Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 131 of 172
Found at i:37667902 original size:33 final size:35
Alignment explanation
Indices: 37667863--37667942 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 35
37667853 AACTATAAAG
* *
37667863 GCCGAATGCACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCACATATATACACTTACACCCAACTAT
* *
37667896 GCCGAATGCATACATATATACACTTACATCTAACTAT
1 GCCGAATGC--ACATATATACACTTACACCCAACTAT
37667933 GCCGAATGCA
1 GCCGAATGCA
37667943 TACAAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 9 0.23
35 7 0.18
36 1 0.03
37 22 0.56
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (35 bp):
GCCGAATGCACATATATACACTTACACCCAACTAT
Found at i:37668342 original size:41 final size:41
Alignment explanation
Indices: 37668173--37668335 Score: 272
Period size: 41 Copynumber: 4.0 Consensus size: 41
37668163 TCATATTCGG
* *
37668173 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAT
*
37668214 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAT
* *
37668255 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAT
*
37668296 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA
37668336 ATTCACCAAT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAT
Found at i:37668342 original size:82 final size:82
Alignment explanation
Indices: 37668173--37668335 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
37668163 TCATATTCGG
*
37668173 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
37668238 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
37668255 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCATATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
37668320 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
37668336 ATTCACCAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:37668597 original size:15 final size:17
Alignment explanation
Indices: 37668556--37668599 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
37668546 TTATTCGATT
37668556 CACATATATATATTACA
1 CACATATATATATTACA
*
37668573 CACATATATATATT-CG
1 CACATATATATATTACA
37668589 CACAT-TATATA
1 CACATATATATA
37668600 AACACCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:37672362 original size:23 final size:23
Alignment explanation
Indices: 37672332--37672377 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37672322 AACTTGATTC
37672332 ACCTTGGAACTCTCTCGTTGCCT
1 ACCTTGGAACTCTCTCGTTGCCT
37672355 ACCTTGGAACTCTCTCGTTGCCT
1 ACCTTGGAACTCTCTCGTTGCCT
37672378 TAGCTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.35, G:0.17, T:0.35
Consensus pattern (23 bp):
ACCTTGGAACTCTCTCGTTGCCT
Found at i:37676289 original size:44 final size:43
Alignment explanation
Indices: 37676241--37676326 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
37676231 CCATTTATTA
*
37676241 TATTTTAAAATAAAAAGATTAAAAT-ATTTTTAAATAATTTAAAT
1 TATTTT-AAATAAAAA-ATTAAAATAATTTTTAAATAAATTAAAT
*
37676285 TATTTTAAATAAAAAATTAAAATAAATTTTTAATTAAATTAA
1 TATTTTAAATAAAAAATTAAAAT-AATTTTTAAATAAATTAA
37676327 TGCTTGAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 8 0.21
43 9 0.24
44 21 0.55
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (43 bp):
TATTTTAAATAAAAAATTAAAATAATTTTTAAATAAATTAAAT
Found at i:37682701 original size:51 final size:51
Alignment explanation
Indices: 37682619--37682725 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
37682609 CTATGAAAAT
* * *
37682619 TTGATAGAATATATAAATATTATAGATTAAATTTGTTAAATAAAGATTAAA
1 TTGATAAAATATATAAATATTACAGATTAAATTTGTTAAATAAAGACTAAA
* *
37682670 TTGATAAAATTTATAAATATTACAGGA-TAAATTTGTTAAATCAAGACTAAA
1 TTGATAAAATATATAAATATTACA-GATTAAATTTGTTAAATAAAGACTAAA
37682721 TTGAT
1 TTGAT
37682726 TGAATATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 48 0.96
52 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (51 bp):
TTGATAAAATATATAAATATTACAGATTAAATTTGTTAAATAAAGACTAAA
Found at i:37690338 original size:21 final size:20
Alignment explanation
Indices: 37690305--37690343 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
37690295 TTCCTTTTAA
* *
37690305 TAAAAAAATAAAATTAATTC
1 TAAAAAAAAAAAAATAATTC
37690325 TAAAAAATAAAAAAATAAT
1 TAAAAAA-AAAAAAATAAT
37690344 AAATAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAAAAAAAAATAATTC
Found at i:37696657 original size:35 final size:35
Alignment explanation
Indices: 37696612--37696681 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
37696602 ATCACATGCA
37696612 TTTTTTCATGCATGGCCCTGCTAATTAAATTAACT
1 TTTTTTCATGCATGGCCCTGCTAATTAAATTAACT
37696647 TTTTTTCATGCATGGCCCTGCTAATTAAATTAACT
1 TTTTTTCATGCATGGCCCTGCTAATTAAATTAACT
37696682 ATAGAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (35 bp):
TTTTTTCATGCATGGCCCTGCTAATTAAATTAACT
Found at i:37699278 original size:2 final size:2
Alignment explanation
Indices: 37699271--37699311 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
37699261 AAGGGGACTT
37699271 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
37699312 TTAAAGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37706557 original size:34 final size:34
Alignment explanation
Indices: 37706514--37706580 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
37706504 ATCTTCGGTT
37706514 ATTTTCCTATTTTATTCTCTGTTGCGTTCTTAGC
1 ATTTTCCTATTTTATTCTCTGTTGCGTTCTTAGC
37706548 ATTTTCCTATTTTATTCTCTGTTGCGTTCTTAG
1 ATTTTCCTATTTTATTCTCTGTTGCGTTCTTAG
37706581 TTAAATTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.57
Consensus pattern (34 bp):
ATTTTCCTATTTTATTCTCTGTTGCGTTCTTAGC
Found at i:37716271 original size:142 final size:143
Alignment explanation
Indices: 37716088--37716377 Score: 555
Period size: 142 Copynumber: 2.0 Consensus size: 143
37716078 CAATAGCATC
*
37716088 CGTTATGTCTGCAACCGCGATAAACGCAATGCGACCGAAAACGCGGCCGCGACCGCAATTTAAAT
1 CGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACGCGGCCGCGACCGCAATTTAAAT
37716153 CTCTGATACACCCTTGTCCTCCCTGATGATTCCTCTAATAACAGCGTCCCCAGACTGGCCACTAA
66 CTCTGATACACCCTTGTCCTCCCTGATGATTCCTCTAATAACAGCGTCCCCAGACTGGCCACTAA
37716218 TAGCCCCCATCAA
131 TAGCCCCCATCAA
*
37716231 -GTTATGTCCGCAACCGCGATAAATGCAATGCGACCGAAAACGCGGCCGCGACCGCAATTTAAAT
1 CGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACGCGGCCGCGACCGCAATTTAAAT
37716295 CTCTGATACACCCTTGTCCTCCCTGATGATTCCTCTAATAACAGCGTCCCCAGACTGGCCACTAA
66 CTCTGATACACCCTTGTCCTCCCTGATGATTCCTCTAATAACAGCGTCCCCAGACTGGCCACTAA
37716360 TAGCCCCCATCAA
131 TAGCCCCCATCAA
37716373 CGTTA
1 CGTTA
37716378 AATTTAAGGC
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
142 140 0.97
143 4 0.03
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (143 bp):
CGTTATGTCCGCAACCGCGATAAACGCAATGCGACCGAAAACGCGGCCGCGACCGCAATTTAAAT
CTCTGATACACCCTTGTCCTCCCTGATGATTCCTCTAATAACAGCGTCCCCAGACTGGCCACTAA
TAGCCCCCATCAA
Found at i:37719263 original size:29 final size:29
Alignment explanation
Indices: 37719230--37719296 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
37719220 ACTAGTAAAC
** *
37719230 TTAAATTTTTAAATTTGAAAAATAAAGAGA
1 TTAAATTTTTAAAAATAAAAAATAAAG-GA
* *
37719260 TAAAATTCTTAAAAATAAAAAATAAAGGA
1 TTAAATTTTTAAAAATAAAAAATAAAGGA
37719289 TTAAATTT
1 TTAAATTT
37719297 CAAATATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (29 bp):
TTAAATTTTTAAAAATAAAAAATAAAGGA
Found at i:37719309 original size:29 final size:30
Alignment explanation
Indices: 37719247--37719310 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
37719237 TTTAAATTTG
*
37719247 AAAAATAAAGAGATAAAATTCTTAAAAATA
1 AAAAATAAAGAGATAAAATTCTCAAAAATA
* *
37719277 AAAAATAAAG-GATTAAATT-TCAAATATA
1 AAAAATAAAGAGATAAAATTCTCAAAAATA
*
37719305 TAAAAT
1 AAAAAT
37719311 TCATAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.40
29 8 0.27
30 10 0.33
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAAATAAAGAGATAAAATTCTCAAAAATA
Found at i:37741861 original size:20 final size:20
Alignment explanation
Indices: 37741838--37741896 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 20
37741828 TTTTGAATTT
37741838 AAAAATTATTAAAAATTTAA
1 AAAAATTATTAAAAATTTAA
** *
37741858 AAAATATT-TT-TTAATTTTA
1 AAAA-ATTATTAAAAATTTAA
*
37741877 AAAAATTAATTAAATATTTA
1 AAAAATT-ATTAAAAATTTA
37741897 CATATTCATC
Statistics
Matches: 28, Mismatches: 7, Indels: 7
0.67 0.17 0.17
Matches are distributed among these distances:
18 3 0.11
19 10 0.36
20 8 0.29
21 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATTATTAAAAATTTAA
Found at i:37756939 original size:33 final size:33
Alignment explanation
Indices: 37756892--37756961 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
37756882 GTTAATTGAT
37756892 CGATTTGATCATTAAAAAAATTGATGTAACTAA
1 CGATTTGATCATTAAAAAAATTGATGTAACTAA
* * * * *
37756925 CGATTTGATTATTAAAGAAGTTGATGTGATTAA
1 CGATTTGATCATTAAAAAAATTGATGTAACTAA
37756958 CGAT
1 CGAT
37756962 AATCATCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (33 bp):
CGATTTGATCATTAAAAAAATTGATGTAACTAA
Found at i:37757434 original size:24 final size:22
Alignment explanation
Indices: 37757389--37757435 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
37757379 AATGGAAAAT
* *
37757389 AAGAATAAAAAAAGAAAGTTAA
1 AAGAATAAAAAAAAAAAATTAA
37757411 AAGAATATAAAAAATAAAAATTAA
1 AAGAATA-AAAAAA-AAAAATTAA
37757435 A
1 A
37757436 TTACTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (22 bp):
AAGAATAAAAAAAAAAAATTAA
Found at i:37766705 original size:16 final size:15
Alignment explanation
Indices: 37766671--37766706 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
37766661 TATTACAATT
37766671 TATAAATTTTTTATA
1 TATAAATTTTTTATA
37766686 -ATAAATTTTTTATA
1 TATAAATTTTTTATA
37766700 GTATAAA
1 -TATAAA
37766707 ATATGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.74
16 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATAAATTTTTTATA
Found at i:37766919 original size:17 final size:18
Alignment explanation
Indices: 37766897--37766934 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37766887 TTTATATATG
*
37766897 ATATTA-ATTATTGTAAA
1 ATATTATATTATTATAAA
*
37766914 ATATTATTTTATTATAAA
1 ATATTATATTATTATAAA
37766932 ATA
1 ATA
37766935 AATTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
ATATTATATTATTATAAA
Found at i:37771604 original size:17 final size:18
Alignment explanation
Indices: 37771568--37771605 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37771558 TTGGGCCGTG
37771568 CACTAGTCTCTTCATAAA
1 CACTAGTCTCTTCATAAA
* *
37771586 CACTAGT-TTTTCTTAAA
1 CACTAGTCTCTTCATAAA
37771603 CAC
1 CAC
37771606 AAGCACTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (18 bp):
CACTAGTCTCTTCATAAA
Found at i:37771876 original size:40 final size:40
Alignment explanation
Indices: 37771822--37771900 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
37771812 TTTTCGTGAT
* *
37771822 TTTTAGTTTTTATACTTTTTGAGTTTTAAAATTTTAATCA
1 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTTAATCA
37771862 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTTAATC
1 TTTTAATTTTTATACTTTTTGAATTTTAAAATTTTAATC
37771901 TCAATCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (40 bp):
TTTTAATTTTTATACTTTTTGAATTTTAAAATTTTAATCA
Found at i:37773309 original size:92 final size:93
Alignment explanation
Indices: 37773179--37773363 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
37773169 AGCAATCCTT
37773179 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
37773244 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
* *
37773272 TTCTTCGCCTTTTTTTAC-TTTGTTAGGATTGAGCTCTGATTAGAGATTTTTTTTTGGGTTTAAT
1 TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
37773336 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
37773364 CTGGCAGCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 73 0.81
93 17 0.19
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (93 bp):
TTCTTCGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:37777533 original size:5 final size:5
Alignment explanation
Indices: 37777523--37777547 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37777513 TCTTGATGGC
37777523 ATGCT ATGCT ATGCT ATGCT ATGCT
1 ATGCT ATGCT ATGCT ATGCT ATGCT
37777548 TCCATGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGCT
Found at i:37778488 original size:20 final size:21
Alignment explanation
Indices: 37778463--37778518 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
37778453 GACATTACCT
37778463 AAAAAGAATTTACAAA-AAAA
1 AAAAAGAATTTACAAATAAAA
*
37778483 AAAAAGACTTTA-AAATAAAA
1 AAAAAGAATTTACAAATAAAA
* *
37778503 TAAAATAATATTACAA
1 AAAAAGAAT-TTACAA
37778519 TGTAGACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.10
20 21 0.72
21 3 0.10
22 2 0.07
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAAAGAATTTACAAATAAAA
Found at i:37788703 original size:22 final size:20
Alignment explanation
Indices: 37788667--37788725 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
37788657 GGCCCGGTCT
37788667 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
37788689 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
37788710 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
37788726 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:37788727 original size:11 final size:11
Alignment explanation
Indices: 37788707--37788816 Score: 83
Period size: 11 Copynumber: 10.4 Consensus size: 11
37788697 TAAAAATTAA
37788707 AAAAAGTATTTT
1 AAAAA-TATTTT
37788719 AAAAATATTTT
1 AAAAATATTTT
37788730 --AAA-A-TTT
1 AAAAATATTTT
*
37788737 AAAAAAATTTT
1 AAAAATATTTT
37788748 AAAAAGTATTTT
1 AAAAA-TATTTT
37788760 AAAAATATTTT
1 AAAAATATTTT
*
37788771 --AAA-A-TTA
1 AAAAATATTTT
***
37788778 AAAAATAATAAA
1 AAAAAT-ATTTT
37788790 AAAAAGTATTTT
1 AAAAA-TATTTT
37788802 AAAAATATTTT
1 AAAAATATTTT
37788813 AAAA
1 AAAA
37788817 TTAAAAAAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 12 0.15
10 1 0.01
11 31 0.39
12 28 0.35
13 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:37788754 original size:41 final size:41
Alignment explanation
Indices: 37788698--37788834 Score: 213
Period size: 41 Copynumber: 3.3 Consensus size: 41
37788688 AATTTATTTT
37788698 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
** *
37788739 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
*
37788780 AAATAATAAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAA
1 AAA-AATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
*
37788821 AAAAATTTAAAAAA
1 AAAAATTAAAAAAA
37788835 TAAATATATT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 9 0.10
41 47 0.55
42 30 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
Found at i:37788846 original size:17 final size:17
Alignment explanation
Indices: 37788801--37788846 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
37788791 AAAAGTATTT
* *
37788801 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
37788818 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
37788835 TAAATATATTTA
1 TAAAAATATTTA
37788847 TTATATTGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:37790967 original size:111 final size:111
Alignment explanation
Indices: 37790773--37790994 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
37790763 CAATACCATG
37790773 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
37790838 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
37790884 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
37790949 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
37790995 TACTTCATCA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (111 bp):
CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
Found at i:37791561 original size:20 final size:20
Alignment explanation
Indices: 37791533--37791570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37791523 TATTTTCCAG
*
37791533 TAAATCATTTTACAGAAAAA
1 TAAAACATTTTACAGAAAAA
*
37791553 TAAAACATTTTTCAGAAA
1 TAAAACATTTTACAGAAA
37791571 TCATTTTACG
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:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAA
Found at i:37791573 original size:34 final size:35
Alignment explanation
Indices: 37791519--37791585 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
37791509 CAAACACCAG
*
37791519 AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAAT
* *
37791554 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37791586 CATTTTTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAAT
Found at i:37791577 original size:14 final size:14
Alignment explanation
Indices: 37791554--37791593 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37791544 ACAGAAAAAT
37791554 AAAACATTTTTCAG
1 AAAACATTTTTCAG
* * *
37791568 AAATCATTTTACGG
1 AAAACATTTTTCAG
37791582 AAAACATTTTTC
1 AAAACATTTTTC
37791594 TGGCAATCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (14 bp):
AAAACATTTTTCAG
Found at i:37798460 original size:23 final size:22
Alignment explanation
Indices: 37798430--37798472 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
37798420 CTTTAGCCCT
* *
37798430 TTAAAAATGATTAATTTATAAA
1 TTAAAAATAATAAATTTATAAA
37798452 TTAATAAATAATAAATTTATA
1 TTAA-AAATAATAAATTTATA
37798473 TTTTGATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATAATAAATTTATAAA
Found at i:37799263 original size:17 final size:17
Alignment explanation
Indices: 37799241--37799273 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37799231 ATATTTTTTA
37799241 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
37799258 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
37799274 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:37808870 original size:24 final size:23
Alignment explanation
Indices: 37808827--37808883 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
37808817 GTGATTTCCC
*
37808827 CCAACGGTCAAATTTCAAATCCGA
1 CCAACGGTAAAATTTCAAAT-CGA
* *
37808851 CCAACGGTAAAATTAT-AAATGGC
1 CCAACGGTAAAATT-TCAAATCGA
37808874 CCAACGGTAA
1 CCAACGGTAA
37808884 CTTTTTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.38
24 17 0.59
25 1 0.03
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (23 bp):
CCAACGGTAAAATTTCAAATCGA
Found at i:37812508 original size:97 final size:97
Alignment explanation
Indices: 37812342--37812536 Score: 336
Period size: 97 Copynumber: 2.0 Consensus size: 97
37812332 CTTCATAAGT
*
37812342 TGAGTTTTGCAATTTCTCTCCACTAATGTAGTCACAATAGAAATTTGAATCAATAAGTATTTTAA
1 TGAGTTTTGCAATTTCTCTCCACTAATGTAGTCACAATAGAAATTTGAATCAATAAGTATTTAAA
*
37812407 ATAGGTTGTAACGTAACTTGGCTAGGGGTAGG
66 ATAGGTTGTAACGTAACTTGGCTAAGGGTAGG
* * *
37812439 TGAGTTTTGCAATTTCTCTCCACTAATGTAGTCACCATATAAATTTGAATCAATAGGTATTTAAA
1 TGAGTTTTGCAATTTCTCTCCACTAATGTAGTCACAATAGAAATTTGAATCAATAAGTATTTAAA
*
37812504 ATAGGTTGTAACGTAGCTTGGCTAAGGGTAGG
66 ATAGGTTGTAACGTAACTTGGCTAAGGGTAGG
37812536 T
1 T
37812537 AAAAGATAGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (97 bp):
TGAGTTTTGCAATTTCTCTCCACTAATGTAGTCACAATAGAAATTTGAATCAATAAGTATTTAAA
ATAGGTTGTAACGTAACTTGGCTAAGGGTAGG
Found at i:37839524 original size:8 final size:9
Alignment explanation
Indices: 37839500--37839529 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
37839490 TATATTTTTC
37839500 ATTAAAAAT
1 ATTAAAAAT
37839509 ATTAAAAAT
1 ATTAAAAAT
37839518 ATTAAAATAT
1 ATTAAAA-AT
37839528 AT
1 AT
37839530 ATATACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:37840534 original size:20 final size:19
Alignment explanation
Indices: 37840509--37840545 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37840499 TTCGTGTCCA
37840509 TTTTTTT-AAGTTAGGGTTT
1 TTTTTTTAAAG-TAGGGTTT
37840528 TTTTTTTAAAGTAGGGTT
1 TTTTTTTAAAGTAGGGTT
37840546 AGGAAAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (19 bp):
TTTTTTTAAAGTAGGGTTT
Found at i:37845522 original size:14 final size:15
Alignment explanation
Indices: 37845503--37845531 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37845493 AAAAGAAAAA
37845503 AATTTAATAT-TTTT
1 AATTTAATATATTTT
37845517 AATTTAATATATTTT
1 AATTTAATATATTTT
37845532 TTCATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTAATATATTTT
Found at i:37845856 original size:17 final size:17
Alignment explanation
Indices: 37845829--37845874 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
37845819 CCGATATAAT
* * *
37845829 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
37845846 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
37845863 AAATATTTTTAA
1 AAATATTTTTAA
37845875 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:37845872 original size:11 final size:11
Alignment explanation
Indices: 37845858--37845924 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
37845848 ATTTTTTTAA
37845858 TTTTAAAATAT
1 TTTTAAAATAT
37845869 TTTTAAAATACT
1 TTTTAAAATA-T
* *
37845881 TTTT-TATTAT
1 TTTTAAAATAT
*
37845891 TTTT----TAA
1 TTTTAAAATAT
37845898 TTTTAAAATAT
1 TTTTAAAATAT
37845909 TTTTAAAATACT
1 TTTTAAAATA-T
37845921 TTTT
1 TTTT
37845925 TTTTAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.13
10 5 0.11
11 25 0.54
12 10 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:37845895 original size:40 final size:40
Alignment explanation
Indices: 37845850--37845937 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
37845840 TTTTTTAAAT
37845850 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATTA
*
37845890 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATTA
*
37845930 ATTTTTAA
1 TTTTTTAA
37845938 AATAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATTA
Found at i:37845960 original size:23 final size:22
Alignment explanation
Indices: 37845906--37845962 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
37845896 AATTTTAAAA
* **
37845906 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAATTTTTTGG
37845928 TAATTTTTAAAATAATTTTTTGG
1 T-ATTTTTAAAATAATTTTTTGG
37845951 TATTTATTAAAA
1 TATTT-TTAAAA
37845963 AAATGGGCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTTAAAATAATTTTTTGG
Found at i:37846218 original size:5 final size:5
Alignment explanation
Indices: 37846208--37846232 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37846198 AAAACTTTTA
37846208 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
37846233 AACCACCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:37846368 original size:30 final size:31
Alignment explanation
Indices: 37846332--37846390 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
37846322 AACCTTTTAT
*
37846332 TTTCCCCCAAAATTTTTACTCCC-TCCCACC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCACC
* *
37846362 TTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCCCAAAACTTTTACTCCCTTCCCA
37846391 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCACC
Found at i:37851687 original size:17 final size:17
Alignment explanation
Indices: 37851665--37851706 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
37851655 GGCCCGAGGT
* *
37851665 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
37851682 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
37851699 AGCCCAAA
1 GGCCCAAA
37851707 GCAGATTCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:37854303 original size:26 final size:26
Alignment explanation
Indices: 37854241--37854304 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
37854231 AATTCTTCAT
37854241 TATTTTTGAAAAATACTTTTAAAAAG
1 TATTTTTGAAAAATACTTTTAAAAAG
* * * * * *
37854267 TGTTGTGGAAAAATATTTTTTAGAAG
1 TATTTTTGAAAAATACTTTTAAAAAG
37854293 TATTTTTGAAAA
1 TATTTTTGAAAA
37854305 GTTTGATTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (26 bp):
TATTTTTGAAAAATACTTTTAAAAAG
Found at i:37854306 original size:13 final size:13
Alignment explanation
Indices: 37854241--37854306 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
37854231 AATTCTTCAT
*
37854241 TATTTTTGAAAAA
1 TATTTTTGAAAAG
* *
37854254 TACTTTTAAAAAG
1 TATTTTTGAAAAG
* * * *
37854267 TGTTGTGGAAAAA
1 TATTTTTGAAAAG
* *
37854280 TATTTTTTAGAAG
1 TATTTTTGAAAAG
37854293 TATTTTTGAAAAG
1 TATTTTTGAAAAG
37854306 T
1 T
37854307 TTGATTTAAA
Statistics
Matches: 36, Mismatches: 17, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (13 bp):
TATTTTTGAAAAG
Found at i:37855866 original size:7 final size:7
Alignment explanation
Indices: 37855854--37855885 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
37855844 TAATATTATT
37855854 TTATAAA
1 TTATAAA
37855861 TTATAAA
1 TTATAAA
37855868 TTATAAA
1 TTATAAA
37855875 TTAT-AA
1 TTATAAA
37855881 TTATA
1 TTATA
37855886 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTATAAA
Found at i:37864604 original size:17 final size:18
Alignment explanation
Indices: 37864582--37864619 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37864572 AATTTATATG
*
37864582 TATATG-AAGAATATTAT
1 TATATGAAAAAATATTAT
37864599 TATATGTAAAAAATATTAT
1 TATATG-AAAAAATATTAT
37864618 TA
1 TA
37864620 CGTAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
TATATGAAAAAATATTAT
Found at i:37866731 original size:26 final size:24
Alignment explanation
Indices: 37866687--37866737 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
37866677 ACAGAAAATG
*
37866687 ATAAAATATTTTTTATTGGATCAA
1 ATAAAATATTTTTTATTGGACCAA
37866711 ATAAAATTATTTTTTGATTGGACCAA
1 ATAAAA-TATTTTTT-ATTGGACCAA
37866737 A
1 A
37866738 GATTACACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.25
25 8 0.33
26 10 0.42
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (24 bp):
ATAAAATATTTTTTATTGGACCAA
Found at i:37878273 original size:20 final size:20
Alignment explanation
Indices: 37878234--37878273 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37878224 AACACGTTGA
* **
37878234 GAGGATGTCTTTGATGGGAT
1 GAGGATGTCTGTGACAGGAT
37878254 GAGGATGTCTGTGACAGGAT
1 GAGGATGTCTGTGACAGGAT
37878274 AGATCCTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.40, T:0.30
Consensus pattern (20 bp):
GAGGATGTCTGTGACAGGAT
Found at i:37882409 original size:16 final size:17
Alignment explanation
Indices: 37882376--37882410 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37882366 TGAATTTCTT
37882376 TTCAATTTATACCCTAA
1 TTCAATTTATACCCTAA
*
37882393 TTCAATTTA-ATCCTAA
1 TTCAATTTATACCCTAA
37882409 TT
1 TT
37882411 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCAATTTATACCCTAA
Found at i:37882899 original size:21 final size:19
Alignment explanation
Indices: 37882875--37882943 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 19
37882865 TACTTTATAT
37882875 ATATATATATATTAGTTAATA
1 ATATATA-ATATTA-TTAATA
*
37882896 ATAT-TAATATTAATAATA
1 ATATATAATATTATTAATA
* *
37882914 ATACATAATAATAATATAATA
1 ATATATAAT-ATTAT-TAATA
*
37882935 ATATTTAAT
1 ATATATAAT
37882944 TCATAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.21
19 10 0.26
20 5 0.13
21 16 0.41
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
ATATATAATATTATTAATA
Found at i:37882912 original size:3 final size:3
Alignment explanation
Indices: 37882891--37882937 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
37882881 ATATATTAGT
* *
37882891 TAA TAA TAT TAA TAT TAA TAA TAA TACA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
37882936 TA
1 TA
37882938 TTTAATTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:37888476 original size:1 final size:1
Alignment explanation
Indices: 37888472--37888496 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
37888462 TTTTTTTTTT
37888472 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
37888497 AGATGACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:37891268 original size:19 final size:17
Alignment explanation
Indices: 37891228--37891261 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37891218 TAAAAACTTG
*
37891228 TAAAAGTTATAATAATA
1 TAAAAGTTATAAGAATA
37891245 TAAAAGTTATATAGAAT
1 TAAAAGTTATA-AGAAT
37891262 TTTAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
TAAAAGTTATAAGAATA
Found at i:37892682 original size:6 final size:6
Alignment explanation
Indices: 37892671--37892696 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37892661 TATTAACATG
37892671 ACTCGA ACTCGA ACTCGA ACTCGA AC
1 ACTCGA ACTCGA ACTCGA ACTCGA AC
37892697 GGATATACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
ACTCGA
Found at i:37894598 original size:9 final size:8
Alignment explanation
Indices: 37894575--37894624 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
37894565 GTATAGGTTA
37894575 TTAAAAAT
1 TTAAAAAT
*
37894583 TGTAAATAT
1 T-TAAAAAT
37894592 TT-AAAAT
1 TTAAAAAT
37894599 ATTAAAAAT
1 -TTAAAAAT
37894608 TTAAAAAT
1 TTAAAAAT
37894616 TTAAAAAT
1 TTAAAAAT
37894624 T
1 T
37894625 ATATTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
7 4 0.11
8 21 0.57
9 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
TTAAAAAT
Found at i:37894737 original size:7 final size:7
Alignment explanation
Indices: 37894695--37894725 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
37894685 AACAATATTT
37894695 TTTAAGA
1 TTTAAGA
37894702 TTTAAGA
1 TTTAAGA
37894709 TTTAAGA
1 TTTAAGA
*
37894716 TTTAATA
1 TTTAAGA
37894723 TTT
1 TTT
37894726 TTTAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (7 bp):
TTTAAGA
Found at i:37896394 original size:25 final size:25
Alignment explanation
Indices: 37896357--37896407 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
37896347 ATAATTGTAG
37896357 TTTTTTTAACCAATGATT-TAAATATTA
1 TTTTTTT-ACCAA-G-TTCTAAATATTA
37896384 TTTTTTT-CCAAGTTCTAAATATTA
1 TTTTTTTACCAAGTTCTAAATATTA
37896408 AATAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 10 0.43
25 4 0.17
27 7 0.30
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTTTTACCAAGTTCTAAATATTA
Found at i:37896570 original size:15 final size:14
Alignment explanation
Indices: 37896527--37896572 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
37896517 ATGATTTTAC
*
37896527 TTAATTATTTAATTA
1 TTAA-TATTTAATTT
37896542 TT--TATTTAATTT
1 TTAATATTTAATTT
37896554 TTAATATTTATATTT
1 TTAATATTTA-ATTT
37896569 TTAA
1 TTAA
37896573 GAAGTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 11 0.41
14 6 0.22
15 10 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATATTTAATTT
Found at i:37896681 original size:7 final size:7
Alignment explanation
Indices: 37896669--37896694 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37896659 GTAAAAATAA
37896669 TAAAATT
1 TAAAATT
37896676 TAAAATT
1 TAAAATT
37896683 TAAAATT
1 TAAAATT
37896690 TAAAA
1 TAAAA
37896695 AATATTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAAAATT
Found at i:37900917 original size:3 final size:3
Alignment explanation
Indices: 37900911--37900949 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
37900901 ATTATATTAT
*
37900911 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG CAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
37900950 ATATTACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (3 bp):
TAG
Found at i:37908417 original size:14 final size:15
Alignment explanation
Indices: 37908395--37908471 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37908385 CAATCAAACA
37908395 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
37908409 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
37908424 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
37908444 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
37908458 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
37908472 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:37908436 original size:20 final size:20
Alignment explanation
Indices: 37908411--37908450 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37908401 AATATTTTCC
*
37908411 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
37908431 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
37908451 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:37908456 original size:34 final size:35
Alignment explanation
Indices: 37908399--37908465 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37908389 CAAACACCAG
*
37908399 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37908434 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37908466 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37909251 original size:79 final size:80
Alignment explanation
Indices: 37909092--37909253 Score: 236
Period size: 79 Copynumber: 2.0 Consensus size: 80
37909082 ATAAAATATG
* * * *
37909092 TTGGTGTGATCAGGTTGAGATGCTTGAACATATTATTTTATATTGTCCGAATGTTAAACCACTTT
1 TTGGTGTGATCAGGCTGAGATGCTTGAACATATTACTTTATATTGTCAGAATGTTAAACCACTTC
37909157 GGGCTTCTATACATA
66 GGGCTTCTATACATA
* * *
37909172 TTGGTGTGATCAGGCTGAGATGCTTGACCATATT-CTTTATATTGTCAGAATGTTGAGCCACTTC
1 TTGGTGTGATCAGGCTGAGATGCTTGAACATATTACTTTATATTGTCAGAATGTTAAACCACTTC
* *
37909236 GGGGTTCTATTCATA
66 GGGCTTCTATACATA
37909251 TTG
1 TTG
37909254 ATGCTCTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 41 0.56
80 32 0.44
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (80 bp):
TTGGTGTGATCAGGCTGAGATGCTTGAACATATTACTTTATATTGTCAGAATGTTAAACCACTTC
GGGCTTCTATACATA
Found at i:37909442 original size:24 final size:26
Alignment explanation
Indices: 37909415--37909469 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
37909405 GAATAAATAC
37909415 ATAAATAT-AAACAAAT-ATTTATAT
1 ATAAATATAAAACAAATAATTTATAT
*
37909439 ATAAA-ATAAAATAAATAATTTATAT
1 ATAAATATAAAACAAATAATTTATAT
*
37909464 TTAAAT
1 ATAAAT
37909470 TATAGTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.46
25 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATAAATATAAAACAAATAATTTATAT
Found at i:37909446 original size:25 final size:26
Alignment explanation
Indices: 37909417--37909473 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
37909407 ATAAATACAT
37909417 AAATATAAACAAAT-ATTTATATATA
1 AAATATAAACAAATAATTTATATATA
* *
37909442 AAATA-AAATAAATAATTTATATTTA
1 AAATATAAACAAATAATTTATATATA
*
37909467 AATTATA
1 AAATATA
37909474 GTTATGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 19 0.70
26 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATATAAACAAATAATTTATATATA
Found at i:37910930 original size:6 final size:6
Alignment explanation
Indices: 37910919--37910943 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37910909 TTAAGCTAGC
37910919 AAGGGG AAGGGG AAGGGG AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG A
37910944 CCCATGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:37917043 original size:22 final size:22
Alignment explanation
Indices: 37917013--37917055 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
37917003 ACACCAAAAC
*
37917013 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
37917035 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
37917056 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:37917269 original size:43 final size:43
Alignment explanation
Indices: 37917214--37917310 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
37917204 AGACTAAGAC
* * *
37917214 CTTTAGTGGCGTTTGTAGTCG-AAGCGCCGTTATAGATCAGGGT
1 CTTTAGCGGCGTTTGT-GGCGAAAGCGCCGCTATAGATCAGGGT
* * *
37917257 CTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTATAGATTAGGGT
1 CTTTAGCGGCGTTTGTGGCGAAAGCGCCGCTATAGATCAGGGT
37917300 CTTTAGCGGCG
1 CTTTAGCGGCG
37917311 CTTCTCCCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.16, C:0.18, G:0.35, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGCGAAAGCGCCGCTATAGATCAGGGT
Found at i:37917378 original size:43 final size:43
Alignment explanation
Indices: 37917299--37917506 Score: 172
Period size: 43 Copynumber: 4.8 Consensus size: 43
37917289 TAGATTAGGG
* * * *
37917299 TCTTTAGCGGCGCTTCTCCCTA-AAACACC-GTAAAAGACCCTGA
1 TCTTTAGCGGCGCTTCTACC-ACAAACGCCACT-AAAGAACCTGA
* * * *
37917342 TCTATAGCAGCGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCTGA
* * * *
37917385 TCTTTAGCGGGGCTT-TCCCCACAAACGCCGCGAAA-AACCATGA
1 TCTTTAGCGGCGCTTCT-ACCACAAACGCCACTAAAGAACC-TGA
* * * * * *
37917428 TCTTTAGGGGCGCTTTTTCCACAAATGCCGCTAAAGAACCTTA
1 TCTTTAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCTGA
* *
37917471 TCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG
1 TCTTTAGCGGCGCTTCTACCACAAACGCCACTAAAG
37917507 GCCAACACAA
Statistics
Matches: 132, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
42 5 0.04
43 121 0.92
44 6 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCTGA
Found at i:37917891 original size:21 final size:21
Alignment explanation
Indices: 37917844--37917903 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
37917834 GACGCTGCTC
* **
37917844 TGCTTCCCTCGCTGCAACCTG
1 TGCTTCTCTCGCTGCCGCCTG
* *
37917865 TACTTCTCTCGCTGCCGCCTT
1 TGCTTCTCTCGCTGCCGCCTG
*
37917886 TGCTTCTCTTGCTGCCGC
1 TGCTTCTCTCGCTGCCGC
37917904 ATCTACTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCCGCCTG
Found at i:37917966 original size:66 final size:66
Alignment explanation
Indices: 37917887--37918028 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 66
37917877 TGCCGCCTTT
*
37917887 GCTTCTCTTGCTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
37917950 TCA
64 TCA
* * * * *
37917953 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
37918018 A
66 A
37918019 GCTTCTCTCG
1 GCTTCTCTCG
37918029 ATGTTGCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 63 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:37918044 original size:66 final size:66
Alignment explanation
Indices: 37917921--37918051 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
37917911 TTAAGCTGCT
* * *
37917921 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
37917986 A
66 A
* * *
37917987 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
37918051 T
65 T
37918052 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:37923479 original size:9 final size:9
Alignment explanation
Indices: 37923462--37924203 Score: 209
Period size: 9 Copynumber: 85.2 Consensus size: 9
37923452 TAAGTATAAT
*
37923462 TAAGCTATG
1 TAAGTTATG
37923471 TAAGTTATG
1 TAAGTTATG
37923480 T-A-TTATG
1 TAAGTTATG
37923487 TAAGTTAT-
1 TAAGTTATG
*
37923495 TTA-TTATG
1 TAAGTTATG
* *
37923503 AAAATTATG
1 TAAGTTATG
*
37923512 TAAGTTGTG
1 TAAGTTATG
37923521 T-A-TTATG
1 TAAGTTATG
*
37923528 -AA--AAT-
1 TAAGTTATG
* *
37923533 TATGCTATG
1 TAAGTTATG
37923542 TAAGTTATG
1 TAAGTTATG
* *
37923551 TAAGTCATA
1 TAAGTTATG
37923560 TAAGTTATG
1 TAAGTTATG
37923569 T-A-TTATG
1 TAAGTTATG
37923576 TAAGTTATG
1 TAAGTTATG
37923585 TAAGTTAT-
1 TAAGTTATG
*
37923593 TTA-TTATG
1 TAAGTTATG
* * *
37923601 CAAATTAAG
1 TAAGTTATG
37923610 TAAGTTATG
1 TAAGTTATG
* *
37923619 TAATTTACG
1 TAAGTTATG
*
37923628 -AA-TAAT-
1 TAAGTTATG
***
37923634 TAAAAAAATG
1 T-AAGTTATG
37923644 TAAGTTATG
1 TAAGTTATG
37923653 TAAG-T-TG
1 TAAGTTATG
37923660 TAAGTTATG
1 TAAGTTATG
37923669 T-A-TTATG
1 TAAGTTATG
37923676 TAAGTTATG
1 TAAGTTATG
*
37923685 TGAGTTAT-
1 TAAGTTATG
*
37923693 TTA-TTATG
1 TAAGTTATG
* * *
37923701 CAAATTAAG
1 TAAGTTATG
37923710 TAAGTTATG
1 TAAGTTATG
* *
37923719 TAATTTACG
1 TAAGTTATG
*
37923728 -AA-TAAT-
1 TAAGTTATG
***
37923734 TAAAAAATG
1 TAAGTTATG
37923743 TAAGTTATG
1 TAAGTTATG
37923752 TAAG-T-TG
1 TAAGTTATG
37923759 TAAGTTATG
1 TAAGTTATG
37923768 TAAGTTATG
1 TAAGTTATG
**
37923777 TATA-ACAT-
1 TA-AGTTATG
*
37923785 TAA-TTATT
1 TAAGTTATG
37923793 TAAGTTATG
1 TAAGTTATG
*
37923802 TAATTTATG
1 TAAGTTATG
*
37923811 TATA-ATAT-
1 TA-AGTTATG
37923819 TAA-TTAAT-
1 TAAGTT-ATG
37923827 TAAGTTATG
1 TAAGTTATG
*
37923836 TAATTTATG
1 TAAGTTATG
37923845 TATA-TTAAT-
1 TA-AGTT-ATG
37923854 TAAGTTATG
1 TAAGTTATG
*
37923863 TAATTTATG
1 TAAGTTATG
*
37923872 TATAATATTAATG
1 --TAA-GTT-ATG
37923885 TAAGTTATG
1 TAAGTTATG
*
37923894 TATA-ATATG
1 TA-AGTTATG
*
37923903 TATAATATTAATG
1 --TAA-GTT-ATG
37923916 TAAGTTATG
1 TAAGTTATG
37923925 TAAG-T-TG
1 TAAGTTATG
37923932 TAAGTTATG
1 TAAGTTATG
37923941 TAAGTTATG
1 TAAGTTATG
*
37923950 TATA-ATAT-
1 TA-AGTTATG
**
37923958 TAA-TTAAC
1 TAAGTTATG
37923966 TAAGTTATG
1 TAAGTTATG
*
37923975 TAATTTATG
1 TAAGTTATG
*
37923984 TATA-ATAT-
1 TA-AGTTATG
**
37923992 TAA-TTAAC
1 TAAGTTATG
37924000 TAAGTTATG
1 TAAGTTATG
*
37924009 TAATTTATG
1 TAAGTTATG
*
37924018 TATAATATTAATG
1 --TAA-GTT-ATG
37924031 TAAGTTATG
1 TAAGTTATG
*
37924040 TATA-ATAT-
1 TA-AGTTATG
37924048 TAA-TTCAT-
1 TAAGTT-ATG
37924056 TAAGTTATG
1 TAAGTTATG
*
37924065 TAATTTATG
1 TAAGTTATG
*
37924074 TATAATATTAATG
1 --TAA-GTT-ATG
37924087 TAAGTTATG
1 TAAGTTATG
*
37924096 TATA-ATAT-
1 TA-AGTTATG
37924104 TAA-TTAAT-
1 TAAGTT-ATG
37924112 TAAGTTATG
1 TAAGTTATG
*
37924121 TAATTTATG
1 TAAGTTATG
*
37924130 TATAATATTAAT-
1 --TAA-GTT-ATG
37924142 TAA-TTAAT-
1 TAAGTT-ATG
37924150 TAAGTTATG
1 TAAGTTATG
*
37924159 TAATTTATG
1 TAAGTTATG
*
37924168 TATA-ATAT-
1 TA-AGTTATG
*
37924176 TAA-TTATT
1 TAAGTTATG
37924184 TAAGTTATG
1 TAAGTTATG
*
37924193 TAATTTATG
1 TAAGTTATG
37924202 TA
1 TA
37924204 TAATACTAAT
Statistics
Matches: 560, Mismatches: 91, Indels: 164
0.69 0.11 0.20
Matches are distributed among these distances:
6 3 0.01
7 78 0.14
8 93 0.17
9 313 0.56
10 24 0.04
11 26 0.05
12 9 0.02
13 14 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:37923488 original size:16 final size:16
Alignment explanation
Indices: 37923467--37923685 Score: 97
Period size: 16 Copynumber: 13.9 Consensus size: 16
37923457 ATAATTAAGC
37923467 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
37923483 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
37923499 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
37923508 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
37923524 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
37923538 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
37923556 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
37923572 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
37923590 TAT-TTA-TTATGCAAAT
1 TATGTAAGTTATG--TAT
*
37923606 TAAGTAAGTTATGTAATT
1 TATGTAAGTTATGT-A-T
* ** *
37923624 TACGAATAA-TTA-AAAA
1 TATG--TAAGTTATGTAT
* *
37923640 AATGTAAGTTATGTAAG
1 TATGTAAGTTATGT-AT
37923657 T-TGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
37923672 TATGTAAGTTATGT
1 TATGTAAGTTATGT
37923686 GAGTTATTTA
Statistics
Matches: 149, Mismatches: 29, Indels: 50
0.65 0.13 0.22
Matches are distributed among these distances:
9 6 0.04
10 2 0.01
12 1 0.01
14 14 0.09
15 7 0.05
16 78 0.52
17 10 0.07
18 25 0.17
19 3 0.02
20 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:37923509 original size:25 final size:25
Alignment explanation
Indices: 37923481--37923620 Score: 133
Period size: 25 Copynumber: 5.7 Consensus size: 25
37923471 TAAGTTATGT
*
37923481 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
37923506 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
37923531 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
37923554 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
37923579 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATGTATTATGAAA
*
37923604 ATTAAGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
37923621 ATTTACGAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.03
23 13 0.14
25 74 0.80
26 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:37923577 original size:34 final size:33
Alignment explanation
Indices: 37923538--37923721 Score: 119
Period size: 34 Copynumber: 5.5 Consensus size: 33
37923528 AAAATTATGC
*
37923538 TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
1 TATGTAAGTTATGTAAGTCATATAA-TTATGAAT
* *
37923572 TATGTAAGTTATGTAAGTTAT-TTATTATGCAAAT
1 TATGTAAGTTATGTAAGTCATATAATTATG--AAT
* * * *
37923606 TAAGTAAGTTATGTAATTTACGA-ATAATTA-AAAA
1 TATGTAAGTTATGTAA-GT-C-ATATAATTATGAAT
* * *
37923640 AATGTAAGTTATGTAAGT--TGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTCATATAA-TTATGAAT
* * *
37923672 TATGTAAGTTATGTGAGTTAT-TTATTATGCAAAT
1 TATGTAAGTTATGTAAGTCATATAATTATG--AAT
*
37923706 TAAGTAAGTTATGTAA
1 TATGTAAGTTATGTAA
37923722 TTTACGAATA
Statistics
Matches: 115, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
30 3 0.03
31 3 0.03
32 27 0.23
33 5 0.04
34 70 0.61
35 1 0.01
37 6 0.05
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTCATATAATTATGAAT
Found at i:37923669 original size:25 final size:25
Alignment explanation
Indices: 37923538--37923951 Score: 94
Period size: 25 Copynumber: 16.6 Consensus size: 25
37923528 AAAATTATGC
*
37923538 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
37923565 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
37923590 TAT-TTA-TTATGCAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * * **
37923615 TATGTAATTTACGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
37923640 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
*
37923665 TATGT-A-TTATGTAAGTTATGTGAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
37923690 TAT-TTA-TTATGCAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
37923715 TATGTAATTTACG-AA-TAAT-TAAAA
1 TATGTAAGTTATGTAAGT--TGTAAGT
*
37923739 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
**
37923764 TATGTAAGTTATGTATAACAT-TAA-T
1 TATGTAAGTTATG--TAAGTTGTAAGT
* *
37923789 TATTTAAGTTATGTAA-TT-TATG-
1 TATGTAAGTTATGTAAGTTGTAAGT
*
37923811 TA--TAA--TAT-TAATTAAT-TAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
* *
37923832 TATGTAATTTATGTATA-TTAATTAAGT
1 TATGTAAGTTATGTA-AGTT--GTAAGT
* **
37923859 TATGTAATTTATGT-A-TAAT-A-T
1 TATGTAAGTTATGTAAGTTGTAAGT
* *
37923880 TAATGTAAGTTATGTATAATATGTATAATAT
1 T-ATGTAAGTTATGTA-AGT-TG--TAA-GT
37923911 TAATGTAAGTTATGTAAGTTGTAAGT
1 T-ATGTAAGTTATGTAAGTTGTAAGT
37923937 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
37923952 TAATATTAAT
Statistics
Matches: 296, Mismatches: 43, Indels: 98
0.68 0.10 0.22
Matches are distributed among these distances:
17 3 0.01
18 4 0.01
20 7 0.02
21 4 0.01
22 18 0.06
23 21 0.07
24 24 0.08
25 130 0.44
26 17 0.06
27 41 0.14
28 3 0.01
29 5 0.02
30 2 0.01
31 17 0.06
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:37923762 original size:16 final size:16
Alignment explanation
Indices: 37923741--37923773 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37923731 AATTAAAAAA
37923741 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37923757 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37923773 T
1 T
37923774 ATGTATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:37923797 original size:34 final size:34
Alignment explanation
Indices: 37923759--37924214 Score: 270
Period size: 34 Copynumber: 13.9 Consensus size: 34
37923749 ATGTAAGTTG
* *
37923759 TAAGTTATGTAAGTTATGTATAACATTAATTATT
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
*
37923793 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
37923827 TAAGTTATGTAATTTATG--T-ATATT-A--A-T
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
*
37923854 TAAGTTATGTAATTTATGTATAATATT-A--ATG
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
* *
37923885 TAAGTTATGT-ATAATATGTATAATATTAATGTAAGT
1 TAAGTTATGTAAT-TTATGTATAATATTAAT-T-ATT
* * * * *
37923921 TATGTAAGTTGTAAGTTATGTA-AGTTATGT-ATAATAT
1 TAAGTTA--TGTAATTTATGTATA-ATAT-TAATTAT-T
* * **
37923958 TAA-TTAACTAAGTTATGTAATTTATGTATAATATTAATTAAC
1 TAAGTT-A-T--GTAATTT-----ATGTATAATATTAATTATT
*
37924000 TAAGTTATGTAATTTATGTATAATATT-A--ATG
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
37924031 TAAGTTATG-----TA--T--AATATTAATTCA-T
1 TAAGTTATGTAATTTATGTATAATATTAATT-ATT
*
37924056 TAAGTTATGTAATTTATGTATAATATT-A--ATG
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
*
37924087 TAAGTTATG-----TA--T--AATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
37924112 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATT-A-T--T
37924150 TAAGTTATGTAATTTATGTATAATATTAATTATT
1 TAAGTTATGTAATTTATGTATAATATTAATTATT
*
37924184 TAAGTTATGTAATTTATGTATAATACTAATT
1 TAAGTTATGTAATTTATGTATAATATTAATT
37924215 TATGTATAAT
Statistics
Matches: 331, Mismatches: 34, Indels: 114
0.69 0.07 0.24
Matches are distributed among these distances:
22 12 0.04
23 2 0.01
24 2 0.01
25 19 0.06
26 5 0.02
27 19 0.06
28 1 0.00
29 1 0.00
30 15 0.05
31 47 0.14
32 4 0.01
33 2 0.01
34 108 0.33
35 1 0.00
36 10 0.03
37 6 0.02
38 50 0.15
39 7 0.02
41 1 0.00
42 5 0.02
43 13 0.04
44 1 0.00
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTATT
Found at i:37923885 original size:22 final size:24
Alignment explanation
Indices: 37923832--37923901 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 24
37923822 TTAATTAAGT
*
37923832 TATGTAATTTATGTATATTAATTAA
1 TATGTAATTTATGTATAAT-ATTAA
37923857 GTTATGTAATTTATGTATAATATT-A
1 --TATGTAATTTATGTATAATATTAA
*
37923882 -ATGTAAGTTATGTATAATAT
1 TATGTAATTTATGTATAATAT
37923902 GTATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
22 19 0.46
25 1 0.02
26 3 0.07
27 18 0.44
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (24 bp):
TATGTAATTTATGTATAATATTAA
Found at i:37923935 original size:16 final size:16
Alignment explanation
Indices: 37923914--37923946 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37923904 ATAATATTAA
37923914 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37923930 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37923946 T
1 T
37923947 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:37923953 original size:56 final size:56
Alignment explanation
Indices: 37923799--37924141 Score: 341
Period size: 56 Copynumber: 6.0 Consensus size: 56
37923789 TATTTAAGTT
* * *
37923799 ATGTAATTTATGTATAATATTAATTAATTAAGTTATGTA-ATTTATGTATATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATA-ATATGTATAAT-ATT-A
* *
37923857 GTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTATAATATGTATAATATTA
1 ---ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATAATATGTATAATATTA
*
37923913 ATGTAAGTTATGTA-AGT-TGTAAGTT-ATGTAAGTTATGTATAATAT-TAATTAACTAAGTT-
1 ATGTAAGTTATGTATAATAT-TAA-TTAAT-TAAGTTATGTATAATATGT-A-TAA-T-A-TTA
* * *
37923972 ATGTAATTTATGTATAATATTAATTAACTAAGTTATGTA-ATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATA-ATATGTATAATATTA
* *
37924028 ATGTAAGTTATGTATAATATTAATTCATTAAGTTATGTA-ATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATA-ATATGTATAATATTA
*
37924084 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTA-ATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATA-ATATGTATAATATTA
37924140 AT
1 AT
37924142 TAATTAATTA
Statistics
Matches: 251, Mismatches: 14, Indels: 39
0.83 0.05 0.13
Matches are distributed among these distances:
51 1 0.00
52 5 0.02
53 13 0.05
54 1 0.00
55 3 0.01
56 130 0.52
57 7 0.03
58 25 0.10
59 32 0.13
60 10 0.04
61 24 0.10
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTATAATATGTATAATATTA
Found at i:37923988 original size:90 final size:87
Alignment explanation
Indices: 37923658--37924197 Score: 405
Period size: 90 Copynumber: 6.2 Consensus size: 87
37923648 TTATGTAAGT
* * * * *** *
37923658 TGTAAGTTATGTATTATGTAAGTTATGTGAGTTATTTATTATGCAAATTAAGTAAGTTATGTAAT
1 TGTAAGTTATGTAAT-TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAAT
* *
37923723 TTACGAAT-A-ATTA-AAA--AA
65 TTATGTATAATATTATAAATTAA
* *
37923741 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAACATTAATTATTTAAGTTATGTAAT
1 TGTAAGTTATGTAA-TTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAAT
37923806 TTATGTATAATA-T-T-AATTAA
65 TTATGTATAATATTATAAATTAA
* * *
37923826 T-TAAGTTATGTAATTTATGTATA-TTAAT-TAAGTTATG--TAAT-TT-ATGTATAAT-ATTAA
1 TGTAAGTTATGTAA--T-TGTA-AGTT-ATGTAAGTTATGTATAATATTAAT-TA-ATTAAGTTA
*
37923883 TGTAAGTTATGTATAATATGTATAATATTAA
59 TGTAATTTATGTATAATAT-TATAA-ATTAA
*
37923914 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAAT
1 TGTAAGTTATGTAA-TTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAAT
37923979 TTATGTATAATA-T-T-AATTAA
65 TTATGTATAATATTATAAATTAA
* * *
37923999 -CTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAATTCATTAAGTTA
1 TGTAAGTTATGTAA--T-TG--TAA-GTT-ATGTAAGTTATGTATAATATTAATTAATTAAGTTA
*
37924063 TGTAATTTATGTATAATATTAATGTAAGTT-A
59 TGTAATTTATGTATAATATT-A--TAAATTAA
* * *
37924094 TGTATA-ATAT-TAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTA-AGTTATGTAATT--GTAAGTTATGTAAGTTATGTAT-A-A-T-ATTAATTAATTAAGTTA
37924157 TGTAATTTATGTATAATA-T-T-AATT-A
59 TGTAATTTATGTATAATATTATAAATTAA
*
37924182 TTTAAGTTATGTAATT
1 TGTAAGTTATGTAATT
37924198 TATGTATAAT
Statistics
Matches: 371, Mismatches: 39, Indels: 88
0.74 0.08 0.18
Matches are distributed among these distances:
82 2 0.01
83 85 0.23
84 31 0.08
85 12 0.03
86 22 0.06
87 21 0.06
88 21 0.06
89 26 0.07
90 89 0.24
91 6 0.02
92 5 0.01
93 3 0.01
94 34 0.09
95 5 0.01
96 8 0.02
97 1 0.00
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (87 bp):
TGTAAGTTATGTAATTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
TATGTATAATATTATAAATTAA
Found at i:37924038 original size:22 final size:22
Alignment explanation
Indices: 37924006--37924051 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
37923996 TAACTAAGTT
*
37924006 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
37924028 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
37924050 AT
1 AT
37924052 TCATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:37924087 original size:22 final size:22
Alignment explanation
Indices: 37924062--37924112 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
37924052 TCATTAAGTT
37924062 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
37924084 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
37924106 AT-TAATT
1 ATGTAATT
37924113 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:37925773 original size:11 final size:11
Alignment explanation
Indices: 37925757--37925793 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
37925747 TATATACTAC
*
37925757 ATTATAATGAA
1 ATTATAATCAA
37925768 ATTATAATCAA
1 ATTATAATCAA
37925779 ATTATAATCAA
1 ATTATAATCAA
37925790 ATTA
1 ATTA
37925794 GAAAAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (11 bp):
ATTATAATCAA
Found at i:37927016 original size:27 final size:27
Alignment explanation
Indices: 37926984--37927035 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
37926974 TCTTACTTTT
* *
37926984 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
37927011 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
37927036 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:37927126 original size:8 final size:10
Alignment explanation
Indices: 37927103--37927159 Score: 96
Period size: 10 Copynumber: 5.7 Consensus size: 10
37927093 TAATAACTAT
37927103 ATATATATCC
1 ATATATATCC
*
37927113 ATATATATTC
1 ATATATATCC
37927123 ATATATATCC
1 ATATATATCC
*
37927133 ATATATATTC
1 ATATATATCC
37927143 ATATATATCC
1 ATATATATCC
37927153 ATATATA
1 ATATATA
37927160 AGTAAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATCC
Found at i:37927128 original size:20 final size:20
Alignment explanation
Indices: 37927103--37927159 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
37927093 TAATAACTAT
37927103 ATATATATCCATATATATTC
1 ATATATATCCATATATATTC
37927123 ATATATATCCATATATATTC
1 ATATATATCCATATATATTC
37927143 ATATATATCCATATATA
1 ATATATATCCATATATA
37927160 AGTAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATATATCCATATATATTC
Found at i:37927839 original size:8 final size:10
Alignment explanation
Indices: 37927816--37927852 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
37927806 ATTAATAACT
37927816 ATATATATCC
1 ATATATATCC
*
37927826 ATATATATTC
1 ATATATATCC
37927836 ATATATATCC
1 ATATATATCC
37927846 ATATATA
1 ATATATA
37927853 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:37929874 original size:41 final size:43
Alignment explanation
Indices: 37929807--37930066 Score: 240
Period size: 41 Copynumber: 6.3 Consensus size: 43
37929797 GCTTACCTAT
* *
37929807 AAAACGCCGCTAAA-A-GCCAGAGCATTAATGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
37929848 AAAACGCCACTAAAGATACTA-A-CATTAGCGACGCTTAGA-A
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* *
37929888 AAAACGCCGCTAAAG--GCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
37929929 AAAACGCCACTAAAGATA-C-GAGCATTAGCGGCACTTAGAGA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
*
37929970 AAAACGCCGCTAAAG--GCCAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
37930011 AAAACGCCGCTAAAGAT--CGGACCATTAGCGGCGCTAAAATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
*
37930052 AAAATGCCGCTAAAG
1 AAAACGCCGCTAAAG
37930067 GTTTAAAAAT
Statistics
Matches: 175, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 29 0.17
41 138 0.79
42 3 0.02
43 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
Found at i:37929921 original size:81 final size:82
Alignment explanation
Indices: 37929807--37930067 Score: 382
Period size: 82 Copynumber: 3.2 Consensus size: 82
37929797 GCTTACCTAT
* * *
37929807 AAAACGCCGCTAAAAGCCAGAGCATTAATGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
37929872 TTAGCGACGCTTAGA-A
66 TTAGCGGCGCTTAGAGA
* *
37929888 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
37929953 TTAGCGGCACTTAGAGA
66 TTAGCGGCGCTTAGAGA
* *
37929970 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* * *
37930034 ATTAGCGGCGCTAAAATA
65 ATTAGCGGCGCTTAGAGA
*
37930052 AAAATGCCGCTAAAGG
1 AAAACGCCGCTAAAGG
37930068 TTTAAAAATC
Statistics
Matches: 163, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
81 74 0.45
82 89 0.55
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAGA
Found at i:37950795 original size:33 final size:34
Alignment explanation
Indices: 37950757--37950821 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
37950747 GTTTATATGT
* *
37950757 AAGACCATAGGTGGGCTATGGCA-TTTTAATGAA
1 AAGACCATAAGTGGGCTATGGCACTTTGAATGAA
* *
37950790 AAGACCATAATTGGGTTATGGCACTTTGAATG
1 AAGACCATAAGTGGGCTATGGCACTTTGAATG
37950822 TAAGATCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (34 bp):
AAGACCATAAGTGGGCTATGGCACTTTGAATGAA
Found at i:37950896 original size:101 final size:101
Alignment explanation
Indices: 37950728--37950948 Score: 262
Period size: 101 Copynumber: 2.2 Consensus size: 101
37950718 GGATAAGAGT
* * * * * * * *
37950728 ATGGTTGAACCATGGCAATGTTTATATGTAAGACCATAGGTGGGCTATGGCATTTTAATGAAAAG
1 ATGGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTAGGCTATGACATTCTAATGAAAAG
* * * ** *
37950793 ACCATAATTGGGTTATGGCACTTTGAATGTAAGATC
66 ACCATAACTGAGTTATGACACTACGAATGTAAGACC
* * *
37950829 ATGGTTGGACCATGACAGTATTTATAAGTAAGACCATAGCTAGGCTATGACATTCTGATGATAAG
1 ATGGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTAGGCTATGACATTCTAATGAAAAG
37950894 ACCATAACTGAGTTATGACACTACGAATGTAAGACC
66 ACCATAACTGAGTTATGACACTACGAATGTAAGACC
* * *
37950930 ATCGTTGGGCCATGGCAAT
1 ATGGTTGGACCATGACAAT
37950949 GCATGTGTAA
Statistics
Matches: 99, Mismatches: 21, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (101 bp):
ATGGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTAGGCTATGACATTCTAATGAAAAG
ACCATAACTGAGTTATGACACTACGAATGTAAGACC
Found at i:37959353 original size:10 final size:10
Alignment explanation
Indices: 37959340--37959371 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
37959330 TTTTCTTCAA
37959340 TTTTTTTAAT
1 TTTTTTTAAT
37959350 TTTTTTTAAT
1 TTTTTTTAAT
37959360 TTTTTTTAAT
1 TTTTTTTAAT
37959370 TT
1 TT
37959372 ATTACTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:37959353 original size:20 final size:20
Alignment explanation
Indices: 37959330--37959371 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37959320 TTATTTTCTC
*
37959330 TTTTCTTCAA-TTTTTTTAA
1 TTTTTTTCAATTTTTTTTAA
*
37959349 TTTTTTTTAATTTTTTTTAA
1 TTTTTTTCAATTTTTTTTAA
37959369 TTT
1 TTT
37959372 ATTACTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTCAATTTTTTTTAA
Found at i:37961188 original size:43 final size:43
Alignment explanation
Indices: 37961120--37961276 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
37961110 TGATTTTGTG
** * *
37961120 GGGAAAGCATCGCTAAATGTTATGTTCTTTAGCGGCGTTTGAA
1 GGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGAA
*
37961163 GGGAAAGCGCCGCTAAAAGTCATGTTATTTAGCGGCGTTTGTAA
1 GGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTG-AA
* * * * * * * * *
37961207 -GAAAAGTGTCACCAGAGGTCATGCTCTTTAGCGGCGTTTG-T
1 GGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGAA
37961248 GGGAAAAGCGCCGCT-AAAGATCATGTTCT
1 GGG-AAAGCGCCGCTAAAAG-TCATGTTCT
37961277 ATAACGACGT
Statistics
Matches: 87, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
42 3 0.03
43 82 0.94
44 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGAA
Found at i:37963348 original size:19 final size:18
Alignment explanation
Indices: 37963304--37963348 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
37963294 ATTACTCCTG
37963304 CTTAGCTTTTCCTTATCA
1 CTTAGCTTTTCCTTATCA
37963322 CTTGAGCTTCTTCCTTATCA
1 CTT-AGCTT-TTCCTTATCA
*
37963342 GTTAGCT
1 CTTAGCT
37963349 AAACATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 9 0.38
20 12 0.50
ACGTcount: A:0.16, C:0.27, G:0.11, T:0.47
Consensus pattern (18 bp):
CTTAGCTTTTCCTTATCA
Found at i:37965364 original size:21 final size:21
Alignment explanation
Indices: 37965340--37965489 Score: 72
Period size: 21 Copynumber: 7.1 Consensus size: 21
37965330 CAGAAGGCTG
37965340 AACAGAAGCTCATTAGAGCTA
1 AACAGAAGCTCATTAGAGCTA
* * * * * *
37965361 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATTAGAGCTA
* * * *
37965382 AACAGAAGCTCGTAAGACCTG
1 AACAGAAGCTCATTAGAGCTA
* * * *
37965403 AACGGAAAC-C-TATAAAGGTTA
1 AACAGAAGCTCAT-TAGA-GCTA
* *
37965424 AACAGAAGTTTATTAGAGCTA
1 AACAGAAGCTCATTAGAGCTA
* *
37965445 AACAGAAACTCA-TATGAGTTA
1 AACAGAAGCTCATTA-GAGCTA
* *
37965466 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATTAGAGCTA
37965487 AAC
1 AAC
37965490 GGAAAGTAAA
Statistics
Matches: 90, Mismatches: 33, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
19 1 0.01
20 5 0.06
21 79 0.88
22 4 0.04
23 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATTAGAGCTA
Found at i:37965411 original size:42 final size:42
Alignment explanation
Indices: 37965340--37965494 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
37965330 CAGAAGGCTG
* *
37965340 AACAGAAGCTCATTAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* * * * * *
37965382 AACAGAAGCTCGTAAGACCTGAACGGAAACCTATAAAGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* * * * * *
37965424 AACAGAAGTTTATTAGAGCTAAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
37965466 AACAGAAGCTCGTAAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
37965495 GTAAACACAA
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:37965481 original size:84 final size:84
Alignment explanation
Indices: 37965340--37965494 Score: 238
Period size: 84 Copynumber: 1.8 Consensus size: 84
37965330 CAGAAGGCTG
* * *
37965340 AACAGAAGCTCATTAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCGTAAGACCTGAA
1 AACAGAAGCTCATTAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGACCTAAA
37965405 CGGAAACCTATAAAGGTTA
66 CGGAAACCTATAAAGGTTA
* * * * *
37965424 AACAGAAGTTTATTAGAGCTAAACAGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTAAA
1 AACAGAAGCTCATTAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGACCTAAA
37965489 CGGAAA
66 CGGAAA
37965495 GTAAACACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (84 bp):
AACAGAAGCTCATTAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGACCTAAA
CGGAAACCTATAAAGGTTA
Found at i:37969369 original size:17 final size:16
Alignment explanation
Indices: 37969342--37969387 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
37969332 ATTGTAAAAT
*
37969342 TATACAAATTAAATTA
1 TATAAAAATTAAATTA
37969358 TATTAAAAATTAAA--A
1 TA-TAAAAATTAAATTA
*
37969373 TATGAAAATTAAATT
1 TATAAAAATTAAATT
37969388 TTAAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 2 0.08
17 10 0.40
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
TATAAAAATTAAATTA
Found at i:37976102 original size:41 final size:42
Alignment explanation
Indices: 37976057--37976213 Score: 214
Period size: 41 Copynumber: 3.8 Consensus size: 42
37976047 AAATTATTCA
* * *
37976057 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATC-G
1 GACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
37976098 GACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTAAATCAG
1 GACTATACG-CCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
* *
37976140 GA-TACAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
1 GACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
* *
37976181 G-CTATAGGCCTAGTAGGCTAAGTGCCGGTGAAC
1 GACTATACGCCTAGCAGGCTAAGTGCCGGTGAAC
37976214 GGAATTAAAC
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
40 2 0.02
41 98 0.94
42 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (42 bp):
GACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
Found at i:37976227 original size:41 final size:41
Alignment explanation
Indices: 37976054--37976253 Score: 208
Period size: 41 Copynumber: 4.9 Consensus size: 41
37976044 GTGAAATTAT
* * * *
37976054 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAA
* *
37976095 TCGGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTAAA
1 TCAGACTATAAG-CCTAGCAGGCTAAGTGCCGGTGAACTAAA
*
37976136 TCAGGA-TACAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAA
1 TCA-GACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAA
* * * **
37976177 TCAGGCTATAGGCCTAGTAGGCTAAGTGCCGGTGAACGGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAA
* * * *
37976218 TTAAACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATAAGCCTAGCAGGCT-AAGTGCCGGTGAA
37976254 TCTGTTTAAA
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.03
41 127 0.95
42 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (41 bp):
TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTAAA
Found at i:37978682 original size:16 final size:16
Alignment explanation
Indices: 37978661--37978697 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
37978651 ATAGTAAAAA
37978661 TATAATTC-ATCATTTT
1 TATAATTCTAT-ATTTT
37978677 TATAA-TCTATATTTT
1 TATAATTCTATATTTT
37978692 TATAAT
1 TATAAT
37978698 GTTTGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (16 bp):
TATAATTCTATATTTT
Found at i:37978767 original size:8 final size:8
Alignment explanation
Indices: 37978754--37978785 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
37978744 ATAATTTTAC
37978754 TTTAAAAT
1 TTTAAAAT
37978762 TTTAAAAT
1 TTTAAAAT
37978770 TTTAAAAAT
1 TTT-AAAAT
37978779 TTTAAAA
1 TTTAAAA
37978786 AGTTTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTAAAAT
Found at i:37978779 original size:9 final size:9
Alignment explanation
Indices: 37978757--37978800 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
37978747 ATTTTACTTT
37978757 AAAATTTT-
1 AAAATTTTA
37978765 AAAATTTTA
1 AAAATTTTA
37978774 AAAATTTTA
1 AAAATTTTA
*
37978783 AAAAGTTTGA
1 AAAA-TTTTA
37978793 AAAATTTT
1 AAAATTTT
37978801 CCATTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
10 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (9 bp):
AAAATTTTA
Found at i:37983563 original size:49 final size:49
Alignment explanation
Indices: 37983510--37983610 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
37983500 ACATGAATGG
*
37983510 TAAATGAATTGGTTGAATCTAGAGCATGTTTTGATTGTGTTCATATTTT
1 TAAATGAACTGGTTGAATCTAGAGCATGTTTTGATTGTGTTCATATTTT
*
37983559 TAAATGAACTGGTTGAATTTAGAGCATGTTTTGATTGTGTTCATATTTT
1 TAAATGAACTGGTTGAATCTAGAGCATGTTTTGATTGTGTTCATATTTT
37983608 TAA
1 TAA
37983611 TGTTATTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.47
Consensus pattern (49 bp):
TAAATGAACTGGTTGAATCTAGAGCATGTTTTGATTGTGTTCATATTTT
Found at i:37990019 original size:49 final size:49
Alignment explanation
Indices: 37989925--37990131 Score: 123
Period size: 49 Copynumber: 4.2 Consensus size: 49
37989915 TTACCTTCCG
* * * * * ** *
37989925 TAAGTCTCCCCTTATACGTTTGGGAGTAAGGTCAAGTTATCACTTTTCA
1 TAAGCCTCCCCCTATACGTCTGGGAGCAAGCTCACTTTATTACTTTTCA
*
37989974 TAAGCCTCCCCCTATACGTCTGGGAGCAAGCTCACTTTATTACTTTTTA
1 TAAGCCTCCCCCTATACGTCTGGGAGCAAGCTCACTTTATTACTTTTCA
* * * * ** * * * *
37990023 TAAACTTCACCCC-ATGCGTCTAGGAATAGGGTTA-TATTATTACTTTTCG
1 TAAGCCTC-CCCCTATACGTCTGGGAGCAAGCTCACT-TTATTACTTTTCA
* *** * * *
37990072 TAAGCCTCCCCCCATGTTTTTTGGGAGCAGAGC-CACTTTATTACCTTTCG
1 TAAGCCTCCCCCTAT-ACGTCTGGGAGCA-AGCTCACTTTATTACTTTTCA
37990122 TAAGCCTCCC
1 TAAGCCTCCC
37990132 TCCATGTGAT
Statistics
Matches: 119, Mismatches: 33, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
48 5 0.04
49 79 0.66
50 33 0.28
51 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (49 bp):
TAAGCCTCCCCCTATACGTCTGGGAGCAAGCTCACTTTATTACTTTTCA
Found at i:37990164 original size:49 final size:50
Alignment explanation
Indices: 37990061--37990178 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 50
37990051 GGGTTATATT
* ** *
37990061 ATTACTTTTCGTAAGCCTCCCCCCATGTTTTTTGGGAGCAGAGCCACTTT
1 ATTACCTTTCGTAAGCCTCCCCCCATGTTGATTGGGAGCAGAGCCACTTA
* * **
37990111 ATTACCTTTCGTAAGCCTCCCTCCATG-TGATTGGGAGCAGGGTTACTTA
1 ATTACCTTTCGTAAGCCTCCCCCCATGTTGATTGGGAGCAGAGCCACTTA
*
37990160 ATTA-CTTGCCGTAAGCCTC
1 ATTACCTT-TCGTAAGCCTC
37990179 TCCTATGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.05
49 30 0.52
50 25 0.43
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (50 bp):
ATTACCTTTCGTAAGCCTCCCCCCATGTTGATTGGGAGCAGAGCCACTTA
Found at i:37992116 original size:21 final size:21
Alignment explanation
Indices: 37992103--37992173 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
37992093 TATGGGTTTT
37992103 TGTTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
* * * *
37992124 TGTTCAACCCTTATGGGTTTC
1 TGTTCAGCTCTTATGAGCTTC
* *
37992145 TGTTTAGCTCTCATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
37992166 TGTTCAGC
1 TGTTCAGC
37992174 CTTTAGGCTT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:37992170 original size:42 final size:41
Alignment explanation
Indices: 37992019--37992171 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 41
37992009 GTTTACTTTA
* * *
37992019 TGTTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTT
1 TGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTT
* * * *
37992060 TCATTCAGCTC-TATTGAGCTTTTGTTAAACCATTATGGGTTTT
1 T-GTTCAGCTCTTA-TGAGCTTCTGTTCAACCCTTATGGG-TTT
37992103 TGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTT
1 TGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTT
* *
37992144 CTGTTTAGCTCTCATGAGCTTCTGTTCA
1 -TGTTCAGCTCTTATGAGCTTCTGTTCA
37992172 GCCTTTAGGC
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.05
42 84 0.88
43 6 0.06
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (41 bp):
TGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTT
Found at i:37994895 original size:66 final size:66
Alignment explanation
Indices: 37994812--37994939 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
37994802 AGAAATTCAG
*
37994812 TATAGCTTCACATCTTGGATTTCATTATCTCGGTTTTCTTATCATTCTTATGGTTTAATTTTTCC
1 TATAGCGTCACATCTTGGATTTCATTATCTCGGTTTTCTTATCATTCTTATGGTTTAATTTTTCC
37994877 A
66 A
37994878 TATAGCGTCACATCTTGGATTTCATTATCTCGGTTTTCTTATCATTCTTATGGTTTAATTTT
1 TATAGCGTCACATCTTGGATTTCATTATCTCGGTTTTCTTATCATTCTTATGGTTTAATTTT
37994940 ATCTATTAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.52
Consensus pattern (66 bp):
TATAGCGTCACATCTTGGATTTCATTATCTCGGTTTTCTTATCATTCTTATGGTTTAATTTTTCC
A
Found at i:37997462 original size:21 final size:21
Alignment explanation
Indices: 37997436--37997593 Score: 115
Period size: 21 Copynumber: 7.5 Consensus size: 21
37997426 CGCGTTTACT
*
37997436 TTCTGTTCAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
37997457 TTCTGTTTAAC-CTTTATGAGT
1 TTCTGTTCAGCTC-TTATGAGC
37997478 TTAC-GTTCAGCTC-TATCGAGC
1 TT-CTGTTCAGCTCTTAT-GAGC
* * * * * *
37997499 TTCTATTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
*
37997520 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * *
37997541 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
* *
37997562 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTCAGCTCTTATGAGC
37997583 TTCTGTTCAGC
1 TTCTGTTCAGC
37997594 CTTCGGGCTT
Statistics
Matches: 99, Mismatches: 32, Indels: 12
0.69 0.22 0.08
Matches are distributed among these distances:
20 5 0.05
21 89 0.90
22 5 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:37997590 original size:42 final size:42
Alignment explanation
Indices: 37997435--37997591 Score: 201
Period size: 42 Copynumber: 3.7 Consensus size: 42
37997425 TCGCGTTTAC
* * * *
37997435 TTTCTGTTCAGCTCTTTTGAGCTTCTGTTTAACCTTTATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* *
37997477 TTTAC-GTTCAGCTC-TATCGAGCTTCTATTTAACCCTTATGGG
1 TTT-CTGTTCAGCTCTTAT-GAGCTTCTGTTCAACCCTTATGGG
*
37997519 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
* *
37997561 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCA
37997592 GCCTTCGGGC
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.03
42 95 0.94
43 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGGG
Done.