Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 50
Found at i:4678694 original size:58 final size:57
Alignment explanation
Indices: 4678539--4678702 Score: 199
Period size: 58 Copynumber: 2.9 Consensus size: 57
4678529 TTCACATTTG
*
4678539 AAAATTACCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACCTTTTTCAC
1 AAAATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACCTTTTTCAC
* * * *
4678596 AAAATTCCCGAAATGTCA-TTTTTTCAAAAAAAAATT-CCAGAATGTCACATTTTTTC-C
1 AAAATTCCCAAAATGTCACATTTTTC--AAAATAATTCCCAGAATGTCAC-CTTTTTCAC
* * *
4678653 TAAAATTCCCAAAATCTCACCTTTTTCAAAATAATTCCCAGAATATCACC
1 -AAAATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACC
4678703 GGATCGGGTC
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
56 6 0.07
57 37 0.41
58 41 0.46
59 6 0.07
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (57 bp):
AAAATTCCCAAAATGTCACATTTTTCAAAATAATTCCCAGAATGTCACCTTTTTCAC
Found at i:4678702 original size:29 final size:28
Alignment explanation
Indices: 4678539--4678702 Score: 145
Period size: 29 Copynumber: 5.7 Consensus size: 28
4678529 TTCACATTTG
* * *
4678539 AAAATTACCAAAATGTCACATTTTTCAA
1 AAAATTCCCAGAATGTCACCTTTTTCAA
*
4678567 AATAATTCCCAGAATGTCACCTTTTTCAC
1 AA-AATTCCCAGAATGTCACCTTTTTCAA
*
4678596 AAAATTCCC-GAAATGTCA-TTTTTTCAAAAA
1 AAAATTCCCAG-AATGTCACCTTTTTC---AA
* **
4678626 AAAATT-CCAGAATGTCACATTTTTTCCT
1 AAAATTCCCAGAATGTCAC-CTTTTTCAA
* *
4678654 AAAATTCCCAAAATCTCACCTTTTTCAA
1 AAAATTCCCAGAATGTCACCTTTTTCAA
*
4678682 AATAATTCCCAGAATATCACC
1 AA-AATTCCCAGAATGTCACC
4678703 GGATCGGGTC
Statistics
Matches: 111, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
27 7 0.06
28 30 0.27
29 59 0.53
30 8 0.07
31 7 0.06
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAATTCCCAGAATGTCACCTTTTTCAA
Found at i:4678752 original size:9 final size:9
Alignment explanation
Indices: 4678714--4678769 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
4678704 GATCGGGTCG
4678714 GGTCAGACC
1 GGTCAGACC
4678723 GGTCA-ACC
1 GGTCAGACC
**
4678731 TGGTTTGGACC
1 -GG-TCAGACC
4678742 GGTCAGACC
1 GGTCAGACC
*
4678751 GGTCAAACC
1 GGTCAGACC
4678760 GGTTCAGACC
1 GG-TCAGACC
4678770 AGTTTGGACA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
8 3 0.08
9 22 0.59
10 9 0.24
11 3 0.08
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.18
Consensus pattern (9 bp):
GGTCAGACC
Found at i:4678769 original size:28 final size:28
Alignment explanation
Indices: 4678714--4678769 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4678704 GATCGGGTCG
**
4678714 GGTCAGACCGGTCAACCTGGTTTGGACC
1 GGTCAGACCGGTCAACCTGGTTCAGACC
4678742 GGTCAGACCGGTCAAACC-GGTTCAGACC
1 GGTCAGACCGGTC-AACCTGGTTCAGACC
4678770 AGTTTGGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.18
Consensus pattern (28 bp):
GGTCAGACCGGTCAACCTGGTTCAGACC
Found at i:4686070 original size:28 final size:27
Alignment explanation
Indices: 4685956--4686070 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 27
4685946 TCCACATTTG
* *
4685956 AAAATTACCAAAATGTCACCTTTTCAAA
1 AAAATT-CCAGAATGTCACTTTTTCAAA
* *
4685984 ATAATTCCTAGAATATCACCTTTTTCAAA
1 AAAATTCC-AGAATGTCA-CTTTTTCAAA
* * * *
4686013 AAAATTCCCGAAATGTTATTTTTTTAAA
1 AAAATTCCAG-AATGTCACTTTTTCAAA
*
4686041 AAAATT-CAGAATGTCACATTTTTCACA
1 AAAATTCCAGAATGTCAC-TTTTTCAAA
4686068 AAA
1 AAA
4686071 TGTCACCTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
26 6 0.09
27 14 0.21
28 27 0.40
29 21 0.31
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (27 bp):
AAAATTCCAGAATGTCACTTTTTCAAA
Found at i:4686088 original size:17 final size:17
Alignment explanation
Indices: 4686045--4686088 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
4686035 TTTAAAAAAA
*
4686045 TTCAGAATGTCACATTT
1 TTCAAAATGTCACATTT
*
4686062 TTCACAAAATGTCACCTTT
1 TT--CAAAATGTCACATTT
4686081 TTCAAAAT
1 TTCAAAAT
4686089 AATTCCCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (17 bp):
TTCAAAATGTCACATTT
Found at i:4686127 original size:18 final size:18
Alignment explanation
Indices: 4686101--4686140 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4686091 TTCCCAGAAT
*
4686101 GTCATCGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
4686119 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
4686137 GTCA
1 GTCA
4686141 GACCGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.23, G:0.47, T:0.20
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGG
Found at i:4686155 original size:9 final size:9
Alignment explanation
Indices: 4686136--4686184 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
4686126 GGTCGGGTCG
4686136 GGTCAGACC
1 GGTCAGACC
4686145 GGTCA-ACCC
1 GGTCAGA-CC
4686154 GGTTCAGACC
1 GG-TCAGACC
4686164 GGTCAGACC
1 GGTCAGACC
*
4686173 GGTCAAACC
1 GGTCAGACC
4686182 GGT
1 GGT
4686185 TCAAACCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 1 0.03
9 27 0.75
10 7 0.19
11 1 0.03
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.14
Consensus pattern (9 bp):
GGTCAGACC
Found at i:4686174 original size:19 final size:18
Alignment explanation
Indices: 4686136--4686184 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
4686126 GGTCGGGTCG
4686136 GGTCAGACCGGTCAACCC
1 GGTCAGACCGGTCAACCC
4686154 GGTTCAGACCGGTCAGA-CC
1 GG-TCAGACCGGTCA-ACCC
*
4686173 GGTCAAACCGGT
1 GGTCAGACCGGT
4686185 TCAAACCAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 11 0.39
19 16 0.57
20 1 0.04
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAACCC
Found at i:4687862 original size:3 final size:3
Alignment explanation
Indices: 4687854--4687906 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
4687844 AACAGAGATA
4687854 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
4687900 TAT TAT T
1 TAT TAT T
4687907 TAAATAGGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4694591 original size:32 final size:33
Alignment explanation
Indices: 4694536--4694598 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
4694526 AGTGTATATA
4694536 TGTTTAATATTTTAAATTTAAAAGATATTTATC
1 TGTTTAATATTTTAAATTTAAAAGATATTTATC
* *
4694569 TGTTTAA-A-TTTAGATATTAAAAGATGTTTA
1 TGTTTAATATTTTAAAT-TTAAAAGATATTTA
4694599 GTTGGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 14 0.52
33 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (33 bp):
TGTTTAATATTTTAAATTTAAAAGATATTTATC
Found at i:4694623 original size:81 final size:83
Alignment explanation
Indices: 4694535--4694698 Score: 235
Period size: 83 Copynumber: 2.0 Consensus size: 83
4694525 GAGTGTATAT
4694535 ATGTTTAATATTTTAAATTTAAAAGATA-T-TTATCTGTTTAAATTTAGATATTAAAAGA-TGTT
1 ATGTTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAAGAGT-TT
*
4694597 TAGTTGGAGTAAAACTCTC
65 TAATTGGAGTAAAACTCTC
* * * **
4694616 ATGTTTAATATTTTAAATTTAAATGATATTATTATTTGTTTAAATTTATATATTAAGCGAGTTTT
1 ATGTTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAAGAGTTTT
*
4694681 AATTGGAGTTAAACTCTC
66 AATTGGAGTAAAACTCTC
4694699 TCGAAATCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 27 0.37
82 1 0.01
83 44 0.60
84 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (83 bp):
ATGTTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAAGAGTTTT
AATTGGAGTAAAACTCTC
Found at i:4696050 original size:16 final size:16
Alignment explanation
Indices: 4696031--4696062 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4696021 GCTTGGAATG
*
4696031 GTAAAAGAAAATAGAA
1 GTAAAAAAAAATAGAA
4696047 GTAAAAAAAAATAGAA
1 GTAAAAAAAAATAGAA
4696063 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
GTAAAAAAAAATAGAA
Found at i:4700745 original size:83 final size:83
Alignment explanation
Indices: 4700585--4700747 Score: 202
Period size: 83 Copynumber: 2.0 Consensus size: 83
4700575 GAGTATATTT
* ** *
4700585 GTTTAATATTTTAAATTGAAAATATATTATTATTTGTTTAAATATAGATATTAAAAGATATTCAG
1 GTTTAATATTTTAAATTGAAAAGATATTATTAGCTGTTTAAATATAGATATTAAAAGATATTCAA
*
4700650 TTGGAATAAAACTCTATG
66 TTAGAATAAAACTCTATG
* * * * *
4700668 GTTTAATATTTTAAATTTAAAAGATATTTTTAGCTGTTTAAATTTAGATGTTAAAAGAGT-TTTA
1 GTTTAATATTTTAAATTGAAAAGATATTATTAGCTGTTTAAATATAGATATTAAAAGA-TATTCA
* *
4700732 ATTAGAGTTAAACTCT
65 ATTAGAATAAAACTCT
4700748 CTCGAGATTC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 66 0.99
84 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (83 bp):
GTTTAATATTTTAAATTGAAAAGATATTATTAGCTGTTTAAATATAGATATTAAAAGATATTCAA
TTAGAATAAAACTCTATG
Found at i:4701417 original size:8 final size:8
Alignment explanation
Indices: 4701398--4701479 Score: 74
Period size: 8 Copynumber: 10.2 Consensus size: 8
4701388 TGAAAAATAG
*
4701398 TAAACTAA
1 TAAAGTAA
*
4701406 TAAAGTAC
1 TAAAGTAA
*
4701414 TAAACTAA
1 TAAAGTAA
*
4701422 TAAAGTAG
1 TAAAGTAA
*
4701430 TAAACTAA
1 TAAAGTAA
* *
4701438 TCAAGTAC
1 TAAAGTAA
*
4701446 TAAACTAA
1 TAAAGTAA
*
4701454 TAAAGTAG
1 TAAAGTAA
*
4701462 TAAACTAA
1 TAAAGTAA
4701470 TAAAGTAA
1 TAAAGTAA
4701478 TA
1 TA
4701480 TACTTTAACT
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
8 55 1.00
ACGTcount: A:0.56, C:0.10, G:0.09, T:0.26
Consensus pattern (8 bp):
TAAAGTAA
Found at i:4701419 original size:16 final size:16
Alignment explanation
Indices: 4701398--4701476 Score: 131
Period size: 16 Copynumber: 4.9 Consensus size: 16
4701388 TGAAAAATAG
4701398 TAAACTAATAAAGTAC
1 TAAACTAATAAAGTAC
*
4701414 TAAACTAATAAAGTAG
1 TAAACTAATAAAGTAC
*
4701430 TAAACTAATCAAGTAC
1 TAAACTAATAAAGTAC
*
4701446 TAAACTAATAAAGTAG
1 TAAACTAATAAAGTAC
4701462 TAAACTAATAAAGTA
1 TAAACTAATAAAGTA
4701477 ATATACTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.56, C:0.10, G:0.09, T:0.25
Consensus pattern (16 bp):
TAAACTAATAAAGTAC
Found at i:4701431 original size:32 final size:32
Alignment explanation
Indices: 4701395--4701476 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
4701385 TCATGAAAAA
4701395 TAGTAAACTAATAAAGTACTAAACTAATAAAG
1 TAGTAAACTAATAAAGTACTAAACTAATAAAG
*
4701427 TAGTAAACTAATCAAGTACTAAACTAATAAAG
1 TAGTAAACTAATAAAGTACTAAACTAATAAAG
4701459 TAGTAAACTAATAAAGTA
1 TAGTAAACTAATAAAGTA
4701477 ATATACTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (32 bp):
TAGTAAACTAATAAAGTACTAAACTAATAAAG
Found at i:4703614 original size:20 final size:21
Alignment explanation
Indices: 4703589--4703637 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
4703579 CTTCAAGGAG
*
4703589 TATCGATACTC-G-GGGTCCAA
1 TATCGATACTCAGAGGGT-AAA
4703609 TATCGATACTCAGAGGGTAAA
1 TATCGATACTCAGAGGGTAAA
4703630 TATCGATA
1 TATCGATA
4703638 GTTAGATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 11 0.42
22 4 0.15
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (21 bp):
TATCGATACTCAGAGGGTAAA
Found at i:4710716 original size:19 final size:19
Alignment explanation
Indices: 4710692--4710728 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4710682 CAATCCTAAC
4710692 AATTAGGCTATAATTTAGT
1 AATTAGGCTATAATTTAGT
4710711 AATTAGGCTATAATTTAG
1 AATTAGGCTATAATTTAG
4710729 GAAACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGT
Found at i:4714910 original size:19 final size:19
Alignment explanation
Indices: 4714886--4714922 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4714876 CAATCCTAAC
4714886 AATTAGGCTATAATTTAGT
1 AATTAGGCTATAATTTAGT
4714905 AATTAGGCTATAATTTAG
1 AATTAGGCTATAATTTAG
4714923 GCAACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGT
Found at i:4723324 original size:32 final size:30
Alignment explanation
Indices: 4723255--4723334 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
4723245 GACACCCTTG
* * * *
4723255 TGCATTATCTAAATACAACACTGACTATTG
1 TGCATTATCTGAATGCAACACTAACTATTA
*
4723285 TGCATTATCTGAATGCAACACTAACTCTGCTA
1 TGCATTATCTGAATGCAACACTAACTAT--TA
4723317 TGCATTATCTGAATGCAA
1 TGCATTATCTGAATGCAA
4723335 ACCTGACTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 24 0.56
32 19 0.44
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (30 bp):
TGCATTATCTGAATGCAACACTAACTATTA
Found at i:4745996 original size:30 final size:30
Alignment explanation
Indices: 4745943--4746020 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
4745933 CAACGTATAT
* *
4745943 AACTTTTAAAAATTATATGTTTAGTC-CTA
1 AACTTTTAAAAATTATATCTTTAGCCACTA
4745972 AACTTTTACAAAATT-TATACTTTAGCCACTA
1 AACTTTTA-AAAATTATAT-CTTTAGCCACTA
* *
4746003 AACTTTTATAACTTATAT
1 AACTTTTAAAAATTATAT
4746021 TTTGGTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 11 0.27
30 16 0.39
31 14 0.34
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (30 bp):
AACTTTTAAAAATTATATCTTTAGCCACTA
Found at i:4749366 original size:13 final size:14
Alignment explanation
Indices: 4749333--4749371 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4749323 TCATTTAAAT
4749333 TTCC-TTTCTTATC
1 TTCCATTTCTTATC
*
4749346 TTCAATTTCTT-TC
1 TTCCATTTCTTATC
4749359 TTCCATTTCTTAT
1 TTCCATTTCTTAT
4749372 TACATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCCATTTCTTATC
Found at i:4749600 original size:17 final size:19
Alignment explanation
Indices: 4749566--4749600 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4749556 GTGTTGCAAC
4749566 AAAAAGCAAAAGAAAGAAG
1 AAAAAGCAAAAGAAAGAAG
4749585 AAAAA-CAAAA-AAAGAA
1 AAAAAGCAAAAGAAAGAA
4749601 AAGAAAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAGCAAAAGAAAGAAG
Found at i:4757869 original size:21 final size:22
Alignment explanation
Indices: 4757832--4757877 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
4757822 AAACTCTTAA
*
4757832 ATTTAAAATGTTTTTCAAAATT
1 ATTTAAAATGATTTTCAAAATT
4757854 ATTTAAAA-GATTTTCAAAATT
1 ATTTAAAATGATTTTCAAAATT
4757875 ATT
1 ATT
4757878 CGAAACACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTAAAATGATTTTCAAAATT
Found at i:4759071 original size:57 final size:57
Alignment explanation
Indices: 4758983--4759099 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
4758973 AAAAAGCATT
*
4758983 TTAGCAACCATTTTTGTTAGAAAAATATAAACAGAAGGCAAATACTAGGAAAAACTA
1 TTAGCAACCATTTTTGTTAGAAAAATATAAACAAAAGGCAAATACTAGGAAAAACTA
4759040 TTAGCAACCATTTTTGTTAGAAAAATATAAACAAAAGGCAAATACTAGGAAAAACTA
1 TTAGCAACCATTTTTGTTAGAAAAATATAAACAAAAGGCAAATACTAGGAAAAACTA
4759097 TTA
1 TTA
4759100 ATCAAGCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.26
Consensus pattern (57 bp):
TTAGCAACCATTTTTGTTAGAAAAATATAAACAAAAGGCAAATACTAGGAAAAACTA
Found at i:4759626 original size:24 final size:25
Alignment explanation
Indices: 4759590--4759638 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4759580 AAGATTATAT
*
4759590 TAAAATCTTAAGA-GTGCGAGATTA
1 TAAAATCTTAAGAGGTGCGAAATTA
4759614 TAAAAT-TTAAAGAGGTGCGAAATTA
1 TAAAATCTT-AAGAGGTGCGAAATTA
4759639 AATAATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 10 0.45
25 10 0.45
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (25 bp):
TAAAATCTTAAGAGGTGCGAAATTA
Found at i:4761431 original size:17 final size:17
Alignment explanation
Indices: 4761409--4761441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4761399 TATACAGAGA
4761409 TTTTTTCGCAGGGATTT
1 TTTTTTCGCAGGGATTT
*
4761426 TTTTTTTGCAGGGATT
1 TTTTTTCGCAGGGATT
4761442 ACTGCCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.24, T:0.55
Consensus pattern (17 bp):
TTTTTTCGCAGGGATTT
Found at i:4765577 original size:53 final size:53
Alignment explanation
Indices: 4765533--4766401 Score: 832
Period size: 53 Copynumber: 16.3 Consensus size: 53
4765523 CAGGGAATGA
** * * **
4765533 AACTCGAATGATCTTTTGCCTACGGGTTCGCTCTCTCTTTTTTCAAAGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* **
4765586 AACTCGAACAATTTTCTGTATACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* * *
4765639 AATTCGAACAATCTTCTGTCTACGGGTTCAG-TCTCTTTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTC-GCTCTCTCTTTCTTCAGGGAGTAG
*
4765692 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAAGGAGTAAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGT-AG
* * * *
4765746 AACTCGAACACTCTTCTGCCTATGGGTTCGTTCTCTCTTTCTTCAAGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* ** * * * * ** ***
4765799 AACGCGAACAATCTTCT---T-TTGCTTCACTACT-TCCTTGTGAAGGCTTCTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCT-CTCTCTTTCTTCAGG-GAGTAG
* ** * * * * * * **
4765849 ATAATTTGCTTCACTACTCTT-T-CGTGAAGGCTTAAG-T-T-TGATTTACTTCAAAG-GTCA-
1 --AA-CT-C-GAAC-AATCTTCTGCCT-ACGGGTT-CGCTCTCT-CTTT-CTTCAGGGAGT-AG
* * ** * * *
4765906 AACCTTTCGAACAATATTCTGTCTACGGGTTTACTCTATCTTTCTTTATGGAGTAG
1 AA-C--TCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* * *
4765962 AACTCGAATAATCTTCTGCCTACGGGTTCACTCTCTCTTTCTTCAAGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* * *
4766015 AACTCGAACAATTTTCTTCCTATGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* * *
4766068 AACTCGAACAATCTTCTTCCTACAGGCTCGCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
* *
4766121 AACTCGAACAATCTTCTTCCTACGGGCTCGCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
** * * * * *
4766174 AACTCGAACAATCTTCTTTCTACGAGTTTGCTTTCTCTTTTTTAAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
**
4766227 AACTCGAACAATCTTCTGCCTACGGGTTTTCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
*
4766280 AACTCGAACAATCTTCTG-CTAACGGGTTCGCTCTCTCTTTCTTAAGGGA-TAG
1 AACTCGAACAATCTTCTGCCT-ACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
*
4766332 AACTCGAACAATCTTCTTCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
*
4766385 AACTCGAACAATATTCT
1 AACTCGAACAATCTTCT
4766402 TTTGCTTCAC
Statistics
Matches: 679, Mismatches: 106, Indels: 62
0.80 0.13 0.07
Matches are distributed among these distances:
49 13 0.02
50 6 0.01
52 52 0.08
53 500 0.74
54 56 0.08
55 21 0.03
56 15 0.02
57 6 0.01
58 3 0.00
59 7 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTTCTTCAGGGAGTAG
Found at i:4767570 original size:14 final size:14
Alignment explanation
Indices: 4767551--4767650 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
4767541 CCATTTTATT
4767551 TTTCTTTATTT-TTC
1 TTTCTTT-TTTCTTC
*
4767565 TTTCTTTTTTCTTT
1 TTTCTTTTTTCTTC
*
4767579 TTTCTTTTTTCATTT
1 TTTCTTTTTTC-TTC
4767594 TTTCTTCTTCTT-TTC
1 TTTCTT-TT-TTCTTC
* *
4767609 ATT-TTTTTTCATTT
1 TTTCTTTTTTC-TTC
*
4767623 TTTCATTTTT-TTC
1 TTTCTTTTTTCTTC
* *
4767636 -TCCTCTTTTCTTC
1 TTTCTTTTTTCTTC
4767649 TT
1 TT
4767651 CAAGCAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
12 8 0.12
13 10 0.15
14 27 0.40
15 18 0.27
16 2 0.03
17 2 0.03
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTTTTTTCTTC
Found at i:4767574 original size:21 final size:22
Alignment explanation
Indices: 4767549--4767615 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
4767539 CTCCATTTTA
4767549 TTTTTCTTTATTT-TTCTTTC-T
1 TTTTTCTTT-TTTCTTCTTTCAT
*
4767570 TTTTTCTTTTTTCTTTTTTCAT
1 TTTTTCTTTTTTCTTCTTTCAT
*
4767592 TTTTTC-TTCTTC-T-TTTCAT
1 TTTTTCTTTTTTCTTCTTTCAT
4767611 TTTTT
1 TTTTT
4767616 TTCATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.26
20 4 0.10
21 20 0.48
22 7 0.17
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTCTTTCAT
Found at i:4767577 original size:7 final size:7
Alignment explanation
Indices: 4767549--4767633 Score: 77
Period size: 8 Copynumber: 11.7 Consensus size: 7
4767539 CTCCATTTTA
4767549 TTTTTCT
1 TTTTTCT
4767556 TTATTT-T
1 TT-TTTCT
*
4767563 TCTTTCT
1 TTTTTCT
4767570 TTTTTCT
1 TTTTTCT
4767577 TTTTTCT
1 TTTTTCT
4767584 TTTTTCAT
1 TTTTTC-T
4767592 TTTTTC-
1 TTTTTCT
*
4767598 TTCTTCT
1 TTTTTCT
4767605 TTTCATT-T
1 TTT--TTCT
4767613 TTTTTCAT
1 TTTTTC-T
4767621 TTTTTCAT
1 TTTTTC-T
4767629 TTTTT
1 TTTTT
4767634 TCTCCTCTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 15
0.78 0.05 0.18
Matches are distributed among these distances:
6 10 0.15
7 26 0.39
8 28 0.42
9 2 0.03
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:4767619 original size:10 final size:10
Alignment explanation
Indices: 4767544--4767634 Score: 61
Period size: 10 Copynumber: 9.3 Consensus size: 10
4767534 GAGACCTCCA
4767544 TTTT-ATTTT
1 TTTTCATTTT
4767553 TCTTT-ATTTT
1 T-TTTCATTTT
4767563 TCTTTC-TTTT
1 T-TTTCATTTT
**
4767573 TTCTTTTTTCTT
1 TT-TTCATT-TT
4767585 TTTTCATTTT
1 TTTTCATTTT
*
4767595 TTCTTC--TTC
1 TT-TTCATTTT
4767604 TTTTCATTTT
1 TTTTCATTTT
4767614 TTTTCA--TT
1 TTTTCATTTT
4767622 TTTTCATTTT
1 TTTTCATTTT
4767632 TTT
1 TTT
4767635 CTCCTCTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
8 11 0.16
9 6 0.09
10 37 0.55
11 9 0.13
12 4 0.06
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:4767627 original size:18 final size:17
Alignment explanation
Indices: 4767558--4767634 Score: 97
Period size: 18 Copynumber: 4.5 Consensus size: 17
4767548 ATTTTTCTTT
4767558 ATTTTTCTTTCTTTTTTC
1 ATTTTT-TTTCTTTTTTC
4767576 ---TTTTTTCTTTTTTC
1 ATTTTTTTTCTTTTTTC
4767590 ATTTTTTCTTCTTCTTTTC
1 ATTTTTT-TTCTT-TTTTC
4767609 ATTTTTTTTCATTTTTTC
1 ATTTTTTTTC-TTTTTTC
4767627 ATTTTTTT
1 ATTTTTTT
4767635 CTCCTCTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
14 11 0.21
15 3 0.06
17 4 0.08
18 21 0.40
19 14 0.26
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTTTCTTTTTTC
Found at i:4767643 original size:37 final size:36
Alignment explanation
Indices: 4767576--4767645 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
4767566 TTCTTTTTTC
*
4767576 TTTTTTCTTTTTTCATTTTTTCTTCTTCTTTTCATT
1 TTTTTTCTTTTTTCATTTTTTCTTCCTCTTTTCATT
4767612 TTTTTTCATTTTTTCATTTTTT-TCTCCTCTTTTC
1 TTTTTTC-TTTTTTCATTTTTTCT-TCCTCTTTTC
4767646 TTCTTCAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTTTTCTTTTTTCATTTTTTCTTCCTCTTTTCATT
Found at i:4767644 original size:19 final size:19
Alignment explanation
Indices: 4767585--4767645 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
4767575 CTTTTTTCTT
*
4767585 TTTTCA-TTTTTTCTTCTTC
1 TTTTCATTTTTTTC-TCATC
*
4767604 TTTTCATTTTTTT-TCATT
1 TTTTCATTTTTTTCTCATC
*
4767622 TTTTCATTTTTTTCTCCTC
1 TTTTCATTTTTTTCTCATC
4767641 TTTTC
1 TTTTC
4767646 TTCTTCAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 16 0.44
19 14 0.39
20 6 0.17
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCATTTTTTTCTCATC
Found at i:4775149 original size:14 final size:14
Alignment explanation
Indices: 4775130--4775179 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
4775120 AATAACTATT
* *
4775130 ATTATATTATAGTA
1 ATTATAATATAATA
4775144 ATTATAATATAATA
1 ATTATAATATAATA
*
4775158 ATAATAATATAATA
1 ATTATAATATAATA
*
4775172 ATCATAAT
1 ATTATAAT
4775180 TATCATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
ATTATAATATAATA
Found at i:4775162 original size:17 final size:16
Alignment explanation
Indices: 4775107--4775191 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
4775097 AAACATAAGT
4775107 TAATAA-TAT-TACTAA
1 TAATAATTATATA-TAA
*
4775122 TAACT-ATTATTATATTA
1 TAA-TAATTA-TATATAA
*
4775139 TAGTAATTATAATATAA
1 TAATAATTAT-ATATAA
*
4775156 TAATAATAATATAATAA
1 TAATAATTATAT-ATAA
*
4775173 TCATAATTATCATATAA
1 TAATAATTAT-ATATAA
4775190 TA
1 TA
4775192 TTTATAATCC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
15 4 0.07
16 7 0.13
17 39 0.72
18 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (16 bp):
TAATAATTATATATAA
Found at i:4775549 original size:24 final size:24
Alignment explanation
Indices: 4775504--4775550 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4775494 TTTTTTTAAT
* * * *
4775504 TTTGAGTTCTTCGAGTCGACTCAG
1 TTTGAGTTATTCAAGACAACTCAG
4775528 TTTGAGTTATTCAAGACAACTCA
1 TTTGAGTTATTCAAGACAACTCA
4775551 ATTATCAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
TTTGAGTTATTCAAGACAACTCAG
Found at i:4781201 original size:234 final size:233
Alignment explanation
Indices: 4780787--4781247 Score: 590
Period size: 234 Copynumber: 2.0 Consensus size: 233
4780777 TAATAAAATA
* * * *
4780787 AGTTAAAAACTGAAAATGTTATAAATATATATAAGAAAAACGGTTGCGTCCAATAATTTTACGGT
1 AGTTAAAAACCGAAAATGTTATAAATATATATAAGAAAAACGGTTGCGCCCAATAATATCACGGT
* * *
4780852 ACACTAAGAAATAAGGTTACGATATGTAATGTTAAATTTTTTATTAATAAAATATGTTGCCACCA
66 ACACTAAGAAATAAGATTA-GATATGTAATGTTAAATTTTTTATTAATAAAATAGGTTACCACCA
* * * * *
4780917 ATAATGTCATGGTTCAATAATATAGTAGGTTTCAATCTTAAATGTTAATATTTTTCATAACAAAA
130 AGAATGTCATGGTTCAATAAAAAAGTAGGTTTCAATCCTAAATCTTAATA-TTTTCATAACAAAA
*
4780982 TAAGTTGCGCCTAAAATATTATTAGAGTTTAAGCTGATAG
194 TAAGTTGCGACTAAAATATTATTAGAGTTTAAGCTGATAG
* * * *
4781022 AGTTAAAAACCGAAAATGTTATGAATATATATAAGAAAAATGATTTG-GCCCAATAATATCATGG
1 AGTTAAAAACCGAAAATGTTATAAATATATATAAGAAAAACG-GTTGCGCCCAATAATATCACGG
**
4781086 TTTACTAAGAAAT-AGATT-GATATTTGTAATGTT-AATATTTTTATTAATAAAATAGGTTACCA
65 TACACTAAGAAATAAGATTAGATA--TGTAATGTTAAAT-TTTTTATTAATAAAATAGGTTACCA
* *
4781148 CCAAGAATGTCATGGTTCAATAAAAAAGTATGTTGT-AATCCTGAATCTTAATATTTTCATAACA
127 CCAAGAATGTCATGGTTCAATAAAAAAGTAGGTT-TCAATCCTAAATCTTAATATTTTCATAACA
** * * *
4781212 AAATGTGTTGTGACTAAAATGTTATTGGAGTTTAAG
191 AAATAAGTTGCGACTAAAATATTATTAGAGTTTAAG
4781248 TCGATGGAGT
Statistics
Matches: 195, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
232 4 0.02
233 44 0.23
234 80 0.41
235 64 0.33
236 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.36
Consensus pattern (233 bp):
AGTTAAAAACCGAAAATGTTATAAATATATATAAGAAAAACGGTTGCGCCCAATAATATCACGGT
ACACTAAGAAATAAGATTAGATATGTAATGTTAAATTTTTTATTAATAAAATAGGTTACCACCAA
GAATGTCATGGTTCAATAAAAAAGTAGGTTTCAATCCTAAATCTTAATATTTTCATAACAAAATA
AGTTGCGACTAAAATATTATTAGAGTTTAAGCTGATAG
Found at i:4781422 original size:78 final size:78
Alignment explanation
Indices: 4781339--4781487 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 78
4781329 TGCGTCCAAT
* *
4781339 AATGTCAT-TATTCAATAA-GAAATAGGTTGCAATA-TGTAATGTTAATATTTTTTATTAATAAA
1 AATGTCATCT-TTCAATAAGGAAATAGGTTGCAATATTG-AATGTTAATATTTTTCA-TAACAAA
4781401 ATAGGTTGTTACTAAG
63 ATAGGTTGTTACTAAG
* * * * *
4781417 AATGTCATCTTTCACTAAGGAAGTAGTTTGCAATCTTGAATGTTAATATTTTTCATAACAAAATG
1 AATGTCATCTTTCAATAAGGAAATAGGTTGCAATATTGAATGTTAATATTTTTCATAACAAAATA
4781482 GGTTGT
66 GGTTGT
4781488 GCTTAAAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
78 29 0.48
79 30 0.49
80 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (78 bp):
AATGTCATCTTTCAATAAGGAAATAGGTTGCAATATTGAATGTTAATATTTTTCATAACAAAATA
GGTTGTTACTAAG
Found at i:4783474 original size:100 final size:99
Alignment explanation
Indices: 4783218--4783534 Score: 352
Period size: 100 Copynumber: 3.1 Consensus size: 99
4783208 AACACCATTA
* * * *
4783218 GTTTCAAATATA-ATATAAACGATTGCCAATTTAAAAGGGAACTACCTACAATGTTATACCAATA
1 GTTTCAAACATAGACATAAACGATTGACAATTTAAAAAGGAACTACCTACAATGTTATACCAATA
4783282 AACCTGTTTTGTCTTATTTTTTTTTCATAATATAAACG
66 AACCTGTTTTGTCTTA----TTTTTCATAATATAAACG
* * * * * *
4783320 ATTTCAAACATACAACATAAACAATTAACAATCTAAAAAGGCACTACCTACAATGTTATACCAA-
1 GTTTCAAACATA-GACATAAACGATTGACAATTTAAAAAGGAACTACCTACAATGTTATACCAAT
* * *
4783384 AAAGCCTATTTAGTCTTATTTTGTCATAATATTAACG
65 AAA-CCTGTTTTGTCTTATTTT-TCATAATATAAACG
* * * *
4783421 GTTTCAATATATAGA-ATAAACGGTTGACAATTTAAAAAGGTACTACCTACAATGTTATACTAAT
1 GTTTCAA-ACATAGACATAAACGATTGACAATTTAAAAAGGAACTACCTACAATGTTATACCAAT
* * *
4783485 AAACTTGTTTTGTTTTATTTTTCCATAATATGAACG
65 AAACCTGTTTTGTCTTATTTTT-CATAATATAAACG
4783521 GTTTCAAACATAGA
1 GTTTCAAACATAGA
4783535 ACAAAAATGG
Statistics
Matches: 181, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
99 7 0.04
100 79 0.44
101 23 0.13
102 14 0.08
103 3 0.02
104 55 0.30
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (99 bp):
GTTTCAAACATAGACATAAACGATTGACAATTTAAAAAGGAACTACCTACAATGTTATACCAATA
AACCTGTTTTGTCTTATTTTTCATAATATAAACG
Found at i:4787691 original size:190 final size:190
Alignment explanation
Indices: 4787368--4787747 Score: 715
Period size: 190 Copynumber: 2.0 Consensus size: 190
4787358 TGTTATTCAT
* *
4787368 TCAAGCCATAAATTATTCGATATGGGATGTCATTACCGATGGATCTTCTATTCCTTCCAAGATAC
1 TCAAGCCACAAATTATTCGATATGGGATGTCATTACCAATGGATCTTCTATTCCTTCCAAGATAC
*
4787433 AATGAGAGCTTGTGGTGCTGAAGCTCAAGTCAGAATGAAACGATGAAGATCAAAGACTCGTTTAA
66 AATGAGAGCTTGTGGTGCTGAAGCTCAAGTCAGAATAAAACGATGAAGATCAAAGACTCGTTTAA
4787498 CTCAACGCCAAGGCCATACACATCATATTTTGAGCATTAAACCCCGATAAATATAGTAGG
131 CTCAACGCCAAGGCCATACACATCATATTTTGAGCATTAAACCCCGATAAATATAGTAGG
4787558 TCAAGCCACAAATTATTCGATATGGGATGTCATTACCAATGGATCTTCTATTCCTTCCAAGATAC
1 TCAAGCCACAAATTATTCGATATGGGATGTCATTACCAATGGATCTTCTATTCCTTCCAAGATAC
4787623 AATGAGAGCTTGTGGTGCTGAAGCTCAAGTCAGAATAAAACGATGAAGATCAAAGACTCGTTTAA
66 AATGAGAGCTTGTGGTGCTGAAGCTCAAGTCAGAATAAAACGATGAAGATCAAAGACTCGTTTAA
* *
4787688 CTCAACGTCAAGGCCATACACATCATATTTTGAGCATTAAACCCTGATAAATATAGTAGG
131 CTCAACGCCAAGGCCATACACATCATATTTTGAGCATTAAACCCCGATAAATATAGTAGG
4787748 CTATCTTCTT
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
190 185 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (190 bp):
TCAAGCCACAAATTATTCGATATGGGATGTCATTACCAATGGATCTTCTATTCCTTCCAAGATAC
AATGAGAGCTTGTGGTGCTGAAGCTCAAGTCAGAATAAAACGATGAAGATCAAAGACTCGTTTAA
CTCAACGCCAAGGCCATACACATCATATTTTGAGCATTAAACCCCGATAAATATAGTAGG
Found at i:4797117 original size:46 final size:44
Alignment explanation
Indices: 4797030--4797200 Score: 252
Period size: 46 Copynumber: 3.8 Consensus size: 44
4797020 GTAACCATGC
* * * *
4797030 AAATAAGCTTACAAACTTATAGAATAAATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGTAAGTATATTGGTA
4797075 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGTATATTGGTA
* *
4797121 AAATAAGCTTACGAGCTTATGGAAAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
4797165 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGT
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGTAAGT
4797201 GATTTTATCT
Statistics
Matches: 116, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
44 40 0.34
45 34 0.29
46 42 0.36
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
Found at i:4797163 original size:90 final size:90
Alignment explanation
Indices: 4797030--4797200 Score: 272
Period size: 90 Copynumber: 1.9 Consensus size: 90
4797020 GTAACCATGC
4797030 AAATAAGCTTACAAACTTATAGAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACAAACTTATAGAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
4797095 GGTATTAAATGGTAAGTATATTGGTA
66 GGGA-TAAATGGTAAGTATATTGGTA
* * * * *
4797121 AAATAAGCTTACGAGCTTATGGAA-AAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACAAACTTATAGAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
4797185 GGGATAAATGGTAAGT
66 GGGATAAATGGTAAGT
4797201 GATTTTATCT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 12 0.16
90 41 0.55
91 21 0.28
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (90 bp):
AAATAAGCTTACAAACTTATAGAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGGATAAATGGTAAGTATATTGGTA
Found at i:4803238 original size:21 final size:22
Alignment explanation
Indices: 4803212--4803253 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4803202 CTAGGTTTTG
4803212 TTGTAAT-ATTGGGCTTGTATC
1 TTGTAATCATTGGGCTTGTATC
* *
4803233 TTGTAATCTTTGGTCTTGTAT
1 TTGTAATCATTGGGCTTGTAT
4803254 GTAATTTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (22 bp):
TTGTAATCATTGGGCTTGTATC
Found at i:4803326 original size:6 final size:6
Alignment explanation
Indices: 4803310--4803403 Score: 68
Period size: 6 Copynumber: 15.7 Consensus size: 6
4803300 GTAATATCAT
* *
4803310 AAAAT- AAAATA AAAATA AAAATA AAAATA GAATAATA ATAATA ATAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA -AA-AATA AAAATA AAAATA
* * * * * *
4803358 AGAATA ATAATA ATAATA ATAATA ATAAAT- AAAGTA AACATA AAAA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAA
4803404 ATGAACCAGA
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
5 12 0.16
6 53 0.71
7 6 0.08
8 4 0.05
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:4803338 original size:23 final size:24
Alignment explanation
Indices: 4803311--4803403 Score: 98
Period size: 23 Copynumber: 3.8 Consensus size: 24
4803301 TAATATCATA
4803311 AAATAAAATAAAAATAAAAATAA-
1 AAATAAAATAAAAATAAAAATAAT
* * *
4803334 AAATAGAATAATAATAATAATAAT
1 AAATAAAATAAAAATAAAAATAAT
* *
4803358 AGAATAATAATAATAATAATAATAAT
1 A-AATAA-AATAAAAATAAAAATAAT
* *
4803384 AAATAAAGTAAACATAAAAA
1 AAATAAAATAAAAATAAAAA
4803404 ATGAACCAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.34
24 11 0.19
25 9 0.15
26 19 0.32
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (24 bp):
AAATAAAATAAAAATAAAAATAAT
Found at i:4803348 original size:3 final size:3
Alignment explanation
Indices: 4803308--4803385 Score: 83
Period size: 3 Copynumber: 27.3 Consensus size: 3
4803298 TAGTAATATC
* * * *
4803308 ATA A-A ATA A-A ATA AAA ATA AAA ATA AAA AT- AGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4803353 ATA AT- AGA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4803386 ATAAAGTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 6 0.10
3 55 0.90
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:4803352 original size:20 final size:20
Alignment explanation
Indices: 4803315--4803378 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
4803305 ATCATAAAAT
*
4803315 AAAATA-AA-AATAAAAATA
1 AAAATAGAATAATAATAATA
4803333 AAAATAGAATAATAATAATA
1 AAAATAGAATAATAATAATA
*
4803353 ATAATAGAATAATAATAATA
1 AAAATAGAATAATAATAATA
*
4803373 ATAATA
1 AAAATA
4803379 ATAATAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.14
19 2 0.05
20 34 0.81
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATAGAATAATAATAATA
Found at i:4805056 original size:3 final size:3
Alignment explanation
Indices: 4805050--4805084 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4805040 ATTATTAACT
4805050 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4805085 GACAAATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4808972 original size:16 final size:17
Alignment explanation
Indices: 4808945--4808985 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
4808935 ATAACACCAT
*
4808945 AAAAATATATTTTTT-A
1 AAAAAAATATTTTTTCA
*
4808961 AGAAAAATATTTTTTCA
1 AAAAAAATATTTTTTCA
4808978 AAAAAAAT
1 AAAAAAAT
4808986 GTAATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAAAATATTTTTTCA
Found at i:4809056 original size:30 final size:30
Alignment explanation
Indices: 4808984--4809093 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
4808974 TTCAAAAAAA
*
4808984 ATGTAATTTATTTTACGTAAAACAATTTT-
1 ATGTAATTCATTTTACGTAAAACAATTTTC
* * * *
4809013 AGGTTATTCATTTTACGTAAAATAGTTTTC
1 ATGTAATTCATTTTACGTAAAACAATTTTC
*
4809043 ATGTAAGTCATTTTACGTAAAACAATTTTC
1 ATGTAATTCATTTTACGTAAAACAATTTTC
* *
4809073 AAGTAA-TCAATTTTACATAAA
1 ATGTAATTC-ATTTTACGTAAA
4809094 TTACTTTCCA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
29 26 0.39
30 41 0.61
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (30 bp):
ATGTAATTCATTTTACGTAAAACAATTTTC
Found at i:4812235 original size:2 final size:2
Alignment explanation
Indices: 4812228--4812269 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4812218 ATTATAAGGC
4812228 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
4812270 CAGCAGTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4819189 original size:25 final size:25
Alignment explanation
Indices: 4819148--4819206 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
4819138 AGACATGGTG
*
4819148 GAGGA-TTTTTTGGAAATATTTATA
1 GAGGATTTTTTTGAAAATATTTATA
*
4819172 GAGGATTTTTTTGAAAATATTTATG
1 GAGGATTTTTTTGAAAATATTTATA
*
4819197 GATGATTTTT
1 GAGGATTTTT
4819207 CCGTCTCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (25 bp):
GAGGATTTTTTTGAAAATATTTATA
Found at i:4828596 original size:18 final size:18
Alignment explanation
Indices: 4828554--4828599 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
4828544 TGCAAAAATG
*
4828554 GTATCGATACTGAAGGGA
1 GTATCGGTACTGAAGGGA
4828572 GTATCGGTACTGAAGGGA
1 GTATCGGTACTGAAGGGA
4828590 GTATCGGTAC
1 GTATCGGTAC
4828600 CATAGTATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (18 bp):
GTATCGGTACTGAAGGGA
Found at i:4829032 original size:54 final size:54
Alignment explanation
Indices: 4828974--4829316 Score: 334
Period size: 54 Copynumber: 6.4 Consensus size: 54
4828964 CAATCCTCAG
* * * * *
4828974 AATTCATAATAAGTTTATAAATGACCGTATCAACAATAAGTGTGCAAACCATGA
1 AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
* * * **
4829028 AATTCATAACAAATTTATGAACGACCGTATCGTCACTAAGTGTGCAACCCAAAA
1 AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
* * ** *
4829082 AATTCATAATAAGTTTACGAACGACCGTATCGGCAAAAAGTGTGCAACCCA-CA
1 AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
** * *
4829135 TAATTCATAATAAGTTTATGAACGACTATATCGACTCTAAGTGTGTAACCCAT-A
1 -AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
* * * * * *
4829189 TAATTAATAATAAGTTT-TGAATGACCGTATCGAGACTAAGTTTTCAACCCATGG
1 -AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
** * * * * *
4829243 AATTCATAATAAGTTTATGAAAAACCGTATCGGCTCCAAGTGTACAACCCA-CA
1 AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
4829296 TAATTCATAATAAGGTTTATG
1 -AATTCATAATAA-GTTTATG
4829317 GAAGATCGTA
Statistics
Matches: 237, Mismatches: 46, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
53 43 0.18
54 187 0.79
55 7 0.03
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATGA
Found at i:4829249 original size:161 final size:162
Alignment explanation
Indices: 4828957--4829316 Score: 418
Period size: 161 Copynumber: 2.2 Consensus size: 162
4828947 TATCAACACC
* * * * * *
4828957 AAGTGTACAATCCTCAGAATTCATAATAAGTTTATAAATGACCGTATCAACAATAAGTGTGCAAA
1 AAGTGTACAACCCACATAATTCATAATAAGTTTATGAACGACCATATCAACAATAAGTGTGCAAA
* *
4829022 CCATGAAATTCATAACAAATTTATGAACGACCGTATCGTCACTAAGTGTGCAACCCAAAAAATTC
66 CCATGAAATTAATAACAAATTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAAAAAATTC
**
4829087 ATAATAAGTTTACGAACGACCGTATCGGCAAA
131 ATAATAAGTTTACGAAAAACCGTATCGGCAAA
* * * ** * *
4829119 AAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACTATATCGACTCTAAGTGTGTAAC
1 AAGTGTACAACCCACATAATTCATAATAAGTTTATGAACGACCATATCAACAATAAGTGTGCAAA
* * * * * * ***
4829184 CCAT-ATAATTAATAATAAGTTT-TGAATGACCGTATCGAGACTAAGTTTTCAACCCATGGAATT
66 CCATGA-AATTAATAACAAATTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAAAAAATT
* ***
4829247 CATAATAAGTTTATGAAAAACCGTATCGGCTCC
130 CATAATAAGTTTACGAAAAACCGTATCGGCAAA
4829280 AAGTGTACAACCCACATAATTCATAATAAGGTTTATG
1 AAGTGTACAACCCACATAATTCATAATAA-GTTTATG
4829317 GAAGATCGTA
Statistics
Matches: 165, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
161 89 0.54
162 76 0.46
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (162 bp):
AAGTGTACAACCCACATAATTCATAATAAGTTTATGAACGACCATATCAACAATAAGTGTGCAAA
CCATGAAATTAATAACAAATTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAAAAAATTC
ATAATAAGTTTACGAAAAACCGTATCGGCAAA
Found at i:4835828 original size:27 final size:27
Alignment explanation
Indices: 4835798--4835883 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
4835788 GTATCAACAC
4835798 TAAGTGTGCAACCCACAAAATTCATAA
1 TAAGTGTGCAACCCACAAAATTCATAA
* * * * *
4835825 TAAGTTTATG-AA-CGACTATA-TCATCAC
1 TAAG--TGTGCAACCCACAAAATTCAT-AA
*
4835852 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGCAACCCACAAAATTCATAA
4835879 TAAGT
1 TAAGT
4835884 TTATGAACGA
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 3 0.07
26 6 0.14
27 24 0.57
28 6 0.14
29 3 0.07
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (27 bp):
TAAGTGTGCAACCCACAAAATTCATAA
Found at i:4835874 original size:54 final size:54
Alignment explanation
Indices: 4835789--4835910 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
4835779 GCATTTTATG
*
4835789 TATCAACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTA
1 TATCAACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCA
* * *
4835843 TATCATCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
1 TATCAACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCA
4835897 TATCAACACTAAGT
1 TATCAACACTAAGT
4835911 CCATGTCCAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (54 bp):
TATCAACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCA
Found at i:4852877 original size:19 final size:19
Alignment explanation
Indices: 4852853--4852898 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
4852843 TTAACTTACA
4852853 GTTGCCAATCCCCAGTAAC
1 GTTGCCAATCCCCAGTAAC
*
4852872 GTTGCCAATCCCCGGTAAC
1 GTTGCCAATCCCCAGTAAC
*
4852891 GGTGCCAA
1 GTTGCCAA
4852899 AAAAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.22, T:0.20
Consensus pattern (19 bp):
GTTGCCAATCCCCAGTAAC
Found at i:4854847 original size:54 final size:54
Alignment explanation
Indices: 4854775--4854929 Score: 186
Period size: 54 Copynumber: 2.9 Consensus size: 54
4854765 GAGTCATCAT
* * **
4854775 TGTGTAACCCACAAAATTCATAATAAGTTTATGAATGACTGTATCGGCACTAAG
1 TGTGTAAACCACAAAATTCATAATAAGTTTATGAATGACCGTATCAACACTAAG
*
4854829 TGT-TCAAACCACAGAATTCATAATAAGTTTATGAATGACCGTATCAACACTAAG
1 TGTGT-AAACCACAAAATTCATAATAAGTTTATGAATGACCGTATCAACACTAAG
*** * * *
4854883 TGTGTGGCCCACATAATTCATAATAAGGTTTACGAATGATCGTATCA
1 TGTGTAAACCACAAAATTCATAATAA-GTTTATGAATGACCGTATCA
4854930 GCTCTAAGGT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 67 0.77
55 19 0.22
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (54 bp):
TGTGTAAACCACAAAATTCATAATAAGTTTATGAATGACCGTATCAACACTAAG
Found at i:4859432 original size:54 final size:54
Alignment explanation
Indices: 4859346--4859700 Score: 442
Period size: 54 Copynumber: 6.6 Consensus size: 54
4859336 TGTATTTTAT
* * * *
4859346 GTATCGACACTAAGTGTGGAACCCACAAAATTCATAATAAATTTATGAATGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * *
4859400 GTATCGGCACTAAGTATGCAAGCCACATAATTCATAATAAGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * *
4859454 GTATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATCAACGATC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* **
4859508 ATATCGGCACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * * * *
4859562 GTGTCGGCACTAAGTGTACAACCCACGAAATTCATAATAAGTTTATGAACAACT
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
* * * **
4859616 ATATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGGATTATGAATAATCC
1 GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAA-GTTTATGAACGA-CC
* * * *
4859672 -TATCAGCACTACGTGTGCACCCCATAAAA
1 GTATCGGCACTAAGTGTGCAACCCACAAAA
4859701 CTTATAAGAG
Statistics
Matches: 262, Mismatches: 37, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
54 227 0.87
55 34 0.13
56 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (54 bp):
GTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACC
Found at i:4866634 original size:90 final size:88
Alignment explanation
Indices: 4866479--4866652 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 88
4866469 CCTAACACAC
* * * *
4866479 CCTTTTATAGCCAAGTTATCCTAGTCATATTAGGGTTTTATTAATTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAGTCATATAAGGATTTTATTAATTCAAATTAATTAAATATATA
*
4866544 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATT-GAAATTAATAAT
* *
4866568 CCTTTTATATCCAAGTTACCCTAGTCATATCAAGGATTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAGTCATAT-AAGGATTTTATTAATTCAAATTAATTAAATATAT
4866633 ATTTAATTAATTGAAATTAA
65 ATTTAATTAATTGAAATTAA
4866653 ATATTCAGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 35 0.45
90 42 0.55
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAGTCATATAAGGATTTTATTAATTCAAATTAATTAAATATATA
TTTAATTAATTGAAATTAATAAT
Found at i:4866642 original size:20 final size:21
Alignment explanation
Indices: 4866617--4866686 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
4866607 TATTATTTCA
4866617 AATTAATT-AAATATATATTT
1 AATTAATTAAAATATATATTT
* * *
4866637 AATTAATTGAAATTAAATATTC
1 AATTAATT-AAAATATATATTT
*
4866659 AGGATT-ATTAAAATATATACTT
1 A--ATTAATTAAAATATATATTT
4866681 AATTAA
1 AATTAA
4866687 CTCTAGAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 11 0.29
21 1 0.03
22 20 0.53
23 3 0.08
24 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (21 bp):
AATTAATTAAAATATATATTT
Found at i:4870562 original size:61 final size:61
Alignment explanation
Indices: 4870465--4870595 Score: 163
Period size: 61 Copynumber: 2.1 Consensus size: 61
4870455 ATAGTGCTAA
* * * * * * *
4870465 ACCTACACTAAGCTTACGCTTTAGTGCTAATTTGAATATGATACTTAGGGTCATTACCACC
1 ACCTACACTAAGCTTACACTCTAGTGCTAATCTGAATATGACACATAAGGTCATGACCACC
* * *
4870526 ACCTACACTAGGTTTACACTCTAGTGCTAATCTGAATATGACACATAAGGTCATGCCCACC
1 ACCTACACTAAGCTTACACTCTAGTGCTAATCTGAATATGACACATAAGGTCATGACCACC
*
4870587 ACCTGCACT
1 ACCTACACT
4870596 TAGTTTCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACTCTAGTGCTAATCTGAATATGACACATAAGGTCATGACCACC
Found at i:4881796 original size:40 final size:40
Alignment explanation
Indices: 4881740--4881901 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
4881730 TGCAAGTTTA
4881740 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
4881780 CAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTA
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4881820 TAATACACTTCGGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4881860 TAATACACTTAGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4881900 TA
1 TA
4881902 GTACTATGGT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4882093 original size:45 final size:45
Alignment explanation
Indices: 4881999--4882483 Score: 819
Period size: 45 Copynumber: 10.8 Consensus size: 45
4881989 GTGACCATGC
* **
4881999 AAATAAGCTTACGAGATTATGGAAT-AATGCCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4882043 AAATAAGATTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
4882088 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
4882133 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4882178 AAATAAGTTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4882223 AAATGAGCTTACAAGCTTATGGAATAAATGGTAAGTACATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
4882268 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4882313 AAATGAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
4882358 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4882403 AAATAAGTTTACGAGCTTATGGAATAAATGGTAATTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4882448 AAATAAGTTTACGAGCTTATGGTTAATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGG--AATAAATGGTAA
4882484 AATATTAGAT
Statistics
Matches: 418, Mismatches: 20, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
44 23 0.06
45 383 0.92
47 12 0.03
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:4889082 original size:22 final size:22
Alignment explanation
Indices: 4889054--4889095 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4889044 GGTTAAAATA
4889054 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
4889076 AAAAATAATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
4889096 CAAATTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:4897506 original size:19 final size:19
Alignment explanation
Indices: 4897478--4897526 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
4897468 AGTATGGTTA
4897478 AAAT-AAAAAATAAGAATT
1 AAATAAAAAAATAAGAATT
* *
4897496 AAATAAAAAAAAAATAATT
1 AAATAAAAAAATAAGAATT
*
4897515 AAATAAACAAAT
1 AAATAAAAAAAT
4897527 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAAAAATAAGAATT
Found at i:4897521 original size:23 final size:23
Alignment explanation
Indices: 4897476--4897530 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
4897466 AAAGTATGGT
*
4897476 TAAAATAAAAAATAAGAATTAAA
1 TAAAATAAAAAATAAGAAATAAA
*
4897499 TAAAA-AAAAAATAATTAAATAAA
1 TAAAATAAAAAATAA-GAAATAAA
* *
4897522 CAAATTAAA
1 TAAAATAAA
4897531 GAGATTAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
TAAAATAAAAAATAAGAAATAAA
Found at i:4898235 original size:75 final size:76
Alignment explanation
Indices: 4898156--4898304 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 76
4898146 CTAAAATACC
* * * *
4898156 TAAAAAAATAATATAATATTCT-AAATCATAATTAAAATACTAAAAA-TTGTTTAAACTAAAATA
1 TAAAAAAATAAAATAATATCCTAAAAT-ATAATTAAAATACTAAAAACCTATTTAAACTAAAATA
*
4898219 CAAAGATAAAGA
65 AAAAGATAAAGA
* * *
4898231 TAAAATATTAAAATAATATCCTAAAATTTAATTAAAATACTAAAAACCTATTTAAACTAAAATAA
1 TAAAAAAATAAAATAATATCCTAAAATATAATTAAAATACTAAAAACCTATTTAAACTAAAATAA
4898296 AAAGATAAA
66 AAAGATAAA
4898305 ATATAATGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
75 36 0.56
76 28 0.44
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (76 bp):
TAAAAAAATAAAATAATATCCTAAAATATAATTAAAATACTAAAAACCTATTTAAACTAAAATAA
AAAGATAAAGA
Found at i:4898320 original size:76 final size:75
Alignment explanation
Indices: 4898184--4898331 Score: 217
Period size: 76 Copynumber: 2.0 Consensus size: 75
4898174 TTCTAAATCA
* * *
4898184 TAATTAAAATACTAAAAATTGTTTAAACTAAAATACAAAGATAAAGATAAAATATTAAAATAATA
1 TAATTAAAATACTAAAAACTATTTAAACTAAAATAAAAAGATAAAGATAAAATATTAAAATAATA
4898249 TCCTAAAATT
66 TCCTAAAATT
* * *
4898259 TAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAA-ATATAATGTTTAAAATAT
1 TAATTAAAATACTAAAAA-CTATTTAAACTAAAATAAAAAGATAAAGATAAAAT-ATTAAAATAA
4898323 TATCCTAAA
64 TATCCTAAA
4898332 TTTGAGTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 24 0.37
76 41 0.63
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.31
Consensus pattern (75 bp):
TAATTAAAATACTAAAAACTATTTAAACTAAAATAAAAAGATAAAGATAAAATATTAAAATAATA
TCCTAAAATT
Found at i:4899582 original size:20 final size:21
Alignment explanation
Indices: 4899554--4899605 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4899544 ATATATATAT
*
4899554 ATATATATATGTAA-TTAAAA
1 ATATGTATATGTAACTTAAAA
*
4899574 ATATGTATATATAACTTAAAA
1 ATATGTATATGTAACTTAAAA
* *
4899595 AAAAGTATATG
1 ATATGTATATG
4899606 AAATGTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (21 bp):
ATATGTATATGTAACTTAAAA
Found at i:4914165 original size:16 final size:15
Alignment explanation
Indices: 4914133--4914177 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
4914123 TTTGGAATAT
4914133 TTAATTCATAA-TAA
1 TTAATTCATAATTAA
*
4914147 TTAATTACATATTTAA
1 TTAATT-CATAATTAA
4914163 TTAATTCATAATTAA
1 TTAATTCATAATTAA
4914178 AAACCCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 12 0.44
16 9 0.33
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTCATAATTAA
Found at i:4916247 original size:17 final size:17
Alignment explanation
Indices: 4916225--4916275 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
4916215 AAACATATAT
4916225 TAACTGTAAATATTTGA
1 TAACTGTAAATATTTGA
* *
4916242 TAACTGAAAAATCATCTGA
1 TAACTG-TAAAT-ATTTGA
*
4916261 TAACTGTAAACATTT
1 TAACTGTAAATATTT
4916276 AGAATTCATG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 11 0.41
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TAACTGTAAATATTTGA
Found at i:4936373 original size:18 final size:17
Alignment explanation
Indices: 4936350--4936423 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
4936340 TTAATTTGTG
4936350 TTTGATAACTGTAAAGCA
1 TTTGATAACTGTAAA-CA
*
4936368 TTTGATATCTGTAAA-A
1 TTTGATAACTGTAAACA
* * *
4936384 CTCTGATAAGTAGAAAATCA
1 -TTTGATAACT-GTAAA-CA
*
4936404 TTTGAAAACTGTAAACA
1 TTTGATAACTGTAAACA
4936421 TTT
1 TTT
4936424 AGAATTCATC
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.28
18 22 0.51
19 7 0.16
20 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (17 bp):
TTTGATAACTGTAAACA
Found at i:4939998 original size:17 final size:17
Alignment explanation
Indices: 4939968--4940013 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
4939958 CACTAACTAT
4939968 TTTGAAAGGATTTAAAAA
1 TTTG-AAGGATTTAAAAA
*
4939986 TTTGAATGATTTAAAAA
1 TTTGAAGGATTTAAAAA
4940003 TTTGAAGGATT
1 TTTGAAGGATT
4940014 AAATTGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.39
Consensus pattern (17 bp):
TTTGAAGGATTTAAAAA
Found at i:4941374 original size:44 final size:44
Alignment explanation
Indices: 4941326--4941635 Score: 415
Period size: 44 Copynumber: 7.0 Consensus size: 44
4941316 ATGTTACTGA
** * * * *
4941326 CATAAATGAAAATGTGTATCAGTGTATTATTGGCAGAAATGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
* * * *
4941370 CATAAATGAAAATGAATAACGATGCATTATTGGAAGAAAGGTAC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
* * * *
4941414 CATAAATGAAAATGTATAACGGTGCATTATTGGTAGAAAGATGT
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
4941458 CATAAAT-ACAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
1 CATAAATGA-AAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
* * *
4941502 CATGAATGAAAATGCATAACGGTGCATTATTGGAAGAAATGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
* * *
4941546 CATAAATGAAAATGTATAATGGTGCATTATTGGCAGAAAGGTTC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
*
4941590 CATAAATGAAAATGCATAACGGTGTATTATTGGCAGAAAGGTGC
1 CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
4941634 CA
1 CA
4941636 CTCATGGAAT
Statistics
Matches: 232, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
43 1 0.00
44 230 0.99
45 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (44 bp):
CATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
Found at i:4947874 original size:18 final size:19
Alignment explanation
Indices: 4947826--4947876 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
4947816 TACGATGAAT
*
4947826 AGTATCGATACTGATGCAATT
1 AGTATCGATACTGATG--ATG
*
4947847 AGTATTGATACTGATG-TG
1 AGTATCGATACTGATGATG
4947865 AGTATCGATACT
1 AGTATCGATACT
4947877 AAGAGAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
21 15 0.56
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (19 bp):
AGTATCGATACTGATGATG
Found at i:4948488 original size:44 final size:44
Alignment explanation
Indices: 4948438--4948652 Score: 254
Period size: 44 Copynumber: 4.9 Consensus size: 44
4948428 ATGTTACCGA
* *
4948438 CATAAATGAAAATACATAGCGGTGCATTATT-GACAGAAATGTGC
1 CATAAATGAAAATACATAACGGTGCATTATTGGA-AGAAAGGTGC
** * * * *
4948482 CATAAATGAAAATGTATAACGGTGTATTATTGGCATAAAGGTTC
1 CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAAGGTGC
*
4948526 CATAAATGAAAATGA-ATAACTGTGCATTATTGGAAGAAAGGTGC
1 CATAAATGAAAAT-ACATAACGGTGCATTATTGGAAGAAAGGTGC
* * *
4948570 CATAAATGAAAATGCATAACTGTGCATTATTGGAAGAAAGGTAC
1 CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAAGGTGC
* * * *
4948614 CATAAATGAAAATACATAAGGGTCCAGTATTGGCAGAAA
1 CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAA
4948653 AGTTAAAATA
Statistics
Matches: 146, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
44 145 0.99
45 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (44 bp):
CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAAGGTGC
Found at i:4948538 original size:88 final size:88
Alignment explanation
Indices: 4948438--4948652 Score: 281
Period size: 88 Copynumber: 2.4 Consensus size: 88
4948428 ATGTTACCGA
* * *
4948438 CATAAATGAAAATACATAGCGGTGCATTATT-GACAGAAATGTGCCATAAATGAAAATGTATAAC
1 CATAAATGAAAATACATAACGGTGCATTATTGGA-AGAAAGGTGCCATAAATGAAAATGCATAAC
* * * *
4948502 GGTGTATTATTGGCATAAAGGTTC
65 GGTGCATTATTGGAAGAAAGGTAC
*
4948526 CATAAATGAAAATGA-ATAACTGTGCATTATTGGAAGAAAGGTGCCATAAATGAAAATGCATAAC
1 CATAAATGAAAAT-ACATAACGGTGCATTATTGGAAGAAAGGTGCCATAAATGAAAATGCATAAC
*
4948590 TGTGCATTATTGGAAGAAAGGTAC
65 GGTGCATTATTGGAAGAAAGGTAC
* * * *
4948614 CATAAATGAAAATACATAAGGGTCCAGTATTGGCAGAAA
1 CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAA
4948653 AGTTAAAATA
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
87 1 0.01
88 106 0.96
89 3 0.03
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (88 bp):
CATAAATGAAAATACATAACGGTGCATTATTGGAAGAAAGGTGCCATAAATGAAAATGCATAACG
GTGCATTATTGGAAGAAAGGTAC
Found at i:4951859 original size:18 final size:18
Alignment explanation
Indices: 4951808--4951889 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 18
4951798 TTAATATGTT
* *
4951808 TCTGATAACTGTAAAACA
1 TCTGATAACTGAAAAATA
* * *
4951826 TCTTATATCTG-TAAATA
1 TCTGATAACTGAAAAATA
4951843 TCTGATAACTGAAAAATCA
1 TCTGATAACTGAAAAAT-A
*
4951862 TCTGATAAC-AAAAAATA
1 TCTGATAACTGAAAAATA
*
4951879 TCTAATAACTG
1 TCTGATAACTG
4951890 TAAACATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
17 22 0.43
18 19 0.37
19 10 0.20
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.32
Consensus pattern (18 bp):
TCTGATAACTGAAAAATA
Found at i:4951881 original size:17 final size:18
Alignment explanation
Indices: 4951838--4951888 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
4951828 TTATATCTGT
*
4951838 AAATATCTGATAACTGAA
1 AAATATCTGATAACTAAA
4951856 AAATCATCTGATAAC-AAA
1 AAAT-ATCTGATAACTAAA
*
4951874 AAATATCTAATAACT
1 AAATATCTGATAACT
4951889 GTAAACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATATCTGATAACTAAA
Found at i:4957552 original size:20 final size:20
Alignment explanation
Indices: 4957527--4957632 Score: 74
Period size: 20 Copynumber: 5.2 Consensus size: 20
4957517 TAGTTACAGT
4957527 GGTTTAGAAACTAGG-AAGAG
1 GGTTTAGAAACTAGGCAAG-G
*
4957547 GGTTTAGAAA-TAGGCATGG
1 GGTTTAGAAACTAGGCAAGG
* *
4957566 GGTTTTGAAACTAGGTATAGGG
1 GGTTTAGAAACTAGGCA-A-GG
**
4957588 GGTTT-GAAACTAGATAAAGG
1 GGTTTAGAAACTAG-GCAAGG
* * **
4957608 GTTTTTGAAACTAGAAAAGG
1 GGTTTAGAAACTAGGCAAGG
4957628 GGTTT
1 GGTTT
4957633 TCCAAACCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.20
20 32 0.45
21 17 0.24
22 8 0.11
ACGTcount: A:0.34, C:0.05, G:0.33, T:0.28
Consensus pattern (20 bp):
GGTTTAGAAACTAGGCAAGG
Found at i:4957593 original size:21 final size:21
Alignment explanation
Indices: 4957527--4957621 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
4957517 TAGTTACAGT
*
4957527 GGTTTAGAAACTAGG-A-AGAG
1 GGTTT-GAAACTAGGTATAGGG
*
4957547 GGTTTAGAAA-TAGGCAT-GGG
1 GGTTT-GAAACTAGGTATAGGG
*
4957567 GTTTTGAAACTAGGTATAGGG
1 GGTTTGAAACTAGGTATAGGG
* *
4957588 GGTTTGAAACTAGATAAAGGG
1 GGTTTGAAACTAGGTATAGGG
**
4957609 TTTTTGAAACTAG
1 GGTTTGAAACTAG
4957622 AAAAGGGGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
19 8 0.13
20 23 0.37
21 32 0.51
ACGTcount: A:0.34, C:0.05, G:0.33, T:0.28
Consensus pattern (21 bp):
GGTTTGAAACTAGGTATAGGG
Found at i:4957622 original size:21 final size:21
Alignment explanation
Indices: 4957564--4957633 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
4957554 AAATAGGCAT
* *
4957564 GGGGTTTTGAAACTAGGTATA
1 GGGGTTTTGAAACTAGATAAA
*
4957585 GGGGGTTTGAAACTAGATAAA
1 GGGGTTTTGAAACTAGATAAA
*
4957606 GGGTTTTTGAAACTAGA-AAA
1 GGGGTTTTGAAACTAGATAAA
4957626 GGGGTTTT
1 GGGGTTTT
4957634 CCAAACCAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 10 0.23
21 33 0.77
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.31
Consensus pattern (21 bp):
GGGGTTTTGAAACTAGATAAA
Found at i:4957639 original size:21 final size:21
Alignment explanation
Indices: 4957594--4957639 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4957584 AGGGGGTTTG
**
4957594 AAACTAGATAAAGGGTTTTTG
1 AAACTAGATAAAGGGTTTTCC
4957615 AAACTAGA-AAAGGGGTTTTCC
1 AAACTAGATAAA-GGGTTTTCC
4957636 AAAC
1 AAAC
4957640 CAGGCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (21 bp):
AAACTAGATAAAGGGTTTTCC
Found at i:4964785 original size:49 final size:49
Alignment explanation
Indices: 4964709--4964811 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 49
4964699 AACCGTTAAA
* * * *
4964709 GTCGTACACTTTGTTTGTGAGATCGTTAAGGACTATGTTCCTACCAAAG
1 GTCGTACACTTTGATGGCGAGAGCGTTAAGGACTATGTTCCTACCAAAG
* *
4964758 GTCGTACGCTTTGATGGCGAGAGCGTTAAGGCCTATGTTCCTACCAAAG
1 GTCGTACACTTTGATGGCGAGAGCGTTAAGGACTATGTTCCTACCAAAG
4964807 GTCGT
1 GTCGT
4964812 TCCTACCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (49 bp):
GTCGTACACTTTGATGGCGAGAGCGTTAAGGACTATGTTCCTACCAAAG
Found at i:4964815 original size:16 final size:17
Alignment explanation
Indices: 4964794--4964831 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
4964784 TAAGGCCTAT
4964794 GTTCCTACCAAA-GGTC
1 GTTCCTACCAAAGGGTC
4964810 GTTCCTACCAAAGGGTC
1 GTTCCTACCAAAGGGTC
4964827 GTTCC
1 GTTCC
4964832 AGTGTTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (17 bp):
GTTCCTACCAAAGGGTC
Found at i:4964849 original size:65 final size:65
Alignment explanation
Indices: 4964745--4964869 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 65
4964735 TAAGGACTAT
**
4964745 GTTCCTACCAAAGGTCGTACGCTTTGATGGCGAGAGCGTTAAGGCCTATGTTCCTACCAAAGGTC
1 GTTCCTACCAAAGGTCGTACGCAGTGATGGCGAGAGCGTTAAGGCCTATGTTCCTACCAAAGGTC
* * * *
4964810 GTTCCTACCAAAGGGTCGTTC-CAGTGTTGGTGAGAGCGTTAAGGCCTATGTTCCTGCCAA
1 GTTCCTACCAAA-GGTCGTACGCAGTGATGGCGAGAGCGTTAAGGCCTATGTTCCTACCAA
4964870 GCAATTTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 46 0.87
66 7 0.13
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (65 bp):
GTTCCTACCAAAGGTCGTACGCAGTGATGGCGAGAGCGTTAAGGCCTATGTTCCTACCAAAGGTC
Found at i:4967756 original size:16 final size:17
Alignment explanation
Indices: 4967731--4967767 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
4967721 TAGTAAGATC
4967731 AAAAGAAACTCGAACT-
1 AAAAGAAACTCGAACTG
*
4967747 AAAAGTAACTCGAACTG
1 AAAAGAAACTCGAACTG
4967764 AAAA
1 AAAA
4967768 CAACCAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.14
Consensus pattern (17 bp):
AAAAGAAACTCGAACTG
Found at i:4969438 original size:16 final size:15
Alignment explanation
Indices: 4969417--4969452 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4969407 TAATTGGAGA
*
4969417 TGAAAACGTTGAAGT
1 TGAAAAAGTTGAAGT
*
4969432 TGAAAAAGTTGGAGT
1 TGAAAAAGTTGAAGT
4969447 TGAAAA
1 TGAAAA
4969453 GAATGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.25
Consensus pattern (15 bp):
TGAAAAAGTTGAAGT
Found at i:4970319 original size:5 final size:5
Alignment explanation
Indices: 4970309--4970358 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
4970299 GAAAATGTAT
* *
4970309 AATAA AATAA AAT-A AATAA TAAT-A AATAA AAGGAA AATAT AATAA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AA-TAA AATAA AATAA AATAA
4970359 TAAATAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.19
5 23 0.62
6 7 0.19
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:4970332 original size:20 final size:19
Alignment explanation
Indices: 4970307--4970382 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 19
4970297 TTGAAAATGT
4970307 ATAATAAAATAAAATAAATA
1 ATAATAAAATAAAA-AAATA
4970327 ATAAT-AAATAAAAGGAAA-A
1 ATAATAAAATAAAA--AAATA
4970346 TATAATAAAATAATAAATAATA
1 -ATAATAAAATAA-AAA-AATA
*
4970368 GTAATAAAGATAAAA
1 ATAATAAA-ATAAAA
4970383 GGGTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
19 9 0.19
20 14 0.30
21 17 0.36
22 7 0.15
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
ATAATAAAATAAAAAAATA
Found at i:4970367 original size:10 final size:10
Alignment explanation
Indices: 4970307--4970367 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
4970297 TTGAAAATGT
4970307 ATAATAAAATA
1 ATAAT-AAATA
4970318 A-AATAAATA
1 ATAATAAATA
4970327 ATAATAAATA
1 ATAATAAATA
*
4970337 A-AAGGAAA-A
1 ATAA-TAAATA
4970346 TATAAT-AA-A
1 -ATAATAAATA
4970355 ATAATAAATA
1 ATAATAAATA
4970365 ATA
1 ATA
4970368 GTAATAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
8 5 0.12
9 14 0.33
10 20 0.48
11 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (10 bp):
ATAATAAATA
Found at i:4971166 original size:76 final size:73
Alignment explanation
Indices: 4971021--4971192 Score: 220
Period size: 76 Copynumber: 2.3 Consensus size: 73
4971011 AAATATCAAT
* * ** * *
4971021 TAAAA-CTATTTAAACTAAAATACCTAAAAATAATAATATTCTAAATAATATTATAAATCCTAAT
1 TAAAACCTATTTAAACTAAAATACCTAAAAAAAATAAAATTAAAAATAATATCATAAAACCTAAT
4971085 TAAAATAC
66 TAAAATAC
* *
4971093 TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATATCCTAAAACTT
1 TAAAACCTATTTAAACTAAAATACCTAAAA-AAA-ATAAAAT-TAAAAATAATATCATAAAACCT
*
4971158 AATTAAAATCC
63 AATTAAAATAC
*
4971169 TAAAACATATTTAAACTAAAATAC
1 TAAAACCTATTTAAACTAAAATAC
4971193 AAAGATAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 5 0.06
73 24 0.28
74 2 0.02
75 6 0.07
76 49 0.57
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.30
Consensus pattern (73 bp):
TAAAACCTATTTAAACTAAAATACCTAAAAAAAATAAAATTAAAAATAATATCATAAAACCTAAT
TAAAATAC
Found at i:4971182 original size:19 final size:19
Alignment explanation
Indices: 4971146--4971183 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4971136 TAAAAATAAT
*
4971146 ATCCTAAAACTTAATTAAA
1 ATCCTAAAACATAATTAAA
*
4971165 ATCCTAAAACATATTTAAA
1 ATCCTAAAACATAATTAAA
4971184 CTAAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
ATCCTAAAACATAATTAAA
Found at i:4973047 original size:5 final size:5
Alignment explanation
Indices: 4973037--4973084 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
4973027 GTTCAGAGGC
* *
4973037 AAATA AAATA AAATA AATTTA AAATA AAAT- AAATA GAATTA AAATA AA
1 AAATA AAATA AAATA AA-ATA AAATA AAATA AAATA -AAATA AAATA AA
4973085 GTTTGAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.67
6 8 0.22
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (5 bp):
AAATA
Found at i:4973059 original size:16 final size:16
Alignment explanation
Indices: 4973040--4973070 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4973030 CAGAGGCAAA
4973040 TAAAATAAAATAAATT
1 TAAAATAAAATAAATT
4973056 TAAAATAAAATAAAT
1 TAAAATAAAATAAAT
4973071 AGAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAATAAAATAAATT
Found at i:4973078 original size:20 final size:21
Alignment explanation
Indices: 4973037--4973084 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
4973027 GTTCAGAGGC
4973037 AAATAAAATAAAATAAATTTA
1 AAATAAAATAAAATAAATTTA
4973058 AAATAAAAT-AAATAGAA-TTA
1 AAATAAAATAAAATA-AATTTA
4973078 AAATAAA
1 AAATAAA
4973085 GTTTGAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (21 bp):
AAATAAAATAAAATAAATTTA
Found at i:4973616 original size:16 final size:16
Alignment explanation
Indices: 4973595--4973626 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4973585 GTGAAAAGAT
4973595 ACATATCTTTTTTAAA
1 ACATATCTTTTTTAAA
*
4973611 ACATATTTTTTTTAAA
1 ACATATCTTTTTTAAA
4973627 TTCAAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
ACATATCTTTTTTAAA
Found at i:4973760 original size:57 final size:57
Alignment explanation
Indices: 4973691--4973805 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
4973681 CATAACCATA
*
4973691 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAACCTACAAGTATT
* ** *
4973748 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCTGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAACCTACAAGTATT
4973805 C
1 C
4973806 TTCCTCTAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.14
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAACCTACAAGTATT
Found at i:4973932 original size:24 final size:24
Alignment explanation
Indices: 4973885--4973932 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4973875 TTCGAGTCAA
* **
4973885 GTATCATATCAGAATCCATGTCAG
1 GTATCATAACAGAATCCAAATCAG
*
4973909 GTATCATAACAGAATTCAAATCAG
1 GTATCATAACAGAATCCAAATCAG
4973933 AAATCAGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (24 bp):
GTATCATAACAGAATCCAAATCAG
Found at i:4978360 original size:15 final size:15
Alignment explanation
Indices: 4978340--4978370 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4978330 GTGAAAAGAT
4978340 ACATATTTTTTTAAA
1 ACATATTTTTTTAAA
4978355 ACATATTTTTTTAAA
1 ACATATTTTTTTAAA
4978370 A
1 A
4978371 TTCAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ACATATTTTTTTAAA
Found at i:4978508 original size:57 final size:57
Alignment explanation
Indices: 4978444--4978551 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
4978434 ATAACCCATC
* * *
4978444 GTCACGAACAGTAAGGC-CTTGAGCACAAAGCCAAGGAACTTGTAAGTATTCAACCCT
1 GTCACGAACAGTAAGGCTC-TCAGCACAAAGCCAAGGAACCTGCAAGTATTCAACCCT
*
4978501 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTC
1 GTCACGAACAGTAAGGCTCTCAGCACAAAGCCAAGGAACCTGCAAGTATTC
4978552 TTCCTCCAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
57 45 0.98
58 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (57 bp):
GTCACGAACAGTAAGGCTCTCAGCACAAAGCCAAGGAACCTGCAAGTATTCAACCCT
Found at i:4982975 original size:57 final size:57
Alignment explanation
Indices: 4982912--4983022 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
4982902 TAGCATACAA
* *
4982912 CCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTGCAAGTATTCAAC
1 CCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAAACTGCAAGTATTCAAC
* **
4982969 CCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCTGAGGAAACTGCAAGTATTC
1 CCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAAACTGCAAGTATTC
4983023 TTCCTCCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.34, C:0.30, G:0.22, T:0.14
Consensus pattern (57 bp):
CCCGTCACGAACAGTAAGGCCCTCAGCACAAAGCCAAGGAAACTGCAAGTATTCAAC
Found at i:4985520 original size:17 final size:17
Alignment explanation
Indices: 4985498--4985536 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4985488 TCAATGTCAT
*
4985498 TCAACGCCGGTCAATGG
1 TCAACGCAGGTCAATGG
*
4985515 TCAACGCATGTCAATGG
1 TCAACGCAGGTCAATGG
4985532 TCAAC
1 TCAAC
4985537 AATCAACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (17 bp):
TCAACGCAGGTCAATGG
Found at i:4987571 original size:57 final size:57
Alignment explanation
Indices: 4987482--4987596 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
4987472 CATACCCATA
4987482 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
* * * * *
4987539 CAACCTCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
4987596 C
1 C
4987597 TTCCTCCAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
Found at i:4994923 original size:17 final size:17
Alignment explanation
Indices: 4994901--4994939 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4994891 TCAACGCCGT
*
4994901 TCAACGCCGGTCAATGG
1 TCAACGCAGGTCAATGG
*
4994918 TCAACGCAGGTCAATTG
1 TCAACGCAGGTCAATGG
4994935 TCAAC
1 TCAAC
4994940 AATCGGCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (17 bp):
TCAACGCAGGTCAATGG
Found at i:4997076 original size:57 final size:57
Alignment explanation
Indices: 4997006--4997120 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
4996996 TATACCCATA
* *
4997006 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
1 CAACCCCGTCACGAACAATAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
* * * * *
4997063 CAACCTCGTCACGAACAATAAGGCTCTCAGCACAAAGACGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAATAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
4997120 C
1 C
4997121 TTCCTCCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.14
Consensus pattern (57 bp):
CAACCCCGTCACGAACAATAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
Found at i:5001827 original size:55 final size:55
Alignment explanation
Indices: 5001766--5001870 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
5001756 TACAACCCCG
*
5001766 TCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATTCAACCA
1 TCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATTCAACCA
* * * *
5001821 TCACGAACAGTAAGGCTCTCAGCACAAAGACGAGGAACCTTCAAGTATTC
1 TCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATTC
5001871 TTCCTCTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.39, C:0.28, G:0.18, T:0.15
Consensus pattern (55 bp):
TCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATTCAACCA
Found at i:5005813 original size:57 final size:57
Alignment explanation
Indices: 5005740--5005854 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
5005730 CATACCCATA
*
5005740 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGCCAAGGAACCTACAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
* * * * * *
5005797 CAACCTCGTCATGAACAGTAAGGCTCTCAGCACAAAGACGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
5005854 C
1 C
5005855 TTCCTCCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTAAGCACAAAGACAAGGAACCTACAAGTATT
Found at i:5009640 original size:25 final size:25
Alignment explanation
Indices: 5009612--5009663 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
5009602 TATTACCGAT
5009612 GATACTTCCGACTGAAATTAACAAC
1 GATACTTCCGACTGAAATTAACAAC
* *
5009637 GATACTTCTGACTGAAATTAACGAC
1 GATACTTCCGACTGAAATTAACAAC
5009662 GA
1 GA
5009664 ACGACGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (25 bp):
GATACTTCCGACTGAAATTAACAAC
Found at i:5010045 original size:5 final size:5
Alignment explanation
Indices: 5010035--5010077 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
5010025 TTTGCTAAAG
*
5010035 AATAA AATAA AATAAA AATAA AAT-G AATAAA AATAA AATAA AA
1 AATAA AATAA AAT-AA AATAA AATAA AAT-AA AATAA AATAA AA
5010078 AATATAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 22 0.67
6 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:5010054 original size:11 final size:11
Alignment explanation
Indices: 5010030--5010078 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
5010020 TACAGTTTGC
5010030 TAAAGAATAAAA
1 TAAA-AATAAAA
5010042 T-AAAATAAAA
1 TAAAAATAAAA
*
5010052 -ATAAAAT-GAA
1 TA-AAAATAAAA
5010062 TAAAAATAAAA
1 TAAAAATAAAA
5010073 TAAAAA
1 TAAAAA
5010079 ATATAACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 14 0.45
11 16 0.52
12 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:5010065 original size:15 final size:16
Alignment explanation
Indices: 5010030--5010077 Score: 71
Period size: 15 Copynumber: 3.0 Consensus size: 16
5010020 TACAGTTTGC
5010030 TAAAGAATAAAATAAAA
1 TAAA-AATAAAATAAAA
*
5010047 TAAAAATAAAAT-GAA
1 TAAAAATAAAATAAAA
5010062 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
5010078 AATATAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 14 0.50
16 10 0.36
17 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:5010089 original size:27 final size:26
Alignment explanation
Indices: 5010034--5010090 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
5010024 GTTTGCTAAA
*
5010034 GAAT-AAAATAAAATAAAAATAAAAT
1 GAATAAAAATAAAATAAAAATAAAAC
*
5010059 GAATAAAAATAAAATAAAAAATATAAC
1 GAATAAAAATAAAAT-AAAAATAAAAC
5010086 GAATA
1 GAATA
5010091 GGTTGTCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 10 0.36
27 14 0.50
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (26 bp):
GAATAAAAATAAAATAAAAATAAAAC
Found at i:5012404 original size:17 final size:17
Alignment explanation
Indices: 5012391--5012432 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
5012381 TTGAAAATGT
5012391 ATAATAAAATAAAATAA
1 ATAATAAAATAAAATAA
* *
5012408 ATAATAATATAATATAA
1 ATAATAAAATAAAATAA
5012425 TATAATAA
1 -ATAATAA
5012433 TAAATAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATAAAATAA
Found at i:5012418 original size:25 final size:28
Alignment explanation
Indices: 5012390--5012441 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
5012380 GTTGAAAATG
5012390 TATAATA-AA-ATAA-AATAAATAATAA
1 TATAATATAATATAATAATAAATAATAA
5012415 TATAATATAATATAATAATAAATAATA
1 TATAATATAATATAATAATAAATAATA
5012442 GTAGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 4 0.17
28 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TATAATATAATATAATAATAAATAATAA
Done.