA
313 AGTGTAA
*
514928 TCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
* * *
514993 CCTTTGAGCTGAGTGTAATCGATCTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTATGCTAC
66 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATA-CCCTTCTTGCCTTAAGCTAT
* * *
515058 GCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCAAACTCGATGGACTTTGGCAGATAACCCTTC
130 GCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
** * *
515123 TAGGTTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGTATGTCTTTG
195 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
*
515188 GCAGATAACCCTTCTTGCCTTAAGCTATGTCGCAAATGATGTGCCTTTGAGCTGAGTGTAA
260 G-AGATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
* *
515249 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCCAGCCTTGAGTTATATTGTAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
*
515314 CTTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATACACCTTCTTGCCTTAAGCTAT
66 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAC-CCTTCTTGCCTTAAGCTAT
*
515379 GCTGCAAATGATGTACCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
130 GCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCC
* * * * * *
515444 TTCTAGCCTTGAGTTATACTGTAAATGATGTTTCTTTAAGTTGAGTGTAATCGAACTCGAAGGTC
192 TTCTAGCCTTGAGTTATGCTGCAAATGATG-TGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTC
515509 TTTGGAGGATAA-----C---CCTT---CTATGTTGCAAATGATGTGCC-TTGAGCTGAGTGTAA
256 TTTGGA-GATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
* * * *
515562 TCGAACTCGAAGGTCTTTG--G-CATATAGCCC-T-TA---TT--G---T-C-GT-AA-GCTATG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
* * * *
515610 ---TTAAGTTGAGTGT-ATCGAACTCGAAGGTCTTTGG-AGGATAACC--CTT--C-T-A--TGT
66 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCA-GATACCCTTCTTGCCTTAAGCTAT
* * * *
515662 GTTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTA
130 GCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
* * * * * * *
515727 TTGTCGTAAGCTATGTTGCAAATGATGTGCCTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTG
195 TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * *
515792 TTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAA
260 --G--AGATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
* * * * * *
515856 TTGAACTCGAAGGTCTTTG--G-CAAATAATCATTCTAGCCTTAAGTTATACTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
*
515918 CCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTAAGCTAT
66 CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATA-CCCTTCTTGCCTTAAGCTAT
* *
515983 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTT
130 GCTGCAAATGATGTGCC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
* * ** ** *
516048 CTTGCCTTGTGCAATTATGCAAATGATGTGCCTCTGAGCTGAATGTAATCGAACTCGAAGGTCTT
194 CTAGCCTTGAGTTATGCTGCAAATGATGTGCCT-TGAGCTGAGTGTAATCGAACTCGAAGGTCTT
516113 T
258 T
516114 TTTTGAAGGT
Statistics
Matches: 1014, Mismatches: 112, Indels: 123
0.81 0.09 0.10
Matches are distributed among these distances:
279 33 0.03
280 29 0.03
281 2 0.00
282 5 0.00
283 52 0.05
285 1 0.00
286 1 0.00
287 2 0.00
289 3 0.00
290 4 0.00
291 3 0.00
292 25 0.02
293 30 0.03
294 40 0.04
295 1 0.00
296 6 0.01
297 2 0.00
298 2 0.00
299 2 0.00
300 1 0.00
301 1 0.00
303 1 0.00
304 1 0.00
305 3 0.00
306 1 0.00
307 2 0.00
308 5 0.00
309 1 0.00
310 8 0.01
311 12 0.01
312 24 0.02
313 37 0.04
314 20 0.02
315 3 0.00
317 5 0.00
318 2 0.00
319 39 0.04
320 3 0.00
321 278 0.27
322 101 0.10
323 39 0.04
324 93 0.09
325 39 0.04
326 52 0.05
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (319 bp):
TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
CCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATACCCTTCTTGCCTTAAGCTATG
CTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCT
AGCCTTGAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
AGATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAA
Found at i:515728 original size:132 final size:131
Alignment explanation
Indices: 515479--515743 Score: 505
Period size: 132 Copynumber: 2.0 Consensus size: 131
515469 TGATGTTTCT
515479 TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGAGGATAACCCTTCTATGTTGCAAATGATGT
1 TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGAGGATAACCCTTCTATGTTGCAAATGATGT
515544 GCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTATTGTCGTAAGCTAT
66 GCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTATTGTCGTAAGCTAT
515609 G
131 G
515610 TTAAGTTGAGTGT-ATCGAACTCGAAGGTCTTTGGAGGATAACCCTTCTATGTGTTGCAAATGAT
1 TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGAGGATAACCCTTCTA--TGTTGCAAATGAT
515674 GTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTATTGTCGTAAGCT
64 GTGCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTATTGTCGTAAGCT
515739 ATG
129 ATG
515742 TT
1 TT
515744 GCAAATGATG
Statistics
Matches: 132, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
130 36 0.27
131 13 0.10
132 83 0.63
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (131 bp):
TTAAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGAGGATAACCCTTCTATGTTGCAAATGATGT
GCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTATTGTCGTAAGCTAT
G
Done.