Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 40 of 325
Found at i:9877379 original size:18 final size:18
Alignment explanation
Indices: 9877356--9877393 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9877346 TCACAAAGTA
9877356 GAGGATGGCCTATGACAT
1 GAGGATGGCCTATGACAT
9877374 GAGGATGGCCTATGACAT
1 GAGGATGGCCTATGACAT
9877392 GA
1 GA
9877394 CAATGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (18 bp):
GAGGATGGCCTATGACAT
Found at i:9877399 original size:18 final size:18
Alignment explanation
Indices: 9877360--9877399 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9877350 AAAGTAGAGG
**
9877360 ATGGCCTATGACATGAGG
1 ATGGCCTATGACATGACA
9877378 ATGGCCTATGACATGACA
1 ATGGCCTATGACATGACA
9877396 ATGG
1 ATGG
9877400 TTTTTGGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (18 bp):
ATGGCCTATGACATGACA
Found at i:9884348 original size:13 final size:13
Alignment explanation
Indices: 9884330--9884354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9884320 ATTTCAAATA
9884330 ATCAGAAAAAAGT
1 ATCAGAAAAAAGT
9884343 ATCAGAAAAAAG
1 ATCAGAAAAAAG
9884355 AAGAAGAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
ATCAGAAAAAAGT
Found at i:9885177 original size:9 final size:9
Alignment explanation
Indices: 9885155--9885204 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
9885145 TTAAAAAATA
9885155 TTTTATAA-
1 TTTTATAAT
9885163 TTTTATAAT
1 TTTTATAAT
9885172 TTTTAT-AT
1 TTTTATAAT
9885180 TTTTAAATAAT
1 TTTT--ATAAT
* *
9885191 TTTAACAAT
1 TTTTATAAT
9885200 TTTTA
1 TTTTA
9885205 CTTTTAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 14 0.40
9 14 0.40
10 2 0.06
11 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:9885191 original size:19 final size:19
Alignment explanation
Indices: 9885144--9885193 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
9885134 TTTTCTAAAA
*
9885144 TTTAAAAAATATTTTATAAT
1 TTTAAATAAT-TTTTATAAT
*
9885164 TTT--ATAATTTTTATATT
1 TTTAAATAATTTTTATAAT
9885181 TTTAAATAATTTT
1 TTTAAATAATTTT
9885194 AACAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 8 0.31
20 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAATAATTTTTATAAT
Found at i:9892474 original size:22 final size:21
Alignment explanation
Indices: 9892448--9892505 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
9892438 TTTTTAATAT
9892448 ATTTTTAATTTTATATATTTAG
1 ATTTTTAATTTTATATATTT-G
* *
9892470 ATTTTTTTAAGTTTATATATTTT
1 A--TTTTTAATTTTATATATTTG
9892493 ATTTTTAAATTTT
1 ATTTTT-AATTTT
9892506 TTTTGATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 5 0.17
22 6 0.20
23 1 0.03
24 18 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTTTAATTTTATATATTTG
Found at i:9892925 original size:2 final size:2
Alignment explanation
Indices: 9892918--9892954 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9892908 TTAAAAATTA
9892918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9892955 ACATAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9898995 original size:3 final size:3
Alignment explanation
Indices: 9898987--9899345 Score: 93
Period size: 3 Copynumber: 121.0 Consensus size: 3
9898977 TTAATTTTAA
* * * *
9898987 TAT TAT TAT TGT TAT TAT TAG TAT TAT TAT TAA TAT TAT TTT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
9899034 CAT TAT TAT TGT TTT CTAT TTT TAT TAT TGT TAT TAT TAGCC TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT
* * * * * * *
9899082 TAT TCAT ATGT TGT TAT T-T TCT T-T T-T TTT TAAT CAT TAT TGT TAA
1 TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * * * * *
9899127 CA- TAC CAT TAT TAT TAT TGT TAT TTT TAT TA- TCT TAT ATAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* ** * * * * *
9899170 CTAT TAT TAG CGT TAT T-T CAT TAT TAT TAT ATGT TAC TAT CA- CAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * *
9899215 TCAT TAT TTT TAT TAT TAT TAT TCT TTT TAT TAA CAT TAT TAT TAC
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
9899261 TAT TAT T-T T-T TACT T-T TTT TA- TAC TAT AAT GAT TAT CAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
9899303 TCT TAT TAT TAT T-T CT-T TA- TAT TAT TGT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9899346 ATTTTTTTAC
Statistics
Matches: 255, Mismatches: 76, Indels: 50
0.67 0.20 0.13
Matches are distributed among these distances:
2 25 0.10
3 210 0.82
4 17 0.07
5 3 0.01
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9900509 original size:46 final size:46
Alignment explanation
Indices: 9900444--9900686 Score: 258
Period size: 46 Copynumber: 5.3 Consensus size: 46
9900434 TTATCTTTGA
* * * * *
9900444 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTAT
* ** *
9900490 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TAT
* ** * **
9900536 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCT-T
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTAT
* * *
9900581 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTAT
* * *
9900627 CCTGTTGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TAT
9900673 CATGTTGCCATGGT
1 CATGTTGCCATGGT
9900687 CTTACACATT
Statistics
Matches: 166, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 43 0.26
46 121 0.73
47 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTAT
Found at i:9900607 original size:91 final size:92
Alignment explanation
Indices: 9900449--9900683 Score: 285
Period size: 91 Copynumber: 2.6 Consensus size: 92
9900439 TTTGACATGA
* * * * * *
9900449 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATGTTGCCATAGTATCTTTCAAC
*** *
9900514 CATGGTCTTGTTCATTTCATGTTAC-AT
66 CATGGTCTTACACATTTCAT-ATACTAT
* * *
9900541 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCT-TCATGTTGCCATAGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATGTTGCCATAGTATCTTTCAAC
* * *
9900605 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTCATATACTAT
* *
9900632 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCAT
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATGTTGCCAT
9900684 GGTCTTACAC
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 2 0.02
91 74 0.61
92 45 0.37
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATGTTGCCATAGTATCTTTCAAC
CATGGTCTTACACATTTCATATACTAT
Found at i:9900688 original size:30 final size:30
Alignment explanation
Indices: 9900652--9900716 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
9900642 TCTTTCAACT
9900652 ATGGTCTTACACATTTCATATCATGTTGCC
1 ATGGTCTTACACATTTCATATCATGTTGCC
* *
9900682 ATGGTCTTACACATTTTATATCCTGTTGCC
1 ATGGTCTTACACATTTCATATCATGTTGCC
9900712 ATGGT
1 ATGGT
9900717 ATCTTTCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (30 bp):
ATGGTCTTACACATTTCATATCATGTTGCC
Found at i:9900689 original size:76 final size:76
Alignment explanation
Indices: 9900604--9900762 Score: 300
Period size: 76 Copynumber: 2.1 Consensus size: 76
9900594 TATCTTTCAA
*
9900604 CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTC
1 CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
9900669 ATATCATGTTG
66 ATATCATGTTG
9900680 CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
9900745 ATATCATGTTT
66 ATATCATGTTG
9900756 CCATGGT
1 CCATGGT
9900763 GTCTTTCAAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (76 bp):
CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
ATATCATGTTG
Found at i:9900729 original size:122 final size:122
Alignment explanation
Indices: 9900583--9900808 Score: 389
Period size: 122 Copynumber: 1.9 Consensus size: 122
9900573 ATTCCCTTCA
* *
9900583 TGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTC
1 TGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTC
* *
9900648 AACTATGGTCTTACACATTTCATATCATGTTGCCATGGTCTTACACATTTTATATCC
66 AACCATGGTCTTACACATTTCATATCATATTGCCATGGTCTTACACATTTTATATCC
* * *
9900705 TGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTGTCTTTC
1 TGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTC
9900770 AACCATGGTCTTACACATTTCATATCATATTGCCATGGT
66 AACCATGGTCTTACACATTTCATATCATATTGCCATGGT
9900809 GTCTTTCAAC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 97 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (122 bp):
TGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTC
AACCATGGTCTTACACATTTCATATCATATTGCCATGGTCTTACACATTTTATATCC
Found at i:9900730 original size:46 final size:46
Alignment explanation
Indices: 9900680--9900884 Score: 365
Period size: 46 Copynumber: 4.5 Consensus size: 46
9900670 TATCATGTTG
* * *
9900680 CCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
*
9900726 CCATGGTCTTACACATTTCATATCATGTTTCCATGGTGTCTTTCAA
1 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
*
9900772 CCATGGTCTTACACATTTCATATCATATTGCCATGGTGTCTTTCAA
1 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
9900818 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
1 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
9900864 CCATGGTCTTACACATTTCAT
1 CCATGGTCTTACACATTTCAT
9900885 TTCAGAAAGC
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 152 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
CCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAA
Found at i:9903036 original size:8 final size:8
Alignment explanation
Indices: 9903023--9903047 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9903013 ATATATACTA
9903023 AATAAAAT
1 AATAAAAT
9903031 AATAAAAT
1 AATAAAAT
9903039 AATAAAAT
1 AATAAAAT
9903047 A
1 A
9903048 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:9908273 original size:45 final size:45
Alignment explanation
Indices: 9908145--9908490 Score: 306
Period size: 45 Copynumber: 7.6 Consensus size: 45
9908135 AATAAGAGGG
**
9908145 CTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
9908190 TTAAAGCTACAAATTA-CTA-GTCTTATCTCTCTGAAGTTGCTA-TGGAGCAGA
1 CT---G--A-AGA-TAGC-AGGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGA
* *
9908241 CTGAGGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGA
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * *
9908286 CTGAAGATAGCAGGTCTTATCTCCCTAAAGTTACAGCGGAGTAGA
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* ** ** * *
9908331 CTGAAGATAACAGACCTTATCTCTTTAAAGTTGCAGTGGAGCAGG
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
9908376 TTGAAG-TAACAGGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * * **
9908420 CTGAAGATAGTAGATCTTATCTCCCTGAAGTTACAGTGGAATAGA
1 CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* **
9908465 -TCGAAGATAGTAAATCTTATCTCCCT
1 CT-GAAGATAGCAGGTCTTATCTCCCT
9908491 AAGCAGTAGT
Statistics
Matches: 248, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
44 43 0.17
45 165 0.67
46 1 0.00
48 2 0.01
50 1 0.00
51 32 0.13
52 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
Found at i:9908418 original size:134 final size:135
Alignment explanation
Indices: 9908211--9908473 Score: 370
Period size: 134 Copynumber: 2.0 Consensus size: 135
9908201 AATTACTAGT
* * *
9908211 CTTATCTCTCTGAAGTTGCTATGGAGCAGACTGAGGATAGCAGGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCTCTAAAGTTGCTATGGAGCAGACTGAAGATAACAGGTCTTATCTCCCTGAAGTTGCA
* *
9908276 GTGCAGCAGACTGAAGATAGCAGGTCTTATCTCCCTAAAGTTACAGCGGAGTAGA-CTGAAGATA
66 GTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAGTTACAGCGGAATAGATC-GAAGATA
9908340 ACAGAC
130 ACAGAC
* ** *
9908346 CTTATCTCTTTAAAGTTGC-AGTGGAGCAGGTTGAAG-TAACAGGTCTTATCTCCTTGAAGTTGC
1 CTTATCTCTCTAAAGTTGCTA-TGGAGCAGACTGAAGATAACAGGTCTTATCTCCCTGAAGTTGC
* * * *
9908409 AGTGGAGCAGACTGAAGATAGTAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAGATA
65 AGTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAGTTACAGCGGAATAGATCGAAGATA
9908474 GTAAATCTTA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
134 83 0.73
135 30 0.27
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (135 bp):
CTTATCTCTCTAAAGTTGCTATGGAGCAGACTGAAGATAACAGGTCTTATCTCCCTGAAGTTGCA
GTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAGTTACAGCGGAATAGATCGAAGATAA
CAGAC
Found at i:9908502 original size:89 final size:88
Alignment explanation
Indices: 9908145--9908506 Score: 268
Period size: 89 Copynumber: 4.0 Consensus size: 88
9908135 AATAAGAGGG
* * *
9908145 CTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATTA-CTA
1 CTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----CGA-AGA-TAGC-A
* *
9908209 -GTCTTATCTCTCTGAAGTTGCTA-TGGAGCAGA
58 GGTCTTATCTCCCT-AAG-AG-TAGTGGAGCAGA
* * *
9908241 CTGAGGATAGCAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGA-CTGAAGATAGCAGGTCTTA
1 CTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGATAGCAGGTCTTA
* *
9908305 TCTCCCTAA-AGTTACAGCGGAGTAGA
65 TCTCCCTAAGAG-T--AGTGGAGCAGA
* * ** * * * *
9908331 CTGAAGATAACAGACCTTATCTCTTTAAAGTTGCAGTGGAGCAGGTTGAAG-TAACAGGTCTTAT
1 CTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAGGTCTTAT
* * *
9908395 CTCCTTGAAGTTGCAGTGGAGCAGA
66 CTCCCT-AAG-AGTAGTGGAGCAGA
* * ** * **
9908420 CTGAAGATAGTAGATCTTATCTCCCTGAAGTTACAGTGGAATAGATCGAAGATAGTAAATCTTAT
1 CTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAGGTCTTAT
9908485 CTCCCTAAGCAGTAGTGGAGCA
66 CTCCCTAAG-AGTAGTGGAGCA
9908507 TATCAAAGAC
Statistics
Matches: 209, Mismatches: 46, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
87 2 0.01
89 85 0.41
90 79 0.38
91 1 0.00
92 1 0.00
96 41 0.20
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
CTGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAGGTCTTAT
CTCCCTAAGAGTAGTGGAGCAGA
Found at i:9908529 original size:134 final size:133
Alignment explanation
Indices: 9908251--9908515 Score: 318
Period size: 134 Copynumber: 2.0 Consensus size: 133
9908241 CTGAGGATAG
*
9908251 CAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAGGTCTTATCTCCCTAAAG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAG
* * ** ** * **
9908316 TTACAGCGGAGTAGACTGAAGATAACAGACCTTATCTCTTTAAAGTTGCAGTGGAGCAGGTTGAA
66 TTACAGCGGAATAGACTGAAGATAACAAACCTTATCTCCCTAAAGCAGCAGTGGAGCAGATCAAA
9908381 GTAA
131 G-AA
* * * *
9908385 CAGGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAGATCTTATCTCCCTGAAG
1 CAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAG
* ** * * *
9908450 TTACAGTGGAATAGA-TCGAAGATAGTAAATCTTATCTCCCT-AAGCAGTAGTGGAGCATATCAA
66 TTACAGCGGAATAGACT-GAAGATAACAAACCTTATCTCCCTAAAGCAGCAGTGGAGCAGATCAA
9908513 AGA
130 AGA
9908516 CGGTGAATTT
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
132 1 0.01
133 18 0.16
134 91 0.83
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (133 bp):
CAGGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAGATCTTATCTCCCTAAAG
TTACAGCGGAATAGACTGAAGATAACAAACCTTATCTCCCTAAAGCAGCAGTGGAGCAGATCAAA
GAA
Found at i:9908631 original size:44 final size:45
Alignment explanation
Indices: 9908568--9908663 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 45
9908558 AGCCACCAGC
* * * *
9908568 CTTATCTCCTTGAAGTTGTAGGGGAGTAGGTTCAAGATA-CAAGT
1 CTTATCTCCCTGAAGTTGTAGGGGAGCAGATTCAAGATAGCAAAT
* * *
9908612 CTTATCTCCCTGAATTTGTAGTGGAGCAGATTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGTAGGGGAGCAGATTCAAGATAGCAAAT
9908657 CTTATCT
1 CTTATCT
9908664 TCCTAAGCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 33 0.75
45 11 0.25
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGTAGGGGAGCAGATTCAAGATAGCAAAT
Found at i:9909443 original size:17 final size:19
Alignment explanation
Indices: 9909404--9909444 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9909394 AAAGGTCTGA
9909404 GTTTTTTTTTCCTCTTATC
1 GTTTTTTTTTCCTCTTATC
*
9909423 -TTTTTTTTTCGT-TT-TC
1 GTTTTTTTTTCCTCTTATC
9909439 GTTTTT
1 GTTTTT
9909445 ACTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 7 0.35
18 11 0.55
ACGTcount: A:0.02, C:0.15, G:0.07, T:0.76
Consensus pattern (19 bp):
GTTTTTTTTTCCTCTTATC
Found at i:9914665 original size:31 final size:29
Alignment explanation
Indices: 9914606--9914698 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 29
9914596 AATATGTATG
*
9914606 ATTAAATCAATATTAAAGTTT-CGAGTATATA
1 ATTAAATCAA-ATTAAAATTTAC--GTATATA
* *
9914637 TTTAAATCAAAATTAGAATTTTACGTATATA
1 ATTAAATC-AAATTA-AAATTTACGTATATA
* *
9914668 ATTACATCAAATTAAAATTTATGTATATA
1 ATTAAATCAAATTAAAATTTACGTATATA
9914697 AT
1 AT
9914699 AACACATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 15 0.28
30 6 0.11
31 24 0.45
32 7 0.13
33 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (29 bp):
ATTAAATCAAATTAAAATTTACGTATATA
Found at i:9914688 original size:29 final size:31
Alignment explanation
Indices: 9914630--9914698 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
9914620 AAAGTTTCGA
* *
9914630 GTATATATTTAAATCAAAATTAGAATTTTAC
1 GTATATAATTAAATCAAAATTAGAAATTTAC
* *
9914661 GTATATAATTACATC-AAATTA-AAATTTAT
1 GTATATAATTAAATCAAAATTAGAAATTTAC
9914690 GTATATAAT
1 GTATATAAT
9914699 AACACATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.44
30 6 0.18
31 13 0.38
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (31 bp):
GTATATAATTAAATCAAAATTAGAAATTTAC
Found at i:9914711 original size:2 final size:2
Alignment explanation
Indices: 9914706--9914740 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9914696 AATAACACAT
9914706 TA TA TA TA 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 TA TA TA TA T
9914741 CCATATGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9915649 original size:19 final size:18
Alignment explanation
Indices: 9915627--9915679 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
9915617 ATTACAAAAT
*
9915627 AATTCAAAATAGTTTTTAA
1 AATTCAAAATA-TTTATAA
*
9915646 AATTCATAATATTTATAA
1 AATTCAAAATATTTATAA
*
9915664 AATTCCAAA-ATTTATA
1 AATTCAAAATATTTATA
9915680 TGTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 7 0.23
18 13 0.43
19 10 0.33
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:9915666 original size:18 final size:19
Alignment explanation
Indices: 9915627--9915674 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9915617 ATTACAAAAT
*
9915627 AATTCAAAATAGTTTTTAA
1 AATTCAAAATAGTTTATAA
*
9915646 AATTCATAATA-TTTATAA
1 AATTCAAAATAGTTTATAA
9915664 AATTCCAAAAT
1 AATT-CAAAAT
9915675 TTATATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTCAAAATAGTTTATAA
Found at i:9916110 original size:2 final size:2
Alignment explanation
Indices: 9916103--9916131 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9916093 TTAATTAATG
9916103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9916132 CTTAGCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9917652 original size:96 final size:99
Alignment explanation
Indices: 9917535--9917778 Score: 262
Period size: 96 Copynumber: 2.4 Consensus size: 99
9917525 AATTTTAAGG
* * ** *
9917535 TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACT-A-TTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAATTTT
9917598 TT-AAAAAATTAGATTATGGTTTAGTGTTTATGGT
65 TTAAAAAAATTAGATTATGGTTTAGTGTTTATGGT
*
9917632 TTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT-AATTTT
*
9917696 TTAAAAAAATTAGATTAGGATTTTAGGGTTTAGGGATTTATGGT
65 TTAAAAAAATTAGATT---A---T--GGTTTAGTG-TTTATGGT
* * * *
9917740 ATTTAAGAAAAAAAATTAAATAAATTAGGGTTTGGGGTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTT
9917779 TAGGGTAACT
Statistics
Matches: 122, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
95 1 0.01
96 42 0.34
97 9 0.07
98 5 0.04
99 13 0.11
102 1 0.01
105 1 0.01
107 8 0.07
108 14 0.11
109 28 0.23
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (99 bp):
TTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTT
TAAAAAAATTAGATTATGGTTTAGTGTTTATGGT
Found at i:9918107 original size:126 final size:126
Alignment explanation
Indices: 9917809--9918109 Score: 462
Period size: 126 Copynumber: 2.4 Consensus size: 126
9917799 ATTTGTTAAT
* *
9917809 CTAAAA-AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTAAAAAAATAAATTTGAGAA
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAA
*
9917873 GACGTGTCTGCGCAAATAGTGTCAAAAACGCTTCAAGCATGATGCATTGTCAGCAAAAGTA
66 GACGTGTCTGCGCAAATAGTGTCAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTA
* * * * *
9917934 CTGAAAGAAGCTTCCACGTGGACGCTCTTTTGTTACAATAATCTCTGAAAAAATAATTTTGAGAA
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAA
*
9917999 GACGTGTCTGCGCAAATAGTGGT-AAAAACGCTTCAAGCAAGATGCATTTTCAGCAAAAGTA
66 GACGTGTCTGCGCAAATAGT-GTCAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTA
* * * *
9918060 CTAAAAGAAGCTCCCACATGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
9918110 TAACTTGGGC
Statistics
Matches: 157, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
125 5 0.03
126 150 0.96
127 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
CTAAAAGAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAA
GACGTGTCTGCGCAAATAGTGTCAAAAACGCTTCAAGCAAGATGCATTGTCAGCAAAAGTA
Found at i:9921309 original size:116 final size:116
Alignment explanation
Indices: 9921134--9921516 Score: 676
Period size: 116 Copynumber: 3.3 Consensus size: 116
9921124 TTTATATTTT
* * *
9921134 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
9921199 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
9921250 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
9921315 AAAATGTAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
9921366 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
9921431 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
9921482 ATTACATAAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
9921517 TGTACAAATA
Statistics
Matches: 255, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 255 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:9921493 original size:58 final size:58
Alignment explanation
Indices: 9921199--9921494 Score: 188
Period size: 54 Copynumber: 5.1 Consensus size: 58
9921189 CATTTTATTA
* * *
9921199 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACAT
1 AAAATATAAAAGTAAATTAAAATTACTTTATTTAAAACAACCTTTTATCTTATTACAT
* * * * * *
9921257 GAAATAATATAAAA--ATATTCAAAATGTTGCCTTATTTAAAATAA--TTTCCATTTTATT--A-
1 --AA-AATATAAAAGTAAATT-AAAA--TTACTTTATTTAAAACAACCTTT-TATCTTATTACAT
* * *
9921315 AAAATGTAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACAT
1 AAAATATAAAAGTAAATTAAAATTACTTTATTTAAAACAACCTTTTATCTTATTACAT
* * * * * *
9921373 GAAATAATATAAAA--ATATTCAAAATGTTGCCTTATTTAAAATAA--TTTCCATTTTATT--A-
1 --AA-AATATAAAAGTAAATT-AAAA--TTACTTTATTTAAAACAACCTTT-TATCTTATTACAT
* *
9921431 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACAT
1 AAAATATAAAAGTAAATTAAAATTACTTTATTTAAAACAACCTTTTATCTTATTACAT
9921489 AAAATA
1 AAAATA
9921495 ATATAAAAAG
Statistics
Matches: 176, Mismatches: 34, Indels: 54
0.67 0.13 0.20
Matches are distributed among these distances:
54 30 0.17
55 29 0.16
56 16 0.09
57 10 0.06
58 6 0.03
59 10 0.06
60 16 0.09
61 29 0.16
62 30 0.17
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.39
Consensus pattern (58 bp):
AAAATATAAAAGTAAATTAAAATTACTTTATTTAAAACAACCTTTTATCTTATTACAT
Found at i:9921927 original size:18 final size:18
Alignment explanation
Indices: 9921901--9921942 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9921891 GACTAGAAAA
* *
9921901 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
9921919 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
9921937 AGGATA
1 AGGATA
9921943 TGTACCTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:9922038 original size:30 final size:30
Alignment explanation
Indices: 9921997--9922062 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
9921987 GTTGAACTGT
*
9921997 TGGGCCCGGTGACTGTGTAGGTCCTGTTGC
1 TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
* * * *
9922027 TGGGCCGGGTGATTGTGTGGGTGCTGTTGA
1 TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
9922057 TGGGCC
1 TGGGCC
9922063 TGCGTCGTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.06, C:0.18, G:0.45, T:0.30
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTAGGTCCTGTTGA
Found at i:9923747 original size:22 final size:22
Alignment explanation
Indices: 9923735--9923784 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
9923725 TAACGAGATT
9923735 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
9923757 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
9923777 TTTGAGAG
1 TTTGAGAG
9923785 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:9923758 original size:11 final size:11
Alignment explanation
Indices: 9923735--9923786 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
9923725 TAACGAGATT
*
9923735 TTTGAGAGGAA
1 TTTGAGAGAAA
*
9923746 TTTAAGAGAAA
1 TTTGAGAGAAA
9923757 TTTGAGAG--A
1 TTTGAGAGAAA
9923766 TTTGAGAGAAA
1 TTTGAGAGAAA
9923777 TTTGAGAGAA
1 TTTGAGAGAA
9923787 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:9923798 original size:31 final size:31
Alignment explanation
Indices: 9923735--9923798 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
9923725 TAACGAGATT
* *
9923735 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
9923766 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
9923797 TT
1 TT
9923799 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:9925167 original size:15 final size:15
Alignment explanation
Indices: 9925147--9925176 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9925137 TTTAATCTTT
*
9925147 TATAAATTATAAAAA
1 TATAAACTATAAAAA
9925162 TATAAACTATAAAAA
1 TATAAACTATAAAAA
9925177 ATTAAAATTT
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:9926181 original size:17 final size:17
Alignment explanation
Indices: 9926161--9926195 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9926151 AATATATTAT
9926161 TAAAATAT-TTATAAAAA
1 TAAAATATATTA-AAAAA
9926178 TAAAATATATTAAAAAA
1 TAAAATATATTAAAAAA
9926195 T
1 T
9926196 TTAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATATTAAAAAA
Found at i:9926715 original size:2 final size:2
Alignment explanation
Indices: 9926708--9926732 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9926698 AGGACACTTT
9926708 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 T
9926733 TCTTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9934453 original size:8 final size:8
Alignment explanation
Indices: 9934440--9934494 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
9934430 GTAAGAAAAT
9934440 ATTATTAA
1 ATTATTAA
9934448 ATTATTAA
1 ATTATTAA
9934456 ATT-TT-A
1 ATTATTAA
9934462 ATTAGTT-A
1 ATTA-TTAA
*
9934470 ATTATTAT
1 ATTATTAA
*
9934478 ATTGTTAA
1 ATTATTAA
9934486 CATTATTAA
1 -ATTATTAA
9934495 TTTTTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 4 0.10
7 4 0.10
8 24 0.62
9 7 0.18
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (8 bp):
ATTATTAA
Found at i:9934465 original size:22 final size:25
Alignment explanation
Indices: 9934440--9934494 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 25
9934430 GTAAGAAAAT
9934440 ATTATTAAATTATTAAATT-TT-A-
1 ATTATTAAATTATTAAATTGTTAAC
*
9934462 ATTAGTT-AATTATTATATTGTTAAC
1 ATTA-TTAAATTATTAAATTGTTAAC
9934487 ATTATTAA
1 ATTATTAA
9934495 TTTTTTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 15 0.56
23 4 0.15
24 3 0.11
25 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTATTAAATTATTAAATTGTTAAC
Found at i:9936547 original size:24 final size:25
Alignment explanation
Indices: 9936501--9936561 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 25
9936491 AATTTTCCGA
*
9936501 AATTGTATATTTTGTTTTACATCCC
1 AATTGTATACTTTGTTTTACATCCC
9936526 AATTGTATACTTT-TTTTACATCCC
1 AATTGTATACTTTGTTTTACATCCC
* *
9936550 AAATGTACACTT
1 AATTGTATACTT
9936562 ATTCACAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 21 0.64
25 12 0.36
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.48
Consensus pattern (25 bp):
AATTGTATACTTTGTTTTACATCCC
Found at i:9943404 original size:33 final size:33
Alignment explanation
Indices: 9943361--9943522 Score: 209
Period size: 33 Copynumber: 4.9 Consensus size: 33
9943351 TCTTTCCGAG
*
9943361 TGGTACACACAAAGTATACCTTTCCTTTTCAAA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
** * *
9943394 TGGTATACACAAAGTATACCTAACCTTTCCAAG
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
* * * *
9943427 T-GTACACACAAAGTGTACATATCCTTTTCAAA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
* * *
9943459 TGGTATACACAAAGTATACATTTCCTTTTCTAG
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
9943492 TGGTATACACAAAGTATACCTTTCCTTTTCA
1 TGGTATACACAAAGTATACCTTTCCTTTTCA
9943523 CATTCGATAG
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
32 26 0.24
33 84 0.76
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCAAA
Found at i:9943432 original size:65 final size:66
Alignment explanation
Indices: 9943352--9943522 Score: 245
Period size: 65 Copynumber: 2.6 Consensus size: 66
9943342 GTGTATGTTT
* *
9943352 CTTTCCGAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACATAA
9943417 C
66 C
* * * **
9943418 CTTTCCAAGT-GTACACACAAAGTGTACATATCCTTTTCAAATGGTATACACAAAGTATACATTT
1 CTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACATAA
9943482 C
66 C
* * *
9943483 CTTTTCTAGTGGTATACACAAAGTATACCTTTCCTTTTCA
1 CTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCA
9943523 CATTCGATAG
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 57 0.63
66 34 0.37
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (66 bp):
CTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACATAA
C
Found at i:9943560 original size:29 final size:29
Alignment explanation
Indices: 9943515--9943806 Score: 416
Period size: 29 Copynumber: 10.3 Consensus size: 29
9943505 GTATACCTTT
9943515 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9943544 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
9943573 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * *
9943602 CCTTTTTACGTCCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9943631 CCTTTTCACATTCGAT------AGCTATT
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9943654 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
9943683 CTTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
** *
9943712 GTTTTTTACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
9943741 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
9943770 CCTTTTCACATTTGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
9943799 CCTTTTCA
1 CCTTTTCA
9943807 AATTGTACAC
Statistics
Matches: 234, Mismatches: 23, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
23 22 0.09
29 212 0.91
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:9943657 original size:23 final size:23
Alignment explanation
Indices: 9943624--9943701 Score: 93
Period size: 23 Copynumber: 3.1 Consensus size: 23
9943614 CGATAGCCGA
*
9943624 AGCTATCCCTTTTCACATTCGAT
1 AGCTATTCCTTTTCACATTCGAT
9943647 AGCTATTCCTTTTCACATTCGAT
1 AGCTATTCCTTTTCACATTCGAT
9943670 AGCTGAAGCTATCCTTTTTCACATTCGAT
1 AGCT--A--T-TCC-TTTTCACATTCGAT
9943699 AGC
1 AGC
9943702 CAAAGCTATC
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
23 26 0.54
25 1 0.02
27 1 0.02
28 3 0.06
29 17 0.35
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (23 bp):
AGCTATTCCTTTTCACATTCGAT
Found at i:9943718 original size:110 final size:110
Alignment explanation
Indices: 9943537--9943806 Score: 387
Period size: 110 Copynumber: 2.4 Consensus size: 110
9943527 CGATAGCCGA
* *
9943537 AGCTATCCCTTTTCACATTTGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATC
1 AGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATC
*
9943602 CCTTTTTACGTCCGATAGCCGAAGCTATCCCTTTTCACATTCGAT
66 CCTTTTTACATCCGATAGCCGAAGCTATCCCTTTTCACATTCGAT
* * *
9943647 AGCTATTCCTTTTCACATTCGATAGCTGAAGCTATCCTTTTTCACATTCGATAGCCAAAGCTATC
1 AGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATC
** *
9943712 GTTTTTTACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGAT
66 CCTTTTTACATCCGATAGCCGAAGCTATCCCTTTTCACATTCGAT
* *
9943757 AGCCAAAGCTATCCCTTTTCACATTTGATAGTCGAAGCTATCCCTTTTCA
1 ------AGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCA
9943807 AATTGTACAC
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
110 101 0.72
116 39 0.28
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (110 bp):
AGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATC
CCTTTTTACATCCGATAGCCGAAGCTATCCCTTTTCACATTCGAT
Found at i:9943766 original size:139 final size:139
Alignment explanation
Indices: 9943513--9943787 Score: 442
Period size: 139 Copynumber: 2.0 Consensus size: 139
9943503 AAGTATACCT
* *
9943513 TTCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTTGATAGCCGAAGCTATCCCTTT
1 TTCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATCCCTTT
* * *
9943578 TCACATTCGATAGCCGAAGCTATCCCTTTTTACGTCCGATAGCCGAAGCTATCCCTTTTCACATT
66 TCACATTCGATAGCCGAAGCTATCCCTTTTCACATCCGATAGCCAAAGCTATCCCTTTTCACATT
9943643 CGATAGCTA
131 CGATAGCTA
* * **
9943652 TTCCTTTTCACATTCGATAGCTGAAGCTATCCTTTTTCACATTCGATAGCCAAAGCTATCGTTTT
1 TTCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATCCCTTT
* *
9943717 TTACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATT
66 TCACATTCGATAGCCGAAGCTATCCCTTTTCACATCCGATAGCCAAAGCTATCCCTTTTCACATT
*
9943782 TGATAG
131 CGATAG
9943788 TCGAAGCTAT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 124 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (139 bp):
TTCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACATTCGATAGCCAAAGCTATCCCTTT
TCACATTCGATAGCCGAAGCTATCCCTTTTCACATCCGATAGCCAAAGCTATCCCTTTTCACATT
CGATAGCTA
Found at i:9951982 original size:39 final size:39
Alignment explanation
Indices: 9951939--9952136 Score: 308
Period size: 39 Copynumber: 5.1 Consensus size: 39
9951929 ATGCAAGATA
*
9951939 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
9951978 CTGGAAATGTATCTGGGCTAAAGT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
9952016 CTGGAAATGTATCCGGGCTAAAGTCCTGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
9952055 CTGGAAATATATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
9952094 CAGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
9952133 CTGG
1 CTGG
9952137 TAATATAATT
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 36 0.25
39 109 0.75
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:9955421 original size:24 final size:24
Alignment explanation
Indices: 9955394--9955441 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9955384 TGTGGACACA
9955394 AACACA-GCTCTTCATGAGCATCCT
1 AACACAGGCTCTT-ATGAGCATCCT
* *
9955418 AACATAGGCTCTTATGAGCTTCCT
1 AACACAGGCTCTTATGAGCATCCT
9955442 GACATGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (24 bp):
AACACAGGCTCTTATGAGCATCCT
Found at i:9955446 original size:24 final size:24
Alignment explanation
Indices: 9955400--9955451 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
9955390 CACAAACACA
9955400 GCTCTTCATGAGCATCCTAACATAG
1 GCTCTTCATGAGCATCCTAACAT-G
* *
9955425 GCTCTT-ATGAGCTTCCTGACATG
1 GCTCTTCATGAGCATCCTAACATG
9955448 GCTC
1 GCTC
9955452 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (24 bp):
GCTCTTCATGAGCATCCTAACATG
Found at i:9955829 original size:2 final size:2
Alignment explanation
Indices: 9955822--9955847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9955812 ATGATATAAA
9955822 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
9955848 GAAAATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9958987 original size:42 final size:42
Alignment explanation
Indices: 9958907--9958988 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
9958897 ACACGGGAGT
* * *
9958907 GTGTTTCAGCCTTATGAGACATAAGACCTAGCACATGGGCAC
1 GTGTTTCAGCCATATGAGACATAAGACCCAACACATGGGCAC
* * *
9958949 GTGTTTCAGCCATGTGAGACATACGACCCAACATATGGGC
1 GTGTTTCAGCCATATGAGACATAAGACCCAACACATGGGC
9958989 GTGTGTCCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (42 bp):
GTGTTTCAGCCATATGAGACATAAGACCCAACACATGGGCAC
Found at i:9968910 original size:26 final size:26
Alignment explanation
Indices: 9968879--9968986 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9968869 TGAAATGCCC
*
9968879 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9968905 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9968931 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9968957 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9968983 ATCA
1 ATCA
9968987 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9971661 original size:2 final size:2
Alignment explanation
Indices: 9971654--9971683 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9971644 ATGATATGGA
9971654 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
9971684 GAAAAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9973335 original size:12 final size:12
Alignment explanation
Indices: 9973303--9973333 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9973293 AACCCACTCA
9973303 TATTTTTTATAT
1 TATTTTTTATAT
9973315 TATTTTTTATA-
1 TATTTTTTATAT
9973326 TATTTTTT
1 TATTTTTT
9973334 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTTATAT
Found at i:9973593 original size:11 final size:11
Alignment explanation
Indices: 9973573--9973621 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
9973563 AAAATAGTGA
9973573 AAGAATAACAAT
1 AAGAA-AACAAT
9973585 AAGAAAACAAT
1 AAGAAAACAAT
**
9973596 AA-AAAA-AGC
1 AAGAAAACAAT
9973605 AAGAAAACAAT
1 AAGAAAACAAT
9973616 AA-AAAA
1 AAGAAAA
9973622 ATAGTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 3 0.10
10 12 0.39
11 11 0.35
12 5 0.16
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAGAAAACAAT
Found at i:9973610 original size:20 final size:20
Alignment explanation
Indices: 9973585--9973622 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9973575 GAATAACAAT
9973585 AAGAAAACAATAAAAAAAGC
1 AAGAAAACAATAAAAAAAGC
9973605 AAGAAAACAATAAAAAAA
1 AAGAAAACAATAAAAAAA
9973623 TAGTAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.05
Consensus pattern (20 bp):
AAGAAAACAATAAAAAAAGC
Found at i:9978127 original size:21 final size:20
Alignment explanation
Indices: 9978084--9978135 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
9978074 TTTTGAGGTG
9978084 GGTATCGATA--TAAGCCTA
1 GGTATCGATACCTAAGCCTA
*
9978102 GGTATCGATACCTAGGCCTAA
1 GGTATCGATACCTAAGCCT-A
9978123 GGTATCGATACCT
1 GGTATCGATACCT
9978136 TCATCAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (20 bp):
GGTATCGATACCTAAGCCTA
Found at i:9979176 original size:2 final size:2
Alignment explanation
Indices: 9979171--9979205 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9979161 ACACACACAC
9979171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9979206 CTTTCTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9988383 original size:37 final size:36
Alignment explanation
Indices: 9988331--9988406 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
9988321 ATTCCAAAAA
*
9988331 TAATATTATTTTAATAGT-TTAATATTTAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATA-TTAATTTAATAT
*
9988367 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
9988404 TAA
1 TAA
9988407 ATTTATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 15 0.43
37 18 0.51
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:9988413 original size:20 final size:20
Alignment explanation
Indices: 9988388--9988459 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
9988378 TTAATAGTAT
9988388 TTTATTAATTTAATATTAAA
1 TTTATTAATTTAATATTAAA
*
9988408 TTTATT-ATCTTGATATTAAA
1 TTTATTAAT-TTAATATTAAA
9988428 -TTA--AATTTAATATTAAA
1 TTTATTAATTTAATATTAAA
* *
9988445 GTAATTAAATTTAAT
1 TTTATT-AATTTAAT
9988460 TATAGTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
17 10 0.23
18 4 0.09
19 5 0.12
20 16 0.37
21 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTATTAATTTAATATTAAA
Found at i:9988413 original size:25 final size:25
Alignment explanation
Indices: 9988385--9988468 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
9988375 ATCTTAATAG
*
9988385 TATTTTATTAAT-TTAATATTAAATT
1 TATTATATTAATATTAA-ATTAAATT
* *
9988410 TATTATCTTGATATTAAATTAAATT
1 TATTATATTAATATTAAATTAAATT
*
9988435 TA--ATATTAA-AGT-AATTAAATT
1 TATTATATTAATATTAAATTAAATT
9988456 TAATTATAGTTAA
1 T-ATTATA-TTAA
9988469 ACTTTCTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
21 10 0.21
22 3 0.06
23 5 0.10
24 3 0.06
25 23 0.48
26 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAATT
Found at i:9992014 original size:13 final size:13
Alignment explanation
Indices: 9991996--9992025 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9991986 TTCTTGTAAA
9991996 CATTTCATACAAC
1 CATTTCATACAAC
*
9992009 CATTTCATATAAC
1 CATTTCATACAAC
9992022 CATT
1 CATT
9992026 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:9992219 original size:46 final size:46
Alignment explanation
Indices: 9992109--9992284 Score: 237
Period size: 46 Copynumber: 3.7 Consensus size: 46
9992099 TTATCTTTGA
* * * *
9992109 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGT
9992159 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
* *
9992205 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
*
9992251 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
9992285 CACATTTCAT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
45 5 0.04
46 84 0.71
47 1 0.01
49 1 0.01
50 27 0.23
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
Found at i:9992291 original size:46 final size:46
Alignment explanation
Indices: 9992162--9992299 Score: 231
Period size: 46 Copynumber: 3.0 Consensus size: 46
9992152 TTTCTGTCAT
* * *
9992162 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
9992208 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
9992254 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
9992300 AGAGCACACT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:9994400 original size:17 final size:17
Alignment explanation
Indices: 9994378--9994411 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9994368 AATTTTTCCC
*
9994378 TTTTTCCTTCTTTCTTT
1 TTTTTCCTTCCTTCTTT
9994395 TTTTTCCTTCCTTCTTT
1 TTTTTCCTTCCTTCTTT
9994412 CTTTCCCCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCCTTCCTTCTTT
Found at i:9995597 original size:21 final size:20
Alignment explanation
Indices: 9995568--9995610 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9995558 TGAACATGCT
*
9995568 AAACCCTAACAATAAAACCAA
1 AAACCCTAA-AACAAAACCAA
* *
9995589 AAACTCTAAAACAAACCCAA
1 AAACCCTAAAACAAAACCAA
9995609 AA
1 AA
9995611 CCATAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.63, C:0.28, G:0.00, T:0.09
Consensus pattern (20 bp):
AAACCCTAAAACAAAACCAA
Found at i:9995719 original size:41 final size:41
Alignment explanation
Indices: 9995658--9995796 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 41
9995648 TTATTTTTCC
* *
9995658 TAAAACCCTAAAACACTAA-TTAATAAACAATAAAAATTAAA
1 TAAAACACTAAAAC-CTAATTTAATAAACAATAAAAACTAAA
* ** * *
9995699 TAAAACACTAAAACCTTAATTTAGTAAACCTTAAATACTAAT
1 TAAAACACTAAAACC-TAATTTAATAAACAATAAAAACTAAA
* * ** *
9995741 TAAAAGAATAAAACCCTAATTTAATAAACTTTAATTAAAC-AAT
1 TAAAACACTAAAA-CCTAATTTAATAAACAATAA--AAACTAAA
9995784 TAAAACACTAAAA
1 TAAAACACTAAAA
9995797 AATACAAGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 16 0.20
42 43 0.54
43 16 0.20
44 3 0.04
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (41 bp):
TAAAACACTAAAACCTAATTTAATAAACAATAAAAACTAAA
Found at i:10009753 original size:394 final size:394
Alignment explanation
Indices: 10009025--10009807 Score: 1322
Period size: 394 Copynumber: 2.0 Consensus size: 394
10009015 GAGCCCAGGC
*
10009025 TAAAAATACCTTACCCGAGGCCTGACCCATTTTTTAAACGGGCCTTATTTTTTTTTCCAAGTCCA
1 TAAAAATACCTTACCCGAGGCCTGACCCATTTTTTAAACGGGCCTTATTTTTTTGTCCAAGTCCA
* * *
10009090 TTTTTCGAGCCTATATTTTTTCCCAAACCCTCCCACATTTCGGGAGGGCCTTCGAGTCGAGCCGG
66 TTTTTCGAGCCTATATTTTTGCCCAAACCCTCCCACATTTCGGGAAGGCCTTCGAGCCGAGCCGG
* *
10009155 ATAGCTCGGCCTATGAACACCTCTAAATGTACCATACAAATAGGTTGTAACAACATTCATTAGGT
131 ATAGCTCGACCCATGAACACCTCTAAATGTACCATACAAATAGGTTGTAACAACATTCATTAGGT
* *
10009220 GCATGTCAAGTTTTTCACATATTGCCAGACTAATAAGGTATCTAAACGTGATTGCATCCACCACA
196 GCATGTCAAGTTCTTCACATATTGCCAGACTAATAAGGTATCTAAACATGATTGCATCCACCACA
*
10009285 GGAGAATATGTCTCTTCATAATCAATGTCGGGTCTTTGCGAAAATCCTTGTGCTACAAGTTGTGA
261 GGAGAATATGTCTCTTCATAATCAATGTCGGGTCTTTGCGAAAATCCTTGTGCTACAAGTCGTGA
* *
10009350 TTTATATGTTACGACTTCATTTTTCTTATTTCCTTTT-AGTACAAATATCTATTTATATCCTACC
326 TTTATATGTTACGACTTCATTTTTCTTATTTCCTTTTCA-TACAAATAGCCATTTATATCCTACC
10009414 CGGGT
390 CGGGT
*
10009419 TAAAAATACCTTACCCGAGGCCTGACCCATTTTTTAAACGGGTCTTATTTTTTTGTCCAAG-CCT
1 TAAAAATACCTTACCCGAGGCCTGACCCATTTTTTAAACGGGCCTTATTTTTTTGTCCAAGTCC-
* * *
10009483 ATTTTTCGAGCCTATATTTTTGCCCAAACCCTCCCACATTTTGGGAAGGCTTTC-AGGCCGGGCC
65 ATTTTTCGAGCCTATATTTTTGCCCAAACCCTCCCACATTTCGGGAAGGCCTTCGA-GCCGAGCC
* *
10009547 GGGTAGCTCGACCCATGAACACCTCTAAGTGTACCATACAAATAGGTTGTAACAACATTCATTAG
129 GGATAGCTCGACCCATGAACACCTCTAAATGTACCATACAAATAGGTTGTAACAACATTCATTAG
*
10009612 GTGCATGTCAAGTTCTTCACATATTGCTAGACTAATAAGGTATCTAAACATGATTGCATCCACCA
194 GTGCATGTCAAGTTCTTCACATATTGCCAGACTAATAAGGTATCTAAACATGATTGCATCCACCA
*
10009677 CAGGAGAATATGTCTCTTCATAATCAATGTCGGGTCTTTGCGAAAAT-ATCTGTGCTACAAGTCG
259 CAGGAGAATATGTCTCTTCATAATCAATGTCGGGTCTTTGCGAAAATCCT-TGTGCTACAAGTCG
*
10009741 TGATTTATATGTTACGACTTCATTTTTCTTATTTCGTTTTCATACAAATAGCCATTTATATCCTA
323 TGATTTATATGTTACGACTTCATTTTTCTTATTTCCTTTTCATACAAATAGCCATTTATATCCTA
10009806 CC
388 CC
10009808 GGCTTTACAT
Statistics
Matches: 365, Mismatches: 20, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
393 4 0.01
394 360 0.99
395 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (394 bp):
TAAAAATACCTTACCCGAGGCCTGACCCATTTTTTAAACGGGCCTTATTTTTTTGTCCAAGTCCA
TTTTTCGAGCCTATATTTTTGCCCAAACCCTCCCACATTTCGGGAAGGCCTTCGAGCCGAGCCGG
ATAGCTCGACCCATGAACACCTCTAAATGTACCATACAAATAGGTTGTAACAACATTCATTAGGT
GCATGTCAAGTTCTTCACATATTGCCAGACTAATAAGGTATCTAAACATGATTGCATCCACCACA
GGAGAATATGTCTCTTCATAATCAATGTCGGGTCTTTGCGAAAATCCTTGTGCTACAAGTCGTGA
TTTATATGTTACGACTTCATTTTTCTTATTTCCTTTTCATACAAATAGCCATTTATATCCTACCC
GGGT
Found at i:10014730 original size:46 final size:46
Alignment explanation
Indices: 10014668--10014978 Score: 424
Period size: 46 Copynumber: 7.0 Consensus size: 46
10014658 TTTGACATGA
* * * * * *
10014668 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
* *** * **
10014714 TGTCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
10014760 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
10014806 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
10014852 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
10014898 TGCCATGGTATCTTTCAACCATGGTCTTACAC--------TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
*
10014936 TGCCATGGTAT-TTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
10014979 AGAGCACACT
Statistics
Matches: 240, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
37 20 0.08
38 17 0.07
45 4 0.02
46 199 0.83
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
Found at i:10014960 original size:37 final size:38
Alignment explanation
Indices: 10014892--10014966 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
10014882 ACATTTTATA
10014892 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
10014930 TCAGGTTGCCATGGTAT-TTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
10014967 ATTTCATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 20 0.54
38 17 0.46
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:10017129 original size:11 final size:11
Alignment explanation
Indices: 10017113--10017164 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
10017103 TATACTAAAT
10017113 AAATAATAATA
1 AAATAATAATA
*
10017124 AAATAAT-ATT
1 AAATAATAATA
* *
10017134 AAATATCTCATA
1 AAATA-ATAATA
*
10017146 AAATATTAATA
1 AAATAATAATA
10017157 AAATAATA
1 AAATAATA
10017165 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:10027223 original size:16 final size:15
Alignment explanation
Indices: 10027199--10027228 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10027189 ACCCCCTTTC
10027199 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
10027214 TTTTTGTTTCTTTTT
1 TTTTT-TTTCTTTTT
10027229 CTTATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:10028410 original size:31 final size:31
Alignment explanation
Indices: 10028375--10028439 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
10028365 ACAGAATCAG
10028375 ATACAACTTAGGGCCTTAGCCCATCTTAGAT
1 ATACAACTTAGGGCCTTAGCCCATCTTAGAT
10028406 ATACAACTTAGGGCCTTAGCCCATCTTAGAT
1 ATACAACTTAGGGCCTTAGCCCATCTTAGAT
10028437 ATA
1 ATA
10028440 GCATGCATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
ATACAACTTAGGGCCTTAGCCCATCTTAGAT
Found at i:10032200 original size:46 final size:46
Alignment explanation
Indices: 10032133--10032307 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 46
10032123 TGTAACCCGC
* *
10032133 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGAGTTCGCAT
*
10032179 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G---AGTTCGCAT
* ** *
10032229 CTCA-CA---AACTCAGACTCAACTCAACGAG-TTAGGACGTTCGTAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
* * *
10032272 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
10032308 ATGCCTAAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 4 0.04
44 1 0.01
46 56 0.54
47 24 0.23
48 1 0.01
50 5 0.05
51 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGAGTTCGCAT
Found at i:10032250 original size:93 final size:93
Alignment explanation
Indices: 10032142--10032314 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
10032132 CCCATAAGCG
* *
10032142 AACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAG-TCAGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
10032206 CGAGCTCGGATGCCTAGTTACATCTCACA
65 CGAGCTCGGATGCCTAGTTACATCTCACA
* * * *
10032235 AACTCAGACTCAACTCAACGAGTTAGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCAAT
1 AACTCAGACTCAACTCAACGAGTCAGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
10032300 GAGTTCGGATGCCTA
66 GAGCTCGGATGCCTA
10032315 AATATCCGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTCAGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:10036911 original size:12 final size:12
Alignment explanation
Indices: 10036881--10036905 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10036871 CATCAAAATA
10036881 TTACAAATCATT
1 TTACAAATCATT
10036893 TTACAAATCATT
1 TTACAAATCATT
10036905 T
1 T
10036906 CTCAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACAAATCATT
Found at i:10037775 original size:40 final size:38
Alignment explanation
Indices: 10037683--10037775 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 38
10037673 ACCAACTCCG
* * *
10037683 TCCAACCCAACACACCATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCATATGGGGATAAAATCAACCCA
* * *
10037721 -CCTATCCCTCCACACCAAATATGGGGATAAAATCAACTCA
1 TCC-AACCCTACACACC--ATATGGGGATAAAATCAACCCA
10037761 TCCAACCCTACACAC
1 TCCAACCCTACACAC
10037776 TATAGAGCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.05
38 10 0.23
40 29 0.67
41 2 0.05
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (38 bp):
TCCAACCCTACACACCATATGGGGATAAAATCAACCCA
Found at i:10039545 original size:20 final size:19
Alignment explanation
Indices: 10039517--10039558 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
10039507 TATTAAGAGA
* *
10039517 TAAATTTAATTAAAAATATT
1 TAAAGTTAATGAAAAAT-TT
10039537 TAAAGTTAATGAAAAATTT
1 TAAAGTTAATGAAAAATTT
10039556 TAA
1 TAA
10039559 TAAATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAAGTTAATGAAAAATTT
Found at i:10040034 original size:14 final size:14
Alignment explanation
Indices: 10040000--10040034 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10039990 CTATTATTTC
*
10040000 ACTATTATATTGCT
1 ACTATTTTATTGCT
10040014 ACTATTTTATTGCT
1 ACTATTTTATTGCT
*
10040028 ATTATTT
1 ACTATTT
10040035 GGATTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (14 bp):
ACTATTTTATTGCT
Found at i:10044171 original size:16 final size:15
Alignment explanation
Indices: 10044132--10044173 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
10044122 CATTCAAATT
*
10044132 ATACATGAATCATACA
1 ATACAT-AATCAAACA
10044148 AT-CATAATCAAATCA
1 ATACATAATCAAA-CA
10044163 ATACATAATCA
1 ATACATAATCA
10044174 CTCAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 10 0.43
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (15 bp):
ATACATAATCAAACA
Found at i:10048811 original size:46 final size:44
Alignment explanation
Indices: 10048707--10048814 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
10048697 TGTCTTTGAC
** * * *
10048707 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
10048751 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
10048797 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
10048815 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:10050077 original size:28 final size:28
Alignment explanation
Indices: 10050025--10050107 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
10050015 GGATGTTACA
*
10050025 ATTCTGGTGTGTTTTGGATGGATTATATT
1 ATTCTGGTGTGTTTTGGA-GGATTATATG
* *
10050054 ATTCTGGTGTGTTTGGGAGGATTACATG
1 ATTCTGGTGTGTTTTGGAGGATTATATG
*
10050082 ATACTGGTGTGTTTTGGAGGATTATA
1 ATTCTGGTGTGTTTTGGAGGATTATA
10050108 CTGGTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 31 0.65
29 17 0.35
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (28 bp):
ATTCTGGTGTGTTTTGGAGGATTATATG
Found at i:10050108 original size:23 final size:25
Alignment explanation
Indices: 10050028--10050121 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 25
10050018 TGTTACAATT
10050028 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGATTATA-TA
*
10050055 TTCTGGTGTGTTTGGGAGGATTACATGATA
1 --CTGGTGTGTTTTGGAGGATT--AT-ATA
10050085 CTGGTGTGTTTTGGAGGA-T-TATA
1 CTGGTGTGTTTTGGAGGATTATATA
10050108 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
10050122 TTGGACATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 17 0.28
24 1 0.02
27 1 0.02
28 22 0.37
29 14 0.23
30 4 0.07
31 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.34, T:0.45
Consensus pattern (25 bp):
CTGGTGTGTTTTGGAGGATTATATA
Found at i:10050363 original size:21 final size:21
Alignment explanation
Indices: 10050311--10050397 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
10050301 GGCTATACTG
*
10050311 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
* *
10050332 ATTTCAAGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
** *
10050355 ATCAGGCACCTCGTATGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
10050376 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
10050396 AT
1 AT
10050398 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 10 0.19
21 25 0.47
23 18 0.34
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:10051501 original size:46 final size:46
Alignment explanation
Indices: 10051451--10051597 Score: 134
Period size: 46 Copynumber: 3.0 Consensus size: 46
10051441 TGGTTGGACC
10051451 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * * * * *
10051497 ATGGCATCAGAGATATGTGATTACGTGTTTCCGTATAAGACCATATCTAGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* *
10051550 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
10051596 AT
1 AT
10051598 TGTAACACCC
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
46 27 0.35
47 5 0.06
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.08
52 5 0.06
53 27 0.35
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:10052264 original size:46 final size:46
Alignment explanation
Indices: 10052204--10052431 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
10052194 TTTGACATGA
* * * * * *
10052204 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
10052250 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10052296 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10052342 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10052388 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10052432 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10054582 original size:11 final size:11
Alignment explanation
Indices: 10054566--10054617 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
10054556 TATACTAAAT
10054566 AAATAATAATA
1 AAATAATAATA
*
10054577 AAATAAT-ATT
1 AAATAATAATA
* *
10054587 AAATATCTCATA
1 AAATA-ATAATA
*
10054599 AAATATTAATA
1 AAATAATAATA
10054610 AAATAATA
1 AAATAATA
10054618 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:10062511 original size:29 final size:31
Alignment explanation
Indices: 10062468--10062540 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
10062458 ATGTTGATGA
*
10062468 TATTTTA-TAAT-TATTAATTAGATA-AATAT
1 TATTTTATTAATAT-TTAATAAGATATAATAT
**
10062497 TATTTTATTAATATTTTAATAAGATATTTTAT
1 TATTTTATTAATA-TTTAATAAGATATAATAT
10062529 TATTTTATTAAT
1 TATTTTATTAAT
10062541 TTATTATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 7 0.19
30 4 0.11
31 10 0.27
32 16 0.43
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
TATTTTATTAATATTTAATAAGATATAATAT
Found at i:10065433 original size:23 final size:21
Alignment explanation
Indices: 10065406--10065480 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
10065396 CAAGCACTTT
*
10065406 ATGTGTCATATTTTAGGCACCTC
1 ATGTGTCATA--TCAGGCACCTC
* *
10065429 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCATATCAGGCACCTC
* * *
10065450 ATGTGTCGTTTCAGGCA-CTT
1 ATGTGTCATATCAGGCACCTC
*
10065470 ATCTGTCATAT
1 ATGTGTCATAT
10065481 ACTGATAAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
20 10 0.23
21 25 0.58
23 8 0.19
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (21 bp):
ATGTGTCATATCAGGCACCTC
Found at i:10065444 original size:21 final size:21
Alignment explanation
Indices: 10065420--10065467 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
10065410 GTCATATTTT
*
10065420 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCATGTGTCGTATC
*
10065441 AGGCACCTCATGTGTCGTTTC
1 AGGCACCTCATGTGTCGTATC
10065462 AGGCAC
1 AGGCAC
10065468 TTATCTGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTATC
Found at i:10066389 original size:25 final size:25
Alignment explanation
Indices: 10066343--10066391 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10066333 GTGCGCAATC
* ** *
10066343 TGATTATTAGTATGTTAGTGCTCTT
1 TGATTATTAGCACATTAATGCTCTT
10066368 TGATTATTAGCACATTAATGCTCT
1 TGATTATTAGCACATTAATGCTCT
10066392 CCGTTTAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (25 bp):
TGATTATTAGCACATTAATGCTCTT
Found at i:10067065 original size:235 final size:235
Alignment explanation
Indices: 10066654--10067122 Score: 886
Period size: 235 Copynumber: 2.0 Consensus size: 235
10066644 ATTTTATGAT
*
10066654 TAAATACATGAAAATTAAATTATGAGGCTTTATAATCTCTACTCCCTTACCAGTACAGTTATATG
1 TAAATACATGAAAATTAAATTATGAGGCTTTATAATCTCTACCCCCTTACCAGTACAGTTATATG
10066719 CAATGAAATTTATGAGAATTATATTGATTAAGTTCAAAACTGTGAAAGTGAAAAAGTTCAATAGT
66 CAATGAAATTTATGAGAATTATATTGATTAAGTTCAAAACTGTGAAAGTGAAAAAGTTCAATAGT
10066784 GGAGCAACTGATAATGTAGTCAAAACTGAGAATGAGTTAATAAGTGAAGATGAGTTCTGAATAGA
131 GGAGCAACTGATAATGTAGTCAAAACTGAGAATGAGTTAATAAGTGAAGATGAGTTCTGAATAGA
10066849 GATATTAGATTTTTCTGAAAACTACTTGGGATATACAATG
196 GATATTAGATTTTTCTGAAAACTACTTGGGATATACAATG
* *
10066889 TAAATACATGAAAATTAAATTATTAGGCTTTATAATCTCTACCCCCTTACCGGTACAGTTATATG
1 TAAATACATGAAAATTAAATTATGAGGCTTTATAATCTCTACCCCCTTACCAGTACAGTTATATG
10066954 CAATGAAATTTATGA-AATTTATATTGATTAAGTTCAAAACTGTGAAAGTGAAAAAGTTCAATAG
66 CAATGAAATTTATGAGAA-TTATATTGATTAAGTTCAAAACTGTGAAAGTGAAAAAGTTCAATAG
*
10067018 TGGAGCAACTGATAATGTAGTCAAAACTGAGAATGAGTTAATAAGTGAAGATGGGTTCTGAATAG
130 TGGAGCAACTGATAATGTAGTCAAAACTGAGAATGAGTTAATAAGTGAAGATGAGTTCTGAATAG
10067083 AGATATTAGATTTTTCTGAAAACTACTTGGGATATACAAT
195 AGATATTAGATTTTTCTGAAAACTACTTGGGATATACAAT
10067123 ACCACTGCTA
Statistics
Matches: 229, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
234 2 0.01
235 227 0.99
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (235 bp):
TAAATACATGAAAATTAAATTATGAGGCTTTATAATCTCTACCCCCTTACCAGTACAGTTATATG
CAATGAAATTTATGAGAATTATATTGATTAAGTTCAAAACTGTGAAAGTGAAAAAGTTCAATAGT
GGAGCAACTGATAATGTAGTCAAAACTGAGAATGAGTTAATAAGTGAAGATGAGTTCTGAATAGA
GATATTAGATTTTTCTGAAAACTACTTGGGATATACAATG
Found at i:10067989 original size:30 final size:31
Alignment explanation
Indices: 10067965--10068023 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
10067955 GTAAATACTC
* *
10067965 AAAATTTGAGGGGCTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
*
10067995 AAAATTTGAAGGACTAATAGTGAAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
10068024 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:10068286 original size:8 final size:8
Alignment explanation
Indices: 10068275--10068317 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
10068265 TTTAATAAGA
10068275 TATTTTAT
1 TATTTTAT
10068283 TATTTTAT
1 TATTTTAT
10068291 TATTTTAT
1 TATTTTAT
10068299 TATTTTA-
1 TATTTTAT
10068306 TATTTTAT
1 TATTTTAT
10068314 TATT
1 TATT
10068318 ATTTATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTAT
Found at i:10068291 original size:26 final size:28
Alignment explanation
Indices: 10068221--10068320 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 28
10068211 TGACGTTGAT
* *
10068221 GATATTTTATAATTATTA-ATTAGATAA
1 GATATTTTATTATTATTATTTTAGATAA
*
10068248 -ATATTTT-TTATTAATATTTTA-ATAA
1 GATATTTTATTATTATTATTTTAGATAA
* **
10068273 GATATTTTATTATTTTATTATTTTATTATTT
1 GATATTTTATTA--TTATTATTTTA-GATAA
*
10068304 TATATTTTATTATTATT
1 GATATTTTATTATTATT
10068321 TATTAAGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
25 11 0.19
26 17 0.29
27 3 0.05
29 15 0.25
31 13 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
GATATTTTATTATTATTATTTTAGATAA
Found at i:10068324 original size:15 final size:14
Alignment explanation
Indices: 10068275--10068324 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 14
10068265 TTTAATAAGA
10068275 TATTTTATTATTTTAT
1 TATTTTATTA-TTT-T
10068291 TATTTTATTATTTT
1 TATTTTATTATTTT
10068305 ATATTTTATTATTATT
1 -TATTTTATTATT-TT
10068321 TATT
1 TATT
10068325 AAGTATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.03
15 19 0.59
16 12 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTATTATTTT
Found at i:10072627 original size:6 final size:6
Alignment explanation
Indices: 10072616--10072646 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10072606 TTCTCGAGAG
10072616 AACCAA AACCAA AACCAA AACCAA AACCAA A
1 AACCAA AACCAA AACCAA AACCAA AACCAA A
10072647 CACGGTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCAA
Found at i:10073422 original size:20 final size:20
Alignment explanation
Indices: 10073372--10073428 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
10073362 TAGTTCACTC
* *
10073372 AAATTATAAAACT-TATTATA
1 AAATTATAAAAATAT-TTAAA
*
10073392 AATTTATTAAAAATATTTAAA
1 AAATTA-TAAAAATATTTAAA
10073413 AAATTAT-AAAATATTT
1 AAATTATAAAAATATTT
10073429 TTTTTTGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 9 0.29
20 6 0.19
21 15 0.48
22 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTATAAAAATATTTAAA
Found at i:10074418 original size:9 final size:9
Alignment explanation
Indices: 10074376--10074435 Score: 61
Period size: 9 Copynumber: 6.4 Consensus size: 9
10074366 TTTTCATAAA
10074376 TTTATTAATT
1 TTTA-TAATT
10074386 TTTCATAATT
1 TTT-ATAATT
10074396 CTTT-T-ATAT
1 -TTTATAAT-T
10074405 TTTATAATT
1 TTTATAATT
10074414 TTTATAATT
1 TTTATAATT
*
10074423 TTTATAATA
1 TTTATAATT
10074432 TTTA
1 TTTA
10074436 ATATTATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
8 5 0.11
9 25 0.57
10 10 0.23
11 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:10081162 original size:47 final size:47
Alignment explanation
Indices: 10081100--10081225 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
10081090 CTTTACATAA
* * * *
10081100 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * *
10081147 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
10081194 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
10081226 AAATCACTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:10081293 original size:31 final size:31
Alignment explanation
Indices: 10081249--10081395 Score: 231
Period size: 31 Copynumber: 4.7 Consensus size: 31
10081239 CTTGTCACTT
* *
10081249 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
10081280 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
10081311 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
10081342 GTAACCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
10081373 GTAGCCGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
10081396 GTTGTCATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:10081470 original size:50 final size:51
Alignment explanation
Indices: 10081373--10081501 Score: 208
Period size: 50 Copynumber: 2.5 Consensus size: 51
10081363 CACTGATCAG
* * *
10081373 GTAGCCGAAGCTACCACTTTTCAGTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
10081424 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTG-CCATTGATCAGATAAGT
10081474 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
10081502 TTCCATGGTC
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 47 0.64
51 26 0.36
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGCCATTGATCAGATAAGT
Found at i:10083725 original size:2 final size:2
Alignment explanation
Indices: 10083718--10083745 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10083708 TTTTTCACCA
10083718 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
10083746 TAAGTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10086030 original size:15 final size:15
Alignment explanation
Indices: 10086010--10086039 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10086000 TCCACGAGGA
10086010 GAATTAATCATTACT
1 GAATTAATCATTACT
10086025 GAATTAATCATTACT
1 GAATTAATCATTACT
10086040 ACTAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTAATCATTACT
Found at i:10086693 original size:6 final size:6
Alignment explanation
Indices: 10086682--10086711 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10086672 AAAGCAATGG
10086682 CTTAGC CTTAGC CTTAGC CTTAGC CTTAGC
1 CTTAGC CTTAGC CTTAGC CTTAGC CTTAGC
10086712 GTTGGCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTTAGC
Found at i:10086722 original size:6 final size:6
Alignment explanation
Indices: 10086713--10086755 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
10086703 AGCCTTAGCG
* *
10086713 TTGGCA TTGGCA TTGGCA TTGGCA TTGGCG TTAGCA TTCGGCA
1 TTGGCA TTGGCA TTGGCA TTGGCA TTGGCA TTGGCA TT-GGCA
10086756 CTTTCCAGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 29 0.91
7 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.33, T:0.33
Consensus pattern (6 bp):
TTGGCA
Found at i:10086736 original size:18 final size:18
Alignment explanation
Indices: 10086707--10086755 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10086697 AGCCTTAGCC
*
10086707 TTAGCGTTGGCATTGGCA
1 TTAGCATTGGCATTGGCA
* *
10086725 TTGGCATTGGCATTGGCG
1 TTAGCATTGGCATTGGCA
10086743 TTAGCATTCGGCA
1 TTAGCATT-GGCA
10086756 CTTTCCAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.33
Consensus pattern (18 bp):
TTAGCATTGGCATTGGCA
Found at i:10088890 original size:21 final size:21
Alignment explanation
Indices: 10088839--10088891 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
10088829 TTTCGCACTC
10088839 TAATTTTTTTTATTCTTTTAT
1 TAATTTTTTTTATTCTTTTAT
* *
10088860 TTATTTTTTTTATT-TTTTGT
1 TAATTTTTTTTATTCTTTTAT
* *
10088880 TAAATTATTTTA
1 TAATTTTTTTTA
10088892 AAATGAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
TAATTTTTTTTATTCTTTTAT
Found at i:10095201 original size:2 final size:2
Alignment explanation
Indices: 10095194--10095234 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
10095184 ACAATAGAAA
* **
10095194 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10095235 AAAGTTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:10095296 original size:31 final size:31
Alignment explanation
Indices: 10095239--10095297 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
10095229 TATATAAAAG
*
10095239 TTTTAAAATAAAGAATATATAAAAAAATATA
1 TTTTAAAATAAAGAATACATAAAAAAATATA
* *
10095270 TTTTAACAT-AAGTAATACATAGAAAAAT
1 TTTTAAAATAAAG-AATACATAAAAAAAT
10095298 CAAAACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (31 bp):
TTTTAAAATAAAGAATACATAAAAAAATATA
Found at i:10099310 original size:15 final size:15
Alignment explanation
Indices: 10099290--10099336 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
10099280 TTATCTCATG
10099290 TTATATTTTAGTAAT
1 TTATATTTTAGTAAT
*
10099305 TTATA-TTT-GAAAT
1 TTATATTTTAGTAAT
*
10099318 GTTATATTTTAGTCAT
1 -TTATATTTTAGTAAT
10099334 TTA
1 TTA
10099337 CGTTAACGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 4 0.15
14 8 0.31
15 11 0.42
16 3 0.12
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (15 bp):
TTATATTTTAGTAAT
Found at i:10099891 original size:3 final size:3
Alignment explanation
Indices: 10099885--10099922 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10099875 AGAGAATGAA
10099885 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10099923 AAGAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10104708 original size:2 final size:2
Alignment explanation
Indices: 10104697--10104725 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10104687 AACAGCTTAC
10104697 TA TA -A 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
10104726 AATTATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10113498 original size:100 final size:100
Alignment explanation
Indices: 10113320--10113507 Score: 297
Period size: 100 Copynumber: 1.9 Consensus size: 100
10113310 TATTGTGAGG
*
10113320 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGCACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGCGCACCGAATAATTGGTCGCATGTGTAGTACT
*
10113385 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
* * * *
10113420 TCACTTGTGTAGTACTAAATGCAGGCTACTACGTGTACC-AGATTATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGCGCACCGA-ATAATTGGTCGCATGTGTAGTAC
*
10113484 TAATTGCAAGCTACTATGCGTACC
65 TAAGTGCAAGCTACTATGCGTACC
10113508 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 79 0.99
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGCGCACCGAATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
Found at i:10113508 original size:49 final size:49
Alignment explanation
Indices: 10113325--10113512 Score: 225
Period size: 49 Copynumber: 3.8 Consensus size: 49
10113315 TGAGGTCACG
*
10113325 TGTGTAGTACTAAGTGCAGGCTACTACGCGCACC-GAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAATTGGTCGCA
* * * * * *
10113374 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCGCA
* * *
10113425 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * *
10113474 TGTGTAGTACTAATTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
10113513 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 74 0.64
50 3 0.03
51 39 0.34
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:10114384 original size:21 final size:21
Alignment explanation
Indices: 10114358--10114400 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10114348 AGCGTGGTAG
10114358 TAATTGCTTATTATTTTCATA
1 TAATTGCTTATTATTTTCATA
10114379 TAATTGCTTATTATTTTCATA
1 TAATTGCTTATTATTTTCATA
10114400 T
1 T
10114401 GAACTTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATTGCTTATTATTTTCATA
Found at i:10116545 original size:50 final size:50
Alignment explanation
Indices: 10116487--10116585 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
10116477 AGAGAAAAGT
10116487 TTCATCCTAGGGATTTCAAAGCTTAAACTTTCAATTGGTTAATGCAATTG
1 TTCATCCTAGGGATTTCAAAGCTTAAACTTTCAATTGGTTAATGCAATTG
10116537 TTCATCCTAGGGATTTCAAAGCTTAAACTTTCAATTGGTTAATGCAATT
1 TTCATCCTAGGGATTTCAAAGCTTAAACTTTCAATTGGTTAATGCAATT
10116586 TAGTTCTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (50 bp):
TTCATCCTAGGGATTTCAAAGCTTAAACTTTCAATTGGTTAATGCAATTG
Found at i:10119603 original size:46 final size:46
Alignment explanation
Indices: 10119531--10119654 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
10119521 AGTGAGCATA
* * * *
10119531 ATTGAGATAGGTTCAACTATGCATTGGCACTTCGTGTACGAGATTC
1 ATTGAGATAGATTCAGCTATGTATTGGCACTTCGTGTACAAGATTC
* *
10119577 ATTGAGATAGATTCAGCAATGTATTGGCACTTCGTGTGCAAGATTC
1 ATTGAGATAGATTCAGCTATGTATTGGCACTTCGTGTACAAGATTC
* * *
10119623 ATTGAAATAGCTTCGGCTATGTATTGGCACTT
1 ATTGAGATAGATTCAGCTATGTATTGGCACTT
10119655 AGGGTGCGAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (46 bp):
ATTGAGATAGATTCAGCTATGTATTGGCACTTCGTGTACAAGATTC
Done.