Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 216 of 216
Found at i:67401202 original size:18 final size:18
Alignment explanation
Indices: 67401179--67401216 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
67401169 AAATAAATAA
67401179 TTTAATCTTTTATTAATT
1 TTTAATCTTTTATTAATT
*
67401197 TTTAATTTTTTATTAATT
1 TTTAATCTTTTATTAATT
67401215 TT
1 TT
67401217 GAACCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATCTTTTATTAATT
Found at i:67406501 original size:23 final size:23
Alignment explanation
Indices: 67406451--67406506 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
67406441 ATCGGAATAG
*
67406451 AGTTAACATTTATTGTTTAAAAA
1 AGTTAACATTTATTATTTAAAAA
67406474 A-TTAACATTTATTATTTAAAAA
1 AGTTAACATTTATTATTTAAAAA
*
67406496 AGTTAATATTT
1 AGTTAACATTT
67406507 TTAAAGTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (23 bp):
AGTTAACATTTATTATTTAAAAA
Found at i:67410015 original size:15 final size:16
Alignment explanation
Indices: 67409982--67410032 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
67409972 TGATACCTGC
67409982 CATCACAACATACATA
1 CATCACAACATACATA
67409998 CATCA-AACATCACA-A
1 CATCACAACAT-ACATA
*
67410013 CAT-ACATACATACATG
1 CATCACA-ACATACATA
67410029 CATC
1 CATC
67410033 CATCAAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.03
15 13 0.45
16 15 0.52
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (16 bp):
CATCACAACATACATA
Found at i:67411349 original size:3 final size:3
Alignment explanation
Indices: 67411341--67411391 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
67411331 GTTGTTCGCT
67411341 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67411388 TTA T
1 TTA T
67411392 AATTGAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67411673 original size:6 final size:6
Alignment explanation
Indices: 67411662--67411691 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
67411652 CAAAGTGAAA
67411662 ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG
1 ATAAAG ATAAAG ATAAAG ATAAAG ATAAAG
67411692 CTGTTAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
ATAAAG
Found at i:67414044 original size:6 final size:6
Alignment explanation
Indices: 67414010--67414043 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
67414000 CAATTATCAA
*
67414010 AATACT AATACT AATACT AATACT AATAAT AATA
1 AATACT AATACT AATACT AATACT AATACT AATA
67414044 AAAGAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (6 bp):
AATACT
Found at i:67422804 original size:60 final size:60
Alignment explanation
Indices: 67422711--67422830 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
67422701 TGTCATTCGT
67422711 CCCGAGTTTTCCTGTTACTTTTGGATTCATCCCTGATTTCCCAGATTTTCTCGAGAATGA
1 CCCGAGTTTTCCTGTTACTTTTGGATTCATCCCTGATTTCCCAGATTTTCTCGAGAATGA
67422771 CCCGAGTTTTCCTGTTACTTTTGGATTCATCCCTGATTTCCCAGATTTTCTCGAGAATGA
1 CCCGAGTTTTCCTGTTACTTTTGGATTCATCCCTGATTTCCCAGATTTTCTCGAGAATGA
67422831 GCAGAAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (60 bp):
CCCGAGTTTTCCTGTTACTTTTGGATTCATCCCTGATTTCCCAGATTTTCTCGAGAATGA
Found at i:67422811 original size:29 final size:29
Alignment explanation
Indices: 67422718--67422811 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
67422708 CGTCCCGAGT
67422718 TTTCCTGTTACTTTTGGATTCATCCCTGA
1 TTTCCTGTTACTTTTGGATTCATCCCTGA
* * * *
67422747 TTTCCCAGATT--TTCTCGAGAATGA-CCC-GA
1 TTT-CCTG-TTACTT-TTG-GATTCATCCCTGA
67422776 GTTTTCCTGTTACTTTTGGATTCATCCCTGA
1 --TTTCCTGTTACTTTTGGATTCATCCCTGA
67422807 TTTCC
1 TTTCC
67422812 CAGATTTTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 20
0.63 0.11 0.27
Matches are distributed among these distances:
29 18 0.38
30 16 0.34
31 13 0.28
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.44
Consensus pattern (29 bp):
TTTCCTGTTACTTTTGGATTCATCCCTGA
Found at i:67423743 original size:16 final size:15
Alignment explanation
Indices: 67423720--67423777 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
67423710 AAAGAGAATA
67423720 TATTTTCTTTCTTTC
1 TATTTTCTTTCTTTC
* *
67423735 TATTTTTCTAGTCATTC
1 TA-TTTTCT-TTCTTTC
* *
67423752 GATTTTCTATCTTTC
1 TATTTTCTTTCTTTC
67423767 TAATTTTCTTT
1 T-ATTTTCTTT
67423778 AATGTAAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 7 0.21
16 20 0.61
17 6 0.18
ACGTcount: A:0.14, C:0.17, G:0.03, T:0.66
Consensus pattern (15 bp):
TATTTTCTTTCTTTC
Found at i:67435440 original size:2 final size:2
Alignment explanation
Indices: 67435433--67435484 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
67435423 TCTTAATTTA
67435433 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
67435475 CT CT CT CT CT
1 CT CT CT CT CT
67435485 AGATATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:67439274 original size:50 final size:50
Alignment explanation
Indices: 67439150--67439388 Score: 264
Period size: 50 Copynumber: 4.6 Consensus size: 50
67439140 GATAATAACA
* * ** * *
67439150 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
67439201 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
67439251 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
67439301 TGCCCATGCCATGTCCCAGACATAGTCTTACAGGGGACCTTTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC--TC-TCATC-T-CGG
67439356 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
67439389 TAGGATCCCT
Statistics
Matches: 159, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 87 0.55
51 33 0.21
52 2 0.01
53 3 0.02
54 1 0.01
55 2 0.01
56 30 0.19
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:67439329 original size:100 final size:106
Alignment explanation
Indices: 67439149--67439396 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 106
67439139 TGATAATAAC
**
67439149 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
* * *
67439214 TCCCAGACATGGTCTTATAGGGGACC-TC-TCATC-T-CGG
66 TCCCAGACATAGTCTTACAGGGGACCTTCATCATCTTAAGG
* *
67439251 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGAT-GGTGCCCATGCCAT
*
67439313 GTCCCAGACATAGTCTTACAGGGGACCTTTCATGATCTTAAGG
65 GTCCCAGACATAGTCTTACAGGGGACC-TTCATCATCTTAAGG
* *
67439356 ATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCC
67439397 CTTTACCCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 45 0.35
101 36 0.28
102 2 0.02
103 4 0.03
104 1 0.01
105 2 0.02
106 35 0.27
107 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (106 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATAGTCTTACAGGGGACCTTCATCATCTTAAGG
Found at i:67439514 original size:13 final size:13
Alignment explanation
Indices: 67439493--67439524 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
67439483 GCTTGGATCA
*
67439493 TCATCAAATAAAT
1 TCATAAAATAAAT
67439506 TCATAAAATAAAT
1 TCATAAAATAAAT
67439519 TCATAA
1 TCATAA
67439525 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:67451430 original size:94 final size:96
Alignment explanation
Indices: 67451308--67451501 Score: 268
Period size: 94 Copynumber: 2.0 Consensus size: 96
67451298 TAGAGCATGT
* * * *
67451308 ATTAACTCATATATTTTTCAACCGTTTC-ATTGTAGCTATAATTCATTTTTTAACCTTATTCTTA
1 ATTAACTCATATATTTTTCAACCATTTCAATTGCAACTACAATT-ATTTTTTAACCTTATTCTTA
67451372 TTAGTATATGAAGTTGTAGGACTATATGATTC
65 TTAGTATATGAAGTTGTAGGACTATATGATTC
** * * * *
67451404 ATTAACTCATA-A-TTTTCATTCATTTCAATTGCAATTGCAATTGTTTTTTGACCTTATTCTTAT
1 ATTAACTCATATATTTTTCAACCATTTCAATTGCAACTACAATTATTTTTTAACCTTATTCTTAT
67451467 TAGTATATGAAGTTGTAGGACTATATGATTC
66 TAGTATATGAAGTTGTAGGACTATATGATTC
67451498 ATTA
1 ATTA
67451502 GAGAAGGGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 65 0.75
95 11 0.13
96 11 0.13
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (96 bp):
ATTAACTCATATATTTTTCAACCATTTCAATTGCAACTACAATTATTTTTTAACCTTATTCTTAT
TAGTATATGAAGTTGTAGGACTATATGATTC
Found at i:67461537 original size:6 final size:6
Alignment explanation
Indices: 67461513--67461556 Score: 70
Period size: 6 Copynumber: 7.0 Consensus size: 6
67461503 TTCTTGTTTC
67461513 TGGTGAA TGGTGAA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
1 TGGTG-A TGGTG-A TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
67461557 ATAAAAGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.68
7 12 0.32
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (6 bp):
TGGTGA
Found at i:67478734 original size:13 final size:13
Alignment explanation
Indices: 67478716--67478742 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67478706 ATATATAGAT
67478716 GCACATTTAATTG
1 GCACATTTAATTG
67478729 GCACATTTAATTG
1 GCACATTTAATTG
67478742 G
1 G
67478743 TGAAGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GCACATTTAATTG
Found at i:67491067 original size:27 final size:27
Alignment explanation
Indices: 67491036--67491213 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67491026 TAAATTGTAC
67491036 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
67491063 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67491089 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
67491117 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
67491145 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67491172 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
67491199 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67491214 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:67491150 original size:82 final size:81
Alignment explanation
Indices: 67491037--67491192 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67491027 AAATTGTACA
* *
67491037 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
67491101 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
67491118 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
67491183 TGCGAGTTGA
65 TGCGAATTGA
67491193 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:67491204 original size:82 final size:81
Alignment explanation
Indices: 67491033--67491213 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
67491023 GATTAAATTG
* *
67491033 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
67491098 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
67491114 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
67491178 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
67491196 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
67491214 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:67502617 original size:32 final size:32
Alignment explanation
Indices: 67502580--67502671 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
67502570 AAATGGTTAT
*
67502580 TGAATTATTCAAAAGTTTTTATTCAAGTCAAC
1 TGAATTATTCGAAAGTTTTTATTCAAGTCAAC
*
67502612 TGAATTATTCGAAAGTTTTTATTCAAGTCAAT
1 TGAATTATTCGAAAGTTTTTATTCAAGTCAAC
*
67502644 TGAATTATTCGAAAGTTTTTATTTAAGT
1 TGAATTATTCGAAAGTTTTTATTCAAGT
67502672 TTTTTCAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (32 bp):
TGAATTATTCGAAAGTTTTTATTCAAGTCAAC
Found at i:67506814 original size:3 final size:3
Alignment explanation
Indices: 67506806--67506831 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
67506796 AATCATACTT
67506806 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
67506832 TATGCTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67508376 original size:16 final size:16
Alignment explanation
Indices: 67508343--67508376 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67508333 GGAAGTTGTT
* *
67508343 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
67508359 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
67508375 AA
1 AA
67508377 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:67511198 original size:21 final size:21
Alignment explanation
Indices: 67511172--67511212 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67511162 AGACGAGCAA
* *
67511172 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67511193 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67511213 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67513149 original size:16 final size:16
Alignment explanation
Indices: 67513116--67513149 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67513106 GGAGATTGTT
* *
67513116 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
67513132 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
67513148 AA
1 AA
67513150 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:67516281 original size:104 final size:104
Alignment explanation
Indices: 67516097--67516302 Score: 315
Period size: 104 Copynumber: 2.0 Consensus size: 104
67516087 ATTTGTAAGA
* * * *
67516097 AATAGGAGCAAATTCTATTGAAGATACGTTAATTTCATAAAAAAATCATACAATCATTTGATTTA
1 AATAGGAGCAAACTCTATGGAAGATACGTTAATTTCATAAAAAAATCATACAACCATTTGATTCA
*
67516162 ACAATAAATTAATTGCTTGATTTGTAAGAAATATTTAGT
66 ACAATAAATTAATTGCTTGATTAGTAAGAAATATTTAGT
*
67516201 AATAGG-GACAAACTCTATGGAAGATACGTTAATTTCATAAAAAAATCATACGACCATTTGATTC
1 AATAGGAG-CAAACTCTATGGAAGATACGTTAATTTCATAAAAAAATCATACAACCATTTGATTC
* * *
67516265 AATAATAAATTCATTGCTTGATTAGTAAGAAATCTTTA
65 AACAATAAATTAATTGCTTGATTAGTAAGAAATATTTA
67516303 ATCCCTACTA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 1 0.01
104 91 0.99
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (104 bp):
AATAGGAGCAAACTCTATGGAAGATACGTTAATTTCATAAAAAAATCATACAACCATTTGATTCA
ACAATAAATTAATTGCTTGATTAGTAAGAAATATTTAGT
Found at i:67539167 original size:16 final size:18
Alignment explanation
Indices: 67539146--67539183 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
67539136 TAAGGATATA
67539146 ATTTTAT-TATTT-TAAT
1 ATTTTATGTATTTATAAT
67539162 ATTTTATGTATTTATAAT
1 ATTTTATGTATTTATAAT
67539180 ATTT
1 ATTT
67539184 AAATGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATGTATTTATAAT
Found at i:67539877 original size:25 final size:24
Alignment explanation
Indices: 67539794--67539869 Score: 109
Period size: 24 Copynumber: 3.1 Consensus size: 24
67539784 GTGATAAATG
*
67539794 TTTGAATTGAGGAATGTTTGAATA
1 TTTGATTTGAGGAATGTTTGAATA
*
67539818 TTTGATTTGAGGAATGTTT-ATGTTA
1 TTTGATTTGAGGAATGTTTGA--ATA
67539843 TTTGATTTGAGGAATGTTTGAATA
1 TTTGATTTGAGGAATGTTTGAATA
67539867 TTT
1 TTT
67539870 CAGTTTGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.02
24 23 0.50
25 21 0.46
26 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.49
Consensus pattern (24 bp):
TTTGATTTGAGGAATGTTTGAATA
Found at i:67539878 original size:30 final size:25
Alignment explanation
Indices: 67539794--67539861 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
67539784 GTGATAAATG
* *
67539794 TTTGAATTGAGGAATG-TT-TGAATA
1 TTTGATTTGAGGAATGTTTATG-TTA
67539818 TTTGATTTGAGGAATGTTTATGTTA
1 TTTGATTTGAGGAATGTTTATGTTA
67539843 TTTGATTTGAGGAATGTTT
1 TTTGATTTGAGGAATGTTT
67539862 GAATATTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.38
25 23 0.57
26 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (25 bp):
TTTGATTTGAGGAATGTTTATGTTA
Found at i:67543269 original size:16 final size:18
Alignment explanation
Indices: 67543248--67543285 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
67543238 TAAGGATACA
67543248 ATTTTAT-TATTT-TAAT
1 ATTTTATGTATTTATAAT
67543264 ATTTTATGTATTTATAAT
1 ATTTTATGTATTTATAAT
67543282 ATTT
1 ATTT
67543286 AAATGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATGTATTTATAAT
Found at i:67545370 original size:31 final size:31
Alignment explanation
Indices: 67545312--67545370 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
67545302 TTCTAGTGAG
**
67545312 TTAAATCAAAACTTTCGAATAGTTCAATCAC
1 TTAAATCAAAACTTTCGAATAACTCAATCAC
* * *
67545343 TTAAATGAAAATTTTTGAATAACTCAAT
1 TTAAATCAAAACTTTCGAATAACTCAAT
67545371 GGCCATTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (31 bp):
TTAAATCAAAACTTTCGAATAACTCAATCAC
Found at i:67549270 original size:21 final size:21
Alignment explanation
Indices: 67549244--67549289 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
67549234 TCACAAATTC
* *
67549244 AAATTT-TATTATTATTTTATT
1 AAATTTGTATT-TTAATTTATA
67549265 AAATTTGTATTTTAATTTATA
1 AAATTTGTATTTTAATTTATA
67549286 AAAT
1 AAAT
67549290 GTAAAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAATTTGTATTTTAATTTATA
Found at i:67552135 original size:30 final size:29
Alignment explanation
Indices: 67552096--67552152 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
67552086 GCCTTGGGGT
*
67552096 AAAAATGTAATTATGTAAAAGTTTAGAGGC
1 AAAAATGTAATTATGAAAAAG-TTAGAGGC
* *
67552126 AAAATTGTAATTTTGAAAAAGTTAGAG
1 AAAAATGTAATTATGAAAAAGTTAGAG
67552153 TCGAGGGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (29 bp):
AAAAATGTAATTATGAAAAAGTTAGAGGC
Found at i:67552378 original size:13 final size:13
Alignment explanation
Indices: 67552360--67552391 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
67552350 TTTCCAGCAA
67552360 TTATGAATTTATT
1 TTATGAATTTATT
67552373 TTATGAATTTATT
1 TTATGAATTTATT
*
67552386 TGATGA
1 TTATGA
67552392 TGATCCGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:67552599 original size:50 final size:50
Alignment explanation
Indices: 67552486--67552727 Score: 252
Period size: 50 Copynumber: 4.7 Consensus size: 50
67552476 ATTTGGGTAA
* * * * *
67552486 AGAGATCCCATGTAAGACCATGTCTGAGACATAGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
67552542 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
67552592 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * * *
67552642 AGAGGTCCCCTATAAGACCATGTCTAGGACATGGCATGGGCATC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
67552692 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
67552728 TTTGGCATGT
Statistics
Matches: 159, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 87 0.55
51 28 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:67552674 original size:100 final size:101
Alignment explanation
Indices: 67552490--67552734 Score: 305
Period size: 100 Copynumber: 2.4 Consensus size: 101
67552480 GGGTAAAGAG
* * * * *
67552490 ATCCCATGTAAGACCATGTCTGAGACATAGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC----GA-GATGAGAGGTCCCCTAT
* * *
67552555 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
60 AAGACCATGTCTAGGACATGGCATGGGCACC-ATCACGAGAAC
* *
67552596 GTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
*
67552661 ATGTCTAGGACATGGCATGGGCATCATCACGAGAAC
66 ATGTCTAGGACATGGCATGGGCACCATCACGAGAAC
*
67552697 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
67552735 TGTTATTATC
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
99 1 0.01
100 49 0.40
101 38 0.31
105 2 0.02
106 33 0.27
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (101 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
ATGTCTAGGACATGGCATGGGCACCATCACGAGAAC
Found at i:67554182 original size:17 final size:16
Alignment explanation
Indices: 67554149--67554193 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 16
67554139 GACCAGACCG
67554149 AAATATT-TTAAAAAT
1 AAATATTATTAAAAAT
67554164 --ATATT-TTAAAAAT
1 AAATATTATTAAAAAT
67554177 AAATATTATTAAAAAT
1 AAATATTATTAAAAAT
67554193 A
1 A
67554194 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 13 0.48
15 5 0.19
16 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATTATTAAAAAT
Found at i:67554201 original size:27 final size:28
Alignment explanation
Indices: 67554149--67554201 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
67554139 GACCAGACCG
67554149 AAATATTTTAAAAATATATTTTAAAAAT
1 AAATATTTTAAAAATATATTTTAAAAAT
67554177 AAATATTATT-AAAA-ATATTTTAAAA
1 AAATATT-TTAAAAATATATTTTAAAA
67554202 TTGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.46
28 11 0.46
29 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATATTTTAAAAATATATTTTAAAAAT
Found at i:67554210 original size:19 final size:19
Alignment explanation
Indices: 67554186--67554242 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
67554176 TAAATATTAT
67554186 TAAAAATATTTTAAAATTG
1 TAAAAATATTTTAAAATTG
67554205 TAAAAA-ATTATTAAAA-TG
1 TAAAAATATT-TTAAAATTG
67554223 -ATAAAATATTATTTAAAATT
1 TA-AAAATA-T-TTTAAAATT
67554243 TTTAAAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.03
18 9 0.28
19 13 0.41
20 7 0.22
21 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
TAAAAATATTTTAAAATTG
Found at i:67554220 original size:10 final size:10
Alignment explanation
Indices: 67554176--67554283 Score: 53
Period size: 10 Copynumber: 10.8 Consensus size: 10
67554166 ATTTTAAAAA
*
67554176 TAAATATTAT
1 TAAAAATTAT
67554186 TAAAAA-TATT
1 TAAAAATTA-T
* *
67554196 TTAAAATTGT
1 TAAAAATTAT
*
67554206 AAAAAATTAT
1 TAAAAATTAT
*
67554216 T-AAAATGA-
1 TAAAAATTAT
67554224 TAAAATATTAT
1 TAAAA-ATTAT
* *
67554235 TTAAAATTTT
1 TAAAAATTAT
* *
67554245 TAAAAATCAG
1 TAAAAATTAT
**
67554255 TAAAAACCA-
1 TAAAAATTAT
67554264 TAAATAATTAT
1 TAAA-AATTAT
67554275 TAAATAATT
1 TAAA-AATT
67554284 GTAAATAATT
Statistics
Matches: 73, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
8 1 0.01
9 15 0.21
10 43 0.59
11 14 0.19
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:67554565 original size:17 final size:18
Alignment explanation
Indices: 67554540--67554588 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
67554530 TATTTGTATT
67554540 TTTTAATAATTTTT-TCAA-
1 TTTT-ATAATTTTTAT-AAC
67554558 TTTTATAATTTTTATAAC
1 TTTTATAATTTTTATAAC
67554576 TTTTTATAATTTT
1 -TTTTATAATTTT
67554589 AAAATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.39
18 5 0.18
19 12 0.43
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTATAAC
Found at i:67554579 original size:27 final size:27
Alignment explanation
Indices: 67554539--67554602 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
67554529 TTATTTGTAT
*
67554539 TTTTTAATAA-TTTTT-TCAATTTTATAA
1 TTTTT-ATAACTTTTTAT-AATTTTAAAA
67554566 TTTTTATAACTTTTTATAATTTTAAAA
1 TTTTTATAACTTTTTATAATTTTAAAA
67554593 TATTTT-TAAC
1 T-TTTTATAAC
67554603 AACATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.12
27 24 0.73
28 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTTATAACTTTTTATAATTTTAAAA
Found at i:67554581 original size:10 final size:9
Alignment explanation
Indices: 67554525--67554588 Score: 60
Period size: 10 Copynumber: 6.9 Consensus size: 9
67554515 AAAGTTTTAA
67554525 ATAATTATTT
1 ATAATT-TTT
* *
67554535 GTATTTTTT
1 ATAATTTTT
67554544 AATAATTTTT
1 -ATAATTTTT
67554554 -TCAA-TTTT
1 AT-AATTTTT
67554562 ATAATTTTT
1 ATAATTTTT
67554571 ATAACTTTTT
1 ATAA-TTTTT
67554581 ATAATTTT
1 ATAATTTT
67554589 AAAATATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.16
9 18 0.40
10 20 0.44
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:67554598 original size:19 final size:19
Alignment explanation
Indices: 67554558--67554600 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
67554548 ATTTTTTCAA
* *
67554558 TTTTATAATTTTTATAACT
1 TTTTATAATTTTTAAAAAT
67554577 TTTTATAA-TTTTAAAATAT
1 TTTTATAATTTTTAAAA-AT
67554596 TTTTA
1 TTTTA
67554601 ACAACATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTAAAAAT
Found at i:67554655 original size:28 final size:25
Alignment explanation
Indices: 67554612--67554677 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 25
67554602 CAACATTTAA
67554612 TAATAATTTAAAA-TTTAAATATTTT
1 TAATAATTTAAAATTTTAAA-ATTTT
*
67554637 TAATAATTTAAATCTATTTTACAATTTT
1 TAATAATTTAAA---ATTTTAAAATTTT
67554665 T-ATATATTTAAAA
1 TAATA-ATTTAAAA
67554678 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
25 13 0.37
27 3 0.09
28 14 0.40
29 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATAATTTAAAATTTTAAAATTTT
Found at i:67554662 original size:18 final size:17
Alignment explanation
Indices: 67554618--67554677 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
67554608 TTAATAATAA
67554618 TTTAAAATTTAAATATT
1 TTTAAAATTTAAATATT
*
67554635 TTTAATAATTTAAATCTAT
1 TTTAA-AATTTAAATAT-T
* ** *
67554654 TTTACAATTTTTATATA
1 TTTAAAATTTAAATATT
67554671 TTTAAAA
1 TTTAAAA
67554678 ATATTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
17 11 0.32
18 18 0.53
19 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAATTTAAATATT
Found at i:67558858 original size:27 final size:23
Alignment explanation
Indices: 67558807--67558857 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
67558797 TTGATGTGTG
67558807 TAAATTATATTAAAGAGAACAAA
1 TAAATTATATTAAAGAGAACAAA
67558830 TAAATTATATTAAAGAGAACAAA
1 TAAATTATATTAAAGAGAACAAA
*
67558853 CAAAT
1 TAAAT
67558858 ATTAAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (23 bp):
TAAATTATATTAAAGAGAACAAA
Found at i:67569229 original size:4 final size:4
Alignment explanation
Indices: 67569220--67569269 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
67569210 TTTCAAATGC
67569220 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
67569268 TA
1 TA
67569270 ATAGAAAGCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:67570477 original size:6 final size:6
Alignment explanation
Indices: 67570466--67570506 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
67570456 AACGCCGTAT
* *
67570466 CTTTTG CTTTTG CTTTTG CTTTTA CTTTTT CTTTT- CTTTTG
1 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG
67570507 ATAAAGCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.02, C:0.17, G:0.10, T:0.71
Consensus pattern (6 bp):
CTTTTG
Found at i:67580175 original size:5 final size:5
Alignment explanation
Indices: 67580165--67580192 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
67580155 AACGCCTCCA
67580165 TTCTC TTCTC TTCTC TTCTC TTCTC TTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTC
67580193 AAGAAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCTC
Found at i:67582562 original size:14 final size:15
Alignment explanation
Indices: 67582531--67582617 Score: 51
Period size: 14 Copynumber: 6.0 Consensus size: 15
67582521 AAACATAAAA
**
67582531 TAAAAATATAATTGT
1 TAAAAATATAATAAT
67582546 TAAAAA-ATAATAAT
1 TAAAAATATAATAAT
*
67582560 TAAACATA-AATAAATT
1 TAAAAATATAAT-AA-T
* *
67582576 TATTAAGTATAAT--T
1 TA-AAAATATAATAAT
*
67582590 TAATAATA-AATAAT
1 TAAAAATATAATAAT
67582604 T-AAAATATAATAAT
1 TAAAAATATAATAAT
67582618 AGAATTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 25 0.46
15 9 0.17
16 3 0.06
17 3 0.06
18 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (15 bp):
TAAAAATATAATAAT
Found at i:67590587 original size:12 final size:14
Alignment explanation
Indices: 67590558--67590589 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
67590548 AACAAACGAA
67590558 AAAAATTAGAATTT
1 AAAAATTAGAATTT
67590572 AAAAATTA-AA-TT
1 AAAAATTAGAATTT
67590584 AAAAAT
1 AAAAAT
67590590 AAAAATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAAATTAGAATTT
Found at i:67594369 original size:6 final size:6
Alignment explanation
Indices: 67594358--67594385 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
67594348 ATTGAAATGG
67594358 CTCAGC CTCAGC CTCAGC CTCAGC CTCA
1 CTCAGC CTCAGC CTCAGC CTCAGC CTCA
67594386 TTCGGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.14, T:0.18
Consensus pattern (6 bp):
CTCAGC
Found at i:67600600 original size:23 final size:23
Alignment explanation
Indices: 67600570--67600615 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67600560 ATTGAGTAGA
67600570 ATATTCTCTCATGGTATAATTCC
1 ATATTCTCTCATGGTATAATTCC
67600593 ATATTCTCTCATGGTATAATTCC
1 ATATTCTCTCATGGTATAATTCC
67600616 TAAATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (23 bp):
ATATTCTCTCATGGTATAATTCC
Found at i:67604249 original size:19 final size:20
Alignment explanation
Indices: 67604208--67604247 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
67604198 ATGTCTTTTA
67604208 ACAATTTTAATAATGAAAAAAG
1 ACAATTTTAATAATG--AAAAG
67604230 ACAATTTTAATAATGAAA
1 ACAATTTTAATAATGAAA
67604248 GAACTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
22 15 0.83
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
ACAATTTTAATAATGAAAAG
Found at i:67611263 original size:50 final size:50
Alignment explanation
Indices: 67611147--67611340 Score: 271
Period size: 50 Copynumber: 3.9 Consensus size: 50
67611137 TAATAATAAC
* * ** *
67611147 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCG
1 ATGCCAATGCCATGTCCCAGACATGATCTTACATGGGA-CCTCTCATCTCG
* * * **
67611198 GTGCCCATGCCATGTCCCAGACATGATCTTTCGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCG
*
67611248 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCG
*
67611298 ATGCCATTGCCATGTCCCAGACATGATCTTACATGGGACCTCT
1 ATGCCAATGCCATGTCCCAGACATGATCTTACATGGGACCTCT
67611341 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 94 0.75
51 31 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCG
Found at i:67612448 original size:13 final size:13
Alignment explanation
Indices: 67612432--67612458 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67612422 CGAACGAAAT
67612432 TTTTATGAAATCA
1 TTTTATGAAATCA
67612445 TTTTATGAAATCA
1 TTTTATGAAATCA
67612458 T
1 T
67612459 AGACCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTATGAAATCA
Found at i:67614293 original size:11 final size:11
Alignment explanation
Indices: 67614277--67614302 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
67614267 TAGAAGAGTC
67614277 GAAACAGGGGA
1 GAAACAGGGGA
67614288 GAAACAGGGGA
1 GAAACAGGGGA
67614299 GAAA
1 GAAA
67614303 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:67614985 original size:18 final size:18
Alignment explanation
Indices: 67614962--67615004 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
67614952 ATGTGAGGTA
67614962 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
67614980 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
67614998 ATTATTA
1 AGTATTA
67615005 TTATGAGTGG
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:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:67614990 original size:3 final size:3
Alignment explanation
Indices: 67614964--67615008 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
67614954 GTGAGGTAAG
* * * *
67614964 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67615009 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:67615203 original size:24 final size:24
Alignment explanation
Indices: 67615149--67615219 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
67615139 TGTGTGAAGT
*
67615149 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
67615172 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
*
67615197 TGTGAAAATTGTAATTGAATTGA
1 TGTGAAAAATG--ATTGAATTGA
67615220 GAATATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.23
24 15 0.38
25 5 0.13
26 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.34
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:67616847 original size:30 final size:30
Alignment explanation
Indices: 67616813--67616920 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 30
67616803 TGACAATGTA
* *
67616813 GGCCCATTAACAGCGCCCACACAATCACTC
1 GGCCCATCAACAGCACCCACACAATCACTC
* *
67616843 GGCCCATCAACAACCCCCACACAATCACTC
1 GGCCCATCAACAGCACCCACACAATCACTC
* * *
67616873 AGCCAATCAACAGCACCCATACAATCAC-C
1 GGCCCATCAACAGCACCCACACAATCACTC
* *
67616902 AGGCCCAACAATAGCACCC
1 -GGCCCATCAACAGCACCC
67616921 TCAACACAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 1 0.02
30 64 0.98
ACGTcount: A:0.35, C:0.44, G:0.10, T:0.10
Consensus pattern (30 bp):
GGCCCATCAACAGCACCCACACAATCACTC
Found at i:67616983 original size:18 final size:18
Alignment explanation
Indices: 67616956--67616995 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67616946 TAGGTGCGTG
* *
67616956 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
67616974 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
67616992 TCCT
1 TCCT
67616996 TTTTCTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:67617606 original size:116 final size:116
Alignment explanation
Indices: 67617402--67617895 Score: 818
Period size: 116 Copynumber: 4.3 Consensus size: 116
67617392 TTGTATAAAC
* * *
67617402 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAGAATG-TTGTTTTGAATAAAGTAATTA
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATA-AAAGATTGTTTTGAATAAAGTAATTG
67617466 TAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
65 TAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
67617518 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
* *
67617583 AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATCAGGCAAT
66 AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
* * *
67617634 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAAGATTTTTTTAAATAAAGTAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
*
67617699 AATTTACTTTTATATTTTTAATAAAATA-AATATT-TTTTAAATAAGACTAT
66 AATTTACTTTTATATTTTTAATAAAATAGAA-ATTCTTTTAAATAAGACAAT
67617749 -TTTTG-ATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
* * * *
67617812 AATTTAATTTTATATTTTTAATAAAATAGAAATTTTTTTAATTAAGATAAT
66 AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
67617863 ATTTTGAATATTTCTATATTATTTCATGTAATA
1 ATTTTGAATATTTCTATATTATTTCATGTAATA
67617896 GGACCGGTGG
Statistics
Matches: 354, Mismatches: 18, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
113 85 0.24
114 20 0.06
115 23 0.06
116 226 0.64
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (116 bp):
ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGT
AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
Found at i:67617833 original size:229 final size:232
Alignment explanation
Indices: 67617402--67617895 Score: 827
Period size: 229 Copynumber: 2.1 Consensus size: 232
67617392 TTGTATAAAC
* *
67617402 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAGAATGTTGTTTTGAATAAAGTAATTAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAGAAAGTTGTTTTAAATAAAGTAATTAT
67617467 AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAATATTTTGAATATTTC
66 AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAATATTTTGAATATTTC
*
67617532 TATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGTAATTTACTTTTATA
131 TATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGTAATTTAATTTTATA
* *
67617597 TTTTTAATAAAATAGAAATTCTTTTAAATCAGGCAAT
196 TTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
* *
67617634 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATA-AAAGATTTTTTTAAATAAAGTAATTG
1 ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAGAAAG-TTGTTTTAAATAAAGTAATTA
*
67617698 TAATTTACTTTTATATTTTTAATAAAATA-AATATT-TTTTAAATAAGACTAT-TTTTG-ATATT
65 TAATTTACTTTTATATTTTTAATAAAATAGAA-ATTCTTTTAAATAAGACAATATTTTGAATATT
67617759 TCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGTAATTTAATTTTA
129 TCTATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGTAATTTAATTTTA
* * *
67617824 TATTTTTAATAAAATAGAAATTTTTTTAATTAAGATAAT
194 TATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
*
67617863 ATTTTGAATATTTCTATATTATTTCATGTAATA
1 ATTTTGAATATTTTTATATTATTTCATGTAATA
67617896 GGACCGGTGG
Statistics
Matches: 248, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
229 135 0.54
230 5 0.02
231 20 0.08
232 88 0.35
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (232 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATAAAATAGAAAGTTGTTTTAAATAAAGTAATTAT
AATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGACAATATTTTGAATATTTC
TATATTATTTCATGTAATAAAATAAAAGATTGTTTTGAATAAAGTAATTGTAATTTAATTTTATA
TTTTTAATAAAATAGAAATTCTTTTAAATAAGACAAT
Found at i:67620752 original size:31 final size:31
Alignment explanation
Indices: 67620717--67620776 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
67620707 AAAATTAAAT
67620717 TATAATTATAATTGCAATTGTAATTTAAGAC
1 TATAATTATAATTGCAATTGTAATTTAAGAC
67620748 TATAATTATAATTGCAATTGTAATTTAAG
1 TATAATTATAATTGCAATTGTAATTTAAG
67620777 TAATAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (31 bp):
TATAATTATAATTGCAATTGTAATTTAAGAC
Found at i:67624173 original size:3 final size:3
Alignment explanation
Indices: 67624165--67624192 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
67624155 ATGACCTGAC
67624165 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
67624193 CATCATCAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:67625679 original size:24 final size:24
Alignment explanation
Indices: 67625608--67625679 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
67625598 CGGTTATGAC
67625608 TTAAATATGTCTTTAATATAT-TA
1 TTAAATATGTCTTTAATATATATA
* * *
67625631 TAAAAT-TTTATGGTTAATATAATATA
1 TTAAATATGTCT--TTAATAT-ATATA
67625657 TTAAATATGTCTTTAATATATAT
1 TTAAATATGTCTTTAATATATAT
67625680 TTTTTCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 3 0.08
23 5 0.13
24 11 0.29
25 9 0.24
26 7 0.18
27 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (24 bp):
TTAAATATGTCTTTAATATATATA
Found at i:67625680 original size:22 final size:22
Alignment explanation
Indices: 67625608--67625680 Score: 58
Period size: 26 Copynumber: 3.1 Consensus size: 22
67625598 CGGTTATGAC
67625608 TTAAATATGTCTTTAATATATTA
1 TTAAATATGTCTTTAATATA-TA
* * *
67625631 TAAAATTTTATG-GTTAATATAATATA
1 TTAAA---TATGTCTTTA-AT-ATATA
67625657 TTAAATATGTCTTTAATATATA
1 TTAAATATGTCTTTAATATATA
67625679 TT
1 TT
67625681 TTTTCTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
22 7 0.18
23 10 0.26
24 3 0.08
25 3 0.08
26 12 0.32
27 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAATATGTCTTTAATATATA
Found at i:67626703 original size:164 final size:164
Alignment explanation
Indices: 67626432--67626759 Score: 575
Period size: 164 Copynumber: 2.0 Consensus size: 164
67626422 ATTAAATATT
67626432 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
1 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
* *
67626497 ATCAAAATGTAAGTATTCATGCTGTAAGTATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
66 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
*
67626562 AATTGTTCTAATCTAAACGGTCTTAATAATGAAA
131 AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
* * * **
67626596 AAGGTCTTAAGCTGTAATTAGAAGATGTCATTGTTGTAGTTAAGATGTCCTACTGCTGTATCGTG
1 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
67626661 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
66 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
*
67626726 AATTGTTGTAATCTAAACAGTCTTAATAATGAAA
131 AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
67626760 TTGTGGTATC
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (164 bp):
AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
Found at i:67628231 original size:32 final size:32
Alignment explanation
Indices: 67628189--67628278 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 32
67628179 TATTCCAGCA
*
67628189 AGGGATATCCTATTCCAGGGATATCCTGGTTG
1 AGGGATATCCTATTCCAGGGATATCCCGGTTG
* ** * * *
67628221 GGGGATATCCT-TTTGAAGGATACCCCGGTTT
1 AGGGATATCCTATTCCAGGGATATCCCGGTTG
* *
67628252 AGGTATATCCCATTCCAGGGATATCCC
1 AGGGATATCCTATTCCAGGGATATCCC
67628279 CTTGTTTTTA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
31 22 0.51
32 21 0.49
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (32 bp):
AGGGATATCCTATTCCAGGGATATCCCGGTTG
Found at i:67639326 original size:21 final size:20
Alignment explanation
Indices: 67639300--67639357 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
67639290 ATATCCCGTC
*
67639300 CCGGTTCAGTATTTTTGGTAG
1 CCGGTTCAG-ATTTTTAGTAG
* *
67639321 CCGGTTCAGCAGTTTTAGTGG
1 CCGGTTCAG-ATTTTTAGTAG
67639342 CCGGTTCAGATTTTTA
1 CCGGTTCAGATTTTTA
67639358 ACGTGTCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.40
Consensus pattern (20 bp):
CCGGTTCAGATTTTTAGTAG
Done.