Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 46 of 295
Found at i:13648812 original size:44 final size:42
Alignment explanation
Indices: 13648742--13648899 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
13648732 ATGTATTTTT
* * * *
13648742 GTGTAAGACCACGTTTGGAACATTGGCATCGATTTACGATTTAT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTT--GATTTAC
13648786 GTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTAC
* *
13648828 GTATAAGACC-CTGTCTGGGACAG-TGGGATCGATATTTGA-TTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--ATTTGATTTAC
* * *
13648871 ATGTAATACCACGTCAGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
13648900 TTTATGAGCT
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 34 0.35
44 29 0.30
45 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTAC
Found at i:13650639 original size:47 final size:47
Alignment explanation
Indices: 13650494--13650919 Score: 649
Period size: 47 Copynumber: 9.1 Consensus size: 47
13650484 CCCTTCGGGA
* * * * * *
13650494 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
13650541 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13650587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13650634 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13650681 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13650728 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13650775 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13650822 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13650869 CTTATCACACATATACACTTTCACATTCATCACGTCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13650916 CTTA
1 CTTA
13650920 CTATCATTTC
Statistics
Matches: 356, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 38 0.11
47 316 0.89
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:13654320 original size:40 final size:38
Alignment explanation
Indices: 13654267--13654405 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
13654257 CATGATTGCT
* * *
13654267 CTTCGGGATTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGAACTTAGCCCGGATATATCACTAGCAC-AATGC
* * *
13654306 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGAACTTAGCCCGGATATA-TCACTAGCA-CAATGC
* * * *
13654347 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACAATGC
*
13654387 CTTCGGGACTTAGCCCGGA
1 CTTCGGAACTTAGCCCGGA
13654406 CATCATTCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
40 62 0.78
41 16 0.20
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTCGGAACTTAGCCCGGATATATCACTAGCACAATGC
Found at i:13654748 original size:29 final size:29
Alignment explanation
Indices: 13654709--13654787 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
13654699 CTTAATAATC
*
13654709 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
13654739 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
13654768 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13654788 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:13654833 original size:43 final size:43
Alignment explanation
Indices: 13654769--13654871 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
13654759 TGCATTTCAA
13654769 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
13654812 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
13654855 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
13654872 TGAAAACCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:13657030 original size:47 final size:47
Alignment explanation
Indices: 13656885--13657404 Score: 772
Period size: 47 Copynumber: 11.1 Consensus size: 47
13656875 CCCTTCGGGA
* * * * * * * *
13656885 CTTATCACATTTATGCACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13656932 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13656978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13657025 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
13657072 CTTATCACCTATATACACTTTCACATTCATCACGTCGGCTATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13657119 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13657166 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13657213 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13657260 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13657307 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13657354 CTTATCACACATATACACTTTCACATTCATCACGTCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657401 CTTA
1 CTTA
13657405 CTATCATTTC
Statistics
Matches: 442, Mismatches: 30, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 40 0.09
47 402 0.91
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:13679252 original size:9 final size:9
Alignment explanation
Indices: 13679240--13679264 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13679230 AAAATGTATT
13679240 TTATTTTTA
1 TTATTTTTA
13679249 TTATTTTTA
1 TTATTTTTA
13679258 TTATTTT
1 TTATTTT
13679265 AATGTCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:13680674 original size:48 final size:46
Alignment explanation
Indices: 13680554--13680674 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
13680544 TGATATGTGT
* * *
13680554 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATTAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATTAAA
* * *
13680600 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATA-TACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATATTA-AA
* *
13680648 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13680675 GCGTTAGCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
47 3 0.05
48 26 0.42
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATTAAA
Found at i:13685945 original size:29 final size:29
Alignment explanation
Indices: 13685882--13685949 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
13685872 TAGTCAACCG
*
13685882 CGCACACTTGGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
13685911 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
13685940 CGCACACTTA
1 CGCACACTTA
13685950 CCTTTTTCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:13686073 original size:175 final size:174
Alignment explanation
Indices: 13685771--13686099 Score: 595
Period size: 175 Copynumber: 1.9 Consensus size: 174
13685761 AACTCAAGGT
* *
13685771 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
13685836 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAGTCAACCGCGCACACTTGGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
13685901 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
13685945 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
13686010 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
* *
13686075 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
13686100 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
174 7 0.05
175 141 0.95
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:13686091 original size:29 final size:30
Alignment explanation
Indices: 13686052--13686130 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
13686042 CTTAATAATC
13686052 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
13686082 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
13686111 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13686131 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:13692945 original size:15 final size:15
Alignment explanation
Indices: 13692925--13692954 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13692915 TGTGTTAGAA
13692925 CACATTCGAGTGGCT
1 CACATTCGAGTGGCT
*
13692940 CACATTCTAGTGGCT
1 CACATTCGAGTGGCT
13692955 ATAGCAGTTT
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:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (15 bp):
CACATTCGAGTGGCT
Found at i:13698721 original size:153 final size:153
Alignment explanation
Indices: 13698518--13698970 Score: 685
Period size: 153 Copynumber: 3.0 Consensus size: 153
13698508 ACTATCCGAG
* * * **
13698518 TTTGTTTTTGAGTTTAATTTGAGATTTCTTAATACTAATTAAAAATTTAAAAATACTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* * * *
13698583 TGTGAATTACTTAAATCTAGTATTCA-ATTACTCAAATCCAATCACCGTGATAACTACAATAATT
66 TGTGAAATACTTAAATCTAGTATT-AGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATT
* *
13698647 TGTGAGAATACGTATTTCGTATAA
130 TCTGAGAATATGTATTTCGTATAA
*
13698671 TTTGTTTTTGAGTTTAAATTGAAACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* * * *
13698736 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCTAGTAACAGTGATAATTAGAATAATTT
66 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
* *
13698801 CTGAGAATATGTATTTTGTATAG
131 CTGAGAATATGTATTTCGTATAA
* *
13698824 TTTGTTATTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAACTTAAAAATGTTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* *
13698889 TGTGAAATAATTAAATCTAGCATTAGAATA-TCAAATCCAGTCACCGTGATAACTAGAATAATTT
66 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
13698953 CTGAGAATATGTATTTCG
131 CTGAGAATATGTATTTCG
13698971 CTTAAGAAAG
Statistics
Matches: 271, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
152 48 0.18
153 223 0.82
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (153 bp):
TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
CTGAGAATATGTATTTCGTATAA
Found at i:13701497 original size:27 final size:28
Alignment explanation
Indices: 13701413--13701510 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13701403 CATGAGATTG
* * * *
13701413 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13701442 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13701470 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13701497 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13701511 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13701521 original size:27 final size:27
Alignment explanation
Indices: 13701441--13701523 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13701431 TAAATTGTAC
* *
13701441 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13701469 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13701496 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13701523 A
1 A
13701524 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13701524 original size:29 final size:27
Alignment explanation
Indices: 13701413--13701524 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13701403 CATGAGATTG
** * *
13701413 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13701442 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13701470 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13701497 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13701525 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13715790 original size:10 final size:10
Alignment explanation
Indices: 13715775--13715827 Score: 70
Period size: 10 Copynumber: 5.2 Consensus size: 10
13715765 TTCCCACATT
13715775 AAAAAAAACA
1 AAAAAAAACA
13715785 AAAAAAAACA
1 AAAAAAAACA
* *
13715795 AAACAAAATA
1 AAAAAAAACA
13715805 AAACAAAAACA
1 AAA-AAAAACA
*
13715816 AAAACAAACA
1 AAAAAAAACA
13715826 AA
1 AA
13715828 CAGTTTTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 29 0.78
11 8 0.22
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:13715807 original size:16 final size:15
Alignment explanation
Indices: 13715775--13715827 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
13715765 TTCCCACATT
13715775 AAAA-AAAACAAAAA
1 AAAACAAAACAAAAA
*
13715789 AAAACAAAACAAAAT
1 AAAACAAAACAAAAA
13715804 AAAACAAAAACAAAAA
1 AAAAC-AAAACAAAAA
*
13715820 CAAACAAA
1 AAAACAAA
13715828 CAGTTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 4 0.12
15 17 0.50
16 13 0.38
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAACAAAACAAAAA
Found at i:13726611 original size:44 final size:44
Alignment explanation
Indices: 13726548--13726634 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
13726538 GACACCTATG
*
13726548 TTTTCATGATAAAATGCTCAATTTGGAATGTTTGAAACTTTGAA
1 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGAA
*
13726592 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAATTTTGA
1 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGA
13726635 GATATTATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.41
Consensus pattern (44 bp):
TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGAA
Found at i:13729211 original size:40 final size:40
Alignment explanation
Indices: 13729148--13729367 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
13729138 ATTCGGATTG
13729148 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
13729187 ATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
13729227 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
13729267 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
13729307 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
13729347 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
13729368 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 8 0.05
39 20 0.12
40 140 0.83
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:13742174 original size:21 final size:21
Alignment explanation
Indices: 13742145--13742194 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13742135 AAATTTTTTA
* *
13742145 AAAAGTTTGAAA-TTAAATAAT
1 AAAATTTTGAAAGATAAA-AAT
13742166 AAAATTTTGAAAGATAAAAAT
1 AAAATTTTGAAAGATAAAAAT
*
13742187 ATAATTTT
1 AAAATTTT
13742195 ATAATGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATTTTGAAAGATAAAAAT
Found at i:13742225 original size:31 final size:28
Alignment explanation
Indices: 13742186--13742248 Score: 72
Period size: 32 Copynumber: 2.1 Consensus size: 28
13742176 AAGATAAAAA
* *
13742186 TATAATTTTATAATGTATTAATTTATTATTTT
1 TATATTTTTA-AATG-ATTAA-ATATT-TTTT
13742218 TATATTTTTAAATGATTAAATATTTTTT
1 TATATTTTTAAATGATTAAATATTTTTT
13742246 TAT
1 TAT
13742249 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.24
29 4 0.14
30 5 0.17
31 4 0.14
32 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TATATTTTTAAATGATTAAATATTTTTT
Found at i:13744801 original size:31 final size:30
Alignment explanation
Indices: 13744739--13744802 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
13744729 TAAAATGGTG
*
13744739 ACTAAACTATTCAAAAAATTCATTTATGTC
1 ACTAAACTATTCAAAAAATTCATTTAAGTC
** *
13744769 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
1 ACTAAACTATTCAAAA-AATTCATTTAAGTC
13744800 ACT
1 ACT
13744803 GAGTTGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (30 bp):
ACTAAACTATTCAAAAAATTCATTTAAGTC
Found at i:13751453 original size:29 final size:30
Alignment explanation
Indices: 13751420--13751481 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13751410 ACTTAATTTA
13751420 TTGTTAATTTT-TTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
13751449 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
13751479 TTG
1 TTG
13751482 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:13752149 original size:3 final size:3
Alignment explanation
Indices: 13752137--13752177 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
13752127 TTGTTGTTGC
13752137 TGG TGG -GG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
13752178 GGATGAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:13762973 original size:6 final size:6
Alignment explanation
Indices: 13762962--13763014 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
13762952 TTCCAATTTG
* *
13762962 ATTTTT ATTTTT A-TTTT ATTTTT ATTTTT ATTTTT GTTTTT GTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
13763009 GTTTTT
1 ATTTTT
13763015 GTAGAAATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:13762978 original size:11 final size:11
Alignment explanation
Indices: 13762964--13763001 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
13762954 CCAATTTGAT
13762964 TTTTATTTTTA
1 TTTTATTTTTA
13762975 TTTTATTTTTA
1 TTTTATTTTTA
*
13762986 TTTTTATTTTTG
1 -TTTTATTTTTA
13762998 TTTT
1 TTTT
13763002 TGTTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13762995 original size:17 final size:17
Alignment explanation
Indices: 13762957--13762995 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
13762947 AAATATTCCA
*
13762957 ATTTGATTTTTATTTTT
1 ATTTTATTTTTATTTTT
13762974 ATTTTATTTTTATTTTT
1 ATTTTATTTTTATTTTT
13762991 ATTTT
1 ATTTT
13762996 TGTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
ATTTTATTTTTATTTTT
Found at i:13763015 original size:18 final size:18
Alignment explanation
Indices: 13762958--13763016 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
13762948 AATATTCCAA
13762958 TTTGATTTTTATTTTTA-T
1 TTTG-TTTTTATTTTTATT
*
13762976 TTTATTTTTATTTTTATT
1 TTTGTTTTTATTTTTATT
* *
13762994 TTTGTTTTTGTTTTTGTT
1 TTTGTTTTTATTTTTATT
13763012 TTTGT
1 TTTGT
13763017 AGAAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.81
Consensus pattern (18 bp):
TTTGTTTTTATTTTTATT
Found at i:13763280 original size:27 final size:27
Alignment explanation
Indices: 13763242--13763294 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13763232 CAATTATCAA
*
13763242 TTTTGTTGATAGTTTTTAAAAAAGTTG
1 TTTTGTTGATAGTTTTCAAAAAAGTTG
13763269 TTTTGTTGATAGTTTTCAAAAAAGTT
1 TTTTGTTGATAGTTTTCAAAAAAGTT
13763295 AACTTGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (27 bp):
TTTTGTTGATAGTTTTCAAAAAAGTTG
Found at i:13764801 original size:28 final size:28
Alignment explanation
Indices: 13764765--13764821 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13764755 ATTATTTATT
13764765 TCTATTACATTTTTTTTCATATATTTTC
1 TCTATTACATTTTTTTTCATATATTTTC
13764793 TCTATTACATTTTTTTTCATATATTTTC
1 TCTATTACATTTTTTTTCATATATTTTC
13764821 T
1 T
13764822 TACTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (28 bp):
TCTATTACATTTTTTTTCATATATTTTC
Found at i:13764818 original size:14 final size:14
Alignment explanation
Indices: 13764773--13764819 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13764763 TTTCTATTAC
13764773 ATTTTTTTTCATAT
1 ATTTTTTTTCATAT
* * *
13764787 ATTTTCTCT-ATTAC
1 ATTTTTTTTCA-TAT
13764801 ATTTTTTTTCATAT
1 ATTTTTTTTCATAT
13764815 ATTTT
1 ATTTT
13764820 CTTACTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTTTCATAT
Found at i:13766151 original size:41 final size:41
Alignment explanation
Indices: 13766103--13766185 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
13766093 ATTTCTAGAG
*
13766103 TGAGCACTAAAAACAATTAATCACTGTATTAATGATTTCAT
1 TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
*
13766144 TGAGCACTAAAAACAATTAATCACCGTATTAATGGTTTCAT
1 TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
13766185 T
1 T
13766186 AATTTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (41 bp):
TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
Found at i:13767595 original size:17 final size:16
Alignment explanation
Indices: 13767555--13767596 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13767545 TCAATTATTT
13767555 AAATA-TTATTTTTTA
1 AAATATTTATTTTTTA
**
13767570 TTATATTTATTTTTTA
1 AAATATTTATTTTTTA
13767586 AAATAGTTTAT
1 AAATA-TTTAT
13767597 ATATTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
AAATATTTATTTTTTA
Found at i:13771297 original size:27 final size:27
Alignment explanation
Indices: 13771267--13771365 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
13771257 TTACACTACA
*
13771267 AGGGTATTTCGATAATTCTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
13771294 AGGGTGTTTCGGTAATTTTACAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
* *
13771320 AGAGGTATTCCGATAATTTTACAAGTCG
1 AG-GGTATTTCGATAATTTTACAAATCG
13771348 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
13771366 CTCTTTATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.05
27 56 0.92
28 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:13778389 original size:12 final size:12
Alignment explanation
Indices: 13778372--13778396 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13778362 TTTGTACTGT
13778372 TAAAAACTGATG
1 TAAAAACTGATG
13778384 TAAAAACTGATG
1 TAAAAACTGATG
13778396 T
1 T
13778397 GGCTGATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAAAACTGATG
Found at i:13781957 original size:17 final size:17
Alignment explanation
Indices: 13781935--13781970 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13781925 AGTTTAGTGA
*
13781935 CCTTGTATGTTGTTTGC
1 CCTTGTATGTAGTTTGC
13781952 CCTTGTATGTAGTTTGC
1 CCTTGTATGTAGTTTGC
13781969 CC
1 CC
13781971 AAAGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.47
Consensus pattern (17 bp):
CCTTGTATGTAGTTTGC
Found at i:13789244 original size:14 final size:14
Alignment explanation
Indices: 13789225--13789264 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13789215 TTGATTGGCA
13789225 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
13789239 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
13789253 GGAAAATGTTTT
1 GTAAAATGTTTT
13789265 ACATTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:13789286 original size:20 final size:20
Alignment explanation
Indices: 13789247--13789286 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13789237 CCGTAAAATG
**
13789247 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGACTTAC
*
13789267 ATTTCTGTAAAATGACTTAC
1 ATTTCTGGAAAATGACTTAC
13789287 TGGAAAATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGACTTAC
Found at i:13789294 original size:35 final size:34
Alignment explanation
Indices: 13789234--13789299 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
13789224 AGTAAAATGT
*
13789234 TTTCCGTAAAATGATTTCTGGAAAATGTTTTACA
1 TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
*
13789268 TTTCTGTAAAATGACTTACTGGAAAATGTTTT
1 TTTCCGTAAAATGA-TTACTGGAAAATGTTTT
13789300 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
Found at i:13789750 original size:45 final size:45
Alignment explanation
Indices: 13789686--13789795 Score: 220
Period size: 45 Copynumber: 2.4 Consensus size: 45
13789676 ACTTCTATTT
13789686 TCAGACTGCCCTCTTCTATTATCAGAGAACAAAAGAGAGCAATTA
1 TCAGACTGCCCTCTTCTATTATCAGAGAACAAAAGAGAGCAATTA
13789731 TCAGACTGCCCTCTTCTATTATCAGAGAACAAAAGAGAGCAATTA
1 TCAGACTGCCCTCTTCTATTATCAGAGAACAAAAGAGAGCAATTA
13789776 TCAGACTGCCCTCTTCTATT
1 TCAGACTGCCCTCTTCTATT
13789796 TTCACCTTCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (45 bp):
TCAGACTGCCCTCTTCTATTATCAGAGAACAAAAGAGAGCAATTA
Found at i:13790517 original size:18 final size:18
Alignment explanation
Indices: 13790483--13790517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13790473 GCTTCGAAAC
*
13790483 GGGAAAGGGAAGGAGAAG
1 GGGAAAGGGAAGAAGAAG
*
13790501 GGGAAAGGGGAGAAGAA
1 GGGAAAGGGAAGAAGAA
13790518 TGGGTCATTT
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:0.54, T:0.00
Consensus pattern (18 bp):
GGGAAAGGGAAGAAGAAG
Found at i:13795615 original size:31 final size:31
Alignment explanation
Indices: 13795577--13795635 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
13795567 GGTATAATTA
*
13795577 TATACATGAAACTTCGGTTGTGGTTCAAATG
1 TATACATGAAACTTCGATTGTGGTTCAAATG
*
13795608 TATACATGAAACTTTGATTGTGGTTCAA
1 TATACATGAAACTTCGATTGTGGTTCAA
13795636 TCATACACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (31 bp):
TATACATGAAACTTCGATTGTGGTTCAAATG
Found at i:13803223 original size:14 final size:14
Alignment explanation
Indices: 13803194--13803238 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
13803184 ATATGTGAAG
**
13803194 AATATTATTTAAAA
1 AATATTATTTTTAA
13803208 AATATTATTTTTAA
1 AATATTATTTTTAA
*
13803222 AAT-TTATTATTAA
1 AATATTATTTTTAA
13803235 AATA
1 AATA
13803239 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:13803229 original size:16 final size:17
Alignment explanation
Indices: 13803196--13803233 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13803186 ATGTGAAGAA
13803196 TATTATTTAAAAAATAT
1 TATTATTTAAAAAATAT
**
13803213 TATT-TTTAAAATTTAT
1 TATTATTTAAAAAATAT
13803229 TATTA
1 TATTA
13803234 AAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTTAAAAAATAT
Found at i:13803234 original size:13 final size:14
Alignment explanation
Indices: 13803148--13803238 Score: 51
Period size: 14 Copynumber: 6.0 Consensus size: 14
13803138 TACAAAACAT
13803148 TTATTATTAAAATA
1 TTATTATTAAAATA
* *
13803162 TTAATATTAAATATT
1 TTATTATTAAA-ATA
13803177 TTCAATAATATGTGAAGAATA
1 TT--AT--TAT-T-AA-AATA
*
13803198 TTATT-TAAAAAATA
1 TTATTAT-TAAAATA
*
13803212 TTATTTTTAAAAT-
1 TTATTATTAAAATA
13803225 TTATTATTAAAATA
1 TTATTATTAAAATA
13803239 AAATTGAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
13 12 0.20
14 24 0.41
15 7 0.12
16 1 0.02
17 2 0.03
19 5 0.08
20 1 0.02
21 6 0.10
22 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:13808792 original size:46 final size:46
Alignment explanation
Indices: 13808730--13809096 Score: 515
Period size: 46 Copynumber: 8.0 Consensus size: 46
13808720 AGTGTGCTCT
*
13808730 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13808776 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13808822 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13808868 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13808914 CTGATATGAAAGGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13808960 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
13809006 GTGA-AGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGATA--TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
13809053 ATGACA-GAAAATGAGTAAGTCCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
13809097 TCATGTCGAA
Statistics
Matches: 297, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 254 0.86
47 40 0.13
48 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13814044 original size:15 final size:15
Alignment explanation
Indices: 13814024--13814080 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
13814014 CGATGAATTT
13814024 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
13814039 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
13814054 ACTGAATTTATATTG
1 ATTGAATTTATATTG
*
13814069 ATTTAA-TTATAT
1 ATTGAATTTATAT
13814081 AATATATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 6 0.17
15 29 0.83
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:13814545 original size:21 final size:21
Alignment explanation
Indices: 13814464--13814533 Score: 104
Period size: 21 Copynumber: 3.2 Consensus size: 21
13814454 AGACACTTTA
13814464 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
* *
13814487 TGTGTCGTATCAAGCACCTCT
1 TGTGTCGTATCAGGCACCTCG
13814508 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
13814529 TGTGT
1 TGTGT
13814534 TGTTTTAGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 34 0.79
23 9 0.21
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:13814554 original size:42 final size:42
Alignment explanation
Indices: 13814457--13814559 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
13814447 ATCGATCAGA
13814457 CACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGTATCAAG
1 CACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGTATCAAG
* * * * *
13814501 CACCTCT-TGTGTCGTATCAGGCACCTCGTGTGTTGTTTTAGG
1 CA-CTTTATGTGTCGTATCAGGCACCTCGTGTGTCGTATCAAG
13814543 CACTTTATGTGTCGTAT
1 CACTTTATGTGTCGTAT
13814560 ACTGATCAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 34 0.67
44 11 0.22
45 3 0.06
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (42 bp):
CACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGTATCAAG
Found at i:13818481 original size:62 final size:63
Alignment explanation
Indices: 13818383--13818508 Score: 211
Period size: 62 Copynumber: 2.0 Consensus size: 63
13818373 GACACCTATG
* *
13818383 TAAGAACATTGGGATACCATCTTCTTTGATAAAAGATTAAATTTCAAACTCTCCTTT-CCAATT
1 TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCT-CTTTGCCAATT
13818446 TAAGAAC-TTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
1 TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
13818508 T
1 T
13818509 GATTTGATTC
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 4 0.07
62 49 0.82
63 7 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (63 bp):
TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
Found at i:13823039 original size:62 final size:59
Alignment explanation
Indices: 13822934--13823049 Score: 178
Period size: 62 Copynumber: 1.9 Consensus size: 59
13822924 TTAATATTAA
* * *
13822934 ATTAATATAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATTTT
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTTT
13822993 ATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
13823050 GATAATCACC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 31 0.61
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (59 bp):
ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTTT
Found at i:13823111 original size:36 final size:36
Alignment explanation
Indices: 13823060--13823134 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
13823050 GATAATCACC
*
13823060 TTAATATTAAATTAATA-AAATACTATTAATATAAGTA
1 TTAATATTAAATTAATATAAA-ACTATTAAAATAA-TA
* *
13823097 TTAA-ATTACATTAATATTAAACTATTAAAATAATA
1 TTAATATTAAATTAATATAAAACTATTAAAATAATA
13823132 TTA
1 TTA
13823135 TTTTTGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 23 0.68
37 6 0.18
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATATAAAACTATTAAAATAATA
Found at i:13826646 original size:14 final size:14
Alignment explanation
Indices: 13826627--13826655 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13826617 TAGTTAAATA
13826627 ATAATCTATATAAC
1 ATAATCTATATAAC
13826641 ATAATCTATATAAC
1 ATAATCTATATAAC
13826655 A
1 A
13826656 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:13828599 original size:20 final size:21
Alignment explanation
Indices: 13828533--13828601 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
13828523 TCACTTCGTT
13828533 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
13828554 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
13828575 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
13828596 -CTTTTT
1 TCTTTTT
13828602 TATTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:13835727 original size:46 final size:46
Alignment explanation
Indices: 13835675--13835994 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
13835665 AGTGTGCTCT
*
13835675 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13835721 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13835767 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13835813 CTGATATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
13835859 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
13835905 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
13835951 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
13835995 TCATGTCAAA
Statistics
Matches: 253, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 252 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13837814 original size:22 final size:21
Alignment explanation
Indices: 13837784--13837843 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
13837774 TTTTCACTTT
*
13837784 TAATTTTTTATAATATTTTAAA
1 TAATATTTTATAATATTTT-AA
*
13837806 TAATATTTTGTAAT-TTTTAA
1 TAATATTTTATAATATTTTAA
* *
13837826 T-ATATTTTTTAAAATTTT
1 TAATATTTTATAATATTTT
13837844 GCTCATGTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.30
20 7 0.21
21 4 0.12
22 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TAATATTTTATAATATTTTAA
Found at i:13838527 original size:22 final size:23
Alignment explanation
Indices: 13838474--13838527 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
13838464 ATTATGTTAT
* *
13838474 ATATATTATATAATTTATAATAC
1 ATATATAATAAAATTTATAATAC
* *
13838497 ATA-AAAATAAAATTTATAGTA-
1 ATATATAATAAAATTTATAATAC
13838518 ATATATAATA
1 ATATATAATA
13838528 CTATAAAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATATAATAAAATTTATAATAC
Found at i:13840234 original size:39 final size:39
Alignment explanation
Indices: 13840180--13840259 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
13840170 AATATATGGC
13840180 GTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTAT
1 GTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTAT
13840219 GTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTAT
1 GTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTAT
13840258 GT
1 GT
13840260 GGCGTGTAAG
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:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (39 bp):
GTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTAT
Found at i:13844780 original size:6 final size:6
Alignment explanation
Indices: 13844771--13844818 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
13844761 AATAAAATTT
13844771 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
13844818 A
1 A
13844819 GGGCCTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:13855505 original size:5 final size:6
Alignment explanation
Indices: 13855461--13855512 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
13855451 AAAATTTAAT
* ** *
13855461 AAATAA AAATAA AATCTAA ATCTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AA-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
13855510 AAA
1 AAA
13855513 ACATATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:13855551 original size:9 final size:9
Alignment explanation
Indices: 13855539--13855600 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 9
13855529 AAATAATTTA
13855539 GTTAATTCG
1 GTTAATTCG
*
13855548 GTTAATTTG
1 GTTAATTCG
*
13855557 GGTAATTCG
1 GTTAATTCG
*
13855566 AG-TAATTCA
1 -GTTAATTCG
*
13855575 GTTAATTTG
1 GTTAATTCG
*
13855584 ATTAATTCG
1 GTTAATTCG
13855593 GTTAATTC
1 GTTAATTC
13855601 TATACTTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
8 1 0.02
9 40 0.95
10 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (9 bp):
GTTAATTCG
Found at i:13855555 original size:18 final size:18
Alignment explanation
Indices: 13855532--13855600 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
13855522 TTTATACAAA
*
13855532 TAATTTAGTTAATTCGGT
1 TAATTCAGTTAATTCGGT
** *
13855550 TAATTTGGGTAATTCGAG-
1 TAATTCAGTTAATTCG-GT
* *
13855568 TAATTCAGTTAATTTGAT
1 TAATTCAGTTAATTCGGT
*
13855586 TAATTCGGTTAATTC
1 TAATTCAGTTAATTC
13855601 TATACTTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 39 0.98
19 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (18 bp):
TAATTCAGTTAATTCGGT
Found at i:13855571 original size:27 final size:27
Alignment explanation
Indices: 13855539--13855600 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
13855529 AAATAATTTA
* *
13855539 GTTAATTCGGTTAATTTGGGTAATTCG
1 GTTAATTCAGTTAATTTGAGTAATTCG
*
13855566 AG-TAATTCAGTTAATTTGATTAATTCG
1 -GTTAATTCAGTTAATTTGAGTAATTCG
13855593 GTTAATTC
1 GTTAATTC
13855601 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (27 bp):
GTTAATTCAGTTAATTTGAGTAATTCG
Found at i:13859210 original size:74 final size:75
Alignment explanation
Indices: 13859085--13859223 Score: 253
Period size: 74 Copynumber: 1.9 Consensus size: 75
13859075 TAATTCATGT
13859085 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTT-TTTC
1 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
13859149 TGTAAAATGG
66 TGTAAAATGG
* *
13859159 AAGTTAATATTAATTATTGAAGTAACATATATTACAATATGCAAACTAAAGTTTTAATTTCTTTC
1 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
13859224 AGTACCTTCT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
74 58 0.94
75 4 0.06
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (75 bp):
AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
TGTAAAATGG
Found at i:13875282 original size:38 final size:39
Alignment explanation
Indices: 13875231--13875307 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13875221 GGGAGAAGAG
13875231 AAGAGAAGAAAT-AAAAGGTATTTTCTTTTTTGTTATTT
1 AAGAGAAGAAATAAAAAGGTATTTTCTTTTTTGTTATTT
13875269 AAGAGAAGAAATAAAAAGGTATTTTCTTTTTTGTTATTT
1 AAGAGAAGAAATAAAAAGGTATTTTCTTTTTTGTTATTT
13875308 TTAAATAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 12 0.32
39 26 0.68
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (39 bp):
AAGAGAAGAAATAAAAAGGTATTTTCTTTTTTGTTATTT
Found at i:13879152 original size:21 final size:20
Alignment explanation
Indices: 13879105--13879171 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
13879095 GTTTGTTTCA
13879105 ATTAGATTAATGTTGTAATGTA-
1 ATTA-ATTAATGTT-TAAT-TAG
*
13879127 TTTAATTAATGTTCTAATTAG
1 ATTAATTAATGTT-TAATTAG
*
13879148 ATTAA-T-ATATTTAATTAG
1 ATTAATTAATGTTTAATTAG
13879166 ATTAAT
1 ATTAAT
13879172 GTTGTAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 12 0.31
19 4 0.10
20 3 0.08
21 17 0.44
22 3 0.08
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.49
Consensus pattern (20 bp):
ATTAATTAATGTTTAATTAG
Found at i:13879179 original size:26 final size:26
Alignment explanation
Indices: 13879104--13879187 Score: 89
Period size: 26 Copynumber: 3.1 Consensus size: 26
13879094 AGTTTGTTTC
13879104 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
* * *
13879130 AATTAATGTTCTAAT-TAGATTAATATATTT
1 AATT-A-GAT-TAATGTTG--TAATGTATTT
13879160 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTT
13879186 AA
1 AA
13879188 AGTTTGTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
26 15 0.33
27 5 0.11
28 8 0.17
29 5 0.11
30 13 0.28
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (26 bp):
AATTAGATTAATGTTGTAATGTATTT
Found at i:13911266 original size:21 final size:20
Alignment explanation
Indices: 13911242--13911301 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
13911232 AAAATAAACA
*
13911242 AATTTAAAATAAATATTAATT
1 AATTTAAAATAAATA-TAAAT
*
13911263 AA-TTAATTATAAATATAAAT
1 AATTTAA-AATAAATATAAAT
*
13911283 AGATTT-AAACAAATATAAA
1 A-ATTTAAAATAAATATAAA
13911302 ATATATTAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 19 0.59
21 11 0.34
22 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTAAAATAAATATAAAT
Found at i:13925861 original size:35 final size:37
Alignment explanation
Indices: 13925816--13925886 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
13925806 GGGAGAAGAG
13925816 AGAGAAGAAAT-AAAAGGTATTTTC-TTTTGTTATTA
1 AGAGAAGAAATAAAAAGGTATTTTCTTTTTGTTATTA
13925851 AGAGAAGAAATAAAAAGGTATTTTCTTTTTGTTATT
1 AGAGAAGAAATAAAAAGGTATTTTCTTTTTGTTATT
13925887 TTAAATAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 11 0.32
36 13 0.38
37 10 0.29
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (37 bp):
AGAGAAGAAATAAAAAGGTATTTTCTTTTTGTTATTA
Found at i:13958845 original size:21 final size:21
Alignment explanation
Indices: 13958814--13958865 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
13958804 TTGAGCGAGT
* * * *
13958814 TCCTGTTGCATTAGTCCCATG
1 TCCTTTTGCATGACTCCCATA
*
13958835 TCTTTTTGCATGACTCCCATA
1 TCCTTTTGCATGACTCCCATA
13958856 TCCTTTTGCA
1 TCCTTTTGCA
13958866 ATCTCGTGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.13, T:0.42
Consensus pattern (21 bp):
TCCTTTTGCATGACTCCCATA
Found at i:13975993 original size:21 final size:21
Alignment explanation
Indices: 13975967--13976010 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13975957 TAATAATTTA
13975967 TATCTACTTAGTATTTAAATT
1 TATCTACTTAGTATTTAAATT
13975988 TATCTACTTAGTATTTAAATT
1 TATCTACTTAGTATTTAAATT
13976009 TA
1 TA
13976011 GAAACTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (21 bp):
TATCTACTTAGTATTTAAATT
Found at i:13976062 original size:56 final size:56
Alignment explanation
Indices: 13976000--13976112 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
13975990 TCTACTTAGT
*
13976000 ATTTAAATTTAGAAACTGTAAGCCAATTTGATATTTTTGTTAGGTACTTGACTTTA
1 ATTTAAATTTAGAAACTGCAAGCCAATTTGATATTTTTGTTAGGTACTTGACTTTA
13976056 ATTTAAATTTAGAAACTGCAAGCCAATTTGATATTTTTGTTAGGTACTTGACTTTA
1 ATTTAAATTTAGAAACTGCAAGCCAATTTGATATTTTTGTTAGGTACTTGACTTTA
13976112 A
1 A
13976113 AATAAGTTGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (56 bp):
ATTTAAATTTAGAAACTGCAAGCCAATTTGATATTTTTGTTAGGTACTTGACTTTA
Found at i:13977765 original size:25 final size:25
Alignment explanation
Indices: 13977736--13977810 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
13977726 ATCATACTAC
13977736 TTTTTAACAATAGAAATTGATAAAA
1 TTTTTAACAATAGAAATTGATAAAA
**
13977761 TTTTT---AATAGAAA---A-ATTA
1 TTTTTAACAATAGAAATTGATAAAA
*
13977779 TTTTTAACAATAGAAATTGATGAAA
1 TTTTTAACAATAGAAATTGATAAAA
13977804 TTTTTAA
1 TTTTTAA
13977811 TAAAAAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
18 7 0.18
19 1 0.03
21 8 0.21
22 8 0.21
24 1 0.03
25 13 0.34
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (25 bp):
TTTTTAACAATAGAAATTGATAAAA
Found at i:13977784 original size:43 final size:42
Alignment explanation
Indices: 13977736--13977820 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 42
13977726 ATCATACTAC
13977736 TTTTTAACAATAGAAATTGATAAAATTTTTAATAGAAAAATTA
1 TTTTTAACAATAGAAATTGATAAAATTTTTAATA-AAAAATTA
*
13977779 TTTTTAACAATAGAAATTGATGAAATTTTTAATAAAAAATTA
1 TTTTTAACAATAGAAATTGATAAAATTTTTAATAAAAAATTA
13977821 ATTTACTCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (42 bp):
TTTTTAACAATAGAAATTGATAAAATTTTTAATAAAAAATTA
Found at i:13982435 original size:49 final size:49
Alignment explanation
Indices: 13982375--13982532 Score: 275
Period size: 49 Copynumber: 3.3 Consensus size: 49
13982365 CAAGACAGTG
*
13982375 TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13982424 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
13982471 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
13982520 TATATGTGTGATA
1 TATATATGTGATA
13982533 GTGTATATAT
Statistics
Matches: 104, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
47 46 0.44
49 58 0.56
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:13982493 original size:47 final size:47
Alignment explanation
Indices: 13982371--13982740 Score: 357
Period size: 47 Copynumber: 7.4 Consensus size: 47
13982361 CAGCCAAGAC
*
13982371 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13982418 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13982467 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
** * ** *
13982514 AGTGTATATATGTG-TGATAGTGTATATATGTGATAAGGCCTAATG-GCCGATGTGATGAATGTG
1 AGTGTATATATGTGAT-A-AG-G--CCTA----AT--GGCC-GATGTGATGA-AT-------GTG
13982577 AA
46 AA
13982579 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13982628 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
13982675 AGTGTATATATGTGACAGGGCCGAGTGACCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13982722 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
13982741 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 26, Indels: 52
0.78 0.07 0.15
Matches are distributed among these distances:
46 1 0.00
47 159 0.59
48 2 0.01
49 56 0.21
51 2 0.01
55 2 0.01
56 4 0.01
57 14 0.05
58 4 0.01
59 2 0.01
63 2 0.01
65 9 0.03
66 2 0.01
67 11 0.04
68 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:13982531 original size:18 final size:18
Alignment explanation
Indices: 13982508--13982545 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13982498 ATGTGATGAA
13982508 TGTGATAGTGTATATATG
1 TGTGATAGTGTATATATG
13982526 TGTGATAGTGTATATATG
1 TGTGATAGTGTATATATG
13982544 TG
1 TG
13982546 ATAAGGCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (18 bp):
TGTGATAGTGTATATATG
Found at i:13982536 original size:65 final size:65
Alignment explanation
Indices: 13982460--13982597 Score: 249
Period size: 65 Copynumber: 2.1 Consensus size: 65
13982450 GATGTGATGA
* *
13982460 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAGTGTATATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
13982525 GTGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
13982590 ATGTGATA
1 ATGTGATA
13982598 AGGCCTAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (65 bp):
ATGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:13982626 original size:96 final size:94
Alignment explanation
Indices: 13982526--13982740 Score: 322
Period size: 96 Copynumber: 2.3 Consensus size: 94
13982516 TGTATATATG
*
13982526 TGTGATAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * * * *
13982591 TGTGATAAGGCCTAATGGCCGATGTGATGAA
64 TGTGACAAGGCCGAATGACCAACGTGATGAA
13982622 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * *
13982687 TGACAGGGCCGAGTGACCAACGTGATGGA
66 TGACAAGGCCGAATGACCAACGTGATGAA
*
13982716 TGTGAAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
13982741 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 53 0.49
96 56 0.51
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGACAAGGCCGAATGACCAACGTGATGAA
Found at i:13982636 original size:161 final size:161
Alignment explanation
Indices: 13982371--13982688 Score: 618
Period size: 161 Copynumber: 2.0 Consensus size: 161
13982361 CAGCCAAGAC
*
13982371 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
13982436 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
*
13982501 TGATGAATGTGATAGTGTATATATGTGTGAT
131 TGATGAATGTGAAAGTGTATATATGTGTGAT
13982532 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
13982597 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
13982662 TGATGAATGTGAAAGTGTATATATGTG
131 TGATGAATGTGAAAGTGTATATATGTG
13982689 ACAGGGCCGA
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 155 1.00
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.32
Consensus pattern (161 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGTGAT
Found at i:13988143 original size:21 final size:21
Alignment explanation
Indices: 13988102--13988144 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
13988092 ATTTCCCATG
*
13988102 TTGGCCCATTTTCTCCGTTTT
1 TTGGCCCAGTTTCTCCGTTTT
13988123 TTGGCCC-GTTTCT-CGCTTTT
1 TTGGCCCAGTTTCTCCG-TTTT
13988143 TT
1 TT
13988145 ACTCTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 11 0.55
21 7 0.35
ACGTcount: A:0.02, C:0.28, G:0.16, T:0.53
Consensus pattern (21 bp):
TTGGCCCAGTTTCTCCGTTTT
Found at i:13990039 original size:20 final size:20
Alignment explanation
Indices: 13990002--13990039 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13989992 ATAAAATCTA
*
13990002 AAAATGAAATAGTATTAAAT
1 AAAATGAAAAAGTATTAAAT
13990022 AAAAT-AAAAAGTACTTAA
1 AAAATGAAAAAGTA-TTAA
13990040 CGAAGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAATGAAAAAGTATTAAAT
Found at i:13995097 original size:40 final size:40
Alignment explanation
Indices: 13995013--13995237 Score: 226
Period size: 40 Copynumber: 5.6 Consensus size: 40
13995003 TTGAATGCTG
* * * *
13995013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
13995052 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
13995093 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
*
13995133 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT--AAT
* ** *
13995174 TCCGGGTTAAGTCCCGAAGGCATTCGTGAAAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
13995214 TCCGGGTTAAGTCCCAAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13995238 GTATGAGTTA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 113 0.70
41 47 0.29
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:13995218 original size:81 final size:80
Alignment explanation
Indices: 13995013--13995237 Score: 226
Period size: 81 Copynumber: 2.8 Consensus size: 80
13995003 TTGAATGCTG
* * * * **
13995013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTG-AAAGAT-ACTAAATCCGGGTTAAG-TCCCGAAGGCA
*
13995075 TTTGTGCGAGTTATTAAT
63 TTCGTGCGAGTTATTAAT
* * ** *
13995093 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGAAAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
13995158 GTGCGAGTT-TTAAAAT
66 GTGCGAGTTATT--AAT
** *
13995174 TCCGGGTTAAGTCCCGAAGGCATTCGTGAAAG-TTTTAAAATCCGGGTTAAGTCCCAAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGAAAGATACT-AAATCCGGGTTAAGTCCCGAAGGCATT
13995238 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.02
80 57 0.46
81 63 0.51
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGAAAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAT
Found at i:14003051 original size:39 final size:38
Alignment explanation
Indices: 14002969--14003115 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 38
14002959 TTGAATGCTG
* * *
14002969 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCGAAGGCATTGTGC-GAGTTACTAAT
* *
14003007 ATCCGGACTAAGATCCGAAGGCATTGTGCGAGTTATTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTGTGCGAGTTACTAAT
* * * *
14003047 TCCGGGTTAAGTCCCGAAGCCTTTGTGCGAGATACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTGTGCGAGTTACTAAT
14003086 TCCGGG-TAAGTCCG-A-GCATTCGTGCGAGTT
1 TCCGGGCTAAGTCCGAAGGCATT-GTGCGAGTT
14003116 TAATGGTAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
35 3 0.03
36 9 0.10
37 3 0.03
38 6 0.07
39 52 0.58
40 17 0.19
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACTAAT
Found at i:14014227 original size:10 final size:10
Alignment explanation
Indices: 14014211--14014268 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
14014201 CAACTCCGAC
14014211 CAGCTCAATT
1 CAGCTCAATT
* *
14014221 GAGCTCATTT
1 CAGCTCAATT
14014231 CAGCTCAA-T
1 CAGCTCAATT
14014240 CGAGCTCAATT
1 C-AGCTCAATT
*
14014251 TAGCTACAATT
1 CAGCT-CAATT
14014262 CAGCTCA
1 CAGCTCA
14014269 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:14014234 original size:20 final size:20
Alignment explanation
Indices: 14014211--14014271 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
14014201 CAACTCCGAC
14014211 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
14014231 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
14014252 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
14014272 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:14015504 original size:14 final size:13
Alignment explanation
Indices: 14015483--14015520 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14015473 TGGTATCAGA
14015483 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
14015495 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
14015510 GAAAAAGAAAA
1 GAAAAAGAAAA
14015521 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:14015534 original size:21 final size:21
Alignment explanation
Indices: 14015484--14015534 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
14015474 GGTATCAGAG
*
14015484 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
14015505 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
14015526 AAAAAGAAA
1 AAAAAGAAA
14015535 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:14015574 original size:33 final size:33
Alignment explanation
Indices: 14015537--14015599 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
14015527 AAAAGAAATT
14015537 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
14015570 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
14015600 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:14017638 original size:10 final size:10
Alignment explanation
Indices: 14017622--14017679 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
14017612 CAACTCCGAC
14017622 CAGCTCAATT
1 CAGCTCAATT
* *
14017632 GAGCTCATTT
1 CAGCTCAATT
14017642 CAGCTCAA-T
1 CAGCTCAATT
14017651 CGAGCTCAATT
1 C-AGCTCAATT
*
14017662 TAGCTACAATT
1 CAGCT-CAATT
14017673 CAGCTCA
1 CAGCTCA
14017680 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:14017645 original size:20 final size:20
Alignment explanation
Indices: 14017622--14017682 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
14017612 CAACTCCGAC
14017622 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
14017642 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
14017663 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
14017683 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:14023478 original size:21 final size:23
Alignment explanation
Indices: 14023433--14023479 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14023423 TCACCTGCAA
* *
14023433 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
14023456 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
14023477 TAA
1 TAA
14023480 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:14024061 original size:20 final size:21
Alignment explanation
Indices: 14024026--14024064 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14024016 CAGCTCGTTG
14024026 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
14024047 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
14024065 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:14024472 original size:13 final size:13
Alignment explanation
Indices: 14024454--14024479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14024444 TGTGTCCTAA
14024454 TATGAATTAAATT
1 TATGAATTAAATT
14024467 TATGAATTAAATT
1 TATGAATTAAATT
14024480 GCTTTCAGGT
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:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:14026261 original size:30 final size:30
Alignment explanation
Indices: 14026227--14026323 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
14026217 AGCTCACTCC
14026227 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
14026257 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
14026287 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
14026317 TAGCTCA
1 TAGCTCA
14026324 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:14029078 original size:37 final size:37
Alignment explanation
Indices: 14029027--14029097 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
14029017 CATTCTTGTA
14029027 AAGAGAAAACAAAG-AAAAGAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAAAG-AAAGAAAAAGAAAAAGC
*
14029064 AAGAGAAGAA-AAAGAAAAAGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAAAGAAAGAAAAAGAAAA
14029098 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.01
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAAAGAAAGAAAAAGAAAAAGC
Found at i:14029085 original size:15 final size:16
Alignment explanation
Indices: 14029026--14029097 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
14029016 ACATTCTTGT
*
14029026 AAAGAGAAAACAAAG-A
1 AAAGA-AAAAGAAAGAA
*
14029042 AAAGAAAAGAAAAAGAA
1 AAAGAAAA-AGAAAGAA
* *
14029059 AAAGCAAGAG-AAGAA
1 AAAGAAAAAGAAAGAA
*
14029074 AAAGAAAAAGAAATAA
1 AAAGAAAAAGAAAGAA
14029090 AAAGAAAA
1 AAAGAAAA
14029098 GAGAGGCAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 16 0.35
16 23 0.50
17 7 0.15
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:14029097 original size:6 final size:6
Alignment explanation
Indices: 14029037--14029086 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
14029027 AAGAGAAAAC
14029037 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
14029086 A
1 A
14029087 TAAAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.22
6 23 0.56
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:14029099 original size:21 final size:21
Alignment explanation
Indices: 14029037--14029097 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
14029027 AAGAGAAAAC
14029037 AAAGAAAAGAAAAGAAAAAGAA
1 AAAGAAAA-AAAAGAAAAAGAA
* * *
14029059 AAAGCAAGAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
14029080 AAAGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
14029098 GAGAGGCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:14029164 original size:12 final size:12
Alignment explanation
Indices: 14029147--14029176 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
14029137 TTGAGAGAAC
14029147 TTGAAAAAGCCT
1 TTGAAAAAGCCT
14029159 TTG-AAAAGCCT
1 TTGAAAAAGCCT
14029170 TTGAAAA
1 TTGAAAA
14029177 GCAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:14029167 original size:11 final size:11
Alignment explanation
Indices: 14029151--14029178 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14029141 GAGAACTTGA
14029151 AAAAGCCTTTG
1 AAAAGCCTTTG
14029162 AAAAGCCTTTG
1 AAAAGCCTTTG
14029173 AAAAGC
1 AAAAGC
14029179 AAAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (11 bp):
AAAAGCCTTTG
Found at i:14031377 original size:30 final size:30
Alignment explanation
Indices: 14031353--14031421 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
14031343 CGAGCTCACT
14031353 CCTAGCTCATA-TTTAGCTCACGAGCTAAAC
1 CCTAGCTCA-ACTTTAGCTCACGAGCTAAAC
* *
14031383 CTTAGCTCAACTTTAGCTCACGAGCTAAAA
1 CCTAGCTCAACTTTAGCTCACGAGCTAAAC
*
14031413 CTTAGCTCA
1 CCTAGCTCA
14031422 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (30 bp):
CCTAGCTCAACTTTAGCTCACGAGCTAAAC
Found at i:14038824 original size:16 final size:16
Alignment explanation
Indices: 14038803--14038843 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 16
14038793 CTTTTTCTTC
14038803 TTTTTTCACGAAAATTTT
1 TTTTTTCACG-AAA-TTT
14038821 TTTTTTCACG-AATTT
1 TTTTTTCACGAAATTT
14038836 TTTTTTCA
1 TTTTTTCA
14038844 ACTTGATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
18 10 0.43
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTTTTCACGAAATTT
Found at i:14038826 original size:18 final size:16
Alignment explanation
Indices: 14038803--14038841 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
14038793 CTTTTTCTTC
14038803 TTTTTTCACGAAAATTTT
1 TTTTTTCACG--AATTTT
14038821 TTTTTTCACGAATTTT
1 TTTTTTCACGAATTTT
14038837 TTTTT
1 TTTTT
14038842 CAACTTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTCACGAATTTT
Found at i:14038902 original size:12 final size:12
Alignment explanation
Indices: 14038885--14038915 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14038875 AAACCAAATT
14038885 TTTTTTTTTGAA
1 TTTTTTTTTGAA
14038897 TTTTTTTTTGAA
1 TTTTTTTTTGAA
14038909 TTTTTTT
1 TTTTTTT
14038916 GAAGAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:14057879 original size:23 final size:22
Alignment explanation
Indices: 14057827--14057879 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
14057817 TCCACTTCTT
*
14057827 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
14057849 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
14057872 TTTCTTTT
1 TTTCTTTT
14057880 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:14063837 original size:20 final size:19
Alignment explanation
Indices: 14063814--14063878 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
14063804 AAGCTCAAAC
14063814 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
14063834 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
14063854 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
14063874 GAGCT
1 GAGCT
14063879 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:14066452 original size:14 final size:14
Alignment explanation
Indices: 14066433--14066463 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14066423 TTACGCAAAA
14066433 AAATAGACTTGTTC
1 AAATAGACTTGTTC
14066447 AAATAGACTTGTTC
1 AAATAGACTTGTTC
14066461 AAA
1 AAA
14066464 CATGGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
AAATAGACTTGTTC
Found at i:14067203 original size:33 final size:33
Alignment explanation
Indices: 14067165--14067227 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
14067155 GATTACTCAC
14067165 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
14067198 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
14067228 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:14067254 original size:21 final size:21
Alignment explanation
Indices: 14067225--14067280 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
14067215 CAAGCTCTCT
*
14067225 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
14067246 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
14067267 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
14067281 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:14067273 original size:14 final size:14
Alignment explanation
Indices: 14067224--14067280 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
14067214 TCAAGCTCTC
14067224 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
14067237 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
14067251 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
14067265 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
14067279 TT
1 TT
14067281 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:14067308 original size:18 final size:18
Alignment explanation
Indices: 14067287--14067345 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
14067277 TTTTCTCTCA
*
14067287 CTTTTTCGATTTCTTTTT
1 CTTTTTAGATTTCTTTTT
* *
14067305 CTTTTGAAATTTCTTTTT
1 CTTTTTAGATTTCTTTTT
* *
14067323 CTTTTTTGTTTTCTTTTT
1 CTTTTTAGATTTCTTTTT
*
14067341 GTTTT
1 CTTTT
14067346 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.75
Consensus pattern (18 bp):
CTTTTTAGATTTCTTTTT
Found at i:14067334 original size:12 final size:12
Alignment explanation
Indices: 14067319--14067349 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
14067309 TGAAATTTCT
14067319 TTTTCTTTTTTG
1 TTTTCTTTTTTG
14067331 TTTTC-TTTTTG
1 TTTTCTTTTTTG
14067342 TTTTCTTT
1 TTTTCTTT
14067350 CAATTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTG
Found at i:14067362 original size:6 final size:6
Alignment explanation
Indices: 14067242--14067349 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
14067232 TCTTTTTTCG
* * * **
14067242 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ***
14067293 CGATTT CTTTTT CTTTTG AAATTT CTTTTT CTTTTT -TGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT
*
14067341 -GTTTT CTTT
1 CTTTTT CTTT
14067350 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 10
0.67 0.23 0.09
Matches are distributed among these distances:
5 5 0.07
6 54 0.75
7 10 0.14
8 3 0.04
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:14068444 original size:12 final size:12
Alignment explanation
Indices: 14068428--14068465 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
14068418 TTTTTGCTCG
14068428 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
14068440 CTTTTTTTTTGA
1 ATTTTTTTTTCA
14068452 ATTTTTTTTTCA
1 ATTTTTTTTTCA
14068464 AT
1 AT
14068466 CAAATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:14068444 original size:24 final size:24
Alignment explanation
Indices: 14068417--14068463 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14068407 CTTTTCTTTT
14068417 TTTTTTGCTCG-ATTTTTTTTTCAC
1 TTTTTT-CTCGAATTTTTTTTTCAC
* *
14068441 TTTTTTTTTGAATTTTTTTTTCA
1 TTTTTTCTCGAATTTTTTTTTCA
14068464 ATCAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTCTCGAATTTTTTTTTCAC
Found at i:14068448 original size:31 final size:31
Alignment explanation
Indices: 14068384--14068449 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
14068374 TTAAACTTGA
*
14068384 TTTTTTTTGCTCACCTTTTTTTTCTTTTCTT
1 TTTTTTTTGCTCACCTTTTTTTTCCTTTCTT
*
14068415 TTTTTTTTGCTCGA-TTTTTTTTTCACTTT-TT
1 TTTTTTTTGCTC-ACCTTTTTTTTC-CTTTCTT
14068446 TTTT
1 TTTT
14068450 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.76
Consensus pattern (31 bp):
TTTTTTTTGCTCACCTTTTTTTTCCTTTCTT
Found at i:14068476 original size:18 final size:17
Alignment explanation
Indices: 14068451--14068495 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
14068441 TTTTTTTTTG
14068451 AATTTTTTTTTCAATCA
1 AATTTTTTTTTCAATCA
14068468 AATTTTTTTTTCAATCA
1 AATTTTTTTTTCAATCA
14068485 AATTTTTTTTT
1 AATTTTTTTTT
14068496 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTTTTTCAATCA
Done.