Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 12 of 208
Found at i:4832425 original size:13 final size:13
Alignment explanation
Indices: 4832404--4832435 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4832394 GCTTGGATCA
*
4832404 TCATCAAATAAAT
1 TCATAAAATAAAT
4832417 TCATAAAATAAAT
1 TCATAAAATAAAT
4832430 TCATAA
1 TCATAA
4832436 TTGCTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4832682 original size:30 final size:30
Alignment explanation
Indices: 4832647--4832704 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4832637 CCTCGACTCT
*
4832647 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4832677 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4832705 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4839808 original size:99 final size:104
Alignment explanation
Indices: 4839648--4839896 Score: 348
Period size: 99 Copynumber: 2.4 Consensus size: 104
4839638 TGATAATAAC
**
4839648 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4839713 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4839750 -TGCCAACGCCATGTCCCA-ACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4839812 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4839854 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4839897 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 50 0.38
100 18 0.14
101 17 0.13
102 3 0.02
103 1 0.01
104 2 0.02
105 17 0.13
106 22 0.17
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4839840 original size:50 final size:50
Alignment explanation
Indices: 4839649--4839896 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
4839639 GATAATAACA
* ** *
4839649 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
4839700 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
4839750 TGCCAACGCCATGTCCCA-ACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
4839799 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
4839854 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4839897 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 45 0.27
50 46 0.27
51 33 0.20
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:4840013 original size:13 final size:13
Alignment explanation
Indices: 4839991--4840021 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4839981 GCTTGGATCA
4839991 TCAT-AAATAAAT
1 TCATAAAATAAAT
4840003 TCATAAAATAAAT
1 TCATAAAATAAAT
4840016 TCATAA
1 TCATAA
4840022 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4840268 original size:30 final size:30
Alignment explanation
Indices: 4840233--4840290 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4840223 CCTCGACTCT
*
4840233 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4840263 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4840291 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4852415 original size:14 final size:15
Alignment explanation
Indices: 4852398--4852430 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4852388 GAAAAAACAT
4852398 TTTAAAA-AATTATA
1 TTTAAAACAATTATA
*
4852412 TTTAAAACAATTTTA
1 TTTAAAACAATTATA
4852427 TTTA
1 TTTA
4852431 GAAATCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAAACAATTATA
Found at i:4854574 original size:12 final size:12
Alignment explanation
Indices: 4854557--4854583 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4854547 TGATGTTCAA
4854557 TCCTCATTGTCT
1 TCCTCATTGTCT
4854569 TCCTCATTGTCT
1 TCCTCATTGTCT
4854581 TCC
1 TCC
4854584 ATGATTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.37, G:0.07, T:0.48
Consensus pattern (12 bp):
TCCTCATTGTCT
Found at i:4865180 original size:2 final size:2
Alignment explanation
Indices: 4865173--4865211 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4865163 TCGATCTGTT
4865173 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4865212 CTATAAGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4866358 original size:12 final size:12
Alignment explanation
Indices: 4866327--4866359 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4866317 AATTCATTAT
*
4866327 TTTTAAAAATAA
1 TTTTATAAATAA
4866339 TTTT-TAAATAA
1 TTTTATAAATAA
4866350 TTTTATAAAT
1 TTTTATAAAT
4866360 CAAATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATAAATAA
Found at i:4866753 original size:13 final size:13
Alignment explanation
Indices: 4866735--4866760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4866725 CTCAAACCAC
4866735 ACGTAGACAGTGA
1 ACGTAGACAGTGA
4866748 ACGTAGACAGTGA
1 ACGTAGACAGTGA
4866761 GCAACTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGTAGACAGTGA
Found at i:4866841 original size:13 final size:13
Alignment explanation
Indices: 4866823--4866848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4866813 GAACTCTTGC
4866823 TCACTGTCTACGT
1 TCACTGTCTACGT
4866836 TCACTGTCTACGT
1 TCACTGTCTACGT
4866849 GTGGTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
TCACTGTCTACGT
Found at i:4867844 original size:39 final size:39
Alignment explanation
Indices: 4867790--4867869 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
4867780 TCCGGTGCCT
4867790 GAAACAACCAATTCTCTACTTTCATGATTTCGACATAAA
1 GAAACAACCAATTCTCTACTTTCATGATTTCGACATAAA
4867829 GAAACAACCAATTCTCTACTTTCATGATTTCGACATAAA
1 GAAACAACCAATTCTCTACTTTCATGATTTCGACATAAA
4867868 GA
1 GA
4867870 TGAACAAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (39 bp):
GAAACAACCAATTCTCTACTTTCATGATTTCGACATAAA
Found at i:4873687 original size:30 final size:30
Alignment explanation
Indices: 4873651--4873710 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4873641 CATCTGCAAA
4873651 TGATGTTTTAACTCTATAGTTATTCAGGAT
1 TGATGTTTTAACTCTATAGTTATTCAGGAT
4873681 TGATGTTTTAACTCTATAGTTATTCAGGAT
1 TGATGTTTTAACTCTATAGTTATTCAGGAT
4873711 AACCAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (30 bp):
TGATGTTTTAACTCTATAGTTATTCAGGAT
Found at i:4878560 original size:9 final size:9
Alignment explanation
Indices: 4878536--4878582 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
4878526 TGGCTGAAGC
4878536 TCTTCCTCT
1 TCTTCCTCT
* *
4878545 TCATCCTCG
1 TCTTCCTCT
4878554 TCTTCCTCT
1 TCTTCCTCT
*
4878563 TCTTCTTCT
1 TCTTCCTCT
*
4878572 TCCTCCTCT
1 TCTTCCTCT
4878581 TC
1 TC
4878583 CTCACCATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (9 bp):
TCTTCCTCT
Found at i:4878569 original size:24 final size:24
Alignment explanation
Indices: 4878535--4878585 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4878525 GTGGCTGAAG
*
4878535 CTCTTCCTCTTCATCCTCGTCTTC
1 CTCTTCCTCTTCATCCTCCTCTTC
* *
4878559 CTCTTCTTCTTCTTCCTCCTCTTC
1 CTCTTCCTCTTCATCCTCCTCTTC
4878583 CTC
1 CTC
4878586 ACCATCATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.02, C:0.47, G:0.02, T:0.49
Consensus pattern (24 bp):
CTCTTCCTCTTCATCCTCCTCTTC
Found at i:4878608 original size:12 final size:12
Alignment explanation
Indices: 4878588--4878630 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4878578 TCTTCCTCAC
*
4878588 CATCATCGTCGT
1 CATCATCGTCAT
*
4878600 CATCGTCGTCAT
1 CATCATCGTCAT
*
4878612 CATCCTCGTCAT
1 CATCATCGTCAT
4878624 CATCATC
1 CATCATC
4878631 CTCGTCTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.33
Consensus pattern (12 bp):
CATCATCGTCAT
Found at i:4878626 original size:15 final size:15
Alignment explanation
Indices: 4878602--4878636 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4878592 ATCGTCGTCA
*
4878602 TCGTCGTCATCATCC
1 TCGTCATCATCATCC
4878617 TCGTCATCATCATCC
1 TCGTCATCATCATCC
4878632 TCGTC
1 TCGTC
4878637 TCCACTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.40, G:0.11, T:0.34
Consensus pattern (15 bp):
TCGTCATCATCATCC
Found at i:4878734 original size:21 final size:21
Alignment explanation
Indices: 4878710--4878749 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4878700 TGCATCCTCC
4878710 TCATCTGCAT-CTTCATCTTGA
1 TCATCT-CATGCTTCATCTTGA
*
4878731 TCATCTCCTGCTTCATCTT
1 TCATCTCATGCTTCATCTT
4878750 TCTCATCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.45
Consensus pattern (21 bp):
TCATCTCATGCTTCATCTTGA
Found at i:4883985 original size:93 final size:93
Alignment explanation
Indices: 4883826--4884011 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
4883816 AGCTACGTCC
* *
4883826 CACACCTAAACTCAAGAAATCAGTGTAGAAGATCTATTTTTCTTCATATCAATGACGAAATAACT
1 CACACCTAAACTCAAGAAATCAGTGTAGAAGATCTATTTTTCTTCATATCAATAAAGAAATAACT
4883891 ATTCAATCATAACTAACCTTGATGGTCT
66 ATTCAATCATAACTAACCTTGATGGTCT
4883919 CACACCTAAACTCAAGAAATCAGTGTAGAAGATCTATTTTTCTTCATATCAATAAAGAAATAACT
1 CACACCTAAACTCAAGAAATCAGTGTAGAAGATCTATTTTTCTTCATATCAATAAAGAAATAACT
4883984 ATTCAATCATAACTAACCTTGATGGTCT
66 ATTCAATCATAACTAACCTTGATGGTCT
4884012 TGTCATCACC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (93 bp):
CACACCTAAACTCAAGAAATCAGTGTAGAAGATCTATTTTTCTTCATATCAATAAAGAAATAACT
ATTCAATCATAACTAACCTTGATGGTCT
Found at i:4892482 original size:46 final size:46
Alignment explanation
Indices: 4892464--4892718 Score: 253
Period size: 46 Copynumber: 5.3 Consensus size: 46
4892454 TGACAAGTGG
* * *
4892464 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
4892510 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
* * *
4892556 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
4892608 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
* **
4892654 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
4892706 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4892719 GCTACACTTA
Statistics
Matches: 179, Mismatches: 15, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
46 93 0.52
47 2 0.01
51 1 0.01
52 83 0.46
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:4892483 original size:52 final size:51
Alignment explanation
Indices: 4892412--4892701 Score: 384
Period size: 52 Copynumber: 5.8 Consensus size: 51
4892402 ATCAAGTGAC
*
4892412 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
4892464 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4892510 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
4892562 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4892608 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4892659 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
4892702 AAACAAAGTG
Statistics
Matches: 205, Mismatches: 21, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
46 82 0.40
52 123 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4892518 original size:98 final size:98
Alignment explanation
Indices: 4892398--4892719 Score: 581
Period size: 98 Copynumber: 3.3 Consensus size: 98
4892388 TTTGAGTACT
4892398 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4892463 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
4892496 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4892561 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
4892594 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
4892659 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4892692 TCTGATCAAGAAACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
4892720 CTACACTTAT
Statistics
Matches: 217, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 217 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4892726 original size:37 final size:37
Alignment explanation
Indices: 4892682--4892864 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
4892672 GATAGCTTTA
4892682 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4892719 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4892756 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4892793 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4892830 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4892865 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4894195 original size:58 final size:58
Alignment explanation
Indices: 4894118--4894285 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
4894108 CATGTGAACA
4894118 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4894177 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
4894233 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4894284 TG
1 TG
4894286 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:4894227 original size:28 final size:28
Alignment explanation
Indices: 4894137--4894227 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4894127 GTGATTCCGT
4894137 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
4894165 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
4894194 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
4894223 GTAAG
1 GTAAG
4894228 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:4894250 original size:49 final size:49
Alignment explanation
Indices: 4894178--4894318 Score: 228
Period size: 49 Copynumber: 2.9 Consensus size: 49
4894168 AGTGATATGT
* *
4894178 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4894227 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4894276 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCAT
4894319 TGAGAAAACG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:4897532 original size:46 final size:46
Alignment explanation
Indices: 4897514--4897768 Score: 253
Period size: 46 Copynumber: 5.3 Consensus size: 46
4897504 TGACAAGTGG
* * *
4897514 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
4897560 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
* * *
4897606 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
4897658 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
* **
4897704 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
4897756 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4897769 GCTACACTTA
Statistics
Matches: 179, Mismatches: 15, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
46 93 0.52
47 2 0.01
51 1 0.01
52 83 0.46
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:4897533 original size:52 final size:51
Alignment explanation
Indices: 4897462--4897751 Score: 384
Period size: 52 Copynumber: 5.8 Consensus size: 51
4897452 ATCAAGTGAC
*
4897462 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
4897514 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4897560 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
4897612 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4897658 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4897709 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
4897752 AAACAAAGTG
Statistics
Matches: 205, Mismatches: 21, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
46 82 0.40
52 123 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4897568 original size:98 final size:98
Alignment explanation
Indices: 4897448--4897769 Score: 581
Period size: 98 Copynumber: 3.3 Consensus size: 98
4897438 TTTGAGTACT
4897448 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4897513 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
4897546 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4897611 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
4897644 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
4897709 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4897742 TCTGATCAAGAAACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
4897770 CTACACTTAT
Statistics
Matches: 217, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 217 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4897776 original size:37 final size:37
Alignment explanation
Indices: 4897732--4897914 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
4897722 GATAGCTTTA
4897732 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4897769 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4897806 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4897843 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4897880 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4897915 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4915582 original size:3 final size:3
Alignment explanation
Indices: 4915574--4915606 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4915564 GAAGAGACAA
4915574 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4915607 GTACCAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4920019 original size:17 final size:17
Alignment explanation
Indices: 4919999--4920036 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4919989 AATGCCAAAA
4919999 TTAAGGTATCTTTGTTT
1 TTAAGGTATCTTTGTTT
4920016 TTAAGGTATCTTTGTTT
1 TTAAGGTATCTTTGTTT
4920033 TTAA
1 TTAA
4920037 CTAATAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (17 bp):
TTAAGGTATCTTTGTTT
Found at i:4921692 original size:16 final size:16
Alignment explanation
Indices: 4921646--4921690 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4921636 TATGGTTGGA
* * *
4921646 TTAATATGTCTTTTTT
1 TTAATATTTATTTATT
4921662 TTAATATTTATTTATT
1 TTAATATTTATTTATT
4921678 TTAATATTATATT
1 TTAATATT-TATT
4921691 ATACTCCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTAATATTTATTTATT
Found at i:4923540 original size:17 final size:17
Alignment explanation
Indices: 4923502--4923558 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
4923492 ATTAAATTTA
**
4923502 TAATTTAAATAATTCGAT
1 TAATTTAAATAA-TAAAT
4923520 TAATTTAAATAATAAAT
1 TAATTTAAATAATAAAT
* *
4923537 TAATGTAAAT-ATGAAT
1 TAATTTAAATAATAAAT
4923553 TAATTT
1 TAATTT
4923559 TTCTCAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 10 0.29
17 12 0.35
18 12 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
TAATTTAAATAATAAAT
Found at i:4923953 original size:27 final size:27
Alignment explanation
Indices: 4923903--4923955 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4923893 TCACTTTCTT
*
4923903 TTTTGTGTATCTTTTTTTTCTGAAAGC
1 TTTTGTGTATCTTTTTTATCTGAAAGC
*
4923930 TTTTGTTTATCTTTTTTAAT-TGAAAG
1 TTTTGTGTATCTTTTTT-ATCTGAAAG
4923956 TCTACAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (27 bp):
TTTTGTGTATCTTTTTTATCTGAAAGC
Found at i:4925639 original size:20 final size:19
Alignment explanation
Indices: 4925616--4925655 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4925606 TGTCTCAGAA
4925616 ATAATTACTTTGTTCAGTGG
1 ATAATTACTTTGTTC-GTGG
*
4925636 ATAATTATTTTGTTCGTGG
1 ATAATTACTTTGTTCGTGG
4925655 A
1 A
4925656 ACAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (19 bp):
ATAATTACTTTGTTCGTGG
Found at i:4928539 original size:3 final size:3
Alignment explanation
Indices: 4928531--4928556 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4928521 CATTATCCTT
4928531 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4928557 CGTCGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4931393 original size:24 final size:24
Alignment explanation
Indices: 4931378--4931429 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4931368 AATCAAAGTC
4931378 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
4931402 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
4931426 AAAT
1 AAAT
4931430 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:4935820 original size:24 final size:24
Alignment explanation
Indices: 4935793--4935845 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4935783 TAATCAAAGT
* *
4935793 TAAATATATTATGCTAATAAATGC
1 TAAATATATTATACTAATAAATAC
*
4935817 TAAATATATTATACTCATAAATAC
1 TAAATATATTATACTAATAAATAC
4935841 TAAAT
1 TAAAT
4935846 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Found at i:4937692 original size:11 final size:11
Alignment explanation
Indices: 4937678--4937704 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4937668 AGATAAATAT
4937678 TATTTAATTAA
1 TATTTAATTAA
4937689 TATTTAATTAA
1 TATTTAATTAA
4937700 TATTT
1 TATTT
4937705 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:4937698 original size:19 final size:20
Alignment explanation
Indices: 4937653--4937700 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
4937643 TTGTGATATT
4937653 TTTAATTAATTAATTAGATA
1 TTTAATTAATTAATTAGATA
** *
4937673 AAT-ATTATTTAATTA-ATA
1 TTTAATTAATTAATTAGATA
4937691 TTTAATTAAT
1 TTTAATTAAT
4937701 ATTTTTAGTA
Statistics
Matches: 21, Mismatches: 6, Indels: 3
0.70 0.20 0.10
Matches are distributed among these distances:
18 4 0.19
19 16 0.76
20 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTAATTAATTAATTAGATA
Found at i:4941036 original size:31 final size:31
Alignment explanation
Indices: 4941001--4941059 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4940991 TTATAACATA
* *
4941001 TTTCATATTATGTTTTCAATTCACTATCATT
1 TTTCACATTATATTTTCAATTCACTATCATT
*
4941032 TTTCACATTCTATTTTCAATTCACTATC
1 TTTCACATTATATTTTCAATTCACTATC
4941060 TCATATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTCACATTATATTTTCAATTCACTATCATT
Found at i:4941180 original size:22 final size:22
Alignment explanation
Indices: 4941149--4941214 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
4941139 TGCACTAATG
4941149 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * * *
4941171 TACAGTGAGCACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
4941193 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
4941215 GTAATCAGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:4941260 original size:25 final size:25
Alignment explanation
Indices: 4941195--4941266 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
4941185 ATGTGCTAAA
* *
4941195 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
4941220 CAGGGGAGCACTAACGTGCTAATAAT
1 CA-GAGAGCACTAACGTGCTAATAAT
*
4941246 CAGAGAGCACCAACGTGCTAA
1 CAGAGAGCACTAACGTGCTAA
4941267 ATGCTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:4941434 original size:13 final size:13
Alignment explanation
Indices: 4941416--4941441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4941406 TTTCACATTT
4941416 ATAATATATATTC
1 ATAATATATATTC
4941429 ATAATATATATTC
1 ATAATATATATTC
4941442 CACTTCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATATATATTC
Found at i:4942245 original size:8 final size:8
Alignment explanation
Indices: 4942232--4942272 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
4942222 TTTTTTATAT
4942232 ATATAATA
1 ATATAATA
4942240 ATATAATA
1 ATATAATA
* *
4942248 TTATAACA
1 ATATAATA
4942256 ATATAATTA
1 ATATAA-TA
4942265 ATATAATA
1 ATATAATA
4942273 CTTATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:4942258 original size:16 final size:17
Alignment explanation
Indices: 4942228--4942262 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4942218 TGTTTTTTTT
*
4942228 ATATATATAATAATATA
1 ATATATATAACAATATA
4942245 ATAT-TATAACAATATA
1 ATATATATAACAATATA
4942261 AT
1 AT
4942263 TAATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATATAACAATATA
Found at i:4943855 original size:40 final size:41
Alignment explanation
Indices: 4943718--4943873 Score: 219
Period size: 41 Copynumber: 3.8 Consensus size: 41
4943708 TACCTTTAGT
** * *
4943718 GGCTTTAGCGGTC-TTTTCAAAAAAGTGCCGCTAATGCTAGG
1 GGCTTTAGCGG-CGTTTTTGAAGAAGCGCCGCTAATGCTAGG
4943759 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGG
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGG
*
4943800 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTA-A
1 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGG
*
4943840 GGCTTTAGCAGCGTTTTTGGAA-AAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAA
4943874 AAATATTTTA
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
40 30 0.28
41 77 0.72
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGG
Found at i:4947278 original size:23 final size:22
Alignment explanation
Indices: 4947224--4947279 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
4947214 ACTAAAAGTA
*
4947224 TATATTTAATACTAATTAATTT
1 TATATTTAATAATAATTAATTT
* **
4947246 TTTATATTAATAATGTTTAATTT
1 TATAT-TTAATAATAATTAATTT
4947269 TAATATTTAAT
1 T-ATATTTAAT
4947280 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTTAATAATAATTAATTT
Found at i:4947428 original size:43 final size:43
Alignment explanation
Indices: 4947361--4947451 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
4947351 CGTTTATGAT
*
4947361 AAAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGCAATTGTTA
1 AAAAACCGTCACTAAAGGTCATGTTCTTTAGCGGCAATTGTTA
* * *
4947404 GAAAACCGTCGCTAAAGG-CTATGTTCTTTAGCGGCATTTGTTA
1 AAAAACCGTCACTAAAGGTC-ATGTTCTTTAGCGGCAATTGTTA
4947447 AAAAA
1 AAAAA
4947452 GCGCAAGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (43 bp):
AAAAACCGTCACTAAAGGTCATGTTCTTTAGCGGCAATTGTTA
Found at i:4948760 original size:22 final size:22
Alignment explanation
Indices: 4948732--4948775 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4948722 TGGGTACTTC
4948732 CATATACTTAGTTTATCATTGT
1 CATATACTTAGTTTATCATTGT
*
4948754 CATATACTTAGTTTATTATTGT
1 CATATACTTAGTTTATCATTGT
4948776 GGCTGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (22 bp):
CATATACTTAGTTTATCATTGT
Found at i:4951128 original size:6 final size:6
Alignment explanation
Indices: 4951117--4951146 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4951107 AAATAGAGTC
4951117 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
4951147 GTCAGTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTCTT
Found at i:4952966 original size:3 final size:3
Alignment explanation
Indices: 4952958--4952990 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4952948 TATACTTTGC
4952958 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4952991 GCTGCTGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4969167 original size:2 final size:2
Alignment explanation
Indices: 4969156--4969200 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
4969146 CTTTCATATC
4969156 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4969197 CT CT
1 CT CT
4969201 GATGATTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:4978462 original size:24 final size:24
Alignment explanation
Indices: 4978420--4978468 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
4978410 ATTAAAAAAA
4978420 TAGGATTTAAATAATATAA-TTTT
1 TAGGATTTAAATAATATAACTTTT
4978443 TAGGATTTATAAT-ATAATAACTTTT
1 TAGGATTTA-AATAAT-ATAACTTTT
4978468 T
1 T
4978469 TACCATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 11 0.48
24 7 0.30
25 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (24 bp):
TAGGATTTAAATAATATAACTTTT
Found at i:4996038 original size:96 final size:96
Alignment explanation
Indices: 4995874--4996066 Score: 314
Period size: 96 Copynumber: 2.0 Consensus size: 96
4995864 TCAAGTGTAG
* *
4995874 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTTATTGAAAAGGAAGGGTATCTTATGGTCCAAC
1 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
*
4995939 CTAGCCGACAGGGAATTTACATTCCTGATAA
66 CTAGCCGACAGGGAAGTTACATTCCTGATAA
* *
4995970 TGAAGGTGAAAACTTTGCTATGGAACCATCGGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
1 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
* * *
4996035 CTAGGCGACAGGGAAGTTATATTCCTGGTAA
66 CTAGCCGACAGGGAAGTTACATTCCTGATAA
4996066 T
1 T
4996067 CTTGGCTCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (96 bp):
TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
CTAGCCGACAGGGAAGTTACATTCCTGATAA
Found at i:5013360 original size:3 final size:3
Alignment explanation
Indices: 5013352--5013377 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5013342 TCCGGGCTGA
5013352 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
5013378 CTAATTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:5015264 original size:8 final size:9
Alignment explanation
Indices: 5015230--5015265 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
5015220 TCCATTGTCA
5015230 ATAGCATAC
1 ATAGCATAC
5015239 AT-GCATAC
1 ATAGCATAC
5015247 ATA-CATAC
1 ATAGCATAC
5015255 ATAGCA-AC
1 ATAGCATAC
5015263 ATA
1 ATA
5015266 TAGCTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (9 bp):
ATAGCATAC
Found at i:5018913 original size:12 final size:12
Alignment explanation
Indices: 5018889--5018932 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
5018879 GGACGTTTTG
*
5018889 GGAGGAGGAGGA
1 GGAGGAGGCGGA
*
5018901 GGAGGCGGCGGA
1 GGAGGAGGCGGA
*
5018913 GGCGGAGGCGGA
1 GGAGGAGGCGGA
*
5018925 GGTGGAGG
1 GGAGGAGG
5018933 AAGGAGAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.09, G:0.68, T:0.02
Consensus pattern (12 bp):
GGAGGAGGCGGA
Found at i:5018919 original size:15 final size:15
Alignment explanation
Indices: 5018895--5018933 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5018885 TTTGGGAGGA
5018895 GGAGGAGGAGGCGGC
1 GGAGGAGGAGGCGGC
* *
5018910 GGAGGCGGAGGCGGA
1 GGAGGAGGAGGCGGC
*
5018925 GGTGGAGGA
1 GGAGGAGGA
5018934 AGGAGAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.67, T:0.03
Consensus pattern (15 bp):
GGAGGAGGAGGCGGC
Found at i:5022471 original size:20 final size:21
Alignment explanation
Indices: 5022446--5022485 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5022436 CGTTGAGTTT
*
5022446 GTGGCA-GGGTCTCAAGGATA
1 GTGGCATGGATCTCAAGGATA
5022466 GTGGCATTGGATCTCAAGGA
1 GTGGCA-TGGATCTCAAGGA
5022486 ATCACCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.23
Consensus pattern (21 bp):
GTGGCATGGATCTCAAGGATA
Found at i:5025049 original size:17 final size:17
Alignment explanation
Indices: 5025009--5025050 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
5024999 AGAAATAGAA
* *
5025009 AAAGAAA-CAGAGATGG
1 AAAGAAAGCAGAAAGGG
5025025 AAACGAAAGCAGAAAGGG
1 AAA-GAAAGCAGAAAGGG
5025043 AAAGAAAG
1 AAAGAAAG
5025051 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.60, C:0.07, G:0.31, T:0.02
Consensus pattern (17 bp):
AAAGAAAGCAGAAAGGG
Found at i:5025056 original size:6 final size:6
Alignment explanation
Indices: 5025047--5025077 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5025037 AAAGGGAAAG
*
5025047 AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
5025078 GAAAGAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:5025084 original size:12 final size:12
Alignment explanation
Indices: 5025045--5025086 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
5025035 AGAAAGGGAA
5025045 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
5025057 AAAAAGAAAAAG
1 AGAAAGAAAAAG
5025069 AGAAAGAAAGAA-
1 AGAAAGAAA-AAG
5025081 AGAAAG
1 AGAAAG
5025087 GAGAAATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 25 0.93
13 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:5025771 original size:24 final size:24
Alignment explanation
Indices: 5025744--5025790 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5025734 ATTGAAATGG
5025744 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
5025768 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
5025791 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:5026038 original size:37 final size:40
Alignment explanation
Indices: 5025947--5026040 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
5025937 GACTTTGAGT
* * **
5025947 CGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGCCAATTTA-TACTTCGGATTAAGC
* *
5025988 CGATGAGGCACTGGGTGCCAA-TT-TACTTCGG-TTTAGC
1 CGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAGC
5026025 CGATGAGACACTGGGT
1 CGATGAGACACTGGGT
5026041 TTCATATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.39
38 7 0.15
40 2 0.04
41 19 0.41
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAGC
Found at i:5026792 original size:21 final size:22
Alignment explanation
Indices: 5026752--5026792 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5026742 CAATTTCTCA
*
5026752 ATCCAATATATATATTTCAATC
1 ATCCAATATATATAATTCAATC
5026774 ATCCAATA-ATATAATTCAA
1 ATCCAATATATATAATTCAA
5026793 GTTACACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (22 bp):
ATCCAATATATATAATTCAATC
Found at i:5029128 original size:13 final size:13
Alignment explanation
Indices: 5029110--5029136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5029100 TGAATGATAT
5029110 TTTGATGATATAA
1 TTTGATGATATAA
5029123 TTTGATGATATAA
1 TTTGATGATATAA
5029136 T
1 T
5029137 CATGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTGATGATATAA
Found at i:5031110 original size:31 final size:31
Alignment explanation
Indices: 5031075--5031144 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
5031065 AAATTTCTAC
5031075 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
1 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
5031106 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
1 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
5031137 TTTGGCCC
1 TTTGGCCC
5031145 AATTGTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.06, C:0.30, G:0.11, T:0.53
Consensus pattern (31 bp):
TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
Found at i:5033983 original size:18 final size:17
Alignment explanation
Indices: 5033939--5033974 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5033929 TTTTACCTTC
5033939 TTCTTTTTTTCTAAGAT
1 TTCTTTTTTTCTAAGAT
5033956 TTCTTTTTTTCTAAGAT
1 TTCTTTTTTTCTAAGAT
5033973 TT
1 TT
5033975 TCTTCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (17 bp):
TTCTTTTTTTCTAAGAT
Found at i:5048545 original size:17 final size:17
Alignment explanation
Indices: 5048507--5048548 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
5048497 AAACATTTAT
* *
5048507 TTTA-ATATTTTTGATA
1 TTTATATATTTTTAAAA
5048523 TATTATATATTTTTAAAA
1 T-TTATATATTTTTAAAA
5048541 TTTATATA
1 TTTATATA
5048549 ATAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTATATATTTTTAAAA
Found at i:5049634 original size:38 final size:38
Alignment explanation
Indices: 5049590--5049662 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
5049580 AACCCAACCT
*
5049590 AATTACCAACCCAATAAAACTAAAACTAAAGTCTATCC
1 AATTACCAACCCAATAAAAATAAAACTAAAGTCTATCC
*
5049628 AATTACCAACCTAATAAAAATAAAACTAAAGTCTA
1 AATTACCAACCCAATAAAAATAAAACTAAAGTCTA
5049663 ACTCTAAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (38 bp):
AATTACCAACCCAATAAAAATAAAACTAAAGTCTATCC
Found at i:5049815 original size:17 final size:17
Alignment explanation
Indices: 5049795--5049852 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
5049785 ATTTCAAGAC
5049795 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
***
5049812 TTATGT-A-GTTCAAAGA
1 TTATGTAATGTTTTTA-A
5049828 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
5049846 TTATGTA
1 TTATGTA
5049853 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 19 0.61
18 2 0.06
19 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:5049831 original size:34 final size:34
Alignment explanation
Indices: 5049790--5049854 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
5049780 TGTTAATTTC
5049790 AAGACTTATGTAATGTTTTTAATTATGTAGTTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTTCA
5049824 AAGACTTATGTAATGTTTTTAATTATGTAGT
1 AAGACTTATGTAATGTTTTTAATTATGTAGT
5049855 GATTCAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (34 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTTCA
Found at i:5064000 original size:15 final size:16
Alignment explanation
Indices: 5063980--5064012 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5063970 GACTATTAGT
5063980 TTTTTCTATTAA-TCC
1 TTTTTCTATTAATTCC
5063995 TTTTTCTATTAATTCC
1 TTTTTCTATTAATTCC
5064011 TT
1 TT
5064013 AATTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTCTATTAATTCC
Found at i:5069680 original size:45 final size:45
Alignment explanation
Indices: 5069622--5069718 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
5069612 TTTATTAAAC
* *
5069622 TTTATTTTCATTATATATTAATTAGGTGTTTAAGTCGTTTTT-AT
1 TTTATTTTCATTATATATTAATTAGATATTTAAGTCGTTTTTAAT
*
5069666 TTTCATTTTCATTATATATTAATTAGATATTTAGGTCGTTTTTAAT
1 TTT-ATTTTCATTATATATTAATTAGATATTTAAGTCGTTTTTAAT
5069712 TTTATTT
1 TTTATTT
5069719 AGGAAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
44 3 0.06
45 40 0.83
46 5 0.10
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (45 bp):
TTTATTTTCATTATATATTAATTAGATATTTAAGTCGTTTTTAAT
Found at i:5070367 original size:18 final size:18
Alignment explanation
Indices: 5070346--5070380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5070336 AATATTATAA
5070346 AATAAAATAATTATTTTG
1 AATAAAATAATTATTTTG
* *
5070364 AATATAATTATTATTTT
1 AATAAAATAATTATTTT
5070381 TATACGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AATAAAATAATTATTTTG
Found at i:5070734 original size:37 final size:36
Alignment explanation
Indices: 5070658--5070739 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
5070648 TAAAAAGACG
** **
5070658 AATT-AAAATAAAAAATTGAAAACAATATATTTATT
1 AATTAAAAATAAAAAATTGAAAACAATATAAATAAA
5070693 AATTAAAAATAAAAAACTTG-AAACAATATGAAATAAA
1 AATTAAAAATAAAAAA-TTGAAAACAATAT-AAATAAA
*
5070730 AATTACAAAT
1 AATTAAAAAT
5070740 GTGTTTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 4 0.10
36 20 0.51
37 15 0.38
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (36 bp):
AATTAAAAATAAAAAATTGAAAACAATATAAATAAA
Found at i:5081991 original size:5 final size:5
Alignment explanation
Indices: 5081981--5082013 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
5081971 ATAAACCACT
5081981 GCATA GCATA GCATA GCATA GCATA GCA-A GCAT
1 GCATA GCATA GCATA GCATA GCATA GCATA GCAT
5082014 TATAGCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (5 bp):
GCATA
Found at i:5089585 original size:59 final size:59
Alignment explanation
Indices: 5089521--5089719 Score: 203
Period size: 59 Copynumber: 3.3 Consensus size: 59
5089511 AATACTACGA
5089521 ATTTTATTAAT-TTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
* * * * * * * *
5089580 ATTTTATAGTATTATATATTATGTT-TT-TAGTAAATTCATATAAGAA-TA-TTTAATACTAAGA
1 ATTTTATAATATTATATATT-T-TTGTTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-T
*
5089641 ATTTTATTAA-ATTATATATTTTTGTTAAATTATATTTAATAATTATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
5089700 ATTTTATAATATTATATATT
1 ATTTTATAATATTATATATT
5089720 ATAATTTTAG
Statistics
Matches: 110, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
58 11 0.10
59 43 0.39
60 21 0.19
61 28 0.25
62 7 0.06
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (59 bp):
ATTTTATAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:5089663 original size:18 final size:17
Alignment explanation
Indices: 5089641--5089775 Score: 104
Period size: 18 Copynumber: 8.0 Consensus size: 17
5089631 AATACTAAGA
5089641 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
5089658 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
*
5089674 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
* *
5089688 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
5089707 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
5089723 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
5089741 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
5089758 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
5089776 TTAATAATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 25
0.72 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 9 0.10
16 9 0.10
17 20 0.21
18 42 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:5089671 original size:120 final size:120
Alignment explanation
Indices: 5089499--5089741 Score: 432
Period size: 120 Copynumber: 2.0 Consensus size: 120
5089489 TGATACAATC
* *
5089499 ATAAGAATATTTAATACTACGAATTTTATTAATTTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* **
5089564 AATTATTTTAAATTATATTTTATAGTATTATATATTATGTTTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
5089619 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
*
5089684 TATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
5089739 ATA
1 ATA
5089742 TTTTATTAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:5089686 original size:13 final size:13
Alignment explanation
Indices: 5089668--5089725 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
5089658 ATTTTTGTTA
*
5089668 AATTATATTTAAT
1 AATTATATTTTAT
5089681 AATTATTATTTTA-
1 AATTA-TATTTTAT
5089694 AATTATATTTTAT
1 AATTATATTTTAT
*
5089707 AATATTATATATTAT
1 -A-ATTATATTTTAT
5089722 AATT
1 AATT
5089726 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 13 0.33
14 8 0.21
15 11 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:5089691 original size:61 final size:61
Alignment explanation
Indices: 5089506--5089691 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
5089496 ATCATAAGAA
* *
5089506 TATTTAATACTACGAATTTTATTAATTTATATATTTTTGTTAAATTATATTTAATAATAAT
1 TATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* * * * * * * *
5089567 TATTTTAA-A-TTA-TATTTTA-TAGTATTATATATTATGTT-TT-TAGTAAATTCATATAAGAA
1 TA-TTTAATACTAAGAATTTTATTA-AATTATATATT-T-TTGTTAAATTATATTTA-ATAATAA
5089626 -
61 T
*
5089626 TATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATTAT
1 TATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
5089687 TATTT
1 TATTT
5089692 TAAATTATAT
Statistics
Matches: 94, Mismatches: 19, Indels: 24
0.69 0.14 0.18
Matches are distributed among these distances:
58 7 0.07
59 27 0.29
60 20 0.21
61 33 0.35
62 7 0.07
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (61 bp):
TATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
Found at i:5089694 original size:26 final size:25
Alignment explanation
Indices: 5089656--5089714 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
5089646 ATTAAATTAT
*
5089656 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
5089682 ATTATTATTTTAAATTATATTTTATA
1 A-TATTATTTTAAATTATATTTAATA
5089708 ATATTAT
1 ATATTAT
5089715 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 6 0.20
26 18 0.60
27 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:5089702 original size:15 final size:15
Alignment explanation
Indices: 5089695--5089724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5089685 ATTATTTTAA
5089695 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
5089710 ATTATATATTATAAT
1 ATTATATTTTATAAT
5089725 TTTAGTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:5089742 original size:41 final size:40
Alignment explanation
Indices: 5089577--5089760 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 40
5089567 TATTTTAAAT
* **
5089577 TATATTTTATAGTATTATATATTATGTTTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
5089618 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* *
5089655 TATATTTTTGTTAA-ATTATAT-TTAATAATTATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAATT-TTA--GTAAATTA
5089697 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
5089738 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
5089761 TTTATTAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 17 0.15
39 1 0.01
40 7 0.06
41 45 0.41
42 17 0.15
43 4 0.04
44 5 0.05
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:5090199 original size:50 final size:50
Alignment explanation
Indices: 5090140--5090237 Score: 196
Period size: 50 Copynumber: 2.0 Consensus size: 50
5090130 AGGTAAAACC
5090140 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
1 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
5090190 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATG
1 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATG
5090238 CCCATATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (50 bp):
TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
Found at i:5090292 original size:15 final size:15
Alignment explanation
Indices: 5090272--5090303 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5090262 CAATTTTATC
5090272 CAGTTTTCTTGCAGA
1 CAGTTTTCTTGCAGA
5090287 CAGTTTTCTTGCAGA
1 CAGTTTTCTTGCAGA
5090302 CA
1 CA
5090304 AAAACACAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (15 bp):
CAGTTTTCTTGCAGA
Found at i:5091265 original size:21 final size:21
Alignment explanation
Indices: 5091239--5091291 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5091229 CGCTGTTTCT
* *
5091239 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACA
*
5091260 AATCTCACTGCTACAGTAACA
1 AATCTCACCGCTACAGTAACA
5091281 AATCTCACCGC
1 AATCTCACCGC
5091292 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACA
Found at i:5091368 original size:68 final size:68
Alignment explanation
Indices: 5091281--5091410 Score: 233
Period size: 68 Copynumber: 1.9 Consensus size: 68
5091271 TACAGTAACA
*
5091281 AATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGGTAAACACACCGCCCATCCAAACTAGCC
1 AATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGCTAAACACACCGCCCATCCAAACTAGCC
5091346 CTT
66 CTT
* *
5091349 AATCTCACTGCCACCGCTGTTTTTAACCTCACTGGAGCTAAACACACCGCCCATCCAAACTA
1 AATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGCTAAACACACCGCCCATCCAAACTA
5091411 AGCCTAAATC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.22
Consensus pattern (68 bp):
AATCTCACCGCCACCGCTGTTTTTAACCTCACCGGAGCTAAACACACCGCCCATCCAAACTAGCC
CTT
Found at i:5093873 original size:7 final size:7
Alignment explanation
Indices: 5093861--5093933 Score: 128
Period size: 7 Copynumber: 10.1 Consensus size: 7
5093851 ATCTTCCAAA
5093861 TAAACCC
1 TAAACCC
5093868 TAAACCC
1 TAAACCC
5093875 TAAAACCC
1 T-AAACCC
5093883 TAAACCC
1 TAAACCC
5093890 TAAACCC
1 TAAACCC
5093897 TAAACCC
1 TAAACCC
5093904 TAAACCC
1 TAAACCC
5093911 TAAACCC
1 TAAACCC
5093918 TAAAACCC
1 T-AAACCC
5093926 TAAACCC
1 TAAACCC
5093933 T
1 T
5093934 TTCTAAAACT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
7 50 0.78
8 14 0.22
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:5093889 original size:22 final size:22
Alignment explanation
Indices: 5093861--5093933 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
5093851 ATCTTCCAAA
5093861 TAAACCCTAAACCCTAAAACCC
1 TAAACCCTAAACCCTAAAACCC
5093883 TAAACCCTAAACCCT-AAACCC
1 TAAACCCTAAACCCTAAAACCC
5093904 TAAACCCTAAACCCTAAAACCC
1 TAAACCCTAAACCCTAAAACCC
5093926 TAAACCCT
1 TAAACCCT
5093934 TTCTAAAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.42
22 29 0.58
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (22 bp):
TAAACCCTAAACCCTAAAACCC
Found at i:5122951 original size:17 final size:18
Alignment explanation
Indices: 5122915--5122952 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5122905 TATCATTCTT
*
5122915 TTATTTTGATTTAGGGTA
1 TTATTTTGATTCAGGGTA
*
5122933 TTATTTTG-TTCATGGTA
1 TTATTTTGATTCAGGGTA
5122950 TTA
1 TTA
5122953 ACTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (18 bp):
TTATTTTGATTCAGGGTA
Found at i:5125509 original size:17 final size:17
Alignment explanation
Indices: 5125487--5125522 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5125477 AGCTGAGAAT
*
5125487 GGAGGGAGTGGGGGAGG
1 GGAGGGAGAGGGGGAGG
*
5125504 GGAGGGGGAGGGGGAGG
1 GGAGGGAGAGGGGGAGG
5125521 GG
1 GG
5125523 GAGCTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.81, T:0.03
Consensus pattern (17 bp):
GGAGGGAGAGGGGGAGG
Found at i:5125511 original size:6 final size:6
Alignment explanation
Indices: 5125496--5125525 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5125486 TGGAGGGAGT
5125496 GGGGGA -GGGGA GGGGGA GGGGGA GGGGGA G
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGGGA G
5125526 CTGAAAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.83, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:5125524 original size:86 final size:87
Alignment explanation
Indices: 5125421--5125600 Score: 267
Period size: 86 Copynumber: 2.1 Consensus size: 87
5125411 GTTAGGGAGT
* * *
5125421 GGGGGAGGAGGAGGGGGAGCTGAAGATGAATTCTTTACGGTAA-AAGATGGAGATATAGCTGAGA
1 GGGGGAGGAGGAGGGGGAGCTGAAAACGAATTCTTTACAG-AAGAAGATGGAGATATAGCTGAGA
5125485 ATGGAGGGAGTGG-GG-GAGGGGA
65 ATGGAGGGAGTGGTGGTG-GGGGA
* * *
5125507 GGGGGAGGGGGAGGGGGAGCTGAAAACGAATTCTTTACAGAAGAAGATGGAGATGTAGCTGAGGA
1 GGGGGAGGAGGAGGGGGAGCTGAAAACGAATTCTTTACAGAAGAAGATGGAGATATAGCTGAGAA
5125572 TGGAGGGAGTGGTGGTGGGGGA
66 TGGAGGGAGTGGTGGTGGGGGA
5125594 GGGGGAG
1 GGGGGAG
5125601 ACCGGAACAA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.02
86 68 0.80
87 14 0.16
88 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.51, T:0.16
Consensus pattern (87 bp):
GGGGGAGGAGGAGGGGGAGCTGAAAACGAATTCTTTACAGAAGAAGATGGAGATATAGCTGAGAA
TGGAGGGAGTGGTGGTGGGGGA
Found at i:5130401 original size:26 final size:26
Alignment explanation
Indices: 5130350--5130401 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5130340 AAAATGTGGC
* *
5130350 TCCATTTGTCATTACCCATTGGGATA
1 TCCATTTGTCATTACCCATAGCGATA
*
5130376 TCCATTTGTCATTACCGATAGCGATA
1 TCCATTTGTCATTACCCATAGCGATA
5130402 ATAAGGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (26 bp):
TCCATTTGTCATTACCCATAGCGATA
Found at i:5137900 original size:24 final size:24
Alignment explanation
Indices: 5137868--5137917 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
5137858 GAATCAGTTC
5137868 TCCATAAAAACATACGGAACAAGA
1 TCCATAAAAACATACGGAACAAGA
* *
5137892 TCCATAAAACCATACGGAATAAGA
1 TCCATAAAAACATACGGAACAAGA
5137916 TC
1 TC
5137918 TGGTCTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.22, G:0.12, T:0.16
Consensus pattern (24 bp):
TCCATAAAAACATACGGAACAAGA
Found at i:5148046 original size:20 final size:19
Alignment explanation
Indices: 5148023--5148062 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
5148013 AGCATAAGTC
*
5148023 ATAGATTAATACAATAACAA
1 ATAGATTAATAAAAT-ACAA
*
5148043 ATAGTTTAATAAAATACAA
1 ATAGATTAATAAAATACAA
5148062 A
1 A
5148063 ACAAAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAGATTAATAAAATACAA
Found at i:5150126 original size:15 final size:14
Alignment explanation
Indices: 5150106--5150135 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5150096 TTCAATAAAA
5150106 TATTTATTTTTATTT
1 TATTTA-TTTTATTT
5150121 TATTTATTTTATTT
1 TATTTATTTTATTT
5150135 T
1 T
5150136 CTACCACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TATTTATTTTATTT
Found at i:5152679 original size:23 final size:24
Alignment explanation
Indices: 5152644--5152691 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
5152634 AAACATATAT
5152644 TTTTATACAATAAAAATTATTTAAA
1 TTTTATACAATAAAAATT-TTTAAA
*
5152669 TTTTAT-C-ATAAATATTTTTAAA
1 TTTTATACAATAAAAATTTTTAAA
5152691 T
1 T
5152692 GATTAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 1 0.05
25 6 0.27
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTATACAATAAAAATTTTTAAA
Found at i:5155488 original size:22 final size:22
Alignment explanation
Indices: 5155463--5155531 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 22
5155453 CAATATTAAG
5155463 ATATGATATGAAATAAATACAA
1 ATATGATATGAAATAAATACAA
* *
5155485 ATATGAGTATATAAAAAAGATA-AA
1 ATATGA-TAT-GAAATAA-ATACAA
* *
5155509 ATATAAATACGAAATAAATACAA
1 ATAT-GATATGAAATAAATACAA
5155532 GACTTTACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
22 9 0.25
23 10 0.28
24 13 0.36
25 4 0.11
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (22 bp):
ATATGATATGAAATAAATACAA
Found at i:5160679 original size:18 final size:18
Alignment explanation
Indices: 5160646--5160680 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5160636 GCCTTCTCCG
* *
5160646 TTTCTCTTTTGTTTTCTC
1 TTTCTCTTTCGCTTTCTC
5160664 TTTCTCTTTCGCTTTCT
1 TTTCTCTTTCGCTTTCT
5160681 TGCTTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTCTCTTTCGCTTTCTC
Found at i:5166621 original size:151 final size:151
Alignment explanation
Indices: 5166347--5166649 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
5166337 TCCACGAGAG
5166347 ATTATTTCATTTTGTTTTTAATGTTGTTGAATGTCCCACCAAATTGGTGACAATTTGGAGTCATT
1 ATTATTTCATTTTGTTTTTAATGTTGTTGAATGTCCCACCAAATTGGTGACAATTTGGAGTCATT
*
5166412 TATCGATTCATCCAAGAGTCTATAAGACCCAACATGATTCTAAAAAATACGGCTTCAGAAGAATT
66 TATCGATTCATCAAAGAGTCTATAAGACCCAACATGATTCTAAAAAATACGGCTTCAGAAGAATT
5166477 TATAAGATTTACTCCATTAAA
131 TATAAGATTTACTCCATTAAA
5166498 ATTATTTCATTTTGTTTTTAATGTTGTTGAATGTCCCACCAAATTGGTGACAATTTGGAGTCATT
1 ATTATTTCATTTTGTTTTTAATGTTGTTGAATGTCCCACCAAATTGGTGACAATTTGGAGTCATT
5166563 TATCGATTCATCAAAGAGTCTATAAGACCCAACATGATTCTAAAAAATACGGCTTCAGAAGAATT
66 TATCGATTCATCAAAGAGTCTATAAGACCCAACATGATTCTAAAAAATACGGCTTCAGAAGAATT
5166628 TATAAGATTTACTCCATTAAA
131 TATAAGATTTACTCCATTAAA
5166649 A
1 A
5166650 ATAAATATAT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (151 bp):
ATTATTTCATTTTGTTTTTAATGTTGTTGAATGTCCCACCAAATTGGTGACAATTTGGAGTCATT
TATCGATTCATCAAAGAGTCTATAAGACCCAACATGATTCTAAAAAATACGGCTTCAGAAGAATT
TATAAGATTTACTCCATTAAA
Found at i:5168812 original size:16 final size:16
Alignment explanation
Indices: 5168783--5168836 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
5168773 TTTGGTTCGC
*
5168783 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
5168799 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
5168815 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
5168831 TGTAAT
1 TGTAAT
5168837 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:5168881 original size:45 final size:44
Alignment explanation
Indices: 5168815--5168905 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
5168805 GGAATAGAGG
* *
5168815 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
5168860 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
5168904 TG
1 TG
5168906 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:5169085 original size:16 final size:17
Alignment explanation
Indices: 5169048--5169085 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
5169038 ATTTAATCAT
5169048 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
5169065 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
5169080 ATTTAA
1 ATTTAA
5169086 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:5169121 original size:22 final size:21
Alignment explanation
Indices: 5169031--5169317 Score: 92
Period size: 22 Copynumber: 14.0 Consensus size: 21
5169021 ATTATCAATA
* *
5169031 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
5169051 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
5169072 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
5169093 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
5169115 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
5169132 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
5169156 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
5169177 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
5169197 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
5169214 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
5169236 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
5169258 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
5169280 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
5169298 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
5169318 CTTAGTATTA
Statistics
Matches: 197, Mismatches: 38, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
17 16 0.08
18 45 0.23
19 2 0.01
20 21 0.11
21 38 0.19
22 49 0.25
23 9 0.05
24 7 0.04
26 10 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:5169155 original size:13 final size:12
Alignment explanation
Indices: 5169131--5169171 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
5169121 TATAATAGTA
5169131 TAAAATATAATT
1 TAAAATATAATT
5169143 TAAAATAATAATT
1 TAAAAT-ATAATT
*
5169156 ATTAAATATAATT
1 -TAAAATATAATT
5169169 TAA
1 TAA
5169172 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:5169180 original size:18 final size:18
Alignment explanation
Indices: 5169159--5169194 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5169149 AATAATTATT
5169159 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
5169177 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
5169195 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:5169305 original size:18 final size:17
Alignment explanation
Indices: 5169282--5169316 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
5169272 TTATTATTAA
5169282 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
5169300 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5169317 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5169375 original size:61 final size:60
Alignment explanation
Indices: 5169086--5169377 Score: 192
Period size: 59 Copynumber: 4.8 Consensus size: 60
5169076 TATAATTTAA
* * *
5169086 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * * *
5169143 TAAAATAATAATTATTA-AATATAATTTAATAAAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
5169205 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
5169265 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
5169326 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
5169378 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 40, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
57 1 0.01
58 7 0.04
59 56 0.32
60 26 0.15
61 48 0.28
62 35 0.20
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:5169414 original size:121 final size:120
Alignment explanation
Indices: 5169086--5169393 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
5169076 TATAATTTAA
* * *
5169086 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
5169150 ATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
5169205 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* * *
5169270 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
5169326 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
5169391 ATT
66 ATT
5169394 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 1 0.01
120 69 0.39
121 109 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:5170893 original size:13 final size:13
Alignment explanation
Indices: 5170877--5170906 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5170867 TAGACCAAGC
5170877 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
5170890 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
5170903 TTTT
1 TTTT
5170907 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:5184831 original size:18 final size:18
Alignment explanation
Indices: 5184808--5184862 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
5184798 TGGAACTTAC
5184808 AAATTTACTTTATTTTTT
1 AAATTTACTTTATTTTTT
* *
5184826 AAATTTAGTTT-TATTTT
1 AAATTTACTTTATTTTTT
*
5184843 AAATTTGAGTTTTATTTTTT
1 AAATTT-A-CTTTATTTTTT
5184863 TATATAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 11 0.37
18 11 0.37
19 3 0.10
20 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (18 bp):
AAATTTACTTTATTTTTT
Found at i:5184844 original size:17 final size:17
Alignment explanation
Indices: 5184808--5184860 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
5184798 TGGAACTTAC
* *
5184808 AAATTTACTTTATTTTTT
1 AAATTTAGTTT-TATTTT
5184826 AAATTTAGTTTTATTTT
1 AAATTTAGTTTTATTTT
5184843 AAATTTGAGTTTTATTTT
1 AAATTT-AGTTTTATTTT
5184861 TTTATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.34
18 21 0.66
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (17 bp):
AAATTTAGTTTTATTTT
Found at i:5186486 original size:15 final size:16
Alignment explanation
Indices: 5186468--5186500 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5186458 ATTTTTGTAT
*
5186468 TATTTT-AATATTAAA
1 TATTTTAAAGATTAAA
5186483 TATTTTAAAGATTAAA
1 TATTTTAAAGATTAAA
5186499 TA
1 TA
5186501 AATTATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTTTAAAGATTAAA
Found at i:5221487 original size:13 final size:13
Alignment explanation
Indices: 5221462--5221499 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
5221452 AAAATCCAAT
5221462 TTTCCCC-TTTTC
1 TTTCCCCTTTTTC
5221474 TTTCCCCTTTTTC
1 TTTCCCCTTTTTC
5221487 -TTCCCCTGTTTTC
1 TTTCCCCT-TTTTC
5221500 GTCTCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.00, C:0.39, G:0.03, T:0.58
Consensus pattern (13 bp):
TTTCCCCTTTTTC
Done.