Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 16
Found at i:1369705 original size:28 final size:28
Alignment explanation
Indices: 1369665--1369722 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
1369655 AGTATATGAA
*
1369665 GGCTTTTAGTTCATTCTTCTGAAAACTT
1 GGCTTTTAGTTCATGCTTCTGAAAACTT
*
1369693 GGCTTTTAGTTCATGCTTCTGGAAACTT
1 GGCTTTTAGTTCATGCTTCTGAAAACTT
1369721 GG
1 GG
1369723 GTATTCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (28 bp):
GGCTTTTAGTTCATGCTTCTGAAAACTT
Found at i:1375071 original size:21 final size:22
Alignment explanation
Indices: 1375047--1375088 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1375037 TATATTTAAT
1375047 ATTTATTT-AATA-TTAAAATTA
1 ATTT-TTTAAATATTTAAAATTA
1375068 ATTTTTTAAATATTTAAAATT
1 ATTTTTTAAATATTTAAAATT
1375089 TTCTTGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 8 0.42
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAATATTTAAAATTA
Found at i:1375228 original size:2 final size:2
Alignment explanation
Indices: 1375223--1375247 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1375213 AAGAAAAAAA
1375223 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1375248 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1378294 original size:3 final size:3
Alignment explanation
Indices: 1378286--1378323 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1378276 TTTTACAGAT
1378286 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1378324 GATGGAGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1383635 original size:10 final size:10
Alignment explanation
Indices: 1383614--1383658 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
1383604 CTTCTAGGAT
*
1383614 CTCTCCCTCC
1 CTCTCTCTCC
*
1383624 CTCCCTCTCC
1 CTCTCTCTCC
*
1383634 CTCTCTCTCT
1 CTCTCTCTCC
*
1383644 CTCTCTCTCT
1 CTCTCTCTCC
1383654 CTCTC
1 CTCTC
1383659 AATGGAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCTCTCC
Found at i:1383641 original size:4 final size:4
Alignment explanation
Indices: 1383613--1383658 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
1383603 CCTTCTAGGA
* * * *
1383613 TCTC TCCC TCCC TCCC TCTC CCTC TCTC TCTC TCTC TCTC TCTC TC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TC
1383659 AATGGAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (4 bp):
TCTC
Found at i:1383657 original size:6 final size:6
Alignment explanation
Indices: 1383613--1383658 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
1383603 CCTTCTAGGA
* * * *
1383613 TCTCTC CCTCCC TCCCTC TCCCTC TCTCTC TCTCTC TCTCTC TCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTC
1383659 AATGGAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCTCTC
Found at i:1388409 original size:3 final size:3
Alignment explanation
Indices: 1388401--1388428 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1388391 ATGCATAAAA
1388401 AGC AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC A
1388429 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:1389066 original size:14 final size:14
Alignment explanation
Indices: 1389049--1389077 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1389039 TACACTTTAT
1389049 TTGAAATTGGCTTG
1 TTGAAATTGGCTTG
1389063 TTGAAATTGGCTTG
1 TTGAAATTGGCTTG
1389077 T
1 T
1389078 GCTCTGCTTA
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:0.28, T:0.45
Consensus pattern (14 bp):
TTGAAATTGGCTTG
Found at i:1391582 original size:29 final size:28
Alignment explanation
Indices: 1391558--1391614 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
1391548 TGATATTTTA
*
1391558 ATAATAATATTTAATA-TTAAAATA-TT
1 ATAATAATATTAAATACTTAAAATATTT
*
1391584 ATATTAATATTAAATACTTAAAATATATT
1 ATAATAATATTAAATACTTAAAATAT-TT
1391613 AT
1 AT
1391615 TTATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
27 8 0.31
29 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATAATAATATTAAATACTTAAAATATTT
Found at i:1391590 original size:19 final size:18
Alignment explanation
Indices: 1391555--1391597 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
1391545 TAATGATATT
1391555 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
1391574 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
1391593 TTAAA
1 TTAAA
1391598 TACTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:1391964 original size:15 final size:13
Alignment explanation
Indices: 1391946--1391989 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
1391936 ATATTTTTAC
1391946 TATTAAAATATATT
1 TATTAAAA-ATATT
1391960 ATATTAAAAATATT
1 -TATTAAAAATATT
*
1391974 TATTATTAAATATT
1 TATTA-AAAATATT
1391988 TA
1 TA
1391990 CAATTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 14 0.52
15 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAAAAATATT
Found at i:1391971 original size:16 final size:16
Alignment explanation
Indices: 1391941--1391983 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1391931 TATTAATATT
*
1391941 TTTACTATT-AAAATA
1 TTTATTATTAAAAATA
1391956 TATTA-TATTAAAAATA
1 T-TTATTATTAAAAATA
1391972 TTTATTATTAAA
1 TTTATTATTAAA
1391984 TATTTACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTATTATTAAAAATA
Found at i:1391979 original size:18 final size:17
Alignment explanation
Indices: 1391935--1391979 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
1391925 TATTTCTATT
1391935 AATATTT-TTACTATTAA
1 AATATTTATTA-TATTAA
1391952 AATA--TATTATATTAAA
1 AATATTTATTATATT-AA
1391968 AATATTTATTAT
1 AATATTTATTAT
1391980 TAAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 4 0.17
18 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTTATTATATTAA
Found at i:1392008 original size:14 final size:17
Alignment explanation
Indices: 1391991--1392028 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
1391981 AAATATTTAC
1391991 AATTTATAA-AT-TAT-
1 AATTTATAATATATATA
1392005 AATTTATAATATATATA
1 AATTTATAATATATATA
1392022 AATTTAT
1 AATTTAT
1392029 TATTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 2 0.10
16 3 0.14
17 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTATAATATATATA
Found at i:1392038 original size:23 final size:25
Alignment explanation
Indices: 1391995--1392048 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
1391985 ATTTACAATT
*
1391995 TATAAATTATAATTTATAATA-T-A
1 TATAAATTATAATTTAAAATAGTCA
*
1392018 TATAAATT-TATTATTAAAATAGTCA
1 TATAAATTATAAT-TTAAAATAGTCA
1392043 TATAAA
1 TATAAA
1392049 AAGATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 3 0.12
23 15 0.58
24 1 0.04
25 7 0.27
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAAATTATAATTTAAAATAGTCA
Found at i:1392240 original size:3 final size:3
Alignment explanation
Indices: 1392232--1392265 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1392222 AATATTTTAT
1392232 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1392266 TGGCTCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1393033 original size:17 final size:18
Alignment explanation
Indices: 1393011--1393044 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1393001 CATTTCTATA
1393011 TTTATT-TTTAAATTTTC
1 TTTATTCTTTAAATTTTC
*
1393028 TTTATTCTTTATATTTT
1 TTTATTCTTTAAATTTT
1393045 AATAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTCTTTAAATTTTC
Found at i:1393766 original size:40 final size:40
Alignment explanation
Indices: 1393703--1393788 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
1393693 CGTTAGCAAC
* *
1393703 ACCTTTATGTAAGGAGTTCATTGACACCAAAGGAATCAGT
1 ACCTTTACGTAAGGAGTTCATTGACACCAAAGGAATCAAT
* * *
1393743 ACCTTTACGT-AGGTAGTTTATTGACACCGAAGTAATCAAT
1 ACCTTTACGTAAGG-AGTTCATTGACACCAAAGGAATCAAT
1393783 A-CTTTA
1 ACCTTTA
1393789 TTGGTAGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 8 0.20
40 32 0.80
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (40 bp):
ACCTTTACGTAAGGAGTTCATTGACACCAAAGGAATCAAT
Found at i:1394079 original size:16 final size:16
Alignment explanation
Indices: 1394058--1394125 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
1394048 ATTTTATGAG
*
1394058 TAATTATATTTAATAT
1 TAATTAAATTTAATAT
* *
1394074 TTATTAAATTTACA-AA
1 TAATTAAATTTA-ATAT
* * *
1394090 TGATTATATCTAATAT
1 TAATTAAATTTAATAT
*
1394106 TAATTAAATTTAAAAT
1 TAATTAAATTTAATAT
1394122 TAAT
1 TAAT
1394126 ATCTATATAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
15 1 0.03
16 37 0.95
17 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (16 bp):
TAATTAAATTTAATAT
Found at i:1394097 original size:32 final size:31
Alignment explanation
Indices: 1394060--1394121 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
1394050 TTTATGAGTA
* *
1394060 ATTATATTTAATATTTATTAAATTTACAAATG
1 ATTATATCTAATATTAATTAAATTTA-AAATG
1394092 ATTATATCTAATATTAATTAAATTTAAAAT
1 ATTATATCTAATATTAATTAAATTTAAAAT
1394122 TAATATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTATATCTAATATTAATTAAATTTAAAATG
Found at i:1394123 original size:28 final size:28
Alignment explanation
Indices: 1394059--1394168 Score: 91
Period size: 32 Copynumber: 3.8 Consensus size: 28
1394049 TTTTATGAGT
* *
1394059 AATTATATTTAATATTTATTAAATTTACAA
1 AATTATATCTAATATTAATTAAATTT--AA
1394089 ATGATTATATCTAATATTAATTAAATTTAA
1 A--ATTATATCTAATATTAATTAAATTTAA
* *
1394119 AATTAATATCT-ATA-TAATTTAATTAAA
1 AATT-ATATCTAATATTAATTAAATTTAA
*
1394146 AACTTATAT-TATATATCAATTAA
1 AA-TTATATCTA-ATATTAATTAA
1394169 TAAATCGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
26 1 0.01
27 17 0.25
28 11 0.16
29 11 0.16
30 4 0.06
32 23 0.34
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (28 bp):
AATTATATCTAATATTAATTAAATTTAA
Found at i:1394141 original size:32 final size:32
Alignment explanation
Indices: 1394063--1394145 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 32
1394053 ATGAGTAATT
* *
1394063 ATATTTAATATTT-ATTAAATTTACAAATGATT
1 ATATCTAATATTTAATTAAATTTACAAAT-ATA
1394095 ATATCTAATA-TTAATTAAATTTA-AAAT-TA
1 ATATCTAATATTTAATTAAATTTACAAATATA
1394124 ATATCTATATAATTTAATTAAA
1 ATATCTA-AT-ATTTAATTAAA
1394146 AACTTATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 8 0.18
30 2 0.04
31 7 0.16
32 28 0.62
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (32 bp):
ATATCTAATATTTAATTAAATTTACAAATATA
Found at i:1394573 original size:16 final size:15
Alignment explanation
Indices: 1394522--1394573 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 15
1394512 TAATATAAAT
*
1394522 AAAATTTTAAAATTA
1 AAAATTTTTAAATTA
* *
1394537 TAAATATTTAATATTTA
1 AAAATTTTTAA-A-TTA
1394554 AAAATTTTTAAATATA
1 AAAATTTTTAAAT-TA
1394570 AAAA
1 AAAA
1394574 AGAATAAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 9 0.31
16 8 0.28
17 12 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATTTTTAAATTA
Found at i:1394735 original size:25 final size:25
Alignment explanation
Indices: 1394670--1394735 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
1394660 AAAAAATTTT
*
1394670 AAAAATTAATTTAAAAATTAAATAAG
1 AAAAATT-TTTTAAAAATTAAATAAG
*
1394696 TAAAATTTTTT-AAAATATAAA-AA-
1 AAAAATTTTTTAAAAAT-TAAATAAG
1394719 AAAAATATTTTTAAAAA
1 AAAAAT-TTTTTAAAAA
1394736 ATTTATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 5 0.15
24 12 0.35
25 11 0.32
26 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAATTTTTTAAAAATTAAATAAG
Found at i:1394783 original size:21 final size:20
Alignment explanation
Indices: 1394753--1394811 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
1394743 TATGTTTGAA
*
1394753 TAATTTTTTTTAAAAATAGG
1 TAATATTTTTTAAAAATAGG
*
1394773 TAATATTTTTTAAAAA-AGT
1 TAATATTTTTTAAAAATAGG
1394792 TAATAACTTTTTTAAAAATA
1 TAAT-A-TTTTTTAAAAATA
1394812 AAATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 16 0.47
21 11 0.32
22 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATATTTTTTAAAAATAGG
Found at i:1398556 original size:15 final size:15
Alignment explanation
Indices: 1398514--1398558 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
1398504 AATTAATCTG
*
1398514 AATAATT-AGTTTAA
1 AATAATTAAATTTAA
*
1398528 AATGATTCAAATTTAA
1 AATAATT-AAATTTAA
1398544 AATAATTAAATTTAA
1 AATAATTAAATTTAA
1398559 TAAATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 6 0.23
15 8 0.31
16 12 0.46
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (15 bp):
AATAATTAAATTTAA
Found at i:1398694 original size:32 final size:32
Alignment explanation
Indices: 1398646--1398720 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
1398636 TTGACTGTTA
* * *
1398646 AATTGAAAA-AATTTAAAATT-AAAATGGTTCG
1 AATTTAAAATAATTT-AAATTCAAAATGATCCG
1398677 AATTTAAAATAATTTAAATTCAAAATGATCCG
1 AATTTAAAATAATTTAAATTCAAAATGATCCG
*
1398709 AAATTAAAATAA
1 AATTTAAAATAA
1398721 CTTGAACTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (32 bp):
AATTTAAAATAATTTAAATTCAAAATGATCCG
Found at i:1398696 original size:16 final size:16
Alignment explanation
Indices: 1398643--1398702 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
1398633 AATTTGACTG
*
1398643 TTAAATTGAAAA-AAT
1 TTAAATTTAAAATAAT
* **
1398658 TTAAAATTAAAATGGT
1 TTAAATTTAAAATAAT
**
1398674 TCGAATTTAAAATAAT
1 TTAAATTTAAAATAAT
*
1398690 TTAAATTCAAAAT
1 TTAAATTTAAAAT
1398703 GATCCGAAAT
Statistics
Matches: 32, Mismatches: 12, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:1404222 original size:10 final size:10
Alignment explanation
Indices: 1404207--1404232 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1404197 TTGAATTAGA
1404207 TTATAATAAG
1 TTATAATAAG
1404217 TTATAATAAG
1 TTATAATAAG
1404227 TTATAA
1 TTATAA
1404233 AATGAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (10 bp):
TTATAATAAG
Found at i:1407121 original size:28 final size:28
Alignment explanation
Indices: 1407087--1407779 Score: 667
Period size: 28 Copynumber: 24.8 Consensus size: 28
1407077 TCATCTCTTG
* *
1407087 AAAGCCCACAAGTCAATGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1407115 ATAGCCCACAAGTCAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
*
1407143 AAAGCCCACAAGTCAGTGGCGT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
*
1407171 AAAGCCCACAGGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1407199 AAAGCCCACAAGTAAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
* *
1407227 AAAGCCTACAGGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407255 AGAGCCCACAAGTAAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
*
1407283 AAAGCCCACAGGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407311 AGAGCCCACAAGTTAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
* * * *
1407339 AAAGCTCACAGGTCAGTGGTATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
1407367 AAAGCTCACAGGTCAGTGGTATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407395 AAAGCCCACAAGTCAATGGCAT-ATCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
* *
1407423 AAAGCCCACAGGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407451 AAAGCCCACAGGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
** * * *
1407479 AAATTCCACAAGTTAGTGGCATCTTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407507 AAAGCCCACAAGTTAGTAGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
1407535 AAAGTCTACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1407563 AAAGCCCACAAGTC-GATGGGATCCTTTC
1 AAAGCCCACAAGTCAG-TGGCATCCTTTC
*
1407591 AAAGCCCACAAGTCAGTGGCA-CCTTTTT
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * * * *
1407619 TAAGCCCACAAGTCGGTTGCACCCTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1407647 AAAGTCCACAAG-CAAGTGGCA-CCTTTTT
1 AAAGCCCACAAGTC-AGTGGCATCC-TTTC
* * * * *
1407675 TAAGCCCATAAGT-AGGTAGCACCCTTCC
1 AAAGCCCACAAGTCA-GTGGCATCCTTTC
*
1407703 AAAGCCCACAAGTAAGTGGCACTCCTTT-
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTC
* *
1407731 TAA-CCCACAAGTCAGTGGC-GCCTTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTT-C
*
1407758 AAAGCCCACAAGTTAGTGGCAT
1 AAAGCCCACAAGTCAGTGGCAT
1407780 TTTTTTTCAA
Statistics
Matches: 556, Mismatches: 84, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
25 5 0.01
27 34 0.06
28 499 0.90
29 18 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:1408605 original size:20 final size:20
Alignment explanation
Indices: 1408561--1408613 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1408551 CACTCCCAGA
* *
1408561 TGTATCGATACAT-GTTCAC
1 TGTATCGATACATGGATAAC
*
1408580 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAC
1408600 TGTATCGATACATG
1 TGTATCGATACATG
1408614 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGATAAC
Found at i:1408681 original size:13 final size:13
Alignment explanation
Indices: 1408663--1408711 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
1408653 CATGGGATGA
1408663 TGTATCGATACAT
1 TGTATCGATACAT
1408676 TGTATCGATACA-
1 TGTATCGATACAT
1408688 TG-AT-GA-A-AT
1 TGTATCGATACAT
1408697 TGTATCGATACAT
1 TGTATCGATACAT
1408710 TG
1 TG
1408712 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1408706 original size:34 final size:32
Alignment explanation
Indices: 1408642--1408711 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 32
1408632 CTATCACTAT
1408642 TTGTATCGATACATGGGATGATGTATCGATACA
1 TTGTATCGATACAT-GGATGATGTATCGATACA
1408675 TTGTATCGATACAT-GATGAAATTGTATCGATACA
1 TTGTATCGATACATGGATG--A-TGTATCGATACA
1408709 TTG
1 TTG
1408712 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 4 0.12
33 15 0.44
34 15 0.44
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGGATGATGTATCGATACA
Found at i:1412626 original size:24 final size:22
Alignment explanation
Indices: 1412599--1412643 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1412589 TCATCAAATT
*
1412599 TTCAACAAATTTTCACTTTTTCAC
1 TTCAA-AAACTTTCA-TTTTTCAC
*
1412623 TTCAAATACTTTCATTTTTCA
1 TTCAAAAACTTTCATTTTTCA
1412644 TCAAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (22 bp):
TTCAAAAACTTTCATTTTTCAC
Found at i:1414914 original size:19 final size:20
Alignment explanation
Indices: 1414890--1414942 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1414880 AACCCTTGAA
**
1414890 TGTATCGATACATGTTC-AC
1 TGTATCGATACATGGACAAC
*
1414909 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAC
1414929 TGTATCGATACATG
1 TGTATCGATACATG
1414943 AGATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGGACAAC
Found at i:1415010 original size:13 final size:13
Alignment explanation
Indices: 1414992--1415039 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
1414982 CATGGGACGA
1414992 TGTATCGATACAT
1 TGTATCGATACAT
1415005 TGTATCGATACA-
1 TGTATCGATACAT
1415017 TG-AT-GA-A-AT
1 TGTATCGATACAT
1415026 TGTATCGATACAT
1 TGTATCGATACAT
1415039 T
1 T
1415040 ACTTGTAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1419355 original size:51 final size:50
Alignment explanation
Indices: 1419300--1419412 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 50
1419290 ATCTCAGGGT
* * *
1419300 TACTCCAATCCCGGTTTTATTTCTAAAACACCCA-TTTTCCATAATCGGGGA
1 TACTCCAA-CCCGATTTTATTTCCAAAACACCCACTTTT-CACAATCGGGGA
* *
1419351 TACTCTAACTCCGATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGA
1 TACTCCAAC-CCGATTTTATTTCCAAAACACCCACTTTTCACAATCGGGGA
1419402 TACTCCAACCC
1 TACTCCAACCC
1419413 CGTTATTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 3 0.06
51 47 0.87
52 4 0.07
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (50 bp):
TACTCCAACCCGATTTTATTTCCAAAACACCCACTTTTCACAATCGGGGA
Found at i:1419609 original size:28 final size:28
Alignment explanation
Indices: 1419577--1419650 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
1419567 TTTCACAATT
**
1419577 GGGGATACTCCAACCCCGTCATTTCATC
1 GGGGATACTCCAACCCCGTCATTTCAGA
* *
1419605 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTCATTTCAGA
1419633 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1419651 GCTTTATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTCATTTCAGA
Found at i:1419759 original size:28 final size:28
Alignment explanation
Indices: 1419685--1419759 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 28
1419675 TTTCATAATC
* *
1419685 AGGGGGTACTCTAACCCCGTTATGTCAT
1 AGGGGATACTCCAACCCCGTTATGTCAT
* * * *
1419713 CGGGGATACTTTC-ATCCCGTTATTTC-T
1 AGGGGATAC-TCCAACCCCGTTATGTCAT
1419740 GAGGGGATACTCCAACCCCG
1 -AGGGGATACTCCAACCCCG
1419760 ATTTTATTTC
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
27 3 0.09
28 31 0.89
29 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (28 bp):
AGGGGATACTCCAACCCCGTTATGTCAT
Found at i:1419775 original size:109 final size:109
Alignment explanation
Indices: 1419577--1419806 Score: 295
Period size: 109 Copynumber: 2.1 Consensus size: 109
1419567 TTTCACAATT
*
1419577 GGGGATACTCCAACCCCGTCATTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
1 GGGGATACTCCAACCCCGTCATGTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
*
1419642 CCAACCCCGGCTTTATATCCAAAATATTGATTCTTTCATAATCA
66 CCAACCCCGACTTTATATCCAAAATATTGATTCTTTCATAATCA
* * * * * *
1419686 GGGGGTACTCTAACCCCGTTATGTCATCGGGGATACTTTC-ATCCCGTTATTTCTGAGGGGATAC
1 GGGGATACTCCAACCCCGTCATGTCATCGGGGATAC-TCCAACCCCGTTATTTCCGAGGGGATAC
* * * *** *
1419750 TCCAACCCCGATTTTATTTCTAAAATACCAATT-TTTCACAATCA
65 TCCAACCCCGACTTTATATCCAAAATATTGATTCTTTCATAATCA
1419794 -GGGATACTCCAAC
1 GGGGATACTCCAAC
1419807 TCCGATTTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 11 0.11
108 10 0.10
109 80 0.78
110 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (109 bp):
GGGGATACTCCAACCCCGTCATGTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT
CCAACCCCGACTTTATATCCAAAATATTGATTCTTTCATAATCA
Found at i:1419805 original size:51 final size:51
Alignment explanation
Indices: 1419743--1419859 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
1419733 TATTTCTGAG
* * *
1419743 GGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCA
1 GGGATACTCCAACCCCGATTTTAGTTCTAAAACACCAATTTCTCACAATCA
* * *
1419794 GGGATACTCCAACTCCGATTTTAGTTCTAAAACACTAATTTCTCACAATCG
1 GGGATACTCCAACCCCGATTTTAGTTCTAAAACACCAATTTCTCACAATCA
1419845 GGGATACTCCAACCC
1 GGGATACTCCAACCC
1419860 TGTTATTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTAGTTCTAAAACACCAATTTCTCACAATCA
Found at i:1420176 original size:10 final size:10
Alignment explanation
Indices: 1420161--1420185 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1420151 CGGGAGATGT
1420161 ATTCCTTTGA
1 ATTCCTTTGA
1420171 ATTCCTTTGA
1 ATTCCTTTGA
1420181 ATTCC
1 ATTCC
1420186 CGTTGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (10 bp):
ATTCCTTTGA
Found at i:1426866 original size:16 final size:16
Alignment explanation
Indices: 1426805--1426867 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
1426795 TTATTTTAAA
1426805 TATATGCTTATTAATT
1 TATATGCTTATTAATT
* **
1426821 AACTATTTTTATTTAATT
1 TA-TATGCTTA-TTAATT
*
1426839 TATATTCTTATTAATT
1 TATATGCTTATTAATT
1426855 TATTATGC-TATTA
1 TA-TATGCTTATTA
1426868 TTATTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 14 0.37
17 17 0.45
18 7 0.18
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (16 bp):
TATATGCTTATTAATT
Found at i:1429117 original size:17 final size:19
Alignment explanation
Indices: 1429085--1429119 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1429075 CTCGTGATTT
1429085 TTTTGTACCAGCGCAGATA
1 TTTTGTACCAGCGCAGATA
1429104 TTTTG-ACC-GCGCAGAT
1 TTTTGTACCAGCGCAGAT
1429120 GGAGGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (19 bp):
TTTTGTACCAGCGCAGATA
Found at i:1438289 original size:16 final size:17
Alignment explanation
Indices: 1438258--1438302 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
1438248 GATCAATTCG
*
1438258 AACTCTAAAATAACCTA
1 AACTCTAAAATGACCTA
1438275 AACTC-AAAATGACCTA
1 AACTCTAAAATGACCTA
1438291 AAC-CTAAAATGA
1 AACTCTAAAATGA
1438303 TCCGAACCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 20 0.77
17 5 0.19
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.20
Consensus pattern (17 bp):
AACTCTAAAATGACCTA
Found at i:1440066 original size:20 final size:20
Alignment explanation
Indices: 1440043--1440100 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
1440033 AATTGTATTG
*
1440043 ATACATTTTTCAATGTATCA
1 ATACATTTCTCAATGTATCA
*****
1440063 ATACATAAGAAAATGTATCA
1 ATACATTTCTCAATGTATCA
*
1440083 ATACATTTCTCATTGTAT
1 ATACATTTCTCAATGTAT
1440101 TGATATATTA
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATACATTTCTCAATGTATCA
Found at i:1442615 original size:13 final size:13
Alignment explanation
Indices: 1442597--1442622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1442587 TACACAAAGT
1442597 ATGTATCGATACA
1 ATGTATCGATACA
1442610 ATGTATCGATACA
1 ATGTATCGATACA
1442623 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1442620 original size:32 final size:33
Alignment explanation
Indices: 1442579--1442642 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1442569 TAGCCAAACT
*
1442579 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
1442611 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1442643 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1444879 original size:22 final size:21
Alignment explanation
Indices: 1444852--1444903 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1444842 TTGCAAGTTG
1444852 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
1444874 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
1444895 AAATAAAAA
1 AAATAAAAA
1444904 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:1448820 original size:13 final size:13
Alignment explanation
Indices: 1448802--1448840 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1448792 ACATTTTTCT
1448802 TTGTATCGATACA
1 TTGTATCGATACA
1448815 TTGTATCGATACA
1 TTGTATCGATACA
*
1448828 CTGTATCGATACA
1 TTGTATCGATACA
1448841 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1450726 original size:38 final size:39
Alignment explanation
Indices: 1450683--1450769 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
1450673 TATTTAATAA
**
1450683 AAGGGGAGAATGCGTGAATTTGCTAAAATTACCTT-ATT
1 AAGGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
* * **
1450721 AAGGGGGAGAATGTACGAATTTGTTAAAATTATTTTGATT
1 AA-GGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
1450761 AA-GGGAGAA
1 AAGGGGAGAA
1450770 AGAAAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 9 0.22
39 27 0.66
40 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (39 bp):
AAGGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
Found at i:1451427 original size:13 final size:13
Alignment explanation
Indices: 1451409--1451434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1451399 TACACAAAGT
1451409 ATGTATCGATACA
1 ATGTATCGATACA
1451422 ATGTATCGATACA
1 ATGTATCGATACA
1451435 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1451432 original size:32 final size:33
Alignment explanation
Indices: 1451391--1451454 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1451381 TAGCCAAACT
*
1451391 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
1451423 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1451455 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1455389 original size:31 final size:28
Alignment explanation
Indices: 1455306--1455378 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
1455296 CTTCACAATC
*
1455306 GGGGATACTCCAACCCCGTTA-ATCATC-A
1 GGGGATACTCCAACCCCGTTATTTC--CGA
1455334 -GGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
1455361 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1455379 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.51
28 19 0.46
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1455480 original size:54 final size:53
Alignment explanation
Indices: 1455408--1455587 Score: 183
Period size: 54 Copynumber: 3.4 Consensus size: 53
1455398 GATTTTTCAT
*
1455408 AATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTTTTTAC
1 AATCGGGGATACTCCAACCTCGGTTTTATT-CTAAAACACCAATTTTTTTTTAC
* * * **
1455462 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTT--
1 AATCGGGGATACTCCAACCTCGGTTTTATTCT-AAAACACCAATTTTTTTTTAC
* * *
1455514 AATCGGGGATACTCCAA-CTCTGATTTTATTTTCAAAAACACCAA---TTTTTCAC
1 AATCGGGGATACTCCAACCTC-GGTTTTA--TTCTAAAACACCAATTTTTTTTTAC
*
1455566 AATCGAGGATACTCCAACCTCG
1 AATCGGGGATACTCCAACCTCG
1455588 TTATTTCATC
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
50 3 0.03
51 2 0.02
52 39 0.38
53 14 0.13
54 46 0.44
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (53 bp):
AATCGGGGATACTCCAACCTCGGTTTTATTCTAAAACACCAATTTTTTTTTAC
Found at i:1455541 original size:52 final size:52
Alignment explanation
Indices: 1455399--1455585 Score: 193
Period size: 52 Copynumber: 3.6 Consensus size: 52
1455389 CAAAATATTG
* * * * *
1455399 ATTTTTC-ATAATCGGGGATACTCCAACCTCGGTTTTA-TTGCTAAAACACTA
1 ATTTTTCTTTAATCGGGGATACTCCAACCT-GATTTTATTTTCAAAAACACCA
* **
1455450 ATTTTTTTTTACAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCA
1 ATTTTTCTTT--AATCGGGGATACTCCAACCTGA-TTTTATTTTCAAAAACACCA
*
1455504 ATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCA
1 ATTTTTCTTTAATCGGGGATACTCCAAC-CTGATTTTATTTTCAAAAACACCA
** *
1455557 ATTTTTC-ACAATCGAGGATACTCCAACCT
1 ATTTTTCTTTAATCGGGGATACTCCAACCT
1455586 CGTTATTTCA
Statistics
Matches: 114, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
51 8 0.07
52 46 0.40
53 17 0.15
54 40 0.35
55 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (52 bp):
ATTTTTCTTTAATCGGGGATACTCCAACCTGATTTTATTTTCAAAAACACCA
Found at i:1455603 original size:28 final size:28
Alignment explanation
Indices: 1455567--1455643 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1455557 ATTTTTCACA
* * *
1455567 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1455595 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1455623 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1455644 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1455675 original size:265 final size:265
Alignment explanation
Indices: 1455201--1455691 Score: 763
Period size: 265 Copynumber: 1.9 Consensus size: 265
1455191 GTCCATAATT
* * *
1455201 GGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTCCAAC
* *
1455266 TCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCA
66 TCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCA
* *
1455331 TCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATA
131 TCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATA
* *
1455396 TTGATTTTTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTTTTTA
196 TTGATTTCTCATAATCGGAGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTTTTTA
1455461 CAATC
261 CAATC
* *
1455466 GGGGATACTCCAACCCC-AGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGA-TTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATACTCCA
* * * *
1455530 ACTCTGATTTTATTTTC-AAAAACACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTTATT
64 ACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTA-A
* *
1455593 TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
128 TCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAA
* *
1455658 ATATTGATTTCTCATAATTGGAGATACTCTAACC
193 ATATTGATTTCTCATAATCGGAGATACTCCAACC
1455692 CCGTTATTTT
Statistics
Matches: 204, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
264 29 0.14
265 142 0.70
266 33 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (265 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTCCAAC
TCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCA
TCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATA
TTGATTTCTCATAATCGGAGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTTTTTA
CAATC
Found at i:1457130 original size:10 final size:11
Alignment explanation
Indices: 1457103--1457131 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1457093 TGGAATAGTG
1457103 TTTTTTTGTGT
1 TTTTTTTGTGT
1457114 TTTTTTTG-GT
1 TTTTTTTGTGT
1457124 TTTTTTTG
1 TTTTTTTG
1457132 CTAAAGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:1457680 original size:13 final size:13
Alignment explanation
Indices: 1457662--1457687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1457652 ACAAAGATCC
1457662 ATGTATCGATACA
1 ATGTATCGATACA
1457675 ATGTATCGATACA
1 ATGTATCGATACA
1457688 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1457683 original size:33 final size:33
Alignment explanation
Indices: 1457641--1457707 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1457631 AAAATTTCCA
***
1457641 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1457674 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1457707 A
1 A
1457708 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1457751 original size:19 final size:18
Alignment explanation
Indices: 1457727--1457796 Score: 87
Period size: 19 Copynumber: 4.1 Consensus size: 18
1457717 CAGTAGCTAA
1457727 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1457746 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1457761 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1457778 TTATGTATCGATACAAAC
1 TTATGTATCGATACAAAC
1457796 T
1 T
1457797 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 6 0.13
19 25 0.56
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1457767 original size:13 final size:13
Alignment explanation
Indices: 1457749--1457773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1457739 ACAATACTTA
1457749 TGTATCGATACAT
1 TGTATCGATACAT
1457762 TGTATCGATACA
1 TGTATCGATACA
1457774 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1457771 original size:32 final size:32
Alignment explanation
Indices: 1457730--1457792 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1457720 TAGCTAATTA
*
1457730 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1457762 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1457793 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1457856 original size:21 final size:21
Alignment explanation
Indices: 1457830--1457906 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1457820 GTTGGGACCC
* *
1457830 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
1457851 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1457872 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1457893 TGTATCGATACATT
1 TGTATCGATACATT
1457907 TGGAATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1460344 original size:13 final size:13
Alignment explanation
Indices: 1460323--1460353 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1460313 CGATACATGG
*
1460323 TACAATGTATCGA
1 TACATTGTATCGA
1460336 TACATTGTATCGA
1 TACATTGTATCGA
1460349 TACAT
1 TACAT
1460354 GATTAGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1461806 original size:3 final size:3
Alignment explanation
Indices: 1461798--1461836 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1461788 CCGAATCACT
1461798 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1461837 TTCCTCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:1463436 original size:20 final size:20
Alignment explanation
Indices: 1463411--1463463 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
1463401 GTTATAAGCT
1463411 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
1463431 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
1463451 ATGTATCGATACA
1 ATGTATCGATACA
1463464 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:1463533 original size:13 final size:13
Alignment explanation
Indices: 1463515--1463541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1463505 CAATTTGTCC
1463515 ATGTATCGATACA
1 ATGTATCGATACA
1463528 ATGTATCGATACA
1 ATGTATCGATACA
1463541 A
1 A
1463542 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1469069 original size:13 final size:13
Alignment explanation
Indices: 1469051--1469090 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1469041 ACAATATTCT
*
1469051 TTGTATCAATACA
1 TTGTATCGATACA
1469064 TTGTATCGATACA
1 TTGTATCGATACA
*
1469077 ATGTATCGATACA
1 TTGTATCGATACA
1469090 T
1 T
1469091 AGGGTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1471016 original size:40 final size:40
Alignment explanation
Indices: 1470961--1471069 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 40
1470951 ACAAAAAGGG
*
1470961 GAGAATTGCTTTAATTAAAGGGGAGAAAACTTTTGATTTT
1 GAGAATTGCTTTAATTAAGGGGGAGAAAACTTTTGATTTT
1471001 GAGAATTGCTTTAATTAAGGGGGAGAAAACTTTTGATTTT
1 GAGAATTGCTTTAATTAAGGGGGAGAAAACTTTTGATTTT
* *
1471041 GAGTATTGCTTTGATTAAGGGGGAGAAAA
1 GAGAATTGCTTTAATTAAGGGGGAGAAAA
1471070 ATGAAAACTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.35
Consensus pattern (40 bp):
GAGAATTGCTTTAATTAAGGGGGAGAAAACTTTTGATTTT
Found at i:1471651 original size:19 final size:20
Alignment explanation
Indices: 1471627--1471675 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1471617 GATACAATGA
**
1471627 ATCGATACAT-GTTAATTGT
1 ATCGATACATGGACAATTGT
1471646 ATCGATACATGGACAATTGT
1 ATCGATACATGGACAATTGT
1471666 ATCGATACAT
1 ATCGATACAT
1471676 AAGATTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
ATCGATACATGGACAATTGT
Found at i:1471747 original size:33 final size:33
Alignment explanation
Indices: 1471705--1471771 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1471695 CTACCACTAT
*
1471705 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
* *
1471738 TTGTATCGATGCATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
1471771 T
1 T
1471772 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:1472857 original size:20 final size:20
Alignment explanation
Indices: 1472814--1472865 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1472804 CTTAACTGTT
*
1472814 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
1472833 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
*
1472853 TGTATTGATACAT
1 TGTATCGATACAT
1472866 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1476871 original size:33 final size:33
Alignment explanation
Indices: 1476826--1476890 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1476816 CGTTGGGCAT
*
1476826 AATGTATCGATACAATTCT-TCATGTATCGATAC
1 AATGTATCGATAC-ATTCTCCCATGTATCGATAC
* *
1476859 AATGTATTGATACATTGTCCCATGTATCGATA
1 AATGTATCGATACATTCTCCCATGTATCGATA
1476891 TATTTCACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATTCTCCCATGTATCGATAC
Found at i:1476964 original size:19 final size:19
Alignment explanation
Indices: 1476920--1476974 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
1476910 ACTGCCAGTT
*
1476920 GCATGTATCGATACCATTGA
1 GCATGTATCGATA-CAATGA
*
1476940 GTATGTATCGATACAATGA
1 GCATGTATCGATACAATGA
*
1476959 GCATGTATTGATACAA
1 GCATGTATCGATACAA
1476975 CGTATCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (19 bp):
GCATGTATCGATACAATGA
Found at i:1477005 original size:20 final size:19
Alignment explanation
Indices: 1476976--1477026 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
1476966 TTGATACAAC
*
1476976 GTATCAATACT-AGGCATAAT
1 GTATCGATACTCAGG-AT-AT
*
1476996 GTATCGATACATCTGGATAT
1 GTATCGATAC-TCAGGATAT
1477016 GTATCGATACT
1 GTATCGATACT
1477027 TTCTAGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.78
21 3 0.11
22 2 0.07
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
GTATCGATACTCAGGATAT
Found at i:1479494 original size:13 final size:13
Alignment explanation
Indices: 1479476--1479501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1479466 TAGTAACCCA
1479476 TGTATCGATACAT
1 TGTATCGATACAT
1479489 TGTATCGATACAT
1 TGTATCGATACAT
1479502 ATGTGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1485665 original size:33 final size:33
Alignment explanation
Indices: 1485619--1485683 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1485609 CGTTGGGCAT
*
1485619 AATGTATCAATACAAT-TCTTCATGTATCGATAC
1 AATGTATCAATACATTATC-TCATGTATCGATAC
**
1485652 AATGTATTGATACATTATCTCATGTATCGATA
1 AATGTATCAATACATTATCTCATGTATCGATA
1485684 TATTTCACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (33 bp):
AATGTATCAATACATTATCTCATGTATCGATAC
Found at i:1485740 original size:20 final size:20
Alignment explanation
Indices: 1485714--1485768 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
1485704 TTACCAGTTT
*
1485714 CATGTATTAATACAATTGAG
1 CATGTATTGATACAATTGAG
* *
1485734 TATGTATCGATACAA-TGAG
1 CATGTATTGATACAATTGAG
*
1485753 CATATATTGATACAAT
1 CATGTATTGATACAAT
1485769 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
CATGTATTGATACAATTGAG
Found at i:1487324 original size:24 final size:23
Alignment explanation
Indices: 1487296--1487346 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
1487286 CTTTTACCAT
1487296 TTTTTTAATTCCTTTTTCTTTTTAC
1 TTTTTTAATT-CTTTTTCTTTTT-C
* *
1487321 TTTTTTGATTTTTTTTCTTTTTC
1 TTTTTTAATTCTTTTTCTTTTTC
1487344 TTT
1 TTT
1487347 AATTTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTAATTCTTTTTCTTTTTC
Found at i:1487357 original size:24 final size:24
Alignment explanation
Indices: 1487308--1487357 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
1487298 TTTTAATTCC
1487308 TTTTTCTTTTTACTTTTTTGATTT
1 TTTTTCTTTTTACTTTTTTGATTT
1487332 TTTTTCTTTTT-CTTTAATTTGATTT
1 TTTTTCTTTTTACTTT--TTTGATTT
1487357 T
1 T
1487358 GACTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTTACTTTTTTGATTT
Found at i:1489377 original size:27 final size:27
Alignment explanation
Indices: 1489347--1489400 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1489337 ACTATATAAT
*
1489347 TTTAAATTAT-TATAAAAATATATTTAA
1 TTTAAATTATATAT-AAAATATAATTAA
*
1489374 TTTATATTATATATAAAATATAATTAA
1 TTTAAATTATATATAAAATATAATTAA
1489401 AAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAAATTATATATAAAATATAATTAA
Found at i:1490061 original size:2 final size:2
Alignment explanation
Indices: 1490054--1490089 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1490044 CTTGGGCTAC
1490054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1490090 TTGTCCTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1493968 original size:24 final size:23
Alignment explanation
Indices: 1493936--1493999 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
1493926 CTATTTAAAA
*
1493936 TATAA-TAATATTTAAATTTTATT
1 TATAAGTAATATTTAAATATT-TT
* *
1493959 TTTAAGTAATATTTATATATTTT
1 TATAAGTAATATTTAAATATTTT
*
1493982 TATAATTAA-ATTTAAATA
1 TATAAGTAATATTTAAATA
1494000 AAAATATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 8 0.24
23 13 0.38
24 13 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATAAGTAATATTTAAATATTTT
Found at i:1494776 original size:20 final size:19
Alignment explanation
Indices: 1494744--1494789 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1494734 CAAAAATATT
*
1494744 TTAAAATTAT-TTTTAT-A
1 TTAAATTTATATTTTATAA
1494761 TTAATATTTATATTTTATAA
1 TTAA-ATTTATATTTTATAA
1494781 TTAAATTTA
1 TTAAATTTA
1494790 AAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 11 0.44
20 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAATTTATATTTTATAA
Found at i:1494797 original size:31 final size:32
Alignment explanation
Indices: 1494739--1494802 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
1494729 TTATTCAAAA
** * *
1494739 ATATTTTAAAATTATTTTTATATTAAT-ATTT
1 ATATTTTAAAATTAAATTTAAAATAATAATTT
*
1494770 ATATTTTATAATTAAATTTAAAATAATAATTT
1 ATATTTTAAAATTAAATTTAAAATAATAATTT
1494802 A
1 A
1494803 ATTAATTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATATTTTAAAATTAAATTTAAAATAATAATTT
Found at i:1496464 original size:12 final size:12
Alignment explanation
Indices: 1496428--1496465 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1496418 AATAATCAAT
1496428 TATACTAATAAA
1 TATACTAATAAA
1496440 TAT--TAAGTAAA
1 TATACTAA-TAAA
1496451 TATACTAATAAA
1 TATACTAATAAA
1496463 TAT
1 TAT
1496466 TAATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.13
11 7 0.30
12 10 0.43
13 3 0.13
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (12 bp):
TATACTAATAAA
Found at i:1496587 original size:17 final size:17
Alignment explanation
Indices: 1496560--1496610 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
1496550 TTATTTTAAA
*
1496560 TATATGCTTATTAATTT
1 TATATTCTTATTAATTT
* *
1496577 TCTATTTTTATTCAA-TT
1 TATATTCTTATT-AATTT
1496594 TATATTCTTATTAATTT
1 TATATTCTTATTAATTT
1496611 GTTATGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTCTTATTAATTT
Found at i:1497545 original size:20 final size:20
Alignment explanation
Indices: 1497505--1497545 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1497495 TTCCCGTGAC
*
1497505 ATTGTATCGATACATTACTT
1 ATTGTATCGATACATGACTT
*
1497525 ATTGTATCGATACATGGCTT
1 ATTGTATCGATACATGACTT
1497545 A
1 A
1497546 AAAGAACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTGTATCGATACATGACTT
Found at i:1497714 original size:20 final size:20
Alignment explanation
Indices: 1497689--1497739 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1497679 CACTTACTTG
1497689 ATGTATCGATACATTGTATA-
1 ATGTATCGATACATT-TATAC
* *
1497709 ATGTATCGATATATTTTTAC
1 ATGTATCGATACATTTATAC
1497729 ATGTATCGATA
1 ATGTATCGATA
1497740 GAAATAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTATAC
Found at i:1502594 original size:33 final size:33
Alignment explanation
Indices: 1502557--1502623 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1502547 TTCAACGATC
1502557 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1502590 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1502623 T
1 T
1502624 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1502595 original size:13 final size:13
Alignment explanation
Indices: 1502577--1502601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1502567 CATAAAATGT
1502577 TGTATCGATACAA
1 TGTATCGATACAA
1502590 TGTATCGATACA
1 TGTATCGATACA
1502602 TATTTTTTTG
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1502684 original size:13 final size:13
Alignment explanation
Indices: 1502666--1502690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1502656 ATTACTCACA
1502666 TGTATCGATACAT
1 TGTATCGATACAT
1502679 TGTATCGATACA
1 TGTATCGATACA
1502691 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1502827 original size:52 final size:52
Alignment explanation
Indices: 1502699--1502819 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
1502689 CACTGATCTT
1502699 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
*
1502751 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACT-ATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TGATAAAA
1502803 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1502820 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 66 0.99
53 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
Found at i:1511958 original size:25 final size:24
Alignment explanation
Indices: 1511903--1511991 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 24
1511893 ATTTGGTTCT
*
1511903 TTATAATAATTAAATTTATATAATTA
1 TTATAA-AATTAAATTTAT-TTATTA
* *
1511929 CTATAAAATTTAATTTATTTATTA
1 TTATAAAATTAAATTTATTTATTA
1511953 GTTAT---ATTAAATTTAAATATTATTA
1 -TTATAAAATTAAATTT--AT-TTATTA
1511978 TT-TAAAATTAAATT
1 TTATAAAATTAAATT
1511992 AAACAATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
22 8 0.16
23 1 0.02
24 9 0.18
25 20 0.39
26 13 0.25
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATAAAATTAAATTTATTTATTA
Found at i:1511988 original size:20 final size:22
Alignment explanation
Indices: 1511948--1511990 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1511938 TTAATTTATT
*
1511948 TATTAGTTATATTAAATTTAAA
1 TATTAGTTATATTAAAATTAAA
1511970 TATTA-TTAT-TTAAAATTAAA
1 TATTAGTTATATTAAAATTAAA
1511990 T
1 T
1511991 TAAACAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAGTTATATTAAAATTAAA
Found at i:1512011 original size:26 final size:26
Alignment explanation
Indices: 1511958--1512011 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
1511948 TATTAGTTAT
* * *
1511958 ATTAAATTTAAATATTATTATTTAAA
1 ATTAAATTTAAACAATATTATTCAAA
1511984 ATTAAA-TTAAACAATATTATTCATAA
1 ATTAAATTTAAACAATATTATTCA-AA
1512010 AT
1 AT
1512012 ATCTAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTAAATTTAAACAATATTATTCAAA
Found at i:1518428 original size:58 final size:59
Alignment explanation
Indices: 1518358--1518501 Score: 193
Period size: 58 Copynumber: 2.5 Consensus size: 59
1518348 TGCCAACGTG
1518358 CTGATTCAAGGCCAGTGACATTGGGCTTTG-GAAAGAAGGTTTGACAAGTGCAAATGTA
1 CTGATTCAAGGCCAGTGACATTGGGCTTTGAGAAAGAAGGTTTGACAAGTGCAAATGTA
* * * * *
1518416 CTGATTCTAGGCCAGTGACATTGGGC-TTGAGAAATAAGGTTTGATAAGTGCCAATGTG
1 CTGATTCAAGGCCAGTGACATTGGGCTTTGAGAAAGAAGGTTTGACAAGTGCAAATGTA
* * * *
1518474 TTGATTCAAGGCCAATGATATTAGGCTT
1 CTGATTCAAGGCCAGTGACATTGGGCTT
1518502 AAAAGGAGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
57 3 0.04
58 70 0.95
59 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (59 bp):
CTGATTCAAGGCCAGTGACATTGGGCTTTGAGAAAGAAGGTTTGACAAGTGCAAATGTA
Found at i:1518547 original size:32 final size:32
Alignment explanation
Indices: 1518500--1518729 Score: 205
Period size: 32 Copynumber: 7.0 Consensus size: 32
1518490 GATATTAGGC
* **
1518500 TTAAAAGGAGATGCCACTAACTTGTGTGGGCTT
1 TTAAAAGG-GTTGCCACCGACTTGTGTGGGCTT
*
1518533 TTAAGAGGGTTGCCACCGACTTGTGTGGGCTT
1 TTAAAAGGGTTGCCACCGACTTGTGTGGGCTT
* * * *
1518565 TAAAAAGGGTTACCACCGACTCGTATGGGCTT
1 TTAAAAGGGTTGCCACCGACTTGTGTGGGCTT
* * * *
1518597 TAGAAAAAAGGTTGCCATCAACTTGTGTGGGCTT
1 T--TAAAAGGGTTGCCACCGACTTGTGTGGGCTT
* *
1518631 TTAATAGGGTTGCCACCGACTTGTGTAGG-TT
1 TTAAAAGGGTTGCCACCGACTTGTGTGGGCTT
* *
1518662 TTAGAAAAAAAGGTTACCACC-ACTTGTGTGGG-TT
1 TT----AAAAGGGTTGCCACCGACTTGTGTGGGCTT
* *
1518696 TTCAAAAGGGTTGTCATCGACTTGTGTGGGCTT
1 TT-AAAAGGGTTGCCACCGACTTGTGTGGGCTT
1518729 T
1 T
1518730 GGAAAAAGGA
Statistics
Matches: 159, Mismatches: 30, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
31 15 0.09
32 82 0.52
33 10 0.06
34 40 0.25
35 12 0.08
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (32 bp):
TTAAAAGGGTTGCCACCGACTTGTGTGGGCTT
Found at i:1518622 original size:66 final size:65
Alignment explanation
Indices: 1518519--1518736 Score: 233
Period size: 66 Copynumber: 3.3 Consensus size: 65
1518509 GATGCCACTA
* * * * *
1518519 ACTTGTGTGGGCTTT--TAAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTACCACC
1 ACTTGTGTGGGCTTTAGAAAAAAGGTTGCCA-CAACTTGTGTGGGCTTTAAAAAGGGTTGCCACC
1518582 G
65 G
* * * *
1518583 ACTCGTATGGGCTTTAGAAAAAAGGTTGCCATCAACTTGTGTGGGCTTTTAATAGGGTTGCCACC
1 ACTTGTGTGGGCTTTAGAAAAAAGGTTGCCA-CAACTTGTGTGGGCTTTAAAAAGGGTTGCCACC
1518648 G
65 G
* * * * * * * *
1518649 ACTTGTGTAGGTTTTAGAAAAAAAGGTTACCACCACTTGTGTGGGTTTTCAAAAGGGTTGTCATC
1 ACTTGTGTGGGCTTTAG-AAAAAAGGTTGCCACAACTTGTGTGGGCTTTAAAAAGGGTTGCCACC
1518714 G
65 G
*
1518715 ACTTGTGTGGGCTTTGGAAAAA
1 ACTTGTGTGGGCTTTAGAAAAA
1518737 GGATATCACC
Statistics
Matches: 127, Mismatches: 24, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
64 13 0.10
65 5 0.04
66 96 0.76
67 13 0.10
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (65 bp):
ACTTGTGTGGGCTTTAGAAAAAAGGTTGCCACAACTTGTGTGGGCTTTAAAAAGGGTTGCCACCG
Found at i:1518708 original size:98 final size:98
Alignment explanation
Indices: 1518518--1518729 Score: 277
Period size: 98 Copynumber: 2.2 Consensus size: 98
1518508 AGATGCCACT
* *
1518518 AACTTGTGTGGGCTTTTAAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTACCACCG
1 AACTTGTGTGGGCTTTTAAGAGGGTTGCCACCGACTTGTGTAGGCTTTAAAAAAGGTTACCACCG
1518583 ACTCGTATGGGCTTTAGAAAAAAGGTTGCCATC
66 ACTCGTATGGGCTTTAGAAAAAAGGTTGCCATC
* *
1518616 AACTTGTGTGGGCTTTTAATAGGGTTGCCACCGACTTGTGTAGGTTTTAGAAAAAAAGGTTACCA
1 AACTTGTGTGGGCTTTTAAGAGGGTTGCCACCGACTTGTGTAGGCTTT---AAAAAAGGTTACCA
* * ** * *
1518681 CC-ACTTGTGTGGG-TTT-TCAAAAGGGTTGTCATC
63 CCGACTCGTATGGGCTTTAGAAAAAAGGTTGCCATC
*
1518714 GACTTGTGTGGGCTTT
1 AACTTGTGTGGGCTTT
1518730 GGAAAAAGGA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
98 73 0.73
99 3 0.03
100 9 0.09
101 15 0.15
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (98 bp):
AACTTGTGTGGGCTTTTAAGAGGGTTGCCACCGACTTGTGTAGGCTTTAAAAAAGGTTACCACCG
ACTCGTATGGGCTTTAGAAAAAAGGTTGCCATC
Found at i:1518830 original size:30 final size:30
Alignment explanation
Indices: 1518794--1519483 Score: 384
Period size: 31 Copynumber: 22.6 Consensus size: 30
1518784 TGTGGGCTTT
*
1518794 AAAAGGGTGCCACAGAGTTGTAGACTTTGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGA
* * *
1518824 AAAAGGGTGTCATAGAGTTGTGAACTTT-A
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGA
* * *
1518853 AAAAAGGTGCCAC-GAAGTTATGGACTTTAAA
1 AAAAGGGTGCCACAG-AGTTGTGGACTTT-GA
* * * *
1518884 AAATAGGGTGCCACGGAGTTGTAGAGTTTAGG
1 AAA-AGGGTGCCACAGAGTTGTGGACTTT-GA
* ** *
1518916 AATAGGGTGCCATGGAGTTGTGTACTTTAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-GA
** *
1518947 AAAAAAGTGCCACGGAGTTGTGGACTTTAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-GA
** * * * * **
1518978 AAAAAAGTGCTATAAAGTTGTGAACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTT-TGA
* *
1519009 AAAAAGGTGCCACAGAGTTGTGAACTTTAGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-GA
** * *
1519040 AAAAGGGTGCC-GTGAAGTTGTGAACTTTTTAA
1 AAAAGGGTGCCACAG-AGTTGTGGAC--TTTGA
* *
1519072 AAAATGGGTGCCAC-GAAGTTATGAACTTT--
1 AAAA-GGGTGCCACAG-AGTTGTGGACTTTGA
* *
1519101 AAAAGGATGCCATAGAGTTGTGGACTTT-A
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGA
** * *
1519130 AAAAGGGTGCCATGGAGTTATGGACTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT-GA
* *
1519161 AAAAGGGGTTGCCACTGAGTTGTGGACTCTG-
1 AAAA-GGG-TGCCACAGAGTTGTGGACTTTGA
* *
1519192 AAAAGAGATGCCACTA-AGTCGTGGACTTTGA
1 AAAAG-GGTGCCAC-AGAGTTGTGGACTTTGA
* * * **
1519223 AGAAAGGATGCTACTGAGTTGTAAACTTTG-
1 A-AAAGGGTGCCACAGAGTTGTGGACTTTGA
* * * *
1519253 AAAAGAGATGCCACTGAGTCGTAGACTTTG-
1 AAAAG-GGTGCCACAGAGTTGTGGACTTTGA
* * *
1519283 AAAAGGGATGCCACATAGTTGTAGACTTTTA
1 AAAAGGG-TGCCACAGAGTTGTGGACTTTGA
* * * *
1519314 TAAAGAGTGCCACGGAATTGTGGACTTTAGGA
1 AAAAGGGTGCCACAGAGTTGTGGACTTT--GA
* **
1519346 AAAATGGTGCCATGGAGTTGTGGACTTTTG-
1 AAAAGGGTGCCACAGAGTTGTGGAC-TTTGA
*
1519376 AAAAGGGATGCCACAGAGTTATGGACTTTG-
1 AAAAGGG-TGCCACAGAGTTGTGGACTTTGA
* * *
1519406 AAAAGGGTGCCACGGAGTTGTGAACTTTTA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGA
* **
1519436 GAAA-GGTGCCACTA-AGTCATGGACTTTGA
1 AAAAGGGTGCCAC-AGAGTTGTGGACTTTGA
*
1519465 AGAAAGGTTGCCACTAGAG
1 A-AAAGGGTGCCAC-AGAG
1519484 CTGTCGAACT
Statistics
Matches: 523, Mismatches: 102, Indels: 68
0.75 0.15 0.10
Matches are distributed among these distances:
28 19 0.04
29 94 0.18
30 129 0.25
31 182 0.35
32 57 0.11
33 42 0.08
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (30 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTTGA
Found at i:1518972 original size:94 final size:92
Alignment explanation
Indices: 1518797--1519439 Score: 317
Period size: 92 Copynumber: 7.0 Consensus size: 92
1518787 GGGCTTTAAA
* *
1518797 AGGGTGCCACAGAGTTGTAGACTTTGAAAAAGGGTGTCATAGAGTTGTGAACTTTAAAAAAGGTG
1 AGGGTGCCACAGAGTTGTAGACTTTGAAAAAGGGTGCCATAGAGTTGTGAACTTTAAAAAAAGTG
1518862 CCACGAAGTTATGGACTTTA-AAAAAT
66 CCACGAAGTTATGGACTTTAGAAAAAT
* * * * * *
1518888 AGGGTGCCACGGAGTTGTAGAGTTTAGGAATAGGGTGCCATGGAGTTGTGTACTTTAGAAAAAAA
1 AGGGTGCCACAGAGTTGTAGACTTT-GAAAAAGGGTGCCATAGAGTTGTGAACTTT--AAAAAAA
* *
1518953 GTGCCACGGAGTTGTGGACTTTAGAAAAA-
63 GTGCCACGAAGTTATGGACTTTAGAAAAAT
* * * * ** * *
1518982 A-AGTGCTATAAAGTTGT-GAACTTAAAAAAAAAGGTGCCACAGAGTTGTGAACTTTAGAAAAAG
1 AGGGTGCCACAGAGTTGTAG-ACTT-TGAAAAAGGGTGCCATAGAGTTGTGAACTTTA-AAAAA-
* ** * *
1519045 GGTGCCGTGAAGTTGTGAACTTTTTA-AAAAAT
62 AGTGCCACGAAGTTATGGAC--TTTAGAAAAAT
* * * **
1519077 -GGGTGCCAC-GAAGTTAT-GAACTTT--AAAAGGATGCCATAGAGTTGTGGACTTTAAAAAGGG
1 AGGGTGCCACAG-AGTTGTAG-ACTTTGAAAAAGGGTGCCATAGAGTTGTGAACTTTAAAAAAAG
* *
1519137 TGCCATGGAGTTATGGACTTTA-AAAAA-
64 TGCCACGAAGTTATGGACTTTAGAAAAAT
* * * * * * *
1519164 AGGGGTTGCCACTGAGTTGTGGACTCTG-AAAAGAGATGCCACTA-AGTCGTGGACTTTGAAGAA
1 A-GGG-TGCCACAGAGTTGTAGACTTTGAAAAAG-GGTGCCA-TAGAGTTGTGAACTTT-AAAAA
* * * ** *
1519227 AGGATGCTACTG-AGTTGTAAACTTT-G-AAAAG
61 AAG-TGCCAC-GAAGTTATGGACTTTAGAAAAAT
* * * * * * *
1519258 A-GATGCCACTGAGTCGTAGACTTTG-AAAAGGGATGCCACATAGTTGT-AGACTTTTATAAAGA
1 AGGGTGCCACAGAGTTGTAGACTTTGAAAAAGGG-TGCCATAGAGTTGTGA-AC-TTTAAAAAAA
*
1519320 GTGCCACGGAA-TTGTGGACTTTAGGAAAAAT
63 GTGCCAC-GAAGTTATGGACTTTA-GAAAAAT
** * * * * * **
1519351 --GGTGCCATGGAGTTGTGGACTTTTG-AAAAGGGATGCCACAGAGTTATGGACTTTGAAAAGGG
1 AGGGTGCCACAGAGTTGTAGAC-TTTGAAAAAGGG-TGCCATAGAGTTGTGAACTTTAAAAAAAG
* * *
1519413 TGCCACGGAGTTGTGAACTTTTAGAAA
64 TGCCACGAAGTTATGGAC-TTTAGAAA
1519440 GGTGCCACTA
Statistics
Matches: 430, Mismatches: 84, Indels: 75
0.73 0.14 0.13
Matches are distributed among these distances:
88 9 0.02
89 3 0.01
90 48 0.11
91 78 0.18
92 120 0.28
93 98 0.23
94 48 0.11
95 26 0.06
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (92 bp):
AGGGTGCCACAGAGTTGTAGACTTTGAAAAAGGGTGCCATAGAGTTGTGAACTTTAAAAAAAGTG
CCACGAAGTTATGGACTTTAGAAAAAT
Found at i:1519258 original size:61 final size:60
Alignment explanation
Indices: 1519101--1519479 Score: 278
Period size: 60 Copynumber: 6.2 Consensus size: 60
1519091 TATGAACTTT
* * * ** *
1519101 AAAAGGATGCCA-TAGAGTTGTGGACTTTAAAAAG-GGTGCCA-TGGAGTTATGGACTTTAAA
1 AAAAGGATGCCACT-GAGTTGTGGACTTTGAAAAGAGATGCCACT-AAGTCGTGGACTTT-GA
* *
1519161 AAAAGGGGTTGCCACTGAGTTGTGGACTCTGAAAAGAGATGCCACTAAGTCGTGGACTTTGA
1 AAAA--GGATGCCACTGAGTTGTGGACTTTGAAAAGAGATGCCACTAAGTCGTGGACTTTGA
* ** * *
1519223 AGAAAGGATGCTACTGAGTTGTAAACTTTGAAAAGAGATGCCACTGAGTCGTAGACTTTGA
1 A-AAAGGATGCCACTGAGTTGTGGACTTTGAAAAGAGATGCCACTAAGTCGTGGACTTTGA
* * * * *
1519284 AAAGGGATGCCACAT-AGTTGTAGACTTTTATAAAGAG-TGCCACGGAA-TTGTGGACTTTAGGA
1 AAAAGGATGCCAC-TGAGTTGTGGACTTTGA-AAAGAGATGCCAC-TAAGTCGTGGACTTT--GA
* **
1519346 AAAATGG-TGCCA-TGGAGTTGTGGACTTTTGAAAAGGGATGCCAC-AGAGTTATGGACTTTG-
1 AAAA-GGATGCCACT-GAGTTGTGGAC-TTTGAAAAGAGATGCCACTA-AGTCGTGGACTTTGA
* * * * *
1519406 AAAAGGGTGCCACGGAGTTGTGAACTTTTAGAAAG-G-TGCCACTAAGTCATGGACTTTGA
1 AAAAGGATGCCACTGAGTTGTGGACTTTGA-AAAGAGATGCCACTAAGTCGTGGACTTTGA
*
1519465 AGAAAGGTTGCCACT
1 A-AAAGGATGCCACT
1519480 AGAGCTGTCG
Statistics
Matches: 261, Mismatches: 34, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
58 19 0.07
59 9 0.03
60 77 0.30
61 60 0.23
62 52 0.20
63 43 0.16
64 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (60 bp):
AAAAGGATGCCACTGAGTTGTGGACTTTGAAAAGAGATGCCACTAAGTCGTGGACTTTGA
Found at i:1520283 original size:21 final size:22
Alignment explanation
Indices: 1520242--1520283 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1520232 GACTTGTTTA
1520242 AATGTTTTTCAAGTAATAAATT
1 AATGTTTTTCAAGTAATAAATT
1520264 AATGTTTTTCAAGTAA-AAAT
1 AATGTTTTTCAAGTAATAAAT
1520284 AATTCAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (22 bp):
AATGTTTTTCAAGTAATAAATT
Found at i:1520428 original size:19 final size:20
Alignment explanation
Indices: 1520383--1520433 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1520373 CACACCCAGA
1520383 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
*
1520403 GGTATCGATACATATT-CTT
1 TGTATCGATACATATTGCTT
1520422 TGTATCGATACA
1 TGTATCGATACA
1520434 CCATAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:1520736 original size:10 final size:10
Alignment explanation
Indices: 1520717--1520746 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1520707 AGCTAAAGAT
1520717 CAACAAGAAA
1 CAACAAGAAA
*
1520727 CAATAAGAAA
1 CAACAAGAAA
1520737 CAACAAGAAA
1 CAACAAGAAA
1520747 GCCAAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.70, C:0.17, G:0.10, T:0.03
Consensus pattern (10 bp):
CAACAAGAAA
Found at i:1526655 original size:19 final size:19
Alignment explanation
Indices: 1526631--1526679 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1526621 TTTCCAGATC
1526631 TATCGATACA-AAGAAATTG
1 TATCGATACATAA-AAATTG
* *
1526650 TATCGATATATTAAAATTG
1 TATCGATACATAAAAATTG
1526669 TATCGATACAT
1 TATCGATACAT
1526680 TTTGACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (19 bp):
TATCGATACATAAAAATTG
Found at i:1536045 original size:13 final size:13
Alignment explanation
Indices: 1536027--1536053 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1536017 ACATTATGCT
1536027 TTGTATCGATACA
1 TTGTATCGATACA
1536040 TTGTATCGATACA
1 TTGTATCGATACA
1536053 T
1 T
1536054 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1536062 original size:19 final size:19
Alignment explanation
Indices: 1536038--1536094 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1536028 TGTATCGATA
1536038 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
1536056 TCATTGTATCGATACATTGAC
1 -CATTGTATCGATACA-TGAC
*
1536077 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
1536095 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:1536068 original size:32 final size:33
Alignment explanation
Indices: 1536008--1536190 Score: 107
Period size: 33 Copynumber: 5.1 Consensus size: 33
1535998 CACACTTAGA
* *
1536008 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
*
1536041 TGTATCGATACATGCT-CATTGTATCGATACATTGACAAT
1 TGTATCGATACATGATGCATTGTATCG----A-T-AC-AT
* * *
1536080 TGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTATT
1 TGTATCGATACATG--A-T-GCA-TTG-TA-TCGAT-AC-A-T
* * *
1536123 TGTATCGATACATGGTACAATGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
* *
1536156 TGTATCGATACATGATGAAATGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
1536189 TG
1 TG
1536191 CTTGTAACGA
Statistics
Matches: 116, Mismatches: 18, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
32 9 0.08
33 47 0.41
34 1 0.01
35 2 0.02
36 4 0.03
37 3 0.03
38 3 0.03
39 18 0.16
40 1 0.01
42 5 0.04
43 16 0.14
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGCATTGTATCGATACAT
Found at i:1536083 original size:20 final size:20
Alignment explanation
Indices: 1536039--1536092 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1536029 GTATCGATAC
*
1536039 ATTGTATCGATACA-TGCTC
1 ATTGTATCGATACATTGCTA
1536058 ATTGTATCGATACATTGAC-A
1 ATTGTATCGATACATTG-CTA
1536078 ATTGTATCGATACAT
1 ATTGTATCGATACAT
1536093 GAAACTGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 14 0.44
20 17 0.53
21 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATTGCTA
Found at i:1536159 original size:13 final size:12
Alignment explanation
Indices: 1536142--1536188 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 12
1536132 ACATGGTACA
1536142 ATGTATCGATAC
1 ATGTATCGATAC
1536154 ATTGTATCGATAC
1 A-TGTATCGATAC
1536167 ATG-AT-GA-A-
1 ATGTATCGATAC
1536175 ATGTATCGATAC
1 ATGTATCGATAC
1536187 AT
1 AT
1536189 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.10
9 3 0.10
10 4 0.13
11 3 0.10
12 5 0.17
13 12 0.40
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1536164 original size:33 final size:33
Alignment explanation
Indices: 1536122--1536190 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1536112 CTATCACTAT
*
1536122 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
1536155 TTGTATCGATACATGATGAAATGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
1536188 TTG
1 TTG
1536191 CTTGTAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:1543568 original size:52 final size:52
Alignment explanation
Indices: 1543422--1543550 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1543412 CGAAATATTA
1543422 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1543474 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1543526 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1543551 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1543577 original size:13 final size:13
Alignment explanation
Indices: 1543559--1543583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1543549 CAAAGATCAG
1543559 TGTATCGATACAA
1 TGTATCGATACAA
1543572 TGTATCGATACA
1 TGTATCGATACA
1543584 TTTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1543700 original size:80 final size:80
Alignment explanation
Indices: 1543595--1543755 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
1543585 TTGAGTAATG
* *
1543595 TATCGATATATTTTTTGGCAGTAGCTTATATTGTATCGATACAAAACTTATGTATTGATACATTG
1 TATCGATACATTTTTTGGCAATAGCTTATATTGTATCGATACAAAACTTATGTATTGATACATTG
1543660 TATCGATACAACACT
66 TATCGATACAACACT
1543675 TATCGATACATTTTTTGGCAATAGCTTATATTGTATCGATACAAAACTTATGTATTGATACATTG
1 TATCGATACATTTTTTGGCAATAGCTTATATTGTATCGATACAAAACTTATGTATTGATACATTG
1543740 TATCGATACAACACT
66 TATCGATACAACACT
1543755 T
1 T
1543756 TATGTATCGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (80 bp):
TATCGATACATTTTTTGGCAATAGCTTATATTGTATCGATACAAAACTTATGTATTGATACATTG
TATCGATACAACACT
Found at i:1543745 original size:32 final size:33
Alignment explanation
Indices: 1543704--1543769 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
1543694 AATAGCTTAT
*
1543704 ATTGTATCGATACAAAAC-TTATGTATTGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
1543736 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
1543769 A
1 A
1543770 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Done.