Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 182 of 250
Found at i:57550880 original size:37 final size:37
Alignment explanation
Indices: 57550830--57550908 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57550820 TTATTACGAA
* * *
57550830 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57550867 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57550904 GTCTT
1 GTCTT
57550909 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57551201 original size:49 final size:47
Alignment explanation
Indices: 57551027--57551309 Score: 440
Period size: 47 Copynumber: 5.9 Consensus size: 47
57551017 CCCTTCGGGA
* * * * * * *
57551027 CTTATCACATTTGTACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57551074 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57551121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57551168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57551217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57551264 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
57551310 CGCCATACTA
Statistics
Matches: 220, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 137 0.62
49 83 0.38
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57551222 original size:96 final size:96
Alignment explanation
Indices: 57551027--57551309 Score: 471
Period size: 96 Copynumber: 3.0 Consensus size: 96
57551017 CCCTTCGGGA
* * * * * * * *
57551027 CTTATCACATTTGTACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
57551090 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
57551121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
57551186 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
57551217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
57551282 ACTTTCACATTCATCACATCGGCCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
57551310 CGCCATACTA
Statistics
Matches: 177, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 46 0.26
96 131 0.74
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57559097 original size:36 final size:36
Alignment explanation
Indices: 57559050--57559121 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
57559040 TTCTTTCTGC
57559050 CGTTCCAAATTCCC-ACCTCCTCCCCCAATTTTTCCT
1 CGTTCCAAATTCCCAACC-CCTCCCCCAATTTTTCCT
*
57559086 CGTTCCAAATTCCCAACCCCTTCCCCAATTTTTCCT
1 CGTTCCAAATTCCCAACCCCTCCCCCAATTTTTCCT
57559122 TTGTTCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 31 0.91
37 3 0.09
ACGTcount: A:0.18, C:0.46, G:0.03, T:0.33
Consensus pattern (36 bp):
CGTTCCAAATTCCCAACCCCTCCCCCAATTTTTCCT
Found at i:57559803 original size:45 final size:45
Alignment explanation
Indices: 57559739--57559829 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
57559729 AATTAAATTA
* *
57559739 ACCATTATTAGCAGGTTTAATTTCATTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
57559784 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
57559829 A
1 A
57559830 TATATATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (45 bp):
ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
Found at i:57560050 original size:36 final size:36
Alignment explanation
Indices: 57560010--57560082 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
57560000 AAGCATATAT
* *
57560010 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
* *
57560046 ATATTAATGGATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
57560082 A
1 A
57560083 GTCATGCGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:57563665 original size:21 final size:22
Alignment explanation
Indices: 57563641--57563683 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
57563631 TTACATGTAA
* *
57563641 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
57563662 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
57563684 ACTTTGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:57572676 original size:40 final size:40
Alignment explanation
Indices: 57572621--57572721 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
57572611 TATGTGCATA
57572621 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
57572661 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
57572701 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
57572722 TCCGAGCCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:57572739 original size:40 final size:40
Alignment explanation
Indices: 57572621--57572739 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 40
57572611 TATGTGCATA
* ** *
57572621 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* ** *
57572661 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* * * *
57572701 GCATTCGTGCTGGTTGTTATATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAA
57572740 AGTATTTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
Found at i:57577442 original size:17 final size:18
Alignment explanation
Indices: 57577406--57577442 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57577396 TCCAGACCAG
57577406 TTACAAACCCAAATAAAA
1 TTACAAACCCAAATAAAA
57577424 TTACAAACCCAAA-AAAA
1 TTACAAACCCAAATAAAA
57577441 TT
1 TT
57577443 TAAAGCCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (18 bp):
TTACAAACCCAAATAAAA
Found at i:57578741 original size:3 final size:3
Alignment explanation
Indices: 57578733--57578780 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
57578723 TTATGCCTTC
* *
57578733 ATT ATT ATT ACT ATT -TT ATT ATCT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
57578778 ATT
1 ATT
57578781 TATTCATCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:57578770 original size:12 final size:12
Alignment explanation
Indices: 57578733--57578778 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
57578723 TTATGCCTTC
57578733 ATTATTATTACT
1 ATTATTATTACT
57578745 ATT-TTATTATCT
1 ATTATTATTA-CT
57578757 ATTATTATTACT
1 ATTATTATTACT
57578769 ATTATTATTA
1 ATTATTATTA
57578779 TTTATTCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.19
12 20 0.62
13 6 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:57578862 original size:3 final size:3
Alignment explanation
Indices: 57578851--57578944 Score: 95
Period size: 3 Copynumber: 30.3 Consensus size: 3
57578841 GTTTTTTTAC
*
57578851 TTA TATA TTA TTA TTA TTA CTA TTA TTA TTA TTA TT- TTA TCTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
57578897 TTA TT- TTA TCTA TTA TTA TTT TTA TTA TTTA TTTA TGTA TT- TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA -TTA T-TA TTA TTA TTA
57578944 T
1 T
57578945 AAATTGTACC
Statistics
Matches: 79, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.08
3 54 0.68
4 19 0.24
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57578910 original size:36 final size:36
Alignment explanation
Indices: 57578851--57578922 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
57578841 GTTTTTTTAC
57578851 TTATATATTATTATTATTACTATTATTATTATTATT
1 TTATATATTATTATTATTACTATTATTATTATTATT
* *
57578887 TTATCTATTATTATT-TTATCTATTATTATTTTTATT
1 TTATATATTATTATTATTA-CTATTATTATTATTATT
57578923 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (36 bp):
TTATATATTATTATTATTACTATTATTATTATTATT
Found at i:57579110 original size:3 final size:3
Alignment explanation
Indices: 57579102--57579134 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
57579092 ATTTTGTCAA
*
57579102 TAT TAT TAT TAT TAT T-T TAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
57579135 CACTTCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:57579118 original size:23 final size:23
Alignment explanation
Indices: 57579091--57579134 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57579081 TTCATATGCA
*
57579091 TATTTTGTCAATATTATTATTAT
1 TATTTTATCAATATTATTATTAT
*
57579114 TATTTTATCATTATTATTATT
1 TATTTTATCAATATTATTATT
57579135 CACTTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTATCAATATTATTATTAT
Found at i:57581484 original size:27 final size:28
Alignment explanation
Indices: 57581427--57581484 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
57581417 CAGGTAATCA
* *
57581427 TTCTTAGATTGATTTGTTCTTTTGGTCT
1 TTCTTAGATTCATTTGTTCTTTGGGTCT
57581455 TTCTTAGATTCATTTGCTT-TTTGGGT-T
1 TTCTTAGATTCATTTG-TTCTTTGGGTCT
57581482 TTC
1 TTC
57581485 CTTCATTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 4 0.15
28 21 0.78
29 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.60
Consensus pattern (28 bp):
TTCTTAGATTCATTTGTTCTTTGGGTCT
Found at i:57583414 original size:10 final size:10
Alignment explanation
Indices: 57583399--57583433 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
57583389 TAGGGTGGCA
57583399 TTTTTCTTTT
1 TTTTTCTTTT
57583409 TTTTTCTTTT
1 TTTTTCTTTT
57583419 TCTTTTCTTTCT
1 T-TTTTCTTT-T
57583431 TTT
1 TTT
57583434 CACTTGTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 10 0.43
12 2 0.09
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:57583420 original size:16 final size:15
Alignment explanation
Indices: 57583399--57583433 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
57583389 TAGGGTGGCA
*
57583399 TTTTTCTTTTTTTTTC
1 TTTTTC-TTTTCTTTC
57583415 TTTTTCTTTTCTTTC
1 TTTTTCTTTTCTTTC
57583430 TTTT
1 TTTT
57583434 CACTTGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTCTTTC
Found at i:57584459 original size:20 final size:21
Alignment explanation
Indices: 57584421--57584460 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57584411 GCATTACGAT
*
57584421 AAGTTGGGCCTCGATGGGCTA
1 AAGTTGGGCCTCAATGGGCTA
57584442 AAGTTGGGCC-CAATGGGCT
1 AAGTTGGGCCTCAATGGGCT
57584461 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.23
Consensus pattern (21 bp):
AAGTTGGGCCTCAATGGGCTA
Found at i:57584838 original size:20 final size:21
Alignment explanation
Indices: 57584803--57584859 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
57584793 TGATACATGG
57584803 GATATGATAT--ACATGA-AT
1 GATATGATATGCACATGATAT
57584821 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
57584842 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
57584860 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:57584938 original size:27 final size:26
Alignment explanation
Indices: 57584908--57585006 Score: 146
Period size: 26 Copynumber: 3.8 Consensus size: 26
57584898 GAGGAAGTGC
57584908 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
57584934 AAAAAGGGCTTATGCCCTAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTACCG
57584961 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
57584987 AAAAGGGCTT-TGCTCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
57585007 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 9 0.14
26 33 0.51
27 23 0.35
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:57589305 original size:44 final size:44
Alignment explanation
Indices: 57589234--57589404 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 44
57589224 ATGACAAATT
* * * *
57589234 TTATCTCACTGAAATTGTAGTGAAGCAGATTGAAGCCACTAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
* * ** *
57589278 TTATCTCTCTGAAGTTACAGTGGAGCAGATATTGAAGTTATTATGGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG--ATTGAAG---CCA---CTAATC
* * * *
57589330 TTATCTCCCTAAAGTTGCAGTGGAACATATTGAAGCCACTAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
*
57589374 TTATCTCCCTGAAGTTGCAGTAGAGCAGATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
57589405 AAAAATAGCG
Statistics
Matches: 98, Mismatches: 21, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
44 54 0.55
46 7 0.07
47 1 0.01
49 1 0.01
50 7 0.07
52 28 0.29
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
Found at i:57589711 original size:145 final size:145
Alignment explanation
Indices: 57589377--57589712 Score: 401
Period size: 145 Copynumber: 2.3 Consensus size: 145
57589367 ACTAACCTTA
* * *** * * *
57589377 TCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTATAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAGC-AATCTTATTTCCCCGAAGTTACAATGG
* *
57589442 AATAGATTAAAGCTACAAGTCACAAATCACATACTTCTGAAGTTATAGTAGGTTAGATCAAATCT
65 AATAGATTAAAGCTACAAGTCACAAATCACATACCTCTGAAGTTACAGTAGGTTAGATCAAATCT
*
57589507 ACCATGATGAATCTTT
130 ACCATGATGAATCTTC
* * * *
57589523 TCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCATG-AATCTTATTTCCCCGAAGTTGCAATTG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCA-GCAATCTTATTTCCCCGAAGTTACAATGG
* * * *
57589587 TATAGATTAAAGCTACAAGTCACAAATC-CTATACCTCTGAAGTTGCAGTAGGTTGGATCAAGGT
65 AATAGATTAAAGCTACAAGTCACAAATCAC-ATACCTCTGAAGTTACAGTAGGTTAGATCAA-AT
* * *
57589651 C-ATCGTGGTGAATCTTC
128 CTACCATGATGAATCTTC
57589668 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAGTCTTAT
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAGCAA-TCTTAT
57589713 CTCCTTTGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
144 3 0.02
145 127 0.79
146 30 0.19
147 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (145 bp):
TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAGCAATCTTATTTCCCCGAAGTTACAATGGA
ATAGATTAAAGCTACAAGTCACAAATCACATACCTCTGAAGTTACAGTAGGTTAGATCAAATCTA
CCATGATGAATCTTC
Found at i:57589944 original size:89 final size:89
Alignment explanation
Indices: 57589822--57589989 Score: 221
Period size: 89 Copynumber: 1.9 Consensus size: 89
57589812 GCCACTAACC
* * * * *
57589822 TTATCTCTCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTTTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCCGAAGTTACAGTGGAGCAAGTTGAAGCTACAAATTTTATCTCCCTGAAGTTGCAGT
57589887 AGAGCAGATTGAAGGTTGTGAATT
66 AGAGCAGATTGAAGGTTGTGAATT
* * *
57589911 TTATCTCCCCGAAGTTATAGTGGAGC-AGATTGAAGCTACAAATTTTATCTTCCTGAGGTTGCAG
1 TTATCTCCCCGAAGTTACAGTGGAGCAAG-TTGAAGCTACAAATTTTATCTCCCTGAAGTTGCAG
* **
57589975 TGGAGTGGATTGAAG
65 TAGAGCAGATTGAAG
57589990 CAACAAATTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
88 2 0.03
89 65 0.97
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (89 bp):
TTATCTCCCCGAAGTTACAGTGGAGCAAGTTGAAGCTACAAATTTTATCTCCCTGAAGTTGCAGT
AGAGCAGATTGAAGGTTGTGAATT
Found at i:57589977 original size:44 final size:44
Alignment explanation
Indices: 57589786--57589998 Score: 212
Period size: 44 Copynumber: 4.8 Consensus size: 44
57589776 TATTATTTTT
* * * ** *
57589786 CTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAACCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
* *
57589830 CTGAAGTTGCAGTGGAGCA-AGTTGAAGTTACAAGTTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAATTTTATCTCC
* * ***
57589874 CTGAAGTTGCAGTAGAGCAGATTGAAGGTTGTGAATTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAA-GCTACAAATTTTATCTCC
* ** *
57589919 CCGAAGTTATAGTGGAGCAGATTGAAGCTACAAATTTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
* ** *
57589963 CTGAGGTTGCAGTGGAGTGGATTGAAGCAACAAATT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATT
57589999 CTATACCTTT
Statistics
Matches: 138, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
43 1 0.01
44 100 0.72
45 37 0.27
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
Found at i:57590918 original size:6 final size:6
Alignment explanation
Indices: 57590909--57590948 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
57590899 AGAATTTTTA
57590909 TTTGTT TTTGTT TTTGTT TTTG-T TTTG-T TTTG-T TTTGTT T
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT T
57590949 CACTTAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.45
6 18 0.55
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:57590928 original size:5 final size:5
Alignment explanation
Indices: 57590909--57590948 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
57590899 AGAATTTTTA
57590909 TTTGTT TTTGTT TTTGTT TTTGT TTTGT TTTGT TTTGT TT
1 TTTG-T TTTG-T TTTG-T TTTGT TTTGT TTTGT TTTGT TT
57590949 CACTTAGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.53
6 16 0.47
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:57590941 original size:10 final size:11
Alignment explanation
Indices: 57590909--57590948 Score: 64
Period size: 10 Copynumber: 3.6 Consensus size: 11
57590899 AGAATTTTTA
57590909 TTTGTTTTTGTT
1 TTTGTTTTTG-T
57590921 TTTGTTTTTGT
1 TTTGTTTTTGT
57590932 TTTG-TTTTGT
1 TTTGTTTTTGT
57590942 TTTGTTT
1 TTTGTTT
57590949 CACTTAGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 7 0.26
12 10 0.37
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (11 bp):
TTTGTTTTTGT
Found at i:57591346 original size:4 final size:4
Alignment explanation
Indices: 57591326--57591446 Score: 64
Period size: 4 Copynumber: 29.2 Consensus size: 4
57591316 TTTTAATTCT
* * * * * *
57591326 TTTA TGTA TTCA TTTA TTTA TTTA CTTG TTTA TTTA TTCA -TTA TTTCT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
* * * * * * * *
57591374 TTTA TTTTA TTCA TTTG TTTG TTCA TTTA CTTA TCTA TTGA TATA TTGCTCA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--T-A
57591426 TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
57591447 ATTTTTTAAA
Statistics
Matches: 85, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
3 2 0.02
4 71 0.84
5 8 0.09
6 1 0.01
7 3 0.04
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:57591560 original size:3 final size:3
Alignment explanation
Indices: 57591545--57591601 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
57591535 ATACCTTCAC
*
57591545 TAT TAT TAC TAT TAT TAT TAT CTAT TAT TAT TAT TAT TAT CTAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT
57591592 TAT TAT TAT T
1 TAT TAT TAT T
57591602 TATCTATTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 44 0.88
4 6 0.12
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:57591572 original size:22 final size:21
Alignment explanation
Indices: 57591544--57591618 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 21
57591534 TATACCTTCA
57591544 CTATTATTACTATTATTATTAT
1 CTATTATTA-TATTATTATTAT
57591566 CTATTA-T-TATTATTATTAT
1 CTATTATTATATTATTATTAT
57591585 CTATTA-T-TATTATTATTTAT
1 CTATTATTATATTATTA-TTAT
57591605 CTATTTATT-TATTA
1 CTA-TTATTATATTA
57591619 CCCATTCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
19 27 0.54
20 7 0.14
21 4 0.08
22 12 0.24
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
CTATTATTATATTATTATTAT
Found at i:57591576 original size:19 final size:19
Alignment explanation
Indices: 57591548--57591609 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
57591538 CCTTCACTAT
*
57591548 TATTACTATTATTATTATC
1 TATTATTATTATTATTATC
57591567 TATTATTATTATTATTATC
1 TATTATTATTATTATTATC
57591586 TATTATTATTATTATTTATC
1 TATTATTATTATTA-TTATC
57591606 TATT
1 TATT
57591610 TATTTATTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 32 0.78
20 9 0.22
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTATTATTATTATTATC
Found at i:57591616 original size:19 final size:18
Alignment explanation
Indices: 57591545--57591618 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 18
57591535 ATACCTTCAC
57591545 TATTA-TTA-CTATTA-T
1 TATTATTTATCTATTATT
*
57591560 TATTATCTAT-TATTA-T
1 TATTATTTATCTATTATT
57591576 TATTA-TTATCTATTATTAT
1 TATTATTTATCTATTA-T-T
57591595 TATTATTTATCTATTTATT
1 TATTATTTATCTA-TTATT
57591614 TATTA
1 TATTA
57591619 CCCATTCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 8 0.16
16 18 0.37
19 12 0.24
20 8 0.16
21 3 0.06
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTTATCTATTATT
Found at i:57593985 original size:76 final size:77
Alignment explanation
Indices: 57593899--57594052 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
57593889 TTATTTTTCA
* *
57593899 TACTAATGTATAAAAACAAAAAAAAAT-TAAATTGAAAGTATAATATAAAAGAAAATGAGATAGG
1 TACTAATGTATAAAAACAAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGG
57593963 AGTATATGTTAG
66 AGTATATGTTAG
* ** *
57593975 TACTAATGTATAAAAATAAAAAAGTATCTAAATTGAAATTATAAGAGAAAAGAAAATGAGATAGG
1 TACTAATGTATAAAAACAAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGG
57594040 AGTATATGTTAG
66 AGTATATGTTAG
57594052 T
1 T
57594053 TCAAAATTAT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 24 0.34
77 47 0.66
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.27
Consensus pattern (77 bp):
TACTAATGTATAAAAACAAAAAAAAATCTAAATTGAAAGTATAAGAGAAAAGAAAATGAGATAGG
AGTATATGTTAG
Found at i:57596330 original size:13 final size:13
Alignment explanation
Indices: 57596298--57596322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57596288 TAAAGATATA
57596298 TAAAACTTATGTC
1 TAAAACTTATGTC
57596311 TAAAACTTATGT
1 TAAAACTTATGT
57596323 TAATAACTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TAAAACTTATGTC
Found at i:57598882 original size:16 final size:16
Alignment explanation
Indices: 57598851--57598904 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
57598841 AGAATTAAAA
57598851 TTAAGTTGAGAAAATTAT
1 TTAA-TTGA-AAAATTAT
*
57598869 TTAATTGAAAAATTAA
1 TTAATTGAAAAATTAT
57598885 TTAATT--AAAATTAAT
1 TTAATTGAAAAATT-AT
57598900 TTAAT
1 TTAAT
57598905 AAATAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 13 0.39
17 4 0.12
18 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (16 bp):
TTAATTGAAAAATTAT
Found at i:57598907 original size:14 final size:15
Alignment explanation
Indices: 57598843--57598904 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
57598833 ACTTTAACAG
*
57598843 AATTAAAATTAAGTT
1 AATTAAAATTAATTT
* *
57598858 GA-GAAAATT-ATTT
1 AATTAAAATTAATTT
57598871 AATTGAAAAATTAA-TT
1 AATT--AAAATTAATTT
57598887 AATTAAAATTAATTT
1 AATTAAAATTAATTT
57598902 AAT
1 AAT
57598905 AAATAATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.11
14 14 0.38
15 6 0.16
16 12 0.32
17 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTAAAATTAATTT
Found at i:57604701 original size:14 final size:14
Alignment explanation
Indices: 57604682--57604709 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57604672 AAGAATTATA
57604682 ATTATTTAAATAAT
1 ATTATTTAAATAAT
57604696 ATTATTTAAATAAT
1 ATTATTTAAATAAT
57604710 TATAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATTTAAATAAT
Found at i:57605225 original size:13 final size:13
Alignment explanation
Indices: 57605203--57605240 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
57605193 AATTTCATTG
57605203 AAAATAAATTTTAA
1 AAAAT-AATTTTAA
*
57605217 AAAATAATTTTGA
1 AAAATAATTTTAA
57605230 AAAAT-ATTTTA
1 AAAATAATTTTA
57605241 CATAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:57605327 original size:13 final size:14
Alignment explanation
Indices: 57605294--57605325 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
57605284 AAAAAATCTA
57605294 TTTTCTAAAAATTGT
1 TTTTC-AAAAATTGT
57605309 TTTTCAAAAATTGT
1 TTTTCAAAAATTGT
57605323 TTT
1 TTT
57605326 CAGTACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTTCAAAAATTGT
Found at i:57617579 original size:25 final size:26
Alignment explanation
Indices: 57617519--57617567 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
57617509 ATTTGTTTTA
*
57617519 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
57617543 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
57617568 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:57622851 original size:4 final size:4
Alignment explanation
Indices: 57622842--57622878 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
57622832 TAGATAAGGC
57622842 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
57622879 CTCTCTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:57627912 original size:43 final size:43
Alignment explanation
Indices: 57627862--57628012 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
57627852 TATCTCATAT
* * *
57627862 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
57627905 AGGGTCTTACACT-AAATCGA-TTAACGATGCCAATGTCCCCGAC
1 ATGGTCTTACA-TGTAATC-ACATATCGATGCCAATGTCCCAGAC
* * * *
57627948 ATGGTCTTACACGTGATCTCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
57627991 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
57628013 CTCGGTAACC
Statistics
Matches: 82, Mismatches: 20, Indels: 11
0.73 0.18 0.10
Matches are distributed among these distances:
42 1 0.01
43 79 0.96
44 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:57628734 original size:18 final size:20
Alignment explanation
Indices: 57628706--57628749 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
57628696 CAAAGCAACG
57628706 ATCATAAAAAC-G-T-AAAA
1 ATCATAAAAACAGATCAAAA
57628723 ATCATCAAAAACAGATCAAAA
1 ATCAT-AAAAACAGATCAAAA
57628744 ATCATA
1 ATCATA
57628750 CTTTAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 1 0.04
20 2 0.09
21 9 0.39
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (20 bp):
ATCATAAAAACAGATCAAAA
Found at i:57629759 original size:17 final size:19
Alignment explanation
Indices: 57629724--57629760 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
57629714 TATGTGACAT
57629724 ATATATTGAACAATCCAAA
1 ATATATTGAACAATCCAAA
*
57629743 ATAT-TTGAAGAAT-CAAA
1 ATATATTGAACAATCCAAA
57629760 A
1 A
57629761 CATCTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (19 bp):
ATATATTGAACAATCCAAA
Found at i:57631463 original size:25 final size:27
Alignment explanation
Indices: 57631435--57631485 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
57631425 CCATTTTTTT
57631435 AATAATA-TAGTTTTATT-T-TTTTAAA
1 AATAATATTA-TTTTATTATATTTTAAA
*
57631460 AATATTATTATTTTATTATATTTTAA
1 AATAATATTATTTTATTATATTTTAA
57631486 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 13 0.59
26 3 0.14
27 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
AATAATATTATTTTATTATATTTTAAA
Found at i:57632852 original size:11 final size:11
Alignment explanation
Indices: 57632817--57632844 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57632807 GAGAGTAAGA
57632817 AATTTTAATGT
1 AATTTTAATGT
57632828 AATTTTAATGT
1 AATTTTAATGT
57632839 AATTTT
1 AATTTT
57632845 GATATAATGT
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:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:57634472 original size:6 final size:6
Alignment explanation
Indices: 57634461--57634512 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
57634451 ACCAACTCCG
* * * * *
57634461 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCG GAGGCA GTGCCG GACCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
57634509 GAGC
1 GAGC
57634513 GGCGGCCAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.38, T:0.02
Consensus pattern (6 bp):
GAGCCA
Found at i:57638735 original size:23 final size:22
Alignment explanation
Indices: 57638694--57638750 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
57638684 ATTTAAAAAT
57638694 TATTAAAATATAATAAAATAATAA
1 TATTAAAA-A-AATAAAATAATAA
* *
57638718 TATTTAAAAAAATAAAATTATAT
1 TA-TTAAAAAAATAAAATAATAA
57638741 TATTAAAAAA
1 TATTAAAAAA
57638751 TAGGTCGCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.27
23 13 0.43
24 3 0.10
25 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TATTAAAAAAATAAAATAATAA
Found at i:57646604 original size:17 final size:17
Alignment explanation
Indices: 57646582--57646615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
57646572 TTAAAAAGAA
57646582 GAGATAAACAGTTCTTT
1 GAGATAAACAGTTCTTT
57646599 GAGATAAACAGTTCTTT
1 GAGATAAACAGTTCTTT
57646616 TAGTTAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
GAGATAAACAGTTCTTT
Found at i:57656249 original size:126 final size:126
Alignment explanation
Indices: 57655992--57656364 Score: 511
Period size: 127 Copynumber: 3.0 Consensus size: 126
57655982 TTGTACCCTA
* * * *
57655992 AAAAAATTATTTTGAGAAA-ACATTTCTGAATAAATAGTGTCAAAAACGCTTGAAGCAGGATGCA
1 AAAAAATAATTTTGA-AAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * *
57656056 CTGTCAGCAAAATTACAGAAAAAAGCTACCACGTGGACGCTCTTTTTGTACAGTAATTCCTG
65 CTGTCAGCAAAATTACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
*
57656118 AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
1 AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
57656183 TGTCAGCAAAAATCACAGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTTCCTG
66 TGTCAGC-AAAATTACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
* * * * * * *
57656245 AAAAAATAATTTTGAGAAGATGTTTCTAAACAAGTAGTGT--TAAA-GCTTCAAGTAGGATGCAA
1 AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
57656307 TGTCAGCAAAATTTCTGAGAAAAGCTCTCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 TGTCAGCAAAATTACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
57656365 ATGATTGGCC
Statistics
Matches: 221, Mismatches: 24, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
123 45 0.20
124 22 0.10
125 6 0.03
126 63 0.29
127 85 0.38
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAATTACAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
Found at i:57659899 original size:18 final size:18
Alignment explanation
Indices: 57659873--57659915 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
57659863 GACTAAAAAA
* *
57659873 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
57659891 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
57659909 AGGATAC
1 AGGATAC
57659916 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:57660030 original size:30 final size:30
Alignment explanation
Indices: 57659987--57660064 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
57659977 GTGATTGTAG
* *
57659987 GGCACTATTGATGGGCC-AGGTGATTGTTTA
1 GGCACTGTTGATGGGCCTA-ATGATTGTTTA
* *
57660017 GGCCCTGTTGATGGGCCTAATGATTGTTTG
1 GGCACTGTTGATGGGCCTAATGATTGTTTA
*
57660047 GGCACTGTTGATAGGCCT
1 GGCACTGTTGATGGGCCT
57660065 GTGCCATCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (30 bp):
GGCACTGTTGATGGGCCTAATGATTGTTTA
Found at i:57661765 original size:21 final size:21
Alignment explanation
Indices: 57661741--57661784 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
57661731 TATAAAGAGT
*
57661741 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTCAATGAGAAA
**
57661762 TTTGAGAGCTTCAATGAGAAA
1 TTTGAGAAATTCAATGAGAAA
57661783 TT
1 TT
57661785 GTAAAGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTCAATGAGAAA
Found at i:57664793 original size:16 final size:16
Alignment explanation
Indices: 57664753--57664795 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
57664743 CTAAATTCTT
*
57664753 AAAAATTAAAATTAAA
1 AAAAATTAAAAATAAA
**
57664769 AAACTTTAAAAATAAA
1 AAAAATTAAAAATAAA
57664785 AAAAATTAAAA
1 AAAAATTAAAA
57664796 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTAAAAATAAA
Found at i:57665511 original size:19 final size:17
Alignment explanation
Indices: 57665477--57665513 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
57665467 TATTTTATTT
57665477 ATAAATTTATTAAATAA
1 ATAAATTTATTAAATAA
57665494 ATAAATTTCATGTAAATAA
1 ATAAATTT-AT-TAAATAA
57665513 A
1 A
57665514 GAGAGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAAATTTATTAAATAA
Found at i:57668715 original size:18 final size:18
Alignment explanation
Indices: 57668673--57668716 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
57668663 AAATCATCCC
* *
57668673 TAAAATCACTTGTAAAAT
1 TAAAATTACATGTAAAAT
57668691 TAAAATTACATGTATAAA-
1 TAAAATTACATGTA-AAAT
57668709 TAAAATTA
1 TAAAATTA
57668717 AAAACATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAATTACATGTAAAAT
Found at i:57677523 original size:19 final size:20
Alignment explanation
Indices: 57677488--57677534 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
57677478 ACCTTATGTG
*
57677488 AAAAACTAAATAGAACAA-A
1 AAAAATTAAATAGAACAACA
57677507 AAAAATTAAATTA-AACAACA
1 AAAAATTAAA-TAGAACAACA
*
57677527 AATAATTA
1 AAAAATTA
57677535 TACATATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATTAAATAGAACAACA
Found at i:57679073 original size:159 final size:158
Alignment explanation
Indices: 57678780--57679073 Score: 441
Period size: 159 Copynumber: 1.9 Consensus size: 158
57678770 TTTTTTTCTC
**
57678780 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGTTG
1 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGGCG
* *
57678845 ATATCCTAATGCTTAATTTCGTCATTCTTATGCTGAATTATTTGTGGTTTAATGGATTTTACTCT
66 ATATCCTAATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTACTCT
57678910 CTATTCAATGCTACTTTTTGTGTTCATT
131 CTATTCAATGCTACTTTTTGTGTTCATT
* * * * **
57678938 GTTCCATTTAGTTTGATTATAAGCTTATGATGGAA-TAAGGGCGATTTCG-AGTTTTCATTTTAG
1 GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAA--ACGATTTCGCAG-TAGCATTTTAG
57679001 GCGATATCCTGAA-GCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTA
63 GCGATATCCT-AATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTA
57679065 CTCTCTATT
127 CTCTCTATT
57679074 TGCAAATTAG
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
157 3 0.02
158 34 0.28
159 83 0.68
160 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (158 bp):
GTTCAATTTAGTTTGATTATAAGCTTATGAAGAAATTAAACGATTTCGCAGTAGCATTTTAGGCG
ATATCCTAATGCTTAATTTCGTAATTCTTATGCTGAATGATTTGTGGTTTAATGGATTTTACTCT
CTATTCAATGCTACTTTTTGTGTTCATT
Found at i:57682714 original size:28 final size:28
Alignment explanation
Indices: 57682680--57682832 Score: 155
Period size: 28 Copynumber: 5.5 Consensus size: 28
57682670 CAAACCAAAA
* **
57682680 AAGTGCAAGCCAAAGTGGCGGACAATTT
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* * *
57682708 AAGTGCAAGCCAAAATGGCGGATAGTTC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* *
57682736 AAGT-AAAGCCAAAATGACGGACAATCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* * ** *
57682763 AAGTACAAGCTAAAATGGTAGACAGTCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
* * *
57682791 AAGTACAAGCTAAAATGGCGGGCAATCC
1 AAGTGCAAGCCAAAATGGCGGACAATCC
57682819 AAGTGCAAGCCAAA
1 AAGTGCAAGCCAAA
57682833 GCGCCAGACA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
27 22 0.21
28 81 0.79
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (28 bp):
AAGTGCAAGCCAAAATGGCGGACAATCC
Found at i:57682757 original size:55 final size:56
Alignment explanation
Indices: 57682680--57682832 Score: 182
Period size: 55 Copynumber: 2.8 Consensus size: 56
57682670 CAAACCAAAA
* * ** * * *
57682680 AAGTGCAAGCCAAAGTGGCGGACAATTTAAGTGCAAGCCAAAATGGCGGATAGTTC
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCAGACAGTCC
* * * *
57682736 AAGTA-AAGCCAAAATGACGGACAATCCAAGTACAAGCTAAAATGGTAGACAGTCC
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCAGACAGTCC
* *
57682791 AAGTACAAGCTAAAATGGCGGGCAATCCAAGTGCAAGCCAAA
1 AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAA
57682833 GCGCCAGACA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
55 45 0.56
56 35 0.44
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (56 bp):
AAGTACAAGCCAAAATGGCGGACAATCCAAGTGCAAGCCAAAATGGCAGACAGTCC
Found at i:57683049 original size:73 final size:73
Alignment explanation
Indices: 57682914--57683049 Score: 175
Period size: 73 Copynumber: 1.9 Consensus size: 73
57682904 AAATGAGGGC
* * * * * *
57682914 AAGCCAAAGTGGTGGATGATCTAAATGTAAGCTAAAAGTTGGTGCAAGCCAAAATTGCAGACAAC
1 AAGCCAAAGTGGCGGACGATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAATGGCAGACAAC
57682979 CCAAGTGT
66 CCAAGTGT
* * *
57682987 AAGCCAAAGTGGCGGACCG-TCTAAATGCAAGCCAAAAGTAGGTGCAAGCTAAAGTGGTAGACA
1 AAGCCAAAGTGGCGGA-CGATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAATGGCAGACA
57683050 GTCTAAATAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 52 0.98
74 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (73 bp):
AAGCCAAAGTGGCGGACGATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAATGGCAGACAAC
CCAAGTGT
Found at i:57683063 original size:101 final size:100
Alignment explanation
Indices: 57682958--57683153 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 100
57682948 AAAGTTGGTG
* * *** * *
57682958 CAAGCCAAAATTGCAGACAACCCAAGTGTAAGCCAAAGTGGCGGACCGTCTAAATGCAAGCCAAA
1 CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
*
57683023 AGTAGGTGCAAGCTAAAGTGGTAGACAGTCTAAATA
66 A-TAGGTACAAGCTAAAGTGGTAGACAGTCTAAATA
* * *
57683059 CAAGCCAAAATGGTAGACAACCCAAGTGCAAGCCAAAGCAATGAACAGTCTAAATTCAAGCCAAA
1 CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
* * *
57683124 ATTGGTACCAGCTAAAGTGGTGGACAGTCT
66 ATAGGTACAAGCTAAAGTGGTAGACAGTCT
57683154 GTCACACCCC
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 25 0.31
101 56 0.69
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (100 bp):
CAAGCCAAAATGGCAGACAACCCAAGTGCAAGCCAAAGCAACGAACAGTCTAAATGCAAGCCAAA
ATAGGTACAAGCTAAAGTGGTAGACAGTCTAAATA
Found at i:57689017 original size:28 final size:28
Alignment explanation
Indices: 57688985--57689043 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
57688975 AAATGGGTGT
*
57688985 AAGCCAATGTAGC-GAACAATCCAAGTGC
1 AAGCCAAAGTAGCAG-ACAATCCAAGTGC
* *
57689013 AAGCCAAAGTGGCAGACAGTCCAAGTGC
1 AAGCCAAAGTAGCAGACAATCCAAGTGC
57689041 AAG
1 AAG
57689044 ATATTTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (28 bp):
AAGCCAAAGTAGCAGACAATCCAAGTGC
Found at i:57692047 original size:20 final size:19
Alignment explanation
Indices: 57692024--57692072 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
57692014 TCCATTAAAA
*
57692024 ATTTTAGTATTTGATTAGAG
1 ATTTTAGTATCTG-TTAGAG
* *
57692044 ATTTTTGCATCTGTTAGAG
1 ATTTTAGTATCTGTTAGAG
*
57692063 ATTTTGGTAT
1 ATTTTAGTAT
57692073 AGCATTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.51
Consensus pattern (19 bp):
ATTTTAGTATCTGTTAGAG
Found at i:57692222 original size:19 final size:19
Alignment explanation
Indices: 57692195--57692284 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
57692185 ATTTAGTTAG
57692195 GAAATTTTGGTATTCCTTA
1 GAAATTTTGGTATTCCTTA
* * **
57692214 GAGATTTTGATATTTGTTA
1 GAAATTTTGGTATTCCTTA
*
57692233 GAAATTTTGGTA-TCAGTTA
1 GAAATTTTGGTATTC-CTTA
* *
57692252 AAAATTTTGGTACTCCTTCA
1 GAAATTTTGGTATTCCTT-A
*
57692272 AAAATTTTGGTAT
1 GAAATTTTGGTAT
57692285 GCCACGTAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
18 1 0.02
19 42 0.72
20 15 0.26
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.46
Consensus pattern (19 bp):
GAAATTTTGGTATTCCTTA
Found at i:57692259 original size:38 final size:40
Alignment explanation
Indices: 57692185--57692260 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
57692175 TTCGTTAGAG
* *
57692185 ATTTAGTTAGGAAATTTTGGTATTCCTTAGAGATTTTGAT
1 ATTTAGTTAGGAAATTTTGGTATTCCTTAAAAATTTTGAT
*
57692225 ATTT-GTTA-GAAATTTTGGTA-TCAGTTAAAAATTTTG
1 ATTTAGTTAGGAAATTTTGGTATTC-CTTAAAAATTTTG
57692261 GTACTCCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.06
38 22 0.69
39 4 0.12
40 4 0.12
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.47
Consensus pattern (40 bp):
ATTTAGTTAGGAAATTTTGGTATTCCTTAAAAATTTTGAT
Found at i:57692276 original size:20 final size:19
Alignment explanation
Indices: 57692234--57692284 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
57692224 TATTTGTTAG
*
57692234 AAATTTTGGTATCAGTTAA
1 AAATTTTGGTATCACTTAA
57692253 AAATTTTGGTACTC-CTTCAA
1 AAATTTTGGTA-TCACTT-AA
57692273 AAATTTTGGTAT
1 AAATTTTGGTAT
57692285 GCCACGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (19 bp):
AAATTTTGGTATCACTTAA
Found at i:57692442 original size:20 final size:19
Alignment explanation
Indices: 57692417--57692510 Score: 82
Period size: 19 Copynumber: 4.8 Consensus size: 19
57692407 TTATAGAAAT
57692417 TTAGAAATTTTGGTATTCAA
1 TTAGAAATTTTGGTATTC-A
* *
57692437 TTAGAAATATTGGCA-TCTA
1 TTAGAAATTTTGGTATTC-A
* * *
57692456 TTAAAAATATTGGTATTTGA
1 TTAGAAATTTTGGTA-TTCA
* *
57692476 TTAGAGATTTTGATATTCA
1 TTAGAAATTTTGGTATTCA
*
57692495 TTAGAAATTTTAGTAT
1 TTAGAAATTTTGGTAT
57692511 ATAATTTGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
19 32 0.55
20 25 0.43
21 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (19 bp):
TTAGAAATTTTGGTATTCA
Found at i:57697980 original size:41 final size:41
Alignment explanation
Indices: 57697913--57698255 Score: 481
Period size: 41 Copynumber: 8.4 Consensus size: 41
57697903 CGTTCTAGAA
*
57697913 AAAACGCCGC-TAAAACCAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
** * *
57697953 AAAACGCAACAAAAAACTAGAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
** * *
57697994 AAAACGCCGTTAAAAACTAGAGCATTAACGGCGCTTTTCCT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * *
57698035 AAAACGCCGCAAAAAACCAGAGCATTAGCGGTGCTTCTCGT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* *
57698076 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
*
57698117 AAAACGCCGCAAAAAACCAGAGCATTAGCGTCGCTTTTCCT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* *
57698158 AAAACGCCACAAAAAACCAGAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * * *
57698199 AAAACGCCGCTAAATACCAGAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
*
57698240 AAAACGCCGCTAAAAA
1 AAAACGCCGCAAAAAA
57698256 TCTCATAACC
Statistics
Matches: 268, Mismatches: 34, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
40 8 0.03
41 260 0.97
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCT
Found at i:57698434 original size:14 final size:14
Alignment explanation
Indices: 57698412--57698451 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57698402 TTAATTATCA
* *
57698412 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
57698426 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
57698440 ATATGGTTTAAG
1 TTATGGTTTAAG
57698452 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:57699410 original size:24 final size:24
Alignment explanation
Indices: 57699360--57699410 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
57699350 TATATGAGAT
* * *
57699360 AAATATATATAAAATATTATTTTA
1 AAATATATATAAAATATCATATGA
57699384 AAATATATAT-AAATATACATATGA
1 AAATATATATAAAATAT-CATATGA
57699408 AAA
1 AAA
57699411 GTGGTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATATAAAATATCATATGA
Found at i:57700398 original size:18 final size:17
Alignment explanation
Indices: 57700377--57700419 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
57700367 ATGATCTTAA
57700377 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
57700395 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
57700412 TCGATGAT
1 T-GATGAT
57700420 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:57701008 original size:61 final size:61
Alignment explanation
Indices: 57700866--57701047 Score: 337
Period size: 61 Copynumber: 3.0 Consensus size: 61
57700856 CCAAAATTTG
57700866 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGAT-TTTTTGTTCTGAAATGGAAAATTC
*
57700928 ATTTCTTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTAAAATGGAAAATTC
1 ATTTC-TTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
57700990 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAA
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAA
57701048 ACTAGTTTGT
Statistics
Matches: 117, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
61 52 0.44
62 33 0.28
63 32 0.27
ACGTcount: A:0.19, C:0.08, G:0.18, T:0.55
Consensus pattern (61 bp):
ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
Found at i:57703514 original size:290 final size:290
Alignment explanation
Indices: 57702994--57703711 Score: 1391
Period size: 290 Copynumber: 2.5 Consensus size: 290
57702984 CCAACCTTAT
57702994 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
57703059 GCAAGATATAATGGATCTTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57703124 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
57703189 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
57703254 TTTTTATATTAATAATGTTCGATTTTAATA
261 TTTTTATATTAATAATGTTCGATTTTAATA
*
57703284 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCAAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57703349 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
57703414 AAAGACTTGGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
57703479 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
*
57703544 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTCGATTTTAATA
*
57703574 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
57703639 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
57703704 AAAGACTT
131 AAAGACTT
57703712 TTTATCACAA
Statistics
Matches: 422, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 422 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (290 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
TTTTTATATTAATAATGTTCGATTTTAATA
Found at i:57703960 original size:15 final size:15
Alignment explanation
Indices: 57703916--57703971 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
57703906 AACGACATGT
*
57703916 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
57703932 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
57703945 ATATTATTTAATTAA
1 ATATTATTTAATTAA
57703960 ATATTATTTAAT
1 ATATTATTTAAT
57703972 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:57704116 original size:9 final size:9
Alignment explanation
Indices: 57704077--57704221 Score: 157
Period size: 9 Copynumber: 16.2 Consensus size: 9
57704067 ATTTGATATC
*
57704077 ATAATTTAT
1 ATAACTTAT
*
57704086 ATAACTTAC
1 ATAACTTAT
* * *
57704095 AAAACGTAC
1 ATAACTTAT
57704104 ATAACTTAT
1 ATAACTTAT
*
57704113 ATAACTTAG
1 ATAACTTAT
*
57704122 ATAA-ATAT
1 ATAACTTAT
57704130 ATAACTTAT
1 ATAACTTAT
*
57704139 ATAACTTAC
1 ATAACTTAT
*
57704148 ATAACTCAT
1 ATAACTTAT
* *
57704157 ATAACATAC
1 ATAACTTAT
*
57704166 ATAACTTAC
1 ATAACTTAT
57704175 ATAACTTAT
1 ATAACTTAT
*
57704184 ATAACTTAC
1 ATAACTTAT
57704193 ATAACTTAT
1 ATAACTTAT
*
57704202 ATAACTTAC
1 ATAACTTAT
57704211 ATAACTTAT
1 ATAACTTAT
57704220 AT
1 AT
57704222 GTTGTCAACT
Statistics
Matches: 112, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
8 6 0.05
9 106 0.95
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:57710002 original size:31 final size:31
Alignment explanation
Indices: 57709956--57710022 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57709946 TTGTTGTATT
* *
57709956 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
57709987 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
57710018 TTTTA
1 TTTTA
57710023 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:57710209 original size:43 final size:43
Alignment explanation
Indices: 57710099--57710216 Score: 218
Period size: 43 Copynumber: 2.7 Consensus size: 43
57710089 AAAAAAGCGT
*
57710099 CGCTAAAAGCCTTGACCTTTAGCGACGCTTTTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
57710142 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
*
57710185 CGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
57710217 TTCCAATAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (43 bp):
CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:57718888 original size:14 final size:15
Alignment explanation
Indices: 57718864--57718892 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57718854 GGCCTACCCA
57718864 TATTAATTTTTATAT
1 TATTAATTTTTATAT
57718879 TATT-ATTTTTATAT
1 TATTAATTTTTATAT
57718893 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTAATTTTTATAT
Found at i:57720249 original size:46 final size:47
Alignment explanation
Indices: 57720185--57720275 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 47
57720175 ATGTGCTTCT
* *
57720185 GTGTAAGACTATATCTAAGATATGGCATCAGTGTA-ATATGTGATCC
1 GTGTAAGACCATAGCTAAGATATGGCATCAGTGTAGATATGTGATCC
* * *
57720231 GTGTAAGACCATGGCTAAGATATGGCTTCGGTGTATGATATGTGA
1 GTGTAAGACCATAGCTAAGATATGGCATCAGTGTA-GATATGTGA
57720276 CTATGTGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 30 0.79
48 8 0.21
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (47 bp):
GTGTAAGACCATAGCTAAGATATGGCATCAGTGTAGATATGTGATCC
Found at i:57721985 original size:9 final size:10
Alignment explanation
Indices: 57721971--57722011 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
57721961 TTTCTTCACC
57721971 AAATATACA-
1 AAATATACAT
57721980 AAATAT-CAT
1 AAATATACAT
*
57721989 AAATATTCAT
1 AAATATACAT
57721999 AAATATACTAT
1 AAATATAC-AT
57722010 AA
1 AA
57722012 TACTAACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 2 0.07
9 12 0.43
10 10 0.36
11 4 0.14
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATATACAT
Found at i:57730398 original size:5 final size:5
Alignment explanation
Indices: 57730370--57730411 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
57730360 TAGGAATATA
* *
57730370 TTATT TTGTT TTATT ATT-TA TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT -TTATT TTATT TTATT TTATT TTATT TT
57730412 TATTAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:57730400 original size:25 final size:24
Alignment explanation
Indices: 57730370--57730421 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
57730360 TAGGAATATA
* *
57730370 TTATTTTGTTTTATTATTTATTATT
1 TTATTTTATTTTATT-TTTATTAAT
57730395 TTATTTTATTTTATTTTTATTAAT
1 TTATTTTATTTTATTTTTATTAAT
57730419 TTA
1 TTA
57730422 GGTTAGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
TTATTTTATTTTATTTTTATTAAT
Found at i:57732507 original size:18 final size:16
Alignment explanation
Indices: 57732456--57732507 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 16
57732446 CTATGCTTTG
57732456 TTATATATTTATATA-
1 TTATATATTTATATAC
57732471 TTATAATATGTATATATAC
1 TTAT-ATAT-T-TATATAC
57732490 TTGATATATTGTATATAC
1 TT-ATATATT-TATATAC
57732508 CTCGGTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 1 0.03
18 14 0.45
19 6 0.19
20 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (16 bp):
TTATATATTTATATAC
Found at i:57732664 original size:17 final size:16
Alignment explanation
Indices: 57732642--57732679 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
57732632 TTTATGTTGT
*
57732642 ATTATTATATTTTAATA
1 ATTATTATATTAT-ATA
57732659 ATTATTATATTATATA
1 ATTATTATATTATATA
57732675 ATTAT
1 ATTAT
57732680 ATACATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTATATTATATA
Found at i:57744048 original size:15 final size:16
Alignment explanation
Indices: 57744017--57744052 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
57744007 TGAAAACCCG
57744017 AAAATGGCATCTAAAA
1 AAAATGGCATCTAAAA
57744033 AAAATGGCATCTAAAA
1 AAAATGGCATCTAAAA
57744049 AAAA
1 AAAA
57744053 AGGGATCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAATGGCATCTAAAA
Found at i:57745002 original size:56 final size:56
Alignment explanation
Indices: 57744897--57745009 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
57744887 TTCCAAGGAA
**
57744897 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
** *
57744953 AATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 AATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
57745009 A
1 A
57745010 GTTTATGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 50 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (56 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
Found at i:57745177 original size:71 final size:72
Alignment explanation
Indices: 57744953--57745560 Score: 749
Period size: 71 Copynumber: 8.4 Consensus size: 72
57744943 AGGTATTTTT
* * * * * * * *
57744953 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
57745018 TTT---A
66 TTTCAAA
** ** *
57745022 AATTGACTCATATTGCGAGAAATGAGTTGAGCCTCAGG--ACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
57745085 TTTTC-AA
65 TTTTCAAA
*
57745092 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
57745156 TTTTC-AA
65 TTTTCAAA
* **
57745163 AATCAAATCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
57745228 TTTC-AA
66 TTTCAAA
* ** *
57745234 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
57745299 TTTCAAAA
66 TTTC-AAA
* *
57745307 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCTGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-AA---T-TT
*
57745372 CAATTTATGTTTTCAAAA
56 CAATTTCTGTTTTC-AAA
57745390 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
57745454 TTTTCAAA
65 TTTTCAAA
57745462 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTAC--
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-CTG
57745524 -TTTCAAA
65 TTTTCAAA
*
57745531 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
57745561 ACCTTTTAAT
Statistics
Matches: 487, Mismatches: 31, Indels: 42
0.87 0.06 0.08
Matches are distributed among these distances:
67 19 0.04
68 4 0.01
69 70 0.14
70 34 0.07
71 136 0.28
72 82 0.17
73 70 0.14
76 2 0.00
77 1 0.00
78 1 0.00
79 1 0.00
82 12 0.02
83 55 0.11
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (72 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TTTCAAA
Found at i:57745452 original size:83 final size:82
Alignment explanation
Indices: 57745287--57745529 Score: 332
Period size: 83 Copynumber: 3.1 Consensus size: 82
57745277 TTGAGGTATT
*
57745287 TTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTCAATTT-TGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCT
*
57745352 GAGGTATTTTCAA-TTCTG
64 GAGGTAATTTCAATTTCTG
57745370 TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTG
1 TTCAATTT-TGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTG
57745435 AGGTAATTTCAATTTCTG
65 AGGTAATTTCAATTTCTG
57745453 --------T-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 TTCAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTG
57745508 AGGT-ATTTCAATTTACT-
65 AGGTAATTTCAATTT-CTG
57745525 TTCAA
1 TTCAA
57745530 AAATCAACTC
Statistics
Matches: 149, Mismatches: 3, Indels: 22
0.86 0.02 0.13
Matches are distributed among these distances:
72 49 0.33
73 20 0.13
74 1 0.01
82 20 0.13
83 59 0.40
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (82 bp):
TTCAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGA
GGTAATTTCAATTTCTG
Found at i:57745515 original size:155 final size:153
Alignment explanation
Indices: 57745216--57745520 Score: 506
Period size: 155 Copynumber: 2.0 Consensus size: 153
57745206 CTGAGGTAAT
* *
57745216 TTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGA
1 TTCAATTTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGA
*
57745281 GGTATTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66 GGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
57745346 CACGTTGAGGTATTTTCAATTCTG
131 CACGCTGAGGTA-TTTCAATTCTG
*
57745370 TTCAATTTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCT
1 TTCAATTTATGTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACT
57745434 GAGGTAATTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
64 GAGGTAATTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
57745498 GGACACGCTGAGGTATTTCAATT
128 AGACACGCTGAGGTATTTCAATT
57745521 TACTTTCAAA
Statistics
Matches: 142, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
154 23 0.16
155 77 0.54
156 42 0.30
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (153 bp):
TTCAATTTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGA
GGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGCTGAGGTATTTCAATTCTG
Found at i:57745728 original size:50 final size:50
Alignment explanation
Indices: 57745663--57745760 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
57745653 TGTTTTAATT
* * * *
57745663 TCAACTCATATTGCGA-GAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGAG
1 TCAACTCATACTGCGAGGA-ATGAGTTGA-ACTCAGGATCACATGCCGAGAG
*
57745713 TCAATTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAG
1 TCAACTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAG
57745761 TAAGAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.07
50 36 0.88
51 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TCAACTCATACTGCGAGGAATGAGTTGAACTCAGGATCACATGCCGAGAG
Found at i:57746898 original size:8 final size:8
Alignment explanation
Indices: 57746850--57746901 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
57746840 ATTAATATAT
57746850 ATAAAAAA
1 ATAAAAAA
57746858 ATACAAAAA
1 ATA-AAAAA
* *
57746867 AGTATAAAC
1 A-TAAAAAA
57746876 ATAAAAAA
1 ATAAAAAA
*
57746884 TAGAAAAAA
1 -ATAAAAAA
57746893 ATAAAAAA
1 ATAAAAAA
57746901 A
1 A
57746902 AATATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 16 0.46
9 17 0.49
10 2 0.06
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (8 bp):
ATAAAAAA
Found at i:57747020 original size:18 final size:18
Alignment explanation
Indices: 57746976--57747013 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57746966 CCGGATTCCC
57746976 CTCTC-TTCTCTCTCCCTT
1 CTCTCTTTC-CTCTCCCTT
*
57746994 CTCTCTTTCCTCTCTCTT
1 CTCTCTTTCCTCTCCCTT
57747012 CT
1 CT
57747014 TTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (18 bp):
CTCTCTTTCCTCTCCCTT
Found at i:57747696 original size:8 final size:8
Alignment explanation
Indices: 57747683--57747734 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
57747673 CTATGCTTTG
57747683 TTATATAT
1 TTATATAT
57747691 TTATATAT
1 TTATATAT
57747699 TTATAATACGT
1 TTAT-ATA--T
*
57747710 ATATATACT
1 TTATATA-T
57747719 TTATATAT
1 TTATATAT
*
57747727 TTGTATAT
1 TTATATAT
57747735 ACCTCGGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 20 0.54
9 10 0.27
10 3 0.08
11 4 0.11
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (8 bp):
TTATATAT
Found at i:57752572 original size:4 final size:4
Alignment explanation
Indices: 57752563--57752596 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
57752553 TTGCTTGTGC
57752563 ATAA ATAA ATAA ATAA ATAA ATAAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA A
57752597 GGTTCAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:57752580 original size:12 final size:13
Alignment explanation
Indices: 57752563--57752596 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
57752553 TTGCTTGTGC
57752563 ATAAATAAAT-AA
1 ATAAATAAATAAA
57752575 ATAAATAAATAAA
1 ATAAATAAATAAA
57752588 ATAAATAAA
1 ATAAATAAA
57752597 GGTTCAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAA
Found at i:57756661 original size:207 final size:203
Alignment explanation
Indices: 57756270--57756663 Score: 650
Period size: 207 Copynumber: 1.9 Consensus size: 203
57756260 ACTTTGGCGC
*
57756270 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTGTATACCACAAAAGGCT
1 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCT
57756335 CTGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
66 CTG-ATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
*
57756400 GAATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAATAG
130 GAATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAG
57756465 ACTTTGTCA
195 ACTTTGTCA
57756474 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAAAGAATAG-AAGTTTTGTTTGTATACCACAAAAG
1 AAGTGCTGTATGCTTTTCTTAAAAAGAG--AAAGAA-AGAAAGTTTTGTTTGTATACCACAAAAG
*
57756538 GCTC-G-TCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCTCACCCTTTTGATCCTTC
63 GCTCTGATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCC-TTTGATCCTTC
* *
57756601 CGGGAAGCATCAGAATCTGGTGATACACTTCTTGCATTGCTAGGATCAGCGTTCGGTATTTGT
127 CGGG-A--ATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGT
57756664 TCGATAGATT
Statistics
Matches: 178, Mismatches: 5, Indels: 11
0.92 0.03 0.06
Matches are distributed among these distances:
203 45 0.25
204 43 0.24
205 2 0.01
206 35 0.20
207 53 0.30
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (203 bp):
AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCT
CTGATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGGG
AATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAGA
CTTTGTCA
Found at i:57765862 original size:2 final size:2
Alignment explanation
Indices: 57765855--57765903 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
57765845 CATAAAATTA
57765855 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
57765897 AG AG AG A
1 AG AG AG A
57765904 ATTACCGGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57769478 original size:409 final size:409
Alignment explanation
Indices: 57768718--57769703 Score: 1535
Period size: 409 Copynumber: 2.4 Consensus size: 409
57768708 AGTGTGAGGA
*
57768718 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACAATATTAAAAAG-T
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
* * *
57768782 TCATTGACATATATTACAAAGGATAGTCATCCTTC-CCCTAGTTGAAGAATGTAATTATAATAGT
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCC-GGTTGAAGAACGTAATTATAATAGT
*
57768846 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATATTCATACATCCTCCGGG
130 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGG
** * *
57768911 TTATGAATGTAAGTTGTATAAGGAATTACATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGG
195 TTACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGG
* * *
57768976 ACTTTCTTGTTCCGGGTGTTTGCTTGTTATAAAATCGAGTATTAAAAATAACTTTACAATATTAC
260 ACTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTAC
* * *
57769041 CAACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCGTTTATGTG
325 CAACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATG
57769106 TTATTAAAATAAAACAGAAC
390 TTATTAAAATAAAACAGAAC
57769126 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
* * *
57769191 TCGTTGACGTATATTACAAAGGATAGTCATCGTTCTTCCGGTTGAAGAACGTAATTATAATAGTA
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGTA
* ** * * *
57769256 AATCAAATACATAATTTAGTTGGGTGAAGTATGTATTAACAGATATACTCATACGTCCTCCGGGT
131 AATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
* * * * *
57769321 TACAAATGTAAATTGTATAAGGACTTAAATGCAAAACTGTGTAAACGTTGAAGGCGAATTTTGGA
196 TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGGA
* *
57769386 CTTTCTTGTTCTAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACGATATTACC
261 CTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTACC
* *
57769451 AACTTTCATTGACTATATAATCCACGAGTTTGCCTTAAATATTAATGTCGATATCATTCATATGT
326 AACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATGT
*
57769516 TATTAAAATAAAATAGAAC
391 TATTAAAATAAAACAGAAC
* * *
57769535 TGAACATTCCATATGACTTGTTATAAATCCGAGTATTAATAACAACTCTACGATAGTAAAAAAGT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATA-TTAAAAAGT
* ** * * *
57769600 TTCATTGATGTATATTACAAATAATAATCATCCTTCTCCCGATTGAAGAACGTAATTATAATTGT
65 TTCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGT
* *
57769665 AAATCAAATGCATAATTTAGCCGAATGATGTATGTATTA
130 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTA
57769704 GCCGGATGAA
Statistics
Matches: 523, Mismatches: 52, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
408 62 0.12
409 362 0.69
410 99 0.19
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (409 bp):
TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTACGATATTAAAAAGTT
TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGTA
AATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGGA
CTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTACC
AACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATGT
TATTAAAATAAAACAGAAC
Found at i:57779361 original size:16 final size:16
Alignment explanation
Indices: 57779331--57779369 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
57779321 AGTTGAATCC
57779331 TAAAAGTTATAAGAAT
1 TAAAAGTTATAAGAAT
57779347 TAAATAGTTAT-AGAAT
1 TAAA-AGTTATAAGAAT
57779363 TAAAAGT
1 TAAAAGT
57779370 GAGAAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATAAGAAT
Found at i:57780494 original size:33 final size:33
Alignment explanation
Indices: 57780457--57780550 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
57780447 TGGTACAATT
** * * *
57780457 TGAAAAGGTTAGGTATATTTTGTGTATACCATA
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
*
57780490 TGAAAAGGAAAGGTACACTTTGTGTATACCACG
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
*
57780523 TGAAAAGGAAAAGTACACTATATGTGTA
1 TGAAAAGGAAAGGTACACT-T-TGTGTA
57780551 CATTTGAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 45 0.87
34 1 0.02
35 6 0.12
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTACACTTTGTGTATACCACA
Found at i:57780601 original size:33 final size:33
Alignment explanation
Indices: 57780564--57780659 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
57780554 TTGAAATGGT
*
57780564 TATGTGCACTTTGTGTGTACAAATTGAAAAAGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* * * *
57780597 TATGTACACTTCGTGTGTACCACTTGAAAATGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* * *
57780630 AATGTGCACCTCGGGTGTAC-AATTAGAAAA
1 TATGTGCACTTCGTGTGTACAAATT-GAAAA
57780660 TGAAAGGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 3 0.06
33 49 0.94
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (33 bp):
TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
Found at i:57781961 original size:15 final size:15
Alignment explanation
Indices: 57781941--57781975 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
57781931 CTATCGAGCC
57781941 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
57781956 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
*
57781971 TTTAC
1 ATTAC
57781976 ATGTGTATGT
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:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (15 bp):
ATTACCCTTGGAGTA
Found at i:57786966 original size:5 final size:5
Alignment explanation
Indices: 57786956--57787027 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
57786946 TAAGTAAATA
57786956 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
57787006 TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TA
57787028 AAGAATACAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:57787071 original size:11 final size:10
Alignment explanation
Indices: 57787049--57787109 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
57787039 AAAATAAATA
57787049 AAAGAAAAAG
1 AAAGAAAAAG
57787059 AAAGAACAAAG
1 AAAGAA-AAAG
*
57787070 AAACGAAACAG
1 AAA-GAAAAAG
*
57787081 AAAGGAAGAAG
1 AAA-GAAAAAG
*
57787092 -AA-AAAGAG
1 AAAGAAAAAG
57787100 AAAGAAAAAG
1 AAAGAAAAAG
57787110 GAGAAAGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 13 0.32
11 18 0.45
12 3 0.08
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:57789190 original size:18 final size:18
Alignment explanation
Indices: 57789169--57789265 Score: 104
Period size: 18 Copynumber: 5.4 Consensus size: 18
57789159 TGATCAATTG
*
57789169 TTCAGTAACAGTCGGTTA
1 TTCAGTAACAGTCAGTTA
*
57789187 TTCAGTAACAGTCAATTA
1 TTCAGTAACAGTCAGTTA
* * *
57789205 TTCAATAATAATCAGTTA
1 TTCAGTAACAGTCAGTTA
* *
57789223 TTCAGTAACAGTTAATTA
1 TTCAGTAACAGTCAGTTA
* *
57789241 TTCAGTAGCATTCAGTTA
1 TTCAGTAACAGTCAGTTA
*
57789259 TTTAGTA
1 TTCAGTA
57789266 CCTTTATTTA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (18 bp):
TTCAGTAACAGTCAGTTA
Found at i:57789190 original size:36 final size:36
Alignment explanation
Indices: 57789162--57789265 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 36
57789152 TCAGTAATGA
* * * *
57789162 TCAATTGTTCAGTAACAGTCGGTTATTCAGTAACAG
1 TCAATTATTCAATAACAATCAGTTATTCAGTAACAG
*
57789198 TCAATTATTCAATAATAATCAGTTATTCAGTAACAG
1 TCAATTATTCAATAACAATCAGTTATTCAGTAACAG
* * * * *
57789234 TTAATTATTCAGTAGCATTCAGTTATTTAGTA
1 TCAATTATTCAATAACAATCAGTTATTCAGTA
57789266 CCTTTATTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (36 bp):
TCAATTATTCAATAACAATCAGTTATTCAGTAACAG
Found at i:57789440 original size:45 final size:45
Alignment explanation
Indices: 57789390--57789490 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
57789380 GTAACGGTAG
* *
57789390 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGCAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGTTGAATCGGCAA
* ** *
57789435 CAGTAACGGTAACAATATTTGACACACAAAGTGTTGAATCGGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGTTGAATCGGCAA
57789480 CAGTAACAGTA
1 CAGTAACAGTA
57789491 GTCGGCACAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCAACACACAAAGTGTTGAATCGGCAA
Found at i:57790686 original size:21 final size:21
Alignment explanation
Indices: 57790662--57790741 Score: 61
Period size: 24 Copynumber: 3.5 Consensus size: 21
57790652 TAAATTTTCC
*
57790662 CTTTTCTTCTTTCCTTTCTTT
1 CTTTTCTTCTTTCATTTCTTT
* *
57790683 CTTTTTTTCCTTCATTCTCTGTTT
1 CTTTTCTTCTTTCATT-TC--TTT
* *
57790707 CGTTTCTTCTATTCTGTTTCTTT
1 CTTTTCTTCT-TTC-ATTTCTTT
57790730 CTTCTTCTTCTT
1 CTT-TTCTTCTT
57790742 CTTTTTAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 13 0.29
22 2 0.04
23 6 0.13
24 17 0.38
25 5 0.11
26 2 0.04
ACGTcount: A:0.03, C:0.26, G:0.04, T:0.68
Consensus pattern (21 bp):
CTTTTCTTCTTTCATTTCTTT
Found at i:57798441 original size:20 final size:20
Alignment explanation
Indices: 57798401--57798437 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
57798391 TTTCAAATAT
57798401 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
57798421 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
57798438 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:57804685 original size:20 final size:20
Alignment explanation
Indices: 57804660--57804698 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57804650 GTTAAATTTA
* *
57804660 GTTTAAAGTGGGAATTGAAG
1 GTTTAAAATGAGAATTGAAG
57804680 GTTTAAAATGAGAATTGAA
1 GTTTAAAATGAGAATTGAA
57804699 TGAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (20 bp):
GTTTAAAATGAGAATTGAAG
Found at i:57820107 original size:16 final size:17
Alignment explanation
Indices: 57820076--57820108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57820066 TTCATAAGTA
57820076 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
57820093 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
57820109 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:57820454 original size:46 final size:46
Alignment explanation
Indices: 57820389--57820658 Score: 346
Period size: 46 Copynumber: 5.9 Consensus size: 46
57820379 TTATCTTTGA
* * * * ** *
57820389 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *** * **
57820435 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTTTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
57820480 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
57820526 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* *
57820572 CATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
57820618 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
57820659 CATTTCAGAA
Statistics
Matches: 195, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
45 42 0.22
46 150 0.77
47 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:57822793 original size:60 final size:61
Alignment explanation
Indices: 57822705--57822826 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 61
57822695 ATTGTAAAGA
57822705 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
1 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
57822766 AAGAAAAC-TTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
1 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
57822826 A
1 A
57822827 TGATTCTTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 53 0.87
61 8 0.13
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (61 bp):
AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
Found at i:57826448 original size:17 final size:17
Alignment explanation
Indices: 57826426--57826459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57826416 ACTAATCACT
*
57826426 TAAAAGAGAATAAATAA
1 TAAAAGACAATAAATAA
*
57826443 TAAAAGACACTAAATAA
1 TAAAAGACAATAAATAA
57826460 AAATTTCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (17 bp):
TAAAAGACAATAAATAA
Found at i:57831248 original size:15 final size:17
Alignment explanation
Indices: 57831227--57831267 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
57831217 TAATTCTTTA
57831227 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
57831243 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
57831259 AAAATTATA
1 AAAATTATA
57831268 TTTTTACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:57834163 original size:12 final size:12
Alignment explanation
Indices: 57834146--57834170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57834136 TGGTGAATTT
57834146 GGTGAATTAAAA
1 GGTGAATTAAAA
57834158 GGTGAATTAAAA
1 GGTGAATTAAAA
57834170 G
1 G
57834171 AATTTATTAG
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:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GGTGAATTAAAA
Found at i:57835417 original size:36 final size:35
Alignment explanation
Indices: 57835377--57835489 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
57835367 ACCATGGTTG
* *
57835377 ATCCATAGAAAATTTTTGAAACGTAGGTATGGTATC
1 ATCCATA-AAAAGTTGTGAAACGTAGGTATGGTATC
*** *
57835413 ATCCATACTGAGTTGTGAAACGTAGGTATGGTATT
1 ATCCATAAAAAGTTGTGAAACGTAGGTATGGTATC
* *** * *
57835448 AACCATACTGAGTTGTGAAACGTAAGTATGGTATT
1 ATCCATAAAAAGTTGTGAAACGTAGGTATGGTATC
57835483 ATCCATA
1 ATCCATA
57835490 CTGAGTTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 61 0.90
36 7 0.10
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (35 bp):
ATCCATAAAAAGTTGTGAAACGTAGGTATGGTATC
Done.