Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 157 of 185
Found at i:47446517 original size:3 final size:3
Alignment explanation
Indices: 47446509--47446534 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47446499 TTCATCCTCA
47446509 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
47446535 ATCATGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:47457137 original size:21 final size:20
Alignment explanation
Indices: 47457113--47457179 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
47457103 TTACTTTCCT
*
47457113 TTTAGCTCTCTCGAGCTTTTG
1 TTTAGCTCTAT-GAGCTTTTG
* *
47457134 TTTAACACATATGAG-TTTTCG
1 TTTAGCTC-TATGAGCTTTT-G
*
47457155 TTTAGCTCTTTTGAGCTTTTG
1 TTTAGCTC-TATGAGCTTTTG
47457176 TTTA
1 TTTA
47457180 ACCCTTATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 4 0.11
21 26 0.72
22 6 0.17
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (20 bp):
TTTAGCTCTATGAGCTTTTG
Found at i:47457204 original size:42 final size:42
Alignment explanation
Indices: 47457113--47457261 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
47457103 TTACTTTCCT
* * * *
47457113 TTTAGCTCTCTCGAGCTTTTGTTTAACACATATGAGTTT-TCG
1 TTTAGCTCTCACGAGCTTCTGTTTAACACTTATGGGTTTCT-G
*** * *
47457155 TTTAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGGTTTCTG
1 TTTAGCTCTCACGAGCTTCTGTTTAACACTTATGGGTTTCTG
* * * *
47457197 TTCAGCTCTTACAAGCTTCTGTTCAACTA-TTATGGGTTTCTG
1 TTTAGCTCTCACGAGCTTCTGTTTAAC-ACTTATGGGTTTCTG
*
47457239 TTTAGCTCTCATGAGCTTCTGTT
1 TTTAGCTCTCACGAGCTTCTGTT
47457262 CAGCCTTCGA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
42 88 0.99
43 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.47
Consensus pattern (42 bp):
TTTAGCTCTCACGAGCTTCTGTTTAACACTTATGGGTTTCTG
Found at i:47457207 original size:21 final size:21
Alignment explanation
Indices: 47457158--47457265 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
47457148 GTTTTCGTTT
* * *
47457158 AGCTCTTTTGAGCTTTTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* * * *
47457179 AACCCTTATGGGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
**
47457200 AGCTCTTACAAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
* * * * *
47457221 AACTATTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
*
47457242 AGCTCTCATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
47457263 AGC
1 AGC
47457266 CTTCGAGCTT
Statistics
Matches: 61, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:47462486 original size:25 final size:26
Alignment explanation
Indices: 47462457--47462512 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
47462447 TGTAAACAAT
* *
47462457 AAGCTCT-TTCAAGCTGAATAACGAG
1 AAGCTCTATGCAAGCTAAATAACGAG
* *
47462482 AAGCT-TATGCGAGCTAAATAACGGG
1 AAGCTCTATGCAAGCTAAATAACGAG
47462507 AAGCTC
1 AAGCTC
47462513 ATGTGAGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
AAGCTCTATGCAAGCTAAATAACGAG
Found at i:47462520 original size:25 final size:25
Alignment explanation
Indices: 47462468--47462539 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
47462458 AGCTCTTTCA
* *
47462468 AGCTGAATAACGAGAAGCTTATGCG
1 AGCTGAATAACGGGAAGCTCATGCG
* *
47462493 AGCTAAATAACGGGAAGCTCATGTG
1 AGCTGAATAACGGGAAGCTCATGCG
* *
47462518 AGCTGAGTATCGGGAAGCTCAT
1 AGCTGAATAACGGGAAGCTCAT
47462540 AAGAGTTGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
AGCTGAATAACGGGAAGCTCATGCG
Found at i:47464289 original size:25 final size:25
Alignment explanation
Indices: 47464256--47464319 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
47464246 ACGAGCTGTA
* *
47464256 AACAGGAAGCTCCTCTAAGCTGAAT
1 AACAGGAAGCTCATCTAAGCTAAAT
* *
47464281 AACAGGAAGCTCATGTGAGCTAAAT
1 AACAGGAAGCTCATCTAAGCTAAAT
*
47464306 AACGGGAAGCTCAT
1 AACAGGAAGCTCAT
47464320 AAGAGCTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (25 bp):
AACAGGAAGCTCATCTAAGCTAAAT
Found at i:47466462 original size:27 final size:27
Alignment explanation
Indices: 47466397--47466468 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
47466387 TAGTGGAGGG
* *
47466397 ACTGCCACAGGTGGCACCAATGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
* * * *
47466424 AGTGGCAGAGGCAGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
47466451 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
47466469 CCCCCTTTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.32, T:0.10
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:47466853 original size:17 final size:17
Alignment explanation
Indices: 47466831--47466863 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47466821 AAATATACTA
*
47466831 TTTTCGTTTTTTATTTC
1 TTTTCGTATTTTATTTC
47466848 TTTTCGTATTTTATTT
1 TTTTCGTATTTTATTT
47466864 TTTCATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCGTATTTTATTTC
Found at i:47467549 original size:17 final size:17
Alignment explanation
Indices: 47467502--47467552 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
47467492 AATTTTAGGG
47467502 AATTTTAAAATACTTTTT
1 AATTTTAAAATA-TTTTT
* *
47467520 --TTTT-TAATTTTTTT
1 AATTTTAAAATATTTTT
47467534 AATTTTAAAATATTTTT
1 AATTTTAAAATATTTTT
47467551 AA
1 AA
47467553 AGTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 8 0.31
17 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTAAAATATTTTT
Found at i:47467561 original size:42 final size:43
Alignment explanation
Indices: 47467504--47467587 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 43
47467494 TTTTAGGGAA
*
47467504 TTTTAAAATACTTTTTTTTTTAATTTTTT-TAA-TTTTAAAATAT
1 TTTTAAAATAC--TTTTTTTTAATTTTTTAAAATTTTTAAAATAT
*
47467547 TTTTAAAGTA-TTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATACTTTTTTTTAATTTTTTAAAATTTTTAAAATA
47467588 AAAATGGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
40 16 0.43
41 2 0.05
42 10 0.27
43 9 0.24
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (43 bp):
TTTTAAAATACTTTTTTTTAATTTTTTAAAATTTTTAAAATAT
Found at i:47494162 original size:15 final size:15
Alignment explanation
Indices: 47494144--47494173 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47494134 ATAAATGCAG
47494144 AAAAATTAAAGTATT
1 AAAAATTAAAGTATT
*
47494159 AAAAATTTAAGTATT
1 AAAAATTAAAGTATT
47494174 CAATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AAAAATTAAAGTATT
Found at i:47494802 original size:73 final size:73
Alignment explanation
Indices: 47494716--47494871 Score: 296
Period size: 73 Copynumber: 2.2 Consensus size: 73
47494706 GATAAACTAA
47494716 AAAAATTAA-ATATTTTAGTCCAAAATTTTATAAGTGTTGAATTTATATTATAAAATTGTTTGTC
1 AAAAATTAAGATATTTTAGTCCAAAATTTTATAAGTGTTGAATTTATATTATAAAATTGTTTGTC
47494780 ATGTTAAT
66 ATGTTAAT
*
47494788 AAAAATTAAGATATTTTAGTCCAAAATTTTATAAGTGTTGAATTTATATTATAAAATTGTTTGTT
1 AAAAATTAAGATATTTTAGTCCAAAATTTTATAAGTGTTGAATTTATATTATAAAATTGTTTGTC
47494853 ATGTTAAT
66 ATGTTAAT
47494861 AAAAATTAAGA
1 AAAAATTAAGA
47494872 ATTGAATATA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
72 9 0.11
73 73 0.89
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (73 bp):
AAAAATTAAGATATTTTAGTCCAAAATTTTATAAGTGTTGAATTTATATTATAAAATTGTTTGTC
ATGTTAAT
Found at i:47501509 original size:29 final size:29
Alignment explanation
Indices: 47501450--47501517 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
47501440 TAATTTAAAT
* **
47501450 AATTTAATAATTAAAATATATTTCAACTA
1 AATTTAATAATAAAAATATATAACAACTA
* * *
47501479 AATTTAATTATAAAAATATATAACTATTA
1 AATTTAATAATAAAAATATATAACAACTA
47501508 AATTATAATA
1 AATT-TAATA
47501518 GAAATCCTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
AATTTAATAATAAAAATATATAACAACTA
Found at i:47501534 original size:76 final size:76
Alignment explanation
Indices: 47501449--47501602 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
47501439 CTAATTTAAA
*
47501449 TAATTTAATAATTAAAATATATTTCAACTAAATTTAATTATAAAAATATATAACTATTAAATTAT
1 TAATTTAATAATTAAAATATATTTCAACTAAATTTAATTATAAAAATATATAAATATTAAATTAT
47501514 AATAGAAATCC
66 AATAGAAATCC
*
47501525 TAATTTAATAATTAAAATATATTTCAACTAAATTTAATTATAAAAATATATAAATATTATATTAT
1 TAATTTAATAATTAAAATATATTTCAACTAAATTTAATTATAAAAATATATAAATATTAAATTAT
47501590 AATAGAAATCC
66 AATAGAAATCC
47501601 TA
1 TA
47501603 TCACATGCGT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (76 bp):
TAATTTAATAATTAAAATATATTTCAACTAAATTTAATTATAAAAATATATAAATATTAAATTAT
AATAGAAATCC
Found at i:47517050 original size:20 final size:19
Alignment explanation
Indices: 47517025--47517063 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
47517015 GTGCGTCTGC
47517025 TTCTTTCCTTCTTTCTCTTT
1 TTCTTTCCTTCTTT-TCTTT
*
47517045 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCCTTCTTTTCTTT
47517064 CTAATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCCTTCTTTTCTTT
Found at i:47519670 original size:41 final size:41
Alignment explanation
Indices: 47519613--47519725 Score: 192
Period size: 41 Copynumber: 2.8 Consensus size: 41
47519603 TTTAACGTAT
* *
47519613 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-CAGA
47519654 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
47519695 TCACCGGCACTTAGCCTGCTAGGTTTATAAC
1 TCACCGGCACTTAGCCTGCTAGGTTTATAAC
47519726 TGCAATGACC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 2 0.03
41 67 0.97
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:47520230 original size:5 final size:5
Alignment explanation
Indices: 47520220--47520263 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
47520210 ATAAGTAAGT
*
47520220 TATTA TATTA TATTA TTATAA TATTA TATTA TTATTA TA-TA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TAT
47520264 AAAACAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.12
5 21 0.62
6 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:47520236 original size:8 final size:8
Alignment explanation
Indices: 47520225--47520254 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47520215 TAAGTTATTA
47520225 TATTATAT
1 TATTATAT
*
47520233 TATTATAA
1 TATTATAT
47520241 TATTATAT
1 TATTATAT
47520249 TATTAT
1 TATTAT
47520255 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:47520243 original size:16 final size:16
Alignment explanation
Indices: 47520219--47520263 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
47520209 AATAAGTAAG
47520219 TTATTATATTATATTA
1 TTATTATATTATATTA
*
47520235 TTATAATATTATATTA
1 TTATTATATTATATTA
47520251 TTATTATA-TATAT
1 TTATTATATTATAT
47520264 AAAACAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:47521389 original size:25 final size:25
Alignment explanation
Indices: 47521361--47521494 Score: 115
Period size: 22 Copynumber: 5.6 Consensus size: 25
47521351 ACTTTAGCGC
*
47521361 GCTCTTTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * * *
47521386 GCTCTCTGACTACTAGAACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
47521411 GCTCTCTGATT-TTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
47521435 GCTCTCTG--T-TTAGCACATCT-GT
1 GCTCTCTGATTATTAGCACGT-TAGT
*
47521457 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
47521479 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
47521495 TGCATACTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 37 0.41
23 1 0.01
24 18 0.20
25 33 0.37
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:47527520 original size:3 final size:3
Alignment explanation
Indices: 47527512--47527562 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
47527502 CAAGCCTGTT
* * * *
47527512 TCA TCA TCA ACA TCA TCA TCG TCCA -CA CCA TTA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA T-CA TCA TCA TCA TCA TCA TCA TCA
47527557 TCA TCA
1 TCA TCA
47527563 CTGTCATCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.92
4 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:47531651 original size:51 final size:51
Alignment explanation
Indices: 47531596--47531699 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
47531586 TTAATCAAAC
47531596 ACACCTTAAATTATTTTATTTATTTTCTACAAATGTTAAGAGTAACTAGGA
1 ACACCTTAAATTATTTTATTTATTTTCTACAAATGTTAAGAGTAACTAGGA
47531647 ACACCTTAAATTATTTTATTTATTTTCTACAAATGTTAAGAGTAACTAGGA
1 ACACCTTAAATTATTTTATTTATTTTCTACAAATGTTAAGAGTAACTAGGA
47531698 AC
1 AC
47531700 TTTATCATGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (51 bp):
ACACCTTAAATTATTTTATTTATTTTCTACAAATGTTAAGAGTAACTAGGA
Found at i:47535689 original size:17 final size:18
Alignment explanation
Indices: 47535659--47535700 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
47535649 TCGAAATTCA
*
47535659 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
47535677 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
47535695 -CAAATA
1 TCAAATA
47535701 TTCTAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:47537149 original size:43 final size:42
Alignment explanation
Indices: 47537101--47537202 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
47537091 CTAATGTCCT
*
47537101 AGACATAGTCTTACATGTTTCCTCACTTCGATTCCAATATCCC
1 AGACAT-GTCTTACATGTTTCCTCACTTCGATGCCAATATCCC
* * * *
47537144 AGACATGATCTTACACGTTTTCTCACTTCGATGCTAATGTCCC
1 AGACATG-TCTTACATGTTTCCTCACTTCGATGCCAATATCCC
*
47537187 AAACATGGTCTTACAT
1 AGACAT-GTCTTACAT
47537203 CAGAAGTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 48 0.96
44 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (42 bp):
AGACATGTCTTACATGTTTCCTCACTTCGATGCCAATATCCC
Found at i:47538962 original size:19 final size:19
Alignment explanation
Indices: 47538938--47539029 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
47538928 AATCATATCT
*
47538938 TCTAAGACTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47538957 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47538976 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
47538995 TCCAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47539014 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47539030 CTTGAAGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47538988 original size:38 final size:38
Alignment explanation
Indices: 47538931--47539029 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
47538921 ATTACAAAAT
* *
47538931 CATATC-T-TCTAAGACTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
47538967 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCCAAGATTA
47539005 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
47539030 CTTGAAGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 52 0.88
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCCAAGATTA
Found at i:47539799 original size:88 final size:89
Alignment explanation
Indices: 47539682--47540358 Score: 592
Period size: 88 Copynumber: 7.7 Consensus size: 89
47539672 TCAAGGCAAT
* * *
47539682 AAGACCGATGTC-TTCGATCTGCTTCACTGCTAGTAAAGGAAGGCAAGATCTACTATTTTCAACC
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* ** *
47539746 TACTCCACTGC-TGCTCAGGGAGAC
66 TGCTCCACTGCAACCT-AGGGAGGC
* * ** * **
47539770 AAGGCCGGAGT-TTTCGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATCTTCAGTC
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
*
47539834 TGCTCCACTGCAACCTAGGGAGGT
66 TGCTCCACTGCAACCTAGGGAGGC
*
47539858 AAGACCGGTGTC-TTCGAT-TAGCTTCGCTG-TCAGTACAGGAAGGCAAGATCTGCTATTTTCAA
1 AAGACCGGTGTCTTTCGATCT-GCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAA
* * *
47539920 CCTACTCCGCTGCAACCCAGGGAGGC
64 CCTGCTCCACTGCAACCTAGGGAGGC
* * ** ** * * * **
47539946 AAGGCTGGTGTCTTT-GATCTGCTTCGTTGCCGGTATAAGAAGGCAAGATCTGCTATCTTCAGTC
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* *
47540010 TGCTCCACTGTAACCTAAGGAGGC
66 TGCTCCACTGCAACCTAGGGAGGC
**
47540034 AAGACTAGTGTCTTT-GATCTGCTTCACTG-TCAGTACAGGAAGGCAAGATCTGCTATTTTCAAC
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAAC
* **
47540097 CTGCTCCGCTGCAATCC-AGGGAAAC
65 CTGCTCCACTGCAA-CCTAGGGAGGC
* *** ** * * * * * **
47540122 AAGGCTAATGTCTTT-GATCTGCTTCGTTG-TCGGTACAAGAAGGTAGGATCTGCTATCTTCAGT
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAAC
**
47540185 CTATTCCACTGCAACCTAGGGAGGC
65 CTGCTCCACTGCAACCTAGGGAGGC
* * * *
47540210 AAGACTGGTGTCTTT-GATCTACTTCACTG-TCAGTACAGGAAGGTAAGATCTGCTACTTTCAAC
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCT-AGTACAGGAAGGCAAGATCTGCTATTTTCAAC
* * * *
47540273 CTGCTTCGCTACAACCCAGGGAGGC
65 CTGCTCCACTGCAACCTAGGGAGGC
* * ** * *
47540298 AAGGCTGGTGTCTTT-GATCTGCTTCACTGCCGGTACAGTAAGGCAAGATCTGCTATCTTCA
1 AAGACCGGTGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCA
47540359 CTGATATGTT
Statistics
Matches: 476, Mismatches: 101, Indels: 24
0.79 0.17 0.04
Matches are distributed among these distances:
87 3 0.01
88 466 0.98
89 7 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (89 bp):
AAGACCGGTGTCTTTCGATCTGCTTCACTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
TGCTCCACTGCAACCTAGGGAGGC
Found at i:47539979 original size:176 final size:176
Alignment explanation
Indices: 47539682--47540358 Score: 912
Period size: 176 Copynumber: 3.8 Consensus size: 176
47539672 TCAAGGCAAT
* * *
47539682 AAGACCGATGTCTTCGATCTGCTTCACTG-CTAGTAAAGGAAGGCAAGATCTACTATTTTCAACC
1 AAGACCGGTGTCTTCGATCTGCTTCACTGTC-AGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* ** * * * *
47539746 TACTCCACTGCTGCTCAGGGAGACAAGGCCGGAGT-TTTCGATCTGCTTCACTGCCGGTACAGGA
65 TACTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTT-GATCTGCTTCACTGCCGGTACAAGA
*
47539810 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGT
129 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGC
*
47539858 AAGACCGGTGTCTTCGAT-TAGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
1 AAGACCGGTGTCTTCGATCT-GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACC
* ** *
47539922 TACTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCCGGTATAAGAA
65 TACTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAAGAA
* *
47539987 GGCAAGATCTGCTATCTTCAGTCTGCTCCACTGTAACCTAAGGAGGC
130 GGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGC
** *
47540034 AAGACTAGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
1 AAGACCGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
* * * ** ** *
47540099 GCTCCGCTGCAATCCAGGGAAACAAGGCTAATGTCTTTGATCTGCTTCGTTGTCGGTACAAGAAG
66 ACTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAAGAAG
* * **
47540164 GTAGGATCTGCTATCTTCAGTCTATTCCACTGCAACCTAGGGAGGC
131 GCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGC
* * * * *
47540210 AAGACTGGTGTCTTTGATCTACTTCACTGTCAGTACAGGAAGGTAAGATCTGCTACTTTCAACCT
1 AAGACCGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
* * * *
47540275 GCTTCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTAC-AGTAA
66 ACTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAAG-AA
47540339 GGCAAGATCTGCTATCTTCA
130 GGCAAGATCTGCTATCTTCA
47540359 CTGATATGTT
Statistics
Matches: 444, Mismatches: 52, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
175 3 0.01
176 436 0.98
177 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (176 bp):
AAGACCGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCT
ACTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAAGAAG
GCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGC
Found at i:47540174 original size:264 final size:264
Alignment explanation
Indices: 47539690--47540358 Score: 709
Period size: 264 Copynumber: 2.5 Consensus size: 264
47539680 ATAAGACCGA
* * * * * *
47539690 TGTCTTCGATCTGCTTCACTGCTAGTA-AAGGAAGGCAAGATCTACTATTTTCAACCTACTCCAC
1 TGTCTTTGATCTACTTCACTGCCAGTACAA-GAAGGCAAGATCTGCTACTTTCAACCTGCTCCAC
* ** * * * * ** *
47539754 TGCTGCTCAGGGAGACAAGGCCGGAGT-TTTCGATCTGCTTCACTGCCGGTACAGGAAGGCAAGA
65 TACAACCCAAGGAGGCAAGACTAGTGTCTTT-GATCTGCTTCACTGCCGGTACAGGAAGGCAAGA
** *** **
47539818 TCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGTAAGACCGGTGTCTTCGATTAGCTTC
129 TCTGCTATCTTCAACCTGCTCCACTGCAACCTAGGGAAACAAGACCAATGTCTTCGATTAGCTTC
* * *
47539883 GCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
194 GCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAA
*
47539948 GGCTGG
259 GACTGG
* ** * * **
47539954 TGTCTTTGATCTGCTTCGTTGCCGGTATAAGAAGGCAAGATCTGCTA-TCTTCAGTCTGCTCCAC
1 TGTCTTTGATCTACTTCACTGCCAGTACAAGAAGGCAAGATCTGCTACT-TTCAACCTGCTCCAC
** * * *
47540018 TGTAACCTAAGGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
65 TACAACCCAAGGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGAT
* * * * *
47540083 CTGCTATTTTCAACCTGCTCCGCTGCAATCC-AGGGAAACAAGGCTAATGTCTTTGATCT-GCTT
130 CTGCTATCTTCAACCTGCTCCACTGCAA-CCTAGGGAAACAAGACCAATGTCTTCGAT-TAGCTT
* * * * ** * *
47540146 CGTTGTCGGTACAAGAAGGTAGGATCTGCTATCTTCAGTCTATTCCACTGCAACCTAGGGAGGCA
193 CGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCA
47540211 AGACTGG
258 AGACTGG
* * * * *
47540218 TGTCTTTGATCTACTTCACTGTCAGTACAGGAAGGTAAGATCTGCTACTTTCAACCTGCTTCGCT
1 TGTCTTTGATCTACTTCACTGCCAGTACAAGAAGGCAAGATCTGCTACTTTCAACCTGCTCCACT
* * * *
47540283 ACAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGCCGGTACAGTAAGGCAAGATC
66 ACAACCCAAGGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATC
47540348 TGCTATCTTCA
131 TGCTATCTTCA
47540359 CTGATATGTT
Statistics
Matches: 331, Mismatches: 68, Indels: 12
0.81 0.17 0.03
Matches are distributed among these distances:
263 1 0.00
264 321 0.97
265 9 0.03
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (264 bp):
TGTCTTTGATCTACTTCACTGCCAGTACAAGAAGGCAAGATCTGCTACTTTCAACCTGCTCCACT
ACAACCCAAGGAGGCAAGACTAGTGTCTTTGATCTGCTTCACTGCCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACTGCAACCTAGGGAAACAAGACCAATGTCTTCGATTAGCTTCGC
TGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAAGA
CTGG
Found at i:47541455 original size:21 final size:21
Alignment explanation
Indices: 47541409--47541455 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47541399 AGTATAACTA
47541409 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
* * * *
47541430 AATCACCTCATGCCCCATTTT
1 GATCACCACATGCCCCAATCT
47541451 GATCA
1 GATCA
47541456 ATATTTGAGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:47541578 original size:21 final size:23
Alignment explanation
Indices: 47541536--47541579 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47541526 TCACATTGGC
* *
47541536 CTCTCTATTTTCTTTCTTCTTTT
1 CTCTCCATTTTCTTTCTACTTTT
47541559 CTCTCCATTTT-TTT-TACTTTT
1 CTCTCCATTTTCTTTCTACTTTT
47541580 TTTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (23 bp):
CTCTCCATTTTCTTTCTACTTTT
Found at i:47542576 original size:25 final size:26
Alignment explanation
Indices: 47542525--47542584 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
47542515 AAGAAAATCC
* **
47542525 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
47542551 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
47542576 AAAATGAAT
1 AAAA-GAAT
47542585 ACAAAGATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:47546367 original size:27 final size:27
Alignment explanation
Indices: 47546332--47546409 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
47546322 CCAATGATTC
*
47546332 GGGGAATCAACACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
*
47546359 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTCG
*
47546386 GGGGAATCAGCATTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
47546410 CTTCACATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:47546438 original size:129 final size:129
Alignment explanation
Indices: 47546257--47546511 Score: 413
Period size: 129 Copynumber: 2.0 Consensus size: 129
47546247 CCAATGAGTC
** * **
47546257 GGGGAATCAGCACTTAAGAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAAGAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
47546322 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAACACTTAACAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTG
*
47546386 GGGGAATCAGCA-TTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAAG-AACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
* *
47546450 ACCAATGATTCGGGGAATCAGCACTTAACAACCCCTTGGGGGAATCAGCACTTAGCAACCCC
65 ACCAATGATTCGGGGAATCAACACTTAACAACCCCTCGGGGGAATCAGCACTTAGCAACCCC
47546512 CTTTCTATTC
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 4 0.03
129 112 0.97
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (129 bp):
GGGGAATCAGCACTTAAGAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAACACTTAACAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:47546472 original size:33 final size:27
Alignment explanation
Indices: 47546430--47546511 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 27
47546420 AAAATACGGT
47546430 GGAATCAGCACTTAGCAACCACCAATGATTCGG
1 GGAATCAGCACTTAGCAACC-CC-----TTCGG
* *
47546463 GGAATCAGCACTTAACAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTCGG
47546490 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
47546512 CTTTCTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 25 0.54
32 2 0.04
33 19 0.41
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTCGG
Found at i:47546884 original size:30 final size:30
Alignment explanation
Indices: 47546850--47546907 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
47546840 CCACCCAACT
*
47546850 TTTTGAAAAATTATAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
47546880 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
47546908 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:47554193 original size:30 final size:29
Alignment explanation
Indices: 47554159--47554223 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47554149 TAATTCACCA
47554159 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
47554189 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
47554219 CCCAA
1 CCCAA
47554224 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:47554197 original size:31 final size:30
Alignment explanation
Indices: 47554166--47554223 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47554156 CCACCCAACT
47554166 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
47554196 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
47554224 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:47556481 original size:12 final size:12
Alignment explanation
Indices: 47556464--47556495 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47556454 TAAAAAATTT
47556464 ATAAAATAAAAA
1 ATAAAATAAAAA
47556476 ATAAAATAAAAA
1 ATAAAATAAAAA
*
47556488 ATAGAATA
1 ATAAAATA
47556496 TAAACACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:47556725 original size:85 final size:85
Alignment explanation
Indices: 47556580--47556821 Score: 261
Period size: 85 Copynumber: 2.8 Consensus size: 85
47556570 GCAAACGTTT
* *** * * *
47556580 GCGGCGTTTTTTCCTACAAACGCCGCTATAGATTTGGACCTTCAGCGGCGCTTTTTTCACAAACG
1 GCGGCGTTTTTT--TACAAACACCGCTATAGATCAAGACCTTTAGCGACGCTTTTATCACAAACG
*
47556645 CCGTTATAGATCATGACCTTTA
64 CCGCTATAGATCATGACCTTTA
* *
47556667 GCGGCGTTTTTTTACAAACACCGCTATAGATCAAGACCTTTAGCGACACTTTTCTCACAAACGCC
1 GCGGCGTTTTTTTACAAACACCGCTATAGATCAAGACCTTTAGCGACGCTTTTATCACAAACGCC
* *
47556732 GCTATATATCATGATCTTTA
66 GCTATAGATCATGACCTTTA
* * * * * * * *
47556752 ACGACGCTTTTTTCAAAAACACCACTATA-ACTCAAAACCTTTAGCGACGCTTTGATTACAAACG
1 GCGGCG-TTTTTTTACAAACACCGCTATAGA-TCAAGACCTTTAGCGACGCTTTTATCACAAACG
47556816 CCGCTA
64 CCGCTA
47556822 AAAGTACCGT
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
85 67 0.51
86 53 0.40
87 12 0.09
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (85 bp):
GCGGCGTTTTTTTACAAACACCGCTATAGATCAAGACCTTTAGCGACGCTTTTATCACAAACGCC
GCTATAGATCATGACCTTTA
Found at i:47556794 original size:43 final size:43
Alignment explanation
Indices: 47556586--47556821 Score: 208
Period size: 43 Copynumber: 5.5 Consensus size: 43
47556576 GTTTGCGGCG
* *** * *
47556586 TTTTTTCCTACAAACGCCGCTATAGATTTGGACCTTCAGCGGCGC
1 TTTTTT-C-ACAAACACCGCTATAGATCAAGACCTTTAGCGACGC
* * * *
47556631 TTTTTTCACAAACGCCGTTATAGATCATGACCTTTAGCGGCG-
1 TTTTTTCACAAACACCGCTATAGATCAAGACCTTTAGCGACGC
* *
47556673 TTTTTTTACAAACACCGCTATAGATCAAGACCTTTAGCGACAC
1 TTTTTTCACAAACACCGCTATAGATCAAGACCTTTAGCGACGC
* * * * * *
47556716 TTTTCTCACAAACGCCGCTATATATCATGATCTTTAACGACGC
1 TTTTTTCACAAACACCGCTATAGATCAAGACCTTTAGCGACGC
* * *
47556759 TTTTTTCAAAAACACCACTATA-ACTCAAAACCTTTAGCGACGC
1 TTTTTTCACAAACACCGCTATAGA-TCAAGACCTTTAGCGACGC
* *
47556802 TTTGATT-ACAAACGCCGCTA
1 TTT-TTTCACAAACACCGCTA
47556822 AAAGTACCGT
Statistics
Matches: 157, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.24
43 111 0.71
44 3 0.02
45 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (43 bp):
TTTTTTCACAAACACCGCTATAGATCAAGACCTTTAGCGACGC
Found at i:47556813 original size:86 final size:85
Alignment explanation
Indices: 47556636--47556821 Score: 230
Period size: 86 Copynumber: 2.2 Consensus size: 85
47556626 GGCGCTTTTT
* * * * * *
47556636 TCACAAACGCCGTTATAGATCATGACCTTTAGCGGCGTTTTTTTACAAACACCGCTATAGATCAA
1 TCACAAACGCCGCTATAGATCATGACCTTTAACGACGTTTTTTCAAAAACACCACTATAGATCAA
* **
47556701 GACCTTTAGCGACACTTTTC
66 AACCTTTAGCGACACTTTGA
* *
47556721 TCACAAACGCCGCTATATATCATGATCTTTAACGACGCTTTTTTCAAAAACACCACTATA-ACTC
1 TCACAAACGCCGCTATAGATCATGACCTTTAACGACG-TTTTTTCAAAAACACCACTATAGA-TC
*
47556785 AAAACCTTTAGCGACGCTTTGA
64 AAAACCTTTAGCGACACTTTGA
*
47556807 TTACAAACGCCGCTA
1 TCACAAACGCCGCTA
47556822 AAAGTACCGT
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 33 0.38
86 53 0.62
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (85 bp):
TCACAAACGCCGCTATAGATCATGACCTTTAACGACGTTTTTTCAAAAACACCACTATAGATCAA
AACCTTTAGCGACACTTTGA
Found at i:47562402 original size:7 final size:7
Alignment explanation
Indices: 47562386--47562416 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
47562376 TCCCAACCCT
*
47562386 TAAACAA
1 TAAACCA
47562393 TAAACCA
1 TAAACCA
47562400 TAAACCA
1 TAAACCA
47562407 TAAACCA
1 TAAACCA
47562414 TAA
1 TAA
47562417 TACTATCTCT
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:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:47562519 original size:16 final size:17
Alignment explanation
Indices: 47562483--47562524 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
47562473 CACTATAATC
47562483 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
47562501 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
47562517 ATTATTTA
1 ATTATTTA
47562525 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:47562690 original size:28 final size:26
Alignment explanation
Indices: 47562654--47562718 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 26
47562644 CCTAAACCCT
47562654 TAACTCTTAACCCTCAACCCCTAACTCCTA
1 TAAC-CTTAACCC-CAACCCCTAA-T-CTA
*
47562684 -AACCTTAAACCCCAACCCTTAATCTA
1 TAACCTT-AACCCCAACCCCTAATCTA
47562710 TAACCTTAA
1 TAACCTTAA
47562719 ACCATAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 5 0.16
27 7 0.22
28 12 0.38
29 8 0.25
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (26 bp):
TAACCTTAACCCCAACCCCTAATCTA
Found at i:47562737 original size:21 final size:21
Alignment explanation
Indices: 47562711--47562777 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
47562701 CTTAATCTAT
*
47562711 AACCTTAAACCATAAACTGTG
1 AACCTTAAACCATAAACTGTA
* * **
47562732 ACCCTTAAACCCTAAACCATA
1 AACCTTAAACCATAAACTGTA
47562753 AACCTTAAACCATAAACTGTA
1 AACCTTAAACCATAAACTGTA
47562774 AACC
1 AACC
47562778 ATAACCCCTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (21 bp):
AACCTTAAACCATAAACTGTA
Found at i:47562749 original size:7 final size:7
Alignment explanation
Indices: 47562732--47562834 Score: 53
Period size: 7 Copynumber: 14.4 Consensus size: 7
47562722 ATAAACTGTG
47562732 ACCCTTAA
1 ACCC-TAA
47562740 ACCCTAA
1 ACCCTAA
*
47562747 ACCATAA
1 ACCCTAA
*
47562754 ACCTTAA
1 ACCCTAA
*
47562761 ACCATAA
1 ACCCTAA
**
47562768 ACTGTAA
1 ACCCTAA
*
47562775 ACCATAA
1 ACCCTAA
*
47562782 CCCCTAA
1 ACCCTAA
47562789 ACCCATAA
1 ACCC-TAA
* *
47562797 TCCATAA
1 ACCCTAA
* *
47562804 AACTTAA
1 ACCCTAA
* *
47562811 ACTCTAT
1 ACCCTAA
* *
47562818 ACCATAT
1 ACCCTAA
47562825 ACCCTAA
1 ACCCTAA
47562832 ACC
1 ACC
47562835 AAAAACCTTA
Statistics
Matches: 71, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
7 62 0.87
8 9 0.13
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:47562754 original size:14 final size:14
Alignment explanation
Indices: 47562737--47562847 Score: 96
Period size: 14 Copynumber: 7.9 Consensus size: 14
47562727 CTGTGACCCT
47562737 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
47562751 TAAACCTTAAACCA
1 TAAACCCTAAACCA
**
47562765 TAAACTGTAAACCA
1 TAAACCCTAAACCA
*
47562779 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * * *
47562794 TAATCCATAAAACT
1 TAAACCCTAAACCA
* *
47562808 TAAACTCTATACCA
1 TAAACCCTAAACCA
*
47562822 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
47562836 AAAACCTTAAAC
1 TAAACCCTAAAC
47562848 TATAGAGATA
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
14 62 0.84
15 12 0.16
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:47563213 original size:41 final size:41
Alignment explanation
Indices: 47563156--47563272 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 41
47563146 AATGTTTTTT
* *
47563156 CGGCGCTTTTACAAAAACGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
47563197 CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCCTGAGCATTAG
1 CGGCGCTTCTCCAAAAACGCCGCTAAAG-CCCTGAGCATTAG
47563239 CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGA
1 CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGA
47563273 AAGGTAAGAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
41 32 0.44
42 41 0.56
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.17
Consensus pattern (41 bp):
CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
Found at i:47564136 original size:19 final size:19
Alignment explanation
Indices: 47564112--47564205 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
47564102 AATCATATCT
47564112 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47564131 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47564150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* * *
47564169 TCTAAGATTACAAACCATA
1 TCTAAGATTGCATATCATA
47564188 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
47564206 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47564161 original size:38 final size:38
Alignment explanation
Indices: 47564089--47564205 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
47564079 AAATTAAATC
47564089 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-AAATCATA---TCTAAGATTGCATATCATA
*
47564131 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACAAATCATATCTAAGATTGCATATCATA
*
47564169 TCTAAGATTACAAACCATATCTAAGATTGCATATCAT
1 TCTAAGATTACAAATCATATCTAAGATTGCATATCAT
47564206 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 54 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (38 bp):
TCTAAGATTACAAATCATATCTAAGATTGCATATCATA
Found at i:47564466 original size:64 final size:64
Alignment explanation
Indices: 47564362--47564894 Score: 888
Period size: 64 Copynumber: 8.3 Consensus size: 64
47564352 ATTGGCCTAT
* * * ***
47564362 TACAATATCAATTCGGCAATAGGTATATACCCATACAATTCAATTCAG-CAATATATGTATACAT
1 TACAAT-TCAATTCGGCAATAGGTGTATACCTATACAATTCAATTC-GTCAATATAAGTATATGC
47564426 A
64 A
47564427 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
47564491 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
47564555 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
* * * * **
47564619 TACAATTCAATTCGGCAATAGTTGTATACTTATACAACTCAATTCATCAATATAAGTATATATA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
*
47564683 TACAATTCAATTCGGAAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
47564747 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
* ***
47564811 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATACATA
1 TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
47564875 TACAATTCAATTCGGCAATA
1 TACAATTCAATTCGGCAATA
47564895 TATAGCCATG
Statistics
Matches: 443, Mismatches: 24, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
63 1 0.00
64 436 0.98
65 6 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (64 bp):
TACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGTCAATATAAGTATATGCA
Found at i:47564895 original size:32 final size:32
Alignment explanation
Indices: 47564357--47564896 Score: 565
Period size: 32 Copynumber: 16.8 Consensus size: 32
47564347 GCTAAATTGG
47564357 CCTATTACAATATCAATTCGGCAATAGGT-A-TATA
1 CCTA-TACAAT-TCAATTCGGCAATA--TAAGTATA
* * *
47564391 CCCATACAATTCAATTCAGCAATATATGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* ***
47564423 CATATACAATTCAATTCGGCAATAGGTGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564455 CCTATACAATTCAATTCGTCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* ***
47564487 TGC-ATACAATTCAATTCGGCAATAGGTGTATA
1 -CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564519 CCTATACAATTCAATTCGTCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* ***
47564551 TGC-ATACAATTCAATTCGGCAATAGGTGTATA
1 -CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564583 CCTATACAATTCAATTCGTCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* *
47564615 TGC-ATACAATTCAATTCGGCAATAGT-TGTATA
1 -CCTATACAATTCAATTCGGCAATA-TAAGTATA
* * **
47564647 CTTATACAACTCAATTCATCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
** * ***
47564679 TATATACAATTCAATTCGGAAATAGGTGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564711 CCTATACAATTCAATTCGTCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* ***
47564743 TGC-ATACAATTCAATTCGGCAATAGGTGTATA
1 -CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564775 CCTATACAATTCAATTCGTCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
* ***
47564807 TGC-ATACAATTCAATTCGGCAATAGGTGTATA
1 -CCTATACAATTCAATTCGGCAATATAAGTATA
47564839 CCTATACAATTCAATTCGGCAATATAAGTATA
1 CCTATACAATTCAATTCGGCAATATAAGTATA
*
47564871 CATATACAATTCAATTCGGCAATATA
1 CCTATACAATTCAATTCGGCAATATA
47564897 TAGCCATGTA
Statistics
Matches: 414, Mismatches: 78, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.00
31 5 0.01
32 393 0.95
33 12 0.03
34 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
CCTATACAATTCAATTCGGCAATATAAGTATA
Found at i:47567104 original size:54 final size:55
Alignment explanation
Indices: 47567021--47567124 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 55
47567011 TCTACCACGG
*
47567021 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATTTTTTCCTTGA
1 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTCCTTGA
* * *
47567076 AGAAACTTTCAG-GATACTCGATCGCCAACTGTAAATTCAATATCTTTTC
1 AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTC
47567125 TTTTCAGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 33 0.73
55 12 0.27
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (55 bp):
AGAAACTTTCAGAAATACTCGATCACCAACTGCAAATTCAATATCTTTTCCTTGA
Found at i:47570004 original size:7 final size:7
Alignment explanation
Indices: 47569992--47570041 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
47569982 ACTCCAATTT
47569992 TTTAGGG
1 TTTAGGG
47569999 TTTAGGG
1 TTTAGGG
*
47570006 TTTAAGGT
1 TTT-AGGG
47570014 TTTAGGG
1 TTTAGGG
*
47570021 TTTATGG
1 TTTAGGG
*
47570028 TTTAAGG
1 TTTAGGG
47570035 TTTAGGG
1 TTTAGGG
47570042 ATCCCCCACG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:47570016 original size:22 final size:22
Alignment explanation
Indices: 47569991--47570041 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
47569981 AACTCCAATT
47569991 TTTTAGGGTTTAGGGTTTAAGG
1 TTTTAGGGTTTAGGGTTTAAGG
*
47570013 TTTTAGGGTTTATGGTTTAAGG
1 TTTTAGGGTTTAGGGTTTAAGG
47570035 -TTTAGGG
1 TTTTAGGG
47570042 ATCCCCCACG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (22 bp):
TTTTAGGGTTTAGGGTTTAAGG
Found at i:47570019 original size:15 final size:15
Alignment explanation
Indices: 47569999--47570030 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47569989 TTTTTTAGGG
47569999 TTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGGT
*
47570014 TTTAGGGTTTATGGT
1 TTTAGGGTTTAAGGT
47570029 TT
1 TT
47570031 AAGGTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAAGGT
Found at i:47572384 original size:39 final size:39
Alignment explanation
Indices: 47572327--47572446 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
47572317 TCCAATACAC
* *
47572327 CGGCACATAGCCTACTAGGCACTTAGCCCGAATAATCAT
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
* *
47572366 CGGCACAAAGCCTGCTAGGCAATTAGCCCGAATAATCAC
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
*
47572405 CGGCACAAAGCCTGCTAGGCACTTATCCCGAATAATCAT
1 CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
47572444 CGG
1 CGG
47572447 ATTTTTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (39 bp):
CGGCACAAAGCCTGCTAGGCACTTAGCCCGAATAATCAT
Found at i:47573934 original size:44 final size:44
Alignment explanation
Indices: 47573885--47573970 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
47573875 TATCAACATA
*
47573885 AATTTTCTTTCCATA-AGTATGTTTGGTAGGAAAGATGAAAAAAT
1 AATTTTCTTTCAATAGA-TATGTTTGGTAGGAAAGATGAAAAAAT
47573929 AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAA
1 AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAA
47573971 TAGAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (44 bp):
AATTTTCTTTCAATAGATATGTTTGGTAGGAAAGATGAAAAAAT
Found at i:47575159 original size:20 final size:20
Alignment explanation
Indices: 47575126--47575164 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47575116 AAGACTTCCA
47575126 AACATCTTACAAAATATTTTT
1 AACATCTTACAAAA-ATTTTT
*
47575147 AACA-CTTAGAAAAATTTT
1 AACATCTTACAAAAATTTT
47575165 GGACAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (20 bp):
AACATCTTACAAAAATTTTT
Found at i:47575299 original size:27 final size:27
Alignment explanation
Indices: 47575269--47575324 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
47575259 TTTCAAAAAG
47575269 TATGGATACCTATTGTATTTTTATCGA
1 TATGGATACCTATTGTATTTTTATCGA
*
47575296 TATGGATATCTATTGTATTTTTATCGA
1 TATGGATACCTATTGTATTTTTATCGA
47575323 TA
1 TA
47575325 CCATCTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (27 bp):
TATGGATACCTATTGTATTTTTATCGA
Found at i:47575863 original size:40 final size:38
Alignment explanation
Indices: 47575816--47575890 Score: 114
Period size: 40 Copynumber: 1.9 Consensus size: 38
47575806 ATTTGGATAA
*
47575816 AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCACTAAAAAT-AAGCATTACCGGCG-TTTTTGG
*
47575856 AAAACGCCGCTAAAAATAAGCATTACCGGCGTTTT
1 AAAACGCCACTAAAAATAAGCATTACCGGCGTTTT
47575891 CAAAAAAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 4 0.12
39 13 0.39
40 16 0.48
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (38 bp):
AAAACGCCACTAAAAATAAGCATTACCGGCGTTTTTGG
Found at i:47575904 original size:39 final size:40
Alignment explanation
Indices: 47575814--47575897 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
47575804 GCATTTGGAT
* * *
47575814 AAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTC
**
47575854 GGAAAACGCCGCTAAAAAT-AAGCATTACCGGCG-TTTTC
1 AAAAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTC
47575892 AAAAAA
1 AAAAAA
47575898 GTGCCGCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
38 8 0.22
39 13 0.35
40 16 0.43
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTC
Found at i:47575997 original size:41 final size:41
Alignment explanation
Indices: 47575940--47576019 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
47575930 TGAGTTTTTG
*
47575940 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
47575981 GGGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
47576020 CCGCTTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:47576417 original size:14 final size:14
Alignment explanation
Indices: 47576392--47576418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47576382 ATATATACAG
47576392 TTTAGGGTATATGA
1 TTTAGGGTATATGA
47576406 TTTAGGGTATATG
1 TTTAGGGTATATG
47576419 GTTAATTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTAGGGTATATGA
Found at i:47576498 original size:14 final size:15
Alignment explanation
Indices: 47576470--47576502 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
47576460 AAGATTTATA
47576470 GATTATGGAATTAGG
1 GATTATGGAATTAGG
47576485 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
47576499 GATT
1 GATT
47576503 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:47576750 original size:21 final size:22
Alignment explanation
Indices: 47576725--47576774 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
47576715 TAAGATTTAG
*
47576725 GGGTTAGTA-GTTAGGGGTTAA
1 GGGTTAGTATGTTAGAGGTTAA
*
47576746 GGGTTA-AATGTTAGAGGTTAA
1 GGGTTAGTATGTTAGAGGTTAA
*
47576767 GAGTTAGT
1 GGGTTAGT
47576775 GATCTAGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (22 bp):
GGGTTAGTATGTTAGAGGTTAA
Found at i:47581324 original size:43 final size:43
Alignment explanation
Indices: 47581264--47581354 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
47581254 CTTTGAGTTC
* * * *
47581264 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
47581306 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
47581349 ATTACC
1 ATTACC
47581355 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:47581749 original size:42 final size:42
Alignment explanation
Indices: 47581627--47581852 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 42
47581617 AAGATATATT
* ** * * *
47581627 TTTAGTGGCGTTTGTGTTAAAAGCGCCGCTAAAGCTCAAT-ATC
1 TTTAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTC-TTGGTC
47581670 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCTTGGTC
47581713 TTTAGCGGCGTTTGTGAGG-AAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCTTGGTC
* * * * *
47581755 TTTAGTGGCGTTTTTGGGGAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTTGGTC
* *
47581797 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTAGTC
1 TTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCTTGGTC
47581840 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
47581853 ATTTATAAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 75 0.47
43 82 0.51
44 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:47581981 original size:22 final size:21
Alignment explanation
Indices: 47581944--47581988 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
47581934 TTTAGTGGCG
* *
47581944 CTAAAAAACGCTGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
47581965 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
47581987 CT
1 CT
47581989 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:47582666 original size:19 final size:19
Alignment explanation
Indices: 47582642--47582680 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47582632 GTGTTTTGTA
47582642 TTTATGT-TGAATACATATT
1 TTTATGTGT-AATACATATT
*
47582661 TTTATGTGTTATACATATT
1 TTTATGTGTAATACATATT
47582680 T
1 T
47582681 GGTTGATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTATGTGTAATACATATT
Found at i:47583540 original size:20 final size:20
Alignment explanation
Indices: 47583510--47583547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47583500 TATGAATGAC
47583510 ATTTGAATTTGATTATTTGTT
1 ATTTGAATTTGA-TATTTGTT
47583531 ATTT-AATTTGATATTTG
1 ATTTGAATTTGATATTTG
47583548 GATGGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTGAATTTGATATTTGTT
Found at i:47584371 original size:102 final size:102
Alignment explanation
Indices: 47584183--47584379 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 102
47584173 ATTTTTAACT
* * **
47584183 AATTTGCATGAAATAATAGTAATGGAAATATTACCAAAAAAAAATATTAAGTTAGTTTGTTATTG
1 AATTTGCATGAAATAATAGTAATCGAAATATTA-CAAAAAAAAATATAAAACTAGTTTGTTATTG
* *
47584248 GACATTCTAACGTAAGTCAACTGCAAATTAAATTTATA
65 GACATTCTAACATAAGTCAACTACAAATTAAATTTATA
* * *
47584286 AATTTGCATGAAATAATAGTAATCGAAATATTA-AAAAAGAAGTCATAAAACTGGTTTGTTATTG
1 AATTTGCATGAAATAATAGTAATCGAAATATTACAAAAAAAAAT-ATAAAACTAGTTTGTTATTG
47584350 GACATTCTAACATAAGTCAACTACAAATTA
65 GACATTCTAACATAAGTCAACTACAAATTA
47584380 GATATGTAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 8 0.10
102 44 0.52
103 32 0.38
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (102 bp):
AATTTGCATGAAATAATAGTAATCGAAATATTACAAAAAAAAATATAAAACTAGTTTGTTATTGG
ACATTCTAACATAAGTCAACTACAAATTAAATTTATA
Found at i:47587101 original size:21 final size:21
Alignment explanation
Indices: 47587076--47587115 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
47587066 GAAAGAGAAG
47587076 AAAATTATTGGATTAGACATA
1 AAAATTATTGGATTAGACATA
47587097 AAAATTATTGGATTAGACA
1 AAAATTATTGGATTAGACA
47587116 CATTTTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAATTATTGGATTAGACATA
Found at i:47587382 original size:18 final size:19
Alignment explanation
Indices: 47587345--47587381 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47587335 TTGGTGGGAA
47587345 TATAAAT-TTTAGAGTTTT
1 TATAAATATTTAGAGTTTT
*
47587363 TATAAATATTTTGAGTTTT
1 TATAAATATTTAGAGTTTT
47587382 AAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAGTTTT
Found at i:47587387 original size:18 final size:20
Alignment explanation
Indices: 47587350--47587388 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47587340 GGGAATATAA
*
47587350 ATTTTAGAGTTTTTATAAAT
1 ATTTTAGAGTTTTTAAAAAT
47587370 ATTTT-GAG-TTTTAAAAAT
1 ATTTTAGAGTTTTTAAAAAT
47587388 A
1 A
47587389 ACATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTTTAGAGTTTTTAAAAAT
Found at i:47591512 original size:27 final size:26
Alignment explanation
Indices: 47591467--47591815 Score: 232
Period size: 27 Copynumber: 13.0 Consensus size: 26
47591457 AAAGTCATGA
* *
47591467 ACCGAAATACCTTCGATGGGTAAAATT
1 ACCGAAATACCCT-AATGGGTAAAATT
** *
47591494 ATTGAAATACCCCTAATGGGTATAATT
1 ACCGAAATA-CCCTAATGGGTAAAATT
* * *
47591521 ACTGGAATACCCTTAATAGGTAAAATT
1 ACCGAAATACCC-TAATGGGTAAAATT
* ** *
47591548 ACTGAAATACCCCCGATGGGTATAATT
1 ACCGAAATA-CCCTAATGGGTAAAATT
* * * *
47591575 ATCAAAATGCCCCTAATAGGTAAAATT
1 ACCGAAAT-ACCCTAATGGGTAAAATT
*
47591602 ACCGAAATACCCTCGATGGGTAAAATT
1 ACCGAAATACCCT-AATGGGTAAAATT
* * * * *
47591629 ATCAAAATACCCTCGATAGATAAAATT
1 ACCGAAATACCCT-AATGGGTAAAATT
* * *
47591656 ATCGAAATACCCCCAATAGGTAAAATT
1 ACCGAAATA-CCCTAATGGGTAAAATT
** *
47591683 ATAGAAATACCCTCATAGGGTAAAATT
1 ACCGAAATACCCTAAT-GGGTAAAATT
** *
47591710 ACTAAAATACCCTCGATGGGTAAAATT
1 ACCGAAATACCCT-AATGGGTAAAATT
** * *
47591737 ACAAAAATACCCTCAATAGATAAAATT
1 ACCGAAATACCCT-AATGGGTAAAATT
* *
47591764 ACTGAAATACCCTGATGGGTAAAATT
1 ACCGAAATACCCTAATGGGTAAAATT
*
47591790 ATCGAAATACCCTTATAT-GGTAAAAT
1 ACCGAAATACCC-TA-ATGGGTAAAAT
47591816 GACTGTTATA
Statistics
Matches: 257, Mismatches: 55, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 32 0.12
27 212 0.82
28 13 0.05
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (26 bp):
ACCGAAATACCCTAATGGGTAAAATT
Found at i:47591554 original size:54 final size:53
Alignment explanation
Indices: 47591485--47591820 Score: 333
Period size: 54 Copynumber: 6.2 Consensus size: 53
47591475 ACCTTCGATG
* * * **
47591485 GGTAAAATTATTGAAATACCCCTAATGGGTATAATTA-CTGGAATACCCTTAATA
1 GGTAAAATTACTGAAATA-CCCTGATGGGTAAAATTATC-AAAATACCCTTAATA
* * * *
47591539 GGTAAAATTACTGAAATACCCCCGATGGGTATAATTATCAAAATGCCCCTAATA
1 GGTAAAATTACTGAAATA-CCCTGATGGGTAAAATTATCAAAATACCCTTAATA
* **
47591593 GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTATCAAAATACCCTCGATA
1 GGTAAAATTACTGAAATACCCT-GATGGGTAAAATTATCAAAATACCCTTAATA
* ** * *
47591647 GATAAAATTA-TCGAAATACCCCCAATAGGTAAAATTAT-AGAAATACCC-TCATA
1 GGTAAAATTACT-GAAATA-CCCTGATGGGTAAAATTATCA-AAATACCCTTAATA
* *
47591700 GGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTA-CAAAAATACCCTCAATA
1 -GGTAAAATTACTGAAATACCCT-GATGGGTAAAATTATC-AAAATACCCTTAATA
* *
47591755 GATAAAATTACTGAAATACCCTGATGGGTAAAATTATCGAAATACCCTT-ATA
1 GGTAAAATTACTGAAATACCCTGATGGGTAAAATTATCAAAATACCCTTAATA
*
47591807 TGGTAAAATGACTG
1 -GGTAAAATTACTG
47591821 TTATATCCCT
Statistics
Matches: 235, Mismatches: 34, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
52 3 0.01
53 44 0.19
54 179 0.76
55 9 0.04
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (53 bp):
GGTAAAATTACTGAAATACCCTGATGGGTAAAATTATCAAAATACCCTTAATA
Found at i:47591611 original size:81 final size:80
Alignment explanation
Indices: 47591469--47591802 Score: 372
Period size: 81 Copynumber: 4.1 Consensus size: 80
47591459 AGTCATGAAC
* ** * * *
47591469 CGAAATACCTTCGATGGGTAAAATTATTGAAATACCCCTAATGGGTATAATTACTGGAATACCCT
1 CGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCTAATAGGTAAAATTACTGAAATACCC-
*
47591534 TAATAGGTAAAATTA-
65 TGATAGGTAAAATTAT
* * * *
47591549 CTGAAATACCCCCGATGGGTATAATTATCAAAATGCCCCTAATAGGTAAAATTACCGAAATACCC
1 C-GAAATACCCTCGATGGGTAAAATTATCAAAATACCCCTAATAGGTAAAATTACTGAAATACCC
*
47591614 TCGATGGGTAAAATTAT
65 T-GATAGGTAAAATTAT
* * * * *
47591631 CAAAATACCCTCGATAGATAAAATTATCGAAATACCCCCAATAGGTAAAATTA-TAGAAATACCC
1 CGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCTAATAGGTAAAATTACT-GAAATACCC
*
47591695 TCATAGGGTAAAATTA-
65 TGATA-GGTAAAATTAT
* *
47591711 CTAAAATACCCTCGATGGGTAAAATTA-CAAAAATA-CCCTCAATAGATAAAATTACTGAAATAC
1 C-GAAATACCCTCGATGGGTAAAATTATC-AAAATACCCCT-AATAGGTAAAATTACTGAAATAC
*
47591774 CCTGATGGGTAAAATTAT
63 CCTGATAGGTAAAATTAT
47591792 CGAAATACCCT
1 CGAAATACCCT
47591803 TATATGGTAA
Statistics
Matches: 213, Mismatches: 31, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
80 28 0.13
81 183 0.86
82 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (80 bp):
CGAAATACCCTCGATGGGTAAAATTATCAAAATACCCCTAATAGGTAAAATTACTGAAATACCCT
GATAGGTAAAATTAT
Found at i:47591994 original size:27 final size:26
Alignment explanation
Indices: 47591957--47592053 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
47591947 AGGGGAAATG
**
47591957 TACTG-TACTGGTGGCTTTACCACATA
1 TACTGTTACTGGCAGCTTTACCACA-A
**
47591983 TACTGTTACTGGCAGCTTTACTGCAA
1 TACTGTTACTGGCAGCTTTACCACAA
* * * * * *
47592009 TACTGTTACCGACAGCTCTGCTACGA
1 TACTGTTACTGGCAGCTTTACCACAA
*
47592035 TACTGTTACTGGTAGCTTT
1 TACTGTTACTGGCAGCTTT
47592054 GCTGCATTAT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 41 0.73
27 15 0.27
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTACCACAA
Found at i:47592011 original size:26 final size:26
Alignment explanation
Indices: 47591982--47592084 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
47591972 TTTACCACAT
*
47591982 ATACTGTTACTGGCAGCTTTACTGCA
1 ATACTGTTACTGGCAGCTTTGCTGCA
* * * * *
47592008 ATACTGTTACCGACAGCTCTGCTACG
1 ATACTGTTACTGGCAGCTTTGCTGCA
*
47592034 ATACTGTTACTGGTAGCTTTGCTGCA
1 ATACTGTTACTGGCAGCTTTGCTGCA
* * *
47592060 TTA-TAATTACTGGCAGCTATGCTGC
1 ATACT-GTTACTGGCAGCTTTGCTGC
47592085 GAATTGGTGT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
25 1 0.02
26 59 0.98
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCA
Found at i:47592077 original size:52 final size:52
Alignment explanation
Indices: 47591982--47592082 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
47591972 TTTACCACAT
* *
47591982 ATACTGTTACTGGCAGCTTTACTGCAATACTGTTACCGACAGCTCTGCTACG
1 ATACTGTTACTGGCAGCTTTACTGCAATACTATTACCGACAGCTATGCTACG
* * * * *
47592034 ATACTGTTACTGGTAGCTTTGCTGCATTA-TAATTACTGGCAGCTATGCT
1 ATACTGTTACTGGCAGCTTTACTGCAATACT-ATTACCGACAGCTATGCT
47592083 GCGAATTGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.02
52 40 0.98
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (52 bp):
ATACTGTTACTGGCAGCTTTACTGCAATACTATTACCGACAGCTATGCTACG
Found at i:47596305 original size:21 final size:22
Alignment explanation
Indices: 47596281--47596326 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
47596271 GTTGTTAAAA
*
47596281 TTTTTATAATTTGTATTTA-CT
1 TTTTTATAATTTATATTTATCT
*
47596302 TTTTTATACTTTATATTTATCT
1 TTTTTATAATTTATATTTATCT
47596324 TTT
1 TTT
47596327 CTCATTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTATAATTTATATTTATCT
Found at i:47599282 original size:19 final size:20
Alignment explanation
Indices: 47599247--47599285 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
47599237 AATACATGTG
47599247 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
*
47599267 TAATAATGAA-ATATGTATT
1 TAATAATAAACATATGTATT
47599286 GCTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:47600350 original size:41 final size:38
Alignment explanation
Indices: 47600286--47600425 Score: 113
Period size: 40 Copynumber: 3.6 Consensus size: 38
47600276 TGACTTTGAG
*
47600286 TCGATGAGACACTAGGTGTCAATTTATTACTTCGGATTAA
1 TCGATGAGACACTAGGTGCCAA-TTATTACTTCGGATT-A
* * *
47600326 TTCGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTA
1 -TCGATGAGACACTAGGTGCCAATTATTACTTCGGATTA
* * * * *
47600363 GCCGATGAAACACTGGGTGTCAAATTATTACTTCGAATTA
1 -TCGATGAGACACTAGGTG-CCAATTATTACTTCGGATTA
* *
47600403 TCTGATGAGGCACTAGGTACCAA
1 TC-GATGAGACACTAGGTGCCAA
47600426 ACTAGTGTGT
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
37 16 0.21
38 14 0.18
39 6 0.08
40 23 0.29
41 19 0.24
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (38 bp):
TCGATGAGACACTAGGTGCCAATTATTACTTCGGATTA
Found at i:47600726 original size:9 final size:9
Alignment explanation
Indices: 47600712--47600742 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47600702 GTTAAACGAA
47600712 TCGAGTTAT
1 TCGAGTTAT
*
47600721 TCGAGTTAA
1 TCGAGTTAT
47600730 TCGAGTTAT
1 TCGAGTTAT
47600739 TCGA
1 TCGA
47600743 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47600813 original size:9 final size:9
Alignment explanation
Indices: 47600796--47600832 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47600786 TGAGTTTTCG
47600796 AATTCGAAT
1 AATTCGAAT
*
47600805 AACTCGAAT
1 AATTCGAAT
47600814 AATTCGAAT
1 AATTCGAAT
47600823 AATTCGAAT
1 AATTCGAAT
47600832 A
1 A
47600833 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47600909 original size:21 final size:21
Alignment explanation
Indices: 47600868--47600910 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47600858 ACCCCAAACT
* *
47600868 CTCAAACATTTTTACTTTTCC
1 CTCAAACACTTTTACTATTCC
47600889 CTCAAA-ACTTTTACTCATTCC
1 CTCAAACACTTTTACT-ATTCC
47600910 C
1 C
47600911 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAACACTTTTACTATTCC
Found at i:47603206 original size:25 final size:27
Alignment explanation
Indices: 47603177--47603230 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
47603167 TTTTTGAAAT
47603177 ATTAAATA-TTA-AATTTTAGTCACTC
1 ATTAAATATTTATAATTTTAGTCACTC
47603202 ATTAAATATTTTATAATTTTAGTCACTC
1 ATTAAATA-TTTATAATTTTAGTCACTC
47603230 A
1 A
47603231 ACTATCCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.31
27 3 0.12
28 15 0.58
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTAAATATTTATAATTTTAGTCACTC
Found at i:47605206 original size:3 final size:3
Alignment explanation
Indices: 47605198--47605231 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
47605188 TACTAGAATA
*
47605198 TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47605232 TTGCTTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47610080 original size:15 final size:15
Alignment explanation
Indices: 47610060--47610089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47610050 TTAGATGAGA
47610060 TTTTTCTTCTACTTC
1 TTTTTCTTCTACTTC
*
47610075 TTTTTCTTCTTCTTC
1 TTTTTCTTCTACTTC
47610090 AAATTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTCTTCTACTTC
Found at i:47615641 original size:31 final size:31
Alignment explanation
Indices: 47615603--47615664 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
47615593 TTCAGTCAAT
*
47615603 TTGAGAATTGCTGAGCATGTTCCTCGCAGGA
1 TTGAGAATTGCGGAGCATGTTCCTCGCAGGA
47615634 TTGAGAATTGCGGAGCATGTTCCTCGCAGGA
1 TTGAGAATTGCGGAGCATGTTCCTCGCAGGA
47615665 ATACACTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (31 bp):
TTGAGAATTGCGGAGCATGTTCCTCGCAGGA
Found at i:47621427 original size:126 final size:125
Alignment explanation
Indices: 47621202--47621546 Score: 469
Period size: 126 Copynumber: 2.8 Consensus size: 125
47621192 CGAGTTGATG
** * *
47621202 TTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGATATTCGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * * *
47621267 TGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTTTTGACA
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAA-AATTTTTTTAACA
* *
47621328 TTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTG
1 TTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * * *
47621393 CGGCCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAAAATTTTTTTAACG
66 CGGCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAAATTTTTTTAACA
* * * * *
47621453 TTTTTGAGCAAATAATATAAAATCGTTTATACCAGGATGCTATCTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* *
47621518 C-GCCCCGTGGACGCGATTTTGCTACAGTA
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTA
47621547 ACATGTTTGG
Statistics
Matches: 193, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
124 23 0.12
125 71 0.37
126 99 0.51
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAAAATTTTTTTAACA
Found at i:47624780 original size:116 final size:116
Alignment explanation
Indices: 47624576--47625141 Score: 1053
Period size: 116 Copynumber: 4.9 Consensus size: 116
47624566 TGATAAATTG
47624576 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
47624641 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
47624692 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
47624757 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
47624808 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
47624873 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
47624924 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
47624989 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
47625040 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAAT-GTAAAATTATTATTTG
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAG-ACAATTATTAATTG
* * * *
47625104 ATAGTACCAGTCAAAATATTTTTCCAAATCTACCATTA
65 TTAGTACCACTCAAAACATTTTTCCAAATCTAACATTA
47625142 CGTTAAGGTT
Statistics
Matches: 442, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
115 1 0.00
116 441 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAGACAATTATTAATTGT
TAGTACCACTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:47625243 original size:45 final size:44
Alignment explanation
Indices: 47625177--47625465 Score: 362
Period size: 45 Copynumber: 6.2 Consensus size: 44
47625167 ATTGGGTTAG
47625177 GGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATTAAATTA
* *
47625221 GGTTAGGGTTTTTAATTTAAGGGTTTAGAGTTTTTAATTGAATTAGGTTA
1 GGTTAGGGTTTTTAA-TTAAGGGTTTAGGGCTTTTAATT-AA--A--TTA
*
47625271 GGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATTAAATTA
* *
47625316 GGTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATTAGGTTA
1 GGTTAGGGTTTTTAA-TTAAGGGTTTAGGGCTTTTAATT-AA--A--TTA
*
47625366 GGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATTAAATTA
* * *
47625411 GGTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTGAATTA
1 GGTTAGGGTTTTTAA-TTAAGGGTTTAGGGCTTTTAATTAAATTA
47625456 GGTTAGGGTT
1 GGTTAGGGTT
47625466 AGTGATACGA
Statistics
Matches: 214, Mismatches: 16, Indels: 29
0.83 0.06 0.11
Matches are distributed among these distances:
44 43 0.20
45 83 0.39
46 4 0.02
47 2 0.01
48 2 0.01
49 4 0.02
50 47 0.22
51 29 0.14
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (44 bp):
GGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATTAAATTA
Found at i:47625318 original size:95 final size:95
Alignment explanation
Indices: 47625150--47625467 Score: 600
Period size: 95 Copynumber: 3.3 Consensus size: 95
47625140 TACGTTAAGG
* *
47625150 TTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAGGGCTTTTAATT
1 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
*
47625215 AAATTAGGTTAGGGTTTTTAATTTAAGGGT
66 AAATTAGGTTAGAGTTTTTAATTTAAGGGT
*
47625245 TTAGAGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
1 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
47625310 AAATTAGGTTAGAGTTTTTAATTTAAGGGT
66 AAATTAGGTTAGAGTTTTTAATTTAAGGGT
47625340 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
1 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
47625405 AAATTAGGTTAGAGTTTTTAATTTAAGGGT
66 AAATTAGGTTAGAGTTTTTAATTTAAGGGT
47625435 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAG
1 TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAG
47625468 TGATACGAGT
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 218 1.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (95 bp):
TTAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATTAAGGGTTTAAGGCTTTTAATT
AAATTAGGTTAGAGTTTTTAATTTAAGGGT
Found at i:47626536 original size:45 final size:45
Alignment explanation
Indices: 47626449--47626693 Score: 341
Period size: 45 Copynumber: 5.4 Consensus size: 45
47626439 CCCCGTATCA
* *
47626449 GTTAGGGTTTTTAA-TTAAGGGTTTAAGGCTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
*
47626493 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTGATTGAATTAGGTTAGG
1 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATT-AA--A--TTA-G
* *
47626544 GTTAGGGCTTTTAATTTAA-GGTTTAGGGCTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
47626588 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
* * *
47626633 GTTAGAGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
*
47626678 GCTAGGGTTTTTAATT
1 GTTAGGGTTTTTAATT
47626694 AAATTAGGCT
Statistics
Matches: 179, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
44 33 0.18
45 102 0.57
46 2 0.01
47 1 0.01
48 1 0.01
49 2 0.01
50 19 0.11
51 19 0.11
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.47
Consensus pattern (45 bp):
GTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAG
Found at i:47626612 original size:95 final size:89
Alignment explanation
Indices: 47626449--47626693 Score: 348
Period size: 95 Copynumber: 2.7 Consensus size: 89
47626439 CCCCGTATCA
*
47626449 GTTAGGGTTTTTAA-TTAAGGGTTTAAGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAG
1 GTTAGGGTTTTTAATTTAA-GGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAG
*
47626513 GGTTTAGGGTTTTTGATTGAATTAGGTTAGG
65 GGTTTAGGGTTTTTAATT-AA--A--TTA-G
*
47626544 GTTAGGGCTTTTAATTTAAGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGG
1 GTTAGGGTTTTTAATTTAAGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGG
47626609 GTTTAGGGTTTTTAATTAAATTAG
66 GTTTAGGGTTTTTAATTAAATTAG
* * * *
47626633 GTTAGAGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATT
1 GTTAGGGTTTTTAA-TTTAAGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATT
47626694 AAATTAGGCT
Statistics
Matches: 140, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
89 13 0.09
90 46 0.33
92 1 0.01
94 2 0.01
95 74 0.53
96 4 0.03
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.47
Consensus pattern (89 bp):
GTTAGGGTTTTTAATTTAAGGTTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGG
GTTTAGGGTTTTTAATTAAATTAG
Found at i:47627246 original size:18 final size:18
Alignment explanation
Indices: 47627223--47627262 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
47627213 GACTCGAAAA
47627223 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
47627241 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
47627259 AGGA
1 AGGA
47627263 AACGCACCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:47627924 original size:7 final size:7
Alignment explanation
Indices: 47627914--47627938 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47627904 ATACATACAT
47627914 AATACTA
1 AATACTA
47627921 AATACTA
1 AATACTA
47627928 AATACTA
1 AATACTA
47627935 AATA
1 AATA
47627939 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:47629141 original size:40 final size:40
Alignment explanation
Indices: 47629097--47629184 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
47629087 AAATTGAGAA
* *
47629097 GAAATTGAAATTAAATATGGATTTGAGAGAATTTTTGAAG
1 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
47629137 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
1 GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
47629177 GAAATTGA
1 GAAATTGA
47629185 GAGAATTTTG
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:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (40 bp):
GAAATTGAAATTAAATATAGATTTGAGAGAATTTTGGAAG
Found at i:47629184 original size:22 final size:22
Alignment explanation
Indices: 47629159--47629209 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
47629149 AAATATAGAT
47629159 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
47629181 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
47629203 TTGAGAG
1 TTGAGAG
47629210 GAAATNATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:47629534 original size:9 final size:9
Alignment explanation
Indices: 47629493--47629758 Score: 161
Period size: 9 Copynumber: 29.0 Consensus size: 9
47629483 TAAGTATAAT
47629493 TAAGTTATG
1 TAAGTTATG
*
47629502 TAACTTATG
1 TAAGTTATG
* *
47629511 TAAGTTCTC
1 TAAGTTATG
*
47629520 TGAGTTATG
1 TAAGTTATG
47629529 TAAGTTATG
1 TAAGTTATG
* *
47629538 ATATGATATATA
1 -TAAG-T-TATG
47629550 TAAGTTAT-
1 TAAGTTATG
47629558 TAAGTTATG
1 TAAGTTATG
47629567 TAAGTTATG
1 TAAGTTATG
*
47629576 TGAGTTATG
1 TAAGTTATG
*
47629585 TAAATTATAG
1 TAAGTTAT-G
* *
47629595 TATGATATATA
1 TAAG-T-TATG
47629606 TAAGTTAT-
1 TAAGTTATG
47629614 TAAG---T-
1 TAAGTTATG
47629619 TAAGTTATG
1 TAAGTTATG
* *
47629628 TGAGTTATTT
1 TAAGTTA-TG
47629638 TAAGTTATGG
1 TAAGTTAT-G
* *
47629648 TATGATATATA
1 TAAG-T-TATG
47629659 TAAGTTAT-
1 TAAGTTATG
*
47629667 TAAGTTAAG
1 TAAGTTATG
47629676 TAAGTTATG
1 TAAGTTATG
* *
47629685 TGAGTTATT
1 TAAGTTATG
47629694 TAAGTTATGG
1 TAAGTTAT-G
* *
47629704 TATGATATATA
1 TAAG-T-TATG
47629715 TAAGTTAT-
1 TAAGTTATG
*
47629723 TAAGTTAAG
1 TAAGTTATG
47629732 TAAGTTATG
1 TAAGTTATG
* *
47629741 TGAGTTATT
1 TAAGTTATG
47629750 TAAGTTATG
1 TAAGTTATG
47629759 GTATGATATA
Statistics
Matches: 197, Mismatches: 40, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
5 5 0.03
8 27 0.14
9 114 0.58
10 23 0.12
11 16 0.08
12 12 0.06
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:47629580 original size:56 final size:56
Alignment explanation
Indices: 47629493--47629769 Score: 418
Period size: 56 Copynumber: 5.0 Consensus size: 56
47629483 TAAGTATAAT
* * * * *
47629493 TAAGTTATGTAACTTATGTAAGTTCTCTGAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTAT-TAAGTTATGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
* * *
47629550 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATAGTATGATATATA
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
47629606 TAAGTTATTAAG---T-TAAGTTATGTGAGTTATTTTAAGTTATGGTATGATATATA
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTA-TTTAAGTTATGGTATGATATATA
*
47629659 TAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
*
47629715 TAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATAT
1 TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATAT
47629770 GTAATAACCC
Statistics
Matches: 205, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
52 16 0.08
53 33 0.16
56 132 0.64
57 24 0.12
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (56 bp):
TAAGTTATTAAGTTATGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
Found at i:47629656 original size:109 final size:110
Alignment explanation
Indices: 47629493--47629769 Score: 405
Period size: 109 Copynumber: 2.5 Consensus size: 110
47629483 TAAGTATAAT
* * * * *
47629493 TAAGTTATGTAACTTATGTAAGTTCTCTGAGTTATGTAAGTTATGATATGATATATATAAGTTAT
1 TAAGTTAT-TAAGTTA--TAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTAT
*
47629558 TAAGTTATGTAAGTTATGTGAGTTATGTAAATTATAGTATGATATATA
63 TAAGTTAAGTAAGTTATGTGAGTTATGTAAATTATAGTATGATATATA
47629606 TAAGTTATTAAG-T-TAAGTTATGTGAGTTATTTTAAGTTATGGTATGATATATATAAGTTATTA
1 TAAGTTATTAAGTTATAAGTTATGTGAGTTA-TTTAAGTTATGGTATGATATATATAAGTTATTA
* * *
47629669 AGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATA
65 AGTTAAGTAAGTTATGTGAGTTATGTAAATTATAGTATGATATATA
47629715 TAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATAT
1 TAAGTTATTAAGTT-A-TAAGTTATGTGAGTTATTTAAGTTATGGTATGATATAT
47629770 GTAATAACCC
Statistics
Matches: 150, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
108 14 0.09
109 85 0.57
110 1 0.01
111 1 0.01
112 25 0.17
113 24 0.16
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (110 bp):
TAAGTTATTAAGTTATAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATTAA
GTTAAGTAAGTTATGTGAGTTATGTAAATTATAGTATGATATATA
Found at i:47635093 original size:15 final size:15
Alignment explanation
Indices: 47635073--47635102 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47635063 TTTTTTTGGC
*
47635073 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
47635088 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
47635103 TTTACCCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:47636184 original size:19 final size:19
Alignment explanation
Indices: 47636160--47636196 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47636150 GCATGACCTC
47636160 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
47636179 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
47636197 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:47638070 original size:117 final size:122
Alignment explanation
Indices: 47637834--47638121 Score: 435
Period size: 117 Copynumber: 2.4 Consensus size: 122
47637824 TAGTATGATG
* **
47637834 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
47637899 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
47637955 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATA-TTT-TA-TA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
47638015 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
47638073 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
47638122 ATATGATTAA
Statistics
Matches: 151, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
117 53 0.35
118 3 0.02
119 48 0.32
120 47 0.31
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:47638100 original size:18 final size:19
Alignment explanation
Indices: 47638065--47638101 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47638055 ATTATTAAGA
47638065 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
47638084 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
47638102 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:47638115 original size:56 final size:55
Alignment explanation
Indices: 47637940--47638115 Score: 151
Period size: 63 Copynumber: 3.1 Consensus size: 55
47637930 GAATATTTAA
*
47637940 TATTAAGAATTTTA-TTAAATCATATATTTTAATTAAAATATATTTAATATTAAT
1 TATTAAGAATTTTATTTAAATCATATATTTTAATTAAAATATATTTAATAATAAT
* * * * * * *
47637994 TATTTCA-AATTATATTTTATATCATATATTATGATTTGAGTAAAT-TCATATAAGAATATTGAT
1 TA-TTAAGAATTTTA-TTTAAATCATATATT-TTAATT-A--AAATAT-ATTTAATAATA---AT
*
47638057 TATTAAGAATTTTATTATAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TATTAAGAATTTTATT-TAAATCATATATTTTAATTAAAATATATTTAATAATAAT
47638113 TAT
1 TAT
47638116 GTTAAAATAT
Statistics
Matches: 92, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
54 8 0.09
55 3 0.03
56 18 0.20
57 4 0.04
58 1 0.01
59 14 0.15
60 13 0.14
61 1 0.01
62 9 0.10
63 21 0.23
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (55 bp):
TATTAAGAATTTTATTTAAATCATATATTTTAATTAAAATATATTTAATAATAAT
Found at i:47638331 original size:44 final size:45
Alignment explanation
Indices: 47638266--47638356 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47638256 ACCTCTATTC
* * *
47638266 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
47638310 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
47638355 CA
1 CA
47638357 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:47638358 original size:16 final size:16
Alignment explanation
Indices: 47638337--47638405 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
47638327 GATTAGCTAT
47638337 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47638353 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
47638370 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
47638386 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47638402 TACA
1 TACA
47638406 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47638382 original size:33 final size:32
Alignment explanation
Indices: 47638337--47638405 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
47638327 GATTAGCTAT
47638337 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
47638370 TACACCTTTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
47638402 TACA
1 TACA
47638406 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:47638931 original size:25 final size:25
Alignment explanation
Indices: 47638898--47638953 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
47638888 TTAATACATC
*
47638898 AAATATTAATAGTAAATTATTTAGTA
1 AAAT-TTAATAGTAAATTATTTAATA
**
47638924 AAATTTAATCTTAAATTATTTAATA
1 AAATTTAATAGTAAATTATTTAATA
47638949 AAATT
1 AAATT
47638954 ACGAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATTTAATAGTAAATTATTTAATA
Found at i:47639842 original size:17 final size:17
Alignment explanation
Indices: 47639813--47639855 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
47639803 TTCGAATTTT
* *
47639813 TTTC-ATTTGAATTTGA
1 TTTCAATTTTAATTTCA
47639829 TTTCAATTTTAATTTCA
1 TTTCAATTTTAATTTCA
*
47639846 TTTCACTTTT
1 TTTCAATTTT
47639856 TTTTCTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTCAATTTTAATTTCA
Found at i:47640026 original size:108 final size:115
Alignment explanation
Indices: 47639903--47640179 Score: 379
Period size: 108 Copynumber: 2.4 Consensus size: 115
47639893 TGTTGAATTA
*
47639903 AATTTTTATTTATATATTTAAATTATAATTTAATAAATATTGCTTTAAATTGATATTTTATTTGA
1 AATTTTTATTTATATATTTAAATTGTAATTTAATAAATATTGCTTTAAATTGATATTTTATTTGA
*
47639968 ATTTCATTTCAA-TTC-AA-TGT-A-ATT-TTT-AAATAAATTTTATTTG
66 ATTTCATTTCAATTTCAAATTGTCATATTATTTCAAATAAAGTTTATTTG
47640011 AATTTTTATTTATATATTTAAATTGTAATTTAATAAATATTGCTTTAAATTGATATTTTATTTGA
1 AATTTTTATTTATATATTTAAATTGTAATTTAATAAATATTGCTTTAAATTGATATTTTATTTGA
* * *
47640076 ATTTTATTTCAATTTCAAATTTTCATTTCATTGGAACTTTCAATTAAAGTTTATTTG
66 ATTTCATTTCAATTTCAAATTGTCA--T-ATT---A-TTTCAAATAAAGTTTATTTG
* *
47640133 AATTTTTATTTATATATTAAAATTGTAATTTAATAAACATTGCTTTA
1 AATTTTTATTTATATATTTAAATTGTAATTTAATAAATATTGCTTTA
47640180 TTTGAAATTA
Statistics
Matches: 148, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
108 75 0.51
109 3 0.02
110 2 0.01
111 2 0.01
112 1 0.01
116 3 0.02
121 3 0.02
122 59 0.40
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (115 bp):
AATTTTTATTTATATATTTAAATTGTAATTTAATAAATATTGCTTTAAATTGATATTTTATTTGA
ATTTCATTTCAATTTCAAATTGTCATATTATTTCAAATAAAGTTTATTTG
Found at i:47642825 original size:17 final size:17
Alignment explanation
Indices: 47642796--47642838 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
47642786 TTCGAATTTT
* *
47642796 TTTC-ATTTGAATTTGA
1 TTTCAATTTTAATTTCA
47642812 TTTCAATTTTAATTTCA
1 TTTCAATTTTAATTTCA
*
47642829 TTTCACTTTT
1 TTTCAATTTT
47642839 TTTTCTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTCAATTTTAATTTCA
Found at i:47643047 original size:35 final size:36
Alignment explanation
Indices: 47643005--47643110 Score: 130
Period size: 35 Copynumber: 3.0 Consensus size: 36
47642995 ATTTTTATTT
47643005 ATATATTTAAATTGTAATTTAATAAATATTGCTTTC
1 ATATATTTAAATTGTAATTTAATAAATATTGCTTTC
* * *
47643041 -TTTATTTAAATTAT-ATTTATTATAAAT-TT-TTATTC
1 ATATATTTAAATTGTAATTTA--ATAAATATTGCT-TTC
47643076 ATATATTTAAATTGTAATTTAATAAATATTGCTTT
1 ATATATTTAAATTGTAATTTAATAAATATTGCTTT
47643111 AAATTGATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
34 6 0.11
35 23 0.40
36 22 0.39
37 6 0.11
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (36 bp):
ATATATTTAAATTGTAATTTAATAAATATTGCTTTC
Found at i:47643083 original size:36 final size:37
Alignment explanation
Indices: 47642986--47643096 Score: 108
Period size: 36 Copynumber: 3.1 Consensus size: 37
47642976 TTAAATAAAT
* * *
47642986 TTTATT-TGAATTTTTATTTATATATTTAAATTGTAA
1 TTTATTATAAATTTTTATTCATATATTTAAATTATAA
* *
47643022 TTTA--ATAAATATTGCT-TTC-TTTATTTAAATTAT-A
1 TTTATTATAAAT-TT-TTATTCATATATTTAAATTATAA
*
47643056 TTTATTATAAATTTTTATTCATATATTTAAATTGTAA
1 TTTATTATAAATTTTTATTCATATATTTAAATTATAA
47643093 TTTA
1 TTTA
47643097 ATAAATATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
34 6 0.10
35 21 0.36
36 26 0.44
37 6 0.10
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (37 bp):
TTTATTATAAATTTTTATTCATATATTTAAATTATAA
Done.