Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 401 of 438
Found at i:125031541 original size:88 final size:87
Alignment explanation
Indices: 125031348--125031931 Score: 407
Period size: 88 Copynumber: 6.6 Consensus size: 87
125031338 GAGCAGACCG
* * * * * * * *
125031348 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCAT
1 AAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAATCAAAGATATCAGATC-TGACAT
* * *
125031411 CCCTGTGCTTATAGGGAACAAGTTGA
63 CCCTGTGCTTACAGGGAAC-AGATCA
* * * * *
125031437 AA-ACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTC
1 AAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATATCAGATCTGACATCC
*
125031501 CTGTGCTTACAGTGAAGCAGATCA
65 CTGTGCTTACAGGGAA-CAGATCA
* * * * * *
125031525 AAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACATCAGATTTGGCATC
1 AAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAA-ATCAAAGATATCAGATCTGACATC
* * *
125031588 CCTGTGCTTATAGGGAACAAATCG
64 CCTGTGCTTACAGGGAACAGATCA
* * * * * * * *
125031612 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCAT
1 AAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAATCAAAGATATCAGATC-TGACAT
* * *
125031675 CCCTGTGCTTATAGGGAACAAGTTGA
63 CCCTGTGCTTACAGGGAAC-AGATCA
* * * *
125031701 AA-ACATCAGATTTGCATCCCTGTGCTTATAGGGAACAAATCAAAGATAACAGATCTGACATTCC
1 AAGATATCAGATTGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATATCAGATCTGACATCCC
*
125031765 TGTGCTTACAGTGAAGCAGATCA
66 TGTGCTTACAGGGAA-CAGATCA
* * * * * *
125031788 AAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACATCAGATTTGGCATC
1 AAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAA-ATCAAAGATATCAGATCTGACATC
* * *
125031851 CCTGTACTTATAGGGAACAGATCG
64 CCTGTGCTTACAGGGAACAGATCA
* * * * * * *
125031875 AAGATAGT-AAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATAGCAGAT
1 AAGATA-TCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAATCAAAGATATCAGAT
125031932 ATCGCCTTCC
Statistics
Matches: 384, Mismatches: 87, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
86 16 0.04
87 83 0.22
88 247 0.64
89 37 0.10
90 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (87 bp):
AAGATATCAGATTGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATATCAGATCTGACATCCC
TGTGCTTACAGGGAACAGATCA
Found at i:125031583 original size:132 final size:132
Alignment explanation
Indices: 125031346--125031924 Score: 1088
Period size: 132 Copynumber: 4.4 Consensus size: 132
125031336 AGGAGCAGAC
125031346 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
125031411 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
125031476 AT
131 AT
125031478 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
125031543 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
125031608 AT
131 AT
125031610 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
125031675 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTT-GCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
125031739 AT
131 AT
* *
125031741 CAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
125031806 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
125031871 AT
131 AT
* *
125031873 CGAAGATAGTAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
125031925 AGCAGATATC
Statistics
Matches: 437, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 0.30
132 308 0.70
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:125031825 original size:263 final size:264
Alignment explanation
Indices: 125031346--125031924 Score: 1088
Period size: 263 Copynumber: 2.2 Consensus size: 264
125031336 AGGAGCAGAC
125031346 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
125031411 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
* *
125031476 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
131 ATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
*
125031541 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC
196 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAAC
125031606 AAAT
261 AAAT
125031610 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
125031675 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTT-GCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
125031739 ATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
131 ATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
125031804 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAAC
196 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAAC
*
125031869 AGAT
261 AAAT
* *
125031873 CGAAGATAGTAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
125031925 AGCAGATATC
Statistics
Matches: 308, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
263 205 0.67
264 103 0.33
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (264 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
ATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAAC
AAAT
Found at i:125031899 original size:44 final size:43
Alignment explanation
Indices: 125031341--125031925 Score: 332
Period size: 44 Copynumber: 13.3 Consensus size: 43
125031331 TGCAGAGGAG
* * * * * *
125031341 CAGACCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATA-TAGATCTGGCATCCCTGTGCTTATAGGGAA
* *
125031385 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAT-AGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * *
125031429 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATA-TAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
125031473 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATA-TAGATCTGGCATCCCTGTGCTTATAGGGAA
* *
125031517 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAT-AGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
125031561 CA-AGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAT-AGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
125031605 CAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATA-TAGATCTGGCATCCCTGTGCTTATAGGGAA
* *
125031649 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAT-AGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
125031693 CA-AGTTGAAAACATCAGAT-TTGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAT-AGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * * * *
125031736 CAAATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGAT-ATAGATCTGGCATCCCTGTGCTTATAGGGAA
* *
125031780 GCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAT-AGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * *
125031824 CA-AGTTGAAAACATCAGATTTGGCATCCCTGTACTTATAGGGAA
1 CAGA-TCGAAGATAT-AGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
125031868 CAGATCGAAGATAGTAAATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATA-TAGATCTGGCATCCCTGTGCTTATAGGGAA
*
125031912 GCAGATCAAAGATA
1 -CAGATCGAAGATA
125031926 GCAGATATCG
Statistics
Matches: 412, Mismatches: 95, Indels: 66
0.72 0.17 0.12
Matches are distributed among these distances:
42 4 0.01
43 75 0.18
44 268 0.65
45 65 0.16
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (43 bp):
CAGATCGAAGATATAGATCTGGCATCCCTGTGCTTATAGGGAA
Found at i:125032306 original size:22 final size:22
Alignment explanation
Indices: 125032266--125032307 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
125032256 TGGCCACCCA
*
125032266 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
125032288 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
125032308 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:125032426 original size:23 final size:22
Alignment explanation
Indices: 125032375--125032452 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
125032365 AGGTTTTGGG
* *
125032375 TTTTTTGGAGGAGGATTGTTCTT
1 TTTTTTGGAGGA-GATTTTTTTT
*
125032398 TGTTTTGGAGGAGATTTTTTTTT
1 TTTTTTGGAGGAGA-TTTTTTTT
*
125032421 ATTTTTTGGAGGTG-TTTTTTTGT
1 -TTTTTTGGAGGAGATTTTTTT-T
125032444 TTTTTTGGA
1 TTTTTTGGA
125032453 AAGAAGGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 18 0.38
23 18 0.38
24 11 0.23
ACGTcount: A:0.12, C:0.01, G:0.27, T:0.60
Consensus pattern (22 bp):
TTTTTTGGAGGAGATTTTTTTT
Found at i:125032439 original size:24 final size:23
Alignment explanation
Indices: 125032375--125032449 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
125032365 AGGTTTTGGG
* *
125032375 TTTTTTGGAGGAGGA-TTGTTCTT
1 TTTTTTGGAGGA-GATTTTTTGTT
* *
125032398 TGTTTTGGAGGAGATTTTTTTTT
1 TTTTTTGGAGGAGATTTTTTGTT
* *
125032421 ATTTTTTGGAGGTGTTTTTTTGTT
1 -TTTTTTGGAGGAGATTTTTTGTT
125032445 TTTTT
1 TTTTT
125032450 GGAAAGAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 2 0.05
23 22 0.51
24 19 0.44
ACGTcount: A:0.11, C:0.01, G:0.25, T:0.63
Consensus pattern (23 bp):
TTTTTTGGAGGAGATTTTTTGTT
Found at i:125032794 original size:3 final size:3
Alignment explanation
Indices: 125032780--125032862 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
125032770 GAGCTTTGTT
* *
125032780 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
125032823 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
125032863 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:125032849 original size:12 final size:12
Alignment explanation
Indices: 125032783--125032862 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
125032773 CTTTGTTTTA
*
125032783 TTATTTTATTAT
1 TTATATTATTAT
* *
125032795 TTTTACTATTAT
1 TTATATTATTAT
125032807 TTATATTATTA-
1 TTATATTATTAT
* *
125032818 TTAT-TTCTCAT
1 TTATATTATTAT
125032829 GTATATATTATTAT
1 -T-TATATTATTAT
125032843 TTATATTATTA-
1 TTATATTATTAT
125032854 TTATATTAT
1 TTATATTAT
125032863 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.24
12 29 0.53
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:125033222 original size:2 final size:2
Alignment explanation
Indices: 125033217--125033250 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
125033207 GTATTTCTAT
* *
125033217 TA TA TA CA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125033251 GTATTATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125038058 original size:20 final size:20
Alignment explanation
Indices: 125038033--125038073 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
125038023 CTAGAGATAT
*
125038033 AGATAGTATGTGCTTTGATC
1 AGATAGTATGTGCATTGATC
125038053 AGATAGTATGTGCATTGATC
1 AGATAGTATGTGCATTGATC
125038073 A
1 A
125038074 AATTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
AGATAGTATGTGCATTGATC
Found at i:125041187 original size:29 final size:29
Alignment explanation
Indices: 125041155--125041275 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 29
125041145 TTTAATATAT
*
125041155 TATTGCTATTATTATTATATTTCTATTTA
1 TATTTCTATTATTATTATATTTCTATTTA
* * * * * *
125041184 TATTTATTTTGTTATTCTAATACTA-TTA
1 TATTTCTATTATTATTATATTTCTATTTA
* * * *
125041212 TTATTTATCTAATTTTTAT-TTATCTATTTA
1 -TATTTCTATTATTATTATATT-TCTATTTA
* * *
125041242 TATTTCTACTATTACTATATTTCTATTTC
1 TATTTCTATTATTATTATATTTCTATTTA
125041271 TATTT
1 TATTT
125041276 ATATACTAAT
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
28 4 0.06
29 58 0.87
30 5 0.07
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTTCTATTATTATTATATTTCTATTTA
Found at i:125041232 original size:15 final size:14
Alignment explanation
Indices: 125041176--125041277 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
125041166 TTATTATATT
*
125041176 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
125041190 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
125041204 TACTATTATTATTTA
1 T-CTATTTTTATTTA
125041219 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
125041234 TCTATTTATATTTC
1 TCTATTTTTATTTA
**
125041248 TACTATTACTATATT-
1 T-CTATTTTTAT-TTA
*
125041263 TCTATTTCTATTTA
1 TCTATTTTTATTTA
125041277 T
1 T
125041278 ATACTAATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 25 0.36
15 24 0.34
16 4 0.06
17 7 0.10
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.63
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:125041416 original size:3 final size:3
Alignment explanation
Indices: 125041408--125041596 Score: 180
Period size: 3 Copynumber: 63.7 Consensus size: 3
125041398 TTTAAAACTT
125041408 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
125041456 TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA TT- TATA TTTA TGTA TTA
1 TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA T-TA -TTA T-TA TTA
* * * *
125041499 ATA TCA TTA TT- TTT TTA TT- TT- TTA -TA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
125041543 TTA TTA CTA TTA GTA CTA TTA TTTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
125041589 TTA TTA TT
1 TTA TTA TT
125041597 TATAATAGTA
Statistics
Matches: 157, Mismatches: 15, Indels: 28
0.79 0.08 0.14
Matches are distributed among these distances:
2 15 0.10
3 128 0.82
4 13 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:125041967 original size:3 final size:3
Alignment explanation
Indices: 125041925--125041979 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
125041915 TAAGCTTTAG
* * *
125041925 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT ATC ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
125041971 ATT ATT ATT
1 ATT ATT ATT
125041980 TAGAGTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 38 0.88
4 4 0.09
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:125053923 original size:15 final size:15
Alignment explanation
Indices: 125053903--125053932 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
125053893 CCGAAGGCTA
125053903 ACTGAAGCACACAAG
1 ACTGAAGCACACAAG
*
125053918 ACTGAAGCACTCAAG
1 ACTGAAGCACACAAG
125053933 TGCTAAACGG
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:0.43, C:0.27, G:0.20, T:0.10
Consensus pattern (15 bp):
ACTGAAGCACACAAG
Found at i:125053934 original size:54 final size:54
Alignment explanation
Indices: 125053865--125053971 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
125053855 TGAAGTCTAG
125053865 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAGA
1 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAGA
*
125053919 CTGAAGCAC-TCAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAG
1 CTGAAGCACAT-AAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAG
125053972 TGCTAAACAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.11
Consensus pattern (54 bp):
CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAGA
Found at i:125053961 original size:39 final size:39
Alignment explanation
Indices: 125053918--125054003 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
125053908 AGCACACAAG
* *
125053918 ACTGAAGCACTCAAGTGCTAAACGGAAGCCCGAAGGCTA
1 ACTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTA
*
125053957 ACTGAAGCACACAAGTGCTAAACAGAAGCCCTAAGGCTA
1 ACTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTA
125053996 ACTGAAGC
1 ACTGAAGC
125054004 TCATCAGAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (39 bp):
ACTGAAGCACACAAGTGCTAAACAGAAGCCCGAAGGCTA
Found at i:125054582 original size:27 final size:27
Alignment explanation
Indices: 125054552--125054635 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
125054542 TTTTATGTTT
125054552 TATGACATGCTAATCATTTTTCCATTC
1 TATGACATGCTAATCATTTTTCCATTC
* * * *** *
125054579 TATGGA-AAGATCAA--ATTCTTATGTTT
1 TAT-GACATGCT-AATCATTTTTCCATTC
125054605 TATGACATGCTAATCATTTTTCCATTC
1 TATGACATGCTAATCATTTTTCCATTC
125054632 TATG
1 TATG
125054636 GAAACATCAA
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 4 0.11
26 13 0.34
27 17 0.45
28 4 0.11
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.44
Consensus pattern (27 bp):
TATGACATGCTAATCATTTTTCCATTC
Found at i:125054624 original size:53 final size:53
Alignment explanation
Indices: 125054544--125054652 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
125054534 TCCTATTTTT
*
125054544 TTATGTTTTATGACATGCTAATCATTTTTCCATTCTATGGAAAGATCAAATTC
1 TTATGTTTTATGACATGCTAATCATTTTTCCATTCTATGGAAACATCAAATTC
125054597 TTATGTTTTATGACATGCTAATCATTTTTCCATTCTATGGAAACATCAAATTC
1 TTATGTTTTATGACATGCTAATCATTTTTCCATTCTATGGAAACATCAAATTC
125054650 TTA
1 TTA
125054653 CTCTAACATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (53 bp):
TTATGTTTTATGACATGCTAATCATTTTTCCATTCTATGGAAACATCAAATTC
Found at i:125060889 original size:35 final size:35
Alignment explanation
Indices: 125060843--125060968 Score: 121
Period size: 35 Copynumber: 3.6 Consensus size: 35
125060833 ATACTATTTG
*
125060843 TTTGGTGTGTTTTGGAGGGACTAGCTCTTTTGAGC
1 TTTGGTGTGTTTTGGAGGGACTAGCTCTTATGAGC
* * *
125060878 TTTGGTGTG-TTTCGATTGGACTAGCTCTTATG-GG
1 TTTGGTGTGTTTTGGA-GGGACTAGCTCTTATGAGC
* * * *
125060912 TATTGGTGTATTTTGGAGGGATTAGCTCGTGTGAGC
1 T-TTGGTGTGTTTTGGAGGGACTAGCTCTTATGAGC
* *
125060948 ATCTGGTGTGTCTTGGAGGGA
1 -TTTGGTGTGTTTTGGAGGGA
125060969 TTGGCTCGTG
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
34 7 0.10
35 42 0.58
36 22 0.31
37 1 0.01
ACGTcount: A:0.13, C:0.10, G:0.36, T:0.40
Consensus pattern (35 bp):
TTTGGTGTGTTTTGGAGGGACTAGCTCTTATGAGC
Found at i:125060956 original size:36 final size:36
Alignment explanation
Indices: 125060845--125060998 Score: 143
Period size: 36 Copynumber: 4.3 Consensus size: 36
125060835 ACTATTTGTT
* * * *
125060845 TGGTGTGTTTTGGAGGGACTAGCTCTTTTGAGC-TT
1 TGGTGTGTTTTGGAGGGATTAGCTCGTGTGAGCATC
* * * * * * *
125060880 TGGTGTG-TTTCGATTGGACTAGCTCTTATGGGTAT-
1 TGGTGTGTTTTGGA-GGGATTAGCTCGTGTGAGCATC
*
125060915 TGGTGTATTTTGGAGGGATTAGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTAGCTCGTGTGAGCATC
* *
125060951 TGGTGTGTCTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTAGCTCGTGTGAGCATC
*
125060987 TAGTGTGTTTTG
1 TGGTGTGTTTTG
125060999 ATTGGACTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
34 5 0.05
35 43 0.44
36 49 0.51
ACGTcount: A:0.13, C:0.11, G:0.36, T:0.40
Consensus pattern (36 bp):
TGGTGTGTTTTGGAGGGATTAGCTCGTGTGAGCATC
Found at i:125061838 original size:20 final size:20
Alignment explanation
Indices: 125061789--125061844 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
125061779 AGTTTATGCT
* * *
125061789 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
125061809 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
125061829 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
125061845 TCATAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:125064997 original size:22 final size:22
Alignment explanation
Indices: 125064972--125065015 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
125064962 GTGAAAGGTC
125064972 TGGCTTTGAATGTTGAGGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
*
125064994 TGGCTTTGAATGTTGATGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
125065016 AAATGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (22 bp):
TGGCTTTGAATGTTGAGGTAAG
Found at i:125069663 original size:24 final size:24
Alignment explanation
Indices: 125069525--125069666 Score: 108
Period size: 24 Copynumber: 5.9 Consensus size: 24
125069515 TAGTGCTAAA
* *
125069525 CAAATTCGCACACATAGTGCCATG
1 CAAATCCGCACACATAGTGCCATT
*
125069549 CTACA-CCGCACACATAGTGCC-TT
1 C-AAATCCGCACACATAGTGCCATT
* * * * ** * * *
125069572 GAAGATTCACTCATGTATTGACATC
1 CAA-ATCCGCACACATAGTGCCATT
* *
125069597 CAAATCAGCACACATAGTACCATT
1 CAAATCCGCACACATAGTGCCATT
*
125069621 CAATTCCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
*
125069645 CAAATCCGCACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
125069667 ATGTTGACCA
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 77 0.91
25 5 0.06
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.23
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:125076548 original size:2 final size:2
Alignment explanation
Indices: 125076541--125076570 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
125076531 TGTATAGATT
125076541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125076571 ATTCATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125077306 original size:24 final size:24
Alignment explanation
Indices: 125077195--125077336 Score: 108
Period size: 24 Copynumber: 5.9 Consensus size: 24
125077185 TAGTGCTAAA
* *
125077195 CAAATTCGCACACATAGTGCCATG
1 CAAATCCGCACACATAGTGCCATT
*
125077219 CTACA-CCGCACACATAGTGCC-TT
1 C-AAATCCGCACACATAGTGCCATT
* * * * ** * * *
125077242 GAAGATTCACTCATGTATTGACATC
1 CAA-ATCCGCACACATAGTGCCATT
*
125077267 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
*
125077291 CAATTCCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
125077315 CAAATCCACACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
125077337 ATGTTGACCC
Statistics
Matches: 86, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 78 0.91
25 5 0.06
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.23
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:125077833 original size:2 final size:2
Alignment explanation
Indices: 125077793--125077824 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
125077783 TATGTAACAC
125077793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125077825 TTGTATATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125084872 original size:3 final size:3
Alignment explanation
Indices: 125084866--125085110 Score: 96
Period size: 3 Copynumber: 82.3 Consensus size: 3
125084856 AAAATACAAC
* * * *
125084866 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
125084909 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
125084953 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
125084998 AAT AAT AAT AAT AAT AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT
* * * * *
125085043 AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T
* *
125085088 AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT A
125085111 GTGATGAGAA
Statistics
Matches: 180, Mismatches: 44, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
2 18 0.10
3 145 0.81
4 17 0.09
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:125084872 original size:22 final size:22
Alignment explanation
Indices: 125084821--125084881 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
125084811 ATAAGTAAAT
* *
125084821 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
125084842 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
125084864 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
125084882 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:125085129 original size:16 final size:16
Alignment explanation
Indices: 125085110--125085141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
125085100 TTATAATAAT
125085110 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
125085126 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
125085142 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:125085273 original size:15 final size:15
Alignment explanation
Indices: 125085248--125085286 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
125085238 ACGTATGAAA
*
125085248 AATAATGATAGTAA-
1 AATAATAATAGTAAT
125085262 ATATAATAATAGTAAT
1 A-ATAATAATAGTAAT
125085278 AATAATAAT
1 AATAATAAT
125085287 GGAATGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (15 bp):
AATAATAATAGTAAT
Found at i:125085391 original size:3 final size:3
Alignment explanation
Indices: 125085383--125085421 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
125085373 ACACTACCAT
125085383 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
125085422 TAGAAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:125085521 original size:3 final size:3
Alignment explanation
Indices: 125085513--125085565 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
125085503 AAATATACAC
125085513 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
125085561 TAA TA
1 TAA TA
125085566 TTAAAATGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:125086072 original size:24 final size:24
Alignment explanation
Indices: 125086043--125086093 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
125086033 CAAAAAAAAG
125086043 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
* *
125086067 AAAAATCTCTTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
125086091 AAA
1 AAA
125086094 TTTCTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCCCCTCTTGAATCTCAAA
Found at i:125086094 original size:22 final size:23
Alignment explanation
Indices: 125086043--125086101 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
125086033 CAAAAAAAAG
* *
125086043 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCTCTTCTTGAATCTC-AA
125086067 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
125086089 AAAAATTTCTTCT
1 AAAAATCTCTTCT
125086102 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:125086328 original size:11 final size:12
Alignment explanation
Indices: 125086295--125086327 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
125086285 GTTTTCTTTT
125086295 TTTTTTTTTTGA
1 TTTTTTTTTTGA
125086307 TTTTTTTTTTGA
1 TTTTTTTTTTGA
125086319 TTTTTTTTT
1 TTTTTTTTT
125086328 GGGTTGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTGA
Found at i:125087029 original size:205 final size:205
Alignment explanation
Indices: 125086678--125088080 Score: 2499
Period size: 205 Copynumber: 6.9 Consensus size: 205
125086668 AGATTTATTT
* * * * * * * * *
125086678 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
125086743 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125086807 GGATCCGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125086872 AGATGCCAAA
196 AGATGCCAAA
*
125086882 CTTCGATTCGTTCTCTGACGATACAGAGACGATAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125086947 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125087012 GGATCTGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087077 AGATGCCAAA
196 AGATGCCAAA
125087087 CTTCGATTCGTTCTCTGACGATACAGAGACGAC-AATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087151 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125087216 GGATCTGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087281 AGATGCCAAA
196 AGATGCCAAA
125087291 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087356 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC-AACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
125087420 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087485 AGATGCCAAA
196 AGATGCCAAA
125087495 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087560 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
125087625 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087690 AGATGCCAAA
196 AGATGCCAAA
*
125087700 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCATAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087765 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125087830 GGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
125087894 AAGATGCCAAA
195 AAGATGCCAAA
125087905 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087970 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
125088035 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGT
125088081 AGCCTATTAC
Statistics
Matches: 1163, Mismatches: 31, Indels: 9
0.97 0.03 0.01
Matches are distributed among these distances:
204 481 0.41
205 681 0.59
206 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:125087535 original size:409 final size:410
Alignment explanation
Indices: 125086678--125088080 Score: 2508
Period size: 409 Copynumber: 3.4 Consensus size: 410
125086668 AGATTTATTT
* * * * * * * * *
125086678 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
125086743 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125086807 GGATCCGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
125086872 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGATAAATCATCTTAGATTTGCTTCA
196 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
125086937 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
261 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
*
125087002 AAACCATCTTGGATCTGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCC
326 AAACCATCTTGGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCC
125087067 ATCAAAGTGAAGATGCCAAA
391 ATCAAAGTGAAGATGCCAAA
125087087 CTTCGATTCGTTCTCTGACGATACAGAGACGAC-AATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087151 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
125087216 GGATCTGCTTTAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087281 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
196 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
125087346 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
261 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
125087411 -AACCATCTTGGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCC
326 AAACCATCTTGGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCC
125087475 ATCAAAGTGAAGATGCCAAA
391 ATCAAAGTGAAGATGCCAAA
125087495 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087560 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
125087625 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
125087690 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
196 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
*
125087755 TCATAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
261 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
* * *
125087820 AAACCATCTTGGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTC
326 AAACCATCTTGGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTC
125087884 CATCAAAGTGAAGATGCCAAA
390 CATCAAAGTGAAGATGCCAAA
125087905 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
125087970 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
125088035 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGT
125088081 AGCCTATTAC
Statistics
Matches: 961, Mismatches: 29, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
408 162 0.17
409 547 0.57
410 252 0.26
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (410 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
AAACCATCTTGGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCC
ATCAAAGTGAAGATGCCAAA
Found at i:125096146 original size:15 final size:14
Alignment explanation
Indices: 125096104--125096153 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
125096094 ATAACTTTGA
*
125096104 ATGCAAATGATGTG
1 ATGCAAATGATGAG
125096118 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
125096133 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
125096147 ATGCAAA
1 ATGCAAA
125096154 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:125100006 original size:3 final size:3
Alignment explanation
Indices: 125100000--125100243 Score: 87
Period size: 3 Copynumber: 82.3 Consensus size: 3
125099990 AAAATACAAC
* * * *
125100000 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
125100043 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
125100087 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
125100132 AAT AAT AAT AAT AAT -AT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT
* * * * *
125100176 AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T
* *
125100221 AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT A
125100244 GTGATGAGAA
Statistics
Matches: 179, Mismatches: 43, Indels: 38
0.69 0.17 0.15
Matches are distributed among these distances:
2 20 0.11
3 142 0.79
4 17 0.09
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:125100006 original size:22 final size:22
Alignment explanation
Indices: 125099955--125100015 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
125099945 ATAAGTAAAT
* *
125099955 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
125099976 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
125099998 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
125100016 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:125100262 original size:16 final size:16
Alignment explanation
Indices: 125100243--125100274 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
125100233 TTATAATAAT
125100243 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
125100259 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
125100275 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:125100407 original size:16 final size:15
Alignment explanation
Indices: 125100378--125100420 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
125100368 TATACGTATG
*
125100378 AAAAATAATGATAGT
1 AAAAATAATAATAGT
125100393 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
125100409 AATAATAATAAT
1 AAAAATAATAAT
125100421 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:125100521 original size:3 final size:3
Alignment explanation
Indices: 125100513--125100548 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
125100503 ACACACTACC
125100513 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
125100549 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:125100644 original size:3 final size:3
Alignment explanation
Indices: 125100626--125100667 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
125100616 ATATATGTAC
*
125100626 ATA AAA ATA TATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
125100668 TTAAAATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:125101176 original size:26 final size:26
Alignment explanation
Indices: 125101139--125101198 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
125101129 AATCTCAAAA
125101139 AAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAA-AAAAATCCCCTCTTGAATCTC
* *
125101166 AAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAATCCCCTCTTGAATCTC
125101192 AAAAAAA
1 AAAAAAA
125101199 TTCTTCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAAAAAAAATCCCCTCTTGAATCTC
Found at i:125101199 original size:23 final size:24
Alignment explanation
Indices: 125101145--125101205 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
125101135 AAAAAAAAAG
* *
125101145 AAAAATCCCCTCTTGAATCTCAAAAA
1 AAAAATCTCTTCTTGAATCTC--AAA
125101171 AAAAATCTCTTCTTGAATCTC-AA
1 AAAAATCTCTTCTTGAATCTCAAA
125101194 AAAAAT-TCTTCT
1 AAAAATCTCTTCT
125101206 CTCCAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 8 0.24
26 19 0.58
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.31
Consensus pattern (24 bp):
AAAAATCTCTTCTTGAATCTCAAA
Found at i:125109049 original size:3 final size:3
Alignment explanation
Indices: 125109043--125109290 Score: 93
Period size: 3 Copynumber: 83.3 Consensus size: 3
125109033 AAAATACAAC
* * * *
125109043 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
125109086 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
125109130 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
125109175 AAT AAT AAT AAT AAT AAT GAT GAT GAT -CT ATT AAGT TAT AAT GAA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT
* * * * *
125109220 AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
125109264 AAGT AAC AAT AAT AAAT TAT AAT AAT A
1 AA-T AAT AAT AAT -AAT AAT AAT AAT A
125109291 GTGATGAGAA
Statistics
Matches: 183, Mismatches: 44, Indels: 36
0.70 0.17 0.14
Matches are distributed among these distances:
2 18 0.10
3 148 0.81
4 17 0.09
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:125109049 original size:22 final size:22
Alignment explanation
Indices: 125108998--125109058 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
125108988 ATAAGTAAAT
* *
125108998 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
125109019 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
125109041 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
125109059 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:125109309 original size:16 final size:16
Alignment explanation
Indices: 125109290--125109321 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
125109280 TTATAATAAT
125109290 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
125109306 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
125109322 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:125109454 original size:16 final size:15
Alignment explanation
Indices: 125109425--125109467 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
125109415 TATACGTATG
*
125109425 AAAAATAATGATAGT
1 AAAAATAATAATAGT
125109440 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
125109456 AATAATAATAAT
1 AAAAATAATAAT
125109468 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:125109570 original size:3 final size:3
Alignment explanation
Indices: 125109562--125109603 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
125109552 ACACTACCAT
125109562 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
125109604 TAGAAATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:125109703 original size:3 final size:3
Alignment explanation
Indices: 125109695--125109722 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
125109685 AAAAATATAC
125109695 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
125109723 TTAAAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:125110229 original size:24 final size:24
Alignment explanation
Indices: 125110200--125110250 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
125110190 CAAAAAAAAG
125110200 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
* *
125110224 AAAAATCTCTTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
125110248 AAA
1 AAA
125110251 TTTCTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCCCCTCTTGAATCTCAAA
Found at i:125110251 original size:22 final size:23
Alignment explanation
Indices: 125110200--125110258 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
125110190 CAAAAAAAAG
* *
125110200 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCTCTTCTTGAATCTC-AA
125110224 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
125110246 AAAAATTTCTTCT
1 AAAAATCTCTTCT
125110259 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:125110467 original size:14 final size:14
Alignment explanation
Indices: 125110443--125110479 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
125110433 TGAGATTAGG
125110443 TTTTTTCTTTTTTGA
1 TTTTTT-TTTTTTGA
125110458 TTTTTTTTTTTTGA
1 TTTTTTTTTTTTGA
125110472 TTTTTTTT
1 TTTTTTTT
125110480 GGGTTGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTTGA
Found at i:125111668 original size:2 final size:2
Alignment explanation
Indices: 125111661--125111718 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
125111651 AAGGACTTTG
125111661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125111703 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
125111719 CGGTAAGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125112164 original size:21 final size:21
Alignment explanation
Indices: 125112138--125112177 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
125112128 CTTTCGCACA
* *
125112138 AGATTTTTTCTTTCACAAGGG
1 AGATTTGTTCTTTAACAAGGG
125112159 AGATTTGTTCTTTAACAAG
1 AGATTTGTTCTTTAACAAG
125112178 CATCATAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (21 bp):
AGATTTGTTCTTTAACAAGGG
Found at i:125114268 original size:22 final size:22
Alignment explanation
Indices: 125114234--125114282 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
125114224 AATTTAATCC
*
125114234 TTAAATTTCTATTTTTAGAAAT
1 TTAAATTTCTATTTTTAAAAAT
* *
125114256 TTAATTTTTTATTTTTAAAAAT
1 TTAAATTTCTATTTTTAAAAAT
125114278 TTAAA
1 TTAAA
125114283 ATTCAAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAAATTTCTATTTTTAAAAAT
Found at i:125114828 original size:18 final size:20
Alignment explanation
Indices: 125114807--125114846 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
125114797 TTTTATGAAT
125114807 TTTTTAT-A-TTTTAAAATA
1 TTTTTATAATTTTTAAAATA
*
125114825 -TTTTATAATTTTTAAATTA
1 TTTTTATAATTTTTAAAATA
125114844 TTT
1 TTT
125114847 AATGACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
17 6 0.33
18 1 0.06
19 9 0.50
20 2 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAATA
Found at i:125116036 original size:41 final size:44
Alignment explanation
Indices: 125115963--125116044 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
125115953 CGTGACTATG
*
125115963 TTAAAAGAAAGATGACAAAAAGAGGAT-GGGAAAGAACAATCTA
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
**
125116006 TTAAAAGAAAGAT-A-GTAAAGAGGATAGGAAAAGAACAAT
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAAT
125116045 ATTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 13 0.37
43 13 0.37
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (44 bp):
TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
Found at i:125116466 original size:20 final size:20
Alignment explanation
Indices: 125116441--125116479 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
125116431 GTTTATTCAC
*
125116441 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
125116461 GATTTTTAAAATTTTGTAA
1 GATTTTCAAAATTTTGTAA
125116480 TTGGATGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:125118141 original size:28 final size:28
Alignment explanation
Indices: 125118109--125118205 Score: 178
Period size: 28 Copynumber: 3.5 Consensus size: 28
125118099 GCGTAGATCA
125118109 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
125118137 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
125118165 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
125118193 CGATA-TACCCCTA
1 CGAAATTACCCCTA
125118206 GGGTTTTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 8 0.12
28 60 0.88
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:125120272 original size:33 final size:33
Alignment explanation
Indices: 125120213--125120275 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
125120203 GGTAAGGGGT
*
125120213 GTTTGCCAGTTGGTTTGGTGAACTGGGGTTGGG
1 GTTTGCCAGTTGGTTTGGTCAACTGGGGTTGGG
*
125120246 GTTTGCTAGTTGGTTTGG-CAAGCTGGGGTT
1 GTTTGCCAGTTGGTTTGGTCAA-CTGGGGTT
125120276 CAGCAACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.10, C:0.10, G:0.43, T:0.38
Consensus pattern (33 bp):
GTTTGCCAGTTGGTTTGGTCAACTGGGGTTGGG
Found at i:125120273 original size:27 final size:27
Alignment explanation
Indices: 125120242--125120355 Score: 70
Period size: 27 Copynumber: 4.2 Consensus size: 27
125120232 GAACTGGGGT
125120242 TGGGGTTTGCTAGTTGGTTTGGCAAGC
1 TGGGGTTTGCTAGTTGGTTTGGCAAGC
* *** * * *
125120269 TGGGGTTCAGC-AACAGGTCTAGCGAA-T
1 TGGGGTT-TGCTAGTTGGTTTGGC-AAGC
* *
125120296 TGAGGTTTGCTAGTTGGTTTGGCGAGC
1 TGGGGTTTGCTAGTTGGTTTGGCAAGC
** * * *
125120323 TAAGGTTCGCCAGTTGGTTTGGCGAGC
1 TGGGGTTTGCTAGTTGGTTTGGCAAGC
125120350 TGGGGT
1 TGGGGT
125120356 CCGCCAATAG
Statistics
Matches: 62, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
26 3 0.05
27 55 0.89
28 4 0.06
ACGTcount: A:0.15, C:0.14, G:0.39, T:0.32
Consensus pattern (27 bp):
TGGGGTTTGCTAGTTGGTTTGGCAAGC
Found at i:125120360 original size:27 final size:27
Alignment explanation
Indices: 125120307--125120361 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
125120297 GAGGTTTGCT
*
125120307 AGTTGGTTTGGCGAGCTAAGGTTCGCC
1 AGTTGGTTTGGCGAGCTAAGGTCCGCC
**
125120334 AGTTGGTTTGGCGAGCTGGGGTCCGCC
1 AGTTGGTTTGGCGAGCTAAGGTCCGCC
125120361 A
1 A
125120362 ATAGGTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (27 bp):
AGTTGGTTTGGCGAGCTAAGGTCCGCC
Found at i:125120368 original size:27 final size:27
Alignment explanation
Indices: 125120311--125120369 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
125120301 TTTGCTAGTT
* * *
125120311 GGTTTGGCGAGCTAAGGTTCGCCAGTT
1 GGTTTGGCGAGCTAAGGTCCGCCAATA
**
125120338 GGTTTGGCGAGCTGGGGTCCGCCAATA
1 GGTTTGGCGAGCTAAGGTCCGCCAATA
125120365 GGTTT
1 GGTTT
125120370 AGTGAATTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.19, G:0.39, T:0.29
Consensus pattern (27 bp):
GGTTTGGCGAGCTAAGGTCCGCCAATA
Found at i:125127267 original size:20 final size:20
Alignment explanation
Indices: 125127224--125127267 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
125127214 CGGACTGCCA
*
125127224 TGGTTTTAATTTATGGTTAT
1 TGGTTTTAATTTATGGTTAC
* **
125127244 TGGTTTTATTTTATTTTTAC
1 TGGTTTTAATTTATGGTTAC
125127264 TGGT
1 TGGT
125127268 CATATTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (20 bp):
TGGTTTTAATTTATGGTTAC
Found at i:125132313 original size:54 final size:55
Alignment explanation
Indices: 125132246--125132361 Score: 189
Period size: 54 Copynumber: 2.1 Consensus size: 55
125132236 TCCTTCAAAA
* * *
125132246 TGTTAGATTTCTCGTTATCAAACAATTATATGCTGATTTTAAAATTTGAGATTTG
1 TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
*
125132301 TGTTAG-TTTCTCGTTATTAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
1 TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
125132355 TGTTAGA
1 TGTTAGA
125132362 GATCATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 50 0.89
55 6 0.11
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (55 bp):
TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
Found at i:125133051 original size:21 final size:22
Alignment explanation
Indices: 125133004--125133052 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
125132994 CGACCCAAAC
* *
125133004 TTTTAATTTCTTATCTTAATTA
1 TTTTTATTTCTTATATTAATTA
125133026 TTTTTATTT-TTATATT-ATTA
1 TTTTTATTTCTTATATTAATTA
125133046 TATTTTA
1 T-TTTTA
125133053 AAATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 11 0.46
22 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTTCTTATATTAATTA
Found at i:125138257 original size:21 final size:21
Alignment explanation
Indices: 125138231--125138283 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
125138221 AGCGGTGGCG
*
125138231 GTGAGAATAGTTACTGTAGCA
1 GTGAGAATAGATACTGTAGCA
* *
125138252 GTGAGATTGGATACTGTAGCA
1 GTGAGAATAGATACTGTAGCA
*
125138273 GTGAGATTAGA
1 GTGAGAATAGA
125138284 AACAATGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (21 bp):
GTGAGAATAGATACTGTAGCA
Found at i:125138768 original size:18 final size:18
Alignment explanation
Indices: 125138745--125138779 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
125138735 ACGTGGCAGT
125138745 CCAACTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
125138763 CCAACTAGATTTTAAGT
1 CCAACTAGATTTTAAGT
125138780 ATATCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:125138934 original size:18 final size:18
Alignment explanation
Indices: 125138908--125138942 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
125138898 TAACAAATAT
*
125138908 ACTTCAAATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
125138926 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
125138943 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:125154869 original size:6 final size:6
Alignment explanation
Indices: 125154851--125154897 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
125154841 CTGTGTACCG
* * *
125154851 TACTGC TACTGT TATTGT TACTGT TACTGT TACTGT TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
125154898 GCACGGTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:125155135 original size:17 final size:18
Alignment explanation
Indices: 125155041--125155137 Score: 90
Period size: 18 Copynumber: 5.4 Consensus size: 18
125155031 AATAATCAAT
125155041 TGTTACTGAATCAA-TGAC
1 TGTTACTGAAT-AACTGAC
* *
125155059 TATTACTGAATAATTGAC
1 TGTTACTGAATAACTGAC
* * *
125155077 TGATATTGAATAAATGAC
1 TGTTACTGAATAACTGAC
* *
125155095 CGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAC
* *
125155113 TATTACTG-ATGACTGAC
1 TGTTACTGAATAACTGAC
125155130 TGTTACTG
1 TGTTACTG
125155138 GACAATAAAG
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
17 16 0.25
18 47 0.75
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TGTTACTGAATAACTGAC
Found at i:125159310 original size:53 final size:53
Alignment explanation
Indices: 125159229--125159379 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
125159219 CTTACACGGT
* *
125159229 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
125159284 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
125159337 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
125159380 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:125162178 original size:20 final size:21
Alignment explanation
Indices: 125162143--125162182 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
125162133 TGTTACAATT
*
125162143 GTAATGCTATACAAAGGCACC
1 GTAATGCTAAACAAAGGCACC
125162164 GTAATGC-AAACAAAGGCAC
1 GTAATGCTAAACAAAGGCAC
125162183 GATTGTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (21 bp):
GTAATGCTAAACAAAGGCACC
Found at i:125163750 original size:17 final size:19
Alignment explanation
Indices: 125163723--125163773 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
125163713 AATATAATAT
*
125163723 AATATAATAAAGAAAGT-A
1 AATAGAATAAAGAAAGTAA
125163741 AA-AGAATAAAAGAAA-TAA
1 AATAGAAT-AAAGAAAGTAA
125163759 AATAGAA-AAAGAAAG
1 AATAGAATAAAGAAAG
125163774 GACAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 12 0.43
18 12 0.43
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AATAGAATAAAGAAAGTAA
Found at i:125165749 original size:22 final size:22
Alignment explanation
Indices: 125165718--125165773 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
125165708 AGGGTTGATG
* *
125165718 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
125165740 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
125165762 ACTCGGGCGTGT
1 ACACGGGCGTGT
125165774 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:125169872 original size:46 final size:44
Alignment explanation
Indices: 125169768--125169875 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
125169758 TGTCTTTGAC
** * * *
125169768 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
125169812 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
125169858 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
125169876 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:125176025 original size:46 final size:44
Alignment explanation
Indices: 125175921--125176028 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
125175911 TGTCTTTGAC
** * * *
125175921 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
125175965 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
125176011 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
125176029 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:125182172 original size:46 final size:44
Alignment explanation
Indices: 125182068--125182175 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
125182058 TGTCTTTGAC
** * * *
125182068 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
125182112 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
125182158 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
125182176 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:125185445 original size:17 final size:19
Alignment explanation
Indices: 125185409--125185451 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
125185399 CCATTTTTTA
*
125185409 TCTAAACAATTAAA-TTTT
1 TCTAAACAATTAAACATTT
*
125185427 TTTAAA-AATTAAACATTT
1 TCTAAACAATTAAACATTT
125185445 TCTAAAC
1 TCTAAAC
125185452 TCTCGTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (19 bp):
TCTAAACAATTAAACATTT
Found at i:125187952 original size:2 final size:2
Alignment explanation
Indices: 125187941--125187974 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
125187931 CAACTATAAA
125187941 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
125187975 AGGCATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:125189552 original size:3 final size:3
Alignment explanation
Indices: 125189544--125189568 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
125189534 GGGTACCTTA
125189544 TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG T
125189569 TTGGGGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:125194490 original size:16 final size:15
Alignment explanation
Indices: 125194469--125194518 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
125194459 TTTTTAAAAA
125194469 TTAATTTATACTATTT
1 TTAATTTATA-TATTT
125194485 TTAATTTA-ATATTT
1 TTAATTTATATATTT
125194499 TATGAATTTATATATATT
1 T-T-AATTTATATAT-TT
125194517 TT
1 TT
125194519 TATAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.20
15 2 0.07
16 14 0.47
17 5 0.17
18 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TTAATTTATATATTT
Found at i:125197298 original size:20 final size:19
Alignment explanation
Indices: 125197267--125197338 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
125197257 CTCTTTCAAC
125197267 AAAAATTACAAAATAATTTT
1 AAAAATT-CAAAATAATTTT
125197287 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
125197307 TAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
125197326 AAAAATTCTAAAT
1 AAAAATTCAAAAT
125197339 TTTATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 12 0.27
21 7 0.16
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:125197313 original size:19 final size:19
Alignment explanation
Indices: 125197268--125197329 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
125197258 TCTTTCAACA
*
125197268 AAAATTACAAAATAATTTTCA
1 AAAATT-CAAAATAATTTT-T
125197289 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
* *
125197308 AAAATTTAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
125197326 AAAA
1 AAAA
125197330 ATTCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.24
19 11 0.29
20 12 0.32
21 6 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:125197338 original size:19 final size:19
Alignment explanation
Indices: 125197288--125197344 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
125197278 AATAATTTTC
*
125197288 AAAAATTCAAAATAATTT-T
1 AAAAATTCTAAAT-ATTTAT
*
125197307 TAAAATT-TAAAATATTTAT
1 AAAAATTCT-AAATATTTAT
125197326 AAAAATTCTAAAT-TTTAT
1 AAAAATTCTAAATATTTAT
125197344 A
1 A
125197345 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 10 0.31
19 21 0.66
20 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:125198861 original size:16 final size:16
Alignment explanation
Indices: 125198829--125198882 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
125198819 TAAAATATAT
**
125198829 AAATAGAAATTCAAAA
1 AAATAGAAATTTGAAA
125198845 AAATAGAAATTTGAAA
1 AAATAGAAATTTGAAA
* * *
125198861 AAAAATTAAAATTGAAA
1 AAATA-GAAATTTGAAA
125198878 AAATA
1 AAATA
125198883 ATTAAATTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (16 bp):
AAATAGAAATTTGAAA
Found at i:125198875 original size:17 final size:18
Alignment explanation
Indices: 125198841--125198888 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
125198831 ATAGAAATTC
125198841 AAAAAAA-TAGAAATTTGA
1 AAAAAAATTA-AAATTTGA
125198859 AAAAAAATTAAAA-TTGA
1 AAAAAAATTAAAATTTGA
125198876 AAAAATAATTAAA
1 AAAAA-AATTAAA
125198889 TTCTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.32
18 17 0.61
19 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAAAATTAAAATTTGA
Found at i:125200633 original size:14 final size:14
Alignment explanation
Indices: 125200614--125200667 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
125200604 ATGTGAATAA
125200614 TTAAAATAAAAATT
1 TTAAAATAAAAATT
*
125200628 TTAAAATATGAGAAATAA
1 TTAAAATA--A-AAAT-T
125200646 TTAAAATAAAAATT
1 TTAAAATAAAAATT
125200660 TTAAAATA
1 TTAAAATA
125200668 TGAGAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
TTAAAATAAAAATT
Found at i:125200650 original size:32 final size:32
Alignment explanation
Indices: 125200591--125200690 Score: 175
Period size: 32 Copynumber: 3.2 Consensus size: 32
125200581 AGTGAAGATT
*
125200591 AAAATTTTAAAATATGTG-AATAATTAAAATA
1 AAAATTTTAAAATATGAGAAATAATTAAAATA
125200622 AAAATTTTAAAATATGAGAAATAATTAAAATA
1 AAAATTTTAAAATATGAGAAATAATTAAAATA
*
125200654 AAAATTTTAAAATATGAGAAATAATTAAACTA
1 AAAATTTTAAAATATGAGAAATAATTAAAATA
125200686 AAAAT
1 AAAAT
125200691 AATCAAATTA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 17 0.26
32 49 0.74
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (32 bp):
AAAATTTTAAAATATGAGAAATAATTAAAATA
Found at i:125201992 original size:172 final size:172
Alignment explanation
Indices: 125201706--125202050 Score: 681
Period size: 172 Copynumber: 2.0 Consensus size: 172
125201696 TCATTGATTG
125201706 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
125201771 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
125201836 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
131 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
125201878 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
*
125201943 GTTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
125202008 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
131 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
125202050 A
1 A
125202051 GAGAGTGCAA
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (172 bp):
ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
Found at i:125209673 original size:2 final size:2
Alignment explanation
Indices: 125209668--125209694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125209658 ATTTTTTTAT
125209668 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
125209695 CTGTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125215295 original size:9 final size:9
Alignment explanation
Indices: 125215281--125215340 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
125215271 AATTTCAAAG
125215281 AAATATATA
1 AAATATATA
125215290 AAATATATA
1 AAATATATA
* *
125215299 AAATTTTTAA
1 AAATATAT-A
125215309 ATAATATATA
1 A-AATATATA
*
125215319 ATAA-ATTTAA
1 A-AATATAT-A
125215329 AAATATATA
1 AAATATATA
125215338 AAA
1 AAA
125215341 AAATAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 24 0.59
10 12 0.29
11 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATATATA
Found at i:125215344 original size:20 final size:19
Alignment explanation
Indices: 125215289--125215342 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
125215279 AGAAATATAT
**
125215289 AAAATATATAAAATTTTTA
1 AAAATATATAAAAAATTTA
*
125215308 AATAATATATAATAAATTTA
1 AA-AATATATAAAAAATTTA
125215328 AAAATATATAAAAAA
1 AAAATATATAAAAAA
125215343 ATAATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATATATAAAAAATTTA
Found at i:125216211 original size:9 final size:9
Alignment explanation
Indices: 125216199--125216375 Score: 50
Period size: 9 Copynumber: 19.6 Consensus size: 9
125216189 AAAATCAGAA
125216199 AAAAATTAT
1 AAAAATTAT
125216208 AAAAA-TATT
1 AAAAATTA-T
*
125216217 AAATATTA-
1 AAAAATTAT
*
125216225 AAACCA-T-T
1 AAA-AATTAT
*
125216233 AAAATTTAT
1 AAAAATTAT
*
125216242 ATAAACTTAT
1 A-AAAATTAT
*
125216252 TAAAATTAT
1 AAAAATTAT
*
125216261 AAAAAAATAT
1 -AAAAATTAT
125216271 AAAAACTTATTT
1 AAAAA-TTA--T
125216283 AAAATATT-T
1 AAAA-ATTAT
*
125216292 -AATATT-T
1 AAAAATTAT
125216299 AAAAATTAT
1 AAAAATTAT
* *
125216308 TAGAATTAT
1 AAAAATTAT
*
125216317 TAAAA-TAT
1 AAAAATTAT
*
125216325 TAAAA-TAT
1 AAAAATTAT
*
125216333 TAAAA-TATT
1 AAAAATTA-T
*
125216342 AAAATTTAT
1 AAAAATTAT
* *
125216351 ATAGACTTAT
1 A-AAAATTAT
125216361 AAAAAATTAT
1 -AAAAATTAT
125216371 AAAAA
1 AAAAA
125216376 AAATTCATAA
Statistics
Matches: 129, Mismatches: 21, Indels: 36
0.69 0.11 0.19
Matches are distributed among these distances:
7 4 0.03
8 35 0.27
9 49 0.38
10 32 0.25
11 1 0.01
12 7 0.05
13 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (9 bp):
AAAAATTAT
Found at i:125216253 original size:20 final size:18
Alignment explanation
Indices: 125216200--125216353 Score: 110
Period size: 19 Copynumber: 8.6 Consensus size: 18
125216190 AAATCAGAAA
125216200 AAAATTATA-AAAATATT
1 AAAATTATATAAAATATT
*
125216217 -AAA-TAT-TAAAACCATT
1 AAAATTATATAAAA-TATT
*
125216233 AAAATTTATATAAACTTATT
1 AAAA-TTATATAAA-ATATT
* *
125216253 AAAATTATAAAAAAATATA
1 AAAATTAT-ATAAAATATT
*
125216272 AAAACTTATTTAAAATATTT
1 AAAA-TTATATAAAATA-TT
*
125216292 AATATT-TA-AAAATTATT
1 AAAATTATATAAAA-TATT
*
125216309 AGAATTAT-TAAAATATT
1 AAAATTATATAAAATATT
125216326 AAAA-TAT-TAAAATATT
1 AAAATTATATAAAATATT
125216342 AAAATTTATATA
1 AAAA-TTATATA
125216354 GACTTATAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.07
16 22 0.21
17 20 0.19
18 11 0.10
19 24 0.22
20 23 0.21
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
AAAATTATATAAAATATT
Found at i:125216327 original size:8 final size:8
Alignment explanation
Indices: 125216209--125216346 Score: 73
Period size: 8 Copynumber: 15.6 Consensus size: 8
125216199 AAAAATTATA
125216209 AAAATATT
1 AAAATATT
125216217 -AAATATT
1 AAAATATT
*
125216224 AAAACCATT
1 AAAA-TATT
125216233 AAAATTTATAT
1 AAAA--TAT-T
*
125216244 AAACTTATT
1 AAA-ATATT
*
125216253 AAAATTATAAA
1 AAAA-TAT--T
*
125216264 AAAATATA
1 AAAATATT
125216272 AAAACTTATTT
1 AAAA--TA-TT
125216283 AAAATATT
1 AAAATATT
*
125216291 -TAATATTT
1 AAAATA-TT
125216299 AAAAATTATT
1 -AAAA-TATT
*
125216309 AGAATTATT
1 A-AAATATT
125216318 AAAATATT
1 AAAATATT
125216326 AAAATATT
1 AAAATATT
125216334 AAAATATT
1 AAAATATT
125216342 AAAAT
1 AAAAT
125216347 TTATATAGAC
Statistics
Matches: 103, Mismatches: 11, Indels: 32
0.71 0.08 0.22
Matches are distributed among these distances:
7 11 0.11
8 39 0.38
9 22 0.21
10 16 0.16
11 15 0.15
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (8 bp):
AAAATATT
Found at i:125216344 original size:43 final size:43
Alignment explanation
Indices: 125216281--125216369 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
125216271 AAAAACTTAT
* *
125216281 TTAAAATATTTAATATTTAAAAATTAT-TAGAATTATTAAAATA
1 TTAAAATATTAAATATTTAAAAATTATATAGAATTA-TAAAAAA
* *
125216324 TTAAAATATTAAA-ATATTAAAATTTATATAGACTTATAAAAAA
1 TTAAAATATTAAATAT-TTAAAAATTATATAGAATTATAAAAAA
125216367 TTA
1 TTA
125216370 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 2 0.05
43 31 0.77
44 7 0.17
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (43 bp):
TTAAAATATTAAATATTTAAAAATTATATAGAATTATAAAAAA
Found at i:125216807 original size:19 final size:19
Alignment explanation
Indices: 125216796--125216980 Score: 61
Period size: 20 Copynumber: 9.7 Consensus size: 19
125216786 TTTTATATCA
125216796 ATTTTAATATTTTTATAAT
1 ATTTTAATATTTTTATAAT
125216815 ATTTTAAATATGTTTTATTAAT
1 ATTTT-AATAT-TTTTA-TAAT
* * *
125216837 GTTATAATTTTTTTAATAAT
1 ATTTTAATATTTTT-ATAAT
125216857 -TTATTAGA-A-TTTTAGT--T
1 ATT-TTA-ATATTTTTA-TAAT
* *
125216874 TTTTTAATAATTTTATAAGT
1 ATTTTAATATTTTTATAA-T
* * * *
125216894 GTTTATCA-ATTCTAAT-AT
1 ATTT-TAATATTTTTATAAT
125216912 ATATTTAAT-TTTTTA-AAT
1 AT-TTTAATATTTTTATAAT
* *
125216930 A-TTAAATATTTTTTTATAT
1 ATTTTAATATTTTTATA-AT
* *
125216949 TTTTTGATATTTTT-TAAT
1 ATTTTAATATTTTTATAAT
125216967 -TTTTAATCATTTTT
1 ATTTTAAT-ATTTTT
125216981 GGGAAAAATA
Statistics
Matches: 124, Mismatches: 20, Indels: 45
0.66 0.11 0.24
Matches are distributed among these distances:
16 6 0.05
17 17 0.14
18 28 0.23
19 19 0.15
20 34 0.27
21 13 0.10
22 7 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTTTAATATTTTTATAAT
Found at i:125216831 original size:30 final size:30
Alignment explanation
Indices: 125216797--125216854 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
125216787 TTTATATCAA
* *
125216797 TTTTAATATTTTTATAATATTTTAAATATG
1 TTTTAATAATGTTATAATATTTTAAATATG
* * *
125216827 TTTTATTAATGTTATAATTTTTTTAATA
1 TTTTAATAATGTTATAATATTTTAAATA
125216855 ATTTATTAGA
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:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAATAATGTTATAATATTTTAAATATG
Found at i:125216898 original size:28 final size:28
Alignment explanation
Indices: 125216827--125216898 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
125216817 TTTAAATATG
125216827 TTTTATTAATGTTATAATTTTTTTAATAA
1 TTTTATTAATGTT-TAATTTTTTTAATAA
*
125216856 -TTTATTAGAAT-TTTAGTTTTTTTAATAA
1 TTTTATT--AATGTTTAATTTTTTTAATAA
125216884 TTTTA-TAAGTGTTTA
1 TTTTATTAA-TGTTTA
125216899 TCAATTCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 25 0.68
29 6 0.16
30 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (28 bp):
TTTTATTAATGTTTAATTTTTTTAATAA
Found at i:125216961 original size:18 final size:18
Alignment explanation
Indices: 125216939--125216980 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
125216929 TATTAAATAT
*
125216939 TTTTTTATATTTTTTGAT-A
1 TTTTTTA-A-TTTTTAATCA
125216958 TTTTTTAATTTTTAATCA
1 TTTTTTAATTTTTAATCA
125216976 TTTTT
1 TTTTT
125216981 GGGAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTTTAATCA
Found at i:125216968 original size:8 final size:9
Alignment explanation
Indices: 125216939--125216980 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
125216929 TATTAAATAT
125216939 TTTTTTATA
1 TTTTTTATA
125216948 TTTTTTGATA
1 TTTTTT-ATA
125216958 TTTTTTA-A
1 TTTTTTATA
*
125216966 TTTTTAATCA
1 TTTTTTAT-A
125216976 TTTTT
1 TTTTT
125216981 GGGAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 7 0.24
10 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:125217419 original size:19 final size:20
Alignment explanation
Indices: 125217397--125217442 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
125217387 TATTATAATC
*
125217397 TATATTATAATAATA-GTTA
1 TATATTATAATAATACATTA
* *
125217416 TATATAATAATACTACATTA
1 TATATTATAATAATACATTA
125217436 TATATTA
1 TATATTA
125217443 CTTATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATTATAATAATACATTA
Found at i:125217437 original size:16 final size:16
Alignment explanation
Indices: 125217384--125217451 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
125217374 TTACTATAAC
*
125217384 TATTATTATAAT-CTA
1 TATTATAATAATACTA
*
125217399 TATTATAATAATAGT-
1 TATTATAATAATACTA
125217414 TATATATAATAATACTA
1 TAT-TATAATAATACTA
* *
125217431 CATTAT-ATATTACT-
1 TATTATAATAATACTA
125217445 TATTATA
1 TATTATA
125217452 TATTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 15 0.35
17 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (16 bp):
TATTATAATAATACTA
Found at i:125217451 original size:14 final size:13
Alignment explanation
Indices: 125217432--125217470 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
125217422 ATAATACTAC
125217432 ATTATATATTACTT
1 ATTATATATTA-TT
125217446 ATTATATATTATT
1 ATTATATATTATT
125217459 ATT-TATTATTAT
1 ATTATA-TATTAT
125217471 ACTAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 11 0.46
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:125219157 original size:46 final size:45
Alignment explanation
Indices: 125219097--125219362 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
125219087 TTTGACATGA
* * * * * *
125219097 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
125219143 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
125219189 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
125219235 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
125219281 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
125219319 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
125219363 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:125219326 original size:38 final size:38
Alignment explanation
Indices: 125219275--125219350 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
125219265 ACATTTTATA
125219275 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125219313 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125219351 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:125221516 original size:11 final size:11
Alignment explanation
Indices: 125221500--125221551 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
125221490 TATACTAAAT
125221500 AAATAATAATA
1 AAATAATAATA
*
125221511 AAATAAT-ATT
1 AAATAATAATA
* *
125221521 AAATATCTCATA
1 AAATA-ATAATA
*
125221533 AAATATTAATA
1 AAATAATAATA
125221544 AAATAATA
1 AAATAATA
125221552 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:125224450 original size:46 final size:45
Alignment explanation
Indices: 125224390--125224655 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
125224380 TTTGACATGA
* * * * * *
125224390 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
125224436 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
125224482 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
125224528 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
125224574 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
125224612 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
125224656 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:125224619 original size:38 final size:38
Alignment explanation
Indices: 125224568--125224643 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
125224558 ACATTTTATA
125224568 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125224606 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125224644 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:125226809 original size:11 final size:11
Alignment explanation
Indices: 125226793--125226844 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
125226783 TATACTAAAT
125226793 AAATAATAATA
1 AAATAATAATA
*
125226804 AAATAAT-ATT
1 AAATAATAATA
* *
125226814 AAATATCTCATA
1 AAATA-ATAATA
*
125226826 AAATATTAATA
1 AAATAATAATA
125226837 AAATAATA
1 AAATAATA
125226845 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:125229743 original size:46 final size:45
Alignment explanation
Indices: 125229683--125229949 Score: 348
Period size: 46 Copynumber: 6.0 Consensus size: 45
125229673 TTTGACATGA
* * * * * *
125229683 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
125229729 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
125229775 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
125229821 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
125229867 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C-ATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
125229906 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
125229950 AGAGCACACT
Statistics
Matches: 199, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
39 35 0.18
41 3 0.02
44 4 0.02
45 4 0.02
46 150 0.75
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:125229914 original size:39 final size:39
Alignment explanation
Indices: 125229860--125229939 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
125229850 CACATTTTAT
125229860 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125229899 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
125229938 AT
1 AT
125229940 TTCATATCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (39 bp):
ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:125232102 original size:11 final size:11
Alignment explanation
Indices: 125232086--125232137 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
125232076 TATACTAAAT
125232086 AAATAATAATA
1 AAATAATAATA
*
125232097 AAATAAT-ATT
1 AAATAATAATA
* *
125232107 AAATATCTCATA
1 AAATA-ATAATA
*
125232119 AAATATTAATA
1 AAATAATAATA
125232130 AAATAATA
1 AAATAATA
125232138 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:125233087 original size:105 final size:100
Alignment explanation
Indices: 125232970--125233162 Score: 246
Period size: 105 Copynumber: 1.9 Consensus size: 100
125232960 CTCGTAATGC
*
125232970 CATAACCTAGTTATGGTCTTATCA-TCAAGATACCATAGCCTAGCTATGGTTTTACACTTATACA
1 CATAACCTAGTTATGGTCTTATCACTCAA-ATACCATAGCC-AGCTATGGTCTTACA-TT-TA-A
125233034 CACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
61 -ACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
* * * * *
125233075 CATAATCC-AGTTATGGTCTTTTCACTGAAATGCCATAGCCAGCTATGGTCTTGCATTTAAACAT
1 CATAA-CCTAGTTATGGTCTTATCACTCAAATACCATAGCCAGCTATGGTCTTACATTTAAACAC
*
125233139 TTCCATGGTCCAACCATGGTCTTA
65 TGCCATGGTCCAACCATGGTCTTA
125233163 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
100 26 0.33
101 1 0.01
102 2 0.03
103 2 0.03
104 13 0.16
105 30 0.38
106 5 0.06
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (100 bp):
CATAACCTAGTTATGGTCTTATCACTCAAATACCATAGCCAGCTATGGTCTTACATTTAAACACT
GCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
Done.