Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 33 of 187
Found at i:10441629 original size:2 final size:2
Alignment explanation
Indices: 10441622--10441651 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10441612 NNNNNNNNNN
10441622 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
10441652 GAATTTTAAA
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:10444174 original size:15 final size:15
Alignment explanation
Indices: 10444154--10444193 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10444144 CTAAACCACC
10444154 GAAGCCACCGGTGGT
1 GAAGCCACCGGTGGT
10444169 GAAGCCACCGGTGGT
1 GAAGCCACCGGTGGT
10444184 GAAGCCACCG
1 GAAGCCACCG
10444194 TATCACCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (15 bp):
GAAGCCACCGGTGGT
Found at i:10444216 original size:42 final size:42
Alignment explanation
Indices: 10444170--10444252 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
10444160 ACCGGTGGTG
* *
10444170 AAGCCACCGGTGGTGAAGCCACCGTATCACCCTAAACCACCT
1 AAGCCACCGGTGGTGAAACCACCATATCACCCTAAACCACCT
* * *
10444212 AAGCCTCCGGTGGTGAAACCCCCATATCACCCTAAGCCACC
1 AAGCCACCGGTGGTGAAACCACCATATCACCCTAAACCACC
10444253 AAAACATCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.40, G:0.18, T:0.14
Consensus pattern (42 bp):
AAGCCACCGGTGGTGAAACCACCATATCACCCTAAACCACCT
Found at i:10444363 original size:36 final size:36
Alignment explanation
Indices: 10444318--10444597 Score: 488
Period size: 36 Copynumber: 7.8 Consensus size: 36
10444308 AAGCCACCTA
* * * *
10444318 TTGTAAAGCCTCCACCGTATACACCCAAACCACCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
10444354 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
10444390 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
10444426 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10444462 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10444498 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10444534 TTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGG
1 TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
*
10444570 TTGTGAAGCCTCCACCATATACACCCAA
1 TTGTGAAGCCTCCGCCATATACACCCAA
10444598 GCCACCTTAC
Statistics
Matches: 237, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 237 1.00
ACGTcount: A:0.25, C:0.39, G:0.19, T:0.17
Consensus pattern (36 bp):
TTGTGAAGCCTCCGCCATATACACCCAAACCGCCGG
Found at i:10444621 original size:144 final size:142
Alignment explanation
Indices: 10444339--10444765 Score: 460
Period size: 144 Copynumber: 3.0 Consensus size: 142
10444329 CCACCGTATA
*
10444339 CACCCAAACCACCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCG
1 CACCCAAACCGCCGGTTGTGAAGCCTCCGCCATAT-CACCCAAACCGCCGGTTGTGAAGCCTCCG
* * *
10444404 CCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAACCGCCGGTT-GTGA
65 CCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACC--TTACT--
*
10444468 AGCC--T-CCGCCATAT
126 ATCCAATACCGCCATAT
10444482 GCACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATGCACCCAAACCGCCGGTTGTGAAGCCTCC
1 -CACCCAAACCGCCGGTTGTGAAGCCTCCGCCATAT-CACCCAAACCGCCGGTTGTGAAGCCTCC
* *
10444547 GCCATATGCACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCCACCTTACTATC
64 GCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATC
10444612 CAATACCGCCGGTCATAT
129 CAATACCG-C---CATAT
* *** * * ** * ** * *
10444630 CACCACCAACACTGCC---TCCAAAGCCACCAGTC-TA-C-CCCAGTCCACCAATAGTGAACCCT
1 CA-C-CCAA-ACCGCCGGTTGTGAAGCCTCC-GCCATATCACCCAAACCGCCGGTTGTGAAGCCT
*
10444689 CCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTA
62 CCGCCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTA
10444754 TCCAATACCGCC
127 TCCAATACCGCC
10444766 GGTCATATCA
Statistics
Matches: 247, Mismatches: 24, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
140 1 0.00
141 3 0.01
142 2 0.01
143 3 0.01
144 207 0.84
145 2 0.01
147 12 0.05
148 8 0.03
149 4 0.02
150 5 0.02
ACGTcount: A:0.26, C:0.41, G:0.16, T:0.17
Consensus pattern (142 bp):
CACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATCACCCAAACCGCCGGTTGTGAAGCCTCCGC
CATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCCACCTTACTATCCA
ATACCGCCATAT
Found at i:10444796 original size:144 final size:144
Alignment explanation
Indices: 10444536--10444831 Score: 556
Period size: 144 Copynumber: 2.1 Consensus size: 144
10444526 ACCGCCGGTT
* * *
10444536 GTGAAGCCTCCGCCATATGCACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
10444601 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
10444666 CCAGTCCACCAATA
131 CCAGTCCACCAATA
*
10444680 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCGCCATATACACCCAAGCC
1 GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
10444745 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
66 ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
10444810 CCAGTCCACCAATA
131 CCAGTCCACCAATA
10444824 GTGAACCC
1 GTGAACCC
10444832 ACCAACACCG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 148 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.17
Consensus pattern (144 bp):
GTGAACCCTCCACCATATACACCCAAACCGCCGGTTGTGAAGCCTCCACCATATACACCCAAGCC
ACCTTACTATCCAATACCGCCGGTCATATCACCACCAACACTGCCTCCAAAGCCACCAGTCTACC
CCAGTCCACCAATA
Found at i:10444920 original size:24 final size:24
Alignment explanation
Indices: 10444852--10444945 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 24
10444842 CCGATTCTGC
*
10444852 CACCTCCTATTGTGAATCCACCAA
1 CACCTCCTATTGTGAACCCACCAA
* * * * *
10444876 CACCGCCGATTCT-ACCACCACCAT
1 CACCTCCTATTGTGAAC-CCACCAA
*
10444900 CACCACCTATTGTGAACCCACCAA
1 CACCTCCTATTGTGAACCCACCAA
* * *
10444924 CGCCTCCTATCGTGAAGCCACC
1 CACCTCCTATTGTGAACCCACC
10444946 TTCACCGGGA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.94
25 2 0.04
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.19
Consensus pattern (24 bp):
CACCTCCTATTGTGAACCCACCAA
Found at i:10445544 original size:6 final size:6
Alignment explanation
Indices: 10445533--10445571 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
10445523 TGAACTTCGC
10445533 TTTATT TTTATT TTTATT TTTATT TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
10445572 CACTCCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:10445556 original size:18 final size:17
Alignment explanation
Indices: 10445533--10445571 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 17
10445523 TGAACTTCGC
10445533 TTTATTTTTATTTTTATT
1 TTTATTTTTA-TTTTATT
10445551 TTTATTTTTATTTTATT
1 TTTATTTTTATTTTATT
10445568 TTTA
1 TTTA
10445572 CACTCCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTATTTTATT
Found at i:10448586 original size:20 final size:20
Alignment explanation
Indices: 10448561--10448599 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10448551 CATTTCGGTT
10448561 CTGATGCAAGATGTTTCGAC
1 CTGATGCAAGATGTTTCGAC
10448581 CTGATGCAAGATGTTTCGA
1 CTGATGCAAGATGTTTCGA
10448600 AATCTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
CTGATGCAAGATGTTTCGAC
Found at i:10453318 original size:3 final size:3
Alignment explanation
Indices: 10453305--10453339 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10453295 CCAGAAAACA
*
10453305 TTG TT- TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
10453340 GTGTCTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:10454409 original size:151 final size:152
Alignment explanation
Indices: 10454178--10454485 Score: 503
Period size: 151 Copynumber: 2.0 Consensus size: 152
10454168 CTTATTCTTG
10454178 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
* * *
10454243 TTTAGATTTAGTTAAAATGCGATCATGC-ATCACTTTGGTTGAAATTTAGAATATCACATTATCA
66 TTTAGATTTAGTTAAAATGCGATCATGCGA-CACTTTGGCTGAAATTTAGAACATCACATGATCA
* *
10454307 TATTTTTAATTATTGTTTGATTT
130 CATTTTTAATTATCGTTTGATTT
*
10454330 AATTTGGTAATTTTTCATCTTAACTTTTAA-TTTTTTATTACATTTTCTCAATTTAGTCATTAAA
1 AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
* * * *
10454394 TTTAGATTTGGTTAAAATGTGATGATGCGAGACTTTGGCTGAAATTTAGAACATCACATGATCAC
66 TTTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCAC
10454459 ATTTTTAATTATCGTTTGATTT
131 ATTTTTAATTATCGTTTGATTT
10454481 AATTT
1 AATTT
10454486 ACCAGGTTTA
Statistics
Matches: 145, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 115 0.79
152 30 0.21
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (152 bp):
AATTTGGTAATTTTTCATCTTAAATTTTAATTTTTTTATTACATTTTCTCAATTTAGTCATTAAA
TTTAGATTTAGTTAAAATGCGATCATGCGACACTTTGGCTGAAATTTAGAACATCACATGATCAC
ATTTTTAATTATCGTTTGATTT
Found at i:10474809 original size:21 final size:19
Alignment explanation
Indices: 10474770--10474830 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
10474760 CATATCCAAT
**
10474770 AAATTTTAATTAAAAATAATA
1 AAATTTTAATT-ATTATAA-A
10474791 AAATTTTAATTAGTTATAAA
1 AAATTTTAATTA-TTATAAA
*
10474811 AACATTTTAATGATTATAAA
1 AA-ATTTTAATTATTATAAA
10474831 TTGTAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATTTTAATTATTATAAA
Found at i:10475440 original size:33 final size:33
Alignment explanation
Indices: 10475393--10475457 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
10475383 GTAGAGGGAT
* *
10475393 TAAATTCTTGAAAATAAAAGTATAGGGACTAAC
1 TAAATTCTTAAAAATAAAAGTATAAGGACTAAC
10475426 TAAATTCTTAAAAATAAAAGTATAAGGACTAA
1 TAAATTCTTAAAAATAAAAGTATAAGGACTAA
10475458 ATTCTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (33 bp):
TAAATTCTTAAAAATAAAAGTATAAGGACTAAC
Found at i:10475457 original size:29 final size:29
Alignment explanation
Indices: 10475379--10475462 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 29
10475369 TTTAAATTTG
* * *
10475379 AAAAGTAGAGGGATTAAATTCTTGAAAAT
1 AAAAGTATAGGGACTAAATTCTTAAAAAT
10475408 AAAAGTATAGGGACTAACTAAATTCTTAAAAAT
1 AAAAGTATAGGG----ACTAAATTCTTAAAAAT
*
10475441 AAAAGTATAAGGACTAAATTCT
1 AAAAGTATAGGGACTAAATTCT
10475463 AAATTTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 21 0.45
33 26 0.55
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.27
Consensus pattern (29 bp):
AAAAGTATAGGGACTAAATTCTTAAAAAT
Found at i:10478884 original size:37 final size:37
Alignment explanation
Indices: 10478821--10478933 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
10478811 TTTCTAAAAA
*
10478821 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
10478857 TAATATTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
10478895 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
10478932 TA
1 TA
10478934 TCTTGTAGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:10478896 original size:11 final size:11
Alignment explanation
Indices: 10478821--10478896 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
10478811 TTTCTAAAAA
*
10478821 TAATATTATTT
1 TAATATTAATT
10478832 TAATAGTTTAATAT
1 TAATA--TTAAT-T
10478846 TAA-ATTAAATT
1 TAATATT-AATT
*
10478857 TAATATTTATCT
1 TAATATTAAT-T
*
10478869 TAATAGT-ATT
1 TAATATTAATT
10478879 T--TATTAATT
1 TAATATTAATT
10478888 TAATATTAA
1 TAATATTAA
10478897 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:10478923 original size:51 final size:48
Alignment explanation
Indices: 10478821--10478916 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
10478811 TTTCTAAAAA
* * * *
10478821 TAATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTTATCT
1 TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
* *
10478869 TAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTAA
1 TAATAGTATTTTAATAATTTAATATTAAA-TGA-AAT-TTAATATTAA
10478917 ATTTAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 26 0.67
49 2 0.05
50 2 0.05
51 9 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (48 bp):
TAATAGTATTTTAATAATTTAATATTAAATGAAATTTAATATTAATCT
Found at i:10482230 original size:16 final size:16
Alignment explanation
Indices: 10482209--10482239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10482199 ATATACTAAA
10482209 TAAAATAATAAAATAC
1 TAAAATAATAAAATAC
*
10482225 TAAAATACTAAAATA
1 TAAAATAATAAAATA
10482240 TTATTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATAATAAAATAC
Found at i:10484232 original size:22 final size:24
Alignment explanation
Indices: 10484180--10484233 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
10484170 TTTTTGATGA
*
10484180 TTAAATTATTGTTATTAAATATGTT
1 TTAAATTATTGTTATT-AATATCTT
*
10484205 TGAAATTATTG-TATT-ATATCTT
1 TTAAATTATTGTTATTAATATCTT
10484227 TTAAATT
1 TTAAATT
10484234 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATCTT
Found at i:10507654 original size:20 final size:21
Alignment explanation
Indices: 10507631--10507682 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
10507621 TACAAATTCA
10507631 AAAAAAAATCAATAA-ATTTT
1 AAAAAAAATCAATAATATTTT
* *
10507651 AAAAAAAAGTTAATAATTTTTTT
1 AAAAAAAA-TCAATAA-TATTTT
10507674 AAAAAAAAT
1 AAAAAAAAT
10507683 GATTCATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 1 0.04
23 12 0.44
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAAATCAATAATATTTT
Found at i:10507656 original size:21 final size:22
Alignment explanation
Indices: 10507630--10507682 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
10507620 ATACAAATTC
10507630 AAAAAAAAATCAATAA-ATTTT
1 AAAAAAAAATCAATAATATTTT
* * *
10507651 AAAAAAAAGTTAATAATTTTTT
1 AAAAAAAAATCAATAATATTTT
*
10507673 TAAAAAAAAT
1 AAAAAAAAAT
10507683 GATTCATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAAAAAATCAATAATATTTT
Found at i:10508389 original size:42 final size:42
Alignment explanation
Indices: 10508316--10508406 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
10508306 GGCACTTAGC
* *
10508316 AGCTTTCCATTTCCAATGGCGGCGAACCCTCCAAACACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
* * ** *
10508358 AGCTTTCCATTTTCGATGACGCCGAGGCCTCCAACCACCGTT
1 AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
10508400 AGCTTTC
1 AGCTTTC
10508407 GATTGGATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (42 bp):
AGCTTTCCATTTCCAATGACGCCGAACCCTCCAAACACCGTT
Found at i:10508534 original size:2 final size:2
Alignment explanation
Indices: 10508529--10508553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10508519 TCTCTCTCTC
10508529 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
10508554 TTGATTCTTG
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:10515391 original size:2 final size:2
Alignment explanation
Indices: 10515384--10515411 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10515374 TTAATTTGTT
10515384 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
10515412 CTTTGATTAT
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):
TA
Found at i:10517476 original size:24 final size:24
Alignment explanation
Indices: 10517444--10517495 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10517434 TTTCTAGAAG
*
10517444 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATGAGCATAATAT
* *
10517468 ATTTAGTATTTATTAGCATAATGT
1 ATTTAGTATTTATGAGCATAATAT
10517492 ATTT
1 ATTT
10517496 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCATAATAT
Found at i:10521422 original size:24 final size:24
Alignment explanation
Indices: 10521359--10521410 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
10521349 TTTTTAGAAG
* *
10521359 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
10521383 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
10521407 ATTT
1 ATTT
10521411 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:10536757 original size:3 final size:3
Alignment explanation
Indices: 10536749--10536777 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10536739 ACCTGCAAAA
10536749 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
10536778 ATGAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10537049 original size:22 final size:22
Alignment explanation
Indices: 10536993--10537072 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
10536983 TTGGCTTCTT
* **
10536993 AGCTTAGTACGTGAAACATGAG
1 AGCTTAGTACGTTAGCCATGAG
10537015 AGCTTAGTACGTTAGCCATGAG
1 AGCTTAGTACGTTAGCCATGAG
10537037 AGCTTAGTACGTTAGCCATGAG
1 AGCTTAGTACGTTAGCCATGAG
* * *
10537059 GGTTTAGTTCGTTA
1 AGCTTAGTACGTTA
10537073 AACTTGGGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
AGCTTAGTACGTTAGCCATGAG
Found at i:10545376 original size:12 final size:12
Alignment explanation
Indices: 10545359--10545383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10545349 ACTTTCCATC
10545359 ACAATCATCAGA
1 ACAATCATCAGA
10545371 ACAATCATCAGA
1 ACAATCATCAGA
10545383 A
1 A
10545384 ACTCTCACAG
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAATCATCAGA
Found at i:10547146 original size:23 final size:23
Alignment explanation
Indices: 10547113--10547156 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10547103 GAATTTCTAC
*
10547113 AAAAATGCAATCATCTTTTATGG
1 AAAAATCCAATCATCTTTTATGG
* *
10547136 AAAAATCCAATCTTTTTTTAT
1 AAAAATCCAATCATCTTTTAT
10547157 CAAGCTTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
AAAAATCCAATCATCTTTTATGG
Found at i:10555878 original size:3 final size:3
Alignment explanation
Indices: 10555870--10555908 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10555860 AAGGGAAAAT
10555870 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
10555909 GTATTAGATT
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:10576509 original size:35 final size:35
Alignment explanation
Indices: 10576462--10576666 Score: 103
Period size: 35 Copynumber: 5.6 Consensus size: 35
10576452 ATACTCATCG
*
10576462 GTTTATCCGACTAGCGCTGGACGTAACTTTTGTCA
1 GTTTATCTGACTAGCGCTGGACGTAACTTTTGTCA
* * * * *
10576497 GTTTATCTGACTAGTGCTGGGCACATTATTATATTTTTTGA
1 GTTTATCTGACTAGCGCT-GG-AC-GTA--A-CTTTTGTCA
* *
10576538 -TTTAT-TCGACTAGCGCT-GAGTGTAACTTTCGTCA
1 GTTTATCT-GACTAGCGCTGGA-CGTAACTTTTGTCA
* * * *
10576572 GTTTATTTGACTAGTGTTGGGCACATCATTA-TATTTGTCA
1 GTTTATCTGACTAGCGCT-GG-ACGT-A--ACT-TTTGTCA
* * * *
10576612 GTTTATCTGACTAGCGTTGGGCGCAACTTTCGTCA
1 GTTTATCTGACTAGCGCTGGACGTAACTTTTGTCA
*
10576647 GTTTATCTGACTAGTGCTGG
1 GTTTATCTGACTAGCGCTGG
10576667 GTACATCACT
Statistics
Matches: 126, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
34 5 0.04
35 55 0.44
36 4 0.03
37 8 0.06
38 6 0.05
39 4 0.03
40 38 0.30
41 6 0.05
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (35 bp):
GTTTATCTGACTAGCGCTGGACGTAACTTTTGTCA
Found at i:10576542 original size:75 final size:75
Alignment explanation
Indices: 10576414--10576776 Score: 444
Period size: 75 Copynumber: 4.9 Consensus size: 75
10576404 GGGCAAATTA
* * * ** *
10576414 TTTCGTCAGTTTATCTGACTAGTGCTGGGCATACCATTATACTCATCGGTTTATCCGACTAGCGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGATTTATCCGACTAGCGC
*
10576479 TGGACGTAAC
66 TGGACGCAAC
* * * * *
10576489 TTTTGTCAGTTTATCTGACTAGTGCTGGGCACATTATTATATTTTTTGATTTATTCGACTAGCGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGATTTATCCGACTAGCGC
* *
10576554 T-GAGTGTAAC
66 TGGA-CGCAAC
* * *
10576564 TTTCGTCAGTTTATTTGACTAGTGTTGGGCACATCATTATATTTGTC-AGTTTATCTGACTAGCG
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGA-TTTATCCGACTAGCG
* *
10576628 TTGGGCGCAAC
65 CTGGACGCAAC
* * *
10576639 TTTCGTCAGTTTATCTGACTAGTGCTGGGTACATCACTATATTTGTCGGTTTATCCG-CTAGCGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGATTTATCCGACTAGCGC
**
10576703 TGGGTGCAAC
66 TGGACGCAAC
* * *
10576713 TTTCATCAATTTATCTGACTAGTGCTGGGCACATTATTATATTTGTCGATTTATCCGACTAGCG
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGATTTATCCGACTAGCG
10576777 TTAGGTGTAA
Statistics
Matches: 246, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
74 69 0.28
75 176 0.72
76 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (75 bp):
TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGATTTATCCGACTAGCGC
TGGACGCAAC
Found at i:10576612 original size:40 final size:39
Alignment explanation
Indices: 10576568--10576693 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 39
10576558 TGTAACTTTC
*
10576568 GTCAGTTTATTTGACTAGTGTTGGGCACATCATTATATTT
1 GTCAGTTTATCTGACTAGTGTTGGGCACATCA-TATATTT
* * * *
10576608 GTCAGTTTATCTGACTAGCGTTGGGCGCA--A-CT-TTC
1 GTCAGTTTATCTGACTAGTGTTGGGCACATCATATATTT
* *
10576643 GTCAGTTTATCTGACTAGTGCTGGGTACATCACTATATTT
1 GTCAGTTTATCTGACTAGTGTTGGGCACATCA-TATATTT
*
10576683 GTCGGTTTATC
1 GTCAGTTTATC
10576694 CGCTAGCGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
35 27 0.39
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 38 0.55
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.40
Consensus pattern (39 bp):
GTCAGTTTATCTGACTAGTGTTGGGCACATCATATATTT
Found at i:10583733 original size:17 final size:17
Alignment explanation
Indices: 10583695--10583733 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10583685 GGCCATTTTG
*
10583695 GGACTGTTTAAATTTTT
1 GGACTGTTTAAATTTCT
*
10583712 AGACTGTTTAAATTTCT
1 GGACTGTTTAAATTTCT
10583729 GGACT
1 GGACT
10583734 TTACATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (17 bp):
GGACTGTTTAAATTTCT
Found at i:10587213 original size:29 final size:28
Alignment explanation
Indices: 10587154--10587213 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
10587144 AATATATATA
* *
10587154 TTTTTATTTTTTAATTTTAAAATACATT
1 TTTTTATTTTTTAATTTTAAAATAAAAT
*
10587182 TTTTTATTTTTTTATTTTTAAAATAAAAT
1 TTTTTA-TTTTTTAATTTTAAAATAAAAT
10587211 TTT
1 TTT
10587214 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTATTTTTTAATTTTAAAATAAAAT
Found at i:10590205 original size:20 final size:21
Alignment explanation
Indices: 10590180--10590219 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10590170 ATTTTTATAC
*
10590180 CATAAAT-AATTAAAAATAAT
1 CATAAATAAAATAAAAATAAT
10590200 CATAAATAAAATAAAAATAA
1 CATAAATAAAATAAAAATAA
10590220 AAATTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
CATAAATAAAATAAAAATAAT
Found at i:10591680 original size:14 final size:14
Alignment explanation
Indices: 10591661--10591706 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
10591651 GTTAGTATTA
10591661 TTAAATTTATTTTG
1 TTAAATTTATTTTG
*
10591675 TTAAATTTATTTTTA
1 TTAAATTTA-TTTTG
10591690 TTATAATATTATTTTG
1 TTA-AAT-TTATTTTG
10591706 T
1 T
10591707 ATTTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 8 0.30
17 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTAAATTTATTTTG
Found at i:10592522 original size:3 final size:3
Alignment explanation
Indices: 10592516--10592541 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10592506 AACAATGATG
10592516 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
10592542 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10592546 original size:3 final size:3
Alignment explanation
Indices: 10592540--10592577 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10592530 ATAATAATAA
*
10592540 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10592578 ATCATATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10595412 original size:104 final size:103
Alignment explanation
Indices: 10595119--10595489 Score: 600
Period size: 105 Copynumber: 3.6 Consensus size: 103
10595109 TAGCCGTTAT
** *
10595119 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
* *
10595184 AATCAACACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
10595222 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
10595287 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
10595326 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
10595391 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
10595431 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
10595490 TTTATATACA
Statistics
Matches: 253, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 77 0.30
104 86 0.34
105 89 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:10596635 original size:44 final size:44
Alignment explanation
Indices: 10596545--10598183 Score: 1178
Period size: 44 Copynumber: 36.6 Consensus size: 44
10596535 TCATTCTAAC
* * ** * * *
10596545 CCACTGCAACTTCAGAGG-TATAGGATTTGTTGCTTCAATGTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTTAATCTGCT
* * *
10596589 CCACTGCAACTTCAGGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* *
10596633 CCACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * *
10596677 CCACTACAACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * *
10596721 CCACTGCAACTTCAGGGAGATAATATTTGAAACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * * **
10596765 CCACTGCAACTTCAGGGAGATAAAAGTTGTAACTTCAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * * *
10596809 CCATTGCAACTTCAGGGAGATAAGAGTTGTAACTTCAATCGGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * * *
10596853 CCACTGCAAATTCAGGGAGATAATAGTTGTAA-TTTCAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCT
* * * * **
10596897 CTACTGCAACTTTAGGGAGATAAGAGTTGTAACTTCAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * **
10596941 CCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTCAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
** * * * * * *
10596985 CCACTATAACTTTAGAGAGATAATAGTTGTAACTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* ** * * *
10597029 CCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTTAATCTGCT
* * *
10597074 CTACTGCAACTTTAGGGAGATAAGATTTGT-AGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCT
* * * * ** * * *
10597118 CTACTACAAATTCAGAGAGATAAGATTCACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTTAATCTGCT
* *
10597163 CCACTGCAACTTCAGAGAGATAAGATTTGTAATTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCT
* * * * * *
10597208 CTACTGCAACTTCAGAGAGATAAGATTCAT-TATCTTCATTTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT--TGTAACTTTAATCTGCT
* *** *
10597253 CCACTGCAACTTCAGTGAGATAAGATTTGCGGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * * * *
10597297 CTACTGCAACTTTAAGGAGATAAGATTTGTAGCCTGTCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA-AC--T-TT-AATCTGCT
* * ** * *
10597346 CCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAACCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG--TAACTTTAATCTGCT
* * * * *
10597392 CCACTGCAACTTC-GAGGAGACAAGGTGTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTTAATCTGCT
** * * * * * * *
10597436 TTACTGCAACTTTAGAGAGATAAAATTTGCTATCTCTGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTGCT
* * * * * * *
10597481 CTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* * * *
10597525 CTATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* *
10597569 CCGCTGCAACTTCA-GGAGGATAAGATTTGCCATAATGATTTCAATC--CAT
1 CCACTGCAACTTCAGGGA-GATAAGATTTG---TAA--CTTT-AATCTGC-T
* ** * * * * *
10597618 CTCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATTTACA
1 C-CACTGCAACTTCAGGGAGATAAGATT-TGTAACTTTAATCTGCT
* * * *
10597664 CC-CTGCAACTTCAAGGAGATAAGATTTAT-AGTTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCT
* * * * ** * *
10597707 CTACTGCAACTTTAGAGTGATAAGATTCACTATCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTTAATCTGCT
* * * *
10597752 CCACTGCAACTTTAGGGAGATAATATTTGCAATTTTAAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAA-TCTGCT
* * ** * *
10597797 CTACTGCAACTTCAGAGAGATAAGATTCACTATCTTTATTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTTAATCTGCT
* ***
10597842 CCACTGCAACTTTAGGGAGATAAGATTTGCGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
* *
10597886 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA----A-CTTTAATCTGCT
* **
10597935 CCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG--TAACTTTAATCTGCT
* * * *
10597981 CCACTGCAACTTC-GAGGAGATAAGGTGTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTTAATCTGCT
* * * *** *
10598025 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCCGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTGCT
* * * * *
10598070 CCACTGCAACTTCAAGAAGATAAGATCTATAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
** * * * * *
10598114 CCACTATAACATCAGGGAGATAAGACTTGAAACTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
** * *
10598158 CTGCTGTAACTTTAGGG-GATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
10598184 CGCCATAATG
Statistics
Matches: 1263, Mismatches: 282, Indels: 101
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.00
43 25 0.02
44 743 0.59
45 298 0.24
46 76 0.06
47 8 0.01
48 6 0.00
49 74 0.06
50 24 0.02
51 7 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCT
Found at i:10597489 original size:228 final size:223
Alignment explanation
Indices: 10596585--10598114 Score: 733
Period size: 228 Copynumber: 6.8 Consensus size: 223
10596575 TGCTTCAATG
* * ** * * * *
10596585 TACTCCACTGCAACTTCAGGGAGATTAGA-CTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGG
1 TACTCCACTGCAACTTCAGGAAGATAAGATC-TACAACTTCAATTTGCTCTACTGCAACTTTAGG
* * * * * ** *
10596649 GAGATAAGATTTGTAACTTT-AATCCGCTCCACTACAACTTTAGGGAGATAAGATT-TGTAACTT
65 GAGATAAGATTTGT-AGTTTCAATCTGCTCCACTACAAATTCAGAGAGATAAGATTCACTATCTT
* * * * * * * *
10596712 CAATCTGCTCCACTGCAACTTCAGGGAGATAATATTTGA-AACTTT-AATCCGCTCCACTGCAAC
129 CAACCTACTCCACTGCAACTTCAGAGAGACAAGATGT-ATAACTTTCAATCTGCTCTACTGCAAC
* * * *
10596775 TTCAGGGAGATAAAAGTT--GTAACTTCAATC
193 TTCAGAGAGATAAAA-TTCACTATCTTCATTC
* * * ** ** * * *
10596805 CACTCCATTGCAACTTCAGGGAGATAAGAGT-TGTAACTTCAATCGGCTCCACTGCAAATTCAGG
1 TACTCCACTGCAACTTCAGGAAGATAAGA-TCTACAACTTCAATTTGCTCTACTGCAACTTTAGG
* * * * * * * * * * *
10596869 GAGATAATAGTTGTAATTTCAATCCGCTCTACTGCAACTTTAGGGAGATAAGAGTT--GTAACTT
65 GAGATAAGATTTGTAGTTTCAATCTGCTCCACTACAAATTCAGAGAGATAAGA-TTCACTATCTT
* * * ** * **
10596932 CAATCC-ACTCCACTGCAACTTCAGGGAGATAAGA-GTTGTAAC-TTCAATCCACTCCACTATAA
129 CAA-CCTACTCCACTGCAACTTCAGAGAGACAAGATG-TATAACTTTCAATCTGCTCTACTGCAA
* * * * * *
10596994 CTTTAGAGAGATAATAGTT--GTAACTTCAATA
192 CTTCAGAGAGATAA-AATTCACTATCTTCATTC
* * * * * *
10597025 TGCTCCACTGCAACTTCAGGGAGAAAAGAT-TCACTATCTTCAATCTACTCTACTGCAACTTTAG
1 TACTCCACTGCAACTTCAGGAAGATAAGATCT-AC-AACTTCAATTTGCTCTACTGCAACTTTAG
*
10597089 GGAGATAAGATTTGTAGTTTCAATCTGCTCTACTACAAATTCAGAGAGATAAGATTCACTATCTT
64 GGAGATAAGATTTGTAGTTTCAATCTGCTCCACTACAAATTCAGAGAGATAAGATTCACTATCTT
* * * * *
10597154 CAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATTTTCAATCTGCTCTACTGCAACT
129 CAACCTACTCCACTGCAACTTCAGAGAGACAAGATGTATAACTTTCAATCTGCTCTACTGCAACT
* * *
10597219 TCAGAGAGATAAGATTCATTATCTTCATTT
194 TCAGAGAGATAAAATTCACTATCTTCATTC
* * * ** * *
10597249 TGCTCCACTGCAACTTCAGTG-AGATAAGATTTGCGGCTTTAATTTGCTCTACTGCAACTTTAAG
1 TACTCCACTGCAACTTCAG-GAAGATAAGATCTACAACTTCAATTTGCTCTACTGCAACTTTAGG
* * * ***
10597313 GAGATAAGATTTGTAGCCTGTCTTCAATTTGCTCCACTGCAATTTCAGAGAGATAAGATTTGTTT
65 GAGATAAGATTTGTA----GT-TTCAATCTGCTCCACTACAAATTCAGAGAGATAAGA-TTCACT
* * ** * * *
10597378 ATTTTTAACCTGTTCCACTGCAACTTC-GAGGAGACAAGGTGTATAGCTTT-AATCTGCTTTACT
124 ATCTTCAACCTACTCCACTGCAACTTCAGA-GAGACAAGATGTATAACTTTCAATCTGCTCTACT
* ** *
10597441 GCAACTTTAGAGAGATAAAATTTGCTATCTCTGA-TC
188 GCAACTTCAGAGAGATAAAATTCACTATCT-TCATTC
* * * * *
10597477 TACTCTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATTTGCTCTATTGCAACTTCAGGG
1 TACTCCACTGCAACTTCAGGAAGATAAGATCTACAACTTCAATTTGCTCTACTGCAACTTTAGGG
* ** * * *
10597542 AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAG-GAGGATAAGATTTGC-CATAAT
66 AGATAAGATTTGTAGTTTCAATCTGCTCCACTACAAATTCAGAGA-GATAAGA-TT-CAC-T-AT
* * * * * * *
10597605 GATTTCAATCC-A-TCTCACTGCAACTTCAGGGAGAAAAGAT-TCACTATC-TTCAATTTACAC-
126 --CTTCAA-CCTACTC-CACTGCAACTTCAGAGAGACAAGATGT-A-TAACTTTCAATCTGCTCT
* * * * *
10597665 CCTGCAACTTCA-AGGAGATAAGATTTA-TAGT-TTCAATA
185 ACTGCAACTTCAGA-GAGATAAAATTCACTA-TCTTCATTC
* * * * * * * * *
10597703 TGCTCTACTGCAACTTTA-GAGTGATAAGAT-TCACTATCTTTAATCTACTCCACTGCAACTTTA
1 TACTCCACTGCAACTTCAGGA-AGATAAGATCT-AC-AACTTCAATTTGCTCTACTGCAACTTTA
* * * * * * *
10597766 GGGAGATAATATTTGCAATTTTAAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATC
63 GGGAGATAAGATTTGTAGTTTCAA-TCTGCTCCACTACAAATTCAGAGAGATAAGATTCACTATC
* ** * * * * * **** *
10597831 TTTATTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCGGCTTT-AATCTGCTCCACTGCAA
127 TTCAACCTACTCCACTGCAACTTCAGAGAGACAAGATGTATAACTTTCAATCTGCTCTACTGCAA
* * *
10597895 CTTCA-AGGAGATAAGATTTGTAGCCTATCTTCAATC
192 CTTCAGA-GAGATAA-AATT-CA--CTATCTTCATTC
* * * * ** ** * * * *
10597931 TGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAATCTGCTCCACTGCAAC-TTCG
1 TACTCCACTGCAACTTCAGGAAGATAAGA--TCTACAACTTCAATTTGCTCTACTGCAACTTTAG
* * * * * * **
10597995 AGGAGATAAGGTGTATAGCTTT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATC
64 -GGAGATAAGATTTGTAG-TTTCAATCTGCTCCACTACAAATTCAGAGAGATAAGATTCACTATC
* * * * *
10598059 TCCGATCTACTCCACTGCAACTTCA-AGAAGATAAGATCTATAAC-TTCAATCTGCTC
127 TTCAACCTACTCCACTGCAACTTCAGAG-AGACAAGATGTATAACTTTCAATCTGCTC
10598115 CACTATAACA
Statistics
Matches: 1043, Mismatches: 198, Indels: 130
0.76 0.14 0.09
Matches are distributed among these distances:
219 8 0.01
220 203 0.19
221 74 0.07
222 52 0.05
223 148 0.14
224 42 0.04
225 13 0.01
226 36 0.03
227 100 0.10
228 283 0.27
229 79 0.08
230 4 0.00
231 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (223 bp):
TACTCCACTGCAACTTCAGGAAGATAAGATCTACAACTTCAATTTGCTCTACTGCAACTTTAGGG
AGATAAGATTTGTAGTTTCAATCTGCTCCACTACAAATTCAGAGAGATAAGATTCACTATCTTCA
ACCTACTCCACTGCAACTTCAGAGAGACAAGATGTATAACTTTCAATCTGCTCTACTGCAACTTC
AGAGAGATAAAATTCACTATCTTCATTC
Found at i:10597755 original size:589 final size:590
Alignment explanation
Indices: 10596577--10598194 Score: 1969
Period size: 589 Copynumber: 2.8 Consensus size: 590
10596567 GGATTTGTTG
* * * * * ** *
10596577 CTTCAATGTACTCCACTGCAACTTCAGGGAGATTAGACTTGTAGCTTTAA-TCTGCTCCACTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCAATTTTAAGTCTGCTCTACTGCA
* * ** * * * * * *
10596641 ACTTTAGGGAGATAAGATT-TGTAACTTTAATCCGCTCCACTACAACTTTAGGGAGATAAGATTT
66 ACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
*** * * * * * *
10596705 GTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATTTG-A----AACTTTAATCCGCT
131 GCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCT
* * * * ** * * *
10596765 CCACTGCAACTTCAGGGAGATAAAAGTTG--TAACTTCAATCC-ACTCCATTGCAACTTC-AGGG
196 CCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAA-CCTGCTCCACTGCAACTTCGA-GG
* * * * * * * *
10596826 AGATAAGAGTTGTA-A-CTTCAATCGGCTCCACTGCAAATTCAGGGAGATAATAGTTG-TAAT-T
259 AGACAAG-G-TGTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCT-ATCT
* * ** * * **
10596887 TCAATCCGCTCTACTGCAACTTTAGGGAGATAAGAGT-TGTAACTTCAATCCACTCCACTGCAAC
321 CCGATCTACTCTACTGCAACTTTAGGAAGATAAGA-TCTATAACTTCAATCTGCTCCACTGCAAC
* ** * * * *
10596951 TTCAGGGAGATAAGAGTTGTAACTTCAATCCACTCCACTATAACTTTA-GAGAGATAATAGTTG-
385 TTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCGCTGTAACTTTAGGAG-GATAAGATTTGC
*
10597014 --T-A--ACTTCAATATGCTCCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATCTACT
449 CATAATGACTTCAATATGCTCCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATCTACA
* * * *
10597074 CTACTGCAACTTTAGGGAGATAAGATTTGTAGTTTCAATCTGCTCTACTACAAATTCAGAGAGAT
514 CTACTGCAACTTCAAGGAGATAAGATTTATAGTTTCAATATGCTCTACTACAAATTCAGAGAGAT
10597139 AAGATTCACTAT
579 AAGATTCACTAT
*
10597151 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATTTTCAA-TCTGCTCTACTGC
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCAATTTT-AAGTCTGCTCTACTGC
* * *
10597215 AACTTCAGAGAGATAAGATTCATTATCTTCATTTTGCTCCACTGCAACTTCAGTGAGATAAGATT
65 AACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * *
10597280 TGCGGCTTTAATTTGCTCTACTGCAACTTTAAGGAGATAAGATTTGTAGCCTGTCTTCAATTTGC
130 TGCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGC
*
10597345 TCCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAACCTGTTCCACTGCAACTTCGAGGA
195 TCCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGA
* * *
10597410 GACAAGGTGTATAGCTTTAATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATCTCTGA
260 GACAAGGTGTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGA
* * *
10597475 TCTACTCTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATTTGCTCTATTGCAACTTCAG
325 TCTACTCTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAG
* *
10597540 GGAGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAGGAGGATAAGATTTGCCATAAT
390 GGAGATAAGACTTGTAACTTCAATCTGCTCCGCTGTAACTTTAGGAGGATAAGATTTGCCATAAT
* * *
10597605 GATTTCAATCCAT-CT-CACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATTTACAC-CC
455 GACTTCAAT--ATGCTCCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATCTACACTAC
* * * *
10597667 TGCAACTTCAAGGAGATAAGATTTATAGTTTCAATATGCTCTACTGCAACTTTAGAGTGATAAGA
518 TGCAACTTCAAGGAGATAAGATTTATAGTTTCAATATGCTCTACTACAAATTCAGAGAGATAAGA
10597732 TTCACTAT
583 TTCACTAT
* * * *
10597740 CTTTAATCTACTCCACTGCAACTTTAGGGAGATAATATTTGCAATTTTAAGTCTGCTCTACTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCAATTTTAAGTCTGCTCTACTGCA
* *
10597805 ACTTCAGAGAGATAAGATTCACTATCTTTATTCTGCTCCACTGCAACTTTAGGGAGATAAGATTT
66 ACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
10597870 GCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCT
131 GCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCT
* *
10597935 CCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAATCTGCTCCACTGCAACTTCGAGGAG
196 CCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAG
* *
10598000 ATAAGGTGTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCCGAT
261 ACAAGGTGTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGAT
* * * ** *
10598065 CTACTCCACTGCAACTTCAAGAAGATAAGATCTATAACTTCAATCTGCTCCACTATAACATCAGG
326 CTACTCTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
10598130 GAGATAAGACTTGAAACTTCAATTTGCTCTGCTGTAACTTTAGG-GGATAAGATTCGCCATAATG
391 GAGATAAGACTTGTAACTTCAATCTGCTCCGCTGTAACTTTAGGAGGATAAGATTTGCCATAATG
10598194 A
456 A
10598195 ATTAGGTAAT
Statistics
Matches: 894, Mismatches: 124, Indels: 38
0.85 0.12 0.04
Matches are distributed among these distances:
574 42 0.05
575 32 0.04
576 71 0.08
577 1 0.00
581 38 0.04
582 4 0.00
583 62 0.07
584 103 0.12
585 3 0.00
587 1 0.00
588 23 0.03
589 460 0.51
590 50 0.06
591 2 0.00
592 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (590 bp):
CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGCAATTTTAAGTCTGCTCTACTGCA
ACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
GCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCT
CCACTGCAATTTCAGAGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAG
ACAAGGTGTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGAT
CTACTCTACTGCAACTTTAGGAAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTAACTTCAATCTGCTCCGCTGTAACTTTAGGAGGATAAGATTTGCCATAATG
ACTTCAATATGCTCCACTGCAACTTCAGGGAGAAAAGATTCACTATCTTCAATCTACACTACTGC
AACTTCAAGGAGATAAGATTTATAGTTTCAATATGCTCTACTACAAATTCAGAGAGATAAGATTC
ACTAT
Found at i:10600527 original size:192 final size:192
Alignment explanation
Indices: 10600194--10600564 Score: 634
Period size: 192 Copynumber: 1.9 Consensus size: 192
10600184 ACTAATTCAC
*
10600194 ATATAAGTGAGCACTCACAATCCTATGGCATTCCAACTATATCCAATGGTTCCAAAAATTCACAA
1 ATATAAGTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATGGTTCCAAAAATTCACAA
* * *
10600259 TGCCAACATAACGCAGTAATACACATGTACAGGTCACGTCATTTTAGGCTCACAATTTTTAATAG
66 TACCAACATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAG
* *
10600324 AGCTCACAGTACCACAACACGTCATAGAATAGCTTGCAAAGCATTAAGCGCCCTATCACATT
131 AGCTCACAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATT
* *
10600386 ATATAGGTGAGCACTCATAATCCTATGGCATGCCAACTATATCCAATGGTTCCAAAAATTCACAA
1 ATATAAGTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATGGTTCCAAAAATTCACAA
* * *
10600451 TACCAACATATCGCAATAATACACATTTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAT
66 TACCAACATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAG
*
10600516 AGCTGACAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
131 AGCTCACAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
10600565 TCGCATAAAC
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
192 167 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (192 bp):
ATATAAGTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATGGTTCCAAAAATTCACAA
TACCAACATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAG
AGCTCACAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATT
Found at i:10601045 original size:22 final size:22
Alignment explanation
Indices: 10601016--10601072 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10601006 GATTCATGCT
10601016 AAGA-GTTTGCACAACACATGG
1 AAGAGGTTTGCACAACACATGG
* **
10601037 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTTGCACAACACATGG
*
10601059 AAGAGGTTCGCACA
1 AAGAGGTTTGCACA
10601073 TGTACATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (22 bp):
AAGAGGTTTGCACAACACATGG
Found at i:10609479 original size:18 final size:18
Alignment explanation
Indices: 10609456--10609494 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10609446 ACCTCTTCCA
10609456 TAAAACCCCTTAAGGG-TT
1 TAAAACCCCTT-AGGGATT
10609474 TAAAACCCCTTAGGGATT
1 TAAAACCCCTTAGGGATT
10609492 TAA
1 TAA
10609495 CTTCAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (18 bp):
TAAAACCCCTTAGGGATT
Found at i:10612212 original size:26 final size:26
Alignment explanation
Indices: 10612176--10612229 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10612166 ATGCTTATAT
10612176 AAATTTTTGAATTAAGTTAAAGTGAG
1 AAATTTTTGAATTAAGTTAAAGTGAG
10612202 AAATTTTTGAATTAAGTTAAAGTGAG
1 AAATTTTTGAATTAAGTTAAAGTGAG
10612228 AA
1 AA
10612230 TGCTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (26 bp):
AAATTTTTGAATTAAGTTAAAGTGAG
Found at i:10612416 original size:2 final size:2
Alignment explanation
Indices: 10612411--10612452 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
10612401 GGGTTTTCGA
10612411 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
10612453 GTAAAAGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10613193 original size:41 final size:41
Alignment explanation
Indices: 10613148--10613259 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
10613138 GGTTTTAAAA
* * *
10613148 CCTAGCAGACTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
10613189 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
*
10613230 CCTAGCAGGCTAAGTGTCGGTGATCTGAAT
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAAT
10613260 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
Found at i:10619111 original size:24 final size:24
Alignment explanation
Indices: 10619066--10619112 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10619056 TATAAACATA
* *
10619066 CCATCATATACCAAATTGGTCATT
1 CCATCATACACCAAATTAGTCATT
* *
10619090 CCATCATACATCAACTTAGTCAT
1 CCATCATACACCAAATTAGTCAT
10619113 AATAACACCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (24 bp):
CCATCATACACCAAATTAGTCATT
Found at i:10620370 original size:17 final size:18
Alignment explanation
Indices: 10620338--10620371 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10620328 CCATGTGGTC
10620338 TGCCCGTGTGGGCCCACA
1 TGCCCGTGTGGGCCCACA
*
10620356 TGCCTGTGT-GGCCCAC
1 TGCCCGTGTGGGCCCAC
10620372 TCGGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.38, G:0.32, T:0.21
Consensus pattern (18 bp):
TGCCCGTGTGGGCCCACA
Found at i:10620922 original size:15 final size:15
Alignment explanation
Indices: 10620902--10620932 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10620892 TTACATCATT
10620902 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
10620917 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
10620932 T
1 T
10620933 AGACTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TCTTCTATGAGAAAC
Found at i:10621476 original size:27 final size:28
Alignment explanation
Indices: 10621415--10621474 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
10621405 GGTAGAGTGG
* *
10621415 GAAAAGAAAAATCCAGAAGGGGAAGGGT
1 GAAAAGAAAAATCAAGAAGAGGAAGGGT
*
10621443 GAAAAGAAAAATCAAGAAGATGAAGGGT
1 GAAAAGAAAAATCAAGAAGAGGAAGGGT
10621471 GAAA
1 GAAA
10621475 GAGAGCAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.08
Consensus pattern (28 bp):
GAAAAGAAAAATCAAGAAGAGGAAGGGT
Found at i:10623184 original size:22 final size:22
Alignment explanation
Indices: 10623105--10623176 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
10623095 ATTGTTCAAA
* **
10623105 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
10623127 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
10623149 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
10623171 CATGAG
1 CATGAG
10623177 GGTTTAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:10626445 original size:22 final size:22
Alignment explanation
Indices: 10626420--10626461 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10626410 TAAGAGTTCT
*
10626420 CACAACGCATGGATGAGGTTTG
1 CACAACGCATGGAAGAGGTTTG
*
10626442 CACAATGCATGGAAGAGGTT
1 CACAACGCATGGAAGAGGTT
10626462 CGTACATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (22 bp):
CACAACGCATGGAAGAGGTTTG
Found at i:10627265 original size:3 final size:3
Alignment explanation
Indices: 10627257--10627288 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10627247 AGAAAGTGTA
10627257 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10627289 AATGAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10628104 original size:5 final size:5
Alignment explanation
Indices: 10628094--10628119 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10628084 TGAGCATTCG
10628094 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
10628120 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:10629244 original size:9 final size:9
Alignment explanation
Indices: 10629227--10629257 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10629217 TCGAGTTGAT
10629227 TCGAATAAC
1 TCGAATAAC
*
10629236 TCGATTAAC
1 TCGAATAAC
10629245 TCGAATAAC
1 TCGAATAAC
10629254 TCGA
1 TCGA
10629258 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10632410 original size:49 final size:49
Alignment explanation
Indices: 10632301--10632446 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 49
10632291 TTCGTTTTCT
* * * *
10632301 CGATGCCATAGTCCAACAATGGTCTTACACGTAATCCACATAACACATAT
1 CGATGCCATAGCCCAACAATGGTCTTACACGAAAT-CACATATCACATAC
* * * *
10632351 CGATGTCATAGCCCAACTATGATCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACAATGGTCTTACACGAAATCACATATCACATAC
* * *
10632400 CGATGCCATAGCCTAGCAATGGTCTTATACGAAAATCACATATCACA
1 CGATGCCATAGCCCAACAATGGTCTTACACG-AAATCACATATCACA
10632447 AGTTGTCATG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 36 0.45
50 44 0.55
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAACAATGGTCTTACACGAAATCACATATCACATAC
Found at i:10634082 original size:23 final size:23
Alignment explanation
Indices: 10634044--10634183 Score: 181
Period size: 23 Copynumber: 6.1 Consensus size: 23
10634034 TGCCATACTA
* *
10634044 ATATGTAGTCGAAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
*
10634067 ATACGTAGCCGTAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
* * *
10634090 AAATGTAGCTGAAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
** *
10634113 ATATGTATTCATAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
10634136 ATATGTAGCCGTAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
* *
10634159 AAATGTAGCCGAAGCTACCACTG
1 ATATGTAGCCGTAGCTACCACTG
10634182 AT
1 AT
10634184 CAATAACACT
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
ATATGTAGCCGTAGCTACCACTG
Found at i:10634435 original size:18 final size:17
Alignment explanation
Indices: 10634409--10634447 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10634399 ATTTTCCTTC
10634409 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
10634426 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
10634444 CACA
1 CACA
10634448 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:10645529 original size:20 final size:21
Alignment explanation
Indices: 10645487--10645529 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10645477 ATGGAATGTA
* *
10645487 AAAATAAAAAAAATTGTTTGC
1 AAAATAAAAAAAATTGATAGC
*
10645508 AAAATAAAAATAATT-ATAGC
1 AAAATAAAAAAAATTGATAGC
10645528 AA
1 AA
10645530 TTACAACCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAATAAAAAAAATTGATAGC
Found at i:10657824 original size:3 final size:3
Alignment explanation
Indices: 10657818--10657876 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
10657808 AGAAGAAGTC
10657818 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
10657867 TTA TTA TTA T
1 TTA TTA TTA T
10657877 ATATGTGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10666128 original size:16 final size:19
Alignment explanation
Indices: 10666080--10666135 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
10666070 TTTAGTCATA
10666080 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
10666100 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
10666118 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
10666136 TTCAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:10666175 original size:22 final size:21
Alignment explanation
Indices: 10666150--10666196 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
10666140 ATTATATTTT
*
10666150 AATAATAAAATTTTAAATATTA
1 AATAATAAAATTTT-AATAATA
* *
10666172 AATATTAATATTTTAATAATA
1 AATAATAAAATTTTAATAATA
10666193 AATA
1 AATA
10666197 TTTATTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATAAAATTTTAATAATA
Found at i:10666189 original size:21 final size:22
Alignment explanation
Indices: 10666150--10666198 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
10666140 ATTATATTTT
* *
10666150 AATAATAAAATTTTAAATATTA
1 AATATTAAAATTTTAAATAATA
*
10666172 AATATTAATATTTT-AATAATA
1 AATATTAAAATTTTAAATAATA
10666193 AATATT
1 AATATT
10666199 TATTGCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATTAAAATTTTAAATAATA
Found at i:10666196 original size:15 final size:15
Alignment explanation
Indices: 10666178--10666234 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
10666168 ATTAAATATT
10666178 AATATTTTAATAATA
1 AATATTTTAATAATA
*
10666193 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
10666212 AATATATTAATAATA
1 AATATTTTAATAATA
10666227 AATATTTT
1 AATATTTT
10666235 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:10667336 original size:19 final size:20
Alignment explanation
Indices: 10667298--10667337 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10667288 AATTTTTTTA
10667298 AAATTATAAATATAATGAAT
1 AAATTATAAATATAATGAAT
* *
10667318 AAATTTTAAAT-TGATGAAT
1 AAATTATAAATATAATGAAT
10667337 A
1 A
10667338 TTTCAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
AAATTATAAATATAATGAAT
Found at i:10671205 original size:16 final size:16
Alignment explanation
Indices: 10671169--10671208 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10671159 GAATTACATT
*
10671169 TTAATTATATTATTATA
1 TTAATT-TATAATTATA
*
10671186 TTAATTTATAATTTTA
1 TTAATTTATAATTATA
10671202 TTAATTT
1 TTAATTT
10671209 TAAAAAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATAATTATA
Found at i:10680130 original size:121 final size:121
Alignment explanation
Indices: 10679943--10680282 Score: 475
Period size: 121 Copynumber: 2.8 Consensus size: 121
10679933 ATCGAGGTGG
* * * * *
10679943 TTACATGTTTGAATAATCCTTTAGCTTTCAAGATAAGTTCCATCTTAAAATGTTATGCTTGTGAG
1 TTACATGTTTGAACAAT-CTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAG
*
10680008 TTTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATTTCCTTACTCTAAAATTGAGGC-GA
65 TTTGCTTCTCTGCCTGTGCTTCTTGTTCGGTATTTCCTTACTCTAAAATTGA-GCTGA
* * * *
10680065 TTACATGTTTGAACAATCTTTAGCTTTTGAGATATGTTCGATTTTAAAATGTTATGCGTGCGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
* ** * *
10680130 TTGCATCTCTGCCAATGCTTCTTGTTCGGTATTTGCTTACTCTAGAATTGAGCTGA
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTATTTCCTTACTCTAAAATTGAGCTGA
* * * * *
10680186 TTACATGTTTGAACAATCTTTAGCTTTCGAGGTAAGTTTGGTTTTAAAATGTTATTCATGTGTGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
10680251 TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTAT
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTAT
10680283 AGATTGCTAT
Statistics
Matches: 191, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
120 2 0.01
121 173 0.91
122 16 0.08
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (121 bp):
TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTATTTCCTTACTCTAAAATTGAGCTGA
Found at i:10682241 original size:2 final size:2
Alignment explanation
Indices: 10682234--10682258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10682224 CAAAAACGAA
10682234 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
10682259 TTGGGTTTCG
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10692357 original size:2 final size:2
Alignment explanation
Indices: 10692350--10692392 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10692340 ATCTAAAATT
10692350 TA TA TA TA TA TA 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 TA TA TA TA TA TA
10692392 T
1 T
10692393 TCATCTCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10695042 original size:16 final size:16
Alignment explanation
Indices: 10695009--10695041 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
10694999 CCACTTGAAT
10695009 TATTTTAATATAAATA
1 TATTTTAATATAAATA
10695025 TATTTT-AT-TAAATA
1 TATTTTAATATAAATA
10695039 TAT
1 TAT
10695042 AAATATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTTAATATAAATA
Found at i:10698628 original size:31 final size:31
Alignment explanation
Indices: 10698587--10698648 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
10698577 TTTAACAACC
*
10698587 CAATGACTTAAATAAAAACT-TTTGAATAGTT
1 CAATAACTTAAATAAAAA-TATTTGAATAGTT
* *
10698618 CAATAACTTAAATGAAAATATTTGATTAGTT
1 CAATAACTTAAATAAAAATATTTGAATAGTT
10698649 TAATGATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (31 bp):
CAATAACTTAAATAAAAATATTTGAATAGTT
Found at i:10699588 original size:21 final size:21
Alignment explanation
Indices: 10699558--10699598 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10699548 AACTCTTGAT
*
10699558 TTTAGAATTTAAAGTGTTAAG
1 TTTAGAATTTAAAGTCTTAAG
*
10699579 TTTAGTATTTAAAGTCTTAA
1 TTTAGAATTTAAAGTCTTAA
10699599 AATTTGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTAGAATTTAAAGTCTTAAG
Found at i:10701265 original size:6 final size:6
Alignment explanation
Indices: 10701254--10701278 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10701244 TGTTCAAACA
10701254 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
10701279 AATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:10704077 original size:31 final size:31
Alignment explanation
Indices: 10704035--10704096 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
10704025 AAAAAAAGCC
10704035 CAGTGACTTAAATAAAAACTTTCAAATAATT
1 CAGTGACTTAAATAAAAACTTTCAAATAATT
* *
10704066 CAGTGATTTAAATGAAAACTTTCAAATAATT
1 CAGTGACTTAAATAAAAACTTTCAAATAATT
10704097 AAGTACTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTCAAATAATT
Found at i:10709587 original size:19 final size:19
Alignment explanation
Indices: 10709563--10709619 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
10709553 GATACCTTAA
10709563 TAATTTCATCCGGATTCAT
1 TAATTTCATCCGGATTCAT
*
10709582 TAATTT-A-CC--A-TGA-
1 TAATTTCATCCGGATTCAT
10709595 TAATTTCATCCGGATTCAT
1 TAATTTCATCCGGATTCAT
10709614 TAATTT
1 TAATTT
10709620 ACCATGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 6 0.20
14 3 0.10
15 3 0.10
17 3 0.10
18 3 0.10
19 12 0.40
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.44
Consensus pattern (19 bp):
TAATTTCATCCGGATTCAT
Found at i:10709599 original size:32 final size:32
Alignment explanation
Indices: 10709562--10709625 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10709552 TGATACCTTA
10709562 ATAATTTCATCCGGATTCATTAATTTACCATG
1 ATAATTTCATCCGGATTCATTAATTTACCATG
10709594 ATAATTTCATCCGGATTCATTAATTTACCATG
1 ATAATTTCATCCGGATTCATTAATTTACCATG
10709626 GAAAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (32 bp):
ATAATTTCATCCGGATTCATTAATTTACCATG
Found at i:10715218 original size:3 final size:3
Alignment explanation
Indices: 10715210--10715244 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10715200 GATTCATTTT
10715210 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10715245 TTGAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10717378 original size:6 final size:7
Alignment explanation
Indices: 10717361--10717391 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10717351 AAATATTCTA
10717361 AAAAAAT
1 AAAAAAT
10717368 AAAAAAT
1 AAAAAAT
10717375 AAAAAAT
1 AAAAAAT
10717382 -AAAAAT
1 AAAAAAT
10717388 AAAA
1 AAAA
10717392 CTGGGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:10717380 original size:14 final size:13
Alignment explanation
Indices: 10717361--10717391 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
10717351 AAATATTCTA
10717361 AAAAAATAAAAAAT
1 AAAAAAT-AAAAAT
10717375 AAAAAATAAAAAT
1 AAAAAATAAAAAT
10717388 AAAA
1 AAAA
10717392 CTGGGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:10717625 original size:19 final size:17
Alignment explanation
Indices: 10717601--10717637 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
10717591 AACCCTAAAC
10717601 TTTACTTCTTATCACATCT
1 TTTACTTCTT-TCA-ATCT
10717620 TTTACTTCTTTCAATCT
1 TTTACTTCTTTCAATCT
10717637 T
1 T
10717638 CAATCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 10 0.56
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTACTTCTTTCAATCT
Found at i:10719257 original size:23 final size:23
Alignment explanation
Indices: 10719231--10719279 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10719221 TGAAAAGTTA
*
10719231 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAAGAT
10719254 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAAGAT
10719277 GAA
1 GAA
10719280 AAGTTACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAAGAT
Found at i:10719298 original size:42 final size:42
Alignment explanation
Indices: 10719251--10719334 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
10719241 GAGACTTGAA
*
10719251 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAAAGACTTGAAGATGAAAAGTTACACACAT
10719293 TATGAAGAGTGAAAAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAAAGACTTGAAGATGAAAAGTTACACACAT
10719335 GCATGGATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (42 bp):
TATGAAGAGTGAAAAGACTTGAAGATGAAAAGTTACACACAT
Found at i:10723763 original size:23 final size:23
Alignment explanation
Indices: 10723737--10723827 Score: 93
Period size: 23 Copynumber: 4.1 Consensus size: 23
10723727 TGAAAAGTTA
*
10723737 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAAGAT
10723760 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAAGAT
* * * *
10723783 GAAAAGT-TACACACATT----AT
1 GAAGAGTGAAGAGAC-TTGAAGAT
10723802 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAAGAT
10723825 GAA
1 GAA
10723828 AAGTTACACA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
19 10 0.19
20 4 0.08
22 4 0.08
23 35 0.66
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.20
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAAGAT
Found at i:10723804 original size:42 final size:42
Alignment explanation
Indices: 10723757--10723840 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
10723747 GAGACTTGAA
10723757 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
10723799 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
10723841 GCATGGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:10727722 original size:31 final size:30
Alignment explanation
Indices: 10727663--10727722 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10727653 CCTTTTTACT
* * *
10727663 TTTCCCTCAAAAACTTTTACTTCTTCCCAC
1 TTTCCCCCAAAAACTTTTACTCCCTCCCAC
*
10727693 TTTCCCCCCAAAACTTTTACTCCCCTCCCA
1 TTTCCCCCAAAAACTTTTACT-CCCTCCCA
10727723 TCCCAACCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.35
Consensus pattern (30 bp):
TTTCCCCCAAAAACTTTTACTCCCTCCCAC
Found at i:10737900 original size:9 final size:9
Alignment explanation
Indices: 10737886--10737952 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
10737876 TTTAGTTAAA
10737886 AATTAACCG
1 AATTAACCG
*
10737895 AATTAACTG
1 AATTAACCG
*
10737904 AATTACCCG
1 AATTAACCG
10737913 AATTAACCG
1 AATTAACCG
*
10737922 AATTATCCG
1 AATTAACCG
10737931 AATTAACCG
1 AATTAACCG
*
10737940 AATTAACCA
1 AATTAACCG
10737949 AATT
1 AATT
10737953 GAATCACTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:10742784 original size:45 final size:45
Alignment explanation
Indices: 10742728--10742957 Score: 311
Period size: 45 Copynumber: 5.1 Consensus size: 45
10742718 GTAACGGTAG
* * * *
10742728 CAGTAATAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAATAA
* * *
10742773 CGGTAACAGTATTCGACACACAAAGTGCCGAATC-GATAACAATAA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTG-TAACAATAA
*
10742818 CAGTAATAGTATTCGACACACAAAGTGCCGAGT-TGGTAACAGTAA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCT-GTAACAATAA
* * * *
10742863 CAATAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACATTAA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAATAA
*
10742908 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCAGTAACAATAA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAATAA
10742953 CAGTA
1 CAGTA
10742958 GTCGGCACAT
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.01
45 162 0.99
46 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAATAA
Found at i:10742857 original size:90 final size:90
Alignment explanation
Indices: 10742728--10742954 Score: 348
Period size: 90 Copynumber: 2.5 Consensus size: 90
10742718 GTAACGGTAG
* * * **
10742728 CAGTAATAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAACGGTAACAGTATTCGACACA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAGTAACAATAACAGTATTCGACACA
10742793 CAAAGTGCCGAATCGATAACAATAA
66 CAAAGTGCCGAATCGATAACAATAA
10742818 CAGTAATAGTATTCGACACACAAAGTGCCGAGT-TGGTAACAGTAACAATAACAGTATTCGACAC
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCT-GTAACAGTAACAATAACAGTATTCGACAC
* * *
10742882 ACAAAGTGCCGAGTCGGTAACATTAA
65 ACAAAGTGCCGAATCGATAACAATAA
* *
10742908 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCAGTAACAATAACA
1 CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAGTAACA
10742955 GTAGTCGGCA
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
89 1 0.01
90 124 0.99
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (90 bp):
CAGTAATAGTATTCGACACACAAAGTGCCGAGTCTGTAACAGTAACAATAACAGTATTCGACACA
CAAAGTGCCGAATCGATAACAATAA
Found at i:10749958 original size:24 final size:22
Alignment explanation
Indices: 10749915--10749974 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
10749905 AATATTATTT
10749915 AAATTTATCATGCATAATAGTTTA
1 AAATTTATCAT--ATAATAGTTTA
*
10749939 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATATA--ATAGTTTA
*
10749963 AAACTTATCATA
1 AAATTTATCATA
10749975 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.09
24 29 0.91
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATAATAGTTTA
Found at i:10751022 original size:22 final size:22
Alignment explanation
Indices: 10750996--10751070 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
10750986 TCAAAGGATT
*
10750996 GCTCTCATGTTTCACGTACTAA
1 GCTCTCATGTTTAACGTACTAA
10751018 GCTCTCATGTTTAACGTACTAA
1 GCTCTCATGTTTAACGTACTAA
*
10751040 GCTCTCATGTTTAACGAACTAA
1 GCTCTCATGTTTAACGTACTAA
* *
10751062 ACCCTCATG
1 GCTCTCATG
10751071 GCTGTGTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (22 bp):
GCTCTCATGTTTAACGTACTAA
Found at i:10765038 original size:34 final size:33
Alignment explanation
Indices: 10764994--10765058 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
10764984 CAGTAAAATA
10764994 TTTTCCGGAAAATAATTTA-TAGAAAATGATTTAC
1 TTTTCCGGAAAATAATTTACT-GAAAAT-ATTTAC
* *
10765028 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTCCGGAAAATAATTTACTGAAAATATTT
10765059 TCTGGGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (33 bp):
TTTTCCGGAAAATAATTTACTGAAAATATTTAC
Found at i:10768745 original size:3 final size:3
Alignment explanation
Indices: 10768732--10768789 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
10768722 ATGTACAAAT
* * * *
10768732 ATA AAA ATA ATA ATA ATA ATA ATA ATG ATG GTA ATAA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
10768777 AGA ATA ATA ATA A
1 ATA ATA ATA ATA A
10768790 ATGATGGGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10769700 original size:17 final size:17
Alignment explanation
Indices: 10769678--10769711 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10769668 GCGCAAGGCA
*
10769678 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
10769695 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
10769712 GCTGGCTCCG
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:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:10770437 original size:44 final size:44
Alignment explanation
Indices: 10770244--10770525 Score: 372
Period size: 44 Copynumber: 6.4 Consensus size: 44
10770234 CAGAGAGATG
* *
10770244 AGATCTGCTGTT-TTTGATCTACTTCACGCCAATACATGAAGGCA
1 AGATCTGCT-TTCTTCGATCTACTTCACGCCAATACATGAAGACA
* *
10770288 AGATATG-TTTTTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * * ***
10770331 AGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACA
*
10770376 AGATCTG-TTATCCTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTT-TCTTCGATCTACTTCACGCCAATACATGAAGACA
*
10770420 ATATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
**
10770464 AGATCTATTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* *
10770508 AGATTTACTTTCTTCGAT
1 AGATCTGCTTTCTTCGAT
10770526 TTATTCCACT
Statistics
Matches: 208, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.01
43 37 0.18
44 133 0.64
45 36 0.17
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
Found at i:10770743 original size:132 final size:132
Alignment explanation
Indices: 10770518--10771280 Score: 950
Period size: 132 Copynumber: 5.8 Consensus size: 132
10770508 AGATTTACTT
* * * * * * *
10770518 TCTTCGATTTATTCCACTGCCGACCAGGGAGATAGAATTACT-GCATCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
** * * * * * *
10770582 CTTCAGGGAGGTAAAA-TCTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGATATAAGATCTA
66 CCACAAGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
*
10770646 TAA
130 CAA
* * *
10770649 TCTTCAATCTATTCCATTGCTGCCGAGGGAAATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
10770714 CCACAAAGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGC
66 CCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGC
10770779 AA
131 AA
*
10770781 TCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
10770846 CCACATGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGC
66 CCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGC
10770911 AA
131 AA
* * * *
10770913 TCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGCAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * * *
10770978 CCTCAGGGAGGTAAAA-TCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 CCACAAGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
*
10771042 TAA
130 CAA
* * * *
10771045 TATTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * * *
10771110 CCACGAGGAGGTAAAATCTGC-CC-TCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAG
66 CCACAAGGAGGTAAAAT-T-CACCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAG
10771170 ATCTGCAA
125 ATCTGCAA
* * * *
10771178 TCTTTAATCTATTCTACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
*
10771243 CCAC-AGGAAGGTAAAATTCACCATTTTTGATCTGCTCC
66 CCACAAGG-AGGTAAAATTCACCATCTTTGATCTGCTCC
10771281 GCTGTCTATG
Statistics
Matches: 554, Mismatches: 65, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
131 38 0.07
132 406 0.73
133 101 0.18
134 2 0.00
135 4 0.01
136 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCACAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGC
AA
Found at i:10771102 original size:396 final size:395
Alignment explanation
Indices: 10770518--10771280 Score: 1144
Period size: 396 Copynumber: 1.9 Consensus size: 395
10770508 AGATTTACTT
* * *
10770518 TCTTCGATTTATTCCACTGCCGACCAGGGAGATAGAATTACTGCATCAATATACTCCACTGTAAC
1 TCTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGCATCAATATACTCCACTGCAAC
* * *
10770583 TTCAGGGAGGTAAAATCTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGATATAAGATCTATA
66 CTCAGGGAGGTAAAATCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCTATA
* * * * *
10770648 ATCTTCAATCTATTCCATTGCTGCCGAGGGAAATAGAATTATTGGCTTCAATGTACTCCACTGTA
131 ATATTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTAGCTTCAATGTACTCCACTGTA
* *
10770713 ACCACAAAGAGGTAAAAT-T-CACCATCTTTGATCTGCTCCACTACTGCT-TG-GGGAGACAAGA
196 ACCACAAAGAGGTAAAATCTGC-CC-TCTTCGATCTGCTCCACT-CT-CTATGAGGAAGACAAGA
10770774 TCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
257 TCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
*
10770839 ACTGTAACCACATGG-AGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACA
322 ACTATAACCACA-GGAAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACA
10770903 AGATCTGCAA
386 AGATCTGCAA
* *
10770913 TCTTCAATCTATTCCACTGCTG-CCTAGGGA-AGTAGAATTACTGGCTTCAATATACTCCACTGC
1 TCTTCAATCTATTCCACTGCCGACC-AGGGAGA-TAGAATTACT-GCATCAATATACTCCACTGC
10770976 AACCTCAGGGAGGTAAAATCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCT
63 AACCTCAGGGAGGTAAAATCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCT
* * *
10771041 GTAATATTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACT
128 ATAATATTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTAGCTTCAATGTACTCCACT
* * * * * *
10771106 GTAACCACGAGGAGGTAAAATCTGCCCTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGA
193 GTAACCACAAAGAGGTAAAATCTGCCCTCTTCGATCTGCTCCACTCTCTATG-AGGAAGACAAGA
* *
10771171 TCTGCAATCTTTAATCTATTCTACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
257 TCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCC
*
10771236 ACTATAACCACAGGAAGGTAAAATTCACCATTTTTGATCTGCTCC
322 ACTATAACCACAGGAAGGTAAAATTCACCATCTTTGATCTGCTCC
10771281 GCTGTCTATG
Statistics
Matches: 331, Mismatches: 28, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
394 5 0.02
395 37 0.11
396 173 0.52
397 115 0.35
398 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (395 bp):
TCTTCAATCTATTCCACTGCCGACCAGGGAGATAGAATTACTGCATCAATATACTCCACTGCAAC
CTCAGGGAGGTAAAATCTGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCTATA
ATATTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTAGCTTCAATGTACTCCACTGTA
ACCACAAAGAGGTAAAATCTGCCCTCTTCGATCTGCTCCACTCTCTATGAGGAAGACAAGATCTG
CAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
TAACCACAGGAAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATC
TGCAA
Found at i:10772653 original size:7 final size:7
Alignment explanation
Indices: 10772637--10772677 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
10772627 AGCCTCTCCA
*
10772637 TTTTCTT
1 TTTTCAT
10772644 TTTTCAT
1 TTTTCAT
10772651 TTTTCAT
1 TTTTCAT
10772658 TTTT-AT
1 TTTTCAT
10772664 CTTTTCAT
1 -TTTTCAT
10772672 TTTTCA
1 TTTTCA
10772678 CATCACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 2 0.06
7 27 0.87
8 2 0.06
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:10777631 original size:3 final size:3
Alignment explanation
Indices: 10777623--10777674 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
10777613 ATGTACAAAT
* * * *
10777623 ATA ATA ATA ATA ATA ATA ATG ATG GTA ATAA ATA AT- ATA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
10777668 ATA ATA A
1 ATA ATA A
10777675 ATGATGGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10778580 original size:17 final size:17
Alignment explanation
Indices: 10778558--10778591 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10778548 GCGCAAGGCA
*
10778558 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
10778575 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
10778592 GCTGGCTCCG
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:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:10779994 original size:9 final size:9
Alignment explanation
Indices: 10779980--10780010 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10779970 GTTAAATGAA
10779980 TCGAGTTAT
1 TCGAGTTAT
*
10779989 TCGAGTTAA
1 TCGAGTTAT
10779998 TCGAGTTAT
1 TCGAGTTAT
10780007 TCGA
1 TCGA
10780011 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10780081 original size:9 final size:9
Alignment explanation
Indices: 10780064--10780100 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10780054 TGATTTTTCG
10780064 AATTCGAAT
1 AATTCGAAT
*
10780073 AACTCGAAT
1 AATTCGAAT
10780082 AATTCGAAT
1 AATTCGAAT
10780091 AATTCGAAT
1 AATTCGAAT
10780100 A
1 A
10780101 TCCAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10783037 original size:2 final size:2
Alignment explanation
Indices: 10783030--10783065 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10783020 AAATTATAAG
*
10783030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10783066 TTATGCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10783421 original size:21 final size:22
Alignment explanation
Indices: 10783396--10783445 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10783386 TGGACGAGTA
10783396 AACAATA-ATAA-AAATAGTAAT
1 AACAATAGATAACAAATA-TAAT
10783417 AACAA-AGATAACAAATATAAT
1 AACAATAGATAACAAATATAAT
*
10783438 AATAATAG
1 AACAATAG
10783446 TTAGTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (22 bp):
AACAATAGATAACAAATATAAT
Found at i:10785403 original size:44 final size:42
Alignment explanation
Indices: 10785354--10785492 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 42
10785344 TAATGCAAGA
10785354 AGGCAAGATCTGTTGTCTTCAACCAGCTCCATCATAGCCGAGGG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCATCA-AGCCGA-GG
* * * *
10785398 AGGCAAGGTTTG-TGTCTTCAACCTGCTTCGCTGTCAATGCACGA--
1 AGGCAAGATCTGTTGTCTTCAACCAGC-TC-C-ATCAA-GC-CGAGG
* *
10785442 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCATCA-AGCCGAG-G
10785486 AGGCAAG
1 AGGCAAG
10785493 GTTTTGTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
41 3 0.04
42 4 0.05
43 15 0.20
44 30 0.40
45 15 0.20
46 5 0.07
47 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (42 bp):
AGGCAAGATCTGTTGTCTTCAACCAGCTCCATCAAGCCGAGG
Found at i:10785431 original size:88 final size:87
Alignment explanation
Indices: 10785284--10785558 Score: 360
Period size: 88 Copynumber: 3.2 Consensus size: 87
10785274 GATCTGAAAT
* * *
10785284 TCTTCAGCCAGCTCCA-CTACAACCGAGAGAGGTAA-G-TTCGTCTTCGACCTGCTTCGCTGTTA
1 TCTTCAACCAGCTCCATC-ACAACCGAGAGAGGCAAGGTTTTGTCTTCGACCTGCTTCGCTGTTA
10785346 ATGCAAGAAGGCAAGATCTGTTG
65 ATGCAAGAAGGCAAGATCTGTTG
* * * * *
10785369 TCTTCAACCAGCTCCATCATAGCCGAGGGAGGCAAGGTTTGTGTCTTCAACCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTT-TGTCTTCGACCTGCTTCGCTGTTA
* *
10785434 ATGCACGAAGGCAAGATCTTTTG
65 ATGCAAGAAGGCAAGATCTGTTG
* *
10785457 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAA
1 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTTGTCTTCGACCTGCTTCGCTGTTAA
* * *
10785522 CGCAGGAAGGCAAGATCTGCT-
66 TGCAAGAAGGCAAGATCTGTTG
*
10785543 TCTTTAACCAGCTCCA
1 TCTTCAACCAGCTCCA
10785559 CTGCAACCAA
Statistics
Matches: 164, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
85 28 0.17
86 17 0.10
87 40 0.24
88 79 0.48
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTTGTCTTCGACCTGCTTCGCTGTTAA
TGCAAGAAGGCAAGATCTGTTG
Found at i:10785463 original size:45 final size:45
Alignment explanation
Indices: 10785323--10785465 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 45
10785313 AGGTAAGTTC
* * * *
10785323 GTCTTCGACCTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGTT
1 GTCTTCAACCTGCTTCGCTGTCAATGCACGAAGGCAAGATCTTTT
* * * *
10785368 GTCTTCAACCAGC-TC-C-ATC-ATAGC-CGAGGGAGGCAAGGT-TTGT
1 GTCTTCAACCTGCTTCGCTGTCAAT-GCACGA---AGGCAAGATCTTTT
10785411 GTCTTCAACCTGCTTCGCTGTCAATGCACGAAGGCAAGATCTTTT
1 GTCTTCAACCTGCTTCGCTGTCAATGCACGAAGGCAAGATCTTTT
10785456 GTCTTCAACC
1 GTCTTCAACC
10785466 AGCTCCATCA
Statistics
Matches: 76, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
41 4 0.05
42 3 0.04
43 15 0.20
44 20 0.26
45 25 0.33
46 4 0.05
47 5 0.07
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (45 bp):
GTCTTCAACCTGCTTCGCTGTCAATGCACGAAGGCAAGATCTTTT
Found at i:10787293 original size:43 final size:44
Alignment explanation
Indices: 10787246--10787337 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 44
10787236 GCTTTTCATA
*
10787246 TTTTTATTTTGACTTTGATTGATTTCTCT-TTTTC-TTTTTCTTT
1 TTTTTATTTTGACTTTGATT-ATTTCTCTCTTTTCATTTTCCTTT
* * *
10787289 TTTTTATTTTGATTTTTATTTTTTCTCTCTTTTCATTTTCCTTT
1 TTTTTATTTTGACTTTGATTATTTCTCTCTTTTCATTTTCCTTT
10787333 TTTTT
1 TTTTT
10787338 TGAATCGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 7 0.16
43 23 0.53
44 13 0.30
ACGTcount: A:0.09, C:0.12, G:0.04, T:0.75
Consensus pattern (44 bp):
TTTTTATTTTGACTTTGATTATTTCTCTCTTTTCATTTTCCTTT
Found at i:10791528 original size:111 final size:112
Alignment explanation
Indices: 10791339--10791623 Score: 443
Period size: 111 Copynumber: 2.6 Consensus size: 112
10791329 AGGAATCGAA
* * * *
10791339 ACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTGAAAT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAAG
10791402 TTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAAC
66 TTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAAC
* *
10791449 ACCCAGCACCTTATGGCATGTTTTCTCGAATTTCCCAAGCGCAAAACATTGCCTTATTCTTAAAA
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT-TTAAAA
* *
10791514 GTTTT-AA-AAGGATATTAAGCCATTTGGTTGGACGTGAAAAATCAAC
65 GTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAAC
* *
10791560 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCGAAATATTGCCTTATTTTAAAA
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAA
10791624 CATTTTCCTT
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
110 24 0.15
111 102 0.64
112 25 0.16
113 9 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (112 bp):
ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAAG
TTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCAAC
Found at i:10796183 original size:22 final size:22
Alignment explanation
Indices: 10796155--10796196 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10796145 ATATAAATAC
10796155 AACTT-AATCATGAACGAGCTCG
1 AACTTAAAT-ATGAACGAGCTCG
*
10796177 AACTTAAATATGAATGAGCT
1 AACTTAAATATGAACGAGCT
10796197 TAATCAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
AACTTAAATATGAACGAGCTCG
Found at i:10797819 original size:25 final size:25
Alignment explanation
Indices: 10797790--10797841 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10797780 GATAAATATC
10797790 TTTATTTGATTTGATTCT-AATTAAT
1 TTTATTTGATTTGATT-TAAATTAAT
* *
10797815 TTTATTTTATTTTATTTAAATTAAT
1 TTTATTTGATTTGATTTAAATTAAT
10797840 TT
1 TT
10797842 AAAGGCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTATTTGATTTGATTTAAATTAAT
Found at i:10798312 original size:50 final size:47
Alignment explanation
Indices: 10798256--10798381 Score: 128
Period size: 50 Copynumber: 2.6 Consensus size: 47
10798246 TCAAATATGA
* *
10798256 TGTTTTAAATAAATATAAATATTTATTTA-ATTTGTTTTGTTTAGATCT
1 TGTTTTAAATAAATATAAATATTTATTTATA-TT-ATTTGTTCAGATCT
* * *
10798304 GGTGTTTTACATAAATATAATTATTTGTTTATATTATTTGTTCAGATCT
1 --TGTTTTAAATAAATATAAATATTTATTTATATTATTTGTTCAGATCT
**
10798353 TGTATTTAATATAAATATTTATATTTATT
1 TGT-TTTAA-ATAAATATAAATATTTATT
10798382 CGCTAACGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 3 0.05
48 4 0.06
49 27 0.43
50 28 0.44
51 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.56
Consensus pattern (47 bp):
TGTTTTAAATAAATATAAATATTTATTTATATTATTTGTTCAGATCT
Found at i:10798367 original size:49 final size:49
Alignment explanation
Indices: 10798259--10798381 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
10798249 AATATGATGT
* * *
10798259 TTTAAATAAATATAAATATTTATTTAATTTGTTTTGTTTAGATCTGGTGT
1 TTTAAATAAATATAAATATTTATTTAATTTGATTTGTTCAGATCTGGT-A
* * * *
10798309 TTTACATAAATATAATTATTTGTTT-ATATT-ATTTGTTCAGATCTTGTA
1 TTTAAATAAATATAAATATTTATTTAAT-TTGATTTGTTCAGATCTGGTA
**
10798357 TTTAATATAAATATTTATATTTATT
1 TTTAA-ATAAATATAAATATTTATT
10798382 CGCTAACGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.07
49 31 0.53
50 24 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (49 bp):
TTTAAATAAATATAAATATTTATTTAATTTGATTTGTTCAGATCTGGTA
Found at i:10811270 original size:19 final size:19
Alignment explanation
Indices: 10811225--10811270 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
10811215 ACTCGGAAGC
*
10811225 AGATCTCCCTCGAGATCGA
1 AGATCTCTCTCGAGATCGA
10811244 AGATCTCTCTCGAGATCGA
1 AGATCTCTCTCGAGATCGA
10811263 AGATCTCT
1 AGATCTCT
10811271 ATTTAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (19 bp):
AGATCTCTCTCGAGATCGA
Found at i:10812644 original size:11 final size:11
Alignment explanation
Indices: 10812625--10812667 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
10812615 ACACCGAACT
10812625 TTTTC-GGTAA
1 TTTTCGGGTAA
10812635 TTTTCGGGTAA
1 TTTTCGGGTAA
10812646 --TTCGGGTAA
1 TTTTCGGGTAA
*
10812655 TTTTAGGGTAA
1 TTTTCGGGTAA
10812666 TT
1 TT
10812668 CGGTTAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.31
10 5 0.17
11 15 0.52
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.47
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:10812651 original size:9 final size:9
Alignment explanation
Indices: 10812637--10812702 Score: 80
Period size: 9 Copynumber: 7.2 Consensus size: 9
10812627 TTCGGTAATT
10812637 TTCGGGTAA
1 TTCGGGTAA
10812646 TTCGGGTAA
1 TTCGGGTAA
*
10812655 TTTTAGGGTAA
1 --TTCGGGTAA
*
10812666 TTCGGTTAA
1 TTCGGGTAA
*
10812675 TTCGGTTAA
1 TTCGGGTAA
10812684 -TCGGGTAA
1 TTCGGGTAA
10812692 TTCGGGTAA
1 TTCGGGTAA
10812701 TT
1 TT
10812703 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.14
9 35 0.70
11 8 0.16
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Done.