Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 42
Found at i:3660711 original size:16 final size:16
Alignment explanation
Indices: 3660690--3660723 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3660680 TTACTATTCA
*
3660690 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
3660706 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
3660722 CG
1 CG
3660724 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:3664824 original size:37 final size:38
Alignment explanation
Indices: 3664769--3664852 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
3664759 TGGTAACCAA
3664769 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
3664806 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
3664843 -GTTGAAAAAT
1 CTTTGAAAAAT
3664853 GATAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 33 0.77
38 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:3670801 original size:24 final size:23
Alignment explanation
Indices: 3670733--3670810 Score: 111
Period size: 23 Copynumber: 3.3 Consensus size: 23
3670723 GGTTTTACAC
* *
3670733 GGTCTTTCGGGATAATTCTACGT
1 GGTCCTTCGGGACAATTCTACGT
3670756 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCGGGACAATTCTACGT
* *
3670779 GGTCCTTTGGGACAAATTCTACGC
1 GGTCCTTCGGGAC-AATTCTACGT
3670803 GGTCCTTC
1 GGTCCTTC
3670811 ATGACAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 33 0.67
24 16 0.33
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTACGT
Found at i:3674929 original size:20 final size:21
Alignment explanation
Indices: 3674891--3674929 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3674881 AGAAATAATA
*
3674891 AATTTAACATTACAAATATTG
1 AATTTAACATTAAAAATATTG
3674912 AATTTAAC-TTAAAAATAT
1 AATTTAACATTAAAAATAT
3674930 AAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (21 bp):
AATTTAACATTAAAAATATTG
Found at i:3677327 original size:29 final size:30
Alignment explanation
Indices: 3677295--3677353 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3677285 AAAATATATT
*
3677295 TAAA-AAATTAAA-ATCTAATGTGGATAAAA
1 TAAATAAATTAAAGAT-TAATGTGGAAAAAA
*
3677324 TAAATAATTTAAAGATTAATGTGGAAAAAA
1 TAAATAAATTAAAGATTAATGTGGAAAAAA
3677354 CTCAATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 20 0.77
31 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.29
Consensus pattern (30 bp):
TAAATAAATTAAAGATTAATGTGGAAAAAA
Found at i:3680508 original size:16 final size:16
Alignment explanation
Indices: 3680487--3680518 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3680477 ATAAATTTTT
3680487 TCATTGAGATACAATC
1 TCATTGAGATACAATC
3680503 TCATTGAGATACAATC
1 TCATTGAGATACAATC
3680519 CCACAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
TCATTGAGATACAATC
Found at i:3687753 original size:20 final size:21
Alignment explanation
Indices: 3687730--3687770 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3687720 TATTATATAT
**
3687730 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
3687750 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
3687771 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:3689156 original size:14 final size:15
Alignment explanation
Indices: 3689137--3689177 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
3689127 GGTCTGTAAT
*
3689137 TATTTATTT-ATATG
1 TATTTATTTAATATA
3689151 TATTTATTTAATATA
1 TATTTATTTAATATA
3689166 TATTTA-TTAATA
1 TATTTATTTAATA
3689178 ATAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:3689181 original size:3 final size:3
Alignment explanation
Indices: 3689173--3689232 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
3689163 ATATATTTAT
*
3689173 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3689221 TAA TAA TAA TAA
1 TAA TAA TAA TAA
3689233 ATATGGATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3698466 original size:2 final size:2
Alignment explanation
Indices: 3698459--3698483 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3698449 ATCCTAACTC
3698459 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
3698484 CTTTTGATCA
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:3698730 original size:29 final size:30
Alignment explanation
Indices: 3698684--3698762 Score: 115
Period size: 29 Copynumber: 2.6 Consensus size: 30
3698674 ATGGTTAATT
3698684 TTAATTTGAACATTAAATTTTAGATAAAATA
1 TTAATTT-AACATTAAATTTTAGATAAAATA
3698715 TTAATTTAA-ATTAAATTTTAGATAAAATA
1 TTAATTTAACATTAAATTTTAGATAAAATA
* *
3698744 TCAATTTAACTATAAAATT
1 TTAATTTAAC-ATTAAATT
3698763 CGACCAAAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 28 0.64
30 2 0.05
31 14 0.32
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAATTTAACATTAAATTTTAGATAAAATA
Found at i:3709673 original size:22 final size:22
Alignment explanation
Indices: 3709645--3709723 Score: 140
Period size: 22 Copynumber: 3.6 Consensus size: 22
3709635 GTTCAGTATT
* *
3709645 CGTCCCGAAGGGCCACTAGATA
1 CGTCCCGAAGGACCACTGGATA
3709667 CGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
3709689 CGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
3709711 CGTCCCGAAGGAC
1 CGTCCCGAAGGAC
3709724 TAATATACCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.27, C:0.33, G:0.28, T:0.13
Consensus pattern (22 bp):
CGTCCCGAAGGACCACTGGATA
Found at i:3720651 original size:171 final size:171
Alignment explanation
Indices: 3720276--3720840 Score: 701
Period size: 174 Copynumber: 3.3 Consensus size: 171
3720266 GGGTTGGAGG
* * * * **
3720276 TTTATGATGCAGAAGCAAGCAATAA-AAAAATTTCAAAGTAATTTCCGACGACTGAGATGTTGGA
1 TTTATGAAGAAGAAGCAAGCAATAATAAAAA-TTCAAAGTAATTTCCGACGACTGAAATGCTATA
* * * * * *
3720340 GGACCTTTCAGATTGCTAGGAAGGAATTTGTCTGTAAATCCCGTCAAAATCAGACATTAGCAGCT
65 GGGCCTTTCAGATTGCTAGGAAGGAATTTGCCTGTAGATCTCTTCAAAATCAGAC--TAGCTGCT
* ** *
3720405 ACCAAAATTCAGAGTCATTTCCGTGCTTGGTTGTTAAGAAGAAGT
128 ACCAAAATTCAGAGTCAGTTCCGTGCTTGGCAGTT-AGAGGAAGT
* ** * *
3720450 TATACAAAGAAGAAACAAGCAAAAATAAAAATTCAAAGTAATATT-CGACGACTGAAATGCTATA
1 TTTATGAAGAAGAAGCAAGCAATAATAAAAATTCAAAGTAAT-TTCCGACGACTGAAATGCTATA
* **
3720514 GGGCCTTTCAGATTGCAAGGAAATAATTTGCCTGTAGATCTCTTCAAAATCAGAC-AGCTGCTAC
65 GGGCCTTTCAGATTGCTAGGAAGGAATTTGCCTGTAGATCTCTTCAAAATCAGACTAGCTGCTAC
* *
3720578 CAAAATTCAGAATCAGTTCTGTGCTTGGCAGTTGAGAGGAAGT
130 CAAAATTCAGAGTCAGTTCCGTGCTTGGCAGTT-AGAGGAAGT
* *
3720621 TTTATGAAGAAGAAGCAAGCAACAATAAAAATCCAAAGTAATTTCCGACGACTGAAATGCTATAG
1 TTTATGAAGAAGAAGCAAGCAATAATAAAAATTCAAAGTAATTTCCGACGACTGAAATGCTATAG
*
3720686 GGCCTTTCAGATTGCTAGGAAGGAATTTGCCTGTAGATCTCTTCAAAATCAGACTTTAGCTGCAA
66 GGCCTTTCAGATTGCTAGGAAGGAATTTGCCTGTAGATCTCTTCAAAATCAGAC--TAGCTGCTA
* *
3720751 CCGAAATTCAGAGTCGGTTCCGTGCTTGGCAGTTA-AGGATAAGT
129 CCAAAATTCAGAGTCAGTTCCGTGCTTGGCAGTTAGAGG--AAGT
*
3720795 TTTATGAAGAAGGAGCAAGCAATAAT--AAATTCCAAAGTAATTTCCG
1 TTTATGAAGAAGAAGCAAGCAATAATAAAAATT-CAAAGTAATTTCCG
3720841 GCAGTGAAAA
Statistics
Matches: 338, Mismatches: 44, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
170 2 0.01
171 151 0.45
172 7 0.02
173 15 0.04
174 156 0.46
175 7 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (171 bp):
TTTATGAAGAAGAAGCAAGCAATAATAAAAATTCAAAGTAATTTCCGACGACTGAAATGCTATAG
GGCCTTTCAGATTGCTAGGAAGGAATTTGCCTGTAGATCTCTTCAAAATCAGACTAGCTGCTACC
AAAATTCAGAGTCAGTTCCGTGCTTGGCAGTTAGAGGAAGT
Found at i:3728483 original size:20 final size:22
Alignment explanation
Indices: 3728452--3728491 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3728442 AAAAAGATCC
3728452 AACCCGATCGGGT-CAGGTCAG
1 AACCCGATCGGGTACAGGTCAG
3728473 AACCC-ATCGGGTACAGGTC
1 AACCCGATCGGGTACAGGTC
3728492 CCATGCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (22 bp):
AACCCGATCGGGTACAGGTCAG
Found at i:3733613 original size:38 final size:38
Alignment explanation
Indices: 3733559--3733633 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
3733549 TGTTTACATG
3733559 TCAAATATTGAATGATTAATTTATTTTTAACAATTTTA
1 TCAAATATTGAATGATTAATTTATTTTTAACAATTTTA
*
3733597 TCAAATATTGATTGATTAATTTATTTTTAACAATTTT
1 TCAAATATTGAATGATTAATTTATTTTTAACAATTTT
3733634 TTAAAATTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.52
Consensus pattern (38 bp):
TCAAATATTGAATGATTAATTTATTTTTAACAATTTTA
Found at i:3747035 original size:24 final size:24
Alignment explanation
Indices: 3747008--3747116 Score: 130
Period size: 24 Copynumber: 4.5 Consensus size: 24
3746998 AAACGGATAT
* *
3747008 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACATAATTCAG
*
3747032 ATCA-AATATCAGAACATAATCCAG
1 ATCAGAA-ATCAGAACATAATTCAG
3747056 ATCAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACATAATTCAG
* ** *
3747080 GTCAGGTATCAGAACATAATTCAA
1 ATCAGAAATCAGAACATAATTCAG
*
3747104 ATCGGAAATCAGA
1 ATCAGAAATCAGA
3747117 TAAAACATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
23 2 0.03
24 67 0.94
25 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATTCAG
Found at i:3747079 original size:12 final size:12
Alignment explanation
Indices: 3747010--3747079 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
3747000 ACGGATATAT
* *
3747010 CAGAAATCAAAA
1 CAGAATTCAGAA
*
3747022 CAGAATTCAGAT
1 CAGAATTCAGAA
3747034 CA-AATATCAGAA
1 CAGAAT-TCAGAA
* * *
3747046 CATAATCCAGAT
1 CAGAATTCAGAA
*
3747058 CAGAAATCAGAA
1 CAGAATTCAGAA
*
3747070 CATAATTCAG
1 CAGAATTCAG
3747080 GTCAGGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.07
12 38 0.86
13 3 0.07
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:3747079 original size:48 final size:48
Alignment explanation
Indices: 3747008--3747116 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
3746998 AAACGGATAT
* *
3747008 ATCAGAAATCAAAACAGAATTCAGATCAAATATCAGAACATAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAAATATCAGAACATAATCCAA
* * ** *
3747056 ATCAGAAATCAGAACATAATTCAGGTCAGGTATCAGAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAAATATCAGAACATAATCCAA
*
3747104 ATCGGAAATCAGA
1 ATCAGAAATCAGA
3747117 TAAAACATTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAAATATCAGAACATAATCCAA
Found at i:3748938 original size:16 final size:16
Alignment explanation
Indices: 3748917--3748954 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
3748907 CATGCATTTT
3748917 TTCCATTATCAACATG
1 TTCCATTATCAACATG
3748933 TTCCATTATCAACATG
1 TTCCATTATCAACATG
3748949 TTCCAT
1 TTCCAT
3748955 AAAGCATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.39
Consensus pattern (16 bp):
TTCCATTATCAACATG
Found at i:3749357 original size:14 final size:15
Alignment explanation
Indices: 3749338--3749378 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
3749328 TTGACCCAGT
*
3749338 GAGTTGACTTAGC-C
1 GAGTTGACTCAGCGC
3749352 GAGTTGACTCAGCGC
1 GAGTTGACTCAGCGC
*
3749367 GGGTTGACTCAG
1 GAGTTGACTCAG
3749379 ACGGGTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (15 bp):
GAGTTGACTCAGCGC
Found at i:3749374 original size:15 final size:14
Alignment explanation
Indices: 3749325--3749378 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
3749315 CAAAGTCAAA
* *
3749325 GAGTTGACCCAG-T
1 GAGTTGACTCAGCC
*
3749338 GAGTTGACTTAGCC
1 GAGTTGACTCAGCC
3749352 GAGTTGACTCAGCGC
1 GAGTTGACTCAGC-C
*
3749367 GGGTTGACTCAG
1 GAGTTGACTCAG
3749379 ACGGGTCAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
13 10 0.29
14 12 0.35
15 12 0.35
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.24
Consensus pattern (14 bp):
GAGTTGACTCAGCC
Found at i:3751504 original size:24 final size:24
Alignment explanation
Indices: 3751470--3751568 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
3751460 AAATGGATAT
*
3751470 ATCAAAAATCAAAACAGAATTCAG
1 ATCAAATATCAAAACAGAATTCAG
*
3751494 ATCAAATATCAAAACATAATTCAG
1 ATCAAATATCAAAACAGAATTCAG
* *
3751518 ATCAGAA-ATCAGAACAGAATCCAG
1 ATCA-AATATCAAAACAGAATTCAG
* ** *
3751542 GTCATGTATCATAACAGAATTCAG
1 ATCAAATATCAAAACAGAATTCAG
3751566 ATC
1 ATC
3751569 GGGAATCAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 60 0.97
25 2 0.03
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.21
Consensus pattern (24 bp):
ATCAAATATCAAAACAGAATTCAG
Found at i:3751552 original size:48 final size:48
Alignment explanation
Indices: 3751470--3751578 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
3751460 AAATGGATAT
* * * *
3751470 ATCAAAAATCAAAACAGAATTCAGATCAAATATCAAAACATAATTCAG
1 ATCAGAAATCAGAACAGAATCCAGATCAAATATCAAAACAGAATTCAG
* ** *
3751518 ATCAGAAATCAGAACAGAATCCAGGTCATGTATCATAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATCCAGATCAAATATCAAAACAGAATTCAG
* *
3751566 ATCGGGAATCAGA
1 ATCAGAAATCAGA
3751579 TAAAACATTC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATCCAGATCAAATATCAAAACAGAATTCAG
Found at i:3753489 original size:20 final size:20
Alignment explanation
Indices: 3753464--3753510 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3753454 GAAATTTCAT
3753464 AAAAACGGAGCTTAATTACG
1 AAAAACGGAGCTTAATTACG
* *
3753484 AAAAACAGAGCTTAATTGCG
1 AAAAACGGAGCTTAATTACG
3753504 AAAAACG
1 AAAAACG
3753511 AATCGAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAAACGGAGCTTAATTACG
Found at i:3753662 original size:23 final size:23
Alignment explanation
Indices: 3753636--3753704 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
3753626 TTTTAGTTTT
*
3753636 TCGATCAAGGTCAACGGGTTGAC
1 TCGATCAAAGTCAACGGGTTGAC
* *
3753659 TCGAACAAAGTCAACGGGTTGAT
1 TCGATCAAAGTCAACGGGTTGAC
* * *
3753682 TCGGTCAAAGTCAATGAGTTGAC
1 TCGATCAAAGTCAACGGGTTGAC
3753705 CCAGTGAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (23 bp):
TCGATCAAAGTCAACGGGTTGAC
Found at i:3753729 original size:14 final size:13
Alignment explanation
Indices: 3753696--3753735 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3753686 TCAAAGTCAA
*
3753696 TGAGTTGACCCAG
1 TGAGTTGACTCAG
*
3753709 TGAGTTGACTTAG
1 TGAGTTGACTCAG
3753722 TCGAGTTGACTCAG
1 T-GAGTTGACTCAG
3753736 CACGGGTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (13 bp):
TGAGTTGACTCAG
Found at i:3761899 original size:29 final size:29
Alignment explanation
Indices: 3761857--3761916 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
3761847 CCCTCATAAA
3761857 GATAATCATAGTATTGATAACTGTTACAT
1 GATAATCATAGTATTGATAACTGTTACAT
3761886 GATAATCATAGTATTGATAACTGTTACAT
1 GATAATCATAGTATTGATAACTGTTACAT
3761915 GA
1 GA
3761917 GTATGACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (29 bp):
GATAATCATAGTATTGATAACTGTTACAT
Found at i:3761905 original size:15 final size:15
Alignment explanation
Indices: 3761857--3761905 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
3761847 CCCTCATAAA
3761857 GATAATCATAGTATT
1 GATAATCATAGTATT
*
3761872 GATAA-C-T-GTTACAT
1 GATAATCATAG-TA-TT
3761886 GATAATCATAGTATT
1 GATAATCATAGTATT
3761901 GATAA
1 GATAA
3761906 CTGTTACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 1 0.04
13 3 0.11
14 7 0.26
15 12 0.44
16 3 0.11
17 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (15 bp):
GATAATCATAGTATT
Found at i:3777595 original size:18 final size:19
Alignment explanation
Indices: 3777559--3777597 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3777549 TTTTATATAT
3777559 TTTAAAATGAAAGGAAAAA
1 TTTAAAATGAAAGGAAAAA
*
3777578 TTTAAAA-GACAAGAAAAAA
1 TTTAAAATGA-AAGGAAAAA
3777597 T
1 T
3777598 AAATTTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.64, C:0.03, G:0.13, T:0.21
Consensus pattern (19 bp):
TTTAAAATGAAAGGAAAAA
Found at i:3787261 original size:24 final size:24
Alignment explanation
Indices: 3787234--3787328 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
3787224 AAACGGATAT
*
3787234 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
3787258 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
3787282 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
*
3787306 ATCA-AATGTCAAAACAGAATTCA
1 ATCAGAA-ATCAAAACAGAATTCA
3787329 AATAAAAAAA
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 1 0.02
24 53 0.98
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:3791735 original size:24 final size:24
Alignment explanation
Indices: 3791708--3791802 Score: 64
Period size: 24 Copynumber: 4.0 Consensus size: 24
3791698 AAACGGATAT
*
3791708 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
3791732 ATCATATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * * *
3791756 GTTAGGAATCAGAACATATTTCAT
1 ATCAGAAATCAAAACAGAATTCAG
**
3791780 ATCAGATGTCAAAACAGAATTCA
1 ATCAGAAATCAAAACAGAATTCA
3791803 AATAAAAAAT
Statistics
Matches: 48, Mismatches: 23, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:3793673 original size:24 final size:23
Alignment explanation
Indices: 3793620--3793676 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
3793610 TAAATTAAAT
3793620 AAAAATAAAGAAACAAAAAGAAA
1 AAAAATAAAGAAACAAAAAGAAA
* *
3793643 AATAAATAAATAAA-TAAAAGATATA
1 AA-AAATAAAGAAACAAAAAGA-A-A
3793668 AAAAATAAA
1 AAAAATAAA
3793677 ATCCATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 8 0.28
24 18 0.62
25 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAATAAAGAAACAAAAAGAAA
Found at i:3793701 original size:9 final size:9
Alignment explanation
Indices: 3793641--3793707 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
3793631 AACAAAAAGA
3793641 AAAATAAAT
1 AAAATAAAT
3793650 -AAATAAAT
1 AAAATAAAT
* *
3793658 AAAAGATAT
1 AAAATAAAT
3793667 -AAA-AAAT
1 AAAATAAAT
**
3793674 AAAATCCAT
1 AAAATAAAT
*
3793683 AAAAGAAAAT
1 AAAA-TAAAT
*
3793693 GAAATAAAT
1 AAAATAAAT
3793702 AAAATA
1 AAAATA
3793708 CTAGAAAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
7 3 0.07
8 14 0.33
9 21 0.49
10 5 0.12
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:3793908 original size:36 final size:36
Alignment explanation
Indices: 3793830--3793910 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 36
3793820 AATAATATGT
3793830 ATATATATAAAATAAATAAAAACATAAAAAAATTGTA
1 ATATATAT-AAATAAATAAAAACATAAAAAAATTGTA
* * *
3793867 A-ATATATAAATTAATAAAACAGATAATGAAAA-T-TA
1 ATATATATAAATAAATAAAA-ACATAA-AAAAATTGTA
3793902 ATATATATA
1 ATATATATA
3793911 TATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 14 0.37
36 19 0.50
37 5 0.13
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (36 bp):
ATATATATAAATAAATAAAAACATAAAAAAATTGTA
Found at i:3793909 original size:2 final size:2
Alignment explanation
Indices: 3793902--3793951 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3793892 ATGAAAATTA
3793902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3793944 AT AT AT AT
1 AT AT AT AT
3793952 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3795230 original size:36 final size:36
Alignment explanation
Indices: 3795190--3795386 Score: 194
Period size: 36 Copynumber: 5.6 Consensus size: 36
3795180 GGTTTTTTTG
* *
3795190 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * *
3795226 TGTTTCAAAAGCAACTGTCTTAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
3795262 TGTTTCAAGGAAAAGATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGGGAAA-CTGTCTCAAGAGAGACAAAATT
* *
3795291 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAAT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
3795327 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATT
3795364 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGGGAAACTGTCTCAA
3795387 AACTCGTTTT
Statistics
Matches: 129, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.02
29 18 0.14
30 1 0.01
31 1 0.01
32 2 0.02
33 2 0.02
35 1 0.01
36 75 0.58
37 27 0.21
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:3795308 original size:101 final size:102
Alignment explanation
Indices: 3795190--3795373 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 102
3795180 GGTTTTTTTG
* * * * * *
3795190 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATTTGTTTCAAAAGCAACTGTCTTAAGGGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTCAAAAGAAACTGTCTCAAGAGAGA
3795255 CAA-AATTTGTTTCAAGGAAAAGATATTCAAAGATTT
66 CAAGAATTTGTTTCAAGGAAAAGATATTCAAAGATTT
* **
3795291 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAAATTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTCAAAAGAAACTGTCTCAAGAGAGA
*
3795356 CAAGATTTTGTTTCAAGG
66 CAAGAATTTGTTTCAAGG
3795374 GAAACTGTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 59 0.82
102 13 0.18
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAAATTGTTTCAAAAGAAACTGTCTCAAGAGAGA
CAAGAATTTGTTTCAAGGAAAAGATATTCAAAGATTT
Found at i:3795503 original size:37 final size:37
Alignment explanation
Indices: 3795451--3795523 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
3795441 TCAAGGTTTA
*
3795451 TGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAATTT
** *
3795488 TGTTTCAAGGGAAACTATCTCAAGATAGACAAAATT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAATT
3795524 AATTTCAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAATTT
Found at i:3795537 original size:36 final size:37
Alignment explanation
Indices: 3795462--3795537 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
3795452 GTTTCAAGAA
* ** *
3795462 AAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTAATTTCAAAGG
*
3795499 AAACTATCTCAAGATAGACAAAA-TTAATTTCAAAGG
1 AAACTATCTCAAGAGAGACAAAATTTAATTTCAAAGG
3795535 AAA
1 AAA
3795538 TGTTTTCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (37 bp):
AAACTATCTCAAGAGAGACAAAATTTAATTTCAAAGG
Found at i:3795544 original size:102 final size:102
Alignment explanation
Indices: 3795424--3795663 Score: 374
Period size: 102 Copynumber: 2.4 Consensus size: 102
3795414 ATATTTTGTG
* * *
3795424 TTTCAAGGGAAACGTTTTCAAGGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
*
3795489 GTTTCAAGGGAAACTATCTCAAGAT-AGACAAAATTAA
66 GTTTCAAGGGAAACTATCCCAAG-TGAGACAAAATTAA
* * *
3795526 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTT
1 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
* * *
3795591 GTTTCATGGGAAACTATCCCAAGTGAGATAAAATTTA
66 GTTTCAAGGGAAACTATCCCAAGTGAGACAAAATTAA
3795628 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAG
3795664 GGAGACAAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
101 1 0.01
102 126 0.99
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (102 bp):
TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCCCAAGTGAGACAAAATTAA
Found at i:3795689 original size:87 final size:86
Alignment explanation
Indices: 3795575--3795749 Score: 280
Period size: 87 Copynumber: 2.0 Consensus size: 86
3795565 AACTGTCTCT
* * *
3795575 AGGGAGACAAAATTTTGTTTCATGGGAAACTATCCCAAGT-GAGATAAAATTTATTTCAAAGGAA
1 AGGGAGACAAAATTTCGTTTCAAGGGAAACTATCCCAA-TCGAGATAAAATTCATTTCAAAGGAA
3795639 ATGTTTTCAATGTTTATGTTTCA
65 ATG-TTTCAATGTTTATGTTTCA
* *
3795662 AGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGGAAA
1 AGGGAGACAAAATTTCGTTTCAAGGGAAACTATCCCAATCGAGATAAAATTCATTTCAAAGGAAA
3795727 TGTTTCAATGTTTATGTTTCA
66 TGTTTCAATGTTTATGTTTCA
3795748 AG
1 AG
3795750 AGAAACTGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
86 22 0.27
87 60 0.73
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (86 bp):
AGGGAGACAAAATTTCGTTTCAAGGGAAACTATCCCAATCGAGATAAAATTCATTTCAAAGGAAA
TGTTTCAATGTTTATGTTTCA
Found at i:3795813 original size:101 final size:102
Alignment explanation
Indices: 3795659--3795879 Score: 250
Period size: 101 Copynumber: 2.2 Consensus size: 102
3795649 TGTTTATGTT
* * ** * * *
3795659 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCA-TTTCAAGG
1 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGACAAAATT-AGTTTCAAGG
* * * * *
3795723 GAAA-TGTTTC-AATGTTTATGTTTCAAGAGAAACTGTC
65 AAAACAGATTCAAATATTT-TGTTTCAAGAGAAACTATC
* * *
3795760 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGGGAGACGAAATTAGTTTCAATGA
1 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGACAAAATTAGTTTCAAGGA
*
3795825 AAACAGATTCAAATATTTTGTTTCAAGGGAAACTATC
66 AAACAGATTCAAATATTTTGTTTCAAGAGAAACTATC
*
3795862 TCAAGAGAGACAAAATTT
1 TCAAGGGAGACAAAATTT
3795880 GTTGTTTCAA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
100 1 0.01
101 55 0.55
102 38 0.38
103 6 0.06
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (102 bp):
TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGACAAAATTAGTTTCAAGGA
AAACAGATTCAAATATTTTGTTTCAAGAGAAACTATC
Found at i:3795851 original size:188 final size:189
Alignment explanation
Indices: 3795470--3795854 Score: 508
Period size: 188 Copynumber: 2.0 Consensus size: 189
3795460 AAAAACTATC
* *
3795470 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGATAGACAAAATTAATTTCAAAGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
* * * ***
3795535 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCATGG
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * * * * * *
3795600 GAAACTATCCCAAGTGAGATAAAATTTATTTCAAAGGAAATGTTTTCAATGTTTATGTT
131 GAAAATATCCCAAGGGAGACAAAATTTATTTCAAAGAAAAAGTATTCAATATTTATGTT
** * * *
3795659 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
3795724 AAATG-TTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * *
3795788 GAAAATATCTCAAGGGAGACGAAA-TTAGTTTCAATGAAAACAG-ATTCAAATATTT-TGTT
131 GAAAATATCCCAAGGGAGACAAAATTTA-TTTCAAAGAAAA-AGTATTC-AATATTTATGTT
3795847 TCAAGGGA
1 TCAAGGGA
3795855 AACTATCTCA
Statistics
Matches: 170, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
187 3 0.02
188 97 0.57
189 70 0.41
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (189 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
GAAAATATCCCAAGGGAGACAAAATTTATTTCAAAGAAAAAGTATTCAATATTTATGTT
Found at i:3796917 original size:32 final size:32
Alignment explanation
Indices: 3796881--3796975 Score: 145
Period size: 32 Copynumber: 2.9 Consensus size: 32
3796871 ATTCCCAATG
* *
3796881 ATGCCCCAATATTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
*
3796913 ATGCCCCAACATTTGATGTTAAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTCAAAAA
*
3796945 ATGACCCAACATTTGATGTTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTGAATC-TCAAA
3796976 GATGCCCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 52 0.91
33 5 0.09
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCAAAAA
Found at i:3798007 original size:69 final size:69
Alignment explanation
Indices: 3797903--3798033 Score: 237
Period size: 69 Copynumber: 1.9 Consensus size: 69
3797893 CTCTTGATTT
3797903 TCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCATTTG
1 TCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCATTTG
3797968 ATGC
66 ATGC
*
3797972 TCTATGATCTTCGAG-GGAAGTGGTTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
1 TCTATGATCTTCGAGTGG-AGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCAT
3798034 AGTTTGAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (69 bp):
TCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCATTTG
ATGC
Found at i:3798146 original size:14 final size:13
Alignment explanation
Indices: 3798104--3798179 Score: 86
Period size: 13 Copynumber: 5.8 Consensus size: 13
3798094 TTTTCTTCAA
3798104 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
*
3798116 TTTTCCCTTT-TT
1 TTTTCTCTTTGTT
3798128 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
3798143 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
3798155 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
3798170 TTTTCTCTTT
1 TTTTCTCTTT
3798180 TTGCTTTGAT
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
12 9 0.16
13 23 0.41
14 20 0.36
15 4 0.07
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:3798152 original size:27 final size:27
Alignment explanation
Indices: 3798103--3798181 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
3798093 TTTTTCTTCA
*
3798103 ATTTTC-CTTTG-TTTTTTCCCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
3798128 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
3798155 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTCTCTTTGCTTTTTTCTCTTTTT
3798182 GCTTTGATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 6 0.12
26 5 0.10
27 40 0.78
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (27 bp):
ATTTTCTCTTTGCTTTTTTCTCTTTTT
Found at i:3801389 original size:9 final size:9
Alignment explanation
Indices: 3801370--3801438 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
3801360 AACGAAAAGA
3801370 AAAATAAAT
1 AAAATAAAT
3801379 -AAATAAAAT
1 AAAAT-AAAT
*
3801388 AAAAGAAAT
1 AAAATAAAT
3801397 AAAA-AAAT
1 AAAATAAAT
**
3801405 AAAATCCAT
1 AAAATAAAT
*
3801414 AAAAGCAAAT
1 AAAA-TAAAT
*
3801424 GAAATAAAT
1 AAAATAAAT
3801433 AAAATA
1 AAAATA
3801439 CTAGAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 12 0.26
9 27 0.57
10 8 0.17
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:3806652 original size:15 final size:15
Alignment explanation
Indices: 3806632--3806676 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
3806622 TAATAAGGTT
3806632 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
3806647 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
3806662 AATTATTATAAAATA
1 ATTTATTTTAAAATA
3806677 TGGATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:3806689 original size:22 final size:22
Alignment explanation
Indices: 3806664--3806717 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
3806654 TTAAAATAAA
*
3806664 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
3806686 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
3806708 TTATTTTAAA
1 TTATTTTAAA
3806718 TAATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:3806739 original size:32 final size:31
Alignment explanation
Indices: 3806701--3806803 Score: 125
Period size: 32 Copynumber: 3.5 Consensus size: 31
3806691 TTAAAATATG
3806701 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
3806732 AGATTGATTTATTTT-AA-AA--TA-T-G---
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
3806755 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
3806786 GGATTGATTTATTTTAAA
1 -GATTGATTTATTTTAAA
3806804 ATATGGATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
22 14 0.23
23 2 0.03
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 2 0.03
32 31 0.51
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (31 bp):
GATTGATTTATTTTAAATAATTTATTAGTAT
Found at i:3806742 original size:54 final size:54
Alignment explanation
Indices: 3806675--3807307 Score: 696
Period size: 54 Copynumber: 12.0 Consensus size: 54
3806665 TATTATAAAA
3806675 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3806729 TATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3806783 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAG
* * * * * *
3806831 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTA--TT--AG
* * *
3806885 TATGGATTGATTTATTATT---GTATGTATGGATTT-TTTTAAATAA-TTATTAG
1 TATGGATTGATTTATT-TTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
3806935 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAA-TTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
3806988 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT-TATAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT-TAG
3807042 TA--GATTGATTT-TTTTAAAATAT--ATTGATTTA-TTT-AATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3807089 TATGGATTGATTTATTTTAAAATATGGATTGCTTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
* * * ** * *
3807143 TATGGATTGATTTATTTT-AAATA---ATTTATTTGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AG
*** *
3807197 TATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3807255 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
3807308 TTGTAGTTGT
Statistics
Matches: 492, Mismatches: 44, Indels: 86
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
46 1 0.00
47 18 0.04
48 27 0.05
49 22 0.04
50 49 0.10
51 13 0.03
52 34 0.07
53 74 0.15
54 190 0.39
55 11 0.02
56 7 0.01
57 4 0.01
58 14 0.03
59 2 0.00
60 2 0.00
62 17 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:3806797 original size:18 final size:18
Alignment explanation
Indices: 3806774--3806821 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
3806764 ATTTTAAATA
*
3806774 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
3806792 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
3806814 ATTTATTA
1 ATTTATTA
3806822 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:3806851 original size:80 final size:79
Alignment explanation
Indices: 3806751--3807292 Score: 599
Period size: 80 Copynumber: 6.9 Consensus size: 79
3806741 TATTTTAAAA
3806751 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3806816 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
*
3806831 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3806896 TTATTATTGTA-TG
66 TTATTATTGTATTG
3806909 TAT-G---GATTT-TTTTAAATAA-TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3806968 TTATTTTAAATAAT-TATTAG
66 TTA--TT--AT--TGTATT-G
*
3806988 TATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTTATAG-
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA---TATGGA
* * * * ***
3807042 TAGATTGATTTTTTTAAAA
61 TTGATTTATTATTGTATTG
*
3807061 TAT--ATTGATTTA-TTT-AATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGCT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
3807122 TTATTTTAAATAATTTATTAG
66 TTA--TT--AT--TGTATT-G
* *
3807143 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3807208 TTATTATTGTAGTTG
66 TTATTATTGTA-TTG
* *
3807223 TATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3807288 TTATT
66 TTATT
3807293 TTAAATAATT
Statistics
Matches: 397, Mismatches: 25, Indels: 80
0.79 0.05 0.16
Matches are distributed among these distances:
71 12 0.03
72 42 0.11
73 17 0.04
74 13 0.03
75 24 0.06
76 6 0.02
77 11 0.03
78 11 0.03
79 29 0.07
80 153 0.39
81 6 0.02
82 5 0.01
83 8 0.02
84 11 0.03
85 3 0.01
86 46 0.12
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (79 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTATTG
Found at i:3806872 original size:32 final size:32
Alignment explanation
Indices: 3806830--3807195 Score: 205
Period size: 32 Copynumber: 11.7 Consensus size: 32
3806820 TATTGTAGTT
3806830 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3806862 GTATGAATTGATTTATTTTAAAATATGGATTGATTTATTA
1 GTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA
* *
3806902 TTGTATGTATGGATTT-TTTTAAATAA-TTATTA
1 --GTATGGATTGATTTATTTTAAATAATTTATTA
3806934 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3806957 -TATGGATTGATTTATTTTAAATAA-TTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3806987 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3807010 -TATGGATTGATTTATTTTAAATAATTT-TATA
1 GTATGGATTGATTTATTTTAAATAATTTAT-TA
*
3807041 GTA--GATTGATTT-TTTTAAAATATATTGATT-
1 GTATGGATTGATTTATTTT-AAATA-ATTTATTA
** * * * * *
3807071 -TATTTAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
* *
3807110 ATATGGATTGCTTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3807142 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3807174 GTATGGATTAATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
3807196 ATATGGATTG
Statistics
Matches: 262, Mismatches: 26, Indels: 92
0.69 0.07 0.24
Matches are distributed among these distances:
22 28 0.11
23 8 0.03
25 2 0.01
26 6 0.02
27 6 0.02
28 1 0.00
29 6 0.02
30 33 0.13
31 25 0.10
32 80 0.31
33 1 0.00
34 9 0.03
35 5 0.02
36 10 0.04
37 2 0.01
38 3 0.01
39 2 0.01
40 19 0.07
41 4 0.02
42 12 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:3806963 original size:22 final size:22
Alignment explanation
Indices: 3806935--3807030 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 22
3806925 TAATTATTAG
3806935 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3806957 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
3806981 TTATTAGTATGGATTGATTTATTTTAAAA
1 -TA-T-GGATTGA----TTTATTTTAAAA
3807010 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3807031 TAATTTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
22 29 0.48
23 2 0.03
24 2 0.03
25 2 0.03
26 6 0.10
27 6 0.10
28 2 0.03
29 2 0.03
30 2 0.03
31 8 0.13
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3807105 original size:22 final size:22
Alignment explanation
Indices: 3807089--3807131 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3807079 AATTTATTAG
3807089 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
3807111 TATGGATTGCTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3807132 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3807185 original size:18 final size:18
Alignment explanation
Indices: 3807132--3807191 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
3807122 TTATTTTAAA
*
3807132 TAATTTATTAGTATGGAT
1 TAATTTATTTGTATGGAT
* *
3807150 TGATTTATTT-TA---AA
1 TAATTTATTTGTATGGAT
3807164 TAATTTATTTGTATGGAT
1 TAATTTATTTGTATGGAT
3807182 TAATTTATTT
1 TAATTTATTT
3807192 TAAAATATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.30
15 2 0.06
17 2 0.06
18 19 0.58
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
TAATTTATTTGTATGGAT
Found at i:3807267 original size:18 final size:17
Alignment explanation
Indices: 3807220--3807270 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
3807210 ATTATTGTAG
3807220 TTGTATGAATTGATTTA
1 TTGTATGAATTGATTTA
* *
3807237 TT-T-T-AAATAATTTA
1 TTGTATGAATTGATTTA
3807251 TTAGTATGAATTGATTTA
1 TT-GTATGAATTGATTTA
3807269 TT
1 TT
3807271 TTAAAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
16 2 0.08
17 3 0.12
18 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTATGAATTGATTTA
Found at i:3807280 original size:22 final size:22
Alignment explanation
Indices: 3807255--3807297 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3807245 AATTTATTAG
3807255 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
3807277 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
3807298 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:3807357 original size:31 final size:31
Alignment explanation
Indices: 3807322--3807380 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3807312 AGTTGTATGG
* *
3807322 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
3807353 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
3807381 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:3812493 original size:29 final size:29
Alignment explanation
Indices: 3812450--3812532 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
3812440 CTCACCTAAC
3812450 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
3812480 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
3812509 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
3812533 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:3817254 original size:29 final size:29
Alignment explanation
Indices: 3817211--3817293 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
3817201 CTCACCTAAC
3817211 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
3817241 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
3817270 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
3817294 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:3818357 original size:22 final size:23
Alignment explanation
Indices: 3818326--3818380 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
3818316 AATAATATTT
*
3818326 TTTTATTTTAAATTAAA-TAATTA
1 TTTTA-TTTAAATAAAATTAATTA
*
3818349 TTTTATTT-AATAAAATTAATTT
1 TTTTATTTAAATAAAATTAATTA
*
3818371 TTTTAATTAA
1 TTTTATTTAA
3818381 GTCGGTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.22
22 15 0.56
23 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTATTTAAATAAAATTAATTA
Found at i:3818364 original size:26 final size:25
Alignment explanation
Indices: 3818310--3818367 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
3818300 ATTCATAGAT
* *
3818310 AATTATAATAATATTTTTTTATTTTA
1 AATTA-AATAATATTTTTTTATATAA
3818336 AATTAAATAATTATTTTATTTA-ATAA
1 AATTAAATAA-TATTTT-TTTATATAA
3818362 AATTAA
1 AATTAA
3818368 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.18
26 19 0.68
27 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AATTAAATAATATTTTTTTATATAA
Found at i:3820874 original size:21 final size:21
Alignment explanation
Indices: 3820850--3820889 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3820840 CGTCATTATG
* *
3820850 CTTACATGATAATTTATAAAA
1 CTTACATGACAATCTATAAAA
3820871 CTTACATGACAATCTATAA
1 CTTACATGACAATCTATAA
3820890 TATTTTGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
CTTACATGACAATCTATAAAA
Found at i:3821071 original size:15 final size:14
Alignment explanation
Indices: 3821022--3821072 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
3821012 GGACTTATTT
3821022 AATTTAAAAA-AAA
1 AATTTAAAAATAAA
*
3821035 AATTAAAAAATAATTA
1 AATTTAAAAATAA--A
*
3821051 ATTTTAAAATATAAA
1 AATTTAAAA-ATAAA
3821066 AATTTAA
1 AATTTAA
3821073 TAAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
15 7 0.23
16 8 0.27
17 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTAAAAATAAA
Found at i:3822268 original size:64 final size:62
Alignment explanation
Indices: 3822193--3822311 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 62
3822183 TTGTTCAAGA
* * *
3822193 TGTATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAG
1 TGTATCGATGCACAAGAAGTGCATCGATGCAC-CCCTT-AAATAAAAACATCGAATGCCATCAG
* *
3822257 TGTATCGATGCACAAGTAGTGCATCGATGCACCCCTTAAATACAAACATCGAATG
1 TGTATCGATGCACAAGAAGTGCATCGATGCACCCCTTAAATAAAAACATCGAATG
3822312 GAATTTATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
62 17 0.34
63 4 0.08
64 29 0.58
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (62 bp):
TGTATCGATGCACAAGAAGTGCATCGATGCACCCCTTAAATAAAAACATCGAATGCCATCAG
Found at i:3822329 original size:62 final size:63
Alignment explanation
Indices: 3822198--3822352 Score: 154
Period size: 62 Copynumber: 2.5 Consensus size: 63
3822188 CAAGATGTAT
* * * * * * *
3822198 CGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAGTGTAT
1 CGATGCACAAGTAGTGCATCGATGCAC-CCCTTAAAATAAAAACATCGAATGCAATCAGTGCAC
* * *
3822262 CGATGCACAAGTAGTGCATCGATGCACCCCTT-AAATACAAACATCGAATGGAATTTA-TGCAC
1 CGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGCAA-TCAGTGCAC
* *
3822324 CGATGCA-TAGATAGTGCACCGATGCACCC
1 CGATGCACAAG-TAGTGCATCGATGCACCC
3822353 GTCAAAGGAT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
61 2 0.03
62 45 0.58
63 6 0.08
64 24 0.31
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (63 bp):
CGATGCACAAGTAGTGCATCGATGCACCCCTTAAAATAAAAACATCGAATGCAATCAGTGCAC
Found at i:3824134 original size:23 final size:23
Alignment explanation
Indices: 3824108--3824153 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3824098 TATGGTGGTG
3824108 GTGGTGATAATGAAGATGATGAT
1 GTGGTGATAATGAAGATGATGAT
3824131 GTGGTGATAATGAAGATGATGAT
1 GTGGTGATAATGAAGATGATGAT
3824154 TATTGCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (23 bp):
GTGGTGATAATGAAGATGATGAT
Found at i:3824458 original size:114 final size:114
Alignment explanation
Indices: 3824253--3824591 Score: 435
Period size: 114 Copynumber: 2.9 Consensus size: 114
3824243 AGGAGGAGGT
* * * **
3824253 TCCTTAGGTAATGGTGTTGGACACGGGAAAGGGTATGGTGCAGGAAGAGATAATGCCATTGGTGG
1 TCCTCAGGTAATGGTGTTGGACATGGGAAAGGGTATGGTGCAGGAGGAGGCAATGCCATTGGTGG
* * *
3824318 GGTAGGAGGTGGAGGTGGTGGAGGTAGTGCTAGTGTTGCTGCCGGTGGC
66 GGTGGGAGGTGGAGGTGGAGGAGGTAGTGCTAGTGTTGCTGCCGGTGGA
** *
3824367 TCCTCAGGTAATGGTGTTGGACATGAAAAAGGGTATGGTGCAGGAGGAGGCAATGCCATTGGAGG
1 TCCTCAGGTAATGGTGTTGGACATGGGAAAGGGTATGGTGCAGGAGGAGGCAATGCCATTGGTGG
* * *
3824432 GGTGGGAGGTGGAGGTGGAGGTGGTAGTGCTAATGCTGCTGCCGGTGGA
66 GGTGGGAGGTGGAGGTGGAGGAGGTAGTGCTAGTGTTGCTGCCGGTGGA
* * *
3824481 TCCTCAGGTAATGGTGTTGGACATGGGGAAGGGTATGGTGCTGGGCAAGAGAAGGCAATGGCATT
1 TCCTCAGGTAATGGTGTTGGACATGGGAAAGGGTATGGTGC-AGG--AG-G-AGGCAATGCCATT
* *
3824546 GGTGGGGTAGGAGGAGGTGGAGGTAGCGGAGGTAGTGCTAGTGTTG
61 GGTGGGGT--G-GGAGGTGGAGGTGGAGGAGGTAGTGCTAGTGTTG
3824592 ATGGTGATGG
Statistics
Matches: 192, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
114 138 0.72
115 2 0.01
117 2 0.01
118 1 0.01
119 19 0.10
121 1 0.01
122 29 0.15
ACGTcount: A:0.21, C:0.10, G:0.45, T:0.23
Consensus pattern (114 bp):
TCCTCAGGTAATGGTGTTGGACATGGGAAAGGGTATGGTGCAGGAGGAGGCAATGCCATTGGTGG
GGTGGGAGGTGGAGGTGGAGGAGGTAGTGCTAGTGTTGCTGCCGGTGGA
Found at i:3824795 original size:93 final size:93
Alignment explanation
Indices: 3824689--3824928 Score: 417
Period size: 93 Copynumber: 2.6 Consensus size: 93
3824679 GAGGTTATGA
3824689 TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGGAGGTGGAAATG
1 TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGGAGGTGGAAATG
3824754 GTTATGGTTGTTATGGTGAAGGGTTTGG
66 GTTATGGTTGTTATGGTGAAGGGTTTGG
3824782 TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGGAGGTGGAAATG
1 TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGGAGGTGGAAATG
3824847 GTTATGGTTGTTATGGTGAAGGGTTTGG
66 GTTATGGTTGTTATGGTGAAGGGTTTGG
* ** ** * *
3824875 TCATGGTAGTGGATATGGTGCCAATATTGGAGTTGGGACTGGAGGAGGTGGTGG
1 TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGG
3824929 TGGCGGTGGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 140 1.00
ACGTcount: A:0.20, C:0.05, G:0.44, T:0.30
Consensus pattern (93 bp):
TCATGGTAGTGGATACGGTGCCGGTATTGGAGTTGATATTGGAGGAGGAGGTGGAGGTGGAAATG
GTTATGGTTGTTATGGTGAAGGGTTTGG
Found at i:3831231 original size:49 final size:49
Alignment explanation
Indices: 3831148--3831241 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 49
3831138 CTGAAAACGT
* * * * * *
3831148 TTTTTTGAAAAATATTTTCTATAAAATGAATTACGTTTTTTGAAAAATG
1 TTTTCTGAAAAATATTTTATAGAAAACGAATTACGATGTTTGAAAAATG
**
3831197 TTTTCTGAAAAATATTTTATAGAAAACGTTTTACGATGTTTGAAA
1 TTTTCTGAAAAATATTTTATAGAAAACGAATTACGATGTTTGAAA
3831242 TAAATTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (49 bp):
TTTTCTGAAAAATATTTTATAGAAAACGAATTACGATGTTTGAAAAATG
Found at i:3831413 original size:27 final size:30
Alignment explanation
Indices: 3831375--3831455 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 30
3831365 AAATAATTTA
* *
3831375 TTTATT-ATTAAAATATTAT-TTTATA-AT
1 TTTATTAATAAAAATATTATATTGATATAT
3831402 TTTATTAATAAAAATATTAATATTGATATAT
1 TTTATTAATAAAAATATT-ATATTGATATAT
3831433 TTTATTAAAATAAAAATATTATA
1 TTTATT--AATAAAAATATTATA
3831456 AACTATATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
27 6 0.13
28 10 0.22
29 2 0.04
30 5 0.11
31 8 0.17
32 3 0.07
33 12 0.26
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTATTAATAAAAATATTATATTGATATAT
Found at i:3831435 original size:31 final size:31
Alignment explanation
Indices: 3831354--3831453 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 31
3831344 ATTATTATTT
* *
3831354 TAAAAATATTAA-AATAATTTA-TTTATT-A
1 TAAAAATATTAATATTAATATATTTTATTAA
* *
3831382 TTAAAATATT-AT-TTTATA-ATTTTATTAA
1 TAAAAATATTAATATTAATATATTTTATTAA
*
3831410 TAAAAATATTAATATTGATATATTTTATTAAAA
1 TAAAAATATTAATATTAATATATTTTATT--AA
3831443 TAAAAATATTA
1 TAAAAATATTA
3831454 TAAACTATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.02
27 10 0.17
28 19 0.33
29 2 0.03
30 5 0.09
31 8 0.14
33 13 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
TAAAAATATTAATATTAATATATTTTATTAA
Found at i:3831438 original size:89 final size:89
Alignment explanation
Indices: 3831354--3831525 Score: 201
Period size: 92 Copynumber: 1.9 Consensus size: 89
3831344 ATTATTATTT
* * * *
3831354 TAAAAATATTA-AAA-TA-ATTTATT-TATTATTAAAATATTA-TTTTATAATTTTATTAATAAA
1 TAAAAATATTATAAACTATATTAATTAT-TTATTAAAATAATAGTGTTAT-ATTATATT-ATAAA
*
3831414 AATATTAATATTGATATATTTTATTAAAA
63 AATATT-A-ATTAATATATTTTATTAAAA
* *
3831443 TAAAAATATTATAAACTATATTAATTATTTATTAAAGTAATAGTGTTATATTATATTTTAAAAAT
1 TAAAAATATTATAAACTATATTAATTATTTATTAAAATAATAGTGTTATATTATATTATAAAAAT
3831508 ATTAATTAATATATTTTA
66 ATTAATTAATATATTTTA
3831526 AATATCTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
89 24 0.34
90 4 0.06
91 12 0.17
92 25 0.35
93 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (89 bp):
TAAAAATATTATAAACTATATTAATTATTTATTAAAATAATAGTGTTATATTATATTATAAAAAT
ATTAATTAATATATTTTATTAAAA
Found at i:3831524 original size:23 final size:23
Alignment explanation
Indices: 3831494--3831545 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3831484 AGTGTTATAT
3831494 TATATTTTAAAAATATTAATTAA
1 TATATTTTAAAAATATTAATTAA
* * *
3831517 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
*
3831540 AATATT
1 TATATT
3831546 ATTATATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:3831754 original size:17 final size:18
Alignment explanation
Indices: 3831718--3831758 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
3831708 TTAATTGTTT
3831718 TATTATAATATTAAAAAAA
1 TATTATAATATT-AAAAAA
*
3831737 TATTATATTATT-AAAAA
1 TATTATAATATTAAAAAA
3831754 TATTA
1 TATTA
3831759 ATAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATAATATTAAAAAA
Found at i:3831773 original size:23 final size:23
Alignment explanation
Indices: 3831740--3831795 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
3831730 AAAAAAATAT
3831740 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
3831764 TATATTTTAAATATTTTAATAAT
1 TATATTTTAAAAATATTAATAAA
3831787 TAATATTTT
1 T-ATATTTT
3831796 GATTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:3834831 original size:17 final size:18
Alignment explanation
Indices: 3834792--3834838 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
3834782 TATTTCTTAG
*
3834792 GGAATTGAAATTTGTGAA
1 GGAATTGAAATCTGTGAA
*
3834810 GGAATTGAAATCTGT-CA
1 GGAATTGAAATCTGTGAA
3834827 GGAATTGAAATC
1 GGAATTGAAATC
3834839 CAATTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (18 bp):
GGAATTGAAATCTGTGAA
Found at i:3836587 original size:17 final size:16
Alignment explanation
Indices: 3836547--3836587 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3836537 AGTATTGACA
* *
3836547 ATTTTGATAAAATTAT
1 ATTTTAATAAAACTAT
3836563 ATTTTAATAAAACTAT
1 ATTTTAATAAAACTAT
3836579 ATGTTTAAT
1 AT-TTTAAT
3836588 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTTTAATAAAACTAT
Found at i:3837542 original size:20 final size:21
Alignment explanation
Indices: 3837505--3837544 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3837495 TCTATATCAT
*
3837505 TATATTTTAGAAACTAAAAAA
1 TATATTTAAGAAACTAAAAAA
*
3837526 TATATTTAATAAA-TAAAAA
1 TATATTTAAGAAACTAAAAA
3837545 TAAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TATATTTAAGAAACTAAAAAA
Found at i:3837913 original size:41 final size:43
Alignment explanation
Indices: 3837834--3837916 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 43
3837824 AACAGCATTT
3837834 TTTTTAAATCAAACTAACTTTAGTACCGGAAACTTGAGAGAGTTC
1 TTTTTAAATCAAAC-AAC-TTAGTACCGGAAACTTGAGAGAGTTC
3837879 TTTTTAAATCAAAC-A-TTAGTACCGGAAA-TATGAGAGAG
1 TTTTTAAATCAAACAACTTAGTACCGGAAACT-TGAGAGAG
3837917 CGTAGTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
40 1 0.03
41 21 0.57
43 1 0.03
45 14 0.38
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (43 bp):
TTTTTAAATCAAACAACTTAGTACCGGAAACTTGAGAGAGTTC
Found at i:3838071 original size:13 final size:14
Alignment explanation
Indices: 3838053--3838085 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3838043 GCTAATTTTC
3838053 AATTTTCAAT-TTA
1 AATTTTCAATCTTA
*
3838066 AATTTTCAATCTTT
1 AATTTTCAATCTTA
3838080 AATTTT
1 AATTTT
3838086 GAGTTAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTCAATCTTA
Found at i:3838071 original size:20 final size:20
Alignment explanation
Indices: 3838046--3838084 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3838036 AGTTTAAGCT
3838046 AATTTTCAAT-TTTCAATTTA
1 AATTTTCAATCTTT-AATTTA
3838066 AATTTTCAATCTTTAATTT
1 AATTTTCAATCTTTAATTT
3838085 TGAGTTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTCAATCTTTAATTTA
Found at i:3850154 original size:37 final size:37
Alignment explanation
Indices: 3850067--3850412 Score: 150
Period size: 38 Copynumber: 9.4 Consensus size: 37
3850057 TTTTGATAAA
* ** *
3850067 ATATAATATATAATCTTCAGAAAATGATTTTCGAAAAT-T
1 ATATAATATATAGT-TTTTGAAAAT-ATTTT-TAAAATAT
*
3850106 CATATATTATATAGTTTTTGAAAATATTTTTAAAATAT
1 -ATATAATATATAGTTTTTGAAAATATTTTTAAAATAT
* * *
3850144 ATATAATATATAG-TTTTGAAAACATTTTGAAATCATTT
1 ATATAATATATAGTTTTTGAAAATATTTTTAAA--ATAT
* * * *
3850182 ATATATTATATAGTTTTT-AAAACATTTTGAAAACAT
1 ATATAATATATAGTTTTTGAAAATATTTTTAAAATAT
* ** * *
3850218 ATATAGTATATAGTTTTAAAAAACATTTTTTGTGAAAT-T
1 ATATAATATATAGTTTT-TGAAA-ATATTTT-TAAAATAT
* ** * *
3850257 ATATAATATGTAGTTTTAAAAACATTTTTTTGAAAA-CT
1 ATATAATATATAGTTTTTGAAA-ATATTTTT-AAAATAT
** * * *
3850295 -TAT-ATA-ATA-TTTTT-AAAACGTTCTGAAAA-CT
1 ATATAATATATAGTTTTTGAAAATATTTTTAAAATAT
* * *
3850326 ATGTAATATATAGTTTTAG-AAAT-TTTTT---TTA-
1 ATATAATATATAGTTTTTGAAAATATTTTTAAAATAT
* *
3850357 AGTATAATATATAGTTTTCTAAAACATATTTTTGAAATAT
1 A-TATAATATATAGTTTT-TGAAA-ATATTTTTAAAATAT
*
3850397 ATATATTATATAGTTT
1 ATATAATATATAGTTT
3850413 ATATCATATT
Statistics
Matches: 241, Mismatches: 40, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
31 7 0.03
32 21 0.09
33 6 0.02
34 12 0.05
35 11 0.05
36 43 0.18
37 21 0.09
38 55 0.23
39 49 0.20
40 16 0.07
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAATATTTTTAAAATAT
Found at i:3850194 original size:38 final size:36
Alignment explanation
Indices: 3850093--3850284 Score: 167
Period size: 38 Copynumber: 5.1 Consensus size: 36
3850083 TCAGAAAATG
*
3850093 ATTTTCGAAA-ATTCATATATTATATAGTTTTTGAAAAT
1 ATTTT-GAAACATT-ATATATTATATAG-TTTTGAAAAC
* *
3850131 ATTTTTAAA-ATATATATAATATATAGTTTTGAAAAC
1 ATTTTGAAACAT-TATATATTATATAGTTTTGAAAAC
*
3850167 ATTTTGAAATCATTTATATATTATATAGTTTTTAAAAC
1 ATTTTGAAA-CA-TTATATATTATATAGTTTTGAAAAC
* *
3850205 ATTTTGAAAACA-TATATAGTATATAGTTTTAAAAAAC
1 ATTTTG-AAACATTATATATTATATAGTTTT-GAAAAC
* * * *
3850242 ATTTTTTGTGAA-ATTATATAATATGTAGTTTTAAAAAC
1 A--TTTTG-AAACATTATATATTATATAGTTTTGAAAAC
3850280 ATTTT
1 ATTTT
3850285 TTTGAAAACT
Statistics
Matches: 133, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
36 38 0.29
37 23 0.17
38 45 0.34
39 27 0.20
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATTTTGAAACATTATATATTATATAGTTTTGAAAAC
Found at i:3850259 original size:75 final size:71
Alignment explanation
Indices: 3850093--3850304 Score: 217
Period size: 75 Copynumber: 2.8 Consensus size: 71
3850083 TCAGAAAATG
* * *
3850093 ATTTTCGAAAATTCATATATTATATAGTTTTTGAAAATATTTTTAAAATATATATAATATATAGT
1 ATTTT-GAAAATT-ATATATTATATAGTTTTT-AAAACATTTTGAAAACATATATAATATATAGT
*
3850158 TTTGAAAAC
63 TTTAAAAAC
*
3850167 ATTTTGAAATCATTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGT
1 ATTTTGAAA--A-TTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGT
3850232 TTTAAAAAAC
63 TTT-AAAAAC
* * * * *
3850242 ATTTTTTGTGAAATTATATAATATGTAGTTTTAAAAACATTTTTTTGAAAACTTATATAATAT
1 A--TTTTG-AAAATTATATATTATATAGTTTTTAAAACA---TTTTGAAAACATATATAATAT
3850305 TTTTAAAACG
Statistics
Matches: 117, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
73 4 0.03
74 36 0.31
75 48 0.41
76 3 0.03
77 5 0.04
78 21 0.18
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (71 bp):
ATTTTGAAAATTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGTTTT
AAAAAC
Found at i:3850260 original size:39 final size:39
Alignment explanation
Indices: 3850143--3850304 Score: 153
Period size: 38 Copynumber: 4.3 Consensus size: 39
3850133 TTTTAAAATA
*
3850143 TATATAATATATAGTTTTGAAAACA---TTT-TGAAATCATT
1 TATATAATATATAGTTTTAAAAACATTTTTTGTGAAA-C--T
* * * *
3850181 TATATATTATATAGTTTTTAAAACA--TTTTG-AAAACA
1 TATATAATATATAGTTTTAAAAACATTTTTTGTGAAACT
*
3850217 TATATAGTATATAGTTTTAAAAAACATTTTTTGTGAAA-T
1 TATATAATATATAGTTTT-AAAAACATTTTTTGTGAAACT
*
3850256 TATATAATATGTAGTTTTAAAAACATTTTTT-TGAAAACT
1 TATATAATATATAGTTTTAAAAACATTTTTTGTG-AAACT
3850295 TATATAATAT
1 TATATAATAT
3850305 TTTTAAAACG
Statistics
Matches: 106, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
36 17 0.16
37 8 0.08
38 40 0.38
39 38 0.36
40 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (39 bp):
TATATAATATATAGTTTTAAAAACATTTTTTGTGAAACT
Found at i:3855617 original size:43 final size:43
Alignment explanation
Indices: 3855476--3855722 Score: 161
Period size: 43 Copynumber: 5.4 Consensus size: 43
3855466 AGCCAATTTT
*
3855476 AACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
* *** ** * * *
3855519 AACTTCACGACGAAGGGACCGCTGGTTGTCAACCGACAATTTCCCAATTTC
1 AACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAGTTC
*
3855570 AACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
* *** ** * * *
3855613 AACTTCACGACGAAGGGACCGCTGGTTGTCAATCGACAATTTCCCAATTTC
1 AACTTCACAACGAA-GGA-TATTGG-ACTCCA--GACAA---CGCAAGTTC
3855664 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
1 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
*
3855707 AACTTCACGACGAAGG
1 AACTTCACAACGAAGG
3855723 GACCGCTGGT
Statistics
Matches: 148, Mismatches: 40, Indels: 32
0.67 0.18 0.15
Matches are distributed among these distances:
43 53 0.36
44 6 0.04
45 6 0.04
46 16 0.11
48 16 0.11
49 6 0.04
50 6 0.04
51 39 0.26
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (43 bp):
AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC
Found at i:3855958 original size:106 final size:106
Alignment explanation
Indices: 3855773--3856587 Score: 1351
Period size: 106 Copynumber: 7.7 Consensus size: 106
3855763 CAAATTCAAC
* * *
3855773 AAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
3855838 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* * *
3855879 AAGGATATTGGACTCCAGACAATGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
3855944 AACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* *
3855985 AAGGATATTGGACTCCAGACAATGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * *
3856050 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCATAGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
*
3856091 AAGGATATTGGACTCCAGACAACGCAAGTTCAACATCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * *
3856156 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTTACAACG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
3856197 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* *
3856262 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
*
3856303 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * * *
3856368 AACAACTTCTCAATTTCTGACCCAATTTCAACTTCACAACG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* *
3856409 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCCCGACGAAGGGACCGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * *
3856474 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCATAGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
* *
3856515 AAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
3856580 AACAACTT
66 AACAACTT
3856588 TCAACTTCAC
Statistics
Matches: 675, Mismatches: 34, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 675 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCG
Found at i:3856078 original size:212 final size:212
Alignment explanation
Indices: 3855457--3856596 Score: 1711
Period size: 212 Copynumber: 5.5 Consensus size: 212
3855447 CCTCAACCGA
* * *
3855457 CAATTTCAGAGCCAATTTTAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
3855522 TTCACGACGAAGGGACCGCTGGTTGTCAAC---CGA-----CAATTTC----CCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
*
3855575 CACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
3855640 GTCAATC-GACAATTTCC
196 GTCAA-CAAACAATTTCC
3855657 CAATTTCA-A--C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
3855710 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCC-A----AA-TT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
* *
3855769 --CAAC-AAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
3855831 GTCAATAAACAATTTCC
196 GTCAACAAACAATTTCC
* *
3855848 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCATGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * *
3855913 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGTCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
* * *
3855978 CACAGCGAAGGATATTGGACTCCAGACAATGCATGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
3856043 GTCAACAAACAATTTCC
196 GTCAACAAACAATTTCC
* *
3856060 CAATTTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
3856125 ATCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
*
3856190 TACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
* *
3856255 GTCAACAAACAACTTCT
196 GTCAACAAACAATTTCC
*
3856272 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * *
3856337 TTCACGACGAAGGGGCCGCTGGTTGTCAACAAACAACTTCTCAATTTCTGACCCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
*
3856402 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCCCGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
3856467 GTCAATAAACAATTTCC
196 GTCAACAAACAATTTCC
* * *
3856484 CAATTTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
3856549 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT-TCAACTTCA
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCA
3856597 CGACGGAGGA
Statistics
Matches: 853, Mismatches: 53, Indels: 57
0.89 0.06 0.06
Matches are distributed among these distances:
188 65 0.08
189 1 0.00
190 2 0.00
191 79 0.09
192 5 0.01
193 1 0.00
194 5 0.01
195 2 0.00
196 6 0.01
197 4 0.00
198 1 0.00
199 2 0.00
200 10 0.01
201 2 0.00
202 1 0.00
203 84 0.10
204 1 0.00
208 2 0.00
209 2 0.00
211 10 0.01
212 568 0.67
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (212 bp):
CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
GTCAACAAACAATTTCC
Found at i:3856230 original size:318 final size:317
Alignment explanation
Indices: 3855457--3856596 Score: 1705
Period size: 318 Copynumber: 3.7 Consensus size: 317
3855447 CCTCAACCGA
* *
3855457 CAATTTCAGAGCCAATTTTAACTTCACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
3855522 TTCACGACGAAGGGACCGCTGGTTGTCAAC---CGA-----CAATTTC----CCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
*
3855575 CACAACGGAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
3855640 GTCAAT---CGA----CAATTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
196 GTCAATAAACAACTTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
3855694 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
261 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
3855751 CAATTTTAGAGCC-A----AA-TT--CAAC-AAGGATATTGGACTCCAGACAATGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
3855807 TTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
* * *
3855872 CACAGCGAAGGATATTGGACTCCAGACAATGCATGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
* *
3855937 GTCAATAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
196 GTCAATAAACAACTT-CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
* * * *
3856002 GACAATGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
260 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* * *
3856060 CAATTTCAGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * *
3856125 ATCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
*
3856190 TACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
*
3856255 GTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
196 GTCAATAAACAACTTC-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
*
3856320 GACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAACAAACAACTTCT
260 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
3856378 CAATTTCTGACCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* * *
3856443 TTCCCGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCAATTTCAACTT
66 TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
* * *
3856508 CATAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
131 CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
* *
3856573 GTCAATAAACAACTTTCAACTTCA
196 GTCAATAAACAACTTCCAATTTCA
3856597 CGACGGAGGA
Statistics
Matches: 755, Mismatches: 57, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
285 60 0.08
286 4 0.01
288 4 0.01
289 2 0.00
293 8 0.01
294 12 0.02
297 80 0.11
300 2 0.00
305 7 0.01
309 100 0.13
310 1 0.00
314 2 0.00
315 2 0.00
317 10 0.01
318 461 0.61
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (317 bp):
CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
CACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
GTCAATAAACAACTTCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
Found at i:3856822 original size:81 final size:81
Alignment explanation
Indices: 3856724--3856926 Score: 284
Period size: 81 Copynumber: 2.5 Consensus size: 81
3856714 TCAGCTCAAC
*
3856724 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACGACCCCCGAGTTCGAT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGAT
3856789 TACACT-AAGC-TCTGAG
66 TACACTCAA-CTTC-GAG
* * * **
3856805 GGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAAAGACCCTTGAGTTCGAT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGAT
*
3856870 TGCACTCAACTTCGAG
66 TACACTCAACTTCGAG
* * *
3856886 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTAT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT
3856927 ATGTCAATAA
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 104 0.96
82 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (81 bp):
GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGAT
TACACTCAACTTCGAG
Found at i:3857607 original size:37 final size:37
Alignment explanation
Indices: 3857560--3857864 Score: 162
Period size: 38 Copynumber: 8.4 Consensus size: 37
3857550 TCGAAAATTC
* *
3857560 ATATATTATATAGTTTTTGAAAATTTTTTTAAAATAT
1 ATATAATATATAGTTTTTAAAAATTTTTTTAAAATAT
* * *
3857597 ATATAATATATAGTTTTGAAAACA--TTTTGAAATCATTT
1 ATATAATATATAGTTTTTAAAA-ATTTTTTTAAA--ATAT
* * *
3857635 ATATATTATATAGTTTTTAAAACA--TTTTGAAAACAT
1 ATATAATATATAGTTTTTAAAA-ATTTTTTTAAAATAT
* * *
3857671 ATATAGTATATAGTTTTAAAAAACATTTTTTGTGAAAT-T
1 ATATAATATATAGTTTT-TAAAA-ATTTTTT-TAAAATAT
* * *
3857710 ATATAATATGTAGTTTTAAAAATATTTTTTTGAAAA-CT
1 ATATAATATATAGTTTTTAAAA-ATTTTTTT-AAAATAT
** *
3857748 -TAT-ATA-ATA-TTTTT-AAAA-CGTTCTAAAA-ACT
1 ATATAATATATAGTTTTTAAAAATTTTTTTAAAATA-T
* *
3857779 ATGTAATATATAG-TTTTAGAAATTTTTTT---A-A-
1 ATATAATATATAGTTTTTAAAAATTTTTTTAAAATAT
* * *
3857810 GTATAATATATAGTTTTCTAAAACATATTTTTGAAATAT
1 ATATAATATATAGTTTT-TAAAA-ATTTTTTTAAAATAT
*
3857849 ATATATTATATAGTTT
1 ATATAATATATAGTTT
3857865 ATATCATATT
Statistics
Matches: 209, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
30 4 0.02
31 15 0.07
32 6 0.03
33 12 0.06
34 18 0.09
35 5 0.02
36 31 0.15
37 30 0.14
38 51 0.24
39 34 0.16
40 3 0.01
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (37 bp):
ATATAATATATAGTTTTTAAAAATTTTTTTAAAATAT
Found at i:3857618 original size:75 final size:73
Alignment explanation
Indices: 3857546--3857699 Score: 202
Period size: 74 Copynumber: 2.1 Consensus size: 73
3857536 TCAGAAAATG
** * *
3857546 ATTTTCGAAA-ATTCATATATTATATAGTTTTTGAAAATTTTTTTAAAATATATATAATATATAG
1 ATTTT-GAAACATTCATATATTATATAGTTTTT-AAAACATTTTGAAAACATATATAATATATAG
3857610 TTTTGAAAAC
64 TTTTGAAAAC
* *
3857620 ATTTTGAAATCATTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGT
1 ATTTTGAAA-CATTCATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGT
*
3857685 TTTAAAAAAC
65 TTT-GAAAAC
3857695 ATTTT
1 ATTTT
3857700 TTGTGAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 4 0.06
74 35 0.50
75 31 0.44
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (73 bp):
ATTTTGAAACATTCATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGTT
TTGAAAAC
Found at i:3857712 original size:75 final size:71
Alignment explanation
Indices: 3857546--3857757 Score: 208
Period size: 75 Copynumber: 2.8 Consensus size: 71
3857536 TCAGAAAATG
* * *
3857546 ATTTTCGAAAATTCATATATTATATAGTTTTTGAAAATTTTTTTAAAATATATATAATATATAGT
1 ATTTT-GAAAATT-ATATATTATATAGTTTTT-AAAATATTTTGAAAACATATATAATATATAGT
*
3857611 TTTGAAAAC
63 TTTAAAAAC
* *
3857620 ATTTTGAAATCATTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGT
1 ATTTTGAAA--A-TTATATATTATATAGTTTTTAAAATATTTTGAAAACATATATAATATATAGT
3857685 TTTAAAAAAC
63 TTT-AAAAAC
* * * * *
3857695 ATTTTTTGTGAAATTATATAATATGTAGTTTTAAAAATATTTTTTTGAAAACTTATATAATAT
1 A--TTTTG-AAAATTATATATTATATAGTTTTTAAAATA---TTTTGAAAACATATATAATAT
3857758 TTTTAAAACG
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
73 4 0.03
74 35 0.30
75 47 0.41
76 3 0.03
77 5 0.04
78 21 0.18
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (71 bp):
ATTTTGAAAATTATATATTATATAGTTTTTAAAATATTTTGAAAACATATATAATATATAGTTTT
AAAAAC
Found at i:3857884 original size:5 final size:5
Alignment explanation
Indices: 3857876--3857901 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3857866 TATCATATTA
3857876 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
3857902 AATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:3857950 original size:12 final size:12
Alignment explanation
Indices: 3857933--3857964 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3857923 TTTTTTTTCA
3857933 GGTCCAAAAACG
1 GGTCCAAAAACG
*
3857945 GGTCCAGAAACG
1 GGTCCAAAAACG
3857957 GGTCCAAA
1 GGTCCAAA
3857965 TCCAGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (12 bp):
GGTCCAAAAACG
Found at i:3872356 original size:16 final size:16
Alignment explanation
Indices: 3872328--3872368 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
3872318 AAAATAAAAA
3872328 ATATAAT-TAAAAATG
1 ATATAATATAAAAATG
3872343 ATATAATATAAAAATG
1 ATATAATATAAAAATG
3872359 ATATAATATA
1 ATATAATATA
3872369 TTCTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
ATATAATATAAAAATG
Found at i:3879613 original size:12 final size:12
Alignment explanation
Indices: 3879596--3879624 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3879586 CGACTGCTGC
3879596 TTCGAGTTGGGG
1 TTCGAGTTGGGG
3879608 TTCGAGTTGGGG
1 TTCGAGTTGGGG
3879620 TTCGA
1 TTCGA
3879625 AGGAGGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.45, T:0.34
Consensus pattern (12 bp):
TTCGAGTTGGGG
Found at i:3881362 original size:2 final size:2
Alignment explanation
Indices: 3881355--3881403 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
3881345 TCAAAACTTC
3881355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3881397 AT AT AT A
1 AT AT AT A
3881404 CACAAAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3884707 original size:21 final size:21
Alignment explanation
Indices: 3884669--3884708 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3884659 CCCTAACTTA
* * *
3884669 AAACCCTACATTATAACCCCT
1 AAACCCTAAATCACAACCCCT
3884690 AAACCCTAAATCACAACCC
1 AAACCCTAAATCACAACCC
3884709 TATTACCTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCCTAAATCACAACCCCT
Found at i:3886588 original size:30 final size:31
Alignment explanation
Indices: 3886552--3886613 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
3886542 TAATAGAATA
3886552 ATCATTTTGT-ACAAATCAATAAGGTTAGTG
1 ATCATTTTGTAACAAATCAATAAGGTTAGTG
*
3886582 ATCATTTTGTAACAAATCAATAATGTTAGTG
1 ATCATTTTGTAACAAATCAATAAGGTTAGTG
3886613 A
1 A
3886614 CTAATTCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (31 bp):
ATCATTTTGTAACAAATCAATAAGGTTAGTG
Found at i:3891635 original size:24 final size:24
Alignment explanation
Indices: 3891595--3891644 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
3891585 TCGGAAAATT
*
3891595 TTAAAATGGGATGAAAA-GAAGAGC
1 TTAAAATGGGATAAAAATGAA-AGC
3891619 TTAAAATAGGG-TAAAAATGAAAGC
1 TTAAAAT-GGGATAAAAATGAAAGC
3891643 TT
1 TT
3891645 TTTGCTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.50, C:0.04, G:0.24, T:0.22
Consensus pattern (24 bp):
TTAAAATGGGATAAAAATGAAAGC
Found at i:3892643 original size:19 final size:19
Alignment explanation
Indices: 3892615--3892672 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
3892605 GTGAGTGAGC
*
3892615 TGTTGAAGTCTGTTATGAA
1 TGTTGGAGTCTGTTATGAA
*
3892634 TGTTGGAGTCTATTATGAA
1 TGTTGGAGTCTGTTATGAA
*
3892653 TTTTGGAGTCTGTTATGAA
1 TGTTGGAGTCTGTTATGAA
3892672 T
1 T
3892673 CTGTTATAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (19 bp):
TGTTGGAGTCTGTTATGAA
Found at i:3893823 original size:36 final size:36
Alignment explanation
Indices: 3893776--3893926 Score: 221
Period size: 36 Copynumber: 4.2 Consensus size: 36
3893766 GTGTCCACGT
* * *
3893776 TTCAAGTCGAACGGAAGGAGGTATCGACACTTTCGA
1 TTCAAATCGAACGGAAGGAGGCATCGACACTTCCGA
*
3893812 TTCAAGTCGAACGGAAGGAGGCATCGACACTTCCGA
1 TTCAAATCGAACGGAAGGAGGCATCGACACTTCCGA
* *
3893848 TTCAAATCGAACGGAAGGAGACATCAACACTTCCGA
1 TTCAAATCGAACGGAAGGAGGCATCGACACTTCCGA
* * *
3893884 TTCAAATCGAACGGAATGAAGCATCGGCACTTCCGA
1 TTCAAATCGAACGGAAGGAGGCATCGACACTTCCGA
3893920 TTCAAAT
1 TTCAAAT
3893927 TAAACAGAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 105 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (36 bp):
TTCAAATCGAACGGAAGGAGGCATCGACACTTCCGA
Found at i:3893944 original size:36 final size:35
Alignment explanation
Indices: 3893776--3893950 Score: 181
Period size: 36 Copynumber: 4.9 Consensus size: 35
3893766 GTGTCCACGT
* * * *
3893776 TTCAAGTCGAACGGAAGGAGGTATCGACACTTTCGA
1 TTCAAATCGAACGGAAAGA-GCATCGACACTTCCGA
* *
3893812 TTCAAGTCGAACGGAAGGAGGCATCGACACTTCCGA
1 TTCAAATCGAACGGAAAGA-GCATCGACACTTCCGA
* *
3893848 TTCAAATCGAACGGAAGGAGACATCAACACTTCCGA
1 TTCAAATCGAACGGAAAGAG-CATCGACACTTCCGA
* *
3893884 TTCAAATCGAACGGAATGAAGCATCGGCACTTCCGA
1 TTCAAATCGAACGGAAAG-AGCATCGACACTTCCGA
** *
3893920 TTCAAATTAAACAGAAAGATGCATCG-CACTT
1 TTCAAATCGAACGGAAAGA-GCATCGACACTT
3893951 TCGTTTCGAG
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.06
36 116 0.93
37 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (35 bp):
TTCAAATCGAACGGAAAGAGCATCGACACTTCCGA
Found at i:3894124 original size:19 final size:19
Alignment explanation
Indices: 3894096--3894134 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3894086 GTGAGTGAGC
3894096 TGTTGAAGTCTGTTATGAA
1 TGTTGAAGTCTGTTATGAA
*
3894115 TGTTGGAGTCTGTTATGAA
1 TGTTGAAGTCTGTTATGAA
3894134 T
1 T
3894135 CTGTTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (19 bp):
TGTTGAAGTCTGTTATGAA
Found at i:3896495 original size:103 final size:103
Alignment explanation
Indices: 3896270--3896487 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
3896260 GTCGAGGGTC
* *
3896270 TATGCGGTCCTTCGGGACATATATGTATTCTTTGGACCATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
* * *
3896335 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATTA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
3896373 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
*
3896438 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
3896476 TATGTGGTCCTT
1 TATGTGGTCCTT
3896488 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:3896537 original size:23 final size:23
Alignment explanation
Indices: 3896504--3896571 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
3896494 ATTATTATAT
3896504 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* **
3896527 GGCACTCCGGTGCAATTCTACAT
1 GGCACTACGGTGCAATTCTACGC
* * *
3896550 GGTACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
3896572 AGATGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:3897835 original size:69 final size:69
Alignment explanation
Indices: 3897751--3897881 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 69
3897741 TTCCTCTACT
* *
3897751 TGTTATTCCTTTACATGCATCTCATTTATTTCCAATGAAATTTCCCTTTTTCCAATGGTAACCTG
1 TGTTATTACTTTACATGCATCTCATTTATCTCCAATGAAATTTCCCTTTTTCCAATGGTAACCTG
3897816 CAAG
66 CAAG
* * *
3897820 TGTTATTAGTTTACATGCATCTCATTTCTCTCCCATGAAATTTCCCTTTTTCCAATGGTAAC
1 TGTTATTACTTTACATGCATCTCATTTATCTCCAATGAAATTTCCCTTTTTCCAATGGTAAC
3897882 TTCATGTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.43
Consensus pattern (69 bp):
TGTTATTACTTTACATGCATCTCATTTATCTCCAATGAAATTTCCCTTTTTCCAATGGTAACCTG
CAAG
Found at i:3906784 original size:22 final size:21
Alignment explanation
Indices: 3906756--3906817 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
3906746 CTACCACCTG
3906756 CCTGCATCACTGCTCCCCTACC
1 CCTGCATCACTGCTCCCCTA-C
* *
3906778 CCTGCATCACTACTCCTCTAC
1 CCTGCATCACTGCTCCCCTAC
*
3906799 GCTGCATCACTGCTTCCCC
1 CCTGCATCACTGC-TCCCC
3906818 CTGTCTAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.15, C:0.50, G:0.10, T:0.26
Consensus pattern (21 bp):
CCTGCATCACTGCTCCCCTAC
Found at i:3907055 original size:29 final size:32
Alignment explanation
Indices: 3907022--3907094 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 32
3907012 GCTTTTGCTC
* *
3907022 TATTTTGGAAAATA-AAAACAA-C-AATTCAA
1 TATTTTGGAAAATAGAAAAAAAGCAAATGCAA
3907051 TATTTTGGAAAA-AGAAAAAAAGCAAATGCAA
1 TATTTTGGAAAATAGAAAAAAAGCAAATGCAA
*
3907082 TATTTTGAAAAAT
1 TATTTTGGAAAAT
3907095 TGCCCCGTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 1 0.03
29 18 0.49
30 1 0.03
31 17 0.46
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (32 bp):
TATTTTGGAAAATAGAAAAAAAGCAAATGCAA
Found at i:3907092 original size:30 final size:29
Alignment explanation
Indices: 3907022--3907093 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3907012 GCTTTTGCTC
* * *
3907022 TATTTTGGAAAATAAAAACAACAATTCAA
1 TATTTTGAAAAAGAAAAACAACAATGCAA
3907051 TATTTTGGAAAAAGAAAAA-AAGCAAATGCAA
1 TATTTT-GAAAAAGAAAAACAA-C-AATGCAA
3907082 TATTTTGAAAAA
1 TATTTTGAAAAA
3907094 TTGCCCCGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 8 0.22
30 17 0.46
31 12 0.32
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (29 bp):
TATTTTGAAAAAGAAAAACAACAATGCAA
Found at i:3907282 original size:32 final size:32
Alignment explanation
Indices: 3907241--3907301 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
3907231 ACTTAAGAGG
*
3907241 TAAAATATAATTAATCATAGAAAATGAGATAA
1 TAAAATATAATTAATCATAGAAAACGAGATAA
3907273 TAAAATATAATTAATCATAGAAAACGAGA
1 TAAAATATAATTAATCATAGAAAACGAGA
3907302 GAGACATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (32 bp):
TAAAATATAATTAATCATAGAAAACGAGATAA
Found at i:3907686 original size:37 final size:37
Alignment explanation
Indices: 3907639--3907719 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
3907629 CCATGACCTA
3907639 TTTTATTAATATATATGTATGATGTGACATTTATTAT
1 TTTTATTAATATATATGTATGATGTGACATTTATTAT
*
3907676 TTTTATTAATATATATGTATGATGTGATATTTATTAT
1 TTTTATTAATATATATGTATGATGTGACATTTATTAT
*
3907713 TCTTATT
1 TTTTATT
3907720 TTATTAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (37 bp):
TTTTATTAATATATATGTATGATGTGACATTTATTAT
Found at i:3907724 original size:42 final size:38
Alignment explanation
Indices: 3907637--3907731 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 38
3907627 TACCATGACC
3907637 TATTTTATTAATATATATGTATGATGTGACATTTATTA
1 TATTTTATTAATATATATGTATGATGTGACATTTATTA
*
3907675 T-TTTTATTAATATATATGTATGATGTGATATTTATTA
1 TATTTTATTAATATATATGTATGATGTGACATTTATTA
3907712 TTCTTATTTTATTAATATAT
1 ----TATTTTATTAATATAT
3907732 GATTAAAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
37 35 0.69
38 1 0.02
41 1 0.02
42 14 0.27
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (38 bp):
TATTTTATTAATATATATGTATGATGTGACATTTATTA
Found at i:3907976 original size:28 final size:24
Alignment explanation
Indices: 3907931--3908016 Score: 77
Period size: 30 Copynumber: 3.4 Consensus size: 24
3907921 TTTTTAGAGT
3907931 TTATAATTTTAAAATTTTAATTTAA
1 TTATAATTTT-AAATTTTAATTTAA
3907956 TTATAATTTTGGGAATATTTTTTAATTTAA
1 TTATAATTTT---AA-A--TTTTAATTTAA
* *
3907986 ATATGATTTTAAA-TTTAATTTAA
1 TTATAATTTTAAATTTTAATTTAA
3908009 TT-TAATTT
1 TTATAATTT
3908017 ATTTATATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.10
23 11 0.22
25 10 0.20
26 1 0.02
27 4 0.08
28 1 0.02
30 19 0.37
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATAATTTTAAATTTTAATTTAA
Found at i:3924471 original size:3 final size:3
Alignment explanation
Indices: 3924463--3924496 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3924453 TTGAAGCTTA
* *
3924463 CAT CAT CAT CAT CAT CGT CAT CGT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
3924497 TGCATCTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.32
Consensus pattern (3 bp):
CAT
Done.