Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 115 of 173
Found at i:35599819 original size:21 final size:22
Alignment explanation
Indices: 35599778--35599829 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
35599768 TATAAATTAT
*
35599778 TAATATATTT-ATGAATCTTTA
1 TAATATTTTTAATGAATCTTTA
*
35599799 TAATATTTTTAATG-ATGTTTA
1 TAATATTTTTAATGAATCTTTA
*
35599820 TTA-ATTTTTA
1 TAATATTTTTA
35599830 TATTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 17 0.63
22 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (22 bp):
TAATATTTTTAATGAATCTTTA
Found at i:35599830 original size:31 final size:29
Alignment explanation
Indices: 35599765--35599840 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
35599755 TTATTTTTTA
35599765 TTTTATAAATTATTAATATATTTATGAAT
1 TTTTATAAATTATTAATATATTTATGAAT
* * * *
35599794 CTTTATAATATTTTTAATGATGTTTATTAAT
1 TTTTATAA-ATTATTAAT-ATATTTATGAAT
*
35599825 TTTTAT-ATTTATTAAT
1 TTTTATAAATTATTAAT
35599841 TTTTTTATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 14 0.37
30 9 0.24
31 15 0.39
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTTATAAATTATTAATATATTTATGAAT
Found at i:35599926 original size:14 final size:15
Alignment explanation
Indices: 35599909--35599937 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35599899 TTTATAGTTT
35599909 TTAA-TTTATTTTTA
1 TTAATTTTATTTTTA
35599923 TTAATTTTATTTTTA
1 TTAATTTTATTTTTA
35599938 AAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTAATTTTATTTTTA
Found at i:35603153 original size:13 final size:13
Alignment explanation
Indices: 35603135--35603178 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
35603125 TAAGTATTGA
35603135 AATTATATTATAT
1 AATTATATTATAT
*
35603148 AATTATATTATAC
1 AATTATATTATAT
35603161 AATTAT-TTA-AT
1 AATTATATTATAT
35603172 ATATTAT
1 A-ATTAT
35603179 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATATTATAT
Found at i:35612717 original size:19 final size:19
Alignment explanation
Indices: 35612685--35612723 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35612675 TGTTTTAAAG
* *
35612685 TAAAATAGTGTTATATTAT
1 TAAAATAATATTATATTAT
*
35612704 TAAAATAATATTATTTTAT
1 TAAAATAATATTATATTAT
35612723 T
1 T
35612724 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAAATAATATTATATTAT
Found at i:35613647 original size:21 final size:21
Alignment explanation
Indices: 35613623--35613670 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
35613613 ATAAGTAAAT
*
35613623 TTTGTAATATACTATGAATGA
1 TTTGTAAAATACTATGAATGA
* * * *
35613644 TTTGAAAAATATTGTGTATGA
1 TTTGTAAAATACTATGAATGA
35613665 TTTGTA
1 TTTGTA
35613671 TCTATTATGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTGTAAAATACTATGAATGA
Found at i:35626465 original size:18 final size:18
Alignment explanation
Indices: 35626442--35626479 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35626432 TCAAACAAAA
35626442 TCTTATGGCGTGTTTAGT
1 TCTTATGGCGTGTTTAGT
35626460 TCTTATGGCGTGTTTAGT
1 TCTTATGGCGTGTTTAGT
35626478 TC
1 TC
35626480 GCTGTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.13, G:0.26, T:0.50
Consensus pattern (18 bp):
TCTTATGGCGTGTTTAGT
Found at i:35627099 original size:20 final size:20
Alignment explanation
Indices: 35627076--35627126 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
35627066 TTTGTTTATT
*
35627076 TATTTATTTTTTGT-TTTGAA
1 TATTTATTTTTTGTCCTT-AA
*
35627096 TATTTATTCTTTGTCCTTAA
1 TATTTATTTTTTGTCCTTAA
35627116 -ATTTATTTTTT
1 TATTTATTTTTT
35627127 TAGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.37
20 15 0.56
21 2 0.07
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTTATTTTTTGTCCTTAA
Found at i:35627427 original size:20 final size:23
Alignment explanation
Indices: 35627383--35627433 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
35627373 AAATTATGAC
*
35627383 TTTAAAGATATATATATTTATAT
1 TTTATAGATATATATATTTATAT
*
35627406 TTT-TAGATATAT-TTTTTA-AT
1 TTTATAGATATATATATTTATAT
35627426 TTTATAGA
1 TTTATAGA
35627434 ATTATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 9 0.36
22 8 0.32
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTATAGATATATATATTTATAT
Found at i:35627887 original size:21 final size:21
Alignment explanation
Indices: 35627857--35627905 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
35627847 ATAAATGTGT
*
35627857 TAAAATTATTAATTAAAAATAA
1 TAAAAATATT-ATTAAAAATAA
* *
35627879 -AAAAATATTTTTTAAAATAA
1 TAAAAATATTATTAAAAATAA
35627899 TAAAAAT
1 TAAAAAT
35627906 GTGTTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATATTATTAAAAATAA
Found at i:35636680 original size:15 final size:15
Alignment explanation
Indices: 35636656--35636687 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35636646 CATGCATGCA
*
35636656 AAATATAAAAGACAT
1 AAATACAAAAGACAT
35636671 AAATACAAAAGACAT
1 AAATACAAAAGACAT
35636686 AA
1 AA
35636688 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:35648145 original size:22 final size:22
Alignment explanation
Indices: 35648119--35648163 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35648109 ATTATGTGTA
*
35648119 TTAATTCATAATATAA-TTAATT
1 TTAATTCA-AATACAATTTAATT
*
35648141 TTAATTTAAATACAATTTAATT
1 TTAATTCAAATACAATTTAATT
35648163 T
1 T
35648164 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTCAAATACAATTTAATT
Found at i:35656833 original size:19 final size:19
Alignment explanation
Indices: 35656811--35656937 Score: 146
Period size: 19 Copynumber: 6.5 Consensus size: 19
35656801 AGGGATATAC
35656811 AATCTTAGATATGATATGT
1 AATCTTAGATATGATATGT
* * *
35656830 AATCTTAAATATAATATAT
1 AATCTTAGATATGATATGT
*
35656849 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGT
* *
35656868 AATCTTAGATATAATATAT
1 AATCTTAGATATGATATGT
*
35656887 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGT
*
35656906 AATCTTAGAAGATATGATTTTGT
1 AATCTT---AGATATGA-TATGT
35656929 AATCTTAGA
1 AATCTTAGA
35656938 GATTTAATTT
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
19 69 0.78
20 3 0.03
22 8 0.09
23 9 0.10
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCTTAGATATGATATGT
Found at i:35656913 original size:38 final size:38
Alignment explanation
Indices: 35656805--35656914 Score: 193
Period size: 38 Copynumber: 2.9 Consensus size: 38
35656795 ATATTTAGGG
* * *
35656805 ATATACAATCTTAGATATGATATGTAATCTTAAATATA
1 ATATATAATCTTAGATATGATATGCAATCTTAGATATA
35656843 ATATATAATCTTAGATATGATATGCAATCTTAGATATA
1 ATATATAATCTTAGATATGATATGCAATCTTAGATATA
35656881 ATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATATAATCTTAGATATGATATGCAATCTTAGA
35656915 AGATATGATT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (38 bp):
ATATATAATCTTAGATATGATATGCAATCTTAGATATA
Found at i:35656950 original size:21 final size:21
Alignment explanation
Indices: 35656906--35656971 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
35656896 TATGATATGC
*
35656906 AATCTTAGAAGATATGATTTTGT
1 AATCTTAG-AGAT-TTATTTTGT
*
35656929 AATCTTAGAGATTTAATTTGT
1 AATCTTAGAGATTTATTTTGT
35656950 AATCTTAGAGATTTATTTTGT
1 AATCTTAGAGATTTATTTTGT
35656971 A
1 A
35656972 GATACCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 28 0.70
22 4 0.10
23 8 0.20
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (21 bp):
AATCTTAGAGATTTATTTTGT
Found at i:35660059 original size:3 final size:3
Alignment explanation
Indices: 35660051--35660080 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
35660041 TGAATGTGGT
35660051 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
35660081 TTAGAGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:35672696 original size:7 final size:7
Alignment explanation
Indices: 35672684--35672711 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
35672674 CTTACACCGC
35672684 ATACCTT
1 ATACCTT
35672691 ATACCTT
1 ATACCTT
35672698 ATACCTT
1 ATACCTT
35672705 ATACCTT
1 ATACCTT
35672712 GCCACCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
ATACCTT
Found at i:35682020 original size:45 final size:46
Alignment explanation
Indices: 35681947--35682071 Score: 118
Period size: 45 Copynumber: 2.8 Consensus size: 46
35681937 GACGGAAACG
* *
35681947 AGTAAGACCATAGCCTAAA-AC-CGTTATGGTAA-CATGATGAAAA-TA
1 AGTAAGACCATAGCCGAAAGACAC--TATGGTAATCATGA-AAAAAGTA
*
35681992 AGTAAGACCATAGCCGAAAGACACTATGG-AATCATGAAAAAAGTG
1 AGTAAGACCATAGCCGAAAGACACTATGGTAATCATGAAAAAAGTA
* ** *
35682037 AGTAAGACCATGGTTGAAAGACACAATGGT-ATCAT
1 AGTAAGACCATAGCCGAAAGACACTATGGTAATCAT
35682072 TGTAAATAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 6 0.09
45 59 0.87
46 2 0.03
47 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (46 bp):
AGTAAGACCATAGCCGAAAGACACTATGGTAATCATGAAAAAAGTA
Found at i:35682100 original size:45 final size:45
Alignment explanation
Indices: 35681994--35682100 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
35681984 TGAAAATAAG
* * *
35681994 TAAGACCATAGCCGAAAGACACTATGGAATCATGAAAAAAGTGAG
1 TAAGACCATAGCTGAAAGACACAATGGAATCATGAAAAAAGTGAC
* * * * *
35682039 TAAGACCATGGTTGAAAGACACAATGGTATCATTGTAAATAG-GAC
1 TAAGACCATAGCTGAAAGACACAATGGAATCA-TGAAAAAAGTGAC
*
35682084 TAAGATCATAGCTGAAA
1 TAAGACCATAGCTGAAA
35682101 TACGCTATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
45 43 0.86
46 7 0.14
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACACAATGGAATCATGAAAAAAGTGAC
Found at i:35688030 original size:33 final size:33
Alignment explanation
Indices: 35687993--35688069 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
35687983 TGATCTTATA
35687993 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
1 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
*
35688026 ACACCAACCATTGAGCATCAAAGTGCCAAAAGC
1 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
35688059 ACACCAACCAT
1 ACACCAACCAT
35688070 CAAGGAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.44, C:0.32, G:0.12, T:0.12
Consensus pattern (33 bp):
ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
Found at i:35689360 original size:29 final size:29
Alignment explanation
Indices: 35689318--35689496 Score: 112
Period size: 29 Copynumber: 6.1 Consensus size: 29
35689308 GTGTGCTAAA
*
35689318 CGATGGTC-ATAACCGTCCCTTTTCATATT
1 CGATGGTCGA-AACCATCCCTTTTCATATT
35689347 CGATGGTCGAAACCATCCCTTTTCATTAGTT
1 CGATGGTCGAAACCATCCCTTTTCA-TA-TT
** *
35689378 -GATGGTCGTCACCATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATATT
** * * *
35689406 CGACAG-CCAAAGCTATCCCTTTTCATAAT
1 CGATGGTCGAAA-CCATCCCTTTTCATATT
* * * * *
35689435 CTATAGCCGAAGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * * *** *
35689464 CAATAGCCGAAGTTATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATATT
35689493 CGAT
1 CGAT
35689497 AAACAAAGCT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.02
29 92 0.74
30 28 0.22
31 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:35689384 original size:30 final size:30
Alignment explanation
Indices: 35689318--35689402 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
35689308 GTGTGCTAAA
*
35689318 CGATGGTC-ATAACCGTCCCTTTTCA-TATT
1 CGATGGTCGA-AACCATCCCTTTTCATTATT
35689347 CGATGGTCGAAACCATCCCTTTTCATTAGTT
1 CGATGGTCGAAACCATCCCTTTTCATTA-TT
**
35689378 -GATGGTCGTCACCATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
35689403 AATCGACAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 22 0.44
30 26 0.52
31 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.36
Consensus pattern (30 bp):
CGATGGTCGAAACCATCCCTTTTCATTATT
Found at i:35689509 original size:29 final size:29
Alignment explanation
Indices: 35689391--35689518 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
35689381 GGTCGTCACC
*
35689391 ATCCCTTTTCATAATCGACAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* *
35689420 ATCCCTTTTCATAATCTATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* * * *
35689449 ATCCCTTTTCATATTCAATAGCCGAAGTT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
**
35689478 ATCCCTTTTCATAATCGATAAACAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
35689507 ATCCCTTTTCAT
1 ATCCCTTTTCAT
35689519 TGGTTGATGA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:35690027 original size:18 final size:18
Alignment explanation
Indices: 35690004--35690041 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
35689994 AAAAATCACT
35690004 TAACAA-AATACTTTTAAA
1 TAACAACAATA-TTTTAAA
35690022 TAACAACTAATATTTTAAA
1 TAACAAC-AATATTTTAAA
35690041 T
1 T
35690042 TCATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAACAACAATATTTTAAA
Found at i:35697403 original size:23 final size:23
Alignment explanation
Indices: 35697371--35697414 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35697361 ACTACCATTT
35697371 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
35697394 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
35697415 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:35697407 original size:13 final size:11
Alignment explanation
Indices: 35697375--35697417 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35697365 CCATTTTCTA
*
35697375 AATAAAATAAT
1 AATAAAATATT
35697386 AAT-AAATATCT
1 AATAAAATAT-T
35697397 AAGTAAAATATT
1 AA-TAAAATATT
35697409 AATAAAATA
1 AATAAAATA
35697418 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:35698071 original size:17 final size:17
Alignment explanation
Indices: 35698030--35698062 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35698020 TTCATTGTTG
35698030 AGTTTTTGGGTTTTTCA
1 AGTTTTTGGGTTTTTCA
35698047 AGTTTTTGGGTTTTTC
1 AGTTTTTGGGTTTTTC
35698063 GTGTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.24, T:0.61
Consensus pattern (17 bp):
AGTTTTTGGGTTTTTCA
Found at i:35710972 original size:2 final size:2
Alignment explanation
Indices: 35710965--35710995 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35710955 TTTAATTTGA
35710965 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
35710996 GAGAGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35711000 original size:2 final size:2
Alignment explanation
Indices: 35710995--35711041 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
35710985 ACACACACAC
*
35710995 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35711037 AG AG A
1 AG AG A
35711042 AGGAACCTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35712325 original size:26 final size:26
Alignment explanation
Indices: 35712289--35712340 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35712279 ATAATACATC
35712289 AACTCAGTAGCAAAAGTCATTCTTAA
1 AACTCAGTAGCAAAAGTCATTCTTAA
35712315 AACTCAGTAGCAAAAGTCATTCTTAA
1 AACTCAGTAGCAAAAGTCATTCTTAA
35712341 TAAGTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (26 bp):
AACTCAGTAGCAAAAGTCATTCTTAA
Found at i:35714644 original size:14 final size:13
Alignment explanation
Indices: 35714623--35714663 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
35714613 AATGTGTCTT
35714623 TTTAATGTTTATA
1 TTTAATGTTTATA
35714636 TTATAATGTTATATA
1 TT-TAATGTT-TATA
35714651 TTTAAT-TTTATA
1 TTTAATGTTTATA
35714663 T
1 T
35714664 AAATTACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 11 0.42
15 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (13 bp):
TTTAATGTTTATA
Found at i:35722847 original size:25 final size:25
Alignment explanation
Indices: 35722819--35722866 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
35722809 TATTCAAAAC
* *
35722819 TTTGAT-TTATTTAATTTTTTTTATT
1 TTTGATCTTAATT-ATTTATTTTATT
35722844 TTTGATCTTAATTATTTATTTTA
1 TTTGATCTTAATTATTTATTTTA
35722867 ATTGTTTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTGATCTTAATTATTTATTTTATT
Found at i:35727047 original size:129 final size:129
Alignment explanation
Indices: 35726839--35727099 Score: 362
Period size: 129 Copynumber: 2.0 Consensus size: 129
35726829 AATTAATTCC
* * * *
35726839 AGAGGTAATCCTTGTCTAACTCCAACACTAATAAAAAAATACACGCTGAGGGGCATTTTGGGCAA
1 AGAGGTAATCCTTGTCCAACTCCAACACCAATAAAAAAATACACACTGAAGGGCATTTTGGGCAA
* *
35726904 AATTTTTAGGTTGTAATCAGAGTAAAAAGCCTTCTTTTGGTTGAGAGAAAGAAAAAATTGACTGT
66 AATTTTTAGGTTGTAATCAGAATAAAAAGCCTTCTTTTGGTTGAAAGAAAGAAAAAATT-ACTGT
* * * *
35726969 AGAGGTAGTTCTTGTCCAACTCCAACACCACT-AAAAAATACACACTGAAGGGCATTTTGGGCAT
1 AGAGGTAATCCTTGTCCAACTCCAACACCAATAAAAAAATACACACTGAAGGGCATTTTGGGCAA
* * ** * *
35727033 AATTTTTGGGTTGTAATTAGAATAAAAAGGTTTCTTTTGGTTGAAAGAAAGAGAAAATTACTTT
66 AATTTTTAGGTTGTAATCAGAATAAAAAGCCTTCTTTTGGTTGAAAGAAAGAAAAAATTACTGT
35727097 AGA
1 AGA
35727100 TTATTCAATT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 7 0.06
129 81 0.70
130 27 0.23
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (129 bp):
AGAGGTAATCCTTGTCCAACTCCAACACCAATAAAAAAATACACACTGAAGGGCATTTTGGGCAA
AATTTTTAGGTTGTAATCAGAATAAAAAGCCTTCTTTTGGTTGAAAGAAAGAAAAAATTACTGT
Found at i:35729398 original size:14 final size:14
Alignment explanation
Indices: 35729379--35729407 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35729369 AAAAAATCCC
35729379 TTTTTAGATCATTG
1 TTTTTAGATCATTG
35729393 TTTTTAGATCATTG
1 TTTTTAGATCATTG
35729407 T
1 T
35729408 GGACTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTTTAGATCATTG
Found at i:35737467 original size:9 final size:9
Alignment explanation
Indices: 35737453--35737493 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
35737443 CCCAAGTGTT
35737453 TTTATTTTA
1 TTTATTTTA
35737462 TTTATTTTA
1 TTTATTTTA
35737471 TTTATTTTA
1 TTTATTTTA
*
35737480 CTTTCATATTA
1 -TTT-ATTTTA
35737491 TTT
1 TTT
35737494 TTATTATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 18 0.62
10 6 0.21
11 5 0.17
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:35737514 original size:21 final size:22
Alignment explanation
Indices: 35737488--35737531 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
35737478 TACTTTCATA
*
35737488 TTATTTTTATTA-TTACAAAAT
1 TTATTTTTATTATTTAAAAAAT
35737509 TTATTTTTATTATTTAAAAAAT
1 TTATTTTTATTATTTAAAAAAT
35737531 T
1 T
35737532 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTTTTATTATTTAAAAAAT
Found at i:35739647 original size:20 final size:19
Alignment explanation
Indices: 35739622--35739661 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
35739612 CAATCACTGA
*
35739622 TTTATTTTAGTTTTTAGTTT
1 TTTATTTTAATTTTTA-TTT
35739642 TTTATTTTAATTTTTATTT
1 TTTATTTTAATTTTTATTT
35739661 T
1 T
35739662 CAGTTGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTATTTTAATTTTTATTT
Found at i:35739697 original size:21 final size:22
Alignment explanation
Indices: 35739644--35739704 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
35739634 TTTAGTTTTT
35739644 TATTTTAATTTTTATTTTCAGTTG
1 TATTTT-A-TTTTATTTTCAGTTG
35739668 TACTTTTATTTTATTGTT-AGTTG
1 TA-TTTTATTTTATT-TTCAGTTG
35739691 T-TTTTATTTTATTT
1 TATTTTATTTTATTT
35739705 GTGAAACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.03
21 12 0.34
23 13 0.37
24 5 0.14
25 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.70
Consensus pattern (22 bp):
TATTTTATTTTATTTTCAGTTG
Found at i:35739758 original size:32 final size:32
Alignment explanation
Indices: 35739691--35739753 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
35739681 TTGTTAGTTG
*
35739691 TTTTTATTTTATTTGTGAAACTTTTTGTTTTA
1 TTTTAATTTTATTTGTGAAACTTTTTGTTTTA
*
35739723 TTTTAATTTTATTT-TG-AAC-TTTAGTTTTA
1 TTTTAATTTTATTTGTGAAACTTTTTGTTTTA
35739752 TT
1 TT
35739754 ATTTTGTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.38
30 3 0.10
31 2 0.07
32 13 0.45
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (32 bp):
TTTTAATTTTATTTGTGAAACTTTTTGTTTTA
Found at i:35754772 original size:33 final size:33
Alignment explanation
Indices: 35754729--35754805 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
35754719 TCCAAATAAT
* * * *
35754729 AACAACAAAATAGTAGCAAAATAGTGAGAAAAC
1 AACAAGAAAATAGTAGCAAAACAGTAAAAAAAC
* *
35754762 AACAAGAAAATAGTAGTAAAACAGTAAAAAAAT
1 AACAAGAAAATAGTAGCAAAACAGTAAAAAAAC
*
35754795 AGCAAGAAAAT
1 AACAAGAAAAT
35754806 TGCAGTTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.64, C:0.09, G:0.14, T:0.13
Consensus pattern (33 bp):
AACAAGAAAATAGTAGCAAAACAGTAAAAAAAC
Found at i:35754793 original size:22 final size:22
Alignment explanation
Indices: 35754746--35754796 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
35754736 AAATAGTAGC
*
35754746 AAAATAGTGAGAAAACAACAAG
1 AAAATAGTGAGAAAACAACAAA
**
35754768 AAAATAGT-AGTAAAACAGTAAA
1 AAAATAGTGAG-AAAACAACAAA
35754790 AAAATAG
1 AAAATAG
35754797 CAAGAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.14
Consensus pattern (22 bp):
AAAATAGTGAGAAAACAACAAA
Found at i:35757086 original size:10 final size:11
Alignment explanation
Indices: 35757051--35757092 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
35757041 AATAAAAATA
35757051 TAAAAATTATT
1 TAAAAATTATT
**
35757062 TAAATTTTATT
1 TAAAAATTATT
35757073 TAAAAATT-TT
1 TAAAAATTATT
35757083 TAAAAATTAT
1 TAAAAATTAT
35757093 AAAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAAAATTATT
Found at i:35757182 original size:19 final size:20
Alignment explanation
Indices: 35757134--35757194 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
35757124 AAAATTTTAC
35757134 AAATTCG-AAAGAGAATTATAA
1 AAATTCGTAAAGA-AATTAT-A
*
35757155 AAAAT-GTAAAGAAA-TATA
1 AAATTCGTAAAGAAATTATA
35757173 AAATTCGTAAA-AAATTATA
1 AAATTCGTAAAGAAATTATA
35757192 AAA
1 AAA
35757195 ATTATCGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.23
19 15 0.43
20 3 0.09
21 9 0.26
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (20 bp):
AAATTCGTAAAGAAATTATA
Found at i:35757289 original size:19 final size:19
Alignment explanation
Indices: 35757267--35757340 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
35757257 ATTTTTTATG
35757267 ATTTTTATAAAATTTTACA
1 ATTTTTATAAAATTTTACA
* * *
35757286 ATTTTTATATATTTTTACG
1 ATTTTTATAAAATTTTACA
** *
35757305 ATTTTTATAATTTTTTTCTA
1 ATTTTTATAAAATTTTAC-A
35757325 ATTTTTAATAAAATTT
1 ATTTTT-ATAAAATTT
35757341 ATTATTTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 31 0.70
20 6 0.14
21 7 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTTATAAAATTTTACA
Found at i:35757383 original size:9 final size:9
Alignment explanation
Indices: 35757251--35757384 Score: 74
Period size: 9 Copynumber: 14.4 Consensus size: 9
35757241 CTTTGATGCA
*
35757251 TTTTATATT
1 TTTTATAAT
*
35757260 TTTTATGAT
1 TTTTATAAT
*
35757269 TTTTATAAAA
1 TTTTAT-AAT
*
35757279 TTTTACAAT
1 TTTTATAAT
35757288 TTTTATATAT
1 TTTTATA-AT
**
35757298 TTTTACGAT
1 TTTTATAAT
35757307 TTTTATAATTT
1 TTTTATAA--T
*
35757318 TTTTCTAAT
1 TTTTATAAT
*
35757327 TTTTAATAAA
1 TTTT-ATAAT
* *
35757337 ATTTATTAT
1 TTTTATAAT
*
35757346 TTATTATAAC
1 TT-TTATAAT
***
35757356 TTTTATTGG
1 TTTTATAAT
35757365 TTTTAT--T
1 TTTTATAAT
35757372 TTTTATAAT
1 TTTTATAAT
35757381 TTTT
1 TTTT
35757385 TGCCACATGT
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
7 6 0.06
9 53 0.57
10 26 0.28
11 8 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:35759874 original size:40 final size:39
Alignment explanation
Indices: 35759810--35759928 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 39
35759800 AGTTTAGCAC
* *
35759810 CCAGTGCCTCATTAGATAATTCGAAGTAATAATTTGACA
1 CCAGTGCCTCATCAGATAAATCGAAGTAATAATTTGACA
* * *
35759849 TCCAGTGTCTCATCAGCTAAATCGAAGT-A-AATTGGTAC-
1 -CCAGTGCCTCATCAGATAAATCGAAGTAATAATTTG-ACA
*
35759887 CCAGTGCCTCATC-GAATATATCTGAAGTAATAATTTGACA
1 CCAGTGCCTCATCAG-ATAAATC-GAAGTAATAATTTGACA
35759927 CC
1 CC
35759929 CAGTATCTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
36 1 0.02
37 17 0.27
38 10 0.16
39 6 0.09
40 30 0.47
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (39 bp):
CCAGTGCCTCATCAGATAAATCGAAGTAATAATTTGACA
Found at i:35759932 original size:41 final size:41
Alignment explanation
Indices: 35759807--35759942 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 41
35759797 ACCAGTTTAG
*
35759807 CACCCAGTGCCTCAT-TAGATAAT-TCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAGATAATCT-GAAGTAATAATTTGA
* * * *
35759847 CATCCAGTGTCTCATC-AGCTAAATC-GAAGT-A-AA-TTGG
1 CACCCAGTGCCTCATCGAGAT-AATCTGAAGTAATAATTTGA
*
35759884 TACCCAGTGCCTCATCGA-ATATATCTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAGATA-ATCTGAAGTAATAATTTGA
**
35759925 CACCCAGTATCTCATCGA
1 CACCCAGTGCCTCATCGA
35759943 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
36 1 0.01
37 20 0.27
38 8 0.11
39 2 0.03
40 23 0.31
41 21 0.28
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAGATAATCTGAAGTAATAATTTGA
Found at i:35760120 original size:15 final size:15
Alignment explanation
Indices: 35760073--35760122 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
35760063 CAATTCAAAT
*
35760073 AATCAATATATATTC
1 AATCAATATAAATTC
35760088 AAT-ATATATACCAATTC
1 AATCA-ATATA--AATTC
35760105 AATCAATATAAATTC
1 AATCAATATAAATTC
35760120 AAT
1 AAT
35760123 AAATTCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:35760145 original size:24 final size:24
Alignment explanation
Indices: 35760100--35760146 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35760090 TATATATACC
35760100 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
35760124 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
35760147 TCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:35762410 original size:16 final size:16
Alignment explanation
Indices: 35762377--35762410 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35762367 TATTGTACAC
**
35762377 ATATATATGTATTTGA
1 ATATATATGTATACGA
35762393 ATATATATGTATACGA
1 ATATATATGTATACGA
35762409 AT
1 AT
35762411 TTTCATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATATGTATACGA
Found at i:35763489 original size:13 final size:13
Alignment explanation
Indices: 35763471--35763507 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
35763461 ACTAACTTCG
35763471 TAAATATTTACTA
1 TAAATATTTACTA
35763484 TAAATATTTACTA
1 TAAATATTTACTA
35763497 TAAATATTTAC
1 TAAATATTTAC
35763508 GAGTCCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATATTTACTA
Found at i:35763696 original size:21 final size:23
Alignment explanation
Indices: 35763670--35763721 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
35763660 AAAAGTTACA
35763670 AAAAAATTCAAAA-ATA-ATTTT
1 AAAAAATTCAAAATATATATTTT
*
35763691 AAAAAATTCAAAATTTATATTTT
1 AAAAAATTCAAAATATATATTTT
*
35763714 ATAAAATT
1 AAAAAATT
35763722 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 12 0.44
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAAATTCAAAATATATATTTT
Found at i:35764201 original size:21 final size:21
Alignment explanation
Indices: 35764177--35764216 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35764167 ATTATATACT
35764177 ATTTTGATAAT-TTTTTAAATA
1 ATTTT-ATAATATTTTTAAATA
*
35764198 ATTTTATTATATTTTTAAA
1 ATTTTATAATATTTTTAAA
35764217 AATCCTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTATAATATTTTTAAATA
Found at i:35764964 original size:27 final size:25
Alignment explanation
Indices: 35764934--35764991 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
35764924 AATATTAATA
*
35764934 TAAAATATAAAATTTTTATTATTTTTT
1 TAAAATAT-AAATTTTTA-TATATTTT
* **
35764961 TAAATTATTTATTTTTATATATTTT
1 TAAAATATAAATTTTTATATATTTT
35764986 TAAAAT
1 TAAAAT
35764992 TTATATATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 12 0.46
26 7 0.27
27 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAAATATAAATTTTTATATATTTT
Found at i:35764995 original size:27 final size:25
Alignment explanation
Indices: 35764945--35765006 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
35764935 AAAATATAAA
* *
35764945 ATTTTTATTATTTTTTTAAATTATTT
1 ATTTTTATTA-TTTTTAAAATTATAT
35764971 ATTTTTATATATTTTTAAAATTTATAT
1 ATTTTTAT-TATTTTTAAAA-TTATAT
*
35764998 ATTATTATT
1 ATTTTTATT
35765007 TATTGCCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTTTATTATTTTTAAAATTATAT
Found at i:35769825 original size:22 final size:22
Alignment explanation
Indices: 35769795--35769872 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
35769785 TTAAGGAAAA
*
35769795 GAACCGTATTGTAGAATACTGC
1 GAACTGTATTGTAGAATACTGC
* *
35769817 GAACTGTATGTTTA-AA-AATGTC
1 GAACTGTAT-TGTAGAATACTG-C
*
35769839 GCAAACTGTATTGTAGAATACTAC
1 G--AACTGTATTGTAGAATACTGC
*
35769863 GAATTGTATT
1 GAACTGTATT
35769873 CCTCGTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
21 3 0.07
22 20 0.47
23 6 0.14
24 12 0.28
25 2 0.05
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (22 bp):
GAACTGTATTGTAGAATACTGC
Found at i:35769960 original size:39 final size:39
Alignment explanation
Indices: 35769884--35769960 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
35769874 CTCGTAAGTA
*
35769884 AAAGGTTGCGATCATAAATCAGCGAACCATGAGAAAGCT
1 AAAGGTTGCGATCATAAATCAGCGAACCATAAGAAAGCT
* * *
35769923 AAAGGTTGTGAT-AGTAAATCAGCGAACCGTAATAAAGC
1 AAAGGTTGCGATCA-TAAATCAGCGAACCATAAGAAAGC
35769961 CAAATGTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAGGTTGCGATCATAAATCAGCGAACCATAAGAAAGCT
Found at i:35769979 original size:39 final size:39
Alignment explanation
Indices: 35769893--35769995 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
35769883 AAAAGGTTGC
* * * * **
35769893 GATCATAAATCAGCGAACCATGAGAAAGCTAAAGGTTGT
1 GATCGTAAATCAGCGAACCGTAAGAAAGCCAAAGGTCAT
* * *
35769932 GATAGTAAATCAGCGAACCGTAATAAAGCCAAATGTCAT
1 GATCGTAAATCAGCGAACCGTAAGAAAGCCAAAGGTCAT
* * *
35769971 GATCGTAAATTAGTGAACCGCAAGA
1 GATCGTAAATCAGCGAACCGTAAGA
35769996 TTCATTAAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (39 bp):
GATCGTAAATCAGCGAACCGTAAGAAAGCCAAAGGTCAT
Found at i:35770145 original size:93 final size:93
Alignment explanation
Indices: 35769923--35770229 Score: 384
Period size: 93 Copynumber: 3.3 Consensus size: 93
35769913 TGAGAAAGCT
* * * * * * *
35769923 AAAGGTTGTGATAGTAAATCAGCGAACCGTAATAAAGCCAAATGTCATGATCGTAAATTAG-TGA
1 AAAGGTCGTGATCGTAAATCAACGGACCGTAATAAAGCCAAAGGTCATGATCGTAAATCAGCAG-
* * *
35769987 ACCGCAAGATTCATTAAAT-TCGTAAGTA
65 ACCGCAAGATTCGTAAAATCCCGTAAGTA
* * * *
35770015 AAAGGTCGTGATTGTAAATCAATGGATCGTAAGAAAGCCAAAGGTCATGATCGTAAATCAGCAGA
1 AAAGGTCGTGATCGTAAATCAACGGACCGTAATAAAGCCAAAGGTCATGATCGTAAATCAGCAGA
35770080 CCGCAAGATTCGTAAAATCCCGTAAGTA
66 CCGCAAGATTCGTAAAATCCCGTAAGTA
* **
35770108 AAAGGTCGTGATCGTAAATCAACGGACCGTAATAAAGCTAAAGGTTGTGATCGTAAATCAGCAGA
1 AAAGGTCGTGATCGTAAATCAACGGACCGTAATAAAGCCAAAGGTCATGATCGTAAATCAGCAGA
* * *
35770173 CCACGAGATTCGTAAAATCCCATAAGTA
66 CCGCAAGATTCGTAAAATCCCGTAAGTA
* * *
35770201 AAAGGTCATGATCATAAATCAACAGACCG
1 AAAGGTCGTGATCGTAAATCAACGGACCG
35770230 CGAGATTCAT
Statistics
Matches: 187, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
92 69 0.37
93 118 0.63
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (93 bp):
AAAGGTCGTGATCGTAAATCAACGGACCGTAATAAAGCCAAAGGTCATGATCGTAAATCAGCAGA
CCGCAAGATTCGTAAAATCCCGTAAGTA
Found at i:35770206 original size:54 final size:54
Alignment explanation
Indices: 35770147--35770391 Score: 283
Period size: 54 Copynumber: 4.5 Consensus size: 54
35770137 TAATAAAGCT
* * *
35770147 AAAGGTTGTGATCGTAAATCAGCAGACCACGAGATTCGTAAAATCCCATAAGTA
1 AAAGGTTGTGATCATAAATCAGCAGACCGCGAGATTCATAAAATCCCATAAGTA
** * * *
35770201 AAAGGTCATGATCATAAATCAACAGACCGCGAGATTCATAAAATCTCGTAAGTA
1 AAAGGTTGTGATCATAAATCAGCAGACCGCGAGATTCATAAAATCCCATAAGTA
* * *
35770255 AAAGGTTGTGATCATAAATCAGAAGACTGCGAGATTCATTAAATCCCATAAGTA
1 AAAGGTTGTGATCATAAATCAGCAGACCGCGAGATTCATAAAATCCCATAAGTA
* * * * * * ** *
35770309 AAAGGCTGTAATCTTAAATTAGCGGACTGCGAGATTTGTAAAATCCCGTAAGTA
1 AAAGGTTGTGATCATAAATCAGCAGACCGCGAGATTCATAAAATCCCATAAGTA
* * *
35770363 AAAGATCGTGATCATAAATCAGCGGACCG
1 AAAGGTTGTGATCATAAATCAGCAGACCG
35770392 TAAGAAAGCC
Statistics
Matches: 158, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 158 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (54 bp):
AAAGGTTGTGATCATAAATCAGCAGACCGCGAGATTCATAAAATCCCATAAGTA
Found at i:35770497 original size:78 final size:78
Alignment explanation
Indices: 35770396--35770551 Score: 197
Period size: 78 Copynumber: 2.0 Consensus size: 78
35770386 GGACCGTAAG
* * *
35770396 AAAGCCAAAGGTCGTGATCGTAAATTAGCAGATCATGAGATTCGTAAAATCCTATAAGTAAAAGG
1 AAAGCCAAAGGTCGTGATCGTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAGG
*
35770461 TCGTAATCATAAA
66 TCATAATCATAAA
* ** * * *
35770474 AAAGTCAAAGGTCGTGA-CTGTAAATCAGTGGATCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
1 AAAGCCAAAGGTCGTGATC-GTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAG
*
35770538 GTCATAATCGTAAA
65 GTCATAATCATAAA
35770552 TCAACAGACC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
77 1 0.02
78 65 0.98
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (78 bp):
AAAGCCAAAGGTCGTGATCGTAAATCAGCAGATCACGAGATTCGTAAAATCCCATAAGTAAAAGG
TCATAATCATAAA
Found at i:35770702 original size:54 final size:54
Alignment explanation
Indices: 35770606--35770708 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
35770596 AGCGGATCGT
* *
35770606 GAGATTCGTAAAATCCCATATGTAAACAACCGTGATCGTAAATCAACGGGCCAC
1 GAGATTCGTAAAATCCCATATGTAAACAACCGTGACCATAAATCAACGGGCCAC
* ***
35770660 GAGATTCGTAAAATCCCATTTGTAAA-AGGTTGTGACCATAAATCAACGG
1 GAGATTCGTAAAATCCCATATGTAAACA-ACCGTGACCATAAATCAACGG
35770709 ATGGTAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (54 bp):
GAGATTCGTAAAATCCCATATGTAAACAACCGTGACCATAAATCAACGGGCCAC
Found at i:35770868 original size:42 final size:41
Alignment explanation
Indices: 35770713--35770869 Score: 138
Period size: 42 Copynumber: 3.8 Consensus size: 41
35770703 CAACGGATGG
* * * *
35770713 TAAGAAAGCCAAA--GGTTATTATTGTAAATTAGTGGACCA
1 TAAGAAAGCCAAATTGGTTGTGATCGTAAATTAGCGGACCA
* * * *
35770752 TAAGAAAGTCAAATGTGGTTGTGGTCGTAAATCAGCAGACCA
1 TAAGAAAGCCAAAT-TGGTTGTGATCGTAAATTAGCGGACCA
* * * ** *
35770794 TAAAAAAACCAAAGGTGGTCCTGATCATAAATTAGCGGACCA
1 TAAGAAAGCCAAA-TTGGTTGTGATCGTAAATTAGCGGACCA
*
35770836 TAAGAAAGCCGAAATTAGTTGTGATCGTAAATTA
1 TAAGAAAGCC-AAATTGGTTGTGATCGTAAATTA
35770870 AAGGACCGTG
Statistics
Matches: 88, Mismatches: 25, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
39 12 0.14
42 73 0.83
43 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (41 bp):
TAAGAAAGCCAAATTGGTTGTGATCGTAAATTAGCGGACCA
Found at i:35770921 original size:54 final size:54
Alignment explanation
Indices: 35770857--35770961 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
35770847 AAATTAGTTG
* * *
35770857 TGATCGTAAATTAA-AGGACCGTGAGATTCATAAAAT-CTCGTATGTAAAAGGCCA
1 TGATCGTAAATCAACAGG-CCGCGAGATTCATAAAATCCT-GTAAGTAAAAGGCCA
* *
35770911 TGATCGTAAATCAACAGGCTGCGAGATTTATAAAATCCTGTAAGTAAAAGG
1 TGATCGTAAATCAACAGGCCGCGAGATTCATAAAATCCTGTAAGTAAAAGG
35770962 TCGTGATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 39 0.89
55 5 0.11
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (54 bp):
TGATCGTAAATCAACAGGCCGCGAGATTCATAAAATCCTGTAAGTAAAAGGCCA
Found at i:35771137 original size:147 final size:147
Alignment explanation
Indices: 35770879--35771145 Score: 342
Period size: 147 Copynumber: 1.8 Consensus size: 147
35770869 AAAGGACCGT
* * * **
35770879 GAGATTCATAAAATCTCGTATGTAAAAGGCCATGATCGTAAATCAACAGGCTGCGAGATTTATAA
1 GAGATTCATAAAATCCCGTATGTAAAAGGCCATGATCGTAAATCAACAGACCGCGAGATCCATAA
* *** *
35770944 AATCCTGTAAGTAAAAGGTCGTGATAAAAAATCAGTGAATAGTAAGAAAGCCAAAGGTTGTGACC
66 AATCCTGTAAATAAAAGGTCGTGATAAAAAATCAACAAACAGTAAGAAAGCCAAAGGTTGTGACC
35771009 ATAAATCAACAAACTGC
131 ATAAATCAACAAACTGC
* * **
35771026 GAGATTCGTAAAATCCCGTATGTAAAAGGTCATGATCGTAAATCAAC-GAACCGTTAGATCCATA
1 GAGATTCATAAAATCCCGTATGTAAAAGGCCATGATCGTAAATCAACAG-ACCGCGAGATCCATA
* *
35771090 AAAT-CTCGTAAATAAAAGGTCGTGATCATAAATCAACAAACCA-TAAGAAAGCCAAA
65 AAATCCT-GTAAATAAAAGGTCGTGATAAAAAATCAACAAA-CAGTAAGAAAGCCAAA
35771146 AGTAGTTTTG
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
146 3 0.03
147 97 0.96
148 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (147 bp):
GAGATTCATAAAATCCCGTATGTAAAAGGCCATGATCGTAAATCAACAGACCGCGAGATCCATAA
AATCCTGTAAATAAAAGGTCGTGATAAAAAATCAACAAACAGTAAGAAAGCCAAAGGTTGTGACC
ATAAATCAACAAACTGC
Found at i:35771299 original size:42 final size:42
Alignment explanation
Indices: 35771203--35771476 Score: 182
Period size: 42 Copynumber: 6.6 Consensus size: 42
35771193 GTATGTAAAA
* * * *
35771203 GGTCATGATCGTAAATCAGTAGACCGTAAGAAAGTCGAA---
1 GGTCATGATCGTAAATTAGCAGACCATAAGAAAGCCGAAGGT
* *
35771242 AGTCATGATCATAAATTAGCAGACCATAAGAAAGCCGAAGGT
1 GGTCATGATCGTAAATTAGCAGACCATAAGAAAGCCGAAGGT
*
35771284 GGTCATGATCGTAAATT-GACAGACCATAAGAAAGCCGAAGAT
1 GGTCATGATCGTAAATTAG-CAGACCATAAGAAAGCCGAAGGT
* * * ** *
35771326 GGCCATGATCGTAAATTAACAAATTATACA-AAA-CTCAAAGGT
1 GGTCATGATCGTAAATTAGCAGACCATA-AGAAAGC-CGAAGGT
* * * * * * * *
35771368 AGTCGTGGTCGTAAATCAACAGACCATAAAAAAGTCGAAAGT
1 GGTCATGATCGTAAATTAGCAGACCATAAGAAAGCCGAAGGT
* * ** *** * *
35771410 GGTCGTGATCATAAACCAATGGACCATAAGAAAGCTGAAAGT
1 GGTCATGATCGTAAATTAGCAGACCATAAGAAAGCCGAAGGT
* * *
35771452 AGTCGTGATCGTAAAGTAGCAGACC
1 GGTCATGATCGTAAATTAGCAGACC
35771477 GCGAGATTTG
Statistics
Matches: 183, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
39 33 0.18
41 3 0.02
42 146 0.80
43 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (42 bp):
GGTCATGATCGTAAATTAGCAGACCATAAGAAAGCCGAAGGT
Found at i:35771517 original size:54 final size:53
Alignment explanation
Indices: 35771453--35771629 Score: 219
Period size: 54 Copynumber: 3.3 Consensus size: 53
35771443 GCTGAAAGTA
**
35771453 GTCGTGATCGTAAAGTAGCAGACCGCGAGATTTGTAAAATCCCGTCTGTAAAAG
1 GTCGTGATCGTAAA-TAGCAGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
*** * *
35771507 GTCGTGATCGTAAATCAATGGACCACGAGATTTGTAAAATCCCATAAGTAAAAG
1 GTCGTGATCGTAAAT-AGCAGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
* * * **
35771561 GTCGTGATCGTAAATTAGCTGACCGCAATATTCATAAAATCCCGTAAGTAAAAG
1 GTCGTGATCGTAAA-TAGCAGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
35771615 GTCGTGATCGTAAAT
1 GTCGTGATCGTAAAT
35771630 CAACAGATCA
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 102 0.97
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (53 bp):
GTCGTGATCGTAAATAGCAGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAG
Found at i:35771695 original size:654 final size:640
Alignment explanation
Indices: 35770789--35772454 Score: 1743
Period size: 654 Copynumber: 2.6 Consensus size: 640
35770779 TAAATCAGCA
* ** * * ** * **
35770789 GACCATAAAAAAACCAAAGGTGGTCCTGATCATAAATTAGCGGACCATAAGAAAGCCGAAATTAG
1 GACCATAAGAAAGTCAAAGGTAGTCGTGATCATAAACCAGCAG-CCATAAGAAAGCC-AAAAGAG
* * * ** * * ** *
35770854 TTGTGATCGTAAATTAAAGGACCGTGAGATTCATAAAATCTCG-TATGTAAAAGGCCATGATCGT
64 TCGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCGATATAAAAAAGGTCATGATCGT
* * * * * *** *
35770918 AAATCAACAGG-CTGCGAGATTTATAAAATCCTGTAAGTAAAAGGTCGTGATAAAAAATC-AGTG
129 AAATCAA-TGGACCGCAAGATTCATAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAAGAG
* * * * *
35770981 AAT-AGTAAGAAAGCCAAAGGTTGTGACCATAAATCAACAAACTGCGAGATTCGTAAAATCCCGT
193 -ATCA-TAAGAAAGCCAATGGTTGTGACCATAAATCAGCAGACTACGAGATTCGTAAAATCCCAT
* * * * *
35771045 ATGTAAAAGGTCATGATCGTAAATCAACGAACCGTTAGATCCATAAAATCTCGTAAATAAAAGGT
256 AAGTAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAAAATCTCATAAGTAAAAGGT
* * ** *
35771110 CGTGATCATAAATCAACAAACCATAAGAAAGCCAAAAGTAGTTTTGATTGTAAATTAGTAGACCG
321 CGTGATCATAAATCAGCAGACCATAAGAAAGCCAAAAGTAGTCGTGATTGTAAATCAGTAGACCG
* * * *
35771175 TAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATCAGTAGACCGTAAGAAAGTCG
386 CAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATCAGCAAACCGTAAGAAAGCCG
* * *
35771240 AAAGTCATGATCATAAATTAGCAGACCATAAGAAAGCCGAAGGTGGTCATGATCGTAAATTGACA
451 AAAGTCATGATCATAAATCAGCAGACCATAAAAAAGCCGAAGGTAGTCATGATCGTAAATT-ACA
* *
35771305 GACCATAAGAAAGCCGAAGATGGCCATGATCGTAAATTAACAAATTATACA-AAACTCAAAGGTA
515 GACCATAAGAAAGCCGAAGATGGCCATGATCGTAAATCAACAAACTATA-AGAAACTCAAAGGTA
* *
35771369 GTCGTGGTCGTAAATCAACAG-ACCATAAAAAAGTCGAAAGTGGTCGTGATCATAAACCAATG
579 GTCGTGATCGTAAATCAA-AGTACCATAAAAAAGCCGAAAGTGGTCGTGATCATAAACCAATG
* * ** **
35771431 GACCATAAGAAAGCTGAAA-GTAGTCGTGATCGTAAAGTAGCAGACCGCGAGATTTGTAAAATCC
1 GACCATAAGAAAG-TCAAAGGTAGTCGTGATCATAAACCAGCAG--C-C---ATAAG--AAA---
* * * *
35771495 CGTCTGTAAAAG-GTCGTGATCGTAAATCAATGGACCACGAGATTTGTAAAATCCC-ATA-AGTA
54 -G-C--CAAAAGAGTCGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCGATATA-AA
* * * *
35771557 AAAGGTCGTGATCGTAAATTAGCT-GACCGCAATATTCATAAAATCCCGTAAGTAAAAGGTCGTG
114 AAAGGTCATGATCGTAAATCA-ATGGACCGCAAGATTCATAAAATCCCGTAAGTAAAAGGTCGTG
* ** *
35771621 ATCGTAAATCAACAGATCATAAGAAAGCCAATGGTTGTGACTGTAAATCAGCGGACTACGAGATT
178 ATCGTAAATCAAGAGATCATAAGAAAGCCAATGGTTGTGACCATAAATCAGCAGACTACGAGATT
* * * * * * *
35771686 CGTAAAATCCCATAAGTAAAATGTCGTGATCGTAAATTAATGGACCGTGAGATCCATAAAACCCC
243 CGTAAAATCCCATAAGTAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAAAATCTC
* * **
35771751 ATAAGTAAAAAGGTTGTGATCATAAATCAGCGGACCATAAGAAAGTGAAAAGTAGTCGTGATTGT
308 ATAAGT-AAAAGGTCGTGATCATAAATCAGCAGACCATAAGAAAGCCAAAAGTAGTCGTGATTGT
* * *
35771816 AAATCAGTGGACCGCAAGATTTGTAAAATCTTGTATGTAAAAGGTCGTGATCGTAAATCAGCAAA
372 AAATCAGTAGACCGCAAGATTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATCAGCAAA
* * * *
35771881 CTGTAAGAAAGCCGAAGGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCGAAGGTAGTCATG
437 CCGTAAGAAAGCCGAAAGTCATGATCATAAATCAGCAGACCATAAAAAAGCCGAAGGTAGTCATG
** * * * * * **
35771946 ATCGTAAATTATGGGCCATAAGAAAGTCGAAGGTGGTCGTGATCGTAAATCAGTAAACTATAAGA
502 ATCGTAAATTACAGACCATAAGAAAGCCGAAGATGGCCATGATCGTAAATCAACAAACTATAAGA
* * * * * * * *
35772011 AAGTCAAAGGTGGTCGTGATCGTAAATTAATGTGCCATAAGAAAGCCGAAGGTGGTCGTGATCGT
567 AACTCAAAGGTAGTCGTGATCGTAAATCAAAGTACCATAAAAAAGCCGAAAGTGGTCGTGATCAT
* *
35772076 AAATCAGTG
632 AAACCAATG
* * *
35772085 GACTATAAGAAAGTCAAAGGTCGTCGTGATCATAAACCAGTAGCCATAAGAAAGCCAAAAGTAGT
1 GACCATAAGAAAGTCAAAGGTAGTCGTGATCATAAACCAGCAGCCATAAGAAAGCCAAAAG-AGT
* **
35772150 CGTGATCGTAAATCAGCGGATTACGAGATTTATAAAATCCCGTATATAAAAAAGGTCATGATCGT
65 CGTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCG-ATATAAAAAAGGTCATGATCGT
** ** * * * * *
35772215 AAATCAATGGACCGTGAGATTTGTAAAATCCCATAAGTAAAAAGTTGTGATCGTAAATTAAGAAA
129 AAATCAATGGACCGCAAGATTCATAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAAGAGA
* * * * ** *
35772280 TCGTAAGAAAACCAATGGTTTTGACCATAAATCAGCAGACCACGAGATTTATAAAATCACATAAG
194 TCATAAGAAAGCCAATGGTTGTGACCATAAATCAGCAGACTACGAGATTCGTAAAATCCCATAAG
* * *
35772345 TAAAGGGTTGTGATCGTAAATCAACGAACCGTAAGATTCATAAAATCTCATAAGTAAAAGGTCGT
259 TAAAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAAAATCTCATAAGTAAAAGGTCGT
* * * *
35772410 GATCGTAAATCAGTAGACTATAAGAAAGCCGAAAGTAGTCGTGAT
324 GATCATAAATCAGCAGACCATAAGAAAGCCAAAAGTAGTCGTGAT
35772455 CGTATGTGCA
Statistics
Matches: 831, Mismatches: 162, Indels: 62
0.79 0.15 0.06
Matches are distributed among these distances:
639 5 0.01
641 39 0.05
642 79 0.10
643 172 0.21
644 2 0.00
646 3 0.00
647 3 0.00
648 3 0.00
649 3 0.00
651 1 0.00
652 1 0.00
653 8 0.01
654 331 0.40
655 181 0.22
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (640 bp):
GACCATAAGAAAGTCAAAGGTAGTCGTGATCATAAACCAGCAGCCATAAGAAAGCCAAAAGAGTC
GTGATCGTAAATCAACGGACCACGAGATTTATAAAATCCCGATATAAAAAAGGTCATGATCGTAA
ATCAATGGACCGCAAGATTCATAAAATCCCGTAAGTAAAAGGTCGTGATCGTAAATCAAGAGATC
ATAAGAAAGCCAATGGTTGTGACCATAAATCAGCAGACTACGAGATTCGTAAAATCCCATAAGTA
AAAGGTCGTGATCGTAAATCAACGAACCGTAAGATCCATAAAATCTCATAAGTAAAAGGTCGTGA
TCATAAATCAGCAGACCATAAGAAAGCCAAAAGTAGTCGTGATTGTAAATCAGTAGACCGCAAGA
TTTGTAAAATCATGTATGTAAAAGGTCATGATCGTAAATCAGCAAACCGTAAGAAAGCCGAAAGT
CATGATCATAAATCAGCAGACCATAAAAAAGCCGAAGGTAGTCATGATCGTAAATTACAGACCAT
AAGAAAGCCGAAGATGGCCATGATCGTAAATCAACAAACTATAAGAAACTCAAAGGTAGTCGTGA
TCGTAAATCAAAGTACCATAAAAAAGCCGAAAGTGGTCGTGATCATAAACCAATG
Found at i:35771936 original size:39 final size:39
Alignment explanation
Indices: 35771856--35771938 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
35771846 TTGTATGTAA
* ** *
35771856 AAGGTCGTGATCGTAAATCAGCAAACTGTAAGAAAGCCG
1 AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
* *
35771895 AAGGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCG
1 AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
35771934 AAGGT
1 AAGGT
35771939 AGTCATGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (39 bp):
AAGGTCGTGATCATAAATCAGCAAACCATAAAAAAGCCG
Found at i:35772021 original size:42 final size:42
Alignment explanation
Indices: 35771858--35772165 Score: 275
Period size: 42 Copynumber: 7.5 Consensus size: 42
35771848 GTATGTAAAA
* ** *
35771858 GGTCGTGATCGTAAATCAGCAAACTGTAAGAAAGCCGAA---
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
* * * *
35771897 GGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCGAAGGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
* * * ***
35771939 AGTCATGATCGTAAATTA-TGGGCCATAAGAAAGTCGAAGGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
* *
35771980 GGTCGTGATCGTAAATCAGTAAACTATAAGAAAGTCAAAGGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
* * *** *
35772022 GGTCGTGATCGTAAATTAATGTGCCATAAGAAAGCCGAAGGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
** * *
35772064 GGTCGTGATCGTAAATCAGTGGACTATAAGAAAGTCAAAGGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
* * * * * * *
35772106 CGTCGTGATCATAAACCAGT-AGCCATAAGAAAGCCAAAAGT
1 GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
*
35772147 AGTCGTGATCGTAAATCAG
1 GGTCGTGATCGTAAATCAG
35772166 CGGATTACGA
Statistics
Matches: 217, Mismatches: 48, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
39 33 0.15
41 66 0.30
42 118 0.54
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (42 bp):
GGTCGTGATCGTAAATCAGTAAACCATAAGAAAGTCGAAGGT
Found at i:35772076 original size:84 final size:83
Alignment explanation
Indices: 35771884--35772165 Score: 356
Period size: 83 Copynumber: 3.4 Consensus size: 83
35771874 CAGCAAACTG
* * * * * *
35771884 TAAGAAAGCCGAA---GGTCGTGATCATAAATCAGCAGACCATAAAAAAGTCGAAGGTAGTCATG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGTAGTCGTG
*
35771946 ATCGTAAATTATGGGCCA
66 ATCGTAAATTATGTGCCA
* * *
35771964 TAAGAAAGTCGAAGGTGGTCGTGATCGTAAATCAGTAAACTATAAGAAAGTCAAAGGTGGTCGTG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGTAGTCGTG
35772029 ATCGTAAATTAATGTGCCA
66 ATCGTAAATT-ATGTGCCA
* *
35772048 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGTGGACTATAAGAAAGTCAAAGGTCGTCGTG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGTAGTCGTG
* **
35772113 ATCATAAACCA-GTAGCCA
66 ATCGTAAATTATGT-GCCA
* * *
35772131 TAAGAAAGCCAAAAGTAGTCGTGATCGTAAATCAG
1 TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAG
35772166 CGGATTACGA
Statistics
Matches: 177, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
80 12 0.07
82 2 0.01
83 88 0.50
84 75 0.42
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (83 bp):
TAAGAAAGCCGAAGGTGGTCGTGATCGTAAATCAGTAGACTATAAGAAAGTCAAAGGTAGTCGTG
ATCGTAAATTATGTGCCA
Found at i:35772366 original size:54 final size:54
Alignment explanation
Indices: 35772307--35772427 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 54
35772297 GTTTTGACCA
* * *
35772307 TAAATCAGCAGACCACG-AGATTTATAAAATCACATAAGTAAAGGGTTGTGATCG
1 TAAATCAGCAGACC-CGAAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
* * *
35772361 TAAATCAAC-GAACCGTAAGATTCATAAAATCTCATAAGTAAAAGGTCGTGATCG
1 TAAATCAGCAGACCCG-AAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
*
35772415 TAAATCAGTAGAC
1 TAAATCAGCAGAC
35772428 TATAAGAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.04
53 3 0.05
54 48 0.87
55 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (54 bp):
TAAATCAGCAGACCCGAAGATTCATAAAATCACATAAGTAAAAGGTCGTGATCG
Found at i:35772591 original size:77 final size:77
Alignment explanation
Indices: 35772490--35772664 Score: 327
Period size: 77 Copynumber: 2.3 Consensus size: 77
35772480 CATGGAGTTA
35772490 TACCC-AAACAACAT-AATGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAA
1 TACCCTAAACAACATGAA-GGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAA
35772553 GCTCCAACCATGT
65 GCTCCAACCATGT
35772566 TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
1 TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
35772631 CTCCAACCATGT
66 CTCCAACCATGT
35772643 TACCCTAAACAACATGAAGGAA
1 TACCCTAAACAACATGAAGGAA
35772665 GTCAAAGCTC
Statistics
Matches: 97, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
76 5 0.05
77 90 0.93
78 2 0.02
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (77 bp):
TACCCTAAACAACATGAAGGAAATTGAATTTCATATAAATAAAACTAACATAAAAGAAGCCTAAG
CTCCAACCATGT
Found at i:35779021 original size:24 final size:24
Alignment explanation
Indices: 35778988--35779039 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35778978 TTTCTAGGTC
* *
35778988 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACA
*
35779012 AAATATATTATACTAATAAATACA
1 AAATAAATTATACTAATAAATACA
35779036 AAAT
1 AAAT
35779040 CTTTTAAAAA
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:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:35780223 original size:29 final size:28
Alignment explanation
Indices: 35780181--35780249 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
35780171 ATAAAAAATA
*
35780181 ACCAAAATGT-TATAACTTTTTTTTATTT
1 ACCAAAATATATATAA-TTTTTTTTATTT
35780209 ACCAAAATATATATAATTTTTTTTATTT
1 ACCAAAATATATATAATTTTTTTTATTT
35780237 ACCAAAATATATA
1 ACCAAAATATATA
35780250 AACAAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 34 0.87
29 5 0.13
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (28 bp):
ACCAAAATATATATAATTTTTTTTATTT
Found at i:35780839 original size:36 final size:35
Alignment explanation
Indices: 35780768--35780844 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
35780758 AGTTAGTTAG
* *
35780768 TTAGT-TATTATTTTTAGTAAAATTAATAATTTTA
1 TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
*
35780802 TT-GTGTATTATTTTGAGTATAAAATTATTAATATTA
1 TTAGTGTATTATTTTGAG--TAAAATTAATAATATTA
35780838 TTAGTGT
1 TTAGTGT
35780845 GTTAGTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 13 0.36
36 17 0.47
37 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (35 bp):
TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
Found at i:35781493 original size:18 final size:18
Alignment explanation
Indices: 35781470--35781508 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
35781460 TTGACATGGT
*
35781470 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
35781488 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
35781506 TGG
1 TGG
35781509 CAGCGATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.51, T:0.15
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:35781514 original size:18 final size:18
Alignment explanation
Indices: 35781477--35781514 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35781467 GGTTGGTGGT
**
35781477 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGGCAGC
35781495 GAAGAAGAAGGTGGCAGC
1 GAAGAAGAAGGTGGCAGC
35781513 GA
1 GA
35781515 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.47, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAGGTGGCAGC
Found at i:35785987 original size:15 final size:15
Alignment explanation
Indices: 35785967--35785998 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35785957 AAAAAATATC
35785967 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
35785982 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
35785997 AT
1 AT
35785999 TAGCCGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTTCTAAATTT
Found at i:35786839 original size:25 final size:26
Alignment explanation
Indices: 35786791--35786860 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
35786781 ATTACCTCTT
35786791 CTTTTCTT-TTTTTTTCCTTCCTTC-C
1 CTTTTCTTCTTTTTTT-CTTCCTTCTC
35786816 CTTTTCTTCTTTTTTT-TTCTCTTCTC
1 CTTTTCTTCTTTTTTTCTTC-CTTCTC
* * *
35786842 CTTTCCTTCCTTCTTTCTT
1 CTTTTCTTCTTTTTTTCTT
35786861 TCTTTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.08
25 12 0.32
26 21 0.55
27 2 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (26 bp):
CTTTTCTTCTTTTTTTCTTCCTTCTC
Found at i:35786848 original size:40 final size:37
Alignment explanation
Indices: 35786787--35786977 Score: 161
Period size: 36 Copynumber: 5.2 Consensus size: 37
35786777 AAAAATTACC
*
35786787 TCTTCTTTTCTTTTT-T-TT-TCC-TTCCTTCCCT-TT
1 TCTTCTTTT-TTTTTCTCTTCTCCTTTCCTTCCTTCTT
35786820 TCTTCTTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTT
1 TCTTCTTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTT
*
35786857 TCTTTCTTTTTTTCTTCTCCTTC-CCTTTTCTT-CTTCTT
1 TC-TTCTTTTTTT-TTCT-CTTCTCCTTTCCTTCCTTCTT
* *
35786895 TCTT-TCTTTTTTTCTCTTCTCCTTCCCTT--TTCTT
1 TCTTCTTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTT
* * *
35786929 TCCTTCTTTTTCTTTCT-TTCCTCTCATTCATTCCTTTCTT
1 T-CTTCTTTTTTTTTCTCTT-CTC-CTTTCCTTCC-TTCTT
35786969 TCTTTCTTT
1 TC-TTCTTT
35786978 CCCTCTCCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 27
0.78 0.06 0.16
Matches are distributed among these distances:
32 5 0.04
33 10 0.08
34 12 0.09
35 19 0.15
36 27 0.21
37 11 0.08
38 18 0.14
39 13 0.10
40 16 0.12
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (37 bp):
TCTTCTTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTT
Found at i:35786859 original size:4 final size:4
Alignment explanation
Indices: 35786818--35786978 Score: 63
Period size: 4 Copynumber: 41.0 Consensus size: 4
35786808 TTCCTTCCCT
* * *
35786818 TTTC -TTC TTT- TTT- TTTC TCTTC -TCC TTTC CTTC CTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
* * ** *
35786863 TTTT TTTC TTCTC CTTC CCT- TTTC -TTC -TTC TTTC TTTC TTTT TTTC
1 TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* * * *
35786909 TCTTC -TCC TTCCC TTTTC TTTC CTTC -TT- TTTC TTTC TTTCC TCTC
1 T-TTC TTTC TT-TC -TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC
* *
35786954 ATTC ATTCC TTTC TTTC TTTC TTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC
35786979 CCTCTCCTTC
Statistics
Matches: 121, Mismatches: 21, Indels: 30
0.70 0.12 0.17
Matches are distributed among these distances:
3 24 0.20
4 78 0.64
5 17 0.14
6 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:35786867 original size:34 final size:34
Alignment explanation
Indices: 35786793--35786973 Score: 133
Period size: 34 Copynumber: 5.2 Consensus size: 34
35786783 TACCTCTTCT
*
35786793 TTTCTTTTT-T-TT-TCC-TTCCTTCCCTTTTCTTC
1 TTTCTTTTTCTCTTCTCCTTTCCTT-CCTTCT-TTC
*
35786825 TTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTTC
1 TTTCTTTTTCTCTTCTCCTTTCCTTCCTTCTTTC
* *
35786859 TTTCTTTTTTTCTTCTCCTTCCCTTTTCTTCTTCTTTC
1 TTTCTTTTTCTCTTCTCCTTTCC--TTC--CTTCTTTC
*
35786897 TTTCTTTTTTTCTCTTCTCCTTCCCTT--TTCTTTC
1 TTTC--TTTTTCTCTTCTCCTTTCCTTCCTTCTTTC
* * * *
35786931 CTTCTTTTTCT-TTCTTTCCTCTCATTCATTCCTTTC
1 TTTCTTTTTCTCTTC--TCCTTTCCTTCCTT-CTTTC
35786967 TTTCTTT
1 TTTCTTT
35786974 CTTTCCCTCT
Statistics
Matches: 123, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
31 3 0.02
32 15 0.12
33 8 0.07
34 35 0.28
35 10 0.08
36 20 0.16
38 14 0.11
40 18 0.15
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.67
Consensus pattern (34 bp):
TTTCTTTTTCTCTTCTCCTTTCCTTCCTTCTTTC
Found at i:35786873 original size:19 final size:19
Alignment explanation
Indices: 35786851--35786909 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
35786841 CCTTTCCTTC
35786851 CTTCTTTCTTTCTTTTTTT
1 CTTCTTTCTTTCTTTTTTT
* * *
35786870 CTTC-TCCTTCCCTTTTCTT
1 CTTCTTTCTT-TCTTTTTTT
35786889 CTTCTTTCTTTCTTTTTTT
1 CTTCTTTCTTTCTTTTTTT
35786908 CT
1 CT
35786910 CTTCTCCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
CTTCTTTCTTTCTTTTTTT
Found at i:35787058 original size:27 final size:27
Alignment explanation
Indices: 35787020--35787089 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
35787010 CCCTAATATA
35787020 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCT-TTGGCAC
* *
35787047 CATTGGTGCCGCTAATGGCTTTGGGAC
1 CATTGGTGCCGCCAATGGCTTTGGCAC
* *
35787074 CTTTGGTGCCGTCAAT
1 CATTGGTGCCGCCAAT
35787090 CCCATTGGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGCAC
Found at i:35801569 original size:49 final size:49
Alignment explanation
Indices: 35801497--35801595 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
35801487 TGACAAAAGA
35801497 GGTAAGTTTCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
1 GGTAAGTTTCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
35801546 GGTAAGTTTCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
1 GGTAAGTTTCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
35801595 G
1 G
35801596 TGAATGAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (49 bp):
GGTAAGTTTCATACTAACCCTACTTGTATTTCAACAGATTGAATATGTT
Found at i:35809239 original size:6 final size:6
Alignment explanation
Indices: 35809210--35809255 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
35809200 AAAGAAGATT
*
35809210 AATAAA AATTAAA TAA-ACA AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AA-TAAA -AATAAA AATAAA AATAAA AATAAA AATAAA AAT
35809256 GAAACAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 2 0.06
6 27 0.77
7 4 0.11
8 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:35810459 original size:3 final size:3
Alignment explanation
Indices: 35810451--35810493 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
35810441 ATCTATCCTT
*
35810451 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTT TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35810494 TAACTAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:35816295 original size:31 final size:32
Alignment explanation
Indices: 35816250--35816312 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
35816240 AGATAATTTT
35816250 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
35816282 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
35816313 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:35816619 original size:3 final size:3
Alignment explanation
Indices: 35816611--35816636 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35816601 ATCTATCCTT
35816611 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
35816637 TAACTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35826937 original size:22 final size:22
Alignment explanation
Indices: 35826912--35827025 Score: 65
Period size: 22 Copynumber: 5.2 Consensus size: 22
35826902 TTCTTATTCC
35826912 TAATTTAAAACACGTTAAATTA
1 TAATTTAAAACACGTTAAATTA
** * * *
35826934 TAATACAATATACATG-CATATT-
1 TAATTTAA-A-ACACGTTAAATTA
*
35826956 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACGTTAAATTA
** * *
35826978 TAATACAATATACATG-TATATT-
1 TAATTTAA-A-ACACGTTAAATTA
*
35827000 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACGTTAAATTA
35827022 TAAT
1 TAAT
35827026 ACAATATACA
Statistics
Matches: 63, Mismatches: 21, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
20 6 0.10
21 11 0.17
22 28 0.44
23 11 0.17
24 7 0.11
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (22 bp):
TAATTTAAAACACGTTAAATTA
Found at i:35826962 original size:44 final size:44
Alignment explanation
Indices: 35826912--35827148 Score: 386
Period size: 44 Copynumber: 5.4 Consensus size: 44
35826902 TTCTTATTCC
* *
35826912 TAATTTAAAACACGTTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
**
35826956 TAATTTAAAACACATTAAATTATAATACAATATACATGTATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
35827000 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
35827044 TGAA-TTAAAGCACATTAAATTATAATACAATATACATACATGTT
1 T-AATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
35827088 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
35827132 TATTTTAAAACACATTA
1 TAATTTAAAACACATTA
35827149 TATATATTAA
Statistics
Matches: 182, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
43 1 0.01
44 179 0.98
45 2 0.01
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:35827146 original size:22 final size:22
Alignment explanation
Indices: 35827077--35827146 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
35827067 AATACAATAT
*
35827077 ACATACATGTTTATTTTAAAAC
1 ACATACATATTTATTTTAAAAC
** *
35827099 ACATTA-A-A-TTATAATACAATAT
1 ACA-TACATATTTATTTTA-AA-AC
35827121 ACATACATATTTATTTTAAAAC
1 ACATACATATTTATTTTAAAAC
35827143 ACAT
1 ACAT
35827147 TATATATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
20 6 0.17
21 4 0.11
22 14 0.40
23 5 0.14
24 6 0.17
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (22 bp):
ACATACATATTTATTTTAAAAC
Found at i:35827347 original size:36 final size:37
Alignment explanation
Indices: 35827306--35827387 Score: 107
Period size: 35 Copynumber: 2.3 Consensus size: 37
35827296 CTTTTAATGC
* *
35827306 CGGCACCAAGGCCTGCCAGAGATGGTCTTACATT-G-
1 CGGCACCAAGGCCTGCCACAGATGGCCTTACATTAGT
*
35827341 CTGGCACTAA-GCCTGCCACAGATGGCCTTACATTAGT
1 C-GGCACCAAGGCCTGCCACAGATGGCCTTACATTAGT
35827378 CGGCACCAAG
1 CGGCACCAAG
35827388 CTGAAGCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 23 0.59
36 15 0.38
37 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (37 bp):
CGGCACCAAGGCCTGCCACAGATGGCCTTACATTAGT
Found at i:35827609 original size:27 final size:24
Alignment explanation
Indices: 35827564--35827646 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 24
35827554 ACGTAAATTA
35827564 AAATGGAAAAAAGATAATTTAAATG
1 AAATGGAAAAAA-ATAATTTAAATG
35827589 AAATGAGAAAAAAATTAAATTTAAATGG
1 AAATG-GAAAAAAA-T-AATTTAAAT-G
*
35827617 AAA---AAAAAGATAATTTAAATG
1 AAATGGAAAAAAATAATTTAAATG
35827638 AAATGGAAA
1 AAATGGAAA
35827647 TGAAATGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
21 4 0.08
22 9 0.18
23 1 0.02
24 9 0.18
25 6 0.12
26 8 0.16
27 9 0.18
28 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (24 bp):
AAATGGAAAAAAATAATTTAAATG
Found at i:35827905 original size:21 final size:21
Alignment explanation
Indices: 35827881--35827920 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35827871 TTTAAATTGA
*
35827881 GAAAAAATTTAAATAAAATAT
1 GAAAAAATGTAAATAAAATAT
*
35827902 GAAAAACTGTAAATAAAAT
1 GAAAAAATGTAAATAAAAT
35827921 GTAATTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
GAAAAAATGTAAATAAAATAT
Found at i:35827991 original size:15 final size:15
Alignment explanation
Indices: 35827959--35828003 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
35827949 AAAAAATATG
*
35827959 AAATGAATTGAAAAAA
1 AAATAAATTG-AAAAA
*
35827975 AAATTGAATTGAAAAA
1 AAA-TAAATTGAAAAA
35827991 AAATAAATTGAAA
1 AAATAAATTGAAA
35828004 TGAGACTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (15 bp):
AAATAAATTGAAAAA
Found at i:35828098 original size:23 final size:23
Alignment explanation
Indices: 35828072--35828152 Score: 83
Period size: 23 Copynumber: 3.3 Consensus size: 23
35828062 AAAACAATTA
35828072 ATGAAATGTAATTTGTAATGAAT
1 ATGAAATGTAATTTGTAATGAAT
* *
35828095 ATGAAATGAAATGTT-AAATGAAT
1 ATGAAATGTAAT-TTGTAATGAAT
*
35828118 ATGAAATGAAATGAATTTGTAATGATT
1 ATGAAATG---T-AATTTGTAATGAAT
35828145 ATGAAATG
1 ATGAAATG
35828153 GAATGAAAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 26 0.55
24 2 0.04
26 2 0.04
27 17 0.36
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (23 bp):
ATGAAATGTAATTTGTAATGAAT
Found at i:35828115 original size:12 final size:10
Alignment explanation
Indices: 35828088--35828160 Score: 56
Period size: 11 Copynumber: 6.7 Consensus size: 10
35828078 TGTAATTTGT
35828088 AATGAATATGA
1 AATGAA-ATGA
35828099 AATGAAATGTTA
1 AATGAAATG--A
35828111 AATGAATATGA
1 AATGAA-ATGA
35828122 AATGAAATGA
1 AATGAAATGA
* *
35828132 ATTTGTAATGA
1 A-ATGAAATGA
* *
35828143 TTATGAAATGG
1 -AATGAAATGA
35828154 AATGAAA
1 AATGAAA
35828161 GCTTAAATGG
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 14 0.28
11 26 0.52
12 7 0.14
13 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (10 bp):
AATGAAATGA
Found at i:35828315 original size:6 final size:6
Alignment explanation
Indices: 35828300--35828333 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
35828290 AAGATCATTT
35828300 AAAT-G AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
35828334 AAAAAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:35831319 original size:90 final size:90
Alignment explanation
Indices: 35830881--35831297 Score: 624
Period size: 90 Copynumber: 4.6 Consensus size: 90
35830871 ATGCTGGAAT
* * * * * * *
35830881 ATTAATACACAAAAATATAAAATTAAAAC-AAAAATAATACACACTAAATTAAATTTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
35830945 AACAAACTACAAACAGATGGGTAAA
66 AACAAACTACAAACAGATGGGTAAA
* *
35830970 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACCCCC
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
*
35831035 AACAAACTACAAACGGATGGGTAAA
66 AACAAACTACAAACAGATGGGTAAA
* * * *
35831060 ATTAGA-GCACGAAAATTTTAAATTTAAACTATATATAACACAGACTAAATTAAATTTAAACACC
1 ATTA-ATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACC
35831124 CAACAAACTACAAACAGATGGGTAAA
65 CAACAAACTACAAACAGATGGGTAAA
* * *
35831150 ATTAGA-GCACGAAAATTTTAAATTCAAACTATATATAACACAGACTAAATTAAATTTAAACACC
1 ATTA-ATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACC
35831214 CAACAAACTACAAACAGATGGGTAAA
65 CAACAAACTACAAACAGATGGGTAAA
* *
35831240 ATTAATACATGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTA
1 ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTA
35831298 CAGATACAAA
Statistics
Matches: 302, Mismatches: 23, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
89 26 0.09
90 275 0.91
91 1 0.00
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (90 bp):
ATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATGGGTAAA
Found at i:35831387 original size:180 final size:179
Alignment explanation
Indices: 35830914--35831357 Score: 486
Period size: 180 Copynumber: 2.5 Consensus size: 179
35830904 TAAAACAAAA
* * * * * *
35830914 ATAATACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTA-ATAC
1 ATAACACAGACTAAATTAAATTTAAACACACAAAAAAATACAAACA-ATGGCTAAAATTAGA-AC
** * * * * *
35830978 ACGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACCCCCAACAAACT
64 ACGAAAATTAAAAATTCAAACTATAAATAACACAGACTAAATTAAATTTAAACACCCAACAAACT
* * * *
35831043 ACAAACGGATGGGTAAAATTAGAGCACGAAAATTTTAAATTTAAACTATAT
129 ACAAACAGATGGGTAAAATTAGAACACGAAAATTTTAAATTCAAACTACAT
* * * * *
35831094 ATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAGAGCA
1 ATAACACAGACTAAATTAAATTTAAACACACAAAAAAATACAAACA-ATGGCTAAAATTAGAACA
** *
35831159 CGAAAATTTTAAATTCAAACTATATATAACACAGACTAAATTAAATTTAAACACCCAACAAACTA
65 CGAAAATTAAAAATTCAAACTATAAATAACACAGACTAAATTAAATTTAAACACCCAACAAACTA
*
35831224 CAAACAGATGGGTAAAATTA-ATACATGAAAATTTTAAATTCAAACTACAT
130 CAAACAGATGGGTAAAATTAGA-ACACGAAAATTTTAAATTCAAACTACAT
* * * * * *
35831274 ATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAAAC-AT-TCTAAGAAATTA-ATA
1 ATAACACAGACTAAATTAAATTTAAACACACAAAAAAATACAAACAATGGCT-A-AAATTAGA-A
35831336 CACGAAAATATAAAAATT-AAAC
63 CACGAAAAT-TAAAAATTCAAAC
35831358 CTTAAACCCT
Statistics
Matches: 233, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
177 1 0.00
178 4 0.02
179 20 0.09
180 207 0.89
181 1 0.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (179 bp):
ATAACACAGACTAAATTAAATTTAAACACACAAAAAAATACAAACAATGGCTAAAATTAGAACAC
GAAAATTAAAAATTCAAACTATAAATAACACAGACTAAATTAAATTTAAACACCCAACAAACTAC
AAACAGATGGGTAAAATTAGAACACGAAAATTTTAAATTCAAACTACAT
Found at i:35831408 original size:270 final size:269
Alignment explanation
Indices: 35830914--35831409 Score: 653
Period size: 270 Copynumber: 1.8 Consensus size: 269
35830904 TAAAACAAAA
*
35830914 ATAATACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
1 ATAACACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
* * * *
35830979 CGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACCCCCAACAAACTA
66 CGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACACAAAAAAATA
* * * * * *
35831044 CAAACGGATGGGTAAAATTAGAGCACGAAAATTTTAAATTTAAACTATATATAACACAGACTAAA
131 CAAAC-GATGGCTAAAATTAGAACACGAAAATATAAAAATTAAACTATAAATAACACAGACTAAA
* * *
35831109 TTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAGAGCACGAAAATTTTAAATT
195 TTAAATTTAAACACACAAAAAAATACAAACAGATGGGTAAAATTAGAGCACGAAAATTTTAAATT
35831174 CAAACTATAT
260 CAAACTATAT
*
35831184 ATAACACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
1 ATAACACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
* * * *
35831249 TGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTACAGATACAAAAAAATA
66 CGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACACAAAAAAATA
*
35831314 CAAAC-AT-TCTAAGAAATTA-ATACACGAAAATATAAAAATTAAACCT-TAAACCCTAA-ACA-
131 CAAACGATGGCT-A-AAATTAGA-ACACGAAAATATAAAAATTAAA-CTATAAA---TAACACAG
* * * * *
35831373 ACTACATTAAATTTACATATATAAAAAAATACAAACA
189 ACTAAATTAAATTTAAACACACAAAAAAATACAAACA
35831410 TTCTAAAGAA
Statistics
Matches: 194, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
267 1 0.01
268 4 0.02
269 27 0.14
270 156 0.80
271 3 0.02
272 3 0.02
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (269 bp):
ATAACACACACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
CGAAAATTTTAAATTCAAACTACATATAATACGGACTAAATTAAATTTAAACACACAAAAAAATA
CAAACGATGGCTAAAATTAGAACACGAAAATATAAAAATTAAACTATAAATAACACAGACTAAAT
TAAATTTAAACACACAAAAAAATACAAACAGATGGGTAAAATTAGAGCACGAAAATTTTAAATTC
AAACTATAT
Found at i:35832097 original size:110 final size:109
Alignment explanation
Indices: 35831961--35832172 Score: 345
Period size: 111 Copynumber: 1.9 Consensus size: 109
35831951 AAAGTTGGTG
* * *
35831961 CCGGCCATCAGTGTCTCAAAGT-AAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTTGTGTCG
1 CCGGCCATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
35832025 GCCATCTACTGGCCAGCATCCAAATCTTTTTTTAAATGACATTGTA
66 GCCATCTACTGGCCAGCA-CCAAAT-TTTTTTTAAATGACATTGTA
*
35832071 CCGGCGATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
1 CCGGCCATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
* *
35832136 GTCATCTACTGGCCAGCACCCAATTTTTTTTAAATGA
66 GCCATCTACTGGCCAGCACCAAATTTTTTTTAAATGA
35832173 TTCTGGTGCC
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
109 13 0.14
110 25 0.26
111 57 0.60
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (109 bp):
CCGGCCATCAGTGTCCCAAAGTAAAAAAAAAGTGCATTGGGACCCGAAAAATGTACTTGGTGCCG
GCCATCTACTGGCCAGCACCAAATTTTTTTTAAATGACATTGTA
Found at i:35835722 original size:20 final size:20
Alignment explanation
Indices: 35835695--35835771 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
35835685 TAGCAATTAA
35835695 TTAT-ATTTTAAAATAATTT
1 TTATAATTTTAAAATAATTT
*
35835714 TTATAATTTTTAAATAA-TT
1 TTATAATTTTAAAATAATTT
* *
35835733 TTAAATATTTTAAAATATTTT
1 TTATA-ATTTTAAAATAATTT
*
35835754 TTCATGAATTTTTAAATA
1 TT-AT-AATTTTAAAATA
35835772 TATTAAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 10 0.21
20 21 0.45
21 4 0.09
22 11 0.23
23 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
TTATAATTTTAAAATAATTT
Found at i:35835734 original size:10 final size:10
Alignment explanation
Indices: 35835699--35835782 Score: 57
Period size: 10 Copynumber: 8.2 Consensus size: 10
35835689 AATTAATTAT
35835699 ATTTTAAAATA
1 ATTTT-AAATA
*
35835710 ATTTT-TATA
1 ATTTTAAATA
35835719 ATTTTTAAATA
1 A-TTTTAAATA
35835730 ATTTTAAAT-
1 ATTTTAAATA
35835739 ATTTTAAAATA
1 ATTTT-AAATA
* **
35835750 TTTTTTCATGA
1 ATTTTAAAT-A
35835761 ATTTTTAAAT-
1 A-TTTTAAATA
*
35835771 ATATTAAATA
1 ATTTTAAATA
35835781 AT
1 AT
35835783 CAATTAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
9 16 0.28
10 21 0.37
11 14 0.25
12 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:35836014 original size:29 final size:29
Alignment explanation
Indices: 35835953--35836009 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
35835943 TTAAACTTGA
* *
35835953 TATATTTAAATATATTAATAATGCATAAT
1 TATATTTAAATATATTAACAAAGCATAAT
35835982 TATATTTAAA-A-ATTAACAAAGCATAAT
1 TATATTTAAATATATTAACAAAGCATAAT
35836009 T
1 T
35836010 CTATAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (29 bp):
TATATTTAAATATATTAACAAAGCATAAT
Found at i:35837358 original size:17 final size:17
Alignment explanation
Indices: 35837313--35837359 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
35837303 ACCTGATTTG
*
35837313 ATCTAAAAAAAATCCAA
1 ATCTAAAAATAATCCAA
* * *
35837330 ATCT-TAATTAATCCCA
1 ATCTAAAAATAATCCAA
35837346 ATCTAAAAATAATC
1 ATCTAAAAATAATC
35837360 GAATTTGTAC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (17 bp):
ATCTAAAAATAATCCAA
Found at i:35837590 original size:27 final size:27
Alignment explanation
Indices: 35837552--35837607 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
35837542 TCACAAATCA
35837552 TTGACAACATTATTGAATTAACACCAT
1 TTGACAACATTATTGAATTAACACCAT
* *
35837579 TTGACAATATTATTGAATTAGCACCAT
1 TTGACAACATTATTGAATTAACACCAT
35837606 TT
1 TT
35837608 TATATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (27 bp):
TTGACAACATTATTGAATTAACACCAT
Found at i:35840572 original size:21 final size:21
Alignment explanation
Indices: 35840548--35840610 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
35840538 TATATAGAAT
35840548 ATCCTTAGACT-GACTAGGATA
1 ATCCTTAGA-TAGACTAGGATA
35840569 ATCC--AGGAATAGACTAGGATA
1 ATCCTTA-G-ATAGACTAGGATA
*
35840590 ATCCTTAGATGGACTAGGATA
1 ATCCTTAGATAGACTAGGATA
35840611 TTTGCCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 31 0.86
22 1 0.03
23 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (21 bp):
ATCCTTAGATAGACTAGGATA
Found at i:35844754 original size:50 final size:50
Alignment explanation
Indices: 35844696--35844890 Score: 291
Period size: 50 Copynumber: 3.9 Consensus size: 50
35844686 CATTGAGATT
35844696 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
35844746 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * *
35844796 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * *
35844846 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCGTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
35844891 GTACAAGAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 130 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:35846407 original size:31 final size:31
Alignment explanation
Indices: 35846337--35846408 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
35846327 GGCATTAAAT
* *
35846337 ATTCATATATGCATTTTCATACATTGTAATA
1 ATTCATATTTGCATATTCATACATTGTAATA
*
35846368 ATTCATATTTGCATATTCATAC-TCTGTAATC
1 ATTCATATTTGCATATTCATACAT-TGTAATA
*
35846399 ATTTATATTT
1 ATTCATATTT
35846409 ACTTGTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.49
Consensus pattern (31 bp):
ATTCATATTTGCATATTCATACATTGTAATA
Found at i:35846426 original size:30 final size:31
Alignment explanation
Indices: 35846337--35846428 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
35846327 GGCATTAAAT
* * * * *
35846337 ATTCATATATGCATTTTCATACATTGTAATA
1 ATTCATATTTACATATTCATACCTTGTAATC
*
35846368 ATTCATATTTGCATATTCATA-CTCTGTAATC
1 ATTCATATTTACATATTCATACCT-TGTAATC
*
35846399 ATTTATATTTAC-T-TGTCATACCTTGTAATC
1 ATTCATATTTACATAT-TCATACCTTGTAATC
35846429 GATCACATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.02
30 14 0.27
31 37 0.71
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (31 bp):
ATTCATATTTACATATTCATACCTTGTAATC
Found at i:35852259 original size:35 final size:35
Alignment explanation
Indices: 35852201--35852269 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
35852191 GACATTCAGC
* *
35852201 CAAACAAGTCAAACTTAACAGAGAAATGCAACTTG
1 CAAACAAGTCAAACTAAAAAGAGAAATGCAACTTG
35852236 CAAACCAAGTC-AACTAAAAAGAGAAATGCAACTT
1 CAAA-CAAGTCAAACTAAAAAGAGAAATGCAACTT
35852270 ATAAGAGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.16
Consensus pattern (35 bp):
CAAACAAGTCAAACTAAAAAGAGAAATGCAACTTG
Found at i:35859503 original size:13 final size:14
Alignment explanation
Indices: 35859485--35859514 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
35859475 TAGGGTTTCT
35859485 GCCACTGT-TTTGG
1 GCCACTGTATTTGG
35859498 GCCACTGTATTTGG
1 GCCACTGTATTTGG
35859512 GCC
1 GCC
35859515 TTTGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.10, C:0.27, G:0.30, T:0.33
Consensus pattern (14 bp):
GCCACTGTATTTGG
Found at i:35861728 original size:18 final size:18
Alignment explanation
Indices: 35861690--35861725 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35861680 TTATTATTTT
*
35861690 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
35861708 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
35861726 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:35861765 original size:16 final size:16
Alignment explanation
Indices: 35861718--35861768 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35861708 TAAAATTTAA
35861718 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* **
35861735 AGA--AATAATAGATT
1 ATATTAATAATTTATT
35861749 ATATTAATAATTTATT
1 ATATTAATAATTTATT
35861765 ATAT
1 ATAT
35861769 GACTAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
14 11 0.42
16 13 0.50
17 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:35861833 original size:13 final size:13
Alignment explanation
Indices: 35861815--35861839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35861805 ATATTAAAAA
35861815 TATTAATATTTTG
1 TATTAATATTTTG
35861828 TATTAATATTTT
1 TATTAATATTTT
35861840 AAATATTTTT
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTAATATTTTG
Found at i:35866896 original size:15 final size:15
Alignment explanation
Indices: 35866876--35866907 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35866866 CATTTCACTA
*
35866876 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
35866891 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
35866906 TT
1 TT
35866908 TACATGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:35874073 original size:22 final size:23
Alignment explanation
Indices: 35874045--35874088 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
35874035 ATGTAATCTT
*
35874045 AGATATGATT-TGTAATCTTAGA
1 AGATATGATTCTGTAATATTAGA
35874067 AGATATGATTCTGTAATATTAG
1 AGATATGATTCTGTAATATTAG
35874089 TGATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (23 bp):
AGATATGATTCTGTAATATTAGA
Done.