Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 263 of 332
Found at i:88025397 original size:53 final size:52
Alignment explanation
Indices: 88025300--88025403 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
88025290 GTCCAAATAA
* * * * *
88025300 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCCTTCATTTTGAGTTG
1 ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
* *
88025352 ATTTCCTTCTTATTGCATTTGCAATCTTTGATTAATTTATCCATTTCGAGTT
1 ATTTCCTTCTTATTGCA-TTGCAATCTTTGATTAAATCATCCATTTCGAGTT
88025404 ATGCTCCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 16 0.36
53 28 0.64
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
Found at i:88026645 original size:44 final size:43
Alignment explanation
Indices: 88026597--88027348 Score: 471
Period size: 44 Copynumber: 17.4 Consensus size: 43
88026587 GGCGGAGAGT
* *
88026597 AGATCGAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
* * * * *
88026641 AGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-C
** *
88026686 AGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATTGGGAAC
1 AGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAAC
* * *
88026729 A-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
* * *
88026773 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTAT-GGTGAAGC
1 AGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGG-GAA-C
** *
88026818 AGATCGAAGATTTCACA-TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAGATTGGCATCCCTGTGCTTATAGGGAAC
*
88026860 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
* * * *
88026904 AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAGGGAA-C
**
88026949 AGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAAC
* * * * * ** *
88026992 A-AGTTGAAAACAGTAGATTTGACATCCCTGTGCAGATAGAAGATATC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAG-GGA-A-C
* ** * ** *
88027039 AGATCTG-ACATTCCTG--T-GC-TTAC-G-G-TGA-A--G--C
1 AGATC-GAAGATAGCAGATTGGCATCCCTGTGCTTATAGGGAAC
* **
88027070 AGATCAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAAC
*
88027113 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
88027157 AGATCAAAGATAGCAGATCTGACATTCCTATGCTTA-CGATGAAGC
1 AGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTTATAG-GGAA-C
** *
88027202 AGATCGAAGATTTCAGCA-TGGAATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTTATAGGGAAC
* * *
88027245 A-AGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
* * * * *
88027289 A-AGTTGAA-ACAACAGATTTGGCATCCCTGTGTTTATGGGGAAC
1 AGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTTATAGGGAAC
88027332 AGATCGAAGA-AGCAGAT
1 AGATCGAAGATAGCAGAT
88027349 CAAGAACTCA
Statistics
Matches: 547, Mismatches: 108, Indels: 108
0.72 0.14 0.14
Matches are distributed among these distances:
31 12 0.02
33 1 0.00
34 2 0.00
35 3 0.01
36 1 0.00
37 1 0.00
38 3 0.01
39 3 0.01
40 1 0.00
41 3 0.01
42 23 0.04
43 109 0.20
44 309 0.56
45 64 0.12
46 4 0.01
47 6 0.01
48 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AGATCGAAGATAGCAGATTGGCATCCCTGTGCTTATAGGGAAC
Found at i:88027261 original size:132 final size:132
Alignment explanation
Indices: 88026602--88027289 Score: 1062
Period size: 132 Copynumber: 5.3 Consensus size: 132
88026592 AGAGTAGATC
* * *
88026602 GAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGTAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
*
88026667 CCTGTGCTTAC-AGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATTGGGAACAA
66 CCTGTGCTTACGA-TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAA
88026731 GTT
130 GTT
* *
88026734 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* * *
88026799 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCA-CATGGCATCCCTGTGCTTATAGGGAACAAG
66 CCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
88026863 TT
131 TT
88026865 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
88026930 CCTGTGCTTAC-AGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAA
66 CCTGTGCTTACGA-TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAA
88026994 GTT
130 GTT
* * * * * *
88026997 GAAAACAGTAGATTTGACATCCC--TG----T---G--CAGATAGAAGATATCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* *
88027051 CCTGTGCTTACGGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
66 CCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
88027116 TT
131 TT
*
88027118 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* *
88027183 CCTATGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAG
66 CCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
88027248 TT
131 TT
* *
88027250 GAAGATAGCAGATTTGGCATCCTTGTGTTTATAGGGAACA
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
88027290 AGTTGAAACA
Statistics
Matches: 506, Mismatches: 35, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
121 108 0.21
123 3 0.01
126 1 0.00
127 1 0.00
130 3 0.01
131 124 0.25
132 266 0.53
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
CCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
TT
Found at i:88027627 original size:9 final size:9
Alignment explanation
Indices: 88027613--88027637 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
88027603 TACTCCACTA
88027613 AACCACTCT
1 AACCACTCT
88027622 AACCACTCT
1 AACCACTCT
88027631 AACCACT
1 AACCACT
88027638 TCACTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (9 bp):
AACCACTCT
Found at i:88027649 original size:13 final size:13
Alignment explanation
Indices: 88027631--88027701 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
88027621 TAACCACTCT
*
88027631 AACCACTTCACTA
1 AACCACTACACTA
* *
88027644 AACCACTCCATTA
1 AACCACTACACTA
88027657 AACCACTACACTA
1 AACCACTACACTA
88027670 AACCACTACACTA
1 AACCACTACACTA
*
88027683 AACCACTCCACTA
1 AACCACTACACTA
88027696 AACCAC
1 AACCAC
88027702 CCCAACCACC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 53 1.00
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCACTACACTA
Found at i:88027718 original size:35 final size:35
Alignment explanation
Indices: 88027679--88027751 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
88027669 AAACCACTAC
88027679 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
1 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
*
88027714 ACTAAACCACTCCACTAAACCACCCCAACCACTCT
1 ACTAAACCACTCCACTAAACCACCCCAACCACCCT
88027749 ACT
1 ACT
88027752 TGCCTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (35 bp):
ACTAAACCACTCCACTAAACCACCCCAACCACCCT
Found at i:88027738 original size:26 final size:26
Alignment explanation
Indices: 88027604--88027736 Score: 132
Period size: 26 Copynumber: 5.1 Consensus size: 26
88027594 AAATATCTTT
*
88027604 ACTCCACTAAACCACTCTAACCACTCTAACC
1 ACTCCACTAAACCA--CT--CCACT-AAACC
* *
88027635 ACTTCACTAAACCACTCCATTAAACC
1 ACTCCACTAAACCACTCCACTAAACC
* *
88027661 ACTACACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACTCCACTAAACC
88027687 ACTCCACTAAACCAC-CC-C--AACC
1 ACTCCACTAAACCACTCCACTAAACC
88027709 AC-CCTACTAAACCACTCCACTAAACC
1 ACTCC-ACTAAACCACTCCACTAAACC
88027735 AC
1 AC
88027737 CCCAACCACT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
21 2 0.02
22 16 0.18
23 2 0.02
24 2 0.02
25 1 0.01
26 47 0.53
27 4 0.04
29 2 0.02
31 13 0.15
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (26 bp):
ACTCCACTAAACCACTCCACTAAACC
Found at i:88028155 original size:3 final size:3
Alignment explanation
Indices: 88028144--88028226 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
88028134 TTTATTTTTT
* * *
88028144 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATG TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
88028187 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
88028227 ATATGCCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
2 7 0.11
3 48 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:88028177 original size:12 final size:12
Alignment explanation
Indices: 88028143--88028226 Score: 66
Period size: 12 Copynumber: 6.8 Consensus size: 12
88028133 TTTTATTTTT
*
88028143 TTTATTTTATTA
1 TTTATATTATTA
* *
88028155 TTTTTACTATTA
1 TTTATATTATTA
*
88028167 TTTATGTTATTA
1 TTTATATTATTA
88028179 -TTATTATT-TCTCA
1 TTTA-TATTAT-T-A
88028192 TGTATATATTATTA
1 T-T-TATATTATTA
88028206 TTTATATTATTA
1 TTTATATTATTA
88028218 -TTATATTAT
1 TTTATATTAT
88028227 ATATGCCCTC
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
11 13 0.22
12 32 0.55
13 2 0.03
14 2 0.03
15 6 0.10
16 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:88030398 original size:13 final size:13
Alignment explanation
Indices: 88030368--88030392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88030358 ACCAGGGGAC
88030368 ACACAACCGTGTA
1 ACACAACCGTGTA
88030381 ACACAACCGTGT
1 ACACAACCGTGT
88030393 GTCACACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
ACACAACCGTGTA
Found at i:88030644 original size:26 final size:26
Alignment explanation
Indices: 88030614--88030666 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
88030604 ATACCATCAA
88030614 AACATCAAAAGACCATTTACAAATAT
1 AACATCAAAAGACCATTTACAAATAT
88030640 AACATCAAAAGACCATTTACAAATAT
1 AACATCAAAAGACCATTTACAAATAT
88030666 A
1 A
88030667 CATTATTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.23
Consensus pattern (26 bp):
AACATCAAAAGACCATTTACAAATAT
Found at i:88034812 original size:15 final size:14
Alignment explanation
Indices: 88034792--88034838 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
88034782 GCAACCCAAT
88034792 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
88034807 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
88034820 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
88034835 TTTT
1 TTTT
88034839 TAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 5 0.18
15 15 0.54
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:88036466 original size:15 final size:15
Alignment explanation
Indices: 88036446--88036497 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
88036436 CATTTTATTT
88036446 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
88036461 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
88036474 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
88036488 ATTTTAGGAT
1 ATATTAGGAT
88036498 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:88036509 original size:35 final size:35
Alignment explanation
Indices: 88036470--88036546 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
88036460 AATATTAAGA
88036470 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
88036505 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
88036540 TAATTAT
1 TAATTAT
88036547 CTTTATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.57
Consensus pattern (35 bp):
TAATTATTAGGATATTTAATTTTAGGATTTTATTT
Found at i:88036526 original size:22 final size:19
Alignment explanation
Indices: 88036484--88036544 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
88036474 TATTAGGATA
88036484 TTTAATTTTAGGATTTTAT
1 TTTAATTTTAGGATTTTAT
88036503 TTTAATTATTAGGA---TA-
1 TTTAATT-TTAGGATTTTAT
88036519 TTTAATTTTAGGATTTTAT
1 TTTAATTTTAGGATTTTAT
88036538 TTTAATT
1 TTTAATT
88036545 ATCTTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.16
16 7 0.19
17 2 0.05
18 2 0.05
19 14 0.38
20 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTAATTTTAGGATTTTAT
Found at i:88036531 original size:15 final size:15
Alignment explanation
Indices: 88036470--88036541 Score: 76
Period size: 15 Copynumber: 4.5 Consensus size: 15
88036460 AATATTAAGA
88036470 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
88036486 TAATTTTAGGATTTTATTT
1 TAATTTTAGGA---TA-TT
88036505 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
88036521 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
88036535 T-ATTTTA
1 TAATTTTA
88036542 ATTATCTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.12
14 3 0.06
15 13 0.25
16 12 0.24
17 2 0.04
18 2 0.04
19 7 0.14
20 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:88038911 original size:21 final size:20
Alignment explanation
Indices: 88038885--88038923 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
88038875 TTGTTTATCA
*
88038885 ATCATCAAGCATTCAAAATCT
1 ATCATCAAACA-TCAAAATCT
88038906 ATCATCAAACATCAAAAT
1 ATCATCAAACATCAAAAT
88038924 AAACATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
ATCATCAAACATCAAAATCT
Found at i:88039513 original size:27 final size:27
Alignment explanation
Indices: 88039475--88039534 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
88039465 TTTGACCTCA
88039475 GATTTGTGGTCCAGAAACCACTGTTTC
1 GATTTGTGGTCCAGAAACCACTGTTTC
88039502 GATTTGTGGTCCAGAAACCACTGTTTC
1 GATTTGTGGTCCAGAAACCACTGTTTC
88039529 GATTTG
1 GATTTG
88039535 ACTAAAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (27 bp):
GATTTGTGGTCCAGAAACCACTGTTTC
Found at i:88044201 original size:22 final size:23
Alignment explanation
Indices: 88044159--88044201 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
88044149 TTTCAAAAAT
*
88044159 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
88044182 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
88044202 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:88044283 original size:43 final size:43
Alignment explanation
Indices: 88044222--88044377 Score: 240
Period size: 43 Copynumber: 3.6 Consensus size: 43
88044212 ATAATTTTTT
* * * * *
88044222 TAAAGTTCATGATTTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
88044265 TAAAGGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
*
88044308 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
* *
88044351 TAAAAGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGATCTTTAGCGGCGTTT
88044378 TTTTAAATAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
Found at i:88058087 original size:18 final size:18
Alignment explanation
Indices: 88058060--88058098 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88058050 AGGAATAGAA
*
88058060 AATTTCATTAGGTTAATT
1 AATTTAATTAGGTTAATT
*
88058078 AATTTAATTAGTTTAATT
1 AATTTAATTAGGTTAATT
88058096 AAT
1 AAT
88058099 ACCTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
AATTTAATTAGGTTAATT
Found at i:88062231 original size:46 final size:48
Alignment explanation
Indices: 88062064--88062234 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 48
88062054 TGTGTGGGCT
* * *
88062064 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATT-ATGA-GAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TATTGA-GACGAGAAC
*
88062110 AGTATAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
* * *
88062157 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGATGTG-TC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
88062202 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
88062235 ATTATACGCT
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
44 9 0.08
45 20 0.19
46 34 0.31
47 30 0.28
48 15 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
Found at i:88066332 original size:30 final size:30
Alignment explanation
Indices: 88066298--88066359 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
88066288 TTCTGAGTGT
*
88066298 AAGATTATCTGTCTGTATTCTGTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
88066328 AAGATTATCTGTCTGTATTCTCTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
88066358 AA
1 AA
88066360 CTGCATTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (30 bp):
AAGATTATCTGTCTGTATTCTCTTTGTCTG
Found at i:88066382 original size:14 final size:15
Alignment explanation
Indices: 88066350--88066389 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
88066340 CTGTATTCTC
88066350 TTTGT-CTGAACTGCA
1 TTTGTGCTGAA-TGCA
88066365 TTTGTGCTGAAT-CA
1 TTTGTGCTGAATGCA
88066379 TTTGTG-TGAAT
1 TTTGTGCTGAAT
88066390 TTGATGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 6 0.25
16 5 0.21
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (15 bp):
TTTGTGCTGAATGCA
Found at i:88069290 original size:75 final size:75
Alignment explanation
Indices: 88069167--88069316 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
88069157 AGAGTAATAG
*
88069167 TGGAGAGTAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
*
88069232 GCTGCTGATT
66 GATGCTGATT
88069242 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
88069307 GATGCTGATT
66 GATGCTGATT
88069317 CCTCAATGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (75 bp):
TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
GATGCTGATT
Found at i:88077175 original size:13 final size:14
Alignment explanation
Indices: 88077150--88077195 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
88077140 CGCGGGCATT
88077150 ACAAACAAATCAAA
1 ACAAACAAATCAAA
*
88077164 ACAAAC-AATCAAT
1 ACAAACAAATCAAA
88077177 ACAAACAAATCAAA
1 ACAAACAAATCAAA
*
88077191 GCAAA
1 ACAAA
88077196 TAATCAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.67, C:0.22, G:0.02, T:0.09
Consensus pattern (14 bp):
ACAAACAAATCAAA
Found at i:88077187 original size:27 final size:27
Alignment explanation
Indices: 88077149--88077202 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
88077139 CCGCGGGCAT
88077149 TACAAACAAATCAAAACAAACAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
* *
88077176 TACAAACAAATCAAAGCAAATAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
88077203 CCATAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.65, C:0.20, G:0.02, T:0.13
Consensus pattern (27 bp):
TACAAACAAATCAAAACAAACAATCAA
Found at i:88077721 original size:42 final size:42
Alignment explanation
Indices: 88077675--88077766 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
88077665 TCGAAGTTGG
* *
88077675 GACACATGGCCATGTCTCAGCCCGTGTAACTCACTGACTTGA
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
* *
88077717 GACACACGGTCATGTCTCAGCCCGCGTAACTCACTGACTTGG
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
*
88077759 GTCACACG
1 GACACACG
88077767 ACCGTGTCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
Found at i:88082717 original size:7 final size:7
Alignment explanation
Indices: 88082705--88082729 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88082695 AAAATATATA
88082705 AATTAAT
1 AATTAAT
88082712 AATTAAT
1 AATTAAT
88082719 AATTAAT
1 AATTAAT
88082726 AATT
1 AATT
88082730 CTTTGAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:88083481 original size:31 final size:31
Alignment explanation
Indices: 88083395--88083497 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 31
88083385 TTTTAAATTT
* * *
88083395 TAATATTTTATA-ATTTTTTTACAATGTTAA
1 TAATATTTTAAATATTTTTTTACAATTTTTA
* *
88083425 AAATATTCTT-TATAATTTTTTTACAATTTTTA
1 TAATATT-TTAAAT-ATTTTTTTACAATTTTTA
*
88083457 TTAT-TTTTAAATATTTCTTTTACAATTTTTA
1 TAATATTTTAAATATTT-TTTTACAATTTTTA
88083488 TAATATTTTA
1 TAATATTTTA
88083498 TTAGAAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
30 14 0.23
31 23 0.38
32 23 0.38
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (31 bp):
TAATATTTTAAATATTTTTTTACAATTTTTA
Found at i:88090166 original size:18 final size:19
Alignment explanation
Indices: 88090143--88090180 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
88090133 GGAAGCAAGC
*
88090143 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
88090161 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
88090180 A
1 A
88090181 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:88094367 original size:65 final size:65
Alignment explanation
Indices: 88094263--88094392 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
88094253 CAATAAATAT
88094263 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
1 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
88094328 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
1 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
88094393 CTTACATATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (65 bp):
ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
Found at i:88095816 original size:13 final size:13
Alignment explanation
Indices: 88095798--88095822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88095788 AGGTGTTCTT
88095798 TTTATTCGTTTTC
1 TTTATTCGTTTTC
88095811 TTTATTCGTTTT
1 TTTATTCGTTTT
88095823 TATTTTGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTATTCGTTTTC
Found at i:88096572 original size:31 final size:31
Alignment explanation
Indices: 88096537--88096608 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
88096527 TTTAAACTTC
* * *
88096537 AATTTAGTCCTTCAGGCATTTATTTTCTTAT
1 AATTTAGGCCTTCAAGCATTTATTTTATTAT
88096568 AATTTAGGCCTTCAAGCATTTATTTTATTAT
1 AATTTAGGCCTTCAAGCATTTATTTTATTAT
88096599 AATTTAGGCC
1 AATTTAGGCC
88096609 CAAAATCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (31 bp):
AATTTAGGCCTTCAAGCATTTATTTTATTAT
Found at i:88101318 original size:10 final size:10
Alignment explanation
Indices: 88101303--88101350 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
88101293 AATTTTCTGT
88101303 TTTCTTTTTC
1 TTTCTTTTTC
88101313 TTTCTTTTTC
1 TTTCTTTTTC
* *
88101323 TTTCCTTTCTA
1 TTT-CTTTTTC
*
88101334 TTTCGTTTTC
1 TTTCTTTTTC
*
88101344 ATTCTTT
1 TTTCTTT
88101351 GTTCACTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:88101330 original size:15 final size:16
Alignment explanation
Indices: 88101296--88101343 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
88101286 AAACCCTAAT
*
88101296 TTTCTGTTTTCTTTTTC
1 TTTCT-TTTTCTTTTCC
88101313 TTTCTTTTTC-TTTCC
1 TTTCTTTTTCTTTTCC
*
88101328 TTTCTATTTCGTTTTC
1 TTTCTTTTTC-TTTTC
88101344 ATTCTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.48
16 5 0.19
17 9 0.33
ACGTcount: A:0.02, C:0.21, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTCTTTTTCTTTTCC
Found at i:88101401 original size:5 final size:5
Alignment explanation
Indices: 88101391--88101423 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
88101381 TACTTTTAAG
88101391 TATTA TATTA TATTA TTATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA TAT
88101424 GCTTAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:88111401 original size:40 final size:40
Alignment explanation
Indices: 88111357--88111502 Score: 224
Period size: 40 Copynumber: 3.6 Consensus size: 40
88111347 GATATATTAA
*
88111357 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
88111397 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
* *
88111437 ATATCCGGGTTAAATCTCGCAGGCTTAGTGCTGGT-A-CT
1 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
*
88111475 ATATCCGGGCTTAAAGTTTCGCAGGCTT
1 ATATCCGGG-TTAAA-TCTCGCAGGCTT
88111503 TGAGCTAGTA
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
38 10 0.10
39 6 0.06
40 84 0.84
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (40 bp):
ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
Found at i:88117692 original size:9 final size:9
Alignment explanation
Indices: 88117678--88117726 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
88117668 TTCACTTTAG
88117678 AAAAAAAGA
1 AAAAAAAGA
88117687 AAAAAAAGA
1 AAAAAAAGA
*
88117696 AAAGAAAA-C
1 AAA-AAAAGA
*
88117705 AAAAAAATA
1 AAAAAAAGA
*
88117714 AAATAAAGA
1 AAAAAAAGA
88117723 AAAA
1 AAAA
88117727 TAAAAAGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 4 0.12
9 25 0.76
10 4 0.12
ACGTcount: A:0.86, C:0.02, G:0.08, T:0.04
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:88117711 original size:22 final size:22
Alignment explanation
Indices: 88117676--88117726 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
88117666 ACTTCACTTT
88117676 AGAAAAAAAGAAAA-AAAAGAAA
1 AGAAAAAAAGAAAATAAAA-AAA
*
88117698 AGAAAACAAA-AAAATAAAATAA
1 AGAAAA-AAAGAAAATAAAAAAA
88117720 AGAAAAA
1 AGAAAAA
88117727 TAAAAAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (22 bp):
AGAAAAAAAGAAAATAAAAAAA
Found at i:88119061 original size:133 final size:132
Alignment explanation
Indices: 88118823--88119494 Score: 451
Period size: 133 Copynumber: 4.9 Consensus size: 132
88118813 ATCTACCGTG
** * *
88118823 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTATTAACCTCATCTCCCTGAAG
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAAG
* * * *
88118888 TTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAG
66 TTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAG
88118953 ATA
130 ATA
* * * *
88118956 GCAAATCTTATCTCTCTGAAA-TTGCAGAAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAA
1 GCAAATCTTATCTCCCT-AAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAA
*
88119020 GTTGCGGTGGAGCATG-TTGAAGTTACAAG-TCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGA
65 GTTGCAGTGGAGCA-GATTGAAGTTA-AAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGA
88119083 AGATA
128 AGATA
* * * * * * * *
88119088 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCTACCAGACACAAATCTTATACC
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTA-TA-A-AC--CTCATCT-CC
* ** * * * *
88119153 TCTGAAGTTGCAGT-AAGTTGGA-TCAAGTCTACCATAGAAAATCTTATCTCTCTGAAGTTACAG
60 -CTGAAGTTGCAGTGGAG-CAGATTGAAGT-TA--A-AG---ATCTCATCTCCCTGAAGTTGCAG
*
88119216 TGGAGCAAACTGAAGATA
116 TGGAGCAGA-TGAAGATA
* * ** * * *
88119234 GCAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCTACAAATTACAAATCTGATCTC
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCT----A-T--AAACCTCATCTC
* * * * *
88119299 CATGAAGTTGTAGTGGAGCAGATTGAAG--AAAGCAAATCTTATCTCCCTAAAGTTACAGTGGAG
59 CCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAG---ATCTCATCTCCCTGAAGTTGCAGTGGAG
*
88119362 TAGAGTGAAGATA
121 CAGA-TGAAGATA
* * * * * * * ** * * * *
88119375 GCAAATCTTACCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTATAAGTCTTATTTTCCTAAAG
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAAG
** * * *
88119440 TTGCAGTGGAGCAGATTGAA-TATAGCGAATCTTATTTCCCTGAAGTTACAGTGGA
66 TTGCAGTGGAGCAGATTGAAGT-TAAAG-ATCTCATCTCCCTGAAGTTGCAGTGGA
88119495 ATAGATTAAG
Statistics
Matches: 430, Mismatches: 77, Indels: 63
0.75 0.14 0.11
Matches are distributed among these distances:
131 3 0.01
132 41 0.10
133 104 0.24
134 65 0.15
135 2 0.00
136 3 0.01
137 4 0.01
138 10 0.02
139 14 0.03
140 2 0.00
141 78 0.18
142 1 0.00
144 1 0.00
145 27 0.06
146 60 0.14
147 8 0.02
148 3 0.01
150 2 0.00
151 1 0.00
152 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (132 bp):
GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGA
TA
Found at i:88119256 original size:45 final size:45
Alignment explanation
Indices: 88118823--88119590 Score: 344
Period size: 45 Copynumber: 16.7 Consensus size: 45
88118813 ATCTACCGTG
* * * * * *
88118823 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
** * * * * *
88118868 -TTAACCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * ** * *
88118912 -TAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATCGAAGATA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * ** * *
88118956 GCAAATCTTATCTCTCTGAAATTGCAGAAGAGCAGATTAAAGCTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * * *
88119001 -TAAACCTTATCTCCCTGAAGTTGCGGTGGAGCATG-TTGAAGTTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCA-GATTGAAGATA
* * * *
88119045 -CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * * ** * *
88119088 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCTACCA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAG--A-TA
* * **
88119136 GACACAAATCTTATAC-CTCTGAAGTTGCAGTAAGTTGGATCA-AGTCT-ACCATA
1 G---CAAATCTTAT-CTCTCTGAAGTT--A--CAG-TGGAGCAGA-T-TGAAGATA
* * *
88119189 GAAAATCTTATCTCTCTGAAGTTACAGTGGAGCAAACTGAAGATA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * *
88119234 GCAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCTACAAATTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATT---G--A-AGA-TA
* ** *
88119286 -CAAATCTGATCTC-CATGAAGTTGTAGTGGAGCAGATTGAAGAAA
1 GCAAATCTTATCTCTC-TGAAGTTACAGTGGAGCAGATTGAAGATA
* * * *
88119330 GCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * *
88119375 GCAAATCTTACCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * * *
88119420 -TAAGTCTTAT-TTTCCTAAAGTTGCAGTGGAGCAGATTGAATATA
1 GCAAATCTTATCTCT-CTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * **
88119464 GCGAATCTTATTTCCCTGAAGTTACAGTGGAATAGATT-AAGACTA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGA-TA
* * *
88119509 -CAAATTACAGATCTTATCTC-CTTGAAGTTGCAGTGGACCAGACTGAAGATA
1 GC-----A-A-ATCTTATCTCTC-TGAAGTTACAGTGGAGCAGATTGAAGATA
* * * *
88119560 GCGAATCTTATTTCCCTGAAGTTGCAGTGGA
1 GCAAATCTTATCTCTCTGAAGTTACAGTGGA
88119591 ACTGATTAAA
Statistics
Matches: 546, Mismatches: 130, Indels: 94
0.71 0.17 0.12
Matches are distributed among these distances:
43 10 0.02
44 195 0.36
45 205 0.38
46 8 0.01
47 1 0.00
48 5 0.01
49 1 0.00
50 23 0.04
51 77 0.14
52 7 0.01
53 3 0.01
54 1 0.00
55 3 0.01
56 6 0.01
57 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
GCAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATA
Found at i:88119488 original size:230 final size:234
Alignment explanation
Indices: 88119042--88119747 Score: 652
Period size: 236 Copynumber: 3.0 Consensus size: 234
88119032 CATGTTGAAG
* * * * * * *
88119042 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTATTTCCCTA
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGACCAGACTGAAGAAAGCAAATCTTATCTCCCTA
* * * * * *
88119106 AAGTTACAGTAGAATAGATTAAAGCTACCAGA-CACAAATCTTA--TACCTCTGAAGTTGCAGTA
66 AAGTTACAGTGGAA-CGA-TAAAGCTA-TAAATTACAAATCTTACCT-CC-CTGAAGTTGCAATA
* * *
88119168 -AG-TTGGATC-AAGTCTACCATAGAAAATCTTATCT-CTCTGAAGTTACAGTGGAGCAAACTGA
126 GAGCAT-G-TCAAAGT-TA-CA-AG----TCTTATCTCCT-TAAAGTTGCAGTGGAGCAAACTGA
* * *
88119229 AGATAGCAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCTACAAA
181 AGATAGCGAATCTTATTTCCCTAAAGTTACAGTGGAATAGATTAAGGCTACAAA
* * *
88119283 TTACAAATCTGATCTCCATGAAGTTGTAGTGGAGCAGATTGAAGAAAGCAAATCTTATCTCCCTA
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGACCAGACTGAAGAAAGCAAATCTTATCTCCCTA
* * * *
88119348 AAGTTACAGTGG-A-G-TAGAG-TGA-AGA-TAGCAAATCTTACCTCTCTGAAGTTGCAGTAGAG
66 AAGTTACAGTGGAACGATAAAGCT-ATAAATTA-CAAATCTTACCTCCCTGAAGTTGCAATAGAG
* * * * * *
88119407 CA-GATTAAAGTTATAAGTCTTATTTTCC-TAAAGTTGCAGTGGAGCAGATTGAATATAGCGAAT
129 CATG-TCAAAGTTACAAGTCTTA-TCTCCTTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAAT
* *
88119470 CTTATTTCCCTGAAGTTACAGTGGAATAGATTAAGACTACAAA
192 CTTATTTCCCTAAAGTTACAGTGGAATAGATTAAGGCTACAAA
* * * * * * *
88119513 TTACAGATCTTATCTCCTTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTG
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGACCAGACTGAAGAAAGCAAATCTTATCTCCCTA
* * *
88119578 AAGTTGCAGTGGAACTGATTAAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAATGGAG
66 AAGTTACAGTGGAAC-GA-TAAAGCTATAAATTACAAATCTTACCTCCCTGAAGTTGCAATAGAG
* * * * *
88119643 CATGTCGAAGTTACAGGTCTTATCTCCTTGAAGTTGTAGTGGAGTAAACTGAAGATAGCGAATCT
129 CATGTCAAAGTTACAAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCT
* *
88119708 TATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTACAA
194 TATTTCCCTAAAGTTACAGTGGAATAGATTAAGGCTACAA
88119748 GTTATCATGG
Statistics
Matches: 388, Mismatches: 57, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
230 139 0.36
231 3 0.01
232 1 0.00
233 1 0.00
234 2 0.01
235 14 0.04
236 142 0.37
237 15 0.04
238 1 0.00
239 1 0.00
241 35 0.09
242 34 0.09
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (234 bp):
TTACAAATCTGATCTCCATGAAGTTGCAGTGGACCAGACTGAAGAAAGCAAATCTTATCTCCCTA
AAGTTACAGTGGAACGATAAAGCTATAAATTACAAATCTTACCTCCCTGAAGTTGCAATAGAGCA
TGTCAAAGTTACAAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTA
TTTCCCTAAAGTTACAGTGGAATAGATTAAGGCTACAAA
Found at i:88119561 original size:96 final size:96
Alignment explanation
Indices: 88119331--88119641 Score: 307
Period size: 96 Copynumber: 3.3 Consensus size: 96
88119321 TTGAAGAAAG
* * ** * * ** *
88119331 CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATAGCAAATCTTACCTCTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
88119396 TTGCAGTAGAGCAGATTAAAG-------TTA
66 TTACAGTGGAACTGATTAAAGCTACAAATTA
* * * * * * * *
88119420 TAAGTCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAATATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
88119485 TTACAGTGGAA-TAGATT-AAGACTACAAATTA
66 TTACAGTGGAACT-GATTAAAG-CTACAAATTA
* *
88119516 CAGATCTTATCTCCTTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* *
88119581 TTGCAGTGGAACTGATTAAAGCTATAAATTA
66 TTACAGTGGAACTGATTAAAGCTACAAATTA
*
88119612 CAAATCTTATCTCCCTGAAGTTGCAATGGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGA
88119642 GCATGTCGAA
Statistics
Matches: 180, Mismatches: 31, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
88 3 0.02
89 65 0.36
96 108 0.60
97 4 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (96 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTACAGTGGAACTGATTAAAGCTACAAATTA
Found at i:88119729 original size:45 final size:45
Alignment explanation
Indices: 88118823--88119730 Score: 333
Period size: 45 Copynumber: 19.7 Consensus size: 45
88118813 ATCTACCGTG
* * * * * * *
88118823 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
** * * * * *
88118868 -TTAACCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * *
88118912 -TAGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGA-TCGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-GAAGATA
* * ** * * * *
88118956 GCAAATCTTATCTCTCTGAAATTGCAGAAGAGCAGATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * *** *
88119001 -TAAACCTTATCTCCCTGAAGTTGCGGTGGAGCATGTTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * *
88119045 -CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * ** *
88119088 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCT-ACCAGACA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-G----GAGCAAA-CTGA--AGATA
* * * **
88119140 -CAAATCTTATAC-CTCTGAAGTTGCAGTAAGTTGGATCAAGTCT-ACCATA
1 GCAAATCTTAT-CTCCCTGAAGTTGC----AG-TGGAGCAA-ACTGAAGATA
* * *
88119189 GAAAATCTTATCTCTCTGAAGTTACAGTGGAGCAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * * *
88119234 GCAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCT-ACAAATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC--A--AA--CTGA-AGA-TA
* * * * * *
88119286 -CAAATCTGATCTCCATGAAGTTGTAGTGGAGCAGATTGAAGAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * *
88119330 GCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * * * *
88119375 GCAAATCTTACCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * * * * *
88119420 -TAAGTCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAATATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * * *
88119464 GCGAATCTTATTTCCCTGAAGTTACAGTGGAATAGATTAAGACT-ACAAATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGG---AG--CAA-ACTGA-AGA-TA
* * * *
88119516 -CAGATCTTATCTCCTTGAAGTTGCAGTGGACCAGACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * * *
88119560 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACTGATTAAAGCT-ATAAATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGG-A--G--CAAA-CTGA-AGA-TA
* ** *
88119612 -CAAATCTTATCTCCCTGAAGTTGCAATGGAGC-ATGTCGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-GAAGATA
** * * *
88119656 -CAGGTCTTATCTCCTTGAAGTTGTAGTGGAGTAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
* * *
88119700 GCGAATCTTATTTCCCTAAAGTTGCAGTGGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGA
88119731 ATAGATTAAA
Statistics
Matches: 639, Mismatches: 168, Indels: 112
0.70 0.18 0.12
Matches are distributed among these distances:
43 8 0.01
44 224 0.35
45 228 0.36
46 8 0.01
47 2 0.00
48 4 0.01
49 10 0.02
50 28 0.04
51 113 0.18
52 10 0.02
55 3 0.00
56 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATA
Found at i:88119889 original size:44 final size:44
Alignment explanation
Indices: 88119824--88119937 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
88119814 CTTATCTTCA
* * * *
88119824 TGAAGTTGCAGTGAAGAAGATTGAAGATACGAGTCTCATCTCCT
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * *
88119868 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTAATCTCCC
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * * *
88119912 TGAAGTTACAGTAGAGTAGATCGAAG
1 TGAAGTTGCAGTGGAGAAGATTGAAG
88119938 TGCCAATTTC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
Found at i:88120226 original size:19 final size:20
Alignment explanation
Indices: 88120188--88120227 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
88120178 ACAACAGTAG
*
88120188 ACCCAAATATAAAAATACAA
1 ACCCAAATATAAAAACACAA
*
88120208 ACCCAAA-ATAATAACACAA
1 ACCCAAATATAAAAACACAA
88120227 A
1 A
88120228 AACCCTAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (20 bp):
ACCCAAATATAAAAACACAA
Found at i:88121506 original size:14 final size:13
Alignment explanation
Indices: 88121489--88121529 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
88121479 GGTGTATTCC
88121489 TTATATATATATAT
1 TTATATATATAT-T
88121503 TTATATATAT-TT
1 TTATATATATATT
*
88121515 TTATATACATATT
1 TTATATATATATT
88121528 TT
1 TT
88121530 TATTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATATATATATT
Found at i:88121530 original size:14 final size:13
Alignment explanation
Indices: 88121489--88121532 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
88121479 GGTGTATTCC
*
88121489 TTATATATATATAT
1 TTATATA-ATATTT
88121503 TTATAT-ATATTT
1 TTATATAATATTT
88121515 TTATATACATATTT
1 TTATATA-ATATTT
88121529 TTAT
1 TTAT
88121533 TTCATTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATATAATATTT
Found at i:88122090 original size:22 final size:23
Alignment explanation
Indices: 88122048--88122090 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
88122038 CCGAATATCC
* *
88122048 TTTTAAAATCAAAATACATAAGA
1 TTTTAAAATCAAAAAAAATAAGA
88122071 TTTTAAAAT-AAAAAAAATAA
1 TTTTAAAATCAAAAAAAATAA
88122091 AGGCAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTTAAAATCAAAAAAAATAAGA
Found at i:88125339 original size:49 final size:49
Alignment explanation
Indices: 88125271--88125383 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 49
88125261 CACTGCCAAC
* * *
88125271 TAGGAGCTCAAGTTGTACTTGAACCCATGACTGCATAACCACCATCAAT
1 TAGGAGCCCAAGTTATACTTCAACCCATGACTGCATAACCACCATCAAT
* * * *
88125320 TAGGAGCCCTAGTTATACTTCAACCCATGACTGTATAACTACCATGAAT
1 TAGGAGCCCAAGTTATACTTCAACCCATGACTGCATAACCACCATCAAT
* *
88125369 TGGGAGCCCGAGTTA
1 TAGGAGCCCAAGTTA
88125384 CAATGCAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGGAGCCCAAGTTATACTTCAACCCATGACTGCATAACCACCATCAAT
Found at i:88129407 original size:16 final size:16
Alignment explanation
Indices: 88129386--88129416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88129376 AATGATTTAA
88129386 ATGAAATGCGTTTGTC
1 ATGAAATGCGTTTGTC
*
88129402 ATGAAATGCTTTTGT
1 ATGAAATGCGTTTGT
88129417 TCACTCTTTA
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:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (16 bp):
ATGAAATGCGTTTGTC
Found at i:88138425 original size:105 final size:105
Alignment explanation
Indices: 88138295--88138501 Score: 308
Period size: 105 Copynumber: 2.0 Consensus size: 105
88138285 TGTTGTTCTA
*
88138295 AAAAAATATTTCCCATACCATAAAAAAGGTTGAGTCATACTAACATATTG-AGTATTTTATAATT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGAGTCATACTAACATATTGCA-TATCTTATAATT
*
88138359 TCAATTAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
65 TCAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
* * ** * *
88138400 AAAAAATATTTCCCATAGCATAAAAAAGGTTGGGTTGTACTGATATATTGCATATCTTATAATTT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGAGTCATACTAACATATTGCATATCTTATAATTT
* *
88138465 CAATCATAGGTAGAATTGAGATGATCCATACTTTAAA
66 CAATCAAAGGTAGAATTGAGATAATCCATACTTTAAA
88138502 GAGTACATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 90 0.99
106 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (105 bp):
AAAAAATATTTCCCATACCATAAAAAAGGTTGAGTCATACTAACATATTGCATATCTTATAATTT
CAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
Found at i:88141102 original size:22 final size:22
Alignment explanation
Indices: 88141076--88141127 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
88141066 TTTTGAAAGT
88141076 GTTGATGATTTTGAAAGGTTTC
1 GTTGATGATTTTGAAAGGTTTC
*
88141098 GTTGATGATTTTGAAAGTTTTC
1 GTTGATGATTTTGAAAGGTTTC
*
88141120 ATTGATGA
1 GTTGATGA
88141128 ATCAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (22 bp):
GTTGATGATTTTGAAAGGTTTC
Found at i:88141750 original size:40 final size:39
Alignment explanation
Indices: 88141677--88141816 Score: 129
Period size: 42 Copynumber: 3.4 Consensus size: 39
88141667 ACTATGTTTG
** *
88141677 GCACTTAGTGTGCGTTTCGAGATAGCTTT-GGCTATATAGA
1 GCACTTAGTGTGCGAGTCGA-ATAG-TTTCGGCTATATATA
88141717 GCACTTAGTGTGCGAGTCGGAATAGTTTCGGCTATATATA
1 GCACTTAGTGTGCGAGTC-GAATAGTTTCGGCTATATATA
** * * *
88141757 TGGCACTTAGTGTGCGAGATTATAATAGCTTCGGCTATGCTTTA
1 --GCACTTAGTGTGCGAG--TCGAATAGTTTCGGCTAT-ATATA
88141801 GCACTTAGTGTGCGAG
1 GCACTTAGTGTGCGAG
88141817 GTATCGAGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 3 0.04
40 30 0.35
41 2 0.02
42 32 0.38
43 14 0.16
44 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (39 bp):
GCACTTAGTGTGCGAGTCGAATAGTTTCGGCTATATATA
Found at i:88141768 original size:42 final size:42
Alignment explanation
Indices: 88141675--88141774 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 42
88141665 CGACTATGTT
**
88141675 TGGCACTTAGTGTGCGTTTCGAGATAGCTTTGGCTATATAGA
1 TGGCACTTAGTGTGCGAGTCGAGATAGCTTTGGCTATATAGA
*
88141717 --GCACTTAGTGTGCGAGTCG-GAATAG-TTTCGGCTATATATA
1 TGGCACTTAGTGTGCGAGTCGAG-ATAGCTTT-GGCTATATAGA
88141757 TGGCACTTAGTGTGCGAG
1 TGGCACTTAGTGTGCGAG
88141775 ATTATAATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 4 0.08
40 31 0.61
42 16 0.31
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (42 bp):
TGGCACTTAGTGTGCGAGTCGAGATAGCTTTGGCTATATAGA
Found at i:88144576 original size:24 final size:24
Alignment explanation
Indices: 88144538--88144603 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
88144528 GGCTGGTTGG
88144538 TAGGCA-AGGACTGAGTGTTTAGC
1 TAGGCAGAGGACTGAGTGTTTAGC
* *
88144561 TAGGCAGAGGATTGAGTGTTTGGC
1 TAGGCAGAGGACTGAGTGTTTAGC
88144585 TAGGCAGAGGACTGAGTGT
1 TAGGCAGAGGACTGAGTGT
88144604 GAGTGTTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 6 0.15
24 33 0.85
ACGTcount: A:0.24, C:0.11, G:0.39, T:0.26
Consensus pattern (24 bp):
TAGGCAGAGGACTGAGTGTTTAGC
Found at i:88145804 original size:13 final size:13
Alignment explanation
Indices: 88145786--88145810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88145776 CCAGGGGACA
88145786 CATGACCGTGTAG
1 CATGACCGTGTAG
88145799 CATGACCGTGTA
1 CATGACCGTGTA
88145811 TCGCAAACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (13 bp):
CATGACCGTGTAG
Found at i:88146478 original size:28 final size:28
Alignment explanation
Indices: 88146447--88146504 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
88146437 CTCATAATTC
88146447 ATTCACAATTCAATCAATGTAATGCAAG
1 ATTCACAATTCAATCAATGTAATGCAAG
88146475 ATTCACAATTCAATCAATGTAATGCAAG
1 ATTCACAATTCAATCAATGTAATGCAAG
88146503 AT
1 AT
88146505 AATACAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (28 bp):
ATTCACAATTCAATCAATGTAATGCAAG
Found at i:88146766 original size:48 final size:46
Alignment explanation
Indices: 88146708--88146836 Score: 145
Period size: 48 Copynumber: 2.8 Consensus size: 46
88146698 CTCAATCGAT
*
88146708 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAGCTTATCCT-CA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC---TCCTCCA
* * *
88146756 GAA-TACCTATATCATGACCCGTAACCAAATCAAGGTAACTCCTCCA
1 -AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCCA
* * *
88146802 AAGTGCCTATACCATGGCCTGAAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGG
88146837 CATAACTCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
45 6 0.09
46 28 0.41
48 32 0.47
49 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCCA
Found at i:88146870 original size:50 final size:46
Alignment explanation
Indices: 88146708--88146879 Score: 127
Period size: 48 Copynumber: 3.6 Consensus size: 46
88146698 CTCAATCGAT
* * * * * *
88146708 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAGCTTATCCTCA
1 AAGTGCCTATACCATGGCCTGAAGCCAAATCAAGGTAAC-T-CCCCCA
* * * * *
88146756 GAA-TACCTATATCATGACCCGTAA-CCAAATCAAGGTAACTCCTCCA
1 -AAGTGCCTATACCATGGCCTG-AAGCCAAATCAAGGTAACTCCCCCA
88146802 AAGTGCCTATACCATGGCCTGAAGCCAAATCAAGGCATAACTCACACCCA
1 AAGTGCCTATACCATGGCCTGAAGCCAAATCAAGG--TAACTC-C-CCCA
88146852 AAGTG-CTGATATCC-TGGCCTGAAGCCAA
1 AAGTGCCT-ATA-CCATGGCCTGAAGCCAA
88146880 CTTAATACCC
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
45 4 0.04
46 28 0.27
47 1 0.01
48 36 0.35
49 6 0.06
50 25 0.25
51 2 0.02
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (46 bp):
AAGTGCCTATACCATGGCCTGAAGCCAAATCAAGGTAACTCCCCCA
Found at i:88149436 original size:40 final size:40
Alignment explanation
Indices: 88149388--88149604 Score: 382
Period size: 40 Copynumber: 5.5 Consensus size: 40
88149378 ATATATAATA
*
88149388 TAAA-TATATCCGGGTTAAATCCCACAGGCTTTGTGCTGG
1 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
* *
88149427 TAAATTATATACGGGTTAAATCTCGCAGGCTTTGTGCTGG
1 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
88149467 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
1 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
88149507 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
1 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
*
88149547 TAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
1 TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
*
88149587 TAAAATATATCCGGGTTA
1 TAAATTATATCCGGGTTA
88149605 TAAACCTAGT
Statistics
Matches: 171, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 4 0.02
40 167 0.98
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
TAAATTATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG
Found at i:88154688 original size:2 final size:2
Alignment explanation
Indices: 88154681--88154712 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88154671 CACTAAGTGT
88154681 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
88154713 TATATATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:88157271 original size:8 final size:8
Alignment explanation
Indices: 88157260--88157284 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
88157250 TTTAATAAGA
88157260 TATTTTAT
1 TATTTTAT
88157268 TATTTTAT
1 TATTTTAT
88157276 TATTTTAT
1 TATTTTAT
88157284 T
1 T
88157285 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:88160810 original size:52 final size:52
Alignment explanation
Indices: 88160697--88160846 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 52
88160687 TATCATACTG
* * * * **
88160697 ATGCCATATCCCAGATATGGTCTTATAGGGAATCACGTTATCACATTACACTG
1 ATGCCATAGCCCAGCTATGGTCTTATAGGGAAGCAC-ATATCACATTACACCA
**
88160750 ATGCCATAGCCCAGCTATGGTCTTATAAGGGAA-CACATATCACATTGTACCA
1 ATGCCATAGCCCAGCTATGGTCTTAT-AGGGAAGCACATATCACATTACACCA
* *
88160802 ATGCCATAGCCCAACTATGGTCTTATATGGAAGCACATATCACAT
1 ATGCCATAGCCCAGCTATGGTCTTATAGGGAAGCACATATCACAT
88160847 CTTTTCCATC
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
51 5 0.06
52 48 0.56
53 27 0.31
54 6 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATAGGGAAGCACATATCACATTACACCA
Found at i:88168315 original size:24 final size:24
Alignment explanation
Indices: 88168288--88168339 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
88168278 TTAGTAAGTC
*
88168288 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
88168312 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
88168336 AAAT
1 AAAT
88168340 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:88170286 original size:24 final size:24
Alignment explanation
Indices: 88170259--88170310 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
88170249 TTAGTAAGTC
*
88170259 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
88170283 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
88170307 AAAT
1 AAAT
88170311 CTTCTAGAAA
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:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:88174696 original size:18 final size:19
Alignment explanation
Indices: 88174657--88174702 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
88174647 TATTTTTTTA
88174657 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
88174676 TTTATTTTTATTTCATC-T
1 TTTATTTTTATTTCATCTT
88174694 TTTATTTTT
1 TTTATTTTT
88174703 TACTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:88178949 original size:16 final size:15
Alignment explanation
Indices: 88178924--88178971 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
88178914 CTATTTTAAG
88178924 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
88178939 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
88178956 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
88178971 T
1 T
88178972 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:88179895 original size:18 final size:19
Alignment explanation
Indices: 88179856--88179901 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
88179846 TATTTTGTTA
88179856 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
88179875 TTTATTTTTATTTCATC-T
1 TTTATTTTTATTTCATCTT
88179893 TTTATTTTT
1 TTTATTTTT
88179902 TACTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:88184145 original size:15 final size:15
Alignment explanation
Indices: 88184125--88184172 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
88184115 CTATTTTAAG
88184125 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
88184140 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
*
88184157 -TTACTTTAGATTTTA
1 TTTATTTTA-ATTTTA
88184172 T
1 T
88184173 ATTAATTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.39
16 14 0.50
17 3 0.11
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:88185083 original size:12 final size:13
Alignment explanation
Indices: 88185057--88185088 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
88185047 TATTTTGTTA
88185057 TTTA-TTTTTATT
1 TTTATTTTTTATT
88185069 TTTATTTTTTATT
1 TTTATTTTTTATT
88185082 TTTATTT
1 TTTATTT
88185089 CATCTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:88185112 original size:7 final size:6
Alignment explanation
Indices: 88185057--88185111 Score: 58
Period size: 7 Copynumber: 8.7 Consensus size: 6
88185047 TATTTTGTTA
*
88185057 TTTATT TTTATT TTTATTT TTTATT TTTA-T TTCATCT TTTACTT TTTACTT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTAT-T TTTA-TT TTTA-TT
88185108 TTTA
1 TTTA
88185112 CGTTTTCTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 4 0.09
6 16 0.37
7 22 0.51
8 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:88190416 original size:6 final size:6
Alignment explanation
Indices: 88190405--88190491 Score: 83
Period size: 6 Copynumber: 14.7 Consensus size: 6
88190395 CCAATCTTTC
** *
88190405 TTTTTA TTTTTA TTTTTA TTTTTA TTTATTA TTTTCC TTTCT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA
*
88190453 TTTATTA TTTATTA -TTTTA -TTTTA TTTCTA -TTTTA TTTT
1 TTT-TTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
88190492 AGTTAAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
5 16 0.23
6 37 0.54
7 16 0.23
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:88190464 original size:35 final size:34
Alignment explanation
Indices: 88190419--88190490 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
88190409 TATTTTTATT
* *
88190419 TTTATTTTTATT-TATTATTTTCCTTTCTTTTTTA
1 TTTATTTTTATTATATTATTTT-ATTTCTATTTTA
*
88190453 TTTATTATTTATTATTTTATTTTATTTCTATTTTA
1 TTTATT-TTTATTATATTATTTTATTTCTATTTTA
88190488 TTT
1 TTT
88190491 TAGTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 6 0.18
35 19 0.58
36 8 0.24
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTATTTTTATTATATTATTTTATTTCTATTTTA
Found at i:88190489 original size:31 final size:30
Alignment explanation
Indices: 88190406--88190485 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 30
88190396 CAATCTTTCT
88190406 TTTTATTTTTATTTTTATTT-TTATTTATTA
1 TTTTA-TTTTATTTTTATTTATTATTTATTA
*
88190436 TTTTCCTTTCT-TTTTTATTTATTATTTATTA
1 TTTT-ATTT-TATTTTTATTTATTATTTATTA
*
88190467 TTTTATTTTATTTCTATTT
1 TTTTATTTTATTTTTATTT
88190486 TATTTTAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 1 0.02
30 27 0.63
31 15 0.35
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTATTTTATTTTTATTTATTATTTATTA
Found at i:88191813 original size:9 final size:8
Alignment explanation
Indices: 88191800--88191842 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
88191790 TAATAAAATT
88191800 TAAAAAAA
1 TAAAAAAA
88191808 TAAAAAAA
1 TAAAAAAA
88191816 TAAAAAAA
1 TAAAAAAA
*
88191824 -AATCAAAA
1 TAA-AAAAA
*
88191832 GAAAAAAA
1 TAAAAAAA
88191840 TAA
1 TAA
88191843 GTACTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 2 0.07
8 26 0.87
9 2 0.07
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:88192469 original size:27 final size:26
Alignment explanation
Indices: 88192409--88192470 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
88192399 ATTTTATTTT
88192409 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
88192435 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
88192463 ATTTTATT
1 ATTTTATT
88192471 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:88193978 original size:828 final size:828
Alignment explanation
Indices: 88192633--88194279 Score: 3258
Period size: 828 Copynumber: 2.0 Consensus size: 828
88192623 CTTTTGTTTA
88192633 TTCATATTTTCTTTCAATAAAATTTCCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTAT
1 TTCATATTTTCTTTCAATAAAATTTCCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTAT
88192698 CATGAGCCACTAAAACCCTTCTAGCCAAAAGTTGTCAATATTTCCCCAAAAAGGGTTCTTGAGGC
66 CATGAGCCACTAAAACCCTTCTAGCCAAAAGTTGTCAATATTTCCCCAAAAAGGGTTCTTGAGGC
*
88192763 CTAGAATCCGTACTTAGCCTTCTCACCAAGTATTCATCGTTTCTCCGCACTCTGGGCTGACGCTT
131 CTAGAATCCGTACTTAGCCTTCTCACCAAGTATTCATCGTTTCTCCGCACTCCGGGCTGACGCTT
88192828 CCGTCCATTGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGTGGCCGCTTTGTATGTTTTG
196 CCGTCCATTGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGTGGCCGCTTTGTATGTTTTG
88192893 GAAGGATTGCATAGTCGGTTCATTAACTTACTGCGTCAGAAGTTGGCGAGCCAAAGAGACAAAAT
261 GAAGGATTGCATAGTCGGTTCATTAACTTACTGCGTCAGAAGTTGGCGAGCCAAAGAGACAAAAT
88192958 GGCGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTAGCTAGAGTCAGGTTCCCT
326 GGCGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTAGCTAGAGTCAGGTTCCCT
88193023 AAAAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCGGTAAAACTAGCTT
391 AAAAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCGGTAAAACTAGCTT
88193088 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAATCGGA
456 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAATCGGA
88193153 GGCTGGAACTTTCCCATAAGAATTTCTTTTCTCTTAAAACTCTCTTTATTATTTTAATTATTTTC
521 GGCTGGAACTTTCCCATAAGAATTTCTTTTCTCTTAAAACTCTCTTTATTATTTTAATTATTTTC
88193218 GTAATCATAATTTCAGTAAATTTTAAATTCTATTTTTATTTTATTTTTTGCTTCCAAAATCAATT
586 GTAATCATAATTTCAGTAAATTTTAAATTCTATTTTTATTTTATTTTTTGCTTCCAAAATCAATT
88193283 CTTAAATTCTATTTTTTTTATTTTTTTTCTAGGAACGCAGGTTTTCTTAGGCACGATTCTGCCTA
651 CTTAAATTCTATTTTTTTTATTTTTTTTCTAGGAACGCAGGTTTTCTTAGGCACGATTCTGCCTA
88193348 GGATTTCGAGAAACAAGCATTCGTATAATCCGGTCCCTGAGAATTCGACCTACTTCCCCTTTACT
716 GGATTTCGAGAAACAAGCATTCGTATAATCCGGTCCCTGAGAATTCGACCTACTTCCCCTTTACT
88193413 ATTTCTTTTTCGTTATTTTACAGGGAATAGGATATTTTTATGGGAAAG
781 ATTTCTTTTTCGTTATTTTACAGGGAATAGGATATTTTTATGGGAAAG
88193461 TTCATATTTTCTTTCAATAAAATTTCCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTAT
1 TTCATATTTTCTTTCAATAAAATTTCCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTAT
88193526 CATGAGCCACTAAAACCCTTCTAGCCAAAAGTTGTCAATATTTCCCCAAAAAGGGTTCTTGAGGC
66 CATGAGCCACTAAAACCCTTCTAGCCAAAAGTTGTCAATATTTCCCCAAAAAGGGTTCTTGAGGC
88193591 CTAGAATCCGTACTTAGCCTTCTCACCAAGTATTCATCGTTTCTCCGCACTCCGGGCTGACGCTT
131 CTAGAATCCGTACTTAGCCTTCTCACCAAGTATTCATCGTTTCTCCGCACTCCGGGCTGACGCTT
88193656 CCGTCCATTGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGTGGCCGCTTTGTATGTTTTG
196 CCGTCCATTGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGTGGCCGCTTTGTATGTTTTG
88193721 GAAGGATTGCATAGTCGGTTCATTAACTTACTGCGTCAGAAGTTGGCGAGCCAAAGAGACAAAAT
261 GAAGGATTGCATAGTCGGTTCATTAACTTACTGCGTCAGAAGTTGGCGAGCCAAAGAGACAAAAT
88193786 GGCGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTAGCTAGAGTCAGGTTCCCT
326 GGCGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTAGCTAGAGTCAGGTTCCCT
* *
88193851 AAAAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCGGTATAACTGGCTT
391 AAAAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCGGTAAAACTAGCTT
88193916 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAATCGGA
456 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAATCGGA
88193981 GGCTGGAACTTTCCCATAAGAATTTCTTTTCTCTTAAAACTCTCTTTATTATTTTAATTATTTTC
521 GGCTGGAACTTTCCCATAAGAATTTCTTTTCTCTTAAAACTCTCTTTATTATTTTAATTATTTTC
88194046 GTAATCATAATTTCAGTAAATTTTAAATTCTATTTTTATTTTATTTTTTGCTTCCAAAATCAATT
586 GTAATCATAATTTCAGTAAATTTTAAATTCTATTTTTATTTTATTTTTTGCTTCCAAAATCAATT
*
88194111 CTTAAATTCTATTTTTTTTATTTTTTTTCTAGGAACGCAGGTTTTCTTGGGCACGATTCTGCCTA
651 CTTAAATTCTATTTTTTTTATTTTTTTTCTAGGAACGCAGGTTTTCTTAGGCACGATTCTGCCTA
88194176 GGATTTCGAGAAACAAGCATTCGTATAATCCGGTCCCTGAGAATTCGACCTACTTCCCCTTTACT
716 GGATTTCGAGAAACAAGCATTCGTATAATCCGGTCCCTGAGAATTCGACCTACTTCCCCTTTACT
88194241 ATTTCTTTTTCGTTATTTTACAGGGAATAGGATATTTTT
781 ATTTCTTTTTCGTTATTTTACAGGGAATAGGATATTTTT
88194280 GGTACTCTCA
Statistics
Matches: 815, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
828 815 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (828 bp):
TTCATATTTTCTTTCAATAAAATTTCCTTTTCCATTTTTATATTTATTTTCTTTTCCACCATTAT
CATGAGCCACTAAAACCCTTCTAGCCAAAAGTTGTCAATATTTCCCCAAAAAGGGTTCTTGAGGC
CTAGAATCCGTACTTAGCCTTCTCACCAAGTATTCATCGTTTCTCCGCACTCCGGGCTGACGCTT
CCGTCCATTGCCCTTAAGAAGTAAGCTTTTCAGCATATGCAAAGGTGGCCGCTTTGTATGTTTTG
GAAGGATTGCATAGTCGGTTCATTAACTTACTGCGTCAGAAGTTGGCGAGCCAAAGAGACAAAAT
GGCGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTACTAGCTAGAGTCAGGTTCCCT
AAAAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCATCCTCTTCCGGTAAAACTAGCTT
ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAATCGGA
GGCTGGAACTTTCCCATAAGAATTTCTTTTCTCTTAAAACTCTCTTTATTATTTTAATTATTTTC
GTAATCATAATTTCAGTAAATTTTAAATTCTATTTTTATTTTATTTTTTGCTTCCAAAATCAATT
CTTAAATTCTATTTTTTTTATTTTTTTTCTAGGAACGCAGGTTTTCTTAGGCACGATTCTGCCTA
GGATTTCGAGAAACAAGCATTCGTATAATCCGGTCCCTGAGAATTCGACCTACTTCCCCTTTACT
ATTTCTTTTTCGTTATTTTACAGGGAATAGGATATTTTTATGGGAAAG
Found at i:88194532 original size:88 final size:87
Alignment explanation
Indices: 88194417--88194670 Score: 418
Period size: 88 Copynumber: 2.9 Consensus size: 87
88194407 GTGAATTCAC
* * *
88194417 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGACAGTGAGCTTTAACCCCCTAAGTAG
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCA-ATCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
88194482 TAGGGTAACAGGCCGAAGATTGT
65 TAGGGTAACAGGCCGAAGATTGT
*
88194505 AGATCTTGTCTCTCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGC-AATCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
88194570 TAGGGTAACAGGCCGAAGATTGT
65 TAGGGTAACAGGCCGAAGATTGT
* * *
88194593 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACGGTGAGCCTTAACTCCCTAAGCAG
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAA-TCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
88194658 TAGGGTAACAGGC
65 TAGGGTAACAGGC
88194671 TAAAAATTAC
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
87 2 0.01
88 153 0.98
89 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (87 bp):
AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAATCAAAGACAGTGAGCCTTAACCCCCTAAGTAGT
AGGGTAACAGGCCGAAGATTGT
Found at i:88194650 original size:44 final size:44
Alignment explanation
Indices: 88194421--88194660 Score: 148
Period size: 44 Copynumber: 5.5 Consensus size: 44
88194411 ATTCACAGAT
* *
88194421 CTTATCTCCCTAAGCAGTAGTGGAGC-AGATGAAAGACAGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAG-TCAAAGACAGTGAGC
* * * * * * * ** *
88194465 TTTAACCCCCTAAGTAGTAG-GGTAACAGGCCGAAGATTGT-AGAT
1 CTTAACTCCCTAAGCAGTAGTGG-AGCAAGTCAAAGACAGTGAG-C
** * *
88194509 CTTGTCTCTCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
* * * * * * ** *
88194553 CTTAACCCCCTAAGTAGTAG-GGTAACAGGCCGAAGATTGT-AGAT
1 CTTAACTCCCTAAGCAGTAGTGG-AGCAAGTCAAAGACAGTGAG-C
** *
88194597 CTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACGGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
88194641 CTTAACTCCCTAAGCAGTAG
1 CTTAACTCCCTAAGCAGTAG
88194661 GGTAACAGGC
Statistics
Matches: 135, Mismatches: 52, Indels: 18
0.66 0.25 0.09
Matches are distributed among these distances:
43 8 0.06
44 118 0.87
45 9 0.07
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
Found at i:88196832 original size:21 final size:22
Alignment explanation
Indices: 88196814--88196854 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
88196804 TTCATATAGT
88196814 TGTTTTAAAAT-TATTTATATA
1 TGTTTTAAAATCTATTTATATA
*
88196835 TGTTTTTAAATCTA-TTATAT
1 TGTTTTAAAATCTATTTATAT
88196855 GTATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
TGTTTTAAAATCTATTTATATA
Found at i:88197296 original size:24 final size:23
Alignment explanation
Indices: 88197264--88197308 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
88197254 TTAGTCATAC
*
88197264 TTAATTATTGGTTTTGTTAATTTG
1 TTAATTATTAG-TTTGTTAATTTG
88197288 TTAATTATTAGTTTGTTAATT
1 TTAATTATTAGTTTGTTAATT
88197309 GGCATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTAATTATTAGTTTGTTAATTTG
Found at i:88197676 original size:129 final size:128
Alignment explanation
Indices: 88197489--88197795 Score: 315
Period size: 129 Copynumber: 2.4 Consensus size: 128
88197479 TGAAGATTCA
* * *
88197489 CTAAAACAAAGGTAATAGTT-GATGTTTGGGAACTCGAGGAATCGTGCCC-AACGGTGCTGGGTT
1 CTAAAAC-AAGGCAAT-GTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTAACGGTGCTGGGTT
* * * * * * *
88197552 TCGATTTGCTGTTTG-TCCAAATGATCAAATATTCCTTT-GAAATTTCA-TC-CGTACTTTGAAA
64 GCAATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAG-AATTTCACTCACGTACTCT--AA
*
88197613 ATTT
126 A-CT
*
88197617 CTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTC-AGGAAATCGTGCCCTATC-GTGCTGGGT
1 C-TAAAAC-AAGGCAATGTTCGATGTTTGGAAATTCGAGG-AATCGTGCCCTAACGGTGCTGGGT
* * * *
88197680 TGCAATTTCCCGTTTGTTCAAAATAATCGAATATTTCTTTAGAATTTCACTCATGTTCTCTAAAC
63 TGCAATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCACGTACTCTAAAC
88197745 T
128 T
* *
88197746 CTAAAACAAGGCAATGTTCGATGTTTAGAAATTCGAGGAATTGTGCCCTA
1 CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTA
88197796 CTATGCTAGG
Statistics
Matches: 151, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
127 37 0.25
128 16 0.11
129 59 0.39
130 31 0.21
131 3 0.02
132 5 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (128 bp):
CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTAACGGTGCTGGGTTGC
AATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCACGTACTCTAAACT
Found at i:88207189 original size:16 final size:17
Alignment explanation
Indices: 88207152--88207196 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
88207142 TTAATTTAGC
88207152 CATTTTTATTTTTATTG
1 CATTTTTATTTTTATTG
* *
88207169 CA-TTTTATTTTTGTTT
1 CATTTTTATTTTTATTG
*
88207185 TATTTTTATTTT
1 CATTTTTATTTT
88207197 AAGTACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (17 bp):
CATTTTTATTTTTATTG
Found at i:88210450 original size:15 final size:15
Alignment explanation
Indices: 88210427--88210499 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
88210417 TTATTTTATT
88210427 TTATT-TATTATTAA
1 TTATTATATTATTAA
* *
88210441 TTGTTATATTATTTA
1 TTATTATATTATTAA
* * *
88210456 TTTTTATTTTACTAA
1 TTATTATATTATTAA
88210471 TTAATTA-ATTAATTAA
1 TT-ATTATATT-ATTAA
*
88210487 TTCTTATACTTAT
1 TTATTATA-TTAT
88210500 ATTTTAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 4 0.09
15 26 0.59
16 12 0.27
17 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATTATATTATTAA
Found at i:88210473 original size:22 final size:20
Alignment explanation
Indices: 88210415--88210466 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
88210405 ATCACCCCAA
*
88210415 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
*
88210435 TATTAATTGTTATATTATTTAT
1 T-TTTATT-TTATATTATTTAT
88210457 TTTTATTTTA
1 TTTTATTTTA
88210467 CTAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 13 0.48
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:88210520 original size:18 final size:16
Alignment explanation
Indices: 88210497--88210547 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
88210487 TTCTTATACT
88210497 TATATTTTAAATTTTTTA
1 TATATTTT-AA-TTTTTA
*
88210515 TATATTGTAATTTTTA
1 TATATTTTAATTTTTA
*
88210531 TATATTTTTATTTTTA
1 TATATTTTAATTTTTA
88210547 T
1 T
88210548 TTTGCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 21 0.70
17 2 0.07
18 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATATTTTAATTTTTA
Found at i:88210572 original size:14 final size:14
Alignment explanation
Indices: 88210524--88210573 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
88210514 ATATATTGTA
88210524 ATTTTTATATATTTTT
1 ATTTTTAT-T-TTTTT
**
88210540 ATTTTTATTTTGCT
1 ATTTTTATTTTTTT
88210554 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
*
88210568 CTTTTT
1 ATTTTT
88210574 CGTATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 20 0.69
15 1 0.03
16 8 0.28
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:88212482 original size:30 final size:30
Alignment explanation
Indices: 88212446--88212506 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
88212436 GAGTTTTCAG
* * * *
88212446 GATCCACACGGGCTGGGCTCATGCCCATGT
1 GATCCACACGGACAGGCCACATGCCCATGT
88212476 GATCCACACGGACAGGCCACATGCCCATGT
1 GATCCACACGGACAGGCCACATGCCCATGT
88212506 G
1 G
88212507 CCATCCGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
GATCCACACGGACAGGCCACATGCCCATGT
Found at i:88214295 original size:50 final size:49
Alignment explanation
Indices: 88214165--88214479 Score: 216
Period size: 46 Copynumber: 6.7 Consensus size: 49
88214155 GGGTTAAGTT
* *
88214165 GCCGATACCATGTCCCAGACATGGTCTTACACTTGCTATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
* * * *
88214214 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCTCATACTTACG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CAT-CGAG
** * * *
88214263 GTTGATGCCATGTCCCAGACATGGTCTAACACTAGC-A-CAAC-TCTTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-GAG
* * *
88214309 GCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCTTAT-GTC-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCATCATCGAG
* ** * * * *
88214355 GCCGATG-CATGTCCCAGACAT-GTCTAACGTTGGC-ACTCGTC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAG
* * *
88214401 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA-G
* *
88214449 GCCGATG-CATATCCCACACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
88214480 GGCATACAAC
Statistics
Matches: 212, Mismatches: 38, Indels: 35
0.74 0.13 0.12
Matches are distributed among these distances:
44 13 0.06
45 16 0.08
46 60 0.28
47 28 0.13
48 47 0.22
49 26 0.12
50 22 0.10
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAG
Found at i:88214452 original size:94 final size:92
Alignment explanation
Indices: 88214173--88214479 Score: 241
Period size: 94 Copynumber: 3.3 Consensus size: 92
88214163 TTGCCGATAC
* * * * *
88214173 CATGTCCCAGACATGGTCTTACACTTGCTATCATCATCGAGGCCGATGCCATGT-CCAAACATGG
1 CATGTCCCAGACAT-GTCTAACACTAGC-A-CAAC-TCTAAGCCGATGCCATGTCCCAAACATGG
* * **
88214237 TCTTACACTAGCTCTCATACTTACGTGTTGATG
62 TCTTACACTAGCTCTCATA-ATATG-GCCGATG
* *
88214270 CCATGTCCCAGACATGGTCTAACACTAGCACAACTCTTAGCCAATG-CATGTCCCAAACAT-GTC
1 -CATGTCCCAGACAT-GTCTAACACTAGCACAACTCTAAGCCGATGCCATGTCCCAAACATGGTC
* *
88214333 TTACACTAGCT-T-AT-GTCTCGAGGCCGATG
64 TTACACTAGCTCTCATAATAT---GGCCGATG
** * * *
88214362 CATGTCCCAGACATGTCTAACGTTGGCAC-TCGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTAACACTAGCACAAC-TCT-AA-GCCGATGCCATGTCCCAAACATGGT
*
88214426 CTTACACTGGCTCTCATAATATGGCCGATG
63 CTTACACTAGCTCTCATAATATGGCCGATG
* * *
88214456 CATATCCCACACATGTCTTACACT
1 CATGTCCCAGACATGTCTAACACT
88214480 GGCATACAAC
Statistics
Matches: 170, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
89 1 0.01
90 16 0.09
91 15 0.09
92 13 0.08
93 15 0.09
94 59 0.35
95 17 0.10
96 5 0.03
97 3 0.02
98 26 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTAACACTAGCACAACTCTAAGCCGATGCCATGTCCCAAACATGGTCTT
ACACTAGCTCTCATAATATGGCCGATG
Found at i:88218545 original size:23 final size:23
Alignment explanation
Indices: 88218515--88218562 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
88218505 TAAAATAGTA
* *
88218515 GAGAGAATTGAGAGAATATGATT
1 GAGAGAATTGAAAGAATAGGATT
88218538 GAGAGAATTGAAAGAATAGGATT
1 GAGAGAATTGAAAGAATAGGATT
88218561 GA
1 GA
88218563 ATGAAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (23 bp):
GAGAGAATTGAAAGAATAGGATT
Found at i:88218585 original size:38 final size:38
Alignment explanation
Indices: 88218543--88218620 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
88218533 TGATTGAGAG
88218543 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
1 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
88218581 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
1 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
88218619 AA
1 AA
88218621 GTAGGGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (38 bp):
AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
Found at i:88240944 original size:43 final size:44
Alignment explanation
Indices: 88240897--88240987 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
88240887 GCCTCAGCGA
* * * *
88240897 AGCAGATTGAAGTTACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCACAGTGG
* *
88240940 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCACAGTGG
1 AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCACAGTGG
88240984 AGCA
1 AGCA
88240988 AGCTAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 31 0.76
44 10 0.24
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (44 bp):
AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCACAGTGG
Found at i:88241069 original size:44 final size:44
Alignment explanation
Indices: 88240998--88241564 Score: 252
Period size: 44 Copynumber: 12.8 Consensus size: 44
88240988 AGCTAAATTT
* * * *
88240998 ATAGATCTTAACCCCCTAAACAATAGGGAAACAGATCGAAGGCG
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * * **
88241042 ATAGGCCTTAAACCCCTAAACAGTAGGGTAACAGGTTGAATTTAC-
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA--GGCG
* * * * *
88241087 A-ATATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTG
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * * ****
88241130 ATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTAAATTT
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * *
88241173 ACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCAAAGGCG
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * * ***
88241217 ATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGA-TTT
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * *
88241260 ATAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCG
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * * * * * ***
88241304 GT-GAACCTTAAACCCCTAAGTAGTAAGGTAATAGGTTGGA-TTT
1 ATAG-ACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * * * * * ***
88241347 ACAGATCTTAACCCCCTAAGTAGTAGGGTAACAGGTTGGA-TTT
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * *
88241390 ACAGATCTT-AACCCCTTAAGCAGTAGGGAAACAGATCAAAGGCG
1 ATAGACCTTAAACCCC-TAAGCAGTAGGGAAACAGATCGAAGGCG
* *
88241434 ATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTGTAATAGATCGAAGGCG
1 ATAGACCTTAAACCCCTAAGCAGTAGGG----A-----AACAGATCGAAGGCG
* * * *
88241487 AT-GAACCTTAAACCCCTAAGCAGTAGGGAAATAAATTGAAGGTG
1 ATAG-ACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
* * * * *
88241531 ATAGGCCTTAAACCCCAAAGTAATAGGGTAACAG
1 ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAG
88241565 GCTGAAAATT
Statistics
Matches: 388, Mismatches: 113, Indels: 44
0.71 0.21 0.08
Matches are distributed among these distances:
42 5 0.01
43 127 0.33
44 205 0.53
45 8 0.02
46 1 0.00
48 1 0.00
49 1 0.00
52 1 0.00
53 39 0.10
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (44 bp):
ATAGACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCG
Found at i:88241226 original size:87 final size:87
Alignment explanation
Indices: 88240993--88241374 Score: 559
Period size: 87 Copynumber: 4.4 Consensus size: 87
88240983 GAGCAAGCTA
* * * *
88240993 AATTTATAGATCTTAACCCCCTAAACAATAGGGAAACAGATCGAAGGCGATAGG-CCTTAAACCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGAT-GGACCTTAAACCC
*
88241057 CTAAACAGTAGGGTAACAGGTTG
65 CTAAGCAGTAGGGTAACAGGTTG
* * *
88241080 AATTTACAATATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTAAACCC
1 AATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCC
* *
88241145 CTAAGCAGTAGGGTAACAGGCTA
65 CTAAGCAGTAGGGTAACAGGTTG
*
88241168 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCAAAGGCGATGGACCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCC
88241233 TAAGCAGTAGGGTAACAGGTTG
66 TAAGCAGTAGGGTAACAGGTTG
* * * *
88241255 GATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGGTGAACCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCC
* * *
88241320 TAAGTAGTAAGGTAATAGGTTG
66 TAAGCAGTAGGGTAACAGGTTG
* *
88241342 GATTTACAGATCTTAACCCCCTAAGTAGTAGGG
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGG
88241375 TAACAGGTTG
Statistics
Matches: 268, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
87 192 0.72
88 76 0.28
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (87 bp):
AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCC
TAAGCAGTAGGGTAACAGGTTG
Found at i:88241366 original size:130 final size:130
Alignment explanation
Indices: 88241223--88241469 Score: 395
Period size: 130 Copynumber: 1.9 Consensus size: 130
88241213 GGCGATGGAC
*
88241223 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTATAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* * * * *
88241288 AAATAGATCGAAGGCGGTGAACCTTAAACCCCTAAGTAGTAAGGTAATAGGTTGGATTTACAGAT
66 AAACAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAGGTTGGATTTACAGAT
* * *
88241353 CTTAACCCCCTAAGTAGTAGGGTAACAGGTTGGATTTACAGATCTTAACCCCTTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* *
88241418 AAACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGT
66 AAACAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAGGT
88241470 GTAATAGATC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 106 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (130 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAGGTTGGATTTACAGAT
Found at i:88241452 original size:174 final size:174
Alignment explanation
Indices: 88240989--88241511 Score: 465
Period size: 174 Copynumber: 2.9 Consensus size: 174
88240979 AGTGGAGCAA
* * * * * *
88240989 GCTAAATTTATAGATCTTAACCCCCTAAACAATAGGGAAACAGATCGAAGGCGATAGGCCTTAAA
1 GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAGACCTTAAA
* * * ** *** * * *
88241054 CCCCTAAACAGTAGGGTAACAGGTTGAATTTACAATATCTTAACCCCCTAAGCAGTAGGGAAATA
66 CCCCTAAGCAGTAGGGAAACAGATCAAAGCGA-TAGACCTTAACCCCCTAAGCAGTAGGGAAATA
* ** *
88241119 GATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
130 GATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAG
* **
88241164 GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCAAAGGCGATGGACCTTAAA
1 GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAGACCTTAAA
* * *** *** *
88241229 CCCCTAAGCAGTAGGGTAACAGGTTGGATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAATAG
66 CCCCTAAGCAGTAGGGAAACAGATCAAAGCGATAGACCTTAACCCCCTAAGCAGTAGGGAAATAG
* * *
88241294 ATCGAAGGCGGTGAACCTTAAACCCCTAAGTAGTAAGGTAATAG
131 ATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAG
* ** * * * *** *** *
88241338 GTTGGATTTACAGATCTTAACCCCCTAAGTAGTAGGGTAACAGGTTGGA-TTTACAGATCTT-AA
1 GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAGACCTTAAA
* *
88241401 CCCCTTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAAC
66 CCCC-TAAGCAGTAGGGAAACAGATCAAA-GCGATAGACCTTAACCCCCTAAGCAGTAGGG----
88241466 AGGTGTAATAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTA
125 A-----AATAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTA
88241512 GGGAAATAAA
Statistics
Matches: 290, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
172 6 0.02
173 25 0.09
174 132 0.46
175 88 0.30
178 1 0.00
183 38 0.13
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (174 bp):
GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGACAGACCTTAAA
CCCCTAAGCAGTAGGGAAACAGATCAAAGCGATAGACCTTAACCCCCTAAGCAGTAGGGAAATAG
ATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAAGGTAACAG
Found at i:88246304 original size:14 final size:14
Alignment explanation
Indices: 88246285--88246319 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
88246275 CTAAAAATAC
88246285 TATAAATTTGTAAA
1 TATAAATTTGTAAA
88246299 TATAAATTTGTAAA
1 TATAAATTTGTAAA
*
88246313 TTTAAAT
1 TATAAAT
88246320 ATGAATTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (14 bp):
TATAAATTTGTAAA
Found at i:88247110 original size:29 final size:30
Alignment explanation
Indices: 88247056--88247120 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
88247046 TTTAATATAT
*
88247056 AATTGTATACATAAATTTTAATTTTG-TAC
1 AATTTTATACATAAATTTTAATTTTGATAC
* *
88247085 AATTTTATACATGAAATTTTGA-TTTGATTC
1 AATTTTATACAT-AAATTTTAATTTTGATAC
88247115 AATTTT
1 AATTTT
88247121 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (30 bp):
AATTTTATACATAAATTTTAATTTTGATAC
Found at i:88248786 original size:38 final size:38
Alignment explanation
Indices: 88248735--88248812 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
88248725 GTATGAACAT
*
88248735 TATGTGACGTATACATTTAATCGCCATTAGAGATTTAA
1 TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
*
88248773 TATGTGACGTATACATTTAACCGCTATTAGAGATTTAA
1 TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
88248811 TA
1 TA
88248813 GTTCTATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (38 bp):
TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
Found at i:88258537 original size:49 final size:49
Alignment explanation
Indices: 88258480--88258575 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
88258470 GCGATTTTCT
* ** *
88258480 TCCCTTCTTATAAAATGAGACTGTCGGAGTCGCGCGATATATAATTTAA
1 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTTAA
88258529 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTT
1 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTT
88258576 TATCTCCCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (49 bp):
TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTTAA
Found at i:88262366 original size:23 final size:23
Alignment explanation
Indices: 88262318--88262399 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
88262308 TTAAAGGACC
*
88262318 TTAGCGCTCTCCGATTATTAGCATA
1 TTAGTGCTCTCC-ATT-TTAGCATA
*
88262343 TTAGTGCTCTCCATTGTAGCATA
1 TTAGTGCTCTCCATTTTAGCATA
*
88262366 TTAGTGCTCTCCATTTTAGCACA
1 TTAGTGCTCTCCATTTTAGCATA
*
88262389 TTTGTGCTCTC
1 TTAGTGCTCTC
88262400 TGTATAGCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
23 38 0.73
24 3 0.06
25 11 0.21
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (23 bp):
TTAGTGCTCTCCATTTTAGCATA
Found at i:88263763 original size:73 final size:73
Alignment explanation
Indices: 88263669--88263817 Score: 298
Period size: 73 Copynumber: 2.0 Consensus size: 73
88263659 ATACTTGCAA
88263669 GTGAGTTACAAATCAAAACAAAGATGCAAAGGCAAAGATTTGAACTACCAAAAGCTTTGGTGATG
1 GTGAGTTACAAATCAAAACAAAGATGCAAAGGCAAAGATTTGAACTACCAAAAGCTTTGGTGATG
88263734 GAAATTCC
66 GAAATTCC
88263742 GTGAGTTACAAATCAAAACAAAGATGCAAAGGCAAAGATTTGAACTACCAAAAGCTTTGGTGATG
1 GTGAGTTACAAATCAAAACAAAGATGCAAAGGCAAAGATTTGAACTACCAAAAGCTTTGGTGATG
88263807 GAAATTCC
66 GAAATTCC
88263815 GTG
1 GTG
88263818 TGTGGATATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (73 bp):
GTGAGTTACAAATCAAAACAAAGATGCAAAGGCAAAGATTTGAACTACCAAAAGCTTTGGTGATG
GAAATTCC
Found at i:88270395 original size:28 final size:30
Alignment explanation
Indices: 88270344--88270409 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
88270334 TTATTTCAAG
** *
88270344 ATCAATTTCAGTCAATATTTTTCAATATCA
1 ATCAATTTCAGTCAATATCATTCAATAACA
*
88270374 ATCAATTT-A-TCAATATCATTCAGTAACA
1 ATCAATTTCAGTCAATATCATTCAATAACA
88270402 ATCAATTT
1 ATCAATTT
88270410 TTCACTAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.72
29 1 0.03
30 8 0.25
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (30 bp):
ATCAATTTCAGTCAATATCATTCAATAACA
Found at i:88270467 original size:36 final size:36
Alignment explanation
Indices: 88270388--88270470 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
88270378 ATTTATCAAT
* * *
88270388 ATCATTCAGTAACAATCAATTTTTCACTAGCAATTA
1 ATCATTCAGTAACAATCAATTATTCACTAACAATCA
* * * *
88270424 GTTATTCAGTAACAATCAATTATTCAGTAACAGTCA
1 ATCATTCAGTAACAATCAATTATTCACTAACAATCA
88270460 ATCATTCAGTA
1 ATCATTCAGTA
88270471 CCTTTATTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (36 bp):
ATCATTCAGTAACAATCAATTATTCACTAACAATCA
Found at i:88270468 original size:18 final size:18
Alignment explanation
Indices: 88270388--88270470 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
88270378 ATTTATCAAT
88270388 ATCATTCAGTAACAATCA
1 ATCATTCAGTAACAATCA
** * * *
88270406 ATTTTTCACTAGCAATTA
1 ATCATTCAGTAACAATCA
* *
88270424 GTTATTCAGTAACAATCA
1 ATCATTCAGTAACAATCA
* *
88270442 ATTATTCAGTAACAGTCA
1 ATCATTCAGTAACAATCA
88270460 ATCATTCAGTA
1 ATCATTCAGTA
88270471 CCTTTATTCA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (18 bp):
ATCATTCAGTAACAATCA
Found at i:88270677 original size:43 final size:44
Alignment explanation
Indices: 88270623--88270713 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 44
88270613 TCGAAGTAAC
*
88270623 AGTAGCAGTACGACACACATTGTGCCTCATCGACTCGAA-GTCGA
1 AGTAGCAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
88270667 AGTA-CAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAGCAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
88270710 AGTA
1 AGTA
88270714 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.05
43 37 0.86
44 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTAGCAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:88272133 original size:15 final size:17
Alignment explanation
Indices: 88272104--88272135 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
88272094 ATAAAAAATG
88272104 CATATATTACAATTGTT
1 CATATATTACAATTGTT
88272121 CATATA-TAC-ATTGTT
1 CATATATTACAATTGTT
88272136 ACATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATATATTACAATTGTT
Found at i:88277775 original size:3 final size:3
Alignment explanation
Indices: 88277767--88277822 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
88277757 AACTTAAAAT
*
88277767 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA -AA CT-A TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
88277810 TTAA TAA TAA TAA
1 -TAA TAA TAA TAA
88277823 AATCTTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:88283599 original size:50 final size:50
Alignment explanation
Indices: 88283466--88283703 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
88283456 AGCCGAAACT
* * * *
88283466 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCAACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * * *
88283515 ATCCGGTATACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * * *
88283565 ATCTGATACACGTAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CC
* * *
88283616 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * *
88283665 AGTATGGTACACACAGTAGCCTGCACTTAGTACTACACA
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACA
88283704 TGTGTATTCA
Statistics
Matches: 155, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 39 0.25
50 77 0.50
51 39 0.25
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:88283743 original size:15 final size:15
Alignment explanation
Indices: 88283723--88283752 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88283713 ACAATGGGTC
88283723 ATTCGTATTGTTCCT
1 ATTCGTATTGTTCCT
88283738 ATTCGTATTGTTCCT
1 ATTCGTATTGTTCCT
88283753 GTTCCGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTCGTATTGTTCCT
Found at i:88286498 original size:20 final size:20
Alignment explanation
Indices: 88286468--88286522 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
88286458 ATTATTTGGT
*
88286468 CTAGAATTAGGTGGTAAAAA
1 CTAGGATTAGGTGGTAAAAA
*
88286488 TTAGGATTAGGTGGTAAAAA
1 CTAGGATTAGGTGGTAAAAA
88286508 CTAGGATTAGGTGGT
1 CTAGGATTAGGTGGT
88286523 CGGTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (20 bp):
CTAGGATTAGGTGGTAAAAA
Found at i:88286562 original size:18 final size:18
Alignment explanation
Indices: 88286539--88286577 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88286529 TTAAATAACT
88286539 TAAAAT-GAACTTTAAAAA
1 TAAAATCGAA-TTTAAAAA
*
88286557 TAAAATCGAATTTGAAAA
1 TAAAATCGAATTTAAAAA
88286575 TAA
1 TAA
88286578 TTAAGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (18 bp):
TAAAATCGAATTTAAAAA
Found at i:88288792 original size:12 final size:13
Alignment explanation
Indices: 88288777--88288814 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
88288767 GTCATATAAA
88288777 AATTA-TTAATAT
1 AATTATTTAATAT
88288789 AATTTATTTAATA-
1 AA-TTATTTAATAT
88288802 AATTATTTAATAT
1 AATTATTTAATAT
88288815 TTCAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.52
13 5 0.22
14 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTATTTAATAT
Found at i:88288930 original size:34 final size:33
Alignment explanation
Indices: 88288873--88288937 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
88288863 TATTATTCAA
* *
88288873 TTATTCAATATTAAATCTTTTAATAATAAATAT
1 TTATTCAATATTAAATATATTAATAATAAATAT
*
88288906 TTATTACAATTTTAAATATATTAATAATAAAT
1 TTATT-CAATATTAAATATATTAATAATAAAT
88288938 GTTTTGTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (33 bp):
TTATTCAATATTAAATATATTAATAATAAATAT
Found at i:88293665 original size:10 final size:10
Alignment explanation
Indices: 88293650--88293699 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
88293640 TAATTTTATG
88293650 ATTTAT-TTT
1 ATTTATCTTT
88293659 CATTTATCTTT
1 -ATTTATCTTT
88293670 ATTTATCTTT
1 ATTTATCTTT
88293680 ATTTAT-TTGT
1 ATTTATCTT-T
88293690 ATTTATCTTT
1 ATTTATCTTT
88293700 TAGAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:88297502 original size:7 final size:7
Alignment explanation
Indices: 88297492--88297556 Score: 57
Period size: 7 Copynumber: 9.4 Consensus size: 7
88297482 TTTCTTAATT
88297492 TTTATTA
1 TTTATTA
88297499 TTTATTA
1 TTTATTA
88297506 -TT-TTA
1 TTTATTA
*
88297511 TTTCATTT
1 TTT-ATTA
*
88297519 TATTAGTA
1 T-TTATTA
88297527 TTTATTA
1 TTTATTA
88297534 -TT-TTA
1 TTTATTA
88297539 TTTTATTA
1 -TTTATTA
88297547 TTTATTA
1 TTTATTA
88297554 TTT
1 TTT
88297557 TATTTTAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 6 0.13
6 6 0.13
7 24 0.51
8 9 0.19
9 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:88297506 original size:10 final size:10
Alignment explanation
Indices: 88297489--88297555 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
88297479 ACTTTTCTTA
88297489 ATTT-TTATT
1 ATTTATTATT
88297498 ATTTATTA-T
1 ATTTATTATT
*
88297507 -TTTATT-TC
1 ATTTATTATT
*
88297515 ATTTTATTAGT
1 A-TTTATTATT
88297526 ATTTATTATT
1 ATTTATTATT
*
88297536 -TTATTTTATT
1 ATT-TATTATT
88297546 ATTTATTATT
1 ATTTATTATT
88297556 TTATTTTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
8 6 0.13
9 7 0.16
10 29 0.64
11 3 0.07
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (10 bp):
ATTTATTATT
Done.