Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 20
Found at i:688579 original size:19 final size:18
Alignment explanation
Indices: 688555--688622 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
688545 CAGTAGCTAA
688555 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
688574 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
688589 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
688606 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
688623 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:688595 original size:13 final size:13
Alignment explanation
Indices: 688577--688601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688567 ACAATACTTA
688577 TGTATCGATACAT
1 TGTATCGATACAT
688590 TGTATCGATACA
1 TGTATCGATACA
688602 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:688599 original size:32 final size:32
Alignment explanation
Indices: 688558--688620 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
688548 TAGCTAATTA
*
688558 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
688590 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
688621 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:688702 original size:21 final size:21
Alignment explanation
Indices: 688678--688734 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
688668 CATTTGTAGG
688678 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
688699 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
688720 ATGTATCGATACATT
1 ATGTATCGATACATT
688735 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:688745 original size:1 final size:1
Alignment explanation
Indices: 688739--688794 Score: 85
Period size: 1 Copynumber: 56.0 Consensus size: 1
688729 TACATTTAAA
***
688739 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
688795 CAAACACTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:688782 original size:27 final size:27
Alignment explanation
Indices: 688744--688797 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
688734 TTAAATTTTT
688744 TTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTCAA
688771 TTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTCAA
688798 ACACTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (27 bp):
TTTTTTTTTTTTTTTTTTTTTTTTCAA
Found at i:691588 original size:24 final size:24
Alignment explanation
Indices: 691556--691611 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
691546 GGTGGCACTG
691556 TCATATTCGAACTTTTGACATTTA
1 TCATATTCGAACTTTTGACATTTA
691580 TCATATTCGAACTTTTGACATTTA
1 TCATATTCGAACTTTTGACATTTA
691604 TCATATTC
1 TCATATTC
691612 TCTAACATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (24 bp):
TCATATTCGAACTTTTGACATTTA
Found at i:692682 original size:97 final size:97
Alignment explanation
Indices: 692539--692775 Score: 271
Period size: 97 Copynumber: 2.5 Consensus size: 97
692529 TTTTTGGTTG
* * * * * * * * *
692539 AAAAATGGGGATGAAGTATCCCCTCGGAGGAATAAGGTTGGAGTATCCCCGACAATTATAATTTT
1 AAAAATGGGGTTGGAGTATCCCCTTGAAAGAATGAGGTTGGAGTATCCCCGACAATGACAATTTA
*
692604 GGCAAAAATAAGATTTAAAGCTTAACAAGTTT
66 GGCAAAAACAAGATTTAAAGCTTAACAAGTTT
* * * **
692636 AAAAATGGGGTTGGAGTATCTCCTTGAAAGAATGAGGTTAGAGTATCCCTGATGATGACAATTTA
1 AAAAATGGGGTTGGAGTATCCCCTTGAAAGAATGAGGTTGGAGTATCCCCGACAATGACAATTTA
** *
692701 GGCAAAAACAAGATTTTTATCTTAACAAGTTT
66 GGCAAAAACAAGATTTAAAGCTTAACAAGTTT
* *
692733 AAAAACGGGGTTAGAGTATCCCCTTGGAAA-AATG-GGTTGGAGT
1 AAAAATGGGGTTGGAGTATCCCCTT-GAAAGAATGAGGTTGGAGT
692776 GTCCTTGATA
Statistics
Matches: 117, Mismatches: 22, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
96 8 0.07
97 105 0.90
98 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (97 bp):
AAAAATGGGGTTGGAGTATCCCCTTGAAAGAATGAGGTTGGAGTATCCCCGACAATGACAATTTA
GGCAAAAACAAGATTTAAAGCTTAACAAGTTT
Found at i:695144 original size:20 final size:20
Alignment explanation
Indices: 695106--695160 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
695096 TATTTCAAGC
*
695106 AAGTATCGATATAAGCACTT
1 AAGTATCGATACAAGCACTT
**
695126 AAGTATCGATACATTCACTT
1 AAGTATCGATACAAGCACTT
*
695146 ATTGTATCGATACAA
1 A-AGTATCGATACAA
695161 ATTGTAGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
AAGTATCGATACAAGCACTT
Found at i:696200 original size:32 final size:33
Alignment explanation
Indices: 696141--696219 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
696131 TACATTGAAG
*
696141 AATATATCGATACGTTTGGGGTTAAAAACCCAA
1 AATATATCGATACATTTGGGGTTAAAAACCCAA
*
696174 AATATATTGATACATTT-GGGTTAAAAACCCAA
1 AATATATCGATACATTTGGGGTTAAAAACCCAA
696206 AATATATCGATACA
1 AATATATCGATACA
696220 ATGAAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (33 bp):
AATATATCGATACATTTGGGGTTAAAAACCCAA
Found at i:696337 original size:20 final size:21
Alignment explanation
Indices: 696314--696352 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
696304 TTGATATAAG
696314 CACTTA-AGTATCGATACATT
1 CACTTATAGTATCGATACATT
*
696334 CACTTATTGTATCGATACA
1 CACTTATAGTATCGATACA
696353 AATTGTAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (21 bp):
CACTTATAGTATCGATACATT
Found at i:699035 original size:54 final size:52
Alignment explanation
Indices: 698919--699037 Score: 125
Period size: 53 Copynumber: 2.2 Consensus size: 52
698909 TACTATGTAG
* * * *
698919 ATAATATAATATTTAATAATTTATATTTTATATTAAATTCATAATATTTTAT
1 ATAATATTATATTTAAAAAATTATATTTTATATTAAATTCATAATATTTAAT
* *
698971 ATCATAATTATATTTAAAAAATTATATTTT-TATATAAATT-TTAATATATTAATT
1 ATAAT-ATTATATTTAAAAAATTATATTTTATAT-TAAATTCATAATAT-TTAA-T
699025 ATTAATATTATAT
1 A-TAATATTATAT
699038 AAATTTTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
52 13 0.24
53 30 0.55
54 9 0.16
55 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (52 bp):
ATAATATTATATTTAAAAAATTATATTTTATATTAAATTCATAATATTTAAT
Found at i:700218 original size:165 final size:160
Alignment explanation
Indices: 700035--700868 Score: 710
Period size: 166 Copynumber: 5.1 Consensus size: 160
700025 TCAAAATTTT
* * * *
700035 TCAAATATTATCATTTAATTC-T-CATCAAATCAGTTTTGAAAAATTTACTTTATTTT-TGGAGT
1 TCAAATATTATTATTTAATTCATAC-T-AAATCAGTTTTCAAAAATTCA-TTCATTTTAT-GAGT
* * *
700097 TATTG-ATTTTTT-TTGAAAAATCTTCATGTTTTC-AAATTACGGGGTTTTCTACTCTGTAATTT
62 T-TTGAATTTTTTCTTG-AAATTC-TC-TTTTTTCGAAA--ACGGAGTTTTCTACTCTGTAATTT
* *
700159 TTTTTGAGGAAATTTTCTTAGTTGTTAATTTTTAAAATTCA
121 TTTTTGAGGGATTTTTCTTAGTT-TTAATTTTTAAAATTCA
* *
700200 TCAAATATTGTTATTTAATTCATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTG
1 TCAAATATTATTATTTAATTCATACTAAATCAGTTTTCAAAAATTCATTCATTTT-ATGAGTTT-
* *
700265 TGAATTTTTTCTTGAAATTCTCTTTTTTTCGAAAAACGGAGTTTTCT-GTTTCGTAAATTTTTTT
64 TGAATTTTTTCTTGAAATTCTC-TTTTTTCG-AAAACGGAGTTTTCTACTCT-GT-AATTTTTTT
* *
700329 CGGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCA
125 TGAGGGATTTTTCTTAG-TTTTAATTTTTAAAATTCA
*
700366 TCAAATATTATTATTTAATTCATACTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTT
1 TCAAATATTATTATTTAATTCATACTAAATCAGTTTTCAAAAATTCATTCATTTT-ATGAG-TTT
* * * *
700431 TGAATTTTTTCTTTAAATTCTCTTTTTTCGAAAATGGAGTTTTCTACTCTATAAATTTTTTTGAA
64 TGAATTTTTTCTTGAAATTCTCTTTTTTCGAAAACGGAGTTTTCTACTCTGTAATTTTTTTTG-A
* * *
700496 GGGATTTTTCTTGGTTTTTATTTTTTAAATTCA
128 GGGATTTTTCTTAGTTTTAATTTTTAAAATTCA
* * * * * *
700529 TCAAATATCATTAGTT-ATATCATATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTT
1 TCAAATATTATTATTTAAT-TCATACTAAATCAGTTTTCAAAAATTCATTCATTTT-ATGAG-TT
* * * * * * *
700593 TTGGATTTTTCCTTTAAATTCTCTTATTTCTGAAAAATGAAGTTTTCTACT-TCGTAA-ATTTTT
63 TTGAATTTTTTCTTGAAATTCTCTTTTTTC-G-AAAACGGAGTTTTCTACTCT-GTAATTTTTTT
* *
700656 TCAGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
125 TGA-GG-GATTTTTCTTAG-TTTTAATTTTTAAAATTCA
* * * *
700695 TCAAATATCATTATTT-ATTCCATATTAAATCAGCTTTT-AAAAATTAATTCATTTTCATAAGTT
1 TCAAATATTATTATTTAATT-CATACTAAATCAG-TTTTCAAAAATTCATTCATTTT-ATGAGTT
* * * * * * *
700758 TTGGATTTTTTCTTTGAAA-TCTCCATTTTCTCGAAAATC-GAGATTTCTA-TTTCATAAATATT
63 TTGAATTTTTTC-TTGAAATTCT-C-TTTTTTCGAAAA-CGGAGTTTTCTACTCT-GTAATTTTT
* * *
700820 TTCGAGGAGA-TTTTCTTTAGTTTAAAATTTTTAAAATGCA
123 TTTGAGG-GATTTTTC-TTAGTTT-TAATTTTTAAAATTCA
*
700860 TCTAATATT
1 TCAAATATT
700869 GTCATTGAAC
Statistics
Matches: 569, Mismatches: 68, Indels: 64
0.81 0.10 0.09
Matches are distributed among these distances:
162 2 0.00
163 108 0.19
164 57 0.10
165 170 0.30
166 211 0.37
167 21 0.04
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (160 bp):
TCAAATATTATTATTTAATTCATACTAAATCAGTTTTCAAAAATTCATTCATTTTATGAGTTTTG
AATTTTTTCTTGAAATTCTCTTTTTTCGAAAACGGAGTTTTCTACTCTGTAATTTTTTTTGAGGG
ATTTTTCTTAGTTTTAATTTTTAAAATTCA
Found at i:700367 original size:166 final size:164
Alignment explanation
Indices: 700157--700868 Score: 809
Period size: 166 Copynumber: 4.3 Consensus size: 164
700147 ACTCTGTAAT
* * * *
700157 TTTTTTTGAGGA-AATTTTCTTAGTTGTTAATTTTTAAAATTCATCAAATATTGTTATTTAATTC
1 TTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATTC
* *
700221 ATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTGTGAATTTTTTCTTGAAATTCT
65 ATACTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCT
* *
700286 CTTTTTTTCGAAAAACGGAGTTTTCTGTTTCGTAAA
130 C-TTTTTTCGAAAAACGGAGTTTTCTATTTCATAAA
*
700322 TTTTTTTCG-GGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATT
1 -TTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATT
* *
700386 CATACTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTTAAATTC
64 CATACTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTC
* *
700451 TCTTTTTTCG-AAAATGGAGTTTTCTA-CTCTATAAA
129 TCTTTTTTCGAAAAACGGAGTTTTCTATTTC-ATAAA
* * * * *
700486 TTTTTTTGAAGG-GATTTTTCTTGGTTTTT-ATTTTTTAAATTCATCAAATATCATTAGTTATAT
1 TTTTTTCG-AGGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT-T
* * * * * * *
700549 CATATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTGGATTTTTCCTTTAAATTC
64 CATACTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTC
* * * * *
700614 TCTTATTTCTGAAAAATGAAGTTTTCTACTTCGTAAA
129 TCTTTTTTC-GAAAAACGGAGTTTTCTATTTCATAAA
* *
700651 TTTTTTC-AGGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTATTC
1 TTTTTTCGA-GGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATT-
* * * *
700715 CATATTAAATCAGCTTTT-AAAAATTAATTCATTTTCATAAG-TTTTGGATTTTTTCTTTGAAA-
64 CATACTAAATCAG-TTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTC-TTGAAAT
* * *
700777 TCTCCATTTTCTCGAAAATC-GAGATTTCTATTTCATAAA
127 TCT-C-TTTTTTCGAAAAACGGAGTTTTCTATTTCATAAA
* ** * *
700816 TATTTTCGAGGAGA-TTTTCTTTAGTTTAAAATTTTTAAAATGCATCTAATATT
1 TTTTTTCGAGGAGATTTTTC-TTAGTTTTTAATTTTTAAAATTCATCAAATATT
700869 GTCATTGAAC
Statistics
Matches: 475, Mismatches: 53, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
162 2 0.00
163 104 0.22
164 42 0.09
165 124 0.26
166 194 0.41
167 9 0.02
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (164 bp):
TTTTTTCGAGGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCA
TACTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCTC
TTTTTTCGAAAAACGGAGTTTTCTATTTCATAAA
Found at i:700739 original size:329 final size:330
Alignment explanation
Indices: 700140--700867 Score: 902
Period size: 329 Copynumber: 2.2 Consensus size: 330
700130 AAATTACGGG
* *
700140 GTTTTCTACTCTGTAATTTTTTTTGAGGAAATTTTCTTAGTTGTTAATTTTTAAAATTCATCAAA
1 GTTTTCTACTCTATAAATTTTTTTGAGGAAATTTTCTTAGTTGTTAATTTTTAAAATTCATCAAA
** *
700205 TATTGTTATTTAATTCATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTGTGAAT
66 TATCATTAGTTAATTCATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTGTGAAT
* * * ** *
700270 TTTTTCTTGAAATTCTCTTTTTTTCGAAAAACGGAGTTTTCTGTTTCGTAAATTTTTTTCGGGGG
131 TTTTCCTTGAAATTCTCTTTTTCTCGAAAAACGAAGTTTTCTACTTCGTAAATTTTTTTCGGGAG
* *
700335 ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATACTAAATTAGT
196 ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAATTCATACTAAATCAGT
* * *
700400 TTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTT-AAAT-TCTC-TTTTTTCGA
261 TTTCAAAAATTAATTCATTTTCATAAG-TTTTGAATTTTTTCTTTGAAATCTC-CATTTTCTCGA
*
700462 AAATGGA
324 AAATCGA
* * * * *
700469 GTTTTCTACTCTATAAATTTTTTTGAAGGGATTTTTCTTGGTT-TTTATTTTTTAAATTCATCAA
1 GTTTTCTACTCTATAAATTTTTTTG-AGGAAATTTTCTTAGTTGTTAATTTTTAAAATTCATCAA
* * * * * * *
700533 ATATCATTAGTT-ATATCATATTAAATCAGTTTTTAAAAATTCCTTCATTTTCTTGAGTTTTTGG
65 ATATCATTAGTTAAT-TCATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTGTGA
* *
700597 ATTTTTCCTTTAAATTCTCTTATTTCT-GAAAAATGAAGTTTTCTACTTCGTAAA-TTTTTTCAG
129 ATTTTTCCTTGAAATTCTCTT-TTTCTCGAAAAACGAAGTTTTCTACTTCGTAAATTTTTTTC-G
* *
700660 GGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTT-ATTCCATATTAAA
192 GGAGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAATT-CATACTAAA
*
700724 TCAGCTTTT-AAAAATTAATTCATTTTCATAAGTTTTGGATTTTTTCTTTGAAATCTCCATTTTC
256 TCAG-TTTTCAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTTGAAATCTCCATTTTC
700788 TCGAAAATCGA
320 TCGAAAATCGA
* * * * * * *
700799 GATTTCTA-TTTCATAAATATTTTCGAGGAGATTTTCTTTAGTT-TAAAATTTTTAAAATGCATC
1 GTTTTCTACTCT-ATAAATTTTTTTGAGGAAATTTTC-TTAGTTGT-TAATTTTTAAAATTCATC
*
700862 TAATAT
63 AAATAT
700868 TGTCATTGAA
Statistics
Matches: 340, Mismatches: 47, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
328 28 0.08
329 231 0.68
330 62 0.18
331 19 0.06
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (330 bp):
GTTTTCTACTCTATAAATTTTTTTGAGGAAATTTTCTTAGTTGTTAATTTTTAAAATTCATCAAA
TATCATTAGTTAATTCATACTAAACCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTGTGAAT
TTTTCCTTGAAATTCTCTTTTTCTCGAAAAACGAAGTTTTCTACTTCGTAAATTTTTTTCGGGAG
ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAATTCATACTAAATCAGT
TTTCAAAAATTAATTCATTTTCATAAGTTTTGAATTTTTTCTTTGAAATCTCCATTTTCTCGAAA
ATCGA
Found at i:703651 original size:45 final size:45
Alignment explanation
Indices: 703599--703742 Score: 234
Period size: 45 Copynumber: 3.2 Consensus size: 45
703589 ATTTAATACA
703599 AAATAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCC
1 AAATAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCC
* *
703644 AACTAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCT
1 AAATAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCC
* * *
703689 AAATAAAAATCTATGTAAACTTAAACCCAAACTCAATTAAAACCC
1 AAATAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCC
*
703734 AATTAAAAA
1 AAATAAAAA
703743 AATAACAAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.23
Consensus pattern (45 bp):
AAATAAAAATCTATATAAACTTAAACCCAAACCCAATTAAAATCC
Found at i:705890 original size:138 final size:139
Alignment explanation
Indices: 705642--705959 Score: 453
Period size: 138 Copynumber: 2.3 Consensus size: 139
705632 AAAGATTTCG
* * * *
705642 AAACTTCTCGTATCTTTTCGGGCTTCCATTAAGGTTACTAGATAAATTTTAAAATCGATAATAAC
1 AAACTTTTCGTATCTTTTCAGGCTTCCATTAAGG-TACGAGATAAATTTGAAAATCGATAATAAC
*
705707 AATAAAGATTTTTTTTACATTATTAATTAAGGATTTTAATGTTCCTATAGGCA-TCTGTA-AGGG
65 AAT-AAGATTTTTTTTACATTAGTAATTAAGGATTTTAATGTTCCTATAGGCATTC-GTAGA-GG
* *
705770 TAATAAATTCTTA
127 CAATAAAATCTTA
* *
705783 AAACTTTTCGTATCTTTTCAGGCTTCTATTAAGGTACGAGATAAATTTGAAAATCGATAATAATA
1 AAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAGATAAATTTGAAAATCGATAATAACA
** *
705848 AT-ATTTTTTTTTTACATTAGTAATTAAGGATTTTAATGTTCCTATGGGCATTCGTAGAGGCAAT
66 ATAAGATTTTTTTTACATTAGTAATTAAGGATTTTAATGTTCCTATAGGCATTCGTAGAGGCAAT
705912 AAAATCTTA
131 AAAATCTTA
* *
705921 AAACTTTTTGTATCTTTTCAAGCTTCCATTAAGGTACGA
1 AAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGA
705960 AATGATTTCT
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
138 96 0.60
139 3 0.02
140 30 0.19
141 31 0.19
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (139 bp):
AAACTTTTCGTATCTTTTCAGGCTTCCATTAAGGTACGAGATAAATTTGAAAATCGATAATAACA
ATAAGATTTTTTTTACATTAGTAATTAAGGATTTTAATGTTCCTATAGGCATTCGTAGAGGCAAT
AAAATCTTA
Found at i:713867 original size:5 final size:5
Alignment explanation
Indices: 713857--713917 Score: 61
Period size: 5 Copynumber: 12.2 Consensus size: 5
713847 CGAGCTATCC
* *** *
713857 ATTTA ATTTA ATTTA ATTTAA ATTGA ATACG A-TTA TTTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTT-A ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
713907 ATTTA ATTTA A
1 ATTTA ATTTA A
713918 ATTATTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (5 bp):
ATTTA
Found at i:713954 original size:23 final size:23
Alignment explanation
Indices: 713924--713989 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 23
713914 TTAAATTATT
713924 ATTTAATAATAAAAATTATTTAA
1 ATTTAATAATAAAAATTATTTAA
713947 ATTTAATAATAAAAATTA--TAA
1 ATTTAATAATAAAAATTATTTAA
713968 ATATTAAT-ATAAAAATATATTT
1 AT-TTAATAATAAAAAT-TATTT
713990 TTTAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.33
22 7 0.18
23 18 0.46
24 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAATAATAAAAATTATTTAA
Found at i:713994 original size:20 final size:20
Alignment explanation
Indices: 713916--713995 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 20
713906 AATTTAATTT
*
713916 AAATTATTATTTAATAATAA
1 AAATTATTTTTTAATAATAA
713936 AAATTATTTAAATTTAATAATAA
1 AAATTATTT---TTTAATAATAA
* *
713959 AAATTATAAATATTAAT-ATAA
1 AAATTAT--TTTTTAATAATAA
713980 AAATATATTTTTTAAT
1 AAAT-TATTTTTTAAT
713996 TTTTTATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 14 0.29
21 8 0.16
22 8 0.16
23 18 0.37
25 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATTTTTTAATAATAA
Found at i:716052 original size:3 final size:3
Alignment explanation
Indices: 716034--716083 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
716024 AATATGAATT
*
716034 TTA TTT TTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
716080 TTA T
1 TTA T
716084 ATCCAAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:721547 original size:99 final size:99
Alignment explanation
Indices: 721441--721625 Score: 268
Period size: 99 Copynumber: 1.9 Consensus size: 99
721431 TAGCACGAAA
* * *
721441 TCAATGGACTTTTATGTCAC-AAAATA-TTAAAATTGAATTAGACGTATCAAAAATATTTTACCA
1 TCAATGGACTTTTATG-C-CTAAAATAGATAAAATTAAATTAGACGTATCAAAAATATTTAACCA
*
721504 TAAAAAAATTTAAAA-AGATTCAATATTATCATGAAG
64 TAAAAAAA-TTAAAAGAAATTCAATATTATCATGAAG
* *
721540 TCAATGGACTTTTATGCCTGAAATAGATAAAATTAAATTAGACGTATCAAAAATATTTAACTATA
1 TCAATGGACTTTTATGCCTAAAATAGATAAAATTAAATTAGACGTATCAAAAATATTTAACCATA
721605 AAAAAATTAAAAGAAATTCAA
66 AAAAAATTAAAAGAAATTCAA
721626 AAAAACCTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
97 1 0.01
98 12 0.16
99 64 0.83
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (99 bp):
TCAATGGACTTTTATGCCTAAAATAGATAAAATTAAATTAGACGTATCAAAAATATTTAACCATA
AAAAAATTAAAAGAAATTCAATATTATCATGAAG
Found at i:721809 original size:126 final size:125
Alignment explanation
Indices: 721585--721867 Score: 354
Period size: 126 Copynumber: 2.3 Consensus size: 125
721575 AATTAGACGT
* * * *
721585 ATCAAAAATATTTAA-CTATAAAAAAATTAAAAGAAATTCAAAAAAACCTCAATGTTAGCATGAA
1 ATCAAAAATATTTAATC-ATAAAAAAATTAAAAGAAATTCAAAAAAACCTAAAAGTTAACATAAA
* * * * * ***
721649 GTTAATGGATTTTTATGTCATAAAATGTTAAAATTGAATTATACAACT-TTTATTAAGTTGC
65 ATCAATGAACTTTTATGTCATAAAATGTTAAAATTGAATTATA-AAATGTTTATTAAAACGC
* * *
721710 ATCAAAAATATTTAATCATAAAAAAATTGAAAAGAAATTCAAGAAGACTTAAAAGTTAACATAAA
1 ATCAAAAATATTTAATCATAAAAAAATT-AAAAGAAATTCAAAAAAACCTAAAAGTTAACATAAA
* *
721775 ATCAATGAACTTTTATGTTATAAAATGTTAAAATTGAATTATAAAATGTTTATTAAAACGT
65 ATCAATGAACTTTTATGTCATAAAATGTTAAAATTGAATTATAAAATGTTTATTAAAACGC
* *
721836 ATCAAAAATATTTAATTATAAAAAATTTAAAA
1 ATCAAAAATATTTAATCATAAAAAAATTAAAA
721868 TGATCCAATG
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 33 0.24
126 103 0.76
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (125 bp):
ATCAAAAATATTTAATCATAAAAAAATTAAAAGAAATTCAAAAAAACCTAAAAGTTAACATAAAA
TCAATGAACTTTTATGTCATAAAATGTTAAAATTGAATTATAAAATGTTTATTAAAACGC
Found at i:722189 original size:2 final size:2
Alignment explanation
Indices: 722182--722208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
722172 AAATTGTTTC
722182 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
722209 GACAAGTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:722894 original size:26 final size:26
Alignment explanation
Indices: 722821--722897 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
722811 TCCTGGCTAA
722821 ATACAATTATACGTTCACCATAAT-T
1 ATACAATTATACGTTCACCATAATAT
* * *
722846 ATACAATTATACTTTGTA-TATAATAT
1 ATACAATTATACGTT-CACCATAATAT
722872 ATACAATTATACGTTCACCATAATAT
1 ATACAATTATACGTTCACCATAATAT
722898 TTTTTTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 20 0.47
26 23 0.53
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (26 bp):
ATACAATTATACGTTCACCATAATAT
Found at i:723383 original size:20 final size:21
Alignment explanation
Indices: 723352--723398 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
723342 ATAATTAAAT
*
723352 TTAATTAAA-AATTATTATTTTA
1 TTAATTAAATAATGA-T-TTTTA
723374 TTAATTAAATAATGATTTTTA
1 TTAATTAAATAATGATTTTTA
723395 TTAA
1 TTAA
723399 ATCTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 10 0.43
23 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAATTAAATAATGATTTTTA
Found at i:727034 original size:14 final size:14
Alignment explanation
Indices: 727015--727043 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
727005 AATATTATTG
727015 TTGAAAAAATTAGA
1 TTGAAAAAATTAGA
727029 TTGAAAAAATTAGA
1 TTGAAAAAATTAGA
727043 T
1 T
727044 AAATTTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
TTGAAAAAATTAGA
Found at i:727164 original size:2 final size:2
Alignment explanation
Indices: 727159--727196 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
727149 ATTGCTTCTC
727159 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
727197 CCAAAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:731720 original size:48 final size:49
Alignment explanation
Indices: 731624--731742 Score: 141
Period size: 48 Copynumber: 2.4 Consensus size: 49
731614 TGGATATAAC
* * * *
731624 AACGGGGCTGGAGTATCTCCAATTATGGAAAATCGATGTTCTAGAAAT-
1 AACGGGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTCTAAAAATA
* * * *
731672 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAA
1 AACGGGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTCTAAAAAT-A
731722 AACCGGGGTTGGAGTATCCCC
1 AA-CGGGGTTGGAGTATCCCC
731743 TCGAAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 40 0.67
50 2 0.03
51 18 0.30
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (49 bp):
AACGGGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTCTAAAAATA
Found at i:732131 original size:21 final size:21
Alignment explanation
Indices: 732107--732157 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
732097 CTAAAAATCT
732107 CAAAAAATCGATTTTTGAGCA
1 CAAAAAATCGATTTTTGAGCA
*
732128 CAAAAAATCGATTTTTGAGTA
1 CAAAAAATCGATTTTTGAGCA
*
732149 GAAAAAATC
1 CAAAAAATC
732158 CTTGAACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (21 bp):
CAAAAAATCGATTTTTGAGCA
Found at i:734229 original size:20 final size:20
Alignment explanation
Indices: 734204--734257 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
734194 ATGTATCGAT
*
734204 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATAA
734224 ACAATGTATCGATACAATAA
1 ACAATGTATCGATACAATAA
734244 ACAATGTATCGATA
1 ACAATGTATCGATA
734258 TAAATTGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATAA
Found at i:734241 original size:13 final size:13
Alignment explanation
Indices: 734193--734222 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
734183 GTAAACACAG
734193 AATGTATCGATAC
1 AATGTATCGATAC
734206 AATGTATCGATAC
1 AATGTATCGATAC
734219 AATG
1 AATG
734223 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:737066 original size:20 final size:20
Alignment explanation
Indices: 737030--737067 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
737020 TCATTTAATA
*
737030 ATGATTTTTTATCTTTCTTC
1 ATGATTTTTAATCTTTCTTC
737050 ATGATTGTTTAAT-TTTCT
1 ATGATT-TTTAATCTTTCT
737068 CAACAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.11, G:0.08, T:0.63
Consensus pattern (20 bp):
ATGATTTTTAATCTTTCTTC
Found at i:738433 original size:31 final size:31
Alignment explanation
Indices: 738380--738443 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
738370 TTATAAATTT
*
738380 AAAATCTTAAATTATTATTTAAATATT-AATA
1 AAAATCTTAAATTATTAATTAAAT-TTAAATA
* * *
738411 AAAATTTTATATTTTTAATTAAATTTAAATA
1 AAAATCTTAAATTATTAATTAAATTTAAATA
738442 AA
1 AA
738444 TATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAATCTTAAATTATTAATTAAATTTAAATA
Found at i:738684 original size:18 final size:19
Alignment explanation
Indices: 738663--738712 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
738653 AAATATTAAA
738663 ATATTAAAATTTAT-TTTT
1 ATATTAAAATTTATATTTT
*
738681 ATATTAATATTTATATTTT
1 ATATTAAAATTTATATTTT
738700 ATAATT-AAATTTA
1 AT-ATTAAAATTTA
738713 ATTAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 13 0.46
19 12 0.43
20 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAAAATTTATATTTT
Found at i:738699 original size:20 final size:19
Alignment explanation
Indices: 738669--738712 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
738659 TAAAATATTA
738669 AAATTTAT-TTTTAT-ATT
1 AAATTTATATTTTATAATT
738686 AATATTTATATTTTATAATT
1 AA-ATTTATATTTTATAATT
738706 AAATTTA
1 AAATTTA
738713 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 11 0.46
20 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATTTATATTTTATAATT
Found at i:739323 original size:3 final size:3
Alignment explanation
Indices: 739317--739352 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
739307 GAGAAAGAAG
739317 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
739353 TTTGGATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:739490 original size:16 final size:18
Alignment explanation
Indices: 739451--739494 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
739441 TACATACAAA
739451 AAGAAAAACAAAATATGT
1 AAGAAAAACAAAATATGT
*
739469 -ATAAAAA-AAAATAT-T
1 AAGAAAAACAAAATATGT
739484 AAG-AAAACAAA
1 AAGAAAAACAAA
739495 TAACTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.23
16 11 0.50
17 6 0.27
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (18 bp):
AAGAAAAACAAAATATGT
Found at i:739979 original size:3 final size:3
Alignment explanation
Indices: 739971--739998 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
739961 TAACGTTTGA
739971 GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT G
739999 ATTGAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:745270 original size:15 final size:14
Alignment explanation
Indices: 745247--745288 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
745237 TAAAATAATT
745247 CACACAAAGTGATAA
1 CACA-AAAGTGATAA
745262 CACAGAAAGTGATAA
1 CACA-AAAGTGATAA
745277 CAC-AAAGTGATA
1 CACAAAAGTGATA
745289 GCATCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (14 bp):
CACAAAAGTGATAA
Found at i:745283 original size:13 final size:13
Alignment explanation
Indices: 745248--745288 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
745238 AAAATAATTC
745248 ACACAAAGTGATA
1 ACACAAAGTGATA
745261 ACACAGAAAGTGATA
1 ACAC--AAAGTGATA
745276 ACACAAAGTGATA
1 ACACAAAGTGATA
745289 GCATCATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.50
15 13 0.50
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.15
Consensus pattern (13 bp):
ACACAAAGTGATA
Found at i:754202 original size:22 final size:23
Alignment explanation
Indices: 754174--754229 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
754164 TGGACATGTT
754174 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATCAA
754196 AAAAATGCATGAAACATAATCAA
1 AAAAATGCATGAAACATAATCAA
754219 AAAAATGCATG
1 AAAAATGCATG
754230 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATCAA
Found at i:755189 original size:20 final size:20
Alignment explanation
Indices: 755142--755216 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
755132 AAAAAGACAT
*
755142 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
755161 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
755182 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
755202 AATGTATCGATACAT
1 AATGTATCGATACAT
755217 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:755210 original size:40 final size:39
Alignment explanation
Indices: 755139--755216 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
755129 GGTAAAAAGA
* *
755139 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
755178 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
755217 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:755793 original size:32 final size:32
Alignment explanation
Indices: 755744--756576 Score: 960
Period size: 32 Copynumber: 27.2 Consensus size: 32
755734 AATATGGTGA
* **
755744 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
755776 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
755808 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
755840 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
755872 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
755904 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
755936 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
755968 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756000 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756032 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
756064 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
756096 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756128 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756160 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
756192 TTTGGAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
*
756224 TTTGGAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756252 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
756281 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGTGGGC
* *
756310 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
756339 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGTGGGC
756368 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGTGGGC
* * *
756397 TTTAAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * * *
756426 TTTGAAAAGAG-TGCCACTAAC-T-TGTAGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
756455 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGTGGGC
756484 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
756512 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
756541 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACTGACTTGTGTGGGC
756570 TTTGAAA
1 TTTGAAA
756577 GGGATGAACA
Statistics
Matches: 752, Mismatches: 33, Indels: 35
0.92 0.04 0.04
Matches are distributed among these distances:
28 43 0.06
29 257 0.34
30 12 0.02
31 3 0.00
32 437 0.58
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
Found at i:757817 original size:13 final size:11
Alignment explanation
Indices: 757809--757843 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
757799 TTTTTTGCTA
757809 TTTTTTTTTTG
1 TTTTTTTTTTG
757820 TTTTTTTGTTTTG
1 -TTTTTT-TTTTG
757833 TTTTTTTTTTG
1 TTTTTTTTTTG
757844 GGTGTAACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 12 0.55
13 5 0.23
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:757818 original size:14 final size:12
Alignment explanation
Indices: 757799--757842 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
757789 GACCCTTCTA
757799 TTTTTTGCTATTTT
1 TTTTTTG-T-TTTT
757813 TTTTTTGTTTTT
1 TTTTTTGTTTTT
757825 TTGTTTTGTTTTT
1 TT-TTTTGTTTTT
757838 TTTTT
1 TTTTT
757843 GGGTGTAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.31
13 13 0.45
14 7 0.24
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:770931 original size:22 final size:23
Alignment explanation
Indices: 770903--770958 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
770893 TGGACATGTT
770903 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATCAA
770925 AAAAATGCATGAAACATAATCAA
1 AAAAATGCATGAAACATAATCAA
770948 AAAAATGCATG
1 AAAAATGCATG
770959 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATCAA
Found at i:771920 original size:20 final size:20
Alignment explanation
Indices: 771873--771947 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
771863 AAAAAGACAT
*
771873 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
771892 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
771913 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
771933 AATGTATCGATACAT
1 AATGTATCGATACAT
771948 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:771941 original size:40 final size:39
Alignment explanation
Indices: 771870--771947 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
771860 GGTAAAAAGA
* *
771870 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
771909 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
771948 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:776837 original size:5 final size:5
Alignment explanation
Indices: 776827--776860 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
776817 TCATATTTTT
*
776827 TTATA TTATA TTTATA TTATT TTATA TTATA TTA
1 TTATA TTATA -TTATA TTATA TTATA TTATA TTA
776861 ATATCGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTATA
Found at i:776840 original size:11 final size:11
Alignment explanation
Indices: 776826--776864 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
776816 TTCATATTTT
776826 TTTATATTATA
1 TTTATATTATA
776837 TTTATATTAT-
1 TTTATATTATA
776847 TTTATATTATA
1 TTTATATTATA
*
776858 TTAATAT
1 TTTATAT
776865 CGTATAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATATTATA
Found at i:776843 original size:21 final size:21
Alignment explanation
Indices: 776819--776864 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
776809 TATCTTGTTC
* *
776819 ATATTTTTTTATATTATATTT
1 ATATTATTTTATATTATATTA
776840 ATATTATTTTATATTATATTA
1 ATATTATTTTATATTATATTA
776861 ATAT
1 ATAT
776865 CGTATAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTATTTTATATTATATTA
Found at i:776850 original size:10 final size:10
Alignment explanation
Indices: 776819--776856 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
776809 TATCTTGTTC
*
776819 ATATTTTTTT
1 ATATTATTTT
776829 ATATTATATTT
1 ATATTAT-TTT
776840 ATATTATTTT
1 ATATTATTTT
776850 ATATTAT
1 ATATTAT
776857 ATTAATATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTATTTT
Found at i:778016 original size:30 final size:30
Alignment explanation
Indices: 777939--778016 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
777929 TAGTGATATT
*
777939 ATTTTAAATTATATTTATGAGTCAAAAATA
1 ATTTTAAATTATATTTATAAGTCAAAAATA
*
777969 A-TTAAGATATTAT-TTTATAAGTCAAAAATA
1 ATTTTA-A-ATTATATTTATAAGTCAAAAATA
777999 ATTTTAAATTATATTTAT
1 ATTTTAAATTATATTTAT
778017 TAAAATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 8 0.20
30 25 0.61
31 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (30 bp):
ATTTTAAATTATATTTATAAGTCAAAAATA
Found at i:781628 original size:32 final size:33
Alignment explanation
Indices: 781570--781632 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
781560 CGTATTTACT
781570 ATTACAAAAAAAACAATAATCAAAATTTTAACAA
1 ATTACAAAAAAAACAATAAT-AAAATTTTAACAA
*
781604 ATTACAAAATAAAATAA-AAT-AAATTTTAA
1 ATTACAAAA-AAAACAATAATAAAATTTTAA
781633 AACTATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
34 12 0.44
35 6 0.22
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (33 bp):
ATTACAAAAAAAACAATAATAAAATTTTAACAA
Found at i:782367 original size:45 final size:45
Alignment explanation
Indices: 782303--782392 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
782293 GAATAATTAA
782303 TATGACTTTTCTTGATCTTTACATCCAGCTACTTGGCAACCAAAC
1 TATGACTTTTCTTGATCTTTACATCCAGCTACTTGGCAACCAAAC
782348 TATGACTTTTCTTGATCTTTACATCCAGCTACTTGGCAACCAAAC
1 TATGACTTTTCTTGATCTTTACATCCAGCTACTTGGCAACCAAAC
782393 GTGCCTTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (45 bp):
TATGACTTTTCTTGATCTTTACATCCAGCTACTTGGCAACCAAAC
Found at i:788922 original size:8 final size:8
Alignment explanation
Indices: 788894--788933 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
788884 AATATATATA
788894 TAATTTTT
1 TAATTTTT
788902 T-ATTTTAT
1 TAATTTT-T
788910 TAATTTTT
1 TAATTTTT
788918 TAATTTTT
1 TAATTTTT
788926 TAATTTTT
1 TAATTTTT
788934 GACTAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.17
8 20 0.67
9 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TAATTTTT
Found at i:789066 original size:56 final size:56
Alignment explanation
Indices: 788980--789091 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
788970 TTATTTGAAA
* *
788980 ATTTATAAAAGAAAAATAGAAAAACCCTACTTAATTCTACTTTGAGTTATACTAGC
1 ATTTATAAAAGAAAAATAGAAAAACCCTACTTAATTCTACTTTCAGTTAAACTAGC
789036 ATTTATAAAAGAAAAATAGAAAAACCCTACTTAATTCTACTTTCAGTTAAACTAGC
1 ATTTATAAAAGAAAAATAGAAAAACCCTACTTAATTCTACTTTCAGTTAAACTAGC
789092 TTTCAAACTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (56 bp):
ATTTATAAAAGAAAAATAGAAAAACCCTACTTAATTCTACTTTCAGTTAAACTAGC
Found at i:790709 original size:8 final size:8
Alignment explanation
Indices: 790696--790954 Score: 89
Period size: 8 Copynumber: 30.4 Consensus size: 8
790686 TAAATATATA
790696 TTTTTAAT
1 TTTTTAAT
790704 TTTTTAAT
1 TTTTTAAT
*
790712 ATTTT-AT
1 TTTTTAAT
790719 TTTTTAAT
1 TTTTTAAT
*
790727 ATTTTGAATTT
1 -TTTTTAA--T
*
790738 TATATTTAAA
1 T-T-TTTAAT
* *
790748 ATTTTAAG
1 TTTTTAAT
**
790756 CCTTT--T
1 TTTTTAAT
*
790762 TTTATAAT
1 TTTTTAAT
790770 TTTTGTGAA-
1 TTTT-T-AAT
790779 TTTTTAGAT
1 TTTTTA-AT
*
790788 ATTTTAAGT
1 TTTTTAA-T
790797 TATTTTAAT
1 T-TTTTAAT
*
790806 TTTATAGAT
1 TTTTTA-AT
790815 TTTTATAAT
1 TTTT-TAAT
*
790824 TTTTCAAAT
1 TTTT-TAAT
790833 TTTCTTAA-
1 TTT-TTAAT
790841 TTTTT-AT
1 TTTTTAAT
*
790848 TTTTTTAT
1 TTTTTAAT
790856 TTTTTAGAT
1 TTTTTA-AT
*
790865 TTTTTACAAAAC
1 TTTTT----AAT
*
790877 TTTTGAAT
1 TTTTTAAT
*
790885 TGTTTAGAT
1 TTTTTA-AT
*
790894 TTTTCGAAT
1 TTTT-TAAT
*
790903 TTTTTTAT
1 TTTTTAAT
*
790911 TTTTTATT
1 TTTTTAAT
*
790919 TTTTTGAAA
1 TTTTT-AAT
*
790928 TTTTAAAT
1 TTTTTAAT
*
790936 TTTTTTAT
1 TTTTTAAT
790944 TTTTTAAT
1 TTTTTAAT
790952 TTT
1 TTT
790955 ATTTTGATTT
Statistics
Matches: 184, Mismatches: 40, Indels: 54
0.66 0.14 0.19
Matches are distributed among these distances:
6 3 0.02
7 14 0.08
8 80 0.43
9 62 0.34
10 13 0.07
11 2 0.01
12 9 0.05
13 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (8 bp):
TTTTTAAT
Found at i:790721 original size:14 final size:16
Alignment explanation
Indices: 790697--790738 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
790687 AAATATATAT
*
790697 TTTTAATTTTTTAATA
1 TTTTGATTTTTTAATA
790713 TTTT-ATTTTTTAATA
1 TTTTGATTTTTTAATA
790728 TTTTGAATTTT
1 TTTTG-ATTTT
790739 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.62
16 4 0.17
17 5 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTGATTTTTTAATA
Found at i:790722 original size:15 final size:16
Alignment explanation
Indices: 790697--790989 Score: 80
Period size: 17 Copynumber: 17.8 Consensus size: 16
790687 AAATATATAT
790697 TTTTAATTTTTTAATA
1 TTTTAATTTTTTAATA
790713 TTTT-ATTTTTTAATA
1 TTTTAATTTTTTAATA
790728 TTTTGAA--TTTT-ATA
1 TTTT-AATTTTTTAATA
** **
790742 -TTTAAAATTTTAAGC
1 TTTTAATTTTTTAATA
* * *
790757 CTTT--TTTTATAATT
1 TTTTAATTTTTTAATA
790771 TTTGTGAA-TTTTTAGATA
1 TTT-T-AATTTTTTA-ATA
790789 TTTTAAGTTATTTTAAT-
1 TTTTAA-TT-TTTTAATA
790806 TTTATAGATTTTTATAAT-
1 TTT-TA-ATTTTT-TAATA
790824 TTTTCAAATTTTCTTAAT-
1 TTTT--AATTTT-TTAATA
* *
790842 TTTT-ATTTTTTTATT
1 TTTTAATTTTTTAATA
*
790857 TTTTAGATTTTTTACAAAA
1 TTTTA-ATTTTTT--AATA
*
790876 CTTTTGAATTGTTTAGAT-
1 -TTTT-AATTTTTTA-ATA
* *
790894 TTTTCGAATTTTTTTATT
1 TTTT--AATTTTTTAATA
*
790912 TTTTATTTTTTTGAA-A
1 TTTTAATTTTTT-AATA
* *
790928 TTTTAAATTTTTTTATT
1 TTTT-AATTTTTTAATA
*
790945 TTTTAATTTTATT-TTGA
1 TTTTAATTTT-TTAAT-A
790962 -TTTATATCTTTTTAATA
1 TTTTA-AT-TTTTTAATA
790979 -TTTAATTTTTT
1 TTTTAATTTTTT
790990 GATGATATGG
Statistics
Matches: 212, Mismatches: 27, Indels: 77
0.67 0.09 0.24
Matches are distributed among these distances:
12 2 0.01
13 3 0.01
14 18 0.08
15 35 0.17
16 34 0.16
17 50 0.24
18 49 0.23
19 10 0.05
20 10 0.05
21 1 0.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTAATTTTTTAATA
Found at i:790866 original size:9 final size:8
Alignment explanation
Indices: 790760--790954 Score: 90
Period size: 9 Copynumber: 22.5 Consensus size: 8
790750 TTTAAGCCTT
790760 TTTTTATAA
1 TTTTT-TAA
790769 TTTTTGTGAA
1 TTTTT-T-AA
790779 -TTTTTAGA
1 TTTTTTA-A
*
790787 TATTTTAA
1 TTTTTTAA
790795 GTTATTTTAA
1 -TT-TTTTAA
*
790805 TTTTATAGA
1 TTTTTTA-A
790814 TTTTTATAA
1 TTTTT-TAA
*
790823 TTTTTCAAA
1 TTTTT-TAA
790832 TTTTCTTAA
1 TTTT-TTAA
790841 -TTTTT-A
1 TTTTTTAA
*
790847 TTTTTTTA
1 TTTTTTAA
790855 TTTTTTAGA
1 TTTTTTA-A
790864 TTTTTTACAAAA
1 TTTTTT----AA
* *
790876 CTTTTGAA
1 TTTTTTAA
*
790884 TTGTTTAGA
1 TTTTTTA-A
*
790893 TTTTTCGAA
1 TTTTT-TAA
*
790902 TTTTTTTA
1 TTTTTTAA
*
790910 TTTTTTAT
1 TTTTTTAA
790918 TTTTTTGAA
1 TTTTTT-AA
* *
790927 ATTTTAAA
1 TTTTTTAA
*
790935 TTTTTTTA
1 TTTTTTAA
790943 TTTTTTAA
1 TTTTTTAA
790951 TTTT
1 TTTT
790955 ATTTTGATTT
Statistics
Matches: 141, Mismatches: 27, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
6 1 0.01
7 8 0.06
8 54 0.38
9 60 0.43
10 12 0.09
12 5 0.04
13 1 0.01
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (8 bp):
TTTTTTAA
Found at i:790974 original size:33 final size:34
Alignment explanation
Indices: 790904--790989 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 34
790894 TTTTCGAATT
*
790904 TTTTTATTTTTT-A-TTTTTTTGAAATTTTAAATT
1 TTTTTATTTTTTAATTTTTTTTG-AATTTTAAATC
*
790937 TTTTTATTTTTTAATTTTATTTTG-A-TTTATATC
1 TTTTTATTTTTTAATTTT-TTTTGAATTTTAAATC
* *
790970 TTTTTAATATTTAATTTTTT
1 TTTTTATTTTTTAATTTTTT
790990 GATGATATGG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.04
33 34 0.74
34 2 0.04
35 3 0.07
36 5 0.11
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (34 bp):
TTTTTATTTTTTAATTTTTTTTGAATTTTAAATC
Found at i:794860 original size:36 final size:37
Alignment explanation
Indices: 794813--794884 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
794803 TAATTAAAAA
*
794813 ATAATAAAAATTCATAACATAAT-TTAAATAATATTTG
1 ATAATAAAAATTCAAAACATAATATT-AATAATATTTG
* *
794850 ATAA-AAAAATTTAAAAGATAATATTAATAATATTT
1 ATAATAAAAATTCAAAACATAATATTAATAATATTT
794885 TTATCACATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (37 bp):
ATAATAAAAATTCAAAACATAATATTAATAATATTTG
Found at i:796045 original size:30 final size:30
Alignment explanation
Indices: 796009--796067 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
795999 ATAAAAAAAA
*
796009 TAAAAAATTAA-ATAAATATAAATTTATTTT
1 TAAAAAAATAATATAAATAT-AATTTATTTT
* *
796039 TAAAAAAATAATATAATTATATTTTATTT
1 TAAAAAAATAATATAAATATAATTTATTT
796068 ACAAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAAAAATAATATAAATATAATTTATTTT
Found at i:802354 original size:28 final size:28
Alignment explanation
Indices: 802322--802375 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
802312 TGTTTCGTTA
*
802322 AGGAAGATTTTTAGAATGTTGAAGGTTG
1 AGGAAGATTTTTAGAATGTTAAAGGTTG
802350 AGGAAGATTTTTAGAATGTTAAAGGT
1 AGGAAGATTTTTAGAATGTTAAAGGT
802376 AACATCTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (28 bp):
AGGAAGATTTTTAGAATGTTAAAGGTTG
Found at i:809444 original size:15 final size:15
Alignment explanation
Indices: 809405--809449 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
809395 TATTTTTTCT
*
809405 AATTTAAATTTTTTGA
1 AATTT-AATTTTTTAA
*
809421 AATAT-ATTTTTTAA
1 AATTTAATTTTTTAA
809435 AATTTAATTTTTTAA
1 AATTTAATTTTTTAA
809450 TTAAGTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
AATTTAATTTTTTAA
Found at i:810277 original size:21 final size:23
Alignment explanation
Indices: 810252--810311 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 23
810242 AAGGGGAGAA
810252 AGAAAGAAAAGAAAAAAAAA-AG
1 AGAAAGAAAAGAAAAAAAAAGAG
810274 -GAAA-AAAA-AAGAAAAAAAGAG
1 AGAAAGAAAAGAA-AAAAAAAGAG
810295 AGAAAGAAAAGAAAAAA
1 AGAAAGAAAAGAAAAAA
810312 TTATGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 6 0.18
22 4 0.12
23 8 0.24
24 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AGAAAGAAAAGAAAAAAAAAGAG
Found at i:810278 original size:11 final size:11
Alignment explanation
Indices: 810258--810291 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
810248 AGAAAGAAAG
*
810258 AAAAGAAAAAA
1 AAAAGGAAAAA
810269 AAAAGGAAAAA
1 AAAAGGAAAAA
810280 AAAA-GAAAAA
1 AAAAGGAAAAA
810290 AA
1 AA
810292 GAGAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAGGAAAAA
Found at i:810299 original size:22 final size:21
Alignment explanation
Indices: 810253--810311 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
810243 AGGGGAGAAA
*
810253 GAAAGAAAAGAAAAAAAAAAG
1 GAAAAAAAAGAAAAAAAAAAG
*
810274 GAAAAAAAA-AGAAAAAAAGAG
1 GAAAAAAAAGA-AAAAAAAAAG
*
810295 AGAAAGAAAAGAAAAAA
1 -GAAAAAAAAGAAAAAA
810312 TTATGTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 13 0.41
23 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAGAAAAAAAAAAG
Found at i:810876 original size:17 final size:17
Alignment explanation
Indices: 810843--810878 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
810833 TTTAAGCTAG
**
810843 AATTTTTAATTTTTTAT
1 AATTTTTAATTAATTAT
810860 AATTTTTAATTAATTAT
1 AATTTTTAATTAATTAT
810877 AA
1 AA
810879 AAATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTTTAATTAATTAT
Found at i:814261 original size:46 final size:46
Alignment explanation
Indices: 814204--814297 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
814194 ATTACATTTA
* * *
814204 TTAAAAGGTATGGATGTTATTTTGTTATTTTTATTTTTAAAAATGC
1 TTAAAAAGTATGGATGTTACTTTGTTATTTTAATTTTTAAAAATGC
* **
814250 TTAAAAAGTATGGATGTTCCTTTGTTATTTTAATTTTTGGAAATGC
1 TTAAAAAGTATGGATGTTACTTTGTTATTTTAATTTTTAAAAATGC
814296 TT
1 TT
814298 TTTATGTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (46 bp):
TTAAAAAGTATGGATGTTACTTTGTTATTTTAATTTTTAAAAATGC
Found at i:817889 original size:13 final size:13
Alignment explanation
Indices: 817855--817892 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
817845 TATGTTTTTA
*
817855 GCATCGAAACATT
1 GCATCGATACATT
817868 GCATC-ATACATT
1 GCATCGATACATT
*
817880 GTATCGATACATT
1 GCATCGATACATT
817893 AGCACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (13 bp):
GCATCGATACATT
Found at i:820460 original size:20 final size:22
Alignment explanation
Indices: 820419--820463 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
820409 GTTACGTATA
820419 AATGCTTTTCAAGCATAAAAAT
1 AATGCTTTTCAAGCATAAAAAT
*
820441 AATG-TTTTCAAGTA-AAAAAT
1 AATGCTTTTCAAGCATAAAAAT
820461 AAT
1 AAT
820464 CCAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (22 bp):
AATGCTTTTCAAGCATAAAAAT
Found at i:820708 original size:13 final size:13
Alignment explanation
Indices: 820672--820708 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
820662 ACTCACTTAA
*
820672 TATCGATACAGTG
1 TATCGATACATTG
820685 TATCGATACATTG
1 TATCGATACATTG
820698 TATCGATACAT
1 TATCGATACAT
820709 GGTGAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:826923 original size:31 final size:32
Alignment explanation
Indices: 826880--826960 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
826870 AGGGTAAAAT
*
826880 CATTAGTC-AAAAAGATGACTAAGGCAAAACC
1 CATTAGTCAAAAAAGACGACTAAGGCAAAACC
* * *
826911 CATTAGTTAAAAAAGACGACTAGGGTAAAACC
1 CATTAGTCAAAAAAGACGACTAAGGCAAAACC
* *
826943 AATTAGTC-AAGAAGACGA
1 CATTAGTCAAAAAAGACGA
826961 TCAAAATGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 16 0.38
32 26 0.62
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (32 bp):
CATTAGTCAAAAAAGACGACTAAGGCAAAACC
Found at i:827220 original size:54 final size:55
Alignment explanation
Indices: 827162--827291 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 55
827152 TCTTTGAAAA
* *
827162 TTATTTTGGCTACCACTA-CAAAAGTTTTGGATACAACACCA-ATGATTTTGACAT
1 TTATTTTAGCTACCACCACCAAAAGTTTTGGATACAACACCATA-GATTTTGACAT
* * * * *
827216 TTATTCTAGTTACCACCACCAGAAGTTTTGGATACACCACCATAGATTTTGGCAT
1 TTATTTTAGCTACCACCACCAAAAGTTTTGGATACAACACCATAGATTTTGACAT
* * *
827271 TTATTTCAGTTACTACCACCA
1 TTATTTTAGCTACCACCACCA
827292 GAAGCTTTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 14 0.22
55 49 0.77
56 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (55 bp):
TTATTTTAGCTACCACCACCAAAAGTTTTGGATACAACACCATAGATTTTGACAT
Found at i:827257 original size:55 final size:55
Alignment explanation
Indices: 827183--827343 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 55
827173 ACCACTACAA
*
827183 AAGTTTTGGATACAACACCAATGATTTTGACATTTATTCTAGTTACCACCACCAG
1 AAGTTTTGGATACACCACCAATGATTTTGACATTTATTCTAGTTACCACCACCAG
* *
827238 AAGTTTTGGATACACCACC-ATAGATTTTGGCATTTATT-TCAGTTACTACCACCAG
1 AAGTTTTGGATACACCACCAAT-GATTTTGACATTTATTCT-AGTTACCACCACCAG
* * * ** * * **
827293 AAGCTTTAGATGCACTGCTAAAGATTTTGA-AAATATTCTAGTTACCACCAC
1 AAGTTTTGGATACACCACCAATGATTTTGACATTTATTCTAGTTACCACCAC
827344 TAGTAGCTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
54 19 0.22
55 68 0.77
56 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (55 bp):
AAGTTTTGGATACACCACCAATGATTTTGACATTTATTCTAGTTACCACCACCAG
Found at i:827478 original size:108 final size:107
Alignment explanation
Indices: 827198--827481 Score: 284
Period size: 108 Copynumber: 2.6 Consensus size: 107
827188 TTGGATACAA
* * * *
827198 CACCAATGATTTTGACATTTATTCTAGTTACCACCACCAGAAGTTTTGGATACACCACCATAGAT
1 CACCAAAGATTTTGA-AATTATTCTAGTTACCACCACTAGAA-TTTTGGATACACCACCAAAGA-
* * * * *
827263 TTTGGCATTTATTTCAGTTACTACCACCAGAAGCTTTAGATGCAC
63 CTTGGCATTTATTTCAGTTACTACCAACAAAAACTCTAGATGCAC
** * * ** * * ** *
827308 TGCTAAAGATTTTGAAAATATTCTAGTTACCACCACTAGTAGCTTTAGATATATAACTAAAGACT
1 CACCAAAGATTTTGAAATTATTCTAGTTACCACCACTAG-AATTTTGGATACACCACCAAAGACT
* *
827373 TGTCATTTATTTTTA-TTACTACCAACAAAAACTCTAGATGCAC
65 TGGCATTTA-TTTCAGTTACTACCAACAAAAACTCTAGATGCAC
*
827416 CACCAAAGATTTTGAAATTA-TCTTAATTACCACCACTAGCAATTTTGGATACACCACCAAAGAC
1 CACCAAAGATTTTGAAATTATTC-TAGTTACCACCACTAG-AATTTTGGATACACCACCAAAGAC
827480 TT
64 TT
827482 TTCTTTAAAC
Statistics
Matches: 136, Mismatches: 35, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
107 2 0.01
108 83 0.61
109 39 0.29
110 12 0.09
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (107 bp):
CACCAAAGATTTTGAAATTATTCTAGTTACCACCACTAGAATTTTGGATACACCACCAAAGACTT
GGCATTTATTTCAGTTACTACCAACAAAAACTCTAGATGCAC
Found at i:827754 original size:38 final size:38
Alignment explanation
Indices: 827680--827769 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
827670 ATTTCTAAAC
* * *
827680 AAACTCTTTTG-ATGCTTCAAATTCAACTATCGAAGAT
1 AAACTCTTTTGAATGCTTCAAATTCAACCACCAAAGAT
827717 AAACTCTTTTGAATGCTTCAAACTTC-ACCACCAAAGAT
1 AAACTCTTTTGAATGCTTCAAA-TTCAACCACCAAAGAT
* *
827755 AAACTTTTTTAAATG
1 AAACTCTTTTGAATG
827770 TTTTGGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 11 0.24
38 32 0.70
39 3 0.07
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (38 bp):
AAACTCTTTTGAATGCTTCAAATTCAACCACCAAAGAT
Found at i:829468 original size:20 final size:20
Alignment explanation
Indices: 829443--829480 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
829433 CATTTCATGC
*
829443 TTTTCTATATTTTCTTTTCT
1 TTTTCTATATTTTATTTTCT
*
829463 TTTTCTATTTTTTATTTT
1 TTTTCTATATTTTATTTT
829481 TCATTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTATATTTTATTTTCT
Found at i:829501 original size:7 final size:7
Alignment explanation
Indices: 829457--829503 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
829447 CTATATTTTC
829457 TTTTC-T
1 TTTTCAT
829463 TTTTCTAT
1 TTTTC-AT
*
829471 TTTTTAT
1 TTTTCAT
829478 TTTTCAT
1 TTTTCAT
*
829485 TTTGCA-
1 TTTTCAT
829491 TTTTCAT
1 TTTTCAT
829498 TTTTCA
1 TTTTCA
829504 GAAGGAGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 10 0.29
7 19 0.56
8 5 0.15
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:830861 original size:20 final size:21
Alignment explanation
Indices: 830819--830871 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
830809 TTCAACAATT
830819 TGTATCGATACAATAAGGTAA
1 TGTATCGATACAATAAGGTAA
*
830840 TGTATCGATAC-GTAA-GTAAA
1 TGTATCGATACAATAAGGT-AA
*
830860 TGTATCAATACA
1 TGTATCGATACA
830872 TACTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAAGGTAA
Found at i:832487 original size:19 final size:19
Alignment explanation
Indices: 832463--832562 Score: 107
Period size: 19 Copynumber: 5.9 Consensus size: 19
832453 AATTCAACGA
832463 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
832482 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
832497 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
832514 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
832529 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
832546 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
832563 TTAGCTACTG
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 4 0.06
19 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:832501 original size:32 final size:32
Alignment explanation
Indices: 832465--832559 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
832455 TTCAACGATT
832465 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
832497 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
832529 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
832560 TAATTAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:832502 original size:13 final size:13
Alignment explanation
Indices: 832484--832540 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
832474 ACATAAGTTT
832484 TGTATCGATACAA
1 TGTATCGATACAA
832497 TGTATCGATACATAA
1 TGTATCGATAC--AA
832512 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
832529 TGTATCGATACA
1 TGTATCGATACA
832541 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:832620 original size:13 final size:13
Alignment explanation
Indices: 832602--832627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832592 CATTTTTCTG
832602 TGTATCGATACAT
1 TGTATCGATACAT
832615 TGTATCGATACAT
1 TGTATCGATACAT
832628 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:832624 original size:33 final size:33
Alignment explanation
Indices: 832582--832648 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
832572 GTCAAGGAAA
***
832582 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
832615 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
832648 T
1 T
832649 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:835227 original size:52 final size:51
Alignment explanation
Indices: 835163--835332 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
835153 TTATTTTCGA
* *
835163 GGGGATACTCCAACTCCGATTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGATTTTAT-TCTAAAACACCAATTTTTCCACAATC
* * * **
835215 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GATTTTATTCT-AAAACACCAATTTTTCC-ACAATC
* *
835267 GGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGATTTTA--TTCTAAAACACCAATTTTTCCACAATC
*
835319 GAGGATACTCCAAC
1 GGGGATACTCCAAC
835333 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 68 0.71
53 12 0.12
54 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTCTAAAACACCAATTTTTCCACAATC
Found at i:835316 original size:104 final size:103
Alignment explanation
Indices: 834996--835331 Score: 306
Period size: 104 Copynumber: 3.2 Consensus size: 103
834986 ATTAATTCTC
* * * * *
834996 CACAATCGCGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
835060 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * ** * * * ** **
835101 CACAATCGGGGATACTCCAATCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGA
1 CACAATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATC--
* *
835163 GGGGATACTCCAACTCCGATTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
*
835207 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
* *
835272 TACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
835312 CACAATCGAGGATACTCCAA
1 CACAATCGGGGATACTCCAA
835332 CCTCGTTATT
Statistics
Matches: 180, Mismatches: 35, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
103 6 0.03
104 46 0.26
105 33 0.18
106 20 0.11
107 42 0.23
108 4 0.02
109 29 0.16
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:835352 original size:28 final size:28
Alignment explanation
Indices: 835316--835392 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
835306 ATTTTTCACA
* * *
835316 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
835344 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
835372 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
835393 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:835361 original size:212 final size:212
Alignment explanation
Indices: 834994--835388 Score: 602
Period size: 212 Copynumber: 1.9 Consensus size: 212
834984 TTATTAATTC
* *
834994 TCCACAATCGCGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGCGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
835059 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAATCC
*
835124 CGTTAATCATCGGGGATACTCCAACCCCGTTA-TTTTCGAGGGGATACTCCAACTCCGATTTTAT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCT-GAGGGGATACTCCAACTCCGATTTTAT
835188 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * * *
835206 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGCGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
835270 GATACTCCAACTCCGATTTTATTTTC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA-
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAT
*
835332 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAAC
129 CC-CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAAC
835389 CCCGGCTTTA
Statistics
Matches: 166, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
210 2 0.01
211 29 0.17
212 98 0.59
213 37 0.22
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGCGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAATCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACTCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:847955 original size:1 final size:1
Alignment explanation
Indices: 847949--848008 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
847939 CCTTCTCTTC
** * * * * *
847949 AAAAAAAAAGCAAAAAAAAAAAAACAAAAAAAAACAAAACAAAGAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
848009 TCTGCTTAAG
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:847969 original size:15 final size:14
Alignment explanation
Indices: 847949--848008 Score: 77
Period size: 14 Copynumber: 4.1 Consensus size: 14
847939 CCTTCTCTTC
*
847949 AAAAAAAAAGCAAA
1 AAAAAAAAAACAAA
847963 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
847977 AAAAAACAAAACAAA
1 AAAAAA-AAAACAAA
847992 GAAAAAGAAAAA-AAA
1 -AAAAA-AAAAACAAA
848007 AA
1 AA
848009 TCTGCTTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
14 21 0.50
15 11 0.26
16 9 0.21
17 1 0.02
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:847976 original size:25 final size:25
Alignment explanation
Indices: 847948--848007 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
847938 ACCTTCTCTT
847948 CAAAAAAAAAGCAAAA-AAAAAAAAA
1 CAAAAAAAAA-CAAAACAAAAAAAAA
*
847973 CAAAAAAAAACAAAACAAAGAAAAA
1 CAAAAAAAAACAAAACAAAAAAAAA
*
847998 GAAAAAAAAA
1 CAAAAAAAAA
848008 ATCTGCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAACAAAACAAAAAAAAA
Found at i:849059 original size:55 final size:55
Alignment explanation
Indices: 848975--849243 Score: 450
Period size: 55 Copynumber: 4.9 Consensus size: 55
848965 TCCGCTTTTT
* *
848975 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
** *
849030 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
**
849085 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCC
*
849140 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
849195 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
849244 TTTTCTCAAA
Statistics
Matches: 202, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
54 2 0.01
55 198 0.98
56 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:849257 original size:30 final size:30
Alignment explanation
Indices: 849221--849278 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
849211 GACACCTCTT
849221 AAAGCCCACACAAGTTGGTGGCATTTTCTC
1 AAAGCCCACACAAGTTGGTGGCATTTTCTC
849251 AAAGCCCACACAAGTTGGTGGCATTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTTC
849279 CAGTCCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCTC
Found at i:849309 original size:85 final size:85
Alignment explanation
Indices: 849166--849328 Score: 299
Period size: 85 Copynumber: 1.9 Consensus size: 85
849156 GACACCTCTT
*
849166 AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
849231 CAAGTTGGTGGCATTTTCTC
66 CAAGTTGGTGGCATTTTCTC
**
849251 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
849316 CAAGTTGGTGGCA
66 CAAGTTGGTGGCA
849329 CCTTTCAGTC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (85 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
CAAGTTGGTGGCATTTTCTC
Found at i:849338 original size:55 final size:55
Alignment explanation
Indices: 849251--849797 Score: 712
Period size: 55 Copynumber: 9.9 Consensus size: 55
849241 GCATTTTCTC
849251 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTCTT
* *
849306 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCT-TT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
* *
849360 CAAAGCCCACCCAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATACCTCTT
1 -AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTCTT
* * *
849416 AAAGCCCACACAAGTTGGCGGCACCTTTCAGTCCTCAAAGAACAGGACACCT-TT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
*
849470 CAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
1 -AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTCTT
* *
849526 AAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
* * * ** *
849580 AAAGCCCACACATGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C---ACCTCTT
* * *
849640 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACATCTCTT
1 -AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
* *
849696 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCT-TT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
* * * *
849750 CAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
1 -AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
849798 TACAGTTTAT
Statistics
Matches: 438, Mismatches: 38, Indels: 32
0.86 0.07 0.06
Matches are distributed among these distances:
54 59 0.13
55 316 0.72
56 14 0.03
57 1 0.00
59 1 0.00
60 5 0.01
61 42 0.10
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
Found at i:849365 original size:140 final size:140
Alignment explanation
Indices: 849109--849388 Score: 508
Period size: 140 Copynumber: 2.0 Consensus size: 140
849099 AGGACACCTT
849109 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
* *
849174 CACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGG
66 CACAAGTTGGTGGCACCTTCCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGG
849239 TGGCATTTTC
131 TGGCATTTTC
849249 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
* *
849314 CACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTG
66 CACAAGTTGGTGGCACCTTCCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTG
849378 GTGGCATTTTC
130 GTGGCATTTTC
849389 CAGTCCTCAA
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 2 0.01
140 133 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (140 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
CACAAGTTGGTGGCACCTTCCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGG
TGGCATTTTC
Found at i:849450 original size:250 final size:250
Alignment explanation
Indices: 849001--849498 Score: 872
Period size: 250 Copynumber: 2.0 Consensus size: 250
848991 GACACCTTTT
*
849001 AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
** *
849066 CAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
* *
849131 GCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCA
131 GCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGCGGCACCTTCCA
*
849196 GTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCTC
196 GTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCTC
**
849251 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
*
849316 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTG
66 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
* *
849381 GCATTTTCCAGTCCTCAAAGAGCAGGATACCTCTTAAAGCCCACACAAGTTGGCGGCACCTTTCA
131 GCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGCGGCACCTTCCA
849446 GTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
196 GTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
849499 CAGTCCTCAA
Statistics
Matches: 235, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
249 2 0.01
250 233 0.99
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (250 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
GCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGCGGCACCTTCCA
GTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTC
Found at i:849532 original size:305 final size:316
Alignment explanation
Indices: 848975--849797 Score: 1093
Period size: 305 Copynumber: 2.6 Consensus size: 316
848965 TCCGCTTTTT
* * *
848975 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
849040 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACA
849105 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
130 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAA
* *
849169 GCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAA
194 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAA
849234 GTTGGTGGCATTT-T-CTC-A-A-A-G-C-CC-A-CACA-A-GTTGGTGGCATTTTCC
259 GTTGGTGGCATTTCTCCTCAAGACAGGACACCTACCACACATGTTGGTGGCATTTTCC
*
849280 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
* *
849345 GAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
66 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGAC
* * *
849409 ACCTCTT-AAAGCCCACACAAGTTGGCGGCACCTTTCAGTCCTCAAAGAACAGGACACCT-TTCA
129 ACCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-A
**
849472 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACAC
192 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACAC
849537 AAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACATGTTGGTGGC
257 AAGTTGGTGGCATTT-C--TCCTC-AAGA-CAGGACACC---T--A--CCACACATGTTGGTGGC
*
849602 ATTTTTC
310 ATTTTCC
* **
849609 AGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
849674 CCCAAAGAGCAGGACATCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
60 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGC
* * * * *
849739 AGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
124 AGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
849798 TACAGTTTAT
Statistics
Matches: 450, Mismatches: 30, Indels: 46
0.86 0.06 0.09
Matches are distributed among these distances:
304 8 0.02
305 241 0.54
306 5 0.01
309 1 0.00
310 3 0.01
312 1 0.00
313 1 0.00
315 1 0.00
316 1 0.00
317 1 0.00
318 2 0.00
324 1 0.00
327 4 0.01
328 1 0.00
329 32 0.07
331 1 0.00
334 6 0.01
335 135 0.30
336 5 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (316 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACAC
CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGC
CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGT
TGGTGGCATTTCTCCTCAAGACAGGACACCTACCACACATGTTGGTGGCATTTTCC
Found at i:850631 original size:19 final size:16
Alignment explanation
Indices: 850608--850689 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 16
850598 ATTCAACGAT
850608 TTGTATCGATACATAA
1 TTGTATCGATACATAA
850624 GTTTTGTATCGATAC--AA
1 ---TTGTATCGATACATAA
850641 -TGTATCGATAC--AA
1 TTGTATCGATACATAA
850654 -TGTATCGATACATAAGTA
1 TTGTATCGATACAT-A--A
850672 TTGTATCGATACATAA
1 TTGTATCGATACATAA
850688 TT
1 TT
850690 ATCTACTGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
13 24 0.42
16 4 0.07
17 2 0.04
18 2 0.04
19 25 0.44
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
TTGTATCGATACATAA
Found at i:850646 original size:13 final size:13
Alignment explanation
Indices: 850628--850665 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
850618 ACATAAGTTT
850628 TGTATCGATACAA
1 TGTATCGATACAA
850641 TGTATCGATACAA
1 TGTATCGATACAA
850654 TGTATCGATACA
1 TGTATCGATACA
850666 TAAGTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:850745 original size:13 final size:13
Alignment explanation
Indices: 850727--850752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
850717 CATTTTTCTG
850727 TGTATCGATACAT
1 TGTATCGATACAT
850740 TGTATCGATACAT
1 TGTATCGATACAT
850753 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:850749 original size:33 final size:33
Alignment explanation
Indices: 850707--850773 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
850697 GCCAAGGAAA
***
850707 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
850740 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
850773 T
1 T
850774 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:853333 original size:52 final size:51
Alignment explanation
Indices: 853260--853429 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
853250 TTATTTTCGA
*
853260 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
853312 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
853364 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
853416 GAGGATACTCCAAC
1 GGGGATACTCCAAC
853430 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:853413 original size:104 final size:103
Alignment explanation
Indices: 853093--853428 Score: 306
Period size: 104 Copynumber: 3.2 Consensus size: 103
853083 ATCAATTCTC
* * * * *
853093 CACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
853157 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * ** **
853198 CACAATCGGGGATACTCCAACCCCG-TTAATCATCAAGGATACTCCAA--CCCCGTTATTTTCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAA--A-ACACCAATTTTCC-TT-TAATC--
* * *
853260 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
853304 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
853369 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
853409 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
853429 CCTCGTTATT
Statistics
Matches: 180, Mismatches: 35, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
103 8 0.04
104 44 0.24
105 33 0.18
106 19 0.11
107 42 0.23
108 4 0.02
109 30 0.17
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:853449 original size:28 final size:28
Alignment explanation
Indices: 853413--853489 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
853403 ATTTTTCACA
* * *
853413 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
853441 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
853469 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
853490 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:853458 original size:212 final size:212
Alignment explanation
Indices: 853091--853496 Score: 602
Period size: 212 Copynumber: 1.9 Consensus size: 212
853081 TTATCAATTC
* * *
853091 TCCACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
853156 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
853221 CGTTAATCATCAAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCAAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
853286 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
853303 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
853367 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * **
853430 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCAAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
853495 AT
193 AT
853497 TCCCAAAATA
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 31 0.18
212 107 0.62
213 35 0.20
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:853556 original size:107 final size:107
Alignment explanation
Indices: 853151--853560 Score: 271
Period size: 107 Copynumber: 3.8 Consensus size: 107
853141 TTCTATAATC
* * * * *
853151 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * ** * *
853216 AACCCCGTTAATCATCAAGGATACTCCAACCCCGTTATTTTCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * * *
853260 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
853323 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
853364 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
853429 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
853472 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
853536 CCCCGTTATTT-TCGAAGGGATACTC
66 CCCCGTTATTTATCG--GGGATACTC
853561 TAATCCCGAT
Statistics
Matches: 232, Mismatches: 55, Indels: 30
0.73 0.17 0.09
Matches are distributed among these distances:
104 45 0.19
105 24 0.10
106 25 0.11
107 91 0.39
108 30 0.13
109 17 0.07
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:854704 original size:21 final size:20
Alignment explanation
Indices: 854675--854726 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
854665 TCTATAATTG
*
854675 GTATTGATACAAATAGTAAAT
1 GTATCGATACAAA-AGTAAAT
* *
854696 GTATCGATACATAAGTGAAT
1 GTATCGATACAAAAGTAAAT
854716 GTATCGATACA
1 GTATCGATACA
854727 TGCCTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
GTATCGATACAAAAGTAAAT
Found at i:854820 original size:20 final size:22
Alignment explanation
Indices: 854775--854826 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
854765 AGGAAGGAAA
*
854775 TGTATCGATACATGCTCACAAT
1 TGTATCGATACATGATCACAAT
*
854797 TGTATCGATACATTATC-C-AT
1 TGTATCGATACATGATCACAAT
854817 TGTATCGATA
1 TGTATCGATA
854827 TATTCTAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 1 0.04
22 15 0.54
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (22 bp):
TGTATCGATACATGATCACAAT
Found at i:858468 original size:55 final size:55
Alignment explanation
Indices: 858344--859794 Score: 2169
Period size: 55 Copynumber: 26.3 Consensus size: 55
858334 ATTCATGCTA
858344 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG-TGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * ***
858398 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCAGACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
858453 AGTCCTCAAAGAGCAGGACTACCTC-TAAAGCCCACACCAAGTTGTTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGAC-ACCTCTTAAAGCCCACA-CAAGTTGGTGGCATTTTCC
*
858509 AGTCCTCAAAGAACAGGACACCT-TTCAAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT--AAAGCCCACACAAGTTGGTGGCATTTTCC
858565 AGTCCTCAAAGAGCAGGACCACCTCTTAAAGCCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGA-CACCTCTTAAAG-CCCACACAAGTTGGTGGCATTTTCC
*
858622 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
858677 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
858732 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* ***
858787 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
858842 AGTCCTCAAAGAGCAGGGCACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *** *
858897 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
858952 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
859007 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
859062 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
859117 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
859172 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
859227 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* ***
859282 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
859337 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
859392 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* ***
859447 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
859502 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
859557 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
859612 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCTACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
859667 ATTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
859722 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
859777 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
859795 TACAGTTTAT
Statistics
Matches: 1284, Mismatches: 86, Indels: 53
0.90 0.06 0.04
Matches are distributed among these distances:
54 60 0.05
55 1052 0.82
56 112 0.09
57 58 0.05
58 2 0.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:859719 original size:29 final size:29
Alignment explanation
Indices: 859575--859722 Score: 89
Period size: 29 Copynumber: 5.3 Consensus size: 29
859565 AAGAACAGGA
859575 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
* * * * * **
859604 CA-TTTTC-CAGTCCTCA-AAG-AGCAGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
*
859629 ACACCTCTT-AAAGCCTACACAAGTTGGTGG
1 -CACCT-TTCAAAGCCCACACAAGTTGGTGG
** * **
859659 CACCTTTC-ATTCCC-CA-AAG-AGCAGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
859684 ACACCTTTCAAAGCCCACACAAGTTGGTGG
1 -CACCTTTCAAAGCCCACACAAGTTGGTGG
859714 CACCTTTCA
1 CACCTTTCA
859723 GTCCTCAAAG
Statistics
Matches: 81, Mismatches: 26, Indels: 24
0.62 0.20 0.18
Matches are distributed among these distances:
25 6 0.07
26 16 0.20
27 13 0.16
28 18 0.22
29 22 0.27
30 6 0.07
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:860342 original size:19 final size:19
Alignment explanation
Indices: 860318--860385 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
860308 AATTCAACGA
860318 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
860337 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
860352 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
860369 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
860386 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:860356 original size:32 final size:32
Alignment explanation
Indices: 860320--860382 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
860310 TTCAACGATT
*
860320 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
860352 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
860383 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:860357 original size:13 final size:13
Alignment explanation
Indices: 860339--860363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
860329 ACATAAGTTT
860339 TGTATCGATACAA
1 TGTATCGATACAA
860352 TGTATCGATACA
1 TGTATCGATACA
860364 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:860443 original size:13 final size:13
Alignment explanation
Indices: 860425--860450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
860415 CATTTTTCTG
860425 TGTATCGATACAT
1 TGTATCGATACAT
860438 TGTATCGATACAT
1 TGTATCGATACAT
860451 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.