Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 21 of 203
Found at i:6775893 original size:40 final size:40
Alignment explanation
Indices: 6775789--6775895 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
6775779 ATTTTTTGCA
* * *
6775789 GCGTTTTTCAAAAAACACCGCTAAAGGTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
*
6775829 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
*
6775869 GCGTTTTTAAAAAAACGCCGCTAATGC
1 GCGTTTTTCAAAAAACGCCGCTAATGC
6775896 CACTAAAGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
Found at i:6783214 original size:20 final size:21
Alignment explanation
Indices: 6783189--6783229 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6783179 GGTTCTAGAC
6783189 CTTCTCAT-T-TTTCCATTTCT
1 CTTCTCATCTCTTT-CATTTCT
6783209 CTTCTCATCTCTTTCATTTCT
1 CTTCTCATCTCTTTCATTTCT
6783230 GTTCATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 8 0.42
22 3 0.16
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTCTCATCTCTTTCATTTCT
Found at i:6795465 original size:13 final size:13
Alignment explanation
Indices: 6795447--6795471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6795437 ACAATATAGA
6795447 AATCAAATCAGTG
1 AATCAAATCAGTG
6795460 AATCAAATCAGT
1 AATCAAATCAGT
6795472 CATGAATTAA
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:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (13 bp):
AATCAAATCAGTG
Found at i:6798103 original size:25 final size:23
Alignment explanation
Indices: 6798055--6798099 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6798045 ATACTTGTTG
* *
6798055 AAAAAATTATAATAATATATTAT
1 AAAAAAATATAAAAATATATTAT
6798078 AAAAAAATATAAAAATAT-TTAT
1 AAAAAAATATAAAAATATATTAT
6798100 TATATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAAAATATAAAAATATATTAT
Found at i:6805184 original size:31 final size:29
Alignment explanation
Indices: 6805149--6805244 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 29
6805139 CACAGGTGTT
6805149 AAATTGAATATTAAAACCAAATTCAGGTATC
1 AAATTGAATATTAAAA-CAAATT-AGGTATC
* * *
6805180 AAATTGAGACA--AAAGAAAAACTTAAGTATC
1 AAATTGA-ATATTAAA-ACAAA-TTAGGTATC
*
6805210 AAATTGAATATTAAAATCAAATTTAGGTACC
1 AAATTGAATATTAAAA-CAAA-TTAGGTATC
6805241 AAAT
1 AAAT
6805245 ATTAATTAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
29 2 0.04
30 20 0.39
31 27 0.53
32 2 0.04
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.27
Consensus pattern (29 bp):
AAATTGAATATTAAAACAAATTAGGTATC
Found at i:6808701 original size:18 final size:18
Alignment explanation
Indices: 6808660--6808706 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6808650 TTTCTCCTTT
*
6808660 TTATTAAATTAATTCTTA
1 TTATTAAATTAATTCATA
*
6808678 TAATTAAATTAATT-ATA
1 TTATTAAATTAATTCATA
6808695 TCTATTATAATT
1 T-TATTA-AATT
6808707 TTTTTCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTAAATTAATTCATA
Found at i:6810731 original size:6 final size:6
Alignment explanation
Indices: 6810700--6810730 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6810690 CTTGTTGAAT
*
6810700 GTGTTG GTGTTG GTGTTG GTGTTG GAGTTG G
1 GTGTTG GTGTTG GTGTTG GTGTTG GTGTTG G
6810731 ATGCTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.52, T:0.45
Consensus pattern (6 bp):
GTGTTG
Found at i:6816066 original size:19 final size:19
Alignment explanation
Indices: 6816042--6816080 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6816032 TACTTTCTAC
6816042 TTAAAAAATAATCTTTGTT
1 TTAAAAAATAATCTTTGTT
6816061 TTAAAAAATAATCTTTGTT
1 TTAAAAAATAATCTTTGTT
6816080 T
1 T
6816081 GTCGGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAAAAAATAATCTTTGTT
Found at i:6816210 original size:31 final size:31
Alignment explanation
Indices: 6816174--6816237 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
6816164 AAATAATGAA
*
6816174 ATTTTTATCAAATATAAAAGGATTGATTTGC
1 ATTTTTATCAAATATAAAAGGATTAATTTGC
6816205 ATTTTTATCAAATATAAAAGGATTAATTTGC
1 ATTTTTATCAAATATAAAAGGATTAATTTGC
6816236 AT
1 AT
6816238 ATTATGTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (31 bp):
ATTTTTATCAAATATAAAAGGATTAATTTGC
Found at i:6818443 original size:151 final size:147
Alignment explanation
Indices: 6818217--6818514 Score: 560
Period size: 151 Copynumber: 2.0 Consensus size: 147
6818207 AGACATACAA
6818217 GCAGGGGGCGAAGGGAAGGGGGGAGACAGAGGCCCTTGTCCCCTCCAAAATGGAAAATTGCTACT
1 GCAGGGGGCGAAGGGAAGGGGGGAGACAGAGGCCCTTGTCCCCTCCAAAATGGAAAATTGCTACT
6818282 TTAGTCACCCAAAATTTATAAAATCTCAAGTTAATATATGGTAAAATTATAGTTTGCACCCCCCC
66 TTAGTCACCCAAAATTTATAAAATCTCAAGTTAATATATGGTAAAATTATAGTTTGCA----CCC
6818347 CCCAAATGCTAGAATTTCAAT
127 CCCAAATGCTAGAATTTCAAT
6818368 GCAGGGGGCGAAGGGAAGGGGGGAGACAGAGGCCCTTGTCCCCTCCAAAATGGAAAATTGCTACT
1 GCAGGGGGCGAAGGGAAGGGGGGAGACAGAGGCCCTTGTCCCCTCCAAAATGGAAAATTGCTACT
6818433 TTAGTCACCCAAAATTTATAAAATCTCAAGTTAATATATGGTAAAATTATAGTTTGCACCCCCCA
66 TTAGTCACCCAAAATTTATAAAATCTCAAGTTAATATATGGTAAAATTATAGTTTGCACCCCCCA
6818498 AATGCTAGAATTTCAAT
131 AATGCTAGAATTTCAAT
6818515 TTAGTCCATT
Statistics
Matches: 147, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
147 24 0.16
151 123 0.84
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (147 bp):
GCAGGGGGCGAAGGGAAGGGGGGAGACAGAGGCCCTTGTCCCCTCCAAAATGGAAAATTGCTACT
TTAGTCACCCAAAATTTATAAAATCTCAAGTTAATATATGGTAAAATTATAGTTTGCACCCCCCA
AATGCTAGAATTTCAAT
Found at i:6820251 original size:16 final size:18
Alignment explanation
Indices: 6820221--6820257 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
6820211 AAAAAAAGAT
*
6820221 AAAATATTTTATTTTTAA
1 AAAATATTTTATTTTCAA
6820239 AAAATA-TTT-TTTTCAA
1 AAAATATTTTATTTTCAA
6820255 AAA
1 AAA
6820258 CTGTTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 3 0.17
18 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATATTTTATTTTCAA
Found at i:6825588 original size:21 final size:22
Alignment explanation
Indices: 6825559--6825605 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6825549 CAGAAGGAGT
*
6825559 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6825581 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6825602 GAGT
1 GAGT
6825606 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6839512 original size:33 final size:33
Alignment explanation
Indices: 6839466--6839605 Score: 97
Period size: 33 Copynumber: 4.2 Consensus size: 33
6839456 AGCCTCTTCT
** ** *
6839466 TCTTCTTCATGTTTGTTTGTTTCTTCTTCCTCC
1 TCTTCTTCATGTTTACTTCCTTCTTCCTCCTCC
* *
6839499 TCTTCTTCGTGTTTACTTCCTTCTTCCTGCTCC
1 TCTTCTTCATGTTTACTTCCTTCTTCCTCCTCC
* * *
6839532 TCTTCTTCACGTTTGA-TTCCTTCTACC-CGTTCC
1 TCTTCTTCATGTTT-ACTTCCTTCTTCCTC-CTCC
* * * * *
6839565 TCTTCTTCGTGTTTTA-TTGCTCCTTCATGCTCC
1 TCTTCTTCATG-TTTACTTCCTTCTTCCTCCTCC
6839598 TCTTCTTC
1 TCTTCTTC
6839606 TAGCCTCTTA
Statistics
Matches: 83, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
33 79 0.95
34 4 0.05
ACGTcount: A:0.05, C:0.33, G:0.09, T:0.53
Consensus pattern (33 bp):
TCTTCTTCATGTTTACTTCCTTCTTCCTCCTCC
Found at i:6841644 original size:2 final size:2
Alignment explanation
Indices: 6841639--6841668 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6841629 GTGTGTGTGT
*
6841639 GA GA GA GA GA GA GA CA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6841669 TGAGGTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6853399 original size:12 final size:13
Alignment explanation
Indices: 6853377--6853401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6853367 TTTTGTGAAC
6853377 TTTTAATTTTTTT
1 TTTTAATTTTTTT
6853390 TTTTAATTTTTT
1 TTTTAATTTTTT
6853402 AGGTTAGAAG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTAATTTTTTT
Found at i:6871540 original size:13 final size:13
Alignment explanation
Indices: 6871524--6871548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6871514 TTATTTACAT
6871524 TTTAATTTTAGTC
1 TTTAATTTTAGTC
6871537 TTTAATTTTAGT
1 TTTAATTTTAGT
6871549 TATTTACATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTAATTTTAGTC
Found at i:6871542 original size:34 final size:34
Alignment explanation
Indices: 6871503--6871567 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
6871493 CGAATTACAA
6871503 TTTAATTTTAGTTATTTACATTTTAATTTTAGTC
1 TTTAATTTTAGTTATTTACATTTTAATTTTAGTC
6871537 TTTAATTTTAGTTATTTACATTTTAATTTTA
1 TTTAATTTTAGTTATTTACATTTTAATTTTA
6871568 TATTAGCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (34 bp):
TTTAATTTTAGTTATTTACATTTTAATTTTAGTC
Found at i:6887132 original size:43 final size:44
Alignment explanation
Indices: 6887063--6887161 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 44
6887053 AGACCCTTAT
6887063 ACCTTT-TTTTCTTTTCCTAAAGTTGAC-AA-ATGTGAATGATTG
1 ACCTTTCTTTT-TTTTCCTAAAGTTGACAAATATGTGAATGATTG
6887105 ACCTTTCTTTTTTTTCCCTAAAGTTGACAAATATGTGAATGATTG
1 ACCTTTCTTTTTTTT-CCTAAAGTTGACAAATATGTGAATGATTG
*
6887150 ACCATTCTTTTT
1 ACCTTTCTTTTT
6887162 AGACTCCATG
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
42 10 0.19
43 16 0.31
44 2 0.04
45 24 0.46
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (44 bp):
ACCTTTCTTTTTTTTCCTAAAGTTGACAAATATGTGAATGATTG
Found at i:6894039 original size:31 final size:31
Alignment explanation
Indices: 6893977--6894046 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
6893967 GTTTTAATAC
* *
6893977 TTTAATTTGATAAATTTTAATCTTATAATTT
1 TTTAAATTGATAAATTTTAATATTATAATTT
* * * *
6894008 TTTAAATTGATTAATTTTAGTATTTTTATTT
1 TTTAAATTGATAAATTTTAATATTATAATTT
*
6894039 TTTTAATT
1 TTTAAATT
6894047 TCAAAATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (31 bp):
TTTAAATTGATAAATTTTAATATTATAATTT
Found at i:6899707 original size:2 final size:2
Alignment explanation
Indices: 6899700--6899731 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6899690 ATATTTTTAC
6899700 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
6899732 ATTATCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:6902486 original size:19 final size:18
Alignment explanation
Indices: 6902462--6902497 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6902452 AACTGATTTT
6902462 ATTTTTAAAAATATTTTAG
1 ATTTTTAAAAAT-TTTTAG
*
6902481 ATTTTTATAAATTTTTA
1 ATTTTTAAAAATTTTTA
6902498 ATTAACCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTTTAAAAATTTTTAG
Found at i:6907084 original size:11 final size:11
Alignment explanation
Indices: 6907064--6907092 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6907054 TGATAGCGTA
6907064 TAAA-ATATAT
1 TAAATATATAT
6907074 TAAATATATAT
1 TAAATATATAT
6907085 TAAATATA
1 TAAATATA
6907093 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATATATAT
Found at i:6911652 original size:14 final size:15
Alignment explanation
Indices: 6911627--6911663 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
6911617 TATACATGAA
6911627 AAATACTTTATTAAG
1 AAATACTTTATTAAG
6911642 AAATA-TTTATTAA-
1 AAATACTTTATTAAG
*
6911655 AATTACTTT
1 AAATACTTT
6911664 GAAATTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (15 bp):
AAATACTTTATTAAG
Found at i:6923038 original size:25 final size:25
Alignment explanation
Indices: 6922985--6923039 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
6922975 AATTACTATA
**
6922985 AAATAAAAAATTACAAAAACAATGT
1 AAATAAAAAATTACAAAAACAAAAT
*
6923010 -AATAAAAAATTA-ATAAACATAAAT
1 AAATAAAAAATTACAAAAACA-AAAT
6923034 AAATAA
1 AAATAA
6923040 TAATATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (25 bp):
AAATAAAAAATTACAAAAACAAAAT
Found at i:6931179 original size:12 final size:12
Alignment explanation
Indices: 6931162--6931193 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6931152 CAGGCAGCTC
6931162 ATATTAATTTTT
1 ATATTAATTTTT
6931174 ATATT-ATTTTT
1 ATATTAATTTTT
6931185 ATA-TAATTT
1 ATATTAATTT
6931194 AAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:6931428 original size:14 final size:14
Alignment explanation
Indices: 6931409--6931439 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6931399 ATCCAAACAA
6931409 TAACAACAAAATAG
1 TAACAACAAAATAG
*
6931423 TAACAACATAATAG
1 TAACAACAAAATAG
6931437 TAA
1 TAA
6931440 AATAATAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:6933679 original size:30 final size:30
Alignment explanation
Indices: 6933643--6933707 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
6933633 GTTGAACCTG
*
6933643 AATTTTAAAATATAAAAAATA-AAAAGACTA
1 AATTTTAAAAAATAAAAAATACAAAA-ACTA
* *
6933673 AATTTTAAAAAATAAAAAGTACAAAAATTA
1 AATTTTAAAAAATAAAAAATACAAAAACTA
6933703 AATTT
1 AATTT
6933708 CAAATTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AATTTTAAAAAATAAAAAATACAAAAACTA
Found at i:6933703 original size:23 final size:23
Alignment explanation
Indices: 6933649--6933704 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
6933639 CCTGAATTTT
6933649 AAAATATAAAAAATAAAAAGACTA
1 AAAAT-TAAAAAATAAAAAGACTA
**
6933673 AATTTTAAAAAATAAAAAGTAC-A
1 AAAATTAAAAAATAAAAAG-ACTA
6933696 AAAATTAAA
1 AAAATTAAA
6933705 TTTCAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAATTAAAAAATAAAAAGACTA
Found at i:6940567 original size:16 final size:15
Alignment explanation
Indices: 6940526--6940568 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
6940516 TAAAATAATG
*
6940526 ATTAAATTAATAAAA
1 ATTAAATTATTAAAA
6940541 ATGTAAA-TATTAAAA
1 AT-TAAATTATTAAAA
6940556 ATTAAATTTATTA
1 ATTAAA-TTATTA
6940569 TTATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATTAAATTATTAAAA
Found at i:6945421 original size:15 final size:15
Alignment explanation
Indices: 6945390--6945433 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6945380 AAAATTAACC
6945390 ATGGAGGTG--GA-G
1 ATGGAGGTGATGATG
6945402 ATGGAGGTGATGATG
1 ATGGAGGTGATGATG
*
6945417 ATGGAGATGATGATG
1 ATGGAGGTGATGATG
6945432 AT
1 AT
6945434 TATTTTGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (15 bp):
ATGGAGGTGATGATG
Found at i:6949534 original size:4 final size:4
Alignment explanation
Indices: 6949525--6949618 Score: 125
Period size: 4 Copynumber: 23.5 Consensus size: 4
6949515 AGGTAATGCA
* * *
6949525 ACAT ACAT ACAT ACAT ACAT ACAG ACAG ACAG ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
6949573 ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
6949619 TGATGAGGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 86 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:6955936 original size:31 final size:31
Alignment explanation
Indices: 6955893--6955952 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6955883 TTATTATTGA
*
6955893 ACTATTCGAAAATTTTCATTTAAGTCATTTG
1 ACTATTCAAAAATTTTCATTTAAGTCATTTG
*
6955924 ACTATTCAAAAATTTTTATTTAAGTCATT
1 ACTATTCAAAAATTTTCATTTAAGTCATT
6955953 GGGTTGTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (31 bp):
ACTATTCAAAAATTTTCATTTAAGTCATTTG
Found at i:6957652 original size:30 final size:30
Alignment explanation
Indices: 6957608--6957674 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
6957598 AGTATAAGAA
* * *
6957608 TAGTCACCTGACTATTCAGTTGTTTT-ATTT
1 TAGTCATCTAACTATT-AATTGTTTTCATTT
*
6957638 TAGTCATCTAACTATTAATTTTTTTCATTT
1 TAGTCATCTAACTATTAATTGTTTTCATTT
6957668 TAGTCAT
1 TAGTCAT
6957675 TCAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (30 bp):
TAGTCATCTAACTATTAATTGTTTTCATTT
Found at i:6965315 original size:22 final size:20
Alignment explanation
Indices: 6965282--6965324 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 20
6965272 ACTATCGTCG
6965282 ATTATTTATAAATGAATTTTAA
1 ATTATTTATAAA--AATTTTAA
6965304 ATTAGTTT-TAAAAATTTTAA
1 ATTA-TTTATAAAAATTTTAA
6965324 A
1 A
6965325 CATTTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.45
22 8 0.40
23 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTATTTATAAAAATTTTAA
Found at i:6965580 original size:17 final size:16
Alignment explanation
Indices: 6965560--6965603 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
6965550 TATTTTTAAA
6965560 AAAATAAAAATATATTT
1 AAAATAAAAATAT-TTT
* *
6965577 AAAATATATATATTTT
1 AAAATAAAAATATTTT
6965593 AAAATTAAAAA
1 AAAA-TAAAAA
6965604 ATTAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATAAAAATATTTT
Found at i:6965589 original size:15 final size:15
Alignment explanation
Indices: 6965569--6965622 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6965559 AAAAATAAAA
6965569 ATATATTTAAAATAT
1 ATATATTTAAAATAT
6965584 ATATATTTTAAAAT-T
1 ATATA-TTTAAAATAT
* * * *
6965599 AAAAAATTAAAAAAT
1 ATATATTTAAAATAT
6965614 ATATATTTA
1 ATATATTTA
6965623 TTATATTCGA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 6 0.20
15 16 0.53
16 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATTTAAAATAT
Found at i:6970360 original size:70 final size:69
Alignment explanation
Indices: 6970246--6970384 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 69
6970236 ATTTGCAGCA
* * * *
6970246 TTGTAAGTTTAGGTTTCCGTCCCCACGAAGAAACTATGTTGTTGATTTATAATTGGAAATTTCGG
1 TTGTAAGTTTAGGTTTCCGTCCCCACAAAGAAACTATGTCGTTGATCTATAATCGGAAATTTC-G
6970311 TTTTT
65 TTTTT
* ** * *
6970316 TTGTAAGTTTAGGTTTCCGTCTCCGTAAAGAAACTGTGTCGTTGATCTATAATCGGAGATTTCGT
1 TTGTAAGTTTAGGTTTCCGTCCCCACAAAGAAACTATGTCGTTGATCTATAATCGGAAATTTCGT
6970381 TTTT
66 TTTT
6970385 AAAAGTGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 6 0.10
70 54 0.90
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (69 bp):
TTGTAAGTTTAGGTTTCCGTCCCCACAAAGAAACTATGTCGTTGATCTATAATCGGAAATTTCGT
TTTT
Found at i:6983728 original size:4 final size:4
Alignment explanation
Indices: 6983721--6983746 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6983711 GTGAGTGAGT
6983721 GAGG GAGG GAGG GAGG GAGG GAGG GA
1 GAGG GAGG GAGG GAGG GAGG GAGG GA
6983747 AGGAAGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:6985320 original size:29 final size:29
Alignment explanation
Indices: 6985286--6985351 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6985276 TATAAATTTG
*
6985286 AAATTTAAT-TTTTATATGTTTA-ATTTTA
1 AAATTTAATATTTTAT-TGTTTAGATTTCA
*
6985314 AGAATTTAATATTTTATTTTTTAGATTTCA
1 A-AATTTAATATTTTATTGTTTAGATTTCA
6985344 AAATTTAA
1 AAATTTAA
6985352 GTCCGATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 20 0.61
30 12 0.36
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (29 bp):
AAATTTAATATTTTATTGTTTAGATTTCA
Found at i:6991299 original size:47 final size:49
Alignment explanation
Indices: 6991230--6991335 Score: 198
Period size: 47 Copynumber: 2.2 Consensus size: 49
6991220 CCTATGCCTT
6991230 TGAAGAACAGATAAACAATGTCCAATGT-C-TGAAAAAATCCTGAGAAC
1 TGAAGAACAGATAAACAATGTCCAATGTCCGTGAAAAAATCCTGAGAAC
6991277 TGAAGAACAGATAAACAATGTCCAATGTCCGTGAAAAAATCCTGAGAAC
1 TGAAGAACAGATAAACAATGTCCAATGTCCGTGAAAAAATCCTGAGAAC
6991326 TGAAGAACAG
1 TGAAGAACAG
6991336 TTCCACTCTG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 28 0.49
48 1 0.02
49 28 0.49
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (49 bp):
TGAAGAACAGATAAACAATGTCCAATGTCCGTGAAAAAATCCTGAGAAC
Found at i:6998245 original size:23 final size:23
Alignment explanation
Indices: 6998217--6998262 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6998207 TTTTATTTTA
* *
6998217 TTTTATTGAATTTTACTTAAAAT
1 TTTTATTAAATTTAACTTAAAAT
*
6998240 TTTTATTAAATTTAATTTAAAAT
1 TTTTATTAAATTTAACTTAAAAT
6998263 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTATTAAATTTAACTTAAAAT
Found at i:7002383 original size:22 final size:20
Alignment explanation
Indices: 7002336--7002384 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
7002326 GTTATCACCT
7002336 AAAAATTTAAAAGATTATAA
1 AAAAATTTAAAAGATTATAA
* * *
7002356 AGAAATTATAAATATATTTTAA
1 AAAAATT-TAAA-AGATTATAA
7002378 AAAAATT
1 AAAAATT
7002385 CAAGTGGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATTTAAAAGATTATAA
Found at i:7002628 original size:30 final size:30
Alignment explanation
Indices: 7002589--7002688 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 30
7002579 CTACATAGTA
*
7002589 ATCCTACTATTAGTAAATTTCTTTTTGGTC
1 ATCCAACTATTAGTAAATTTCTTTTTGGTC
* * * * **** *
7002619 ATCCAACTATGA-AAAAATACAAAATGATC
1 ATCCAACTATTAGTAAATTTCTTTTTGGTC
*
7002648 ATTCAACTATTAGTAAATTTCTTTTTTGGTC
1 ATCCAACTATTAGTAAATTTC-TTTTTGGTC
*
7002679 ATCAAACTAT
1 ATCCAACTAT
7002689 GAAAAATTAT
Statistics
Matches: 46, Mismatches: 22, Indels: 3
0.65 0.31 0.04
Matches are distributed among these distances:
29 19 0.41
30 15 0.33
31 12 0.26
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (30 bp):
ATCCAACTATTAGTAAATTTCTTTTTGGTC
Found at i:7002691 original size:60 final size:60
Alignment explanation
Indices: 7002594--7002739 Score: 199
Period size: 60 Copynumber: 2.5 Consensus size: 60
7002584 TAGTAATCCT
* * *
7002594 ACTATTAGTAAATTTC-TTTTTGGTCATCCAACTATGAAAAAATACAAAATGATCATTCA
1 ACTATTAGTAAATTTCTTTTTTGGTCATCAAACTATGAAAAAATACAAAATAATCACTCA
* *
7002653 ACTATTAGTAAATTTCTTTTTTGGTCATCAAACTATGAAAAATTATAAAATAATCACTCA
1 ACTATTAGTAAATTTCTTTTTTGGTCATCAAACTATGAAAAAATACAAAATAATCACTCA
*
7002713 ACTATT--TAATTCTGTCTTTTTTGGTCA
1 ACTATTAGTAAAT-T-TCTTTTTTGGTCA
7002740 GCAGACGGCT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
58 4 0.05
59 17 0.22
60 57 0.73
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (60 bp):
ACTATTAGTAAATTTCTTTTTTGGTCATCAAACTATGAAAAAATACAAAATAATCACTCA
Found at i:7004733 original size:44 final size:45
Alignment explanation
Indices: 7004683--7004771 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 45
7004673 CATTGATGTG
7004683 GTGATAAATGTTGGGAGATGTTC-TTATTTGTTAGCAAAATAACA
1 GTGATAAATGTTGGGAGATGTTCTTTATTTGTTAGCAAAATAACA
*
7004727 GTGATAACTGTTGGGAGATGTTCTTTATTTGTTAGCAAAATAACA
1 GTGATAAATGTTGGGAGATGTTCTTTATTTGTTAGCAAAATAACA
7004772 TTCACATGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 22 0.51
45 21 0.49
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (45 bp):
GTGATAAATGTTGGGAGATGTTCTTTATTTGTTAGCAAAATAACA
Found at i:7005813 original size:24 final size:24
Alignment explanation
Indices: 7005785--7005833 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7005775 TACTAGTAAA
7005785 AACTAATATCTATACGTTAAAATG
1 AACTAATATCTATACGTTAAAATG
7005809 AACTAATATCTATACGTTAAAATG
1 AACTAATATCTATACGTTAAAATG
7005833 A
1 A
7005834 GATACGCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
AACTAATATCTATACGTTAAAATG
Found at i:7008575 original size:4 final size:4
Alignment explanation
Indices: 7008552--7008599 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
7008542 CAAGTGTATG
* *
7008552 CATA CAAA CATA CATG CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
7008600 TATATGAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:7011880 original size:19 final size:19
Alignment explanation
Indices: 7011858--7011894 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7011848 TTCATGTTAT
7011858 TTTTAAAATTTTTATGAAC
1 TTTTAAAATTTTTATGAAC
* *
7011877 TTTTTATATTTTTATGAA
1 TTTTAAAATTTTTATGAA
7011895 TATTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAAAATTTTTATGAAC
Found at i:7011900 original size:18 final size:20
Alignment explanation
Indices: 7011865--7011909 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
7011855 TATTTTTAAA
*
7011865 ATTTTTATGAACTTTTTA-T
1 ATTTTTATGAACTATTTATT
7011884 ATTTTTATGAA-TATTTATT
1 ATTTTTATGAACTATTTATT
7011903 ATTTTTA
1 ATTTTTA
7011910 AATTATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTATGAACTATTTATT
Found at i:7022889 original size:31 final size:30
Alignment explanation
Indices: 7022849--7022909 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
7022839 TAATTACACC
* *
7022849 AAATAAAGGTTCATGTCTCAATTTGTATATT
1 AAATAAAGGTTCATGTATAAATTTG-ATATT
*
7022880 AAATCAAGGTTCATGTATAAATTTGATATT
1 AAATAAAGGTTCATGTATAAATTTGATATT
7022910 TATCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (30 bp):
AAATAAAGGTTCATGTATAAATTTGATATT
Found at i:7030630 original size:68 final size:68
Alignment explanation
Indices: 7030521--7030820 Score: 528
Period size: 68 Copynumber: 4.3 Consensus size: 68
7030511 GGCCATGATG
7030521 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
1 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
7030586 TAA
66 TAA
7030589 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
1 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
7030654 TAA
66 TAA
*
7030657 TGATTTACATTTTACATTCTTTTGATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTT
1 TG------A-TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTT
7030722 TAGGATTTAA
59 TAGGATTTAA
7030732 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
1 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
7030797 TAA
66 TAA
7030800 TGATTTACATTCTTTTAATTT
1 TGATTTACATTCTTTTAATTT
7030821 GGGTCAGATA
Statistics
Matches: 223, Mismatches: 2, Indels: 14
0.93 0.01 0.06
Matches are distributed among these distances:
68 155 0.70
69 1 0.00
74 1 0.00
75 66 0.30
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (68 bp):
TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
TAA
Found at i:7030685 original size:75 final size:75
Alignment explanation
Indices: 7030592--7030810 Score: 380
Period size: 75 Copynumber: 3.0 Consensus size: 75
7030582 GATTTAATGA
7030592 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
1 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
7030657 TGATTTACAT
66 TGATTTACAT
*
7030667 TTTACATTCTTTTGATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
1 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
7030732 TG------A-
66 TGATTTACAT
7030735 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
1 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
7030800 TGATTTACAT
66 TGATTTACAT
7030810 T
1 T
7030811 CTTTTAATTT
Statistics
Matches: 135, Mismatches: 2, Indels: 14
0.89 0.01 0.09
Matches are distributed among these distances:
68 66 0.49
69 1 0.01
74 1 0.01
75 67 0.50
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (75 bp):
TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
TGATTTACAT
Found at i:7030694 original size:143 final size:143
Alignment explanation
Indices: 7030524--7030810 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 143
7030514 CATGATGTGA
7030524 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
1 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
7030589 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
66 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
7030654 TAATGATTTACAT
131 TAATGATTTACAT
*
7030667 TTTACATTCTTTTGATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
1 TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
7030732 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
66 TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
7030797 TAATGATTTACAT
131 TAATGATTTACAT
7030810 T
1 T
7030811 CTTTTAATTT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (143 bp):
TTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATTTAA
TGATTTACATTCTTTTAATTTTGATATTTAATCCTACAAAGTAAAAAGATTCTCATTTTAGGATT
TAATGATTTACAT
Found at i:7035103 original size:31 final size:31
Alignment explanation
Indices: 7035035--7035103 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
7035025 TTATAAAACT
7035035 ATCACTAAACTATTCAAAAGTTTTCATTTAA
1 ATCACTAAACTATTCAAAAGTTTTCATTTAA
** * * ** *
7035066 GCCACTAAACTATTTAGATTTTTTTATTTAA
1 ATCACTAAACTATTCAAAAGTTTTCATTTAA
7035097 ATCACTA
1 ATCACTA
7035104 GATTGTTAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (31 bp):
ATCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:7044524 original size:188 final size:186
Alignment explanation
Indices: 7044203--7044553 Score: 504
Period size: 188 Copynumber: 1.9 Consensus size: 186
7044193 TTTCATCTGC
* *
7044203 TTATATAAGAGGGAAGTTTTAAATTTTTTTTTAATGTTAATGATTATATAAAAAAATCCGCATGC
1 TTATATAAGAGGGAAGTTTTAAATTTTTTTTTAATGTTAATGATTATATAAAAAAATCCCCATGA
* * * * * * ***
7044268 ATATTACGATTTCATATGTGATGTGGGATTGAGTTGGAGATGAAGCTGAATAACCCGTTTGGATT
66 ATATTAAGAGTTCATATATGATGTGGGATAGAGTTGGAGATGAAGATGAATAACCCATTACAATT
*
7044333 ATTTAATTTAATTTAATTAAGTTTTACAAATATAATATATCAAATATATATTTTTA
131 ATTTAATTTAATTTAATTAAGCTTTACAAATATAATATATCAAATATATATTTTTA
** * * *
7044389 TTATATAAGAGGGGGGTTTTAATTTTTTTTTTAATTTTAATGATAATATATAAAAGAATCCCCAT
1 TTATATAAGAGGGAAGTTTTAAATTTTTTTTTAATGTTAATGAT--TATATAAAAAAATCCCCAT
* * *
7044454 GAATATTAAGGGTTCATATATGATGTGGGATAGAGTTGGAGATGACGATGAATAATCCATTACAA
64 GAATATTAAGAGTTCATATATGATGTGGGATAGAGTTGGAGATGAAGATGAATAACCCATTACAA
7044519 TTATTTAATTTAATTTAATTAAGCTTTACAAATAT
129 TTATTTAATTTAATTTAATTAAGCTTTACAAATAT
7044554 GCATGTCTTC
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
186 40 0.28
188 103 0.72
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.41
Consensus pattern (186 bp):
TTATATAAGAGGGAAGTTTTAAATTTTTTTTTAATGTTAATGATTATATAAAAAAATCCCCATGA
ATATTAAGAGTTCATATATGATGTGGGATAGAGTTGGAGATGAAGATGAATAACCCATTACAATT
ATTTAATTTAATTTAATTAAGCTTTACAAATATAATATATCAAATATATATTTTTA
Found at i:7045372 original size:27 final size:26
Alignment explanation
Indices: 7045332--7045392 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 26
7045322 AAAATAATAA
7045332 AAAATTATTTTATATAAATTTA-ATTTAT
1 AAAA-TATTTTATAT-AATTTATATTT-T
7045360 AAAATATTTTATATAATTTATTATTTT
1 AAAATATTTTATATAATTTA-TATTTT
7045387 AAAATA
1 AAAATA
7045393 AAAAAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.19
27 17 0.55
28 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAATATTTTATATAATTTATATTTT
Found at i:7045381 original size:14 final size:14
Alignment explanation
Indices: 7045336--7045381 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
7045326 TAATAAAAAA
7045336 TTATTTTATATAAAT
1 TTATTTTATAT-AAT
*
7045351 TTAATTTATA-AA-
1 TTATTTTATATAAT
*
7045363 ATATTTTATATAAT
1 TTATTTTATATAAT
7045377 TTATT
1 TTATT
7045382 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
12 8 0.32
13 4 0.16
14 4 0.16
15 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTTATATAAT
Found at i:7051862 original size:16 final size:16
Alignment explanation
Indices: 7051841--7051875 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7051831 CAAAAGTCAG
*
7051841 AATTGAAGATTATTTC
1 AATTGAAGATTATATC
7051857 AATTGAAGATTATATC
1 AATTGAAGATTATATC
7051873 AAT
1 AAT
7051876 CAAAGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
AATTGAAGATTATATC
Found at i:7054666 original size:7 final size:8
Alignment explanation
Indices: 7054647--7054682 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
7054637 TAAAAATGAT
7054647 AAAAATTC
1 AAAAATTC
7054655 AAAAATTC
1 AAAAATTC
7054663 AAAAATTC
1 AAAAATTC
7054671 -AAAATTC
1 AAAAATTC
7054678 AAAAA
1 AAAAA
7054683 AATAGCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTC
Found at i:7054683 original size:16 final size:16
Alignment explanation
Indices: 7054647--7054682 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
7054637 TAAAAATGAT
7054647 AAAAATTCAAAAATTC
1 AAAAATTCAAAAATTC
7054663 AAAAATTC-AAAATTC
1 AAAAATTCAAAAATTC
7054678 AAAAA
1 AAAAA
7054683 AATAGCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATTCAAAAATTC
Found at i:7059018 original size:36 final size:36
Alignment explanation
Indices: 7058976--7059047 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
7058966 AATTTTTTAA
7058976 AATTTTGTGAATCGAAAAAATAACATTAAAAGAGTT
1 AATTTTGTGAATCGAAAAAATAACATTAAAAGAGTT
*
7059012 AATTTTGTGAATGGAAAAAATAACATTAAAAGAGTT
1 AATTTTGTGAATCGAAAAAATAACATTAAAAGAGTT
7059048 TTGTCTAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (36 bp):
AATTTTGTGAATCGAAAAAATAACATTAAAAGAGTT
Found at i:7059606 original size:5 final size:5
Alignment explanation
Indices: 7059596--7059631 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
7059586 GTTATAAATT
7059596 ATATA ATATA A-A-A ATAT- ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT
7059632 GTTATAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
3 2 0.07
4 6 0.21
5 20 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:7059631 original size:17 final size:17
Alignment explanation
Indices: 7059591--7059623 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7059581 AATGTGTTAT
7059591 AAAT-TATATAATATAA
1 AAATATATATAATATAA
7059607 AAATATATATAATATAA
1 AAATATATATAATATAA
7059624 TATAATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATATATAATATAA
Found at i:7067763 original size:31 final size:31
Alignment explanation
Indices: 7067723--7067803 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
7067713 CTAAAAGAAT
7067723 TTGAAAAGTACAAGGACTAAAATTGACC-AA
1 TTGAAAAGTACAAGGACTAAAATTGACCAAA
*
7067753 TTCGAAAAGTACAAGGATTAAAATTGACCAAA
1 TT-GAAAAGTACAAGGACTAAAATTGACCAAA
*
7067785 TT--AAAGTACAAAGACTAAA
1 TTGAAAAGTACAAGGACTAAA
7067804 TCCACAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.33
30 2 0.04
31 25 0.54
32 4 0.09
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (31 bp):
TTGAAAAGTACAAGGACTAAAATTGACCAAA
Found at i:7074822 original size:159 final size:158
Alignment explanation
Indices: 7074534--7074844 Score: 480
Period size: 159 Copynumber: 2.0 Consensus size: 158
7074524 TATTTCATCA
* * * *
7074534 TATGATACATTACCTAACTAACCTCTAAAACGAACATAAAGTAAACTTCATTCAAACATGAAACA
1 TATGAGACACTACCTAACTAACCTCGAAAACAAACATAAAGTAAACTTCATTCAAACATGAAACA
* * * * * *
7074599 TCATGCATTAAAAAATGCAATGTTACTTTTGAGAAGTTCAATGGCTGACCCTTACAGAGAATAAA
66 ACATGCATCAAAAAATGCAATGTTACTTATGAAAAGTTCAATGGCTGAACCTCACAGAGAATAAA
*
7074664 ATCAAGTACCGGATTACCACACCACAAC
131 ATCAAGTAACGGATTACCACACCACAAC
*
7074692 TATGAGACACTACCTAACTAACCTCGAAAACAAACATAAAGTAAACTTTCATTCAAACATGAACC
1 TATGAGACACTACCTAACTAACCTCGAAAACAAACATAAAGTAAAC-TTCATTCAAACATGAAAC
*
7074757 AACATGCATCAAACAATGCAATGTTACTTATGAAAAAGTTCAATGGCT-AACCTCACAGAGAATA
65 AACATGCATCAAAAAATGCAATGTTACTTATG-AAAAGTTCAATGGCTGAACCTCACAGAGAATA
7074821 AAATCAAGTAACGGATTACCACAC
129 AAATCAAGTAACGGATTACCACAC
7074845 AACACCGGAG
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
158 42 0.30
159 82 0.59
160 14 0.10
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (158 bp):
TATGAGACACTACCTAACTAACCTCGAAAACAAACATAAAGTAAACTTCATTCAAACATGAAACA
ACATGCATCAAAAAATGCAATGTTACTTATGAAAAGTTCAATGGCTGAACCTCACAGAGAATAAA
ATCAAGTAACGGATTACCACACCACAAC
Found at i:7079717 original size:32 final size:29
Alignment explanation
Indices: 7079655--7079719 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 29
7079645 TTAATATAAT
*
7079655 ATTTGACATTTTTTTAATTTAGTACTTAA
1 ATTTGACATTTTTTTAAGTTAGTACTTAA
*
7079684 ATTTGACATTTTTTTCTTAAGTTGGTACTTAA
1 ATTTGACA--TTTTT-TTAAGTTAGTACTTAA
7079716 ATTT
1 ATTT
7079720 TTTGGAGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
31 5 0.16
32 18 0.58
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (29 bp):
ATTTGACATTTTTTTAAGTTAGTACTTAA
Found at i:7080537 original size:4 final size:4
Alignment explanation
Indices: 7080528--7080552 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7080518 GAAACAAAAT
7080528 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
7080553 GTTTATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7088020 original size:264 final size:264
Alignment explanation
Indices: 7087543--7088045 Score: 794
Period size: 264 Copynumber: 1.9 Consensus size: 264
7087533 CTAAATTTCC
* * *
7087543 TGTTTTGGTAGAAAAATAGAACATATCACTAAGTTGCAATTATGGAGGCAAACATTAATGTTAGA
1 TGTTTTGGCAGAAAAACAGAACATATCACTAAGTTGCAATTATGGAGACAAACATTAATGTTAGA
* *
7087608 AAACCAGTAATCCATAAAGACCAGACATTGGTTTAAAAGGCTTCAGTGGTTTGTAGATATATAGT
66 AAACCAGTAATCCATAAAGACCAGACATTGGTTTAAAAGGCTTCAGTGGTTTCTAGACATATAGT
* *
7087673 ATTAATGTCATATGTTGAAGGATGATCTTTGATCTATCTTTTCATATGTTAAAAGTAACTATGAT
131 ATTAATGTCATATGTTGAAGGATGATCATTGATCTATCTTTTCATATGTTAAAAGTAACTATAAT
* *
7087738 GGTCTATTTGGACTTGAAACAAGCACAATATTTGAAATCTGACACTAAGTTCCACTTATGTATTA
196 GGTCTATTTGGACTTGAAACAAGCACAAAATTTGAAATATGACACTAAGTTCCACTTATGTATTA
7087803 TATA
261 TATA
* * ***
7087807 TGTTTTGGCAGAAAAACAGAACATATCAGTAAGTTGCAATTGTGGAGACGGGCA-TAATGTTAGA
1 TGTTTTGGCAGAAAAACAGAACATATCACTAAGTTGCAATTATGGAGACAAACATTAATGTTAGA
* * * *
7087871 AAACCAGT-ATCCATAAAGACCAGGCATTGGTTTACAAGGCTTCGGTGGCCTTTCTGGACATATA
66 AAACCAGTAATCCATAAAGACCAGACATTGGTTTAAAAGGCTTCAGTGG--TTTCTAGACATATA
*
7087935 GTATTAATGTCATATGTTGAAGGATGATCATTGATCTATTTTTTCATATGTTAAAAGTAACTATA
129 GTATTAATGTCATATGTTGAAGGATGATCATTGATCTATCTTTTCATATGTTAAAAGTAACTATA
*
7088000 ATGGTCTATTTGGGCTTGAAACAAGCACAAAATTTGAAATATGACA
194 ATGGTCTATTTGGACTTGAAACAAGCACAAAATTTGAAATATGACA
7088046 ATTTCTTCCC
Statistics
Matches: 217, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 37 0.17
263 18 0.08
264 162 0.75
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (264 bp):
TGTTTTGGCAGAAAAACAGAACATATCACTAAGTTGCAATTATGGAGACAAACATTAATGTTAGA
AAACCAGTAATCCATAAAGACCAGACATTGGTTTAAAAGGCTTCAGTGGTTTCTAGACATATAGT
ATTAATGTCATATGTTGAAGGATGATCATTGATCTATCTTTTCATATGTTAAAAGTAACTATAAT
GGTCTATTTGGACTTGAAACAAGCACAAAATTTGAAATATGACACTAAGTTCCACTTATGTATTA
TATA
Found at i:7093518 original size:162 final size:163
Alignment explanation
Indices: 7093223--7093540 Score: 491
Period size: 162 Copynumber: 2.0 Consensus size: 163
7093213 ATTGTACCGA
*
7093223 AAAGTTCCTTCAGGATTCTGGCTTACCCCACATCACGATCCGGCTATGCGGTTTCATGCAAGTAA
1 AAAGTTCCTTCAGGATTCTGGCTTACCCCACATCACAATCCGGCTATGCGGTTTCATGCAAGTAA
* * *
7093288 ATGTCATCTATAACTCAATCTTTGCAGATATGTATACGTACATGTGTGTGTATATGTGTACGATG
66 ATGTCATCTATAACTCAATCTTTGCAGATATGTATACGTACATATGTGTGTACATGCGTACGATG
* *
7093353 TATGTATGTGTGTGTGTGTGTCTGTGTGTGTGT
131 TATGTATGTATGTCTGTGTGTCTGTGTGTGTGT
7093386 AAAGTTCCTTCAGGATT-TCGGCTTACCCCACATCACAATCCGG-TATGCGGTTTCATGCAAGTA
1 AAAGTTCCTTCAGGATTCT-GGCTTACCCCACATCACAATCCGGCTATGCGGTTTCATGCAAGTA
* * *
7093449 AATGTCATCTATAACTCAATCTTTGCAGATATGTATACGTACATATG-GATGTGCGTGCG-ATGT
65 AATGTCATCTATAACTCAATCTTTGCAGATATGTATACGTACATATGTG-TGTACATGCGTACG-
*
7093512 ATGTATGTATGTATGTCTGTGTGTGTGTG
128 ATGTATGTATGTATGTCTGTGTGTCTGTG
7093541 CGTGCGGCGT
Statistics
Matches: 142, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
161 3 0.02
162 99 0.70
163 40 0.28
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (163 bp):
AAAGTTCCTTCAGGATTCTGGCTTACCCCACATCACAATCCGGCTATGCGGTTTCATGCAAGTAA
ATGTCATCTATAACTCAATCTTTGCAGATATGTATACGTACATATGTGTGTACATGCGTACGATG
TATGTATGTATGTCTGTGTGTCTGTGTGTGTGT
Found at i:7095459 original size:15 final size:17
Alignment explanation
Indices: 7095439--7095479 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7095429 GTTATGTCGG
*
7095439 ATTTTGA-TTATTTT-A
1 ATTTTGAGTCATTTTCA
7095454 ATTTTGAGTCATTTTCA
1 ATTTTGAGTCATTTTCA
*
7095471 ATTTCGAGT
1 ATTTTGAGT
7095480 TGAGGGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.56
Consensus pattern (17 bp):
ATTTTGAGTCATTTTCA
Found at i:7095883 original size:22 final size:22
Alignment explanation
Indices: 7095858--7095907 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
7095848 CTAAGTCTTT
7095858 TTATAATTTAA-AAAATTTTAAA
1 TTATAATTTAATAAAATTTT-AA
7095880 TTATTAA--TAATAAAATTTTAA
1 TTA-TAATTTAATAAAATTTTAA
7095901 TT-TAATT
1 TTATAATT
7095908 CTTTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
19 3 0.12
21 7 0.29
22 11 0.46
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATAATTTAATAAAATTTTAA
Found at i:7099916 original size:21 final size:22
Alignment explanation
Indices: 7099892--7099938 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
7099882 ACAAAAGCAC
7099892 AAAATTTTTAA-TGAAAAT-AAT
1 AAAATTTTTAAGT-AAAATGAAT
*
7099913 AAAATTTTTGAGTAAAATGAAT
1 AAAATTTTTAAGTAAAATGAAT
7099935 AAAA
1 AAAA
7099939 CGCCTCTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
AAAATTTTTAAGTAAAATGAAT
Found at i:7102641 original size:12 final size:12
Alignment explanation
Indices: 7102626--7102656 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
7102616 GGCGGTGGCA
7102626 GTGGCGGCAGCG
1 GTGGCGGCAGCG
7102638 GTGGCGGCAGCG
1 GTGGCGGCAGCG
7102650 GTGGCGG
1 GTGGCGG
7102657 GTATTCGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.61, T:0.10
Consensus pattern (12 bp):
GTGGCGGCAGCG
Found at i:7113302 original size:61 final size:61
Alignment explanation
Indices: 7113237--7113363 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
7113227 TTATTTAAAA
* * *
7113237 TTTTAGAATTAGAACTAAATTGTA-AAATTTTATAAA-TGTTGAGGGCTAAATTTATTGAATT
1 TTTTAGAATTAGAACTAAAATG-ACAAATTTTATAAACT-TTAAGGACTAAATTTATTGAATT
* * *
7113298 TTTTAGAATTCGAACTAAAATGACAAATTTTGTAAACTTTAAGGACTAAATTTGTTGAATT
1 TTTTAGAATTAGAACTAAAATGACAAATTTTATAAACTTTAAGGACTAAATTTATTGAATT
7113359 TTTTA
1 TTTTA
7113364 TATTTAGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 1 0.02
61 56 0.97
62 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAAATGACAAATTTTATAAACTTTAAGGACTAAATTTATTGAATT
Found at i:7117735 original size:27 final size:26
Alignment explanation
Indices: 7117679--7117737 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
7117669 AAATAAAAAT
*
7117679 AAAAATAAATATTTTTCAAAAATTCA
1 AAAAATAAATATTTTTAAAAAATTCA
7117705 AAAAA-AAATATTTTTTGAAAAAATT-A
1 AAAAATAAATA-TTTTT-AAAAAATTCA
7117731 GAAAAAT
1 -AAAAAT
7117738 TAGAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 5 0.18
26 11 0.39
27 12 0.43
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAATAAATATTTTTAAAAAATTCA
Found at i:7128488 original size:11 final size:11
Alignment explanation
Indices: 7128469--7128512 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
7128459 AACACCGAAC
*
7128469 TTTTTGGGTAA
1 TTTTCGGGTAA
7128480 TTTTCGGGTAA
1 TTTTCGGGTAA
7128491 --TTCGGGTAA
1 TTTTCGGGTAA
7128500 TTTTCGGGTAA
1 TTTTCGGGTAA
7128511 TT
1 TT
7128513 CGGTTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.18, C:0.07, G:0.27, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:7128496 original size:9 final size:9
Alignment explanation
Indices: 7128482--7128547 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
7128472 TTGGGTAATT
7128482 TTCGGGTAA
1 TTCGGGTAA
7128491 TTCGGGTAA
1 TTCGGGTAA
7128500 TTTTCGGGTAA
1 --TTCGGGTAA
*
7128511 TTCGGTTAA
1 TTCGGGTAA
*
7128520 TTCGGTTAA
1 TTCGGGTAA
7128529 -TCGGGTAA
1 TTCGGGTAA
7128537 TTCGGGTAA
1 TTCGGGTAA
7128546 TT
1 TT
7128548 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.13
9 36 0.69
11 9 0.17
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:7128499 original size:20 final size:18
Alignment explanation
Indices: 7128482--7128547 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 18
7128472 TTGGGTAATT
7128482 TTCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAA
*
7128500 TTTTCGGGTAATTCGGTTAA
1 --TTCGGGTAATTCGGGTAA
*
7128520 TTCGGTTAA-TCGGGTAA
1 TTCGGGTAATTCGGGTAA
7128537 TTCGGGTAATT
1 TTCGGGTAATT
7128548 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.37
18 9 0.22
20 17 0.41
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (18 bp):
TTCGGGTAATTCGGGTAA
Found at i:7129403 original size:12 final size:12
Alignment explanation
Indices: 7129372--7129403 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7129362 CAGATTTGCA
7129372 TTTCTTT-TTAT
1 TTTCTTTATTAT
7129383 TTT-TTTATTAT
1 TTTCTTTATTAT
7129394 TTTCTTTATT
1 TTTCTTTATT
7129404 TTGTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 10 0.53
12 6 0.32
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTATTAT
Found at i:7130198 original size:3 final size:3
Alignment explanation
Indices: 7130192--7130294 Score: 77
Period size: 3 Copynumber: 34.3 Consensus size: 3
7130182 TTTAGTCGCT
* *
7130192 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * *
7130237 TTA TTA TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7130282 TTA CTA TCA TTA T
1 TTA TTA TTA TTA T
7130295 ATTTATACCT
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
2 5 0.06
3 68 0.86
4 6 0.08
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7130224 original size:12 final size:12
Alignment explanation
Indices: 7130210--7130294 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
7130200 TTGTTTATTT
*
7130210 TATTATTATTAT
1 TATTATTATTAC
7130222 TATTATTATTTAC
1 TATTATTA-TTAC
7130235 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
7130250 TATTATTGTTAG
1 TATTATTATTAC
*
7130262 TATTATTACTAC
1 TATTATTATTAC
7130274 TATTATTATTAC
1 TATTATTATTAC
*
7130286 TATCATTAT
1 TATTATTAT
7130295 ATTTATACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:7130618 original size:12 final size:13
Alignment explanation
Indices: 7130601--7130629 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7130591 ACTATTTACT
7130601 TTTTTTATT-TTA
1 TTTTTTATTATTA
7130613 TTTTTTATTATTA
1 TTTTTTATTATTA
7130626 TTTT
1 TTTT
7130630 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:7137029 original size:21 final size:22
Alignment explanation
Indices: 7137003--7137049 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7136993 CTCTGCTCAA
*
7137003 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
7137024 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
7137046 ACTC
1 ACTC
7137050 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:7141178 original size:5 final size:5
Alignment explanation
Indices: 7141168--7141198 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
7141158 TCAGTGTCAG
7141168 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
7141199 TTTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:7144838 original size:15 final size:16
Alignment explanation
Indices: 7144811--7144840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7144801 ATGATCAACA
7144811 AAAAAAATGTATATAT
1 AAAAAAATGTATATAT
7144827 AAAAAAAT-TATATA
1 AAAAAAATGTATATA
7144841 CTTCTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAAAATGTATATAT
Found at i:7161535 original size:15 final size:15
Alignment explanation
Indices: 7161515--7161545 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7161505 AGTTAATTGA
7161515 TGATTAAGATTTAAT
1 TGATTAAGATTTAAT
7161530 TGATTAAGATTTAAT
1 TGATTAAGATTTAAT
7161545 T
1 T
7161546 ATAATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (15 bp):
TGATTAAGATTTAAT
Found at i:7162640 original size:19 final size:19
Alignment explanation
Indices: 7162616--7162655 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7162606 GCTTATGCGT
7162616 CAGGATGCACCTCGTGTGC
1 CAGGATGCACCTCGTGTGC
* *
7162635 CAGGATGCACTTTGTGTGC
1 CAGGATGCACCTCGTGTGC
7162654 CA
1 CA
7162656 AAATGCGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (19 bp):
CAGGATGCACCTCGTGTGC
Found at i:7168263 original size:24 final size:24
Alignment explanation
Indices: 7168236--7168286 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
7168226 TAAATTATGA
7168236 TATTTTCATATGCGACAAACTTAT
1 TATTTTCATATGCGACAAACTTAT
7168260 TATTTTCATATGCGACAAACTTAT
1 TATTTTCATATGCGACAAACTTAT
7168284 TAT
1 TAT
7168287 CACGTGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (24 bp):
TATTTTCATATGCGACAAACTTAT
Found at i:7170534 original size:34 final size:34
Alignment explanation
Indices: 7170487--7170554 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
7170477 AAAGAAAGGG
*
7170487 AAGGGAAGGAAAGTTTCATCCCTTAAAAAAGTTT
1 AAGGGAAGAAAAGTTTCATCCCTTAAAAAAGTTT
* *
7170521 AAGGGAAGAAAAGTTTCATTCTTTAAAAAAGTTT
1 AAGGGAAGAAAAGTTTCATCCCTTAAAAAAGTTT
7170555 TCTCCTTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (34 bp):
AAGGGAAGAAAAGTTTCATCCCTTAAAAAAGTTT
Found at i:7173210 original size:19 final size:18
Alignment explanation
Indices: 7173186--7173223 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7173176 GATCCCATTT
7173186 TATAATATATATATATACA
1 TATAATATATAT-TATACA
*
7173205 TATAATTTATATTATACA
1 TATAATATATATTATACA
7173223 T
1 T
7173224 CAACAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATATATATTATACA
Found at i:7174765 original size:15 final size:15
Alignment explanation
Indices: 7174745--7174777 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7174735 GTCTCAAGAA
*
7174745 TTTCCTCCTTATCCT
1 TTTCCTCCTTATCAT
7174760 TTTCCTCCTTATCAT
1 TTTCCTCCTTATCAT
7174775 TTT
1 TTT
7174778 TGGGTTTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCCTCCTTATCAT
Found at i:7178960 original size:68 final size:68
Alignment explanation
Indices: 7178851--7178982 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 68
7178841 TAAAGCCAAT
*
7178851 TTTTGTTTTCAGTTTTGTATACTATAGCAGTTATCACCATTGTACATTAGCAAATATACATAATC
1 TTTTGTTTTCAGTTTTGTATACTATAGCAGTTATCACCATTGTACATTAACAAATATACATAATC
7178916 AAA
66 AAA
* *
7178919 TTTTGTTTTCAGTTTTGTATACTGTAGCAGTTAAT-ACCATTGTACATTAACATATATACATAAT
1 TTTTGTTTTCAGTTTTGTATACTATAGCAGTT-ATCACCATTGTACATTAACAAATATACATAAT
7178983 GAGAAAACTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 58 0.97
69 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (68 bp):
TTTTGTTTTCAGTTTTGTATACTATAGCAGTTATCACCATTGTACATTAACAAATATACATAATC
AAA
Found at i:7180068 original size:111 final size:111
Alignment explanation
Indices: 7179940--7180183 Score: 488
Period size: 111 Copynumber: 2.2 Consensus size: 111
7179930 TAGTTTAATC
7179940 AACAAAGAAACTAAAGAGAAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGAACCTAAA
1 AACAAAGAAACTAAAGAGAAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGAACCTAAA
7180005 AACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
66 AACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
7180051 AACAAAGAAACTAAAGAGAAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGAACCTAAA
1 AACAAAGAAACTAAAGAGAAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGAACCTAAA
7180116 AACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
66 AACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
7180162 AACAAAGAAACTAAAGAGAAAA
1 AACAAAGAAACTAAAGAGAAAA
7180184 CCTTGCTGTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 133 1.00
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (111 bp):
AACAAAGAAACTAAAGAGAAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGAACCTAAA
AACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
Found at i:7181076 original size:4 final size:4
Alignment explanation
Indices: 7181067--7181101 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
7181057 AACTTTGGTA
7181067 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
7181102 AATCATCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:7191831 original size:41 final size:41
Alignment explanation
Indices: 7191765--7191859 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
7191755 GAGATATTCT
* * *
7191765 AGAAATATTTTATTTTATGTTTTAGTAGTTTATTAGAAGAAG
1 AGAATTATTTT-TCTTATCTTTTAGTAGTTTATTAGAAGAAG
* *
7191807 GGAATTATTTTTCTTATCTTTTAGTAGTTTATTAGAATAAG
1 AGAATTATTTTTCTTATCTTTTAGTAGTTTATTAGAAGAAG
7191848 AGAATTATTTTT
1 AGAATTATTTTT
7191860 ACAATTAGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 38 0.81
42 9 0.19
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.51
Consensus pattern (41 bp):
AGAATTATTTTTCTTATCTTTTAGTAGTTTATTAGAAGAAG
Found at i:7191990 original size:35 final size:35
Alignment explanation
Indices: 7191951--7192020 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
7191941 CTTGAAAACT
7191951 TTCATGGCATCTAAGATAGGTTATCTCTAGTAGAA
1 TTCATGGCATCTAAGATAGGTTATCTCTAGTAGAA
*
7191986 TTCATGGCATCTAAGCTAGGTTATCTCTAGTAGAA
1 TTCATGGCATCTAAGATAGGTTATCTCTAGTAGAA
7192021 AGTTTCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (35 bp):
TTCATGGCATCTAAGATAGGTTATCTCTAGTAGAA
Found at i:7194120 original size:61 final size:61
Alignment explanation
Indices: 7194037--7194160 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
7194027 AAAGATGCTC
* *
7194037 TACAAGTTCCTGAGTGGAAGGAGGCTATTTTAGAGGAGATGAGCACTCTTGAAAAAATAGG
1 TACAAGTTCCTGAGTGGAAGGAGGCTATTTTAGAAGAGATGAGCACTCTTGAAAAAACAGG
* * *
7194098 TACATGTTCCTGATTGGAAGGAGGCTATTTTAGAAGAGATGCGCACTCTTGAAAAAACAGG
1 TACAAGTTCCTGAGTGGAAGGAGGCTATTTTAGAAGAGATGAGCACTCTTGAAAAAACAGG
7194159 TA
1 TA
7194161 TATCAGAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (61 bp):
TACAAGTTCCTGAGTGGAAGGAGGCTATTTTAGAAGAGATGAGCACTCTTGAAAAAACAGG
Found at i:7197767 original size:46 final size:46
Alignment explanation
Indices: 7197714--7197804 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
7197704 AAAATTTTTG
*
7197714 ATCGGTGCAATCAAAACTTTTGGTAATTCAATAATCAAGTTATAAA
1 ATCGGTGCAATCAAAACTTTTAGTAATTCAATAATCAAGTTATAAA
7197760 ATCGGTGCAATCAAAACTTTTAGTAATTCAATAATCAAGTTATAA
1 ATCGGTGCAATCAAAACTTTTAGTAATTCAATAATCAAGTTATAA
7197805 CTTTTTTTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (46 bp):
ATCGGTGCAATCAAAACTTTTAGTAATTCAATAATCAAGTTATAAA
Found at i:7198893 original size:4 final size:4
Alignment explanation
Indices: 7198884--7198918 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
7198874 GTAACGAATT
7198884 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
7198919 TACCAAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:7205292 original size:26 final size:26
Alignment explanation
Indices: 7205263--7205315 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7205253 GTCCTATATG
7205263 TTATCTGGTGTGCTCTTCTTCTTTAA
1 TTATCTGGTGTGCTCTTCTTCTTTAA
7205289 TTATCTGGTGTGCTCTTCTTCTTTAA
1 TTATCTGGTGTGCTCTTCTTCTTTAA
7205315 T
1 T
7205316 ATTTTGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (26 bp):
TTATCTGGTGTGCTCTTCTTCTTTAA
Found at i:7225006 original size:21 final size:20
Alignment explanation
Indices: 7224966--7225008 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7224956 ACATATAAAG
*
7224966 AATCAAAAATAATTGGACAA
1 AATCAAAAATAATTGAACAA
7224986 AATCAAAAATAATTTGAACAA
1 AATCAAAAATAA-TTGAACAA
7225007 AA
1 AA
7225009 CTCGTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.21
Consensus pattern (20 bp):
AATCAAAAATAATTGAACAA
Found at i:7226990 original size:11 final size:11
Alignment explanation
Indices: 7226974--7227024 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
7226964 ATAAATCAAT
7226974 AAAATTAACTC
1 AAAATTAACTC
*
7226985 AAAATTATACTA
1 AAAATTA-ACTC
*
7226997 ATAAATCAA-T-
1 A-AAATTAACTC
7227007 AAAATTAACTC
1 AAAATTAACTC
7227018 AAAATTA
1 AAAATTA
7227025 TAGAGGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 15 0.45
12 5 0.15
13 5 0.15
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTAACTC
Found at i:7226997 original size:33 final size:33
Alignment explanation
Indices: 7226956--7227026 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
7226946 AAATTTGATT
7226956 TTATACTAATAAATCAATAAAATTAACTCAAAA
1 TTATACTAATAAATCAATAAAATTAACTCAAAA
7226989 TTATACTAATAAATCAATAAAATTAACTCAAAA
1 TTATACTAATAAATCAATAAAATTAACTCAAAA
7227022 TTATA
1 TTATA
7227027 GAGGATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.32
Consensus pattern (33 bp):
TTATACTAATAAATCAATAAAATTAACTCAAAA
Found at i:7230996 original size:49 final size:49
Alignment explanation
Indices: 7230939--7231038 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
7230929 ATATATATGA
7230939 GAAAGTATTTTTCTCAATTATGTGACACAAAATGTCTGCTTTTTGGCTG
1 GAAAGTATTTTTCTCAATTATGTGACACAAAATGTCTGCTTTTTGGCTG
7230988 GAAAGTATTTTTCTCAATTATGTGACACAAAATGTCTGCTTTTTGGCTG
1 GAAAGTATTTTTCTCAATTATGTGACACAAAATGTCTGCTTTTTGGCTG
7231037 GA
1 GA
7231039 GAAGCAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (49 bp):
GAAAGTATTTTTCTCAATTATGTGACACAAAATGTCTGCTTTTTGGCTG
Found at i:7233787 original size:10 final size:10
Alignment explanation
Indices: 7233772--7233805 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
7233762 TAGATTAAAT
7233772 AAATTATTAA
1 AAATTATTAA
7233782 AAATTATTAA
1 AAATTATTAA
7233792 AAATTATTAA
1 AAATTATTAA
7233802 AAAT
1 AAAT
7233806 AAAAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTATTAA
Found at i:7240370 original size:11 final size:10
Alignment explanation
Indices: 7240332--7240375 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
7240322 TCATTGGCTC
7240332 AATAATTAGTA
1 AATAATTA-TA
7240343 AATAAATTATA
1 AAT-AATTATA
7240354 AA-AATTACTA
1 AATAATTA-TA
7240364 AATAATTATA
1 AATAATTATA
7240374 AA
1 AA
7240376 CCGCTTCGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.17
10 8 0.27
11 12 0.40
12 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
AATAATTATA
Found at i:7240372 original size:20 final size:21
Alignment explanation
Indices: 7240335--7240375 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7240325 TTGGCTCAAT
*
7240335 AATTAGTAAATAAATTATAAA
1 AATTACTAAATAAATTATAAA
7240356 AATTACTAAAT-AATTATAAA
1 AATTACTAAATAAATTATAAA
7240376 CCGCTTCGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTACTAAATAAATTATAAA
Found at i:7249668 original size:233 final size:231
Alignment explanation
Indices: 7249246--7249714 Score: 780
Period size: 233 Copynumber: 2.0 Consensus size: 231
7249236 GCAAAGGAGC
* *
7249246 TGATCTCTCTGCTATTACTTCTTTGCAAAAGGTTCGAAAATGAGCTTCCCGTCGTTTGTTCTCCT
1 TGATGTCTCTGCTATTACTTCTTTGCAAAAGGTTCGAAAACGAGCTTCCCGTCGTTTGTTCTCCT
7249311 TAGATTGGTCGAACGGTGAAGAAGATGATGATGATGACGACGATGATCTTTTTAAAGCTATTGAT
66 TAGATTGGTCGAACGGTGAAGAAGATGATGATGATGACGACGATGATCTTTTTAAAGCTATTGAT
* *
7249376 GATGATGGTGATGACAACAATGAGGACAATGATGCGCCAGTTGCAGAGATGTCAATTCTGCCCTG
131 GATGATGGTGATGACAACAATGAGGACAATGATGCGCCAGTGGCAGAGATGTCAATTCTGCCCCG
*
7249441 AAATCGAGAACTCAACTCAAACCTGACCTGGTCCGA
196 AAATCGAAAACTCAACTCAAACCTGACCTGGTCCGA
* *
7249477 TGATGTCTCTGCTATTA-TTCTTTGCAAAAGGCTT-GAAAACGGGCTTCCTGTCGTTTGTTCTCC
1 TGATGTCTCTGCTATTACTTCTTTGCAAAAGG-TTCGAAAACGAGCTTCCCGTCGTTTGTTCTCC
*
7249540 TTAGATTGGTTGAACGGTGAAGAAGATGATGATGATGACGACGACGATGATCTTTTTAAAGCTAT
65 TTAGATTGGTCGAACGGTGAAGAAGATGATGATGAT---GACGACGATGATCTTTTTAAAGCTAT
* * *
7249605 TGATGGTGATGGTGATGACGACAATGAGGACAATGATGCGCCAGTGGCAGAGTTGTCAATTCTGC
127 TGATGATGATGGTGATGACAACAATGAGGACAATGATGCGCCAGTGGCAGAGATGTCAATTCTGC
*
7249670 CCCGAAATCGAAAACTCAACTCGAACCTGACCTGGTCCGA
192 CCCGAAATCGAAAACTCAACTCAAACCTGACCTGGTCCGA
7249710 TGATG
1 TGATG
7249715 ATAATGACGG
Statistics
Matches: 222, Mismatches: 12, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
230 75 0.34
231 18 0.08
233 129 0.58
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (231 bp):
TGATGTCTCTGCTATTACTTCTTTGCAAAAGGTTCGAAAACGAGCTTCCCGTCGTTTGTTCTCCT
TAGATTGGTCGAACGGTGAAGAAGATGATGATGATGACGACGATGATCTTTTTAAAGCTATTGAT
GATGATGGTGATGACAACAATGAGGACAATGATGCGCCAGTGGCAGAGATGTCAATTCTGCCCCG
AAATCGAAAACTCAACTCAAACCTGACCTGGTCCGA
Found at i:7249731 original size:18 final size:18
Alignment explanation
Indices: 7249707--7249759 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
7249697 TGACCTGGTC
*
7249707 CGATGATGATAATGACGG
1 CGATGATGACAATGACGG
* *
7249725 TGATGATGACAATGATGG
1 CGATGATGACAATGACGG
7249743 CGATGAT-AGCAATGACG
1 CGATGATGA-CAATGACG
7249760 ATGCACAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (18 bp):
CGATGATGACAATGACGG
Found at i:7254807 original size:45 final size:45
Alignment explanation
Indices: 7254743--7254832 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
7254733 TTGTAGTTCA
7254743 GTTACAAGCAGATGATTTCATTTACAGTATATGTTAACTCAATTT
1 GTTACAAGCAGATGATTTCATTTACAGTATATGTTAACTCAATTT
7254788 GTTACAAGCAGATGATTTCATTTACAGTATATGTTAACTCAATTT
1 GTTACAAGCAGATGATTTCATTTACAGTATATGTTAACTCAATTT
7254833 CAATTTGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (45 bp):
GTTACAAGCAGATGATTTCATTTACAGTATATGTTAACTCAATTT
Found at i:7257192 original size:23 final size:23
Alignment explanation
Indices: 7257165--7257281 Score: 234
Period size: 23 Copynumber: 5.1 Consensus size: 23
7257155 ACCCTTATAC
7257165 TAAAACTCAAATTGTATTTTACT
1 TAAAACTCAAATTGTATTTTACT
7257188 TAAAACTCAAATTGTATTTTACT
1 TAAAACTCAAATTGTATTTTACT
7257211 TAAAACTCAAATTGTATTTTACT
1 TAAAACTCAAATTGTATTTTACT
7257234 TAAAACTCAAATTGTATTTTACT
1 TAAAACTCAAATTGTATTTTACT
7257257 TAAAACTCAAATTGTATTTTACT
1 TAAAACTCAAATTGTATTTTACT
7257280 TA
1 TA
7257282 TTCTACTAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (23 bp):
TAAAACTCAAATTGTATTTTACT
Found at i:7260794 original size:15 final size:16
Alignment explanation
Indices: 7260774--7260807 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7260764 AACCATTTAA
7260774 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
7260789 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
7260805 AAA
1 AAA
7260808 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:7262620 original size:54 final size:56
Alignment explanation
Indices: 7262558--7262700 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 56
7262548 TATCAAGGAT
* * *
7262558 TAACTTGGACAAAAAAATTCAAGCCCCAATG-GGGAAGAATTGTCAAGTT-AGGCC
1 TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGGAAGAATCGCCAAGTTAAGGCC
* * *
7262612 TAACTTGGAGAAAAAAATTCAAGGTCCAATGCGGGAATAATCGCCAAGTTCAAGGCC
1 TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGGAAGAATCGCCAAGTT-AAGGCC
*
7262669 TAACTTGGACTAAAAAAAGTTTAAGCTCCAAT
1 TAACTTGGAC-AAAAAAA-TTCAAGCTCCAAT
7262701 ATGGAAATAG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 28 0.37
55 15 0.20
57 14 0.19
58 7 0.09
59 11 0.15
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (56 bp):
TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGGAAGAATCGCCAAGTTAAGGCC
Found at i:7262719 original size:59 final size:56
Alignment explanation
Indices: 7262558--7262722 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 56
7262548 TATCAAGGAT
* * *
7262558 TAACTTGGACAAAAAAATTCAAGCCCCAATGGGGAAGA-ATTGTCAAGTT--AGGCC
1 TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGAA-ATATTGCCAAGTTCAAGGCC
* * * *
7262612 TAACTTGGAGAAAAAAATTCAAGGTCCAATGCGGGAATAATCGCCAAGTTCAAGGCC
1 TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGAAAT-ATTGCCAAGTTCAAGGCC
* **
7262669 TAACTTGGACTAAAAAAAGTTTAAGCTCCAATATGGAAATAGTTGCCAAGTTCA
1 TAACTTGGAC-AAAAAAA-TTCAAGCTCCAATGCGGAAATA-TTGCCAAGTTCA
7262723 GGCTTGAAAC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 31 0.34
55 9 0.10
57 14 0.16
58 8 0.09
59 27 0.30
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (56 bp):
TAACTTGGACAAAAAAATTCAAGCTCCAATGCGGAAATATTGCCAAGTTCAAGGCC
Found at i:7265283 original size:21 final size:21
Alignment explanation
Indices: 7265257--7265306 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
7265247 AGCGGTGGCG
* *
7265257 GTGAGATTTGTTACTGTAGCA
1 GTGAGATTGGATACTGTAGCA
*
7265278 GTGAGATTGGATACTGTAGCG
1 GTGAGATTGGATACTGTAGCA
7265299 GTGAGATT
1 GTGAGATT
7265307 AGAAACAGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTGGATACTGTAGCA
Found at i:7266263 original size:15 final size:15
Alignment explanation
Indices: 7266243--7266274 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7266233 GCTGTGTTTT
7266243 TGTCTGCAAGAAAAC
1 TGTCTGCAAGAAAAC
7266258 TGTCTGCAAGAAAAC
1 TGTCTGCAAGAAAAC
7266273 TG
1 TG
7266275 GATAAAATTG
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:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (15 bp):
TGTCTGCAAGAAAAC
Found at i:7266384 original size:50 final size:50
Alignment explanation
Indices: 7266309--7266406 Score: 196
Period size: 50 Copynumber: 2.0 Consensus size: 50
7266299 AAAATATGGG
7266309 CATTTTTGTCTGCAAGAAATCTATTCTGCTGGCTGTGTTTAAGCTGGATA
1 CATTTTTGTCTGCAAGAAATCTATTCTGCTGGCTGTGTTTAAGCTGGATA
7266359 CATTTTTGTCTGCAAGAAATCTATTCTGCTGGCTGTGTTTAAGCTGGA
1 CATTTTTGTCTGCAAGAAATCTATTCTGCTGGCTGTGTTTAAGCTGGA
7266407 GGTTTTACCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (50 bp):
CATTTTTGTCTGCAAGAAATCTATTCTGCTGGCTGTGTTTAAGCTGGATA
Found at i:7270579 original size:81 final size:78
Alignment explanation
Indices: 7270423--7270572 Score: 171
Period size: 81 Copynumber: 1.9 Consensus size: 78
7270413 TTTAATATTT
* * *
7270423 AATTTAATATTTAAGTTTTTTTTTTAATTTAGTACCCGAGTTTGACTTCAATATTTAAATTGGTG
1 AATTTAATATTTAAGTTTTTTTTTTAATTAAGTACCCAAGTTTGACTTCAATATTTAAATTAGTG
7270488 CTTGAGTTTTTCC
66 CTTGAGTTTTTCC
* * *
7270501 AATTTGATATTTGAA-TTTATTTTGTCTTAATTAAGTACCTAAGTTT-AGCTTCAATGA-TTAAT
1 AATTTAATATTT-AAGTTT-TTTT-T-TTAATTAAGTACCCAAGTTTGA-CTTCAAT-ATTTAAA
7270563 TTAGTGCTTG
60 TTAGTGCTTG
7270573 GATTTTTTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
78 14 0.23
79 6 0.10
80 2 0.03
81 37 0.62
82 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.50
Consensus pattern (78 bp):
AATTTAATATTTAAGTTTTTTTTTTAATTAAGTACCCAAGTTTGACTTCAATATTTAAATTAGTG
CTTGAGTTTTTCC
Found at i:7270749 original size:31 final size:30
Alignment explanation
Indices: 7270661--7270751 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 30
7270651 TTGTTTGATC
* * *
7270661 TAGGTACC-AATGTGAATATTTAAGCCAAACT
1 TAGGTACCAAAT-TGAATA-TTAAACAAAATT
* *
7270692 TAGATACCAAATTGAGACA--AAACAAAATT
1 TAGGTACCAAATTGA-ATATTAAACAAAATT
7270721 TAGGTACCAAATTGAATATTGAAACAAAATT
1 TAGGTACCAAATTGAATATT-AAACAAAATT
7270752 CAAGTACTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.04
29 21 0.44
31 20 0.42
32 5 0.10
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (30 bp):
TAGGTACCAAATTGAATATTAAACAAAATT
Found at i:7275326 original size:2 final size:2
Alignment explanation
Indices: 7275319--7275350 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7275309 CATATGTTTA
7275319 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7275351 TTAACACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Done.