Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 48 of 402
Found at i:9307964 original size:19 final size:17
Alignment explanation
Indices: 9307920--9307971 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
9307910 TAAAAAGAAA
*
9307920 AAAAATAAAAAAATTAG
1 AAAAATAAAAAAAATAG
* *
9307937 ATAATTAAAACAAAGATAG
1 AAAAATAAAA-AAA-ATAG
*
9307956 AAAAATAAAATAAATA
1 AAAAATAAAAAAAATA
9307972 ACAACAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 11 0.41
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAAAATAG
Found at i:9312007 original size:25 final size:25
Alignment explanation
Indices: 9311979--9312026 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9311969 TATATGTTAG
9311979 TGATCAAATCGTAAAATTTTAAAAT
1 TGATCAAATCGTAAAATTTTAAAAT
*
9312004 TGATCAAATTGTAAAATTTTAAA
1 TGATCAAATCGTAAAATTTTAAA
9312027 GTTCAGCGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
TGATCAAATCGTAAAATTTTAAAAT
Found at i:9320241 original size:35 final size:36
Alignment explanation
Indices: 9320195--9320267 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
9320185 ATGTTTATAA
* * *
9320195 TAGTGCTAAAGCGGTTGTAAACCTCTGACA-AATAT
1 TAGTGCTAAAGCGATTATAAACCTCTAACAGAATAT
9320230 TAGTGCTAAAGCGATTATAAACCTCTAACAGAATAT
1 TAGTGCTAAAGCGATTATAAACCTCTAACAGAATAT
9320266 TA
1 TA
9320268 AATAAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 27 0.79
36 7 0.21
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (36 bp):
TAGTGCTAAAGCGATTATAAACCTCTAACAGAATAT
Found at i:9327172 original size:15 final size:15
Alignment explanation
Indices: 9327152--9327181 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9327142 ACAATTTGAG
*
9327152 TTCAAAGGTTCGTAA
1 TTCAAAGATTCGTAA
9327167 TTCAAAGATTCGTAA
1 TTCAAAGATTCGTAA
9327182 GAATTTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (15 bp):
TTCAAAGATTCGTAA
Found at i:9327289 original size:18 final size:18
Alignment explanation
Indices: 9327266--9327303 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9327256 ATTTGCAAGA
*
9327266 TTTTAGATTCACAAGATT
1 TTTTAGAGTCACAAGATT
*
9327284 TTTTAGCGTCACAAGATT
1 TTTTAGAGTCACAAGATT
9327302 TT
1 TT
9327304 GATTCTCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTTAGAGTCACAAGATT
Found at i:9327303 original size:16 final size:16
Alignment explanation
Indices: 9327261--9327303 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
9327251 TAAAAATTTG
*
9327261 CAAGATTTTAGATTCA
1 CAAGATTTTAGAGTCA
*
9327277 CAAGATTTTTTAGCGTCA
1 CAAGA--TTTTAGAGTCA
9327295 CAAGATTTT
1 CAAGATTTT
9327304 GATTCTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (16 bp):
CAAGATTTTAGAGTCA
Found at i:9327341 original size:16 final size:16
Alignment explanation
Indices: 9327320--9327350 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9327310 CAAGGTTTTA
*
9327320 AGATTTGTAAGAACTT
1 AGATTTATAAGAACTT
9327336 AGATTTATAAGAACT
1 AGATTTATAAGAACT
9327351 CAAATTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
AGATTTATAAGAACTT
Found at i:9327411 original size:16 final size:16
Alignment explanation
Indices: 9327392--9327444 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
9327382 ATTTGATTAT
9327392 CAAGAACTTAGATTCA
1 CAAGAACTTAGATTCA
*
9327408 CAAGAATTTAGATTCA
1 CAAGAACTTAGATTCA
* *
9327424 TAAGAACTTATATTCA
1 CAAGAACTTAGATTCA
9327440 CAAGA
1 CAAGA
9327445 TTTTTTAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (16 bp):
CAAGAACTTAGATTCA
Found at i:9327457 original size:34 final size:32
Alignment explanation
Indices: 9327327--9327459 Score: 108
Period size: 32 Copynumber: 4.1 Consensus size: 32
9327317 TTAAGATTTG
* * * * *
9327327 TAAGAACTTAGATTTATAAGAACTCAAATTCA
1 TAAGAACTTAGATTCACAAGAATTTAGATTCA
** * *
9327359 TAAGATTTTTTAGGTTCACAACAATTT-GATT-A
1 TAAGA--ACTTAGATTCACAAGAATTTAGATTCA
9327391 TCAAGAACTTAGATTCACAAGAATTTAGATTCA
1 T-AAGAACTTAGATTCACAAGAATTTAGATTCA
* *
9327424 TAAGAACTTATATTCACAAGATTTTTTAGATTCA
1 TAAGAACTTAGATTCACAAGA--ATTTAGATTCA
9327458 TA
1 TA
9327460 TTTGAGATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
31 16 0.20
32 30 0.38
33 9 0.11
34 24 0.30
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (32 bp):
TAAGAACTTAGATTCACAAGAATTTAGATTCA
Found at i:9327604 original size:20 final size:20
Alignment explanation
Indices: 9327567--9327604 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9327557 TTCACACAGA
* *
9327567 AGTTCAAAGCTTCTCATTTG
1 AGTTCAAAGATTCACATTTG
9327587 AGTTCAAAGATTCACATT
1 AGTTCAAAGATTCACATT
9327605 CAATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTTG
Found at i:9327711 original size:20 final size:20
Alignment explanation
Indices: 9327674--9327711 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9327664 CACATCCAAA
* *
9327674 AGTTCAAAGCTTCTCATTTG
1 AGTTCAAAGATTCACATTTG
9327694 AGTTCAAAGATTCACATT
1 AGTTCAAAGATTCACATT
9327712 CGATAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTTG
Found at i:9327819 original size:108 final size:107
Alignment explanation
Indices: 9327566--9327838 Score: 386
Period size: 108 Copynumber: 2.5 Consensus size: 107
9327556 ATTCACACAG
* * *
9327566 AAGTTCAAAGCTTCTCATTTGAGTTCAAAGATTCACATTCAATAAATTTTAGGGTTTCACATCTA
1 AAGTTCAAAGCTTCTCATTTGAGTTCAAAGATTCACATTCGATAGATTTTAGAGTTTCACATCTA
* * * *
9327631 AATTCAAATTTTTTATTTAAAAATTTTAGGGTTCACATCCAA
66 AATTCAAAGTTATTATTCAAAAAATTTAGGGTTCACATCCAA
*
9327673 AAGTTCAAAGCTTCTCATTTGAGTTCAAAGATTCACATTCGATAGATTTTAGAGTTTTACATCTA
1 AAGTTCAAAGCTTCTCATTTGAGTTCAAAGATTCACATTCGATAGATTTTAGAGTTTCACATCTA
*
9327738 AATTCAAAGGTTATTATTCAAAAAATTTGGGGTTCACATCCAA
66 AATTCAAA-GTTATTATTCAAAAAATTTAGGGTTCACATCCAA
* * * * * *
9327781 GAGTTCAAAGCTTCACATTCGAGTTTGAAA-ATTCACATTTGATAGATTTTAAAGTTTC
1 AAGTTCAAAGCTTCTCATTTGAG-TTCAAAGATTCACATTCGATAGATTTTAGAGTTTC
9327839 GAAGGTTCTC
Statistics
Matches: 148, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
107 69 0.47
108 74 0.50
109 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (107 bp):
AAGTTCAAAGCTTCTCATTTGAGTTCAAAGATTCACATTCGATAGATTTTAGAGTTTCACATCTA
AATTCAAAGTTATTATTCAAAAAATTTAGGGTTCACATCCAA
Found at i:9327934 original size:56 final size:56
Alignment explanation
Indices: 9327869--9327985 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
9327859 TTTTATAAAG
*
9327869 ATTCTCATTATTTTTAAGTTTAAAAATGCTCCTTTAAAAAGCTCCACAAATTTAGA
1 ATTCTCATTATTTTTAACTTTAAAAATGCTCCTTTAAAAAGCTCCACAAATTTAGA
* *
9327925 ATTCTCATTATTTTTAACTTTAAAAATGCTCTTTTAGAAAGCTCCACAAATTTAGA
1 ATTCTCATTATTTTTAACTTTAAAAATGCTCCTTTAAAAAGCTCCACAAATTTAGA
9327981 ATTCT
1 ATTCT
9327986 AAATGTTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (56 bp):
ATTCTCATTATTTTTAACTTTAAAAATGCTCCTTTAAAAAGCTCCACAAATTTAGA
Found at i:9328480 original size:79 final size:79
Alignment explanation
Indices: 9328368--9328590 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 79
9328358 CACAAACCAT
* * **
9328368 TTCAGAACAAA-TTCCATCCATTGATGAACATTATTTTCATCATTTGATCATAACTCATAGGCTT
1 TTCAGAAAAAACTT-CATCCACTGATCCACATTATTTTCATCATTTGATCATAACTCATAGGCTT
9328432 CA-CAACACTAGCAAC
65 -ATCAACACTAGCAAC
* ** * * *
9328447 TTCAGAAAAAATTTTGTCCACTGATCCACATTATTTCCATCATTTGATCACAACTCACAGGCTTA
1 TTCAGAAAAAACTTCATCCACTGATCCACATTATTTTCATCATTTGATCATAACTCATAGGCTTA
*
9328512 TCAACACTAGCAAT
66 TCAACACTAGCAAC
* * *
9328526 TTCAGAACAAACTTCATCCGCTGATCTACATTA-TTTCTATCATTTGATCATAACTCATAGG-TT
1 TTCAGAAAAAACTTCATCCACTGATCCACATTATTTTC-ATCATTTGATCATAACTCATAGGCTT
9328589 AT
65 AT
9328591 GTTGACCAAT
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 8 0.07
79 112 0.92
80 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.34
Consensus pattern (79 bp):
TTCAGAAAAAACTTCATCCACTGATCCACATTATTTTCATCATTTGATCATAACTCATAGGCTTA
TCAACACTAGCAAC
Found at i:9329192 original size:8 final size:8
Alignment explanation
Indices: 9329181--9329231 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
9329171 CATTTTCTCT
9329181 TTTTTTTA
1 TTTTTTTA
9329189 TTTTTATTTTA
1 --TTT-TTTTA
9329200 TTTTTTTA
1 TTTTTTTA
9329208 TTTTTTTA
1 TTTTTTTA
**
9329216 TTTTTCAA
1 TTTTTTTA
9329224 TTTTTTTA
1 TTTTTTTA
9329232 CTAGTTTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 25 0.69
9 3 0.08
10 3 0.08
11 5 0.14
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:9329202 original size:27 final size:28
Alignment explanation
Indices: 9329167--9329220 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
9329157 TCAATTTGAG
9329167 TTTTCATTTTCTCT-TTTTTTTATTTTTA
1 TTTTCATTTT-TCTATTTTTTTATTTTTA
*
9329195 TTTT-ATTTTTTTATTTTTTTATTTTT
1 TTTTCATTTTTCTATTTTTTTATTTTT
9329221 CAATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 18 0.75
28 4 0.17
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (28 bp):
TTTTCATTTTTCTATTTTTTTATTTTTA
Found at i:9329206 original size:21 final size:21
Alignment explanation
Indices: 9329180--9329219 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9329170 TCATTTTCTC
*
9329180 TTTTTTT-TATTTTTATTTTA
1 TTTTTTTATTTTTTTATTTTA
9329200 TTTTTTTATTTTTTTATTTT
1 TTTTTTTATTTTTTTATTTT
9329220 TCAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTTTTATTTTTTTATTTTA
Found at i:9334183 original size:21 final size:22
Alignment explanation
Indices: 9334141--9334184 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9334131 CTTTATCAAA
* * *
9334141 TCCTTTCACTTTTCTTGTTTGC
1 TCCTTTCACCTTTCTCGATTGC
9334163 TCCTTTC-CCTTTCTCGATTGC
1 TCCTTTCACCTTTCTCGATTGC
9334184 T
1 T
9334185 TCTCTCTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.05, C:0.32, G:0.09, T:0.55
Consensus pattern (22 bp):
TCCTTTCACCTTTCTCGATTGC
Found at i:9346617 original size:2 final size:2
Alignment explanation
Indices: 9346610--9346638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9346600 CGGATCGGTC
9346610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9346639 ATGTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9360943 original size:16 final size:17
Alignment explanation
Indices: 9360907--9360945 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9360897 AAAGCCATAT
*
9360907 TTTCTTTTTTCTTATTA
1 TTTCTATTTTCTTATTA
9360924 TTTCTATTTTCTTA-TA
1 TTTCTATTTTCTTATTA
9360940 TTTCTA
1 TTTCTA
9360946 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTATTTTCTTATTA
Found at i:9373955 original size:53 final size:52
Alignment explanation
Indices: 9373852--9373991 Score: 192
Period size: 53 Copynumber: 2.7 Consensus size: 52
9373842 TATAACCATA
* *
9373852 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGT
* * *
9373904 CAAACTTGCCTATTAAGAATCTCATTTCCTTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATC-CATCTCCTCTTAGAATTCTTCTCCTGTAAGT
* *
9373957 CAAACTTACCTATTAAGAAT-CATCTTTCTCTTAGA
1 CAAACTTGCCTATTAAGAATCCATC-TCCTCTTAGA
9373992 GCTCTTCTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.04
52 28 0.36
53 46 0.60
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGT
Found at i:9374427 original size:31 final size:31
Alignment explanation
Indices: 9374392--9374535 Score: 202
Period size: 31 Copynumber: 4.6 Consensus size: 31
9374382 GATCCTTCAA
* *
9374392 CTCTGATATCACTTGTTGGGAAACACCACAG
1 CTCTGATACCATTTGTTGGGAAACACCACAG
*
9374423 CTCTGATACCATTTATTGGGAAACACCACAG
1 CTCTGATACCATTTGTTGGGAAACACCACAG
9374454 CTCTGATACCATTTGTTAGGG-AACACCACAG
1 CTCTGATACCATTTGTT-GGGAAACACCACAG
* *
9374485 CTTTGATACCATTTGTT-GGAGAACACCATAG
1 CTCTGATACCATTTGTTGGGA-AACACCACAG
*
9374516 CTTTGATACCATTTGTTGGG
1 CTCTGATACCATTTGTTGGG
9374536 CTACATCCAT
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
29 2 0.02
31 96 0.93
32 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (31 bp):
CTCTGATACCATTTGTTGGGAAACACCACAG
Found at i:9375007 original size:52 final size:52
Alignment explanation
Indices: 9374921--9375077 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
9374911 TATAACCATA
* * * * *
9374921 CAAACTTGCCCATTAAAAATTCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
9374973 TAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
9375025 CAAACTTACTTATTAAGAATCATCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
9375077 C
1 C
9375078 TTATTGTCCA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 86 0.96
53 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:9375118 original size:11 final size:11
Alignment explanation
Indices: 9375102--9375143 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
9375092 GTAATATCTG
9375102 ACAAATCTCAA
1 ACAAATCTCAA
*
9375113 ACAAATCTCTA
1 ACAAATCTCAA
9375124 ACAAATCTCAA
1 ACAAATCTCAA
9375135 ACAAATCTC
1 ACAAATCTC
9375144 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9375127 original size:22 final size:22
Alignment explanation
Indices: 9375102--9375144 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9375092 GTAATATCTG
9375102 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
9375124 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
9375145 TATGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:9376607 original size:35 final size:35
Alignment explanation
Indices: 9376524--9376607 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
9376514 AAATACTATA
9376524 AAAAATAATT-GTGGAAATGATATTGATAATTTGGC
1 AAAAAT-ATTGGTGGAAATGATATTGATAATTTGGC
* * *
9376559 AAAAAGCAATGGTGGAAATGATATTGCT-ATTTGGC
1 AAAAA-TATTGGTGGAAATGATATTGATAATTTGGC
9376594 AGAAAATATTGGTG
1 A-AAAATATTGGTG
9376608 CTAATGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
35 21 0.51
36 20 0.49
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (35 bp):
AAAAATATTGGTGGAAATGATATTGATAATTTGGC
Found at i:9380209 original size:13 final size:14
Alignment explanation
Indices: 9380183--9380220 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9380173 ATAGAACTAC
9380183 CTAGAAAAAA--CA
1 CTAGAAAAAACTCA
9380195 CTA-AAAAAACTCA
1 CTAGAAAAAACTCA
9380208 CTAGAAAAAACTC
1 CTAGAAAAAACTC
9380221 GAAACCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 3 0.13
13 5 0.22
14 9 0.39
ACGTcount: A:0.61, C:0.21, G:0.05, T:0.13
Consensus pattern (14 bp):
CTAGAAAAAACTCA
Found at i:9387115 original size:16 final size:16
Alignment explanation
Indices: 9387095--9387134 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9387085 AAAATAAATA
* *
9387095 AAAAAATAAAGATAGGG
1 AAAAAA-AAAGAAAGAG
9387112 AAAAAAAAAGAAAGAG
1 AAAAAAAAAGAAAGAG
9387128 AAAAAAA
1 AAAAAAA
9387135 GGTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAAAAAAAAGAAAGAG
Found at i:9389787 original size:26 final size:26
Alignment explanation
Indices: 9389755--9389818 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
9389745 GCATTTACAT
** *
9389755 CATTTGCATCATAACCAAGGCATTTG
1 CATTTGCATCATAAAAAAGACATTTG
*
9389781 TATTTGCATCATAAAAAAGACATTTG
1 CATTTGCATCATAAAAAAGACATTTG
9389807 CATTTGCATCAT
1 CATTTGCATCAT
9389819 TGCATCTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (26 bp):
CATTTGCATCATAAAAAAGACATTTG
Found at i:9390271 original size:26 final size:27
Alignment explanation
Indices: 9390210--9390295 Score: 90
Period size: 26 Copynumber: 3.3 Consensus size: 27
9390200 GTTTGCAAAA
* *
9390210 AAAAAAAAAACAAAAGAGAA-AAAAAT
1 AAAAAAAAAACAAAAGACAAGAAAAAG
*
9390236 AAAAAAAAAACAAAAGA-AAGAAAGAG
1 AAAAAAAAAACAAAAGACAAGAAAAAG
* *
9390262 AGAAACAAAA-AAAA-ACAAGAAAAAG
1 AAAAAAAAAACAAAAGACAAGAAAAAG
*
9390287 AAAGAAAAA
1 AAAAAAAAA
9390296 TAGCAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.02
25 20 0.40
26 29 0.58
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAACAAAAGACAAGAAAAAG
Found at i:9390275 original size:35 final size:34
Alignment explanation
Indices: 9390206--9390294 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 34
9390196 AAGAGTTTGC
*
9390206 AAAAAAAAAAA-AAACAAAAGAGAAAAAAATAAA
1 AAAAAAAAAAAGAAAGAAAAGAGAAAAAAATAAA
9390239 AAAAAAACAAAAGAAAGAAAGAGAGAAACAAAA-AAA
1 AAAAAAA-AAAAGAAAGAAA-AGAGAAA-AAAATAAA
* *
9390275 AACAAGAAAAAGAAAGAAAA
1 AAAAAAAAAAAGAAAGAAAA
9390295 ATAGCAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 7 0.14
34 5 0.10
35 18 0.37
36 15 0.31
37 4 0.08
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.01
Consensus pattern (34 bp):
AAAAAAAAAAAGAAAGAAAAGAGAAAAAAATAAA
Found at i:9390304 original size:31 final size:30
Alignment explanation
Indices: 9390207--9390316 Score: 91
Period size: 31 Copynumber: 3.5 Consensus size: 30
9390197 AGAGTTTGCA
* * *
9390207 AAAAAAAAAAAAACAAAAGAGAA-AAAAATAA
1 AAAAAAAACAAGA-AAAAGA-AAGAAAAATAC
*
9390238 AAAAAAAACAA-AAGAAAGAAAGAGAGAA-AC
1 AAAAAAAACAAGAA-AAAGAAAGA-AAAATAC
9390268 AAAAAAAAACAAGAAAAAGAAAGAAAAATAGC
1 -AAAAAAAACAAGAAAAAGAAAGAAAAATA-C
*
9390300 AAAAAAAATAACGAAAA
1 AAAAAAAACAA-GAAAA
9390317 GAGAGAATGA
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
29 3 0.05
30 11 0.17
31 44 0.67
32 8 0.12
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (30 bp):
AAAAAAAACAAGAAAAAGAAAGAAAAATAC
Found at i:9390307 original size:35 final size:35
Alignment explanation
Indices: 9390206--9390307 Score: 104
Period size: 35 Copynumber: 3.0 Consensus size: 35
9390196 AAGAGTTTGC
*
9390206 AAAAAAA-AAAA-AAA-CAAAAGAGAAAAAAATAAA
1 AAAAAAACAAAAGAAAGAAAAAGAGAAAAAAA-AAA
*
9390239 AAAAAAACAAAAGAAAGAAAGAGAGAAACAAAAAAA
1 AAAAAAACAAAAGAAAGAAAAAGAGAAA-AAAAAAA
* * * *
9390275 AACAAGA-AAAAGAAAGAAAAATAGCAAAAAAAA
1 AAAAAAACAAAAGAAAGAAAAAGAGAAAAAAAAA
9390308 TAACGAAAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
33 7 0.12
34 10 0.17
35 20 0.34
36 17 0.29
37 4 0.07
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.02
Consensus pattern (35 bp):
AAAAAAACAAAAGAAAGAAAAAGAGAAAAAAAAAA
Found at i:9390550 original size:32 final size:32
Alignment explanation
Indices: 9390513--9390631 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 32
9390503 CCAAGTAATT
* *
9390513 TGGCACCCAGATCAAACTAAGCCCAATTAAGC
1 TGGCACCCAGATCAAACTAAGCCCAGTCAAGC
** *
9390545 TGGCACTTAGATCAAACTAAGCCTAGTCAAGC
1 TGGCACCCAGATCAAACTAAGCCCAGTCAAGC
* * * * *
9390577 TGACACCTAGATAAAAATAAGCCCAGTCAAGT
1 TGGCACCCAGATCAAACTAAGCCCAGTCAAGC
* *
9390609 TAGCACCCAGATCAAATTAAGCC
1 TGGCACCCAGATCAAACTAAGCC
9390632 TAGATTAACT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (32 bp):
TGGCACCCAGATCAAACTAAGCCCAGTCAAGC
Found at i:9390870 original size:22 final size:22
Alignment explanation
Indices: 9390822--9390884 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
9390812 GAGCTCTAGG
* * * *
9390822 CATAATCTCCAAGACTTTTGGG
1 CATAATCTCTAAGACCTTCGGA
*
9390844 TATAATCTCTAAGACCTTCGGA
1 CATAATCTCTAAGACCTTCGGA
* *
9390866 CATAATTTTTAAGACCTTC
1 CATAATCTCTAAGACCTTC
9390885 AAGCAAAACA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (22 bp):
CATAATCTCTAAGACCTTCGGA
Found at i:9390941 original size:170 final size:171
Alignment explanation
Indices: 9390652--9390959 Score: 381
Period size: 170 Copynumber: 1.8 Consensus size: 171
9390642 AGCATCCAAG
* * * * **
9390652 ATAATCTCCAAGACTTTCGGGGTATAATTTTTAAGATCTCTAAGCATAATTTTCAAGACATCCGG
1 ATAATCTCCAAGACTTTCGGGGTATAATCTCTAAGACCTCGAAGCATAATTTTCAAGACATCCAA
* * * *
9390717 GCAAAATATTTTAAATTTTCAAAGTTTTCAGGCCTATGATCAGAAAACTTTTCATATATGTCAAA
66 GCAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATCAGAAAACTTTTCATACATGTCAAA
*
9390782 ATTTATAAGACTTCAAAGTATAATTTTTAAGAGCTCTAGGC
131 ATGTATAAGACTTCAAAGTATAATTTTTAAGAGCTCTAGGC
* * * * *
9390823 ATAATCTCCAAGACTTT-TGGGTATAATCTCTAAGACCTTCGGA-CATAATTTTTAAGACCTTCA
1 ATAATCTCCAAGACTTTCGGGGTATAATCTCTAAGACC-TCGAAGCATAATTTTCAAGACATCCA
* * *
9390886 AGCAAAACATTTTAAATTTTCAAAGTTTTCATACCTCTAA-CTA-AAAGAGTTTTCATACATGTC
65 AGCAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATC-AGAAA-ACTTTTCATACATGTC
*
9390949 AAGATGTATAA
128 AAAATGTATAA
9390960 AACCTTCGGG
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
169 4 0.04
170 90 0.79
171 20 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (171 bp):
ATAATCTCCAAGACTTTCGGGGTATAATCTCTAAGACCTCGAAGCATAATTTTCAAGACATCCAA
GCAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATCAGAAAACTTTTCATACATGTCAAA
ATGTATAAGACTTCAAAGTATAATTTTTAAGAGCTCTAGGC
Found at i:9390999 original size:170 final size:170
Alignment explanation
Indices: 9390652--9391036 Score: 375
Period size: 170 Copynumber: 2.3 Consensus size: 170
9390642 AGCATCCAAG
* * * * **
9390652 ATAATCTCCAAGACTTTCGGGGTATAATTTTTAAGATCTCTAAGCATAATTTTCAAGACATCCGG
1 ATAATCTCCAAGACTTT-GGGGTATAATCTCTAAGACCTCGAAGCATAATTTTCAAGACATCCAA
* * * *
9390717 GCAAAATATTTTAAATTTTCAAAGTTTTCAGGCCTATGATCAGAAAACTTTTCATATATGTCAAA
65 GCAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATCAGAAAACTTTTCATACATGTCAAA
* * * * * * *
9390782 ATTTATAAGACTTCAAAGTATAATTTTTAAGAGCTCTAGGC
130 ATGTATAAAACTTCAAAGCATAATCTCTAAGACCTCTAAGC
* * * * *
9390823 ATAATCTCCAAGACTTTTGGGTATAATCTCTAAGACCTTCGGA-CATAATTTTTAAGACCTTCAA
1 ATAATCTCCAAGACTTTGGGGTATAATCTCTAAGACC-TCGAAGCATAATTTTCAAGACATCCAA
* * *
9390887 GCAAAACATTTTAAATTTTCAAAGTTTTCATACCTCTAA-CTA-AAAGAGTTTTCATACATGTCA
65 GCAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATC-AGAAA-ACTTTTCATACATGTCA
* ** *
9390950 AGATGTATAAAACCTTC-GGGCATAATCTCTAAGACCTCTAAGT
128 AAATGTATAAAA-CTTCAAAGCATAATCTCTAAGACCTCTAAGC
* * * *
9390993 ATAATCTCAAATACCTTGGGGCATAATCTCTGAA-ACCTCCGAAG
1 ATAATCTCCAAGACTTTGGGGTATAATCTCT-AAGACCT-CGAAG
9391037 GTAATCTCTA
Statistics
Matches: 172, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
169 5 0.03
170 141 0.82
171 26 0.15
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (170 bp):
ATAATCTCCAAGACTTTGGGGTATAATCTCTAAGACCTCGAAGCATAATTTTCAAGACATCCAAG
CAAAACATTTTAAATTTTCAAAGTTTTCAGACCTATAATCAGAAAACTTTTCATACATGTCAAAA
TGTATAAAACTTCAAAGCATAATCTCTAAGACCTCTAAGC
Found at i:9391042 original size:44 final size:44
Alignment explanation
Indices: 9390961--9391044 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
9390951 GATGTATAAA
*
9390961 ACCTTCGGGCATAATCTCTAAGACCTCTAAGTATAATCTCAAAT
1 ACCTTCGGGCATAATCTCTAAGACCTCGAAGTATAATCTCAAAT
* *
9391005 ACCTTGGGGCATAATCTCTGAA-ACCTCCGAAG-GTAATCTC
1 ACCTTCGGGCATAATCTCT-AAGACCT-CGAAGTATAATCTC
9391045 TAAGTCCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
44 29 0.83
45 6 0.17
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
ACCTTCGGGCATAATCTCTAAGACCTCGAAGTATAATCTCAAAT
Found at i:9391259 original size:19 final size:17
Alignment explanation
Indices: 9391227--9391263 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
9391217 AGATAAAATC
9391227 AATAAAAAATAAGAAAA
1 AATAAAAAATAAGAAAA
9391244 AATAAATAAATCAAGAAAA
1 AATAAA-AAAT-AAGAAAA
9391263 A
1 A
9391264 CAATAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (17 bp):
AATAAAAAATAAGAAAA
Found at i:9391268 original size:21 final size:19
Alignment explanation
Indices: 9391216--9391272 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
9391206 ATTTTTTTAA
9391216 AAGATAAAATCAATAAAAAAT
1 AAGA-AAAA-CAATAAAAAAT
9391237 AAG-AAAA-AATAAATAAAT
1 AAGAAAAACAATAAA-AAAT
9391255 CAAGAAAAACAATAAAAA
1 -AAGAAAAACAATAAAAA
9391273 CTTTTGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.19
18 4 0.12
19 7 0.22
20 6 0.19
21 9 0.28
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
AAGAAAAACAATAAAAAAT
Found at i:9393413 original size:24 final size:24
Alignment explanation
Indices: 9393386--9393431 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9393376 ATAAATTAAA
9393386 ATAATTAAA-AAAATTAAAATTACT
1 ATAA-TAAAGAAAATTAAAATTACT
*
9393410 ATAATAAAGAAAATTAAGATTA
1 ATAATAAAGAAAATTAAAATTA
9393432 TTTTAGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAATAAAGAAAATTAAAATTACT
Found at i:9394563 original size:38 final size:39
Alignment explanation
Indices: 9394520--9394608 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 39
9394510 GATGGCTTGT
**
9394520 TTTTGTTCAATAGGAATGTGGTACTAGCAGATGGCC-TA
1 TTTTGTTCAATAGGAATGCAGTACTAGCAGATGGCCTTA
* * *
9394558 TTTTGTTCAATAGGAATGCAGTAGTAGGATATGGCCTTA
1 TTTTGTTCAATAGGAATGCAGTACTAGCAGATGGCCTTA
*
9394597 TTTTCTTCAATA
1 TTTTGTTCAATA
9394609 TAATGGCCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 31 0.70
39 13 0.30
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (39 bp):
TTTTGTTCAATAGGAATGCAGTACTAGCAGATGGCCTTA
Found at i:9396044 original size:2 final size:2
Alignment explanation
Indices: 9396039--9396070 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9396029 GTAAAAAATG
*
9396039 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9396071 ATTTCTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9396251 original size:2 final size:2
Alignment explanation
Indices: 9396244--9396270 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9396234 TTTCTTCTTT
9396244 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9396271 CTTGACGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9397313 original size:36 final size:36
Alignment explanation
Indices: 9397272--9397343 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
9397262 ATGAAAGAAA
9397272 CAGAGGCAATATGCGCAATGCATCTAAGTAAAACAT
1 CAGAGGCAATATGCGCAATGCATCTAAGTAAAACAT
* *
9397308 CAGAGGCAGTATGCGCAATGCCTCTAAGTAAAACAT
1 CAGAGGCAATATGCGCAATGCATCTAAGTAAAACAT
9397344 GGATACCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (36 bp):
CAGAGGCAATATGCGCAATGCATCTAAGTAAAACAT
Found at i:9400913 original size:2 final size:2
Alignment explanation
Indices: 9400906--9400931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9400896 ATTTTTACTA
9400906 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9400932 TTGGATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9401600 original size:18 final size:18
Alignment explanation
Indices: 9401579--9401630 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
9401569 AAATTATTCC
9401579 AAACCCTAAATCTAACAA
1 AAACCCTAAATCTAACAA
* * *
9401597 AAACTCTAAACCTAACAT
1 AAACCCTAAATCTAACAA
9401615 AAACCCTAAATTCTAA
1 AAACCCTAAA-TCTAA
9401631 AATTGAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (18 bp):
AAACCCTAAATCTAACAA
Found at i:9402857 original size:13 final size:14
Alignment explanation
Indices: 9402839--9402885 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
9402829 AATCATACCA
9402839 AATATCATG-TAAT
1 AATATCATGCTAAT
9402852 AATATCATGCT--T
1 AATATCATGCTAAT
9402864 AA-ATCATGCTAA-
1 AATATCATGCTAAT
9402876 AATATTCATG
1 AATA-TCATG
9402886 TAAGAACGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.28
12 5 0.17
13 10 0.34
14 6 0.21
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (14 bp):
AATATCATGCTAAT
Found at i:9402862 original size:37 final size:38
Alignment explanation
Indices: 9402815--9402888 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
9402805 TTATCATGCA
*
9402815 AATATAATGCTGTAAATCATAC-CAAATA-TCATGTAAT
1 AATATAATGCT-TAAATCATACTAAAATATTCATGTAAT
* *
9402852 AATATCATGCTTAAATCATGCTAAAATATTCATGTAA
1 AATATAATGCTTAAATCATACTAAAATATTCATGTAA
9402889 GAACGTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.28
37 15 0.47
38 8 0.25
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (38 bp):
AATATAATGCTTAAATCATACTAAAATATTCATGTAAT
Found at i:9402898 original size:38 final size:37
Alignment explanation
Indices: 9402821--9402899 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
9402811 TGCAAATATA
* * *
9402821 ATGCTGTAAATCATACCAAATATCATGTAATAATATC
1 ATGCTGTAAATCATACAAAATATCATGTAAGAACATC
* *
9402858 ATGCT-TAAATCATGCTAAAATATTCATGTAAGAACGTC
1 ATGCTGTAAATCATAC-AAAATA-TCATGTAAGAACATC
9402896 ATGC
1 ATGC
9402900 AAATATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 9 0.26
37 10 0.29
38 16 0.46
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
ATGCTGTAAATCATACAAAATATCATGTAAGAACATC
Found at i:9402977 original size:36 final size:36
Alignment explanation
Indices: 9402894--9402982 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 36
9402884 TGTAAGAACG
*
9402894 TCATGCAAATATATTAATTATCATCAAATAATAACAA
1 TCATACAAATATATT-ATTATCATCAAATAATAACAA
**
9402931 TCATGTAAATATATTA-TATCATGCAAAT-ATAA-AA
1 TCATACAAATATATTATTATCAT-CAAATAATAACAA
9402965 TACCATACAAATATATTA
1 T--CATACAAATATATTA
9402983 ATAACTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
34 3 0.07
35 10 0.22
36 19 0.41
37 14 0.30
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (36 bp):
TCATACAAATATATTATTATCATCAAATAATAACAA
Found at i:9403120 original size:19 final size:19
Alignment explanation
Indices: 9403098--9403150 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
9403088 TTCAAATATA
9403098 ATATTAATCATGCAATAAC
1 ATATTAATCATGCAATAAC
9403117 ATA-T-ATCATGCAAT-AC
1 ATATTAATCATGCAATAAC
*
9403133 ATATAAAATCATGCAATA
1 ATAT-TAATCATGCAATA
9403151 GTAATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
18 1 0.03
19 13 0.45
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (19 bp):
ATATTAATCATGCAATAAC
Found at i:9403136 original size:16 final size:17
Alignment explanation
Indices: 9403104--9403137 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9403094 TATAATATTA
9403104 ATCATGCAATAACATAT
1 ATCATGCAATAACATAT
9403121 ATCATGCAAT-ACATAT
1 ATCATGCAATAACATAT
9403137 A
1 A
9403138 AAATCATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
ATCATGCAATAACATAT
Found at i:9403273 original size:31 final size:31
Alignment explanation
Indices: 9403232--9403300 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
9403222 ATAATTATGC
*
9403232 AAATAGACATGCAA-TTAATTATATAAACATGT
1 AAATAAACATGCAATTTAA-TATAT-AACATGT
*
9403264 -AATAAACATGCAATTTAATATATATCATGT
1 AAATAAACATGCAATTTAATATATAACATGT
9403294 AAATAAA
1 AAATAAA
9403301 AATATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 6 0.18
31 23 0.70
32 4 0.12
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (31 bp):
AAATAAACATGCAATTTAATATATAACATGT
Found at i:9403359 original size:22 final size:23
Alignment explanation
Indices: 9403319--9403377 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
9403309 AACCATGCAA
*
9403319 ATAAA-CATGC-AATTA-AATAT
1 ATAAATCATGCAAATAATAATAT
*
9403339 AT-AATCATTCAAATAATAATAT
1 ATAAATCATGCAAATAATAATAT
9403361 ATAAATCATGCAAATAA
1 ATAAATCATGCAAATAA
9403378 GCATGCAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 4 0.12
22 7 0.22
23 13 0.41
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAAATCATGCAAATAATAATAT
Found at i:9403371 original size:55 final size:55
Alignment explanation
Indices: 9403251--9403429 Score: 240
Period size: 55 Copynumber: 3.3 Consensus size: 55
9403241 TGCAATTAAT
* * *
9403251 TATATAAA-CATG-TAATAAACATGCAATTTAATATAT-ATCATGT-AAATAAAAA
1 TATATAAATCATGCAAATAAACATGCAATTAAATATATAATCAT-TCAAATAATAA
*
9403303 TATATAAACCATGCAAATAAACATGCAATTAAATATATAATCATTCAAATAATAA
1 TATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATTCAAATAATAA
* * * *
9403358 TATATAAATCATGCAAATAAGCATGCAATTAAATATATAATTATGCAAATAATTA
1 TATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATTCAAATAATAA
*
9403413 TATACAAATCATGCAAA
1 TATATAAATCATGCAAA
9403430 AAATAAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
52 8 0.07
53 4 0.04
54 23 0.20
55 79 0.69
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (55 bp):
TATATAAATCATGCAAATAAACATGCAATTAAATATATAATCATTCAAATAATAA
Found at i:9403412 original size:24 final size:22
Alignment explanation
Indices: 9403384--9403439 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
9403374 ATAAGCATGC
*
9403384 AATTAAATATATAATTATGCAAA
1 AATTAAATATA-AATCATGCAAA
* *
9403407 TAATTATATACAAATCATGCAAA
1 -AATTAAATATAAATCATGCAAA
*
9403430 AAATAAATAT
1 AATTAAATAT
9403440 CATGTAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (22 bp):
AATTAAATATAAATCATGCAAA
Found at i:9403443 original size:18 final size:20
Alignment explanation
Indices: 9403379--9403459 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 20
9403369 TGCAAATAAG
9403379 CATGCAATTAAATATATAAT-T
1 CATGCAA-TAAATATA-AATAT
9403400 -ATGCAAATAATTATATACAA-AT
1 CATGC-AATAA--ATATA-AATAT
9403422 CATGCAA-AAA-ATAAATAT
1 CATGCAATAAATATAAATAT
*
9403440 CATGTAATAAATATAAATAT
1 CATGCAATAAATATAAATAT
9403460 AAGAATAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
17 2 0.04
18 11 0.22
19 4 0.08
20 15 0.30
21 4 0.08
22 10 0.20
23 4 0.08
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (20 bp):
CATGCAATAAATATAAATAT
Found at i:9403457 original size:20 final size:18
Alignment explanation
Indices: 9403420--9403459 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
9403410 TTATATACAA
9403420 ATCATGCAAAAAATAAAT
1 ATCATGCAAAAAATAAAT
*
9403438 ATCATGTAATAAATATAAAT
1 ATCATGCAA-AAA-ATAAAT
9403458 AT
1 AT
9403460 AAGAATAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (18 bp):
ATCATGCAAAAAATAAAT
Found at i:9404486 original size:85 final size:85
Alignment explanation
Indices: 9404332--9404572 Score: 252
Period size: 85 Copynumber: 2.8 Consensus size: 85
9404322 CTCATTGACA
* * ** * * * *
9404332 GAGG-TTTGAAACTTTCAAAAAAATAAAATGCTCCCCCACAGTTAATGCCTTGAAATATTTG-AA
1 GAGGCTTTGAAACTTT--AAAAAATAAAATACTCCCTCACAACTAAGGCTTTGCAA-CTTTGAAA
*
9404395 ATATAAAATGCTCCCCCACAACT
63 AAATAAAATGCTCCCCCACAACT
* ** * * *
9404418 GAGGCTTTGCAACTTTTGAAAATAAAATACTCCCTCACAATTGAGGCTTTGCAACTTTTAAAAAA
1 GAGGCTTTGAAACTTTAAAAAATAAAATACTCCCTCACAACTAAGGCTTTGCAACTTTGAAAAAA
**
9404483 TAAAATGCTCCCTTACAACT
66 TAAAATGCTCCCCCACAACT
* * * *
9404503 GAGGCTTTGAAACTTTAAAAAATAAAATGCTCTCTTACAACTAAGGCTTTGGAACTTTGAAAAAA
1 GAGGCTTTGAAACTTTAAAAAATAAAATACTCCCTCACAACTAAGGCTTTGCAACTTTGAAAAAA
9404568 TAAAA
66 TAAAA
9404573 ATATACCCTA
Statistics
Matches: 128, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
84 3 0.02
85 111 0.87
86 4 0.03
87 10 0.08
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (85 bp):
GAGGCTTTGAAACTTTAAAAAATAAAATACTCCCTCACAACTAAGGCTTTGCAACTTTGAAAAAA
TAAAATGCTCCCCCACAACT
Found at i:9404566 original size:42 final size:43
Alignment explanation
Indices: 9404389--9404572 Score: 230
Period size: 42 Copynumber: 4.3 Consensus size: 43
9404379 CCTTGAAATA
* *
9404389 TTTGAAATATAAAATGCTCCCCCACAACTGAGGCTTTGCAACT
1 TTTGAAAAATAAAATGCTCCCTCACAACTGAGGCTTTGCAACT
* *
9404432 TTTG-AAAATAAAATACTCCCTCACAATTGAGGCTTTGCAACT
1 TTTGAAAAATAAAATGCTCCCTCACAACTGAGGCTTTGCAACT
* * *
9404474 TTTAAAAAATAAAATGCTCCCTTACAACTGAGGCTTTGAAAC-
1 TTTGAAAAATAAAATGCTCCCTCACAACTGAGGCTTTGCAACT
* * * * *
9404516 TTTAAAAAATAAAATGCTCTCTTACAACTAAGGCTTTGGAAC-
1 TTTGAAAAATAAAATGCTCCCTCACAACTGAGGCTTTGCAACT
9404558 TTTGAAAAAATAAAA
1 TTTG-AAAAATAAAA
9404573 ATATACCCTA
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 79 0.63
43 47 0.37
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (43 bp):
TTTGAAAAATAAAATGCTCCCTCACAACTGAGGCTTTGCAACT
Found at i:9404669 original size:22 final size:22
Alignment explanation
Indices: 9404630--9404691 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
9404620 AGTCTTGAAG
*
9404630 ATTATG-TCTAGAGATCTTACAA
1 ATTATGCTC-AGAGGTCTTACAA
** *
9404652 ATTATGCTC-GAAGGTCTTTGAG
1 ATTATGCTCAG-AGGTCTTACAA
9404674 ATTATGCTCAGAGGTCTT
1 ATTATGCTCAGAGGTCTT
9404692 TGAGATCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 29 0.88
23 3 0.09
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (22 bp):
ATTATGCTCAGAGGTCTTACAA
Found at i:9404692 original size:22 final size:22
Alignment explanation
Indices: 9404652--9404697 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9404642 GATCTTACAA
9404652 ATTATGCTCGAAGGTCTTTGAG
1 ATTATGCTCGAAGGTCTTTGAG
9404674 ATTATGCTC-AGAGGTCTTTGAG
1 ATTATGCTCGA-AGGTCTTTGAG
9404696 AT
1 AT
9404698 CATTCTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (22 bp):
ATTATGCTCGAAGGTCTTTGAG
Found at i:9405076 original size:22 final size:22
Alignment explanation
Indices: 9405051--9405134 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
9405041 TTACACCCGA
9405051 AGGTCTTACAAATCATGCTTGG
1 AGGTCTTACAAATCATGCTTGG
* * *
9405073 AGGTCTTAGAGATTATGCTT-G
1 AGGTCTTACAAATCATGCTTGG
* *
9405094 AGAGTCTTACAAATCAT-ATTCGA
1 AG-GTCTTACAAATCATGCTT-GG
*
9405117 AGATCTTACAAATCATGC
1 AGGTCTTACAAATCATGC
9405135 CTAGAGGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 5 0.10
22 41 0.85
23 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (22 bp):
AGGTCTTACAAATCATGCTTGG
Found at i:9405480 original size:23 final size:23
Alignment explanation
Indices: 9405454--9405511 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
9405444 GGATGTTGTA
*
9405454 AATGCAGTGCAATGAAATTAGTG
1 AATGCAATGCAATGAAATTAGTG
9405477 AATGCAATGCAATGAAATTAGTG
1 AATGCAATGCAATGAAATTAGTG
9405500 AATGCAATGCAA
1 AATGCAATGCAA
9405512 AAGATTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.24
Consensus pattern (23 bp):
AATGCAATGCAATGAAATTAGTG
Found at i:9405535 original size:18 final size:18
Alignment explanation
Indices: 9405512--9405549 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9405502 TGCAATGCAA
*
9405512 AAGATTCAAGATTTGTAG
1 AAGATTCAAGATTCGTAG
9405530 AAGATTCAAGATTCGTAG
1 AAGATTCAAGATTCGTAG
9405548 AA
1 AA
9405550 TTTCAAAGGT
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:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (18 bp):
AAGATTCAAGATTCGTAG
Found at i:9405595 original size:36 final size:36
Alignment explanation
Indices: 9405554--9405628 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
9405544 GTAGAATTTC
* * *
9405554 AAAGGTTGCAAGATTTGCCAAA-GTTTCAAAATTCGT
1 AAAGGTTCCAAGATTCG-CAAAGGTTCCAAAATTCGT
*
9405590 AAAGGTTCCAAGATTCGCAAAGGTTCCAAAATTTGT
1 AAAGGTTCCAAGATTCGCAAAGGTTCCAAAATTCGT
9405626 AAA
1 AAA
9405629 AGTCTCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (36 bp):
AAAGGTTCCAAGATTCGCAAAGGTTCCAAAATTCGT
Found at i:9405611 original size:18 final size:18
Alignment explanation
Indices: 9405553--9405618 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
9405543 CGTAGAATTT
* *
9405553 CAAAGGTTGCAAGATTTG
1 CAAAGGTTCCAAGATTCG
* *
9405571 CCAAA-GTTTCAAAATTCG
1 -CAAAGGTTCCAAGATTCG
*
9405589 TAAAGGTTCCAAGATTCG
1 CAAAGGTTCCAAGATTCG
9405607 CAAAGGTTCCAA
1 CAAAGGTTCCAA
9405619 AATTTGTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 3 0.08
18 32 0.82
19 4 0.10
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (18 bp):
CAAAGGTTCCAAGATTCG
Found at i:9407387 original size:16 final size:15
Alignment explanation
Indices: 9407368--9407415 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
9407358 CTTCTTTCCA
9407368 CATTTTCTATTTTTTT
1 CATTTT-TATTTTTTT
*
9407384 CATTTTTAATTTTTT
1 CATTTTTATTTTTTT
*
9407399 AATTTTTTAATTTTTTT
1 CA-TTTTT-ATTTTTTT
9407416 TCTTTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (15 bp):
CATTTTTATTTTTTT
Found at i:9407389 original size:8 final size:8
Alignment explanation
Indices: 9407386--9407414 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9407376 ATTTTTTTCA
9407386 TTTTTAAT
1 TTTTTAAT
9407394 TTTTTAAT
1 TTTTTAAT
9407402 TTTTTAAT
1 TTTTTAAT
9407410 TTTTT
1 TTTTT
9407415 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTAAT
Found at i:9407396 original size:23 final size:23
Alignment explanation
Indices: 9407369--9407413 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9407359 TTCTTTCCAC
* *
9407369 ATTTTCTATTTTTTTCATTTTTA
1 ATTTTCTAATTTTTTAATTTTTA
*
9407392 ATTTTTTAATTTTTTAATTTTT
1 ATTTTCTAATTTTTTAATTTTT
9407414 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
ATTTTCTAATTTTTTAATTTTTA
Found at i:9407421 original size:16 final size:16
Alignment explanation
Indices: 9407377--9407422 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
9407367 ACATTTTCTA
9407377 TTTTTTTCATTTTTAAT
1 TTTTTTTC-TTTTTAAT
*
9407394 TTTTTAAT-TTTTTAAT
1 TTTTT-TTCTTTTTAAT
9407410 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
9407423 TTCTCTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 18 0.72
17 5 0.20
18 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTTTTAAT
Found at i:9409086 original size:107 final size:107
Alignment explanation
Indices: 9408900--9409115 Score: 369
Period size: 107 Copynumber: 2.0 Consensus size: 107
9408890 GATAAAAATT
* * *
9408900 TATATGCAAATACATGTATGTAATACATAGTGAAAAATAAGAATTAATATTCAAAACTATTTATA
1 TATATGCAAATACATGTATGCAATACATAGTGAAAAAGAAGAATTAATATCCAAAACTATTTATA
* *
9408965 AAATTGCAAAGGCAAAGAATTTTCCAAACAAATGAGTTAATG
66 AAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAATTAATG
* *
9409007 TATATGCAAGTACATGTATGCAATACATAGTGAAAAAGAAGAATTCATATCCAAAACTATTTATA
1 TATATGCAAATACATGTATGCAATACATAGTGAAAAAGAAGAATTAATATCCAAAACTATTTATA
9409072 AAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAATTAATG
66 AAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAATTAATG
9409114 TA
1 TA
9409116 CATATAAAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (107 bp):
TATATGCAAATACATGTATGCAATACATAGTGAAAAAGAAGAATTAATATCCAAAACTATTTATA
AAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAATTAATG
Found at i:9409172 original size:13 final size:14
Alignment explanation
Indices: 9409146--9409174 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9409136 GATAAAAATG
9409146 TATATGCAAATACA
1 TATATGCAAATACA
9409160 TATATGC-AATACA
1 TATATGCAAATACA
9409173 TA
1 TA
9409175 GTGAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (14 bp):
TATATGCAAATACA
Found at i:9410510 original size:24 final size:22
Alignment explanation
Indices: 9410465--9410519 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
9410455 AAATTCTATC
9410465 AAAATATC-AAGCAATCATGCA
1 AAAATATCAAAGCAATCATGCA
*
9410486 ATAAATATCAAATCATATCATGCA
1 A-AAATATCAAAGCA-ATCATGCA
9410510 AAAATTATCA
1 AAAA-TATCA
9410520 TACAAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 7 0.24
23 7 0.24
24 14 0.48
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAATATCAAAGCAATCATGCA
Found at i:9410662 original size:18 final size:18
Alignment explanation
Indices: 9410603--9410676 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
9410593 TGCAAGAATG
*
9410603 TCATGCAAATATATTA-A
1 TCATGCAAATATAATATA
* *
9410620 TTAT-CATAATATAATAACAA
1 TCATGCA-AATATAAT-A-TA
* *
9410640 TCATGTAAATATATTATA
1 TCATGCAAATATAATATA
9410658 TCATGCAAATATAATATA
1 TCATGCAAATATAATATA
9410676 T
1 T
9410677 TAATAACCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.05
17 10 0.23
18 19 0.43
19 1 0.02
20 11 0.25
21 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (18 bp):
TCATGCAAATATAATATA
Found at i:9410841 original size:19 final size:18
Alignment explanation
Indices: 9410798--9410847 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
9410788 AATATAGTAT
9410798 TAATCATGCAATAACATA
1 TAATCATGCAATAACATA
9410816 T-ATCATGCAATAA-ATA
1 TAATCATGCAATAACATA
9410832 TAAAATCATGCAATAA
1 T--AATCATGCAATAA
9410848 TAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 12 0.41
18 1 0.03
19 12 0.41
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (18 bp):
TAATCATGCAATAACATA
Found at i:9410856 original size:19 final size:18
Alignment explanation
Indices: 9410799--9410856 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
9410789 ATATAGTATT
*
9410799 AATCATGCAAT-AACATA
1 AATCATGCAATAAAAATA
* *
9410816 TATCATGCAATAAATATAA
1 AATCATGCAATAAAAAT-A
9410835 AATCATGCAATAATAAATA
1 AATCATGCAATAA-AAATA
9410854 AAT
1 AAT
9410857 AAATAACCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.29
18 4 0.12
19 17 0.50
20 3 0.09
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (18 bp):
AATCATGCAATAAAAATA
Found at i:9410873 original size:24 final size:26
Alignment explanation
Indices: 9410824--9410895 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 26
9410814 TATATCATGC
*
9410824 AATAAATATAA-AATCATGCAATAATA
1 AATAAATA-AATAACCATGCAATAATA
9410850 AATAAATAAATAACCATG-AA-AATA
1 AATAAATAAATAACCATGCAATAATA
* * * *
9410874 AATATATTAATAATCATACAAT
1 AATAAATAAATAACCATGCAAT
9410896 CACACCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 18 0.47
25 6 0.16
26 14 0.37
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (26 bp):
AATAAATAAATAACCATGCAATAATA
Found at i:9410944 original size:32 final size:31
Alignment explanation
Indices: 9410908--9411102 Score: 120
Period size: 32 Copynumber: 6.7 Consensus size: 31
9410898 CACCAAAAAA
*
9410908 TAAATTAATAATCATGCAAATAGACATGCAAT
1 TAAA-TAATAATCATGCAAATAAACATGCAAT
* * * *
9410940 TAAATGTATAAACATG-TAATAAACATGCAGT
1 TAAAT-AATAATCATGCAAATAAACATGCAAT
* *
9410971 TTAATATATAATAATGCAAAT-AA-A---AA-
1 TAAATA-ATAATCATGCAAATAAACATGCAAT
*
9410997 T--AT-ATAAACATGCAAATAAACATGCAAT
1 TAAATAATAATCATGCAAATAAACATGCAAT
9411025 TAAATATATAATCATGCAAAT--A-AT--AA-
1 TAAATA-ATAATCATGCAAATAAACATGCAAT
* * *
9411051 TATAT-A-AATCATGCAATTAAATATGCAAT
1 TAAATAATAATCATGCAAATAAACATGCAAT
9411080 TAAATATATAATCATGCAAATAA
1 TAAATA-ATAATCATGCAAATAA
9411103 TAATATATAA
Statistics
Matches: 123, Mismatches: 18, Indels: 44
0.66 0.10 0.24
Matches are distributed among these distances:
22 12 0.10
23 13 0.11
24 4 0.03
25 1 0.01
26 7 0.06
27 5 0.04
28 3 0.02
29 6 0.05
30 4 0.03
31 27 0.22
32 41 0.33
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (31 bp):
TAAATAATAATCATGCAAATAAACATGCAAT
Found at i:9411001 original size:22 final size:22
Alignment explanation
Indices: 9410973--9411016 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9410963 CATGCAGTTT
9410973 AATATATAATA-ATGCAAATAAA
1 AATATATAA-ACATGCAAATAAA
9410995 AATATATAAACATGCAAATAAA
1 AATATATAAACATGCAAATAAA
9411017 CATGCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (22 bp):
AATATATAAACATGCAAATAAA
Found at i:9411040 original size:20 final size:21
Alignment explanation
Indices: 9411012--9411074 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
9411002 AAACATGCAA
*
9411012 ATAAACATGCAATTA-AATAT
1 ATAATCATGCAATTATAATAT
*
9411032 ATAATCATGCAAATAATAATAT
1 ATAATCATGC-AATTATAATAT
9411054 ATAAATCATGCAATTA-AATAT
1 AT-AATCATGCAATTATAATAT
9411075 GCAATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.24
21 9 0.24
22 11 0.30
23 8 0.22
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATCATGCAATTATAATAT
Found at i:9411064 original size:23 final size:22
Alignment explanation
Indices: 9411012--9411071 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
9411002 AAACATGCAA
*
9411012 ATAAA-CATGC-AATTAAATAT
1 ATAAATCATGCAAATAAAATAT
9411032 AT-AATCATGCAAATAATAATAT
1 ATAAATCATGCAAATAA-AATAT
*
9411054 ATAAATCATGCAATTAAA
1 ATAAATCATGCAAATAAA
9411072 TATGCAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 7 0.21
21 4 0.12
22 8 0.24
23 13 0.38
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAAATCATGCAAATAAAATAT
Found at i:9411078 original size:12 final size:12
Alignment explanation
Indices: 9411055--9411086 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
9411045 TAATAATATA
9411055 TAAATCATGCAAT
1 TAAAT-ATGCAAT
9411068 TAAATATGCAAT
1 TAAATATGCAAT
9411080 TAAATAT
1 TAAATAT
9411087 ATAATCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (12 bp):
TAAATATGCAAT
Found at i:9411089 original size:55 final size:54
Alignment explanation
Indices: 9410946--9411124 Score: 270
Period size: 55 Copynumber: 3.3 Consensus size: 54
9410936 CAATTAAATG
* * * * *
9410946 TATAAACATG-TAATAAACATGCAGTTTAATATATAATAATGCAAATAAAAATA
1 TATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATA
9410999 TATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATA
1 TATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATA
* *
9411053 TATAAATCATGCAATTAAATATGCAATTAAATATATAATCATGCAAATAATAATA
1 TATAAA-CATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATA
9411108 TATAAATCATGCAAATA
1 TATAAA-CATGCAAATA
9411125 TAATATTAGT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 10 0.09
54 44 0.38
55 62 0.53
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.30
Consensus pattern (54 bp):
TATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAATA
Found at i:9411098 original size:20 final size:21
Alignment explanation
Indices: 9411073--9411141 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 21
9411063 GCAATTAAAT
9411073 ATGCAATTA-AATATATAATC
1 ATGCAATTATAATATATAATC
*
9411093 ATGCAAATAATAATATATAAATC
1 ATGC-AATTATAATATAT-AATC
* *
9411116 ATGCAAATATAATAT-TAGTC
1 ATGCAATTATAATATATAATC
9411136 ATGCAA
1 ATGCAA
9411142 ATTCATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 13 0.31
21 5 0.12
22 16 0.38
23 8 0.19
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (21 bp):
ATGCAATTATAATATATAATC
Found at i:9411143 original size:20 final size:21
Alignment explanation
Indices: 9411012--9411074 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
9411002 AAACATGCAA
* *
9411012 ATAAACATGCAATTA-AATAT
1 ATAATCATGCAAATATAATAT
9411032 ATAATCATGCAAATAATAATAT
1 ATAATCATGCAAAT-ATAATAT
*
9411054 ATAAATCATGCAATTA-AATAT
1 AT-AATCATGCAAATATAATAT
9411075 GCAATTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.32
21 6 0.16
22 8 0.22
23 11 0.30
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATCATGCAAATATAATAT
Found at i:9411784 original size:12 final size:12
Alignment explanation
Indices: 9411767--9411802 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
9411757 ACTAAAAAAA
9411767 CAAAAATTAAAC
1 CAAAAATTAAAC
9411779 CAAAAATTAAAC
1 CAAAAATTAAAC
*
9411791 TAAAATATTAAA
1 CAAAA-ATTAAA
9411803 ATACAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:9414120 original size:2 final size:2
Alignment explanation
Indices: 9414113--9414144 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9414103 GTACCAATCA
*
9414113 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9414145 TCTTATGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9419472 original size:26 final size:26
Alignment explanation
Indices: 9419436--9419486 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9419426 AAAGGGATAT
*
9419436 GTCATTCATGATTCACCCTTAATAGG
1 GTCATTCATGATTCAACCTTAATAGG
9419462 GTCATTCATGATTCAACCTTAATAG
1 GTCATTCATGATTCAACCTTAATAG
9419487 AAGCCTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (26 bp):
GTCATTCATGATTCAACCTTAATAGG
Found at i:9420560 original size:2 final size:2
Alignment explanation
Indices: 9420553--9420577 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9420543 CGCAATTTAA
9420553 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9420578 ATTATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9420933 original size:2 final size:2
Alignment explanation
Indices: 9420926--9420952 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9420916 ACCAAGGAGA
9420926 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9420953 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9423417 original size:17 final size:18
Alignment explanation
Indices: 9423392--9423438 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
9423382 GATTTCAGAG
* *
9423392 GAAAATGTGATTCC-ATA
1 GAAAGTGTGATTCCAAGA
*
9423409 GAAAGTGTGAATCCAAGA
1 GAAAGTGTGATTCCAAGA
9423427 GAAAGTGTGATT
1 GAAAGTGTGATT
9423439 TTTCATGGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (18 bp):
GAAAGTGTGATTCCAAGA
Found at i:9432686 original size:163 final size:166
Alignment explanation
Indices: 9432403--9432728 Score: 370
Period size: 163 Copynumber: 2.0 Consensus size: 166
9432393 TCAAAAATGC
* ** * * * * * *
9432403 AGTCTTTGACTTAAAAATATATAAGTGCTATGTTTAATTAAATACTACATTTATAAATTTACAAA
1 AGTCTTTGACTTAAAAATATACAAACGCAATGCTTAATCAAAGACTACATTTAGAAATATACAAA
* * ** * * * * *
9432468 CATAGTTTTTAATATAAAGACGGCATTTTCTCCTTGAAAAATATTGTCTTTGAAAT-G-CAAAAG
66 CATAGTCTTTAATATAAAAACAACATTTACTCCTTGAAAAACATTGTCCTTGAAATGGAAAAAAA
*
9432531 ATTTAACAAAGACTA-TTTTATAATCCTAGAAACAT
131 AATTAACAAAGACTACTTTTATAATCCTAGAAACAT
* * * * *
9432566 AGTCTTTGATTTGAAAATATACAAACGCAATGCTTAATCAAAGACTATATTTAGAAATATATAAG
1 AGTCTTTGACTTAAAAATATACAAACGCAATGCTTAATCAAAGACTACATTTAGAAATATACAAA
* * *
9432631 CATAGTCTTTGATATAAAAACAACATTTACTCTTTGAAAAGCATTGTCCTTGAAATGGAAAAAAA
66 CATAGTCTTTAATATAAAAACAACATTTACTCCTTGAAAAACATTGTCCTTGAAATGGAAAAAAA
**
9432696 AATTCTCAAAGACTACTTTTATAATCCTAGAAA
131 AATTAACAAAGACTACTTTTATAATCCTAGAAA
9432729 TGCCATCTTT
Statistics
Matches: 131, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
163 97 0.74
164 1 0.01
165 16 0.12
166 17 0.13
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (166 bp):
AGTCTTTGACTTAAAAATATACAAACGCAATGCTTAATCAAAGACTACATTTAGAAATATACAAA
CATAGTCTTTAATATAAAAACAACATTTACTCCTTGAAAAACATTGTCCTTGAAATGGAAAAAAA
AATTAACAAAGACTACTTTTATAATCCTAGAAACAT
Found at i:9434441 original size:40 final size:40
Alignment explanation
Indices: 9434386--9434466 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
9434376 AGGAATTTGA
*
9434386 AATTCATTTACTTTGAAGTTGCCAACTTATATTTTTATAT
1 AATTCAATTACTTTGAAGTTGCCAACTTATATTTTTATAT
9434426 AATTCAATTACTTTGAAGTTGCCAACTTATATTTTTATAT
1 AATTCAATTACTTTGAAGTTGCCAACTTATATTTTTATAT
9434466 A
1 A
9434467 TTTTTAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.48
Consensus pattern (40 bp):
AATTCAATTACTTTGAAGTTGCCAACTTATATTTTTATAT
Found at i:9436446 original size:24 final size:23
Alignment explanation
Indices: 9436410--9436538 Score: 116
Period size: 24 Copynumber: 5.4 Consensus size: 23
9436400 GATTCCATAG
*
9436410 TTTTCATTAATACAAGTCAAAAT
1 TTTTCATTTATACAAGTCAAAAT
9436433 TGTTTCATTTATACAAG-CGAAAAT
1 T-TTTCATTTATACAAGTC-AAAAT
* * *
9436457 TTGTTCATATATACTAGTCTAAAT
1 TT-TTCATTTATACAAGTCAAAAT
* *
9436481 TGTATCATTTATACAAGTCCAAAT
1 T-TTTCATTTATACAAGTCAAAAT
* *
9436505 TTGTTCTATTTATACAAATCCAAAT
1 TT-TTC-ATTTATACAAGTCAAAAT
*
9436530 TTTTTATTT
1 TTTTCATTT
9436539 GTATAAGATA
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
23 8 0.09
24 59 0.67
25 21 0.24
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTTCATTTATACAAGTCAAAAT
Found at i:9436481 original size:48 final size:49
Alignment explanation
Indices: 9436419--9436530 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 49
9436409 GTTTTCATTA
*
9436419 ATACAAGTCAAAATTGTTTCATTTATACAAG-CGAAAATTTGTTC-ATAT
1 ATACAAGTCAAAATTGTATCATTTATACAAGTC-AAAATTTGTTCTATAT
* * * *
9436467 ATACTAGTCTAAATTGTATCATTTATACAAGTCCAAATTTGTTCTATTT
1 ATACAAGTCAAAATTGTATCATTTATACAAGTCAAAATTTGTTCTATAT
* *
9436516 ATACAAATCCAAATT
1 ATACAAGTCAAAATT
9436531 TTTTATTTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 38 0.70
49 16 0.30
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.39
Consensus pattern (49 bp):
ATACAAGTCAAAATTGTATCATTTATACAAGTCAAAATTTGTTCTATAT
Found at i:9436867 original size:46 final size:45
Alignment explanation
Indices: 9436767--9436854 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 45
9436757 TATGTATGTT
* *
9436767 TAATTACAAAATGCCAATGTAATTATAATACAAAACATTATACATG
1 TAATTATAAAATGCCAATGTAATTATAATACAAAACATGATA-ATG
*
9436813 TAATTATAAAATGCCAATGTAATTATAATTTCAAAAC-TGATA
1 TAATTATAAAATGCCAATGTAATTATAA-TACAAAACATGATA
9436855 TGATCCATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 31 0.82
47 7 0.18
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (45 bp):
TAATTATAAAATGCCAATGTAATTATAATACAAAACATGATAATG
Found at i:9438693 original size:22 final size:21
Alignment explanation
Indices: 9438651--9438693 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9438641 CCATAAAAGG
* **
9438651 AGGGGATCGATTGGTTTAGTT
1 AGGGGATCAATTGGTCGAGTT
9438672 AGGGGATCAATTTGGTCGAGTT
1 AGGGGATCAA-TTGGTCGAGTT
9438694 GGGTGGTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.07, G:0.37, T:0.35
Consensus pattern (21 bp):
AGGGGATCAATTGGTCGAGTT
Found at i:9448576 original size:22 final size:22
Alignment explanation
Indices: 9448547--9448594 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9448537 CTAAAAAGAG
9448547 AAAA-TGGTCTTTGTTATTTAA
1 AAAAGTGGTCTTTGTTATTTAA
*
9448568 AAAAGTGGTTTTTGTTATTTAA
1 AAAAGTGGTCTTTGTTATTTAA
*
9448590 CAAAG
1 AAAAG
9448595 ACAACATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (22 bp):
AAAAGTGGTCTTTGTTATTTAA
Found at i:9449935 original size:21 final size:20
Alignment explanation
Indices: 9449888--9449925 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9449878 TATTAATTTT
9449888 AAATAA-TTAAAATTTTATA
1 AAATAATTTAAAATTTTATA
9449907 AAATAATTTAAATATTTTA
1 AAATAATTTAAA-ATTTTA
9449926 GTAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATTTAAAATTTTATA
Found at i:9452040 original size:72 final size:72
Alignment explanation
Indices: 9451948--9452086 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 72
9451938 AATTTGAATA
* * **
9451948 GTTAATAATTTGACTAAATTCGATAATTAATTGAAGTATAGGAATCCAATTTGAACATTTTAAGG
1 GTTAACAATTTAACTAAATTCGATAATTAATTGAAGTATAGGAATCCAATTTGAACAAATTAAGG
9452013 TAAAGCT
66 TAAAGCT
* *
9452020 GTTAACAATTTAACTAAATTCGTTAATTAATTGAAGTATAGGAATTCAATTTGAACAAATTAAGG
1 GTTAACAATTTAACTAAATTCGATAATTAATTGAAGTATAGGAATCCAATTTGAACAAATTAAGG
9452085 TA
66 TA
9452087 GAGGGACTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (72 bp):
GTTAACAATTTAACTAAATTCGATAATTAATTGAAGTATAGGAATCCAATTTGAACAAATTAAGG
TAAAGCT
Found at i:9452736 original size:23 final size:23
Alignment explanation
Indices: 9452663--9452743 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
9452653 TTGTTAACAT
*
9452663 TAAATAAATATATTCACAAACATATA
1 TAAATAAATATATTCA-TAA-ATA-A
* *
9452689 TAAATAAATATGTTCCTAAATAA
1 TAAATAAATATATTCATAAATAA
*
9452712 TAAATAAGTATATTCAT-AATCAA
1 TAAATAAATATATTCATAAAT-AA
*
9452735 TATATAAAT
1 TAAATAAAT
9452744 CATAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.07
23 24 0.52
24 3 0.07
25 2 0.04
26 14 0.30
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAATAAATATATTCATAAATAA
Found at i:9452767 original size:14 final size:15
Alignment explanation
Indices: 9452738--9452775 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
9452728 TAATCAATAT
*
9452738 ATAAATCATAACCAA
1 ATAAATCATAAACAA
9452753 ATAAAT-ATAAACAA
1 ATAAATCATAAACAA
9452767 ATAAA-CATA
1 ATAAATCATA
9452776 CAATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAATCATAAACAA
Found at i:9454722 original size:34 final size:34
Alignment explanation
Indices: 9454684--9454770 Score: 79
Period size: 33 Copynumber: 2.6 Consensus size: 34
9454674 AATTTAATGG
* *
9454684 CATTTGTATAAAAAAAATGCCATT-AATATGGTGA
1 CATTTGTATAAAAAAAATGCCATTAAAT-TAGCGA
* * * * *
9454718 CATTTATAT-GATAAGATGCCGTTAAATTAGCGA
1 CATTTGTATAAAAAAAATGCCATTAAATTAGCGA
*
9454751 CGTTTGTATAAAAAAAATGC
1 CATTTGTATAAAAAAAATGC
9454771 TGCTAATTAA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
33 21 0.54
34 18 0.46
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (34 bp):
CATTTGTATAAAAAAAATGCCATTAAATTAGCGA
Found at i:9456490 original size:140 final size:140
Alignment explanation
Indices: 9456238--9456499 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 140
9456228 CAAAAATAGT
* *
9456238 CCTAAATAGACATAAACGATAACTTTTTCATACATATCAATCGTAGAAACCAAATTCAATCATTC
1 CCTAAATAGACATAAACAATAACTTTTTCATACATATCAACCGTAGAAACCAAATTCAATCATTC
*
9456303 GGACAAATTTAATATCAAGTATTGAAGCTATCCAAAATATTAAAATAAAACAATAACAAGAAATT
66 GGACAAATTTAATATCAAGTATTGAAACTATCCAAAATATTAAAATAAAACAATAACAAGAAATT
9456368 TGTATTTTTA
131 TGTATTTTTA
** * * * * * *
9456378 CCTAAATAGATGTAAACAATATCTTTTTCATACATATCAACCGTGGCAACTAAGTTTAAT-ACTT
1 CCTAAATAGACATAAACAATAACTTTTTCATACATATCAACCGTAGAAACCAAATTCAATCA-TT
* * * *
9456442 TGGATAAGTTTAATATCATGTATTGAAACTAT-CAAAACTATTAAAATAAAACAATAAC
65 CGGACAAATTTAATATCAAGTATTGAAACTATCCAAAA-TATTAAAATAAAACAATAAC
9456500 TGTTAATTTG
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 6 0.06
140 99 0.94
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (140 bp):
CCTAAATAGACATAAACAATAACTTTTTCATACATATCAACCGTAGAAACCAAATTCAATCATTC
GGACAAATTTAATATCAAGTATTGAAACTATCCAAAATATTAAAATAAAACAATAACAAGAAATT
TGTATTTTTA
Found at i:9459874 original size:12 final size:12
Alignment explanation
Indices: 9459857--9459886 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9459847 ATTATCCTCC
9459857 ACATCACTTTGA
1 ACATCACTTTGA
9459869 ACATCACTTTGA
1 ACATCACTTTGA
9459881 ACATCA
1 ACATCA
9459887 AGATCACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (12 bp):
ACATCACTTTGA
Found at i:9462612 original size:63 final size:63
Alignment explanation
Indices: 9462539--9462917 Score: 180
Period size: 63 Copynumber: 5.9 Consensus size: 63
9462529 TTTAGTAAAA
* * * *
9462539 AAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTAC
1 AAATGCCTTCAATAATCTATTACTAAATTTTTAAAGGAATTATTGAAGGCATTTTTTGACTAC
* * * * * * * * *
9462602 AAATGCTTTCACTAAT-TCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCA-ATTTTGGCATA
1 AAATGCCTTCAATAATCTATTACTAAA-TTTTTAAAGGAA-TTATTGAAGGCATTTTTTGAC-TA
9462665 -
63 C
* ** ** * * * * *
9462665 ATATGCCTTCAATAATCCCCTT-C-ATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCT-AC
1 AAATGCCTTCAATAAT-CTATTACTAAATTT-TTAAAGGAAT-T-ATTGAAGGCA-TTTTTTGAC
* *
9462727 CAA
61 TAC
* * * * * *
9462730 AAATACCTTCAATAATCCATT-CCAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAA
1 AAATGCCTTCAATAATCTATTACTAAATTTTTAAAGGAA-TTATTGAAGGCA-TTTTTTG---AC
9462794 TAC
61 TAC
* * * *
9462797 AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTAC
1 -AAATGCCTTCAATAATCTATTACTAAATTTTTAAAGGAATTATTGAAGGCATTTTTTGACTAC
* * * * * * *
9462861 AAATGCCTTCACTAAT-TCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTT
1 AAATGCCTTCAATAATCTATTACTAAA-TTTTTAAAGGAA-TTATTGAAGGCATTTTT
9462918 GGCATAATAT
Statistics
Matches: 235, Mismatches: 60, Indels: 41
0.70 0.18 0.12
Matches are distributed among these distances:
62 16 0.07
63 91 0.39
64 52 0.22
65 24 0.10
66 2 0.01
67 9 0.04
68 29 0.12
69 12 0.05
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (63 bp):
AAATGCCTTCAATAATCTATTACTAAATTTTTAAAGGAATTATTGAAGGCATTTTTTGACTAC
Found at i:9462760 original size:128 final size:128
Alignment explanation
Indices: 9462626--9463069 Score: 429
Period size: 128 Copynumber: 3.5 Consensus size: 128
9462616 ATTCTTCCAA
* * *
9462626 AATTTTTTTAAGGAATTTATTAAAGGCA-ATTTTGGCATAATATGCCTTCAATAATCCCCTTCAT
1 AATTTTTTAAAAGAACTTATTAAAGGCATATTTTGGCATAATATGCCTTCAATAATCCCCTTCAT
9462690 TTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAATACCTTCAATAATCCATTCC
66 TTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAATACCTTCAATAATCCATTCC
* * * * **
9462753 AATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACAAAATGCTTTCAATAAT-CTA
1 AATTTTTTAAAAGAACTTATTAAAGGCATATTTTGGCATAAT-----ATGCCTTCAATAATCCCC
* * * * ** * * * * * *
9462817 TT-AGTAAATTT-TTAAAGGGAT-T-ATTGAAGCCA-TTTTTTGACTACAAATGCCTTCACTAAT
61 TTCA-T--TTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCT-ACCAAAAATACCTTCAATAAT
*
9462877 TC-TTCC
122 CCATTCC
* * * *
9462883 AAAATTTTTTTAAGGAATTTATTAAAGGCA-ATTTTGGCATAATATGCCTTTAATAATCCCCTTC
1 --AATTTTTTAAAAGAACTTATTAAAGGCATATTTTGGCATAATATGCCTTCAATAATCCCCTTC
* *
9462947 ATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAATACATTCAATAATCCATTCT
64 ATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAATACCTTCAATAATCCATTCC
* * * * *
9463012 AATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAATCC
1 AATTTTTTAAAAGAACTTATTAAAGGCATATTTTGGCATAATATGCCTTCAATAATCC
9463070 TTTCAAATTT
Statistics
Matches: 243, Mismatches: 54, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
125 3 0.01
126 20 0.08
127 53 0.22
128 62 0.26
129 7 0.03
130 8 0.03
131 37 0.15
132 29 0.12
133 21 0.09
134 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (128 bp):
AATTTTTTAAAAGAACTTATTAAAGGCATATTTTGGCATAATATGCCTTCAATAATCCCCTTCAT
TTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAATACCTTCAATAATCCATTCC
Found at i:9463002 original size:259 final size:259
Alignment explanation
Indices: 9462538--9463055 Score: 1000
Period size: 259 Copynumber: 2.0 Consensus size: 259
9462528 TTTTAGTAAA
9462538 AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTACA
1 AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTACA
*
9462603 AATGCTTTCACTAATTCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTTGGCATAATA
66 AATGCCTTCACTAATTCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTTGGCATAATA
9462668 TGCCTTCAATAATCCCCTTCATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAA
131 TGCCTTCAATAATCCCCTTCATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAA
*
9462733 TACCTTCAATAATCCATTCCAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC
196 TACATTCAATAATCCATTCCAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC
9462797 AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTACA
1 AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTACA
9462862 AATGCCTTCACTAATTCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTTGGCATAATA
66 AATGCCTTCACTAATTCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTTGGCATAATA
*
9462927 TGCCTTTAATAATCCCCTTCATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAA
131 TGCCTTCAATAATCCCCTTCATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAA
*
9462992 TACATTCAATAATCCATTCTAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC
196 TACATTCAATAATCCATTCCAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC
9463056 GCCTTTAATA
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
259 255 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (259 bp):
AAAATGCTTTCAATAATCTATTAGTAAATTTTTAAAGGGATTATTGAAGCCATTTTTTGACTACA
AATGCCTTCACTAATTCTTCCAAAATTTTTTTAAGGAATTTATTAAAGGCAATTTTGGCATAATA
TGCCTTCAATAATCCCCTTCATTTTTATTTAAGGAATATCAGTGAAGGTAGTTCTCTACCAAAAA
TACATTCAATAATCCATTCCAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC
Found at i:9463144 original size:128 final size:126
Alignment explanation
Indices: 9462567--9463172 Score: 303
Period size: 128 Copynumber: 4.8 Consensus size: 126
9462557 ATTAGTAAAT
* * * * * *
9462567 TTTTAAAGG-GATTATTGAAGCCATTTTTTGACTACAAATGCTTTCACTAAT-TC-TTCCAAAAT
1 TTTTAAAGGAGATTATTGAAGAC-GTTTTTGACTAAAAATGCATTCAATAATCTCATTTCAAAAT
* * * * * * * * * *
9462629 TTTTTTAAGGAATTTATTAAAGGCA-ATTTTGGCATAATATGCCTTCAATAATCCCCTTC-AT
65 TTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAAT-CCTTTCAAA
* * * * *
9462690 TTTTATTTAAGGA-ATATCAGTGAAGGTA-GTTCTCT-ACCAAAAATACCTTCAATAATC-CA-T
1 TTTTA---AAGGAGAT-T-ATTGAA-G-ACGTT-TTTGACTAAAAATGCATTCAATAATCTCATT
*
9462750 TC-CAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACAAAATG-CTTTCAATAA
58 TCAAAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATAC-----GCCTTT-AATAA
*
9462813 T-CTATTAGTAAA
117 TCCT-TT--CAAA
* * * * * *
9462825 TTTTTAAAGG-GATTATTGAAGCCATTTTTTGACTACAAATGCCTTCACTAAT-TC-TTCCAAAA
1 -TTTTAAAGGAGATTATTGAAGAC-GTTTTTGACTAAAAATGCATTCAATAATCTCATTTCAAAA
* * * * * * * * *
9462887 TTTTTTTAAGGAATTTATTAAAGGCA-ATTTTGGCATAATATGCCTTTAATAATCCCCTTC-AT
64 TTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAAT-CCTTTCAAA
* * * *
9462949 TTTTATTTAAGGA-ATATCAGTGAAGGTA-GTTCTCT-ACCAAAAATACATTCAATAATC-CA-T
1 TTTTA---AAGGAGAT-T-ATTGAA-G-ACGTT-TTTGACTAAAAATGCATTCAATAATCTCATT
*
9463009 TC-TAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAATCCTTT
58 TCAAAATTTTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAATCCTTT
9463073 CAAA
123 CAAA
* *
9463077 TTTTAACAGGAGATTTTTGAAGACGTTTTTGACTAAAAATGCTTTCAATAATCTCATCTTCAAAA
1 TTTTAA-AGGAGATTATTGAAGACGTTTTTGACTAAAAATGCATTCAATAATCTCAT-TTCAAAA
* *
9463142 --TTTTAAAAGAAATAATTTG-AGGCATTTTTTT
64 TTTTTTAAAAGAACTTA-TTGAAGGCATTTTTTT
9463173 ATAAAATGCT
Statistics
Matches: 357, Mismatches: 71, Indels: 107
0.67 0.13 0.20
Matches are distributed among these distances:
123 13 0.04
124 24 0.07
125 7 0.02
126 49 0.14
127 69 0.19
128 97 0.27
129 6 0.02
130 3 0.01
131 40 0.11
132 30 0.08
133 13 0.04
135 1 0.00
136 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (126 bp):
TTTTAAAGGAGATTATTGAAGACGTTTTTGACTAAAAATGCATTCAATAATCTCATTTCAAAATT
TTTTAAAAGAACTTATTGAAGGCATTTTTTTGCATAATACGCCTTTAATAATCCTTTCAAA
Found at i:9464115 original size:62 final size:63
Alignment explanation
Indices: 9464001--9464119 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 63
9463991 TTTGTACAAA
* * **
9464001 ATTATTAAAGGTGTTTTCTAAGAAAAAATGCCTTCAATAATTTCTTTTTAAAATTTTTTTGAG
1 ATTATTAAAGGTGTTTTCTAAGAAAAAATGCCTTCAATAATCTCGTAGTAAAATTTTTTTGAG
*
9464064 ATTATTAAAGGTGTATTT-T-AGTAAAAATGCCTTCAATAATCTCGTAGTAAAATTTT
1 ATTATTAAAGGTGT-TTTCTAAGAAAAAATGCCTTCAATAATCTCGTAGTAAAATTTT
9464120 AAGGGATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 32 0.64
63 15 0.30
64 3 0.06
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (63 bp):
ATTATTAAAGGTGTTTTCTAAGAAAAAATGCCTTCAATAATCTCGTAGTAAAATTTTTTTGAG
Found at i:9464396 original size:366 final size:363
Alignment explanation
Indices: 9463278--9464408 Score: 1363
Period size: 365 Copynumber: 3.1 Consensus size: 363
9463268 AATGGGCTGG
* ** *
9463278 ATTATTGAAGGTA-TTTTCTTAAAAAAAAAAACCTTTAATAAATTTC-TTTTAAAATTTTTTT-A
1 ATTATTGAAGGTATTTTTC-T-AAGAAAAATGCCTTCAAT-AATTTCTTTTTAAAATTTTTTTGA
* * *
9463340 GGATTATTAAATGTATCTTTTAGTAAAACACGCCTTCAATAATCTCATAGTAAAATTTTAAGGGG
63 -GATTATTAAAGGTGTCTTTTAGTAAAA-ACGCCTTCAATAATCTCGTAGTAAAATTTTAA-GGG
** *
9463405 ATTATTGAAGGTGTTTTT---------TTCTTCACTAATTTTCTCTAATTTTTTGAAGGAATTTA
125 ATTATTGAAGGCATTTTTGCAAAAAAATT-TTTACTAATTTTCTCTAATTTTTTGAAGGAATTTA
* * * * * *
9463461 TTGAATGCATTTTTTGCATAATATGCCTTCAATAATTTCTTCCATTTTTATCAGGGGAATATTAG
189 TTGAAAGCGTTTTTTGCATAATACGCCTTCAATAATTTCTTTCATTTTTATCAGGTGAATATCAG
* * *
9463526 TGAAGGTGATTTTTTTACTAAAAACGCCTTCAATAATTCACTCCAATTTTTAAGAGGAATTTATT
254 TGAAGGTGA-TTTTCTACTAAAAACGCCTTCAATAATTCACTTCAATTTTTAAGAGAAATTTATT
* * * * *
9463591 GAAG--GTGTTTTTGGCATTACATGGCT-TCAATAATTTTTTTACAAA
318 GAAGACAT-TTTTTTGCATCATAT-GCTCTCAATAATTTTTATACAAA
* * * * *
9463636 ATTATTGAAGGCATTTTT-TGAGAAAAATGCCTTTAATAATTT-TTTTTAAAAAATTTTGTGAGA
1 ATTATTGAAGGTATTTTTCTAAGAAAAATGCCTTCAATAATTTCTTTTT-AAAATTTTTTTGAGA
* * *
9463699 TTATTAAAGGCGTCTTTTAGTAAAAACGCCTTCACTAATCTAGTAGTAAAATTTTAAGGAGATTA
65 TTATTAAAGGTGTCTTTTAGTAAAAACGCCTTCAATAATCTCGTAGTAAAATTTTAAGG-GATTA
*
9463764 TTGAAGGCATTTTTGTCAAAAAAAATACCTTTACTAATTTTCTCTAATTTTTTGAAGGAATTTAT
129 TTGAAGGCATTTTTG-C-AAAAAAAT--TTTTACTAATTTTCTCTAATTTTTTGAAGGAATTTAT
* * * *
9463829 TGAAAGCGTTTTTTGCATAATACGCCTTCAATAATTTCTCT-ATTTTTGTCAAGTGAATATCAAT
190 TGAAAGCGTTTTTTGCATAATACGCCTTCAATAATTTCTTTCATTTTTATCAGGTGAATATCAGT
* * ** *
9463893 GAATGCGATTTTCTACTAAAAATACCTTCAATAATTCAC-TCTAATTTTTAAGAAAAATTTATTG
255 GAAGGTGATTTTCTACTAAAAACGCCTTCAATAATTCACTTC-AATTTTTAAGAGAAATTTATTG
* *
9463957 AAGACA-TTTTTTACATCATATGC-CTTCAATAATTTTTGTACAAA
319 AAGACATTTTTTTGCATCATATGCTC-TCAATAATTTTTATACAAA
* *
9464001 ATTATTAAAGGT-GTTTTCTAAGAAAAAATGCCTTCAATAATTTCTTTTTAAAATTTTTTTGAGA
1 ATTATTGAAGGTATTTTTCTAAG-AAAAATGCCTTCAATAATTTCTTTTTAAAATTTTTTTGAGA
* *
9464065 TTATTAAAGGTGTATTTTAGTAAAAATGCCTTCAATAATCTCGTAGTAAAATTTTAAGGGATTAT
65 TTATTAAAGGTGTCTTTTAGTAAAAACGCCTTCAATAATCTCGTAGTAAAATTTTAAGGGATTAT
* * *
9464130 TGAAGACATTTTTGCCAGAAAAACATTTTTACTAATTTTCTCTAATTTTTTGAAAGAATTTATTT
130 TGAAGGCATTTTTG-CA-AAAAA-ATTTTTACTAATTTTCTCTAATTTTTTGAAGGAATTTATTG
* * * *
9464195 AAGGCGTTTTTTGCATAATACGCCTTTAATAATTCCTTTCATTTTTTTCAGGTGAATATCAGTGA
192 AAAGCGTTTTTTGCATAATACGCCTTCAATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGA
* *
9464260 AGGTGGTTTTCTACTAAAAACGCTTTCAATAATTCACTTCAATTTTTAAGAGAAATTTATTGAAG
257 AGGTGATTTTCTACTAAAAACGCCTTCAATAATTCACTTCAATTTTTAAGAGAAATTTATTGAAG
*
9464325 ACATTTTTTTGCATCATATGCTCTCAATAATTTTTATACAGA
322 ACATTTTTTTGCATCATATGCTCTCAATAATTTTTATACAAA
*
9464367 ATTATTGAAGGTATTTTTGCT-AGAAAAATGCCTTCACTAATT
1 ATTATTGAAGGTATTTTT-CTAAGAAAAATGCCTTCAATAATT
9464409 CTCTCTAATT
Statistics
Matches: 661, Mismatches: 78, Indels: 60
0.83 0.10 0.08
Matches are distributed among these distances:
354 2 0.00
355 55 0.08
356 47 0.07
357 2 0.00
358 12 0.02
359 4 0.01
364 79 0.12
365 198 0.30
366 177 0.27
367 83 0.13
368 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (363 bp):
ATTATTGAAGGTATTTTTCTAAGAAAAATGCCTTCAATAATTTCTTTTTAAAATTTTTTTGAGAT
TATTAAAGGTGTCTTTTAGTAAAAACGCCTTCAATAATCTCGTAGTAAAATTTTAAGGGATTATT
GAAGGCATTTTTGCAAAAAAATTTTTACTAATTTTCTCTAATTTTTTGAAGGAATTTATTGAAAG
CGTTTTTTGCATAATACGCCTTCAATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGGT
GATTTTCTACTAAAAACGCCTTCAATAATTCACTTCAATTTTTAAGAGAAATTTATTGAAGACAT
TTTTTTGCATCATATGCTCTCAATAATTTTTATACAAA
Found at i:9464522 original size:731 final size:721
Alignment explanation
Indices: 9463278--9464593 Score: 1529
Period size: 731 Copynumber: 1.8 Consensus size: 721
9463268 AATGGGCTGG
* *
9463278 ATTATTGAAGGTATTTTCTTAAAAAAAAAAACCTTTAATAAATTTCTTTTAAAATTTTTTTAGGA
1 ATTATTAAAGGTATTTTCTTAAAAAAAAAAACCTTCAATAAATTTCTTTTAAAATTTTTTTAGGA
* *
9463343 TTATTAAATGTATCTTTTAGTAAAACACGCCTTCAATAATCTCATAGTAAAATTTTAAGGGGATT
66 TTATTAAAGGTATATTTTAGTAAAACACGCCTTCAATAATCTCATAGTAAAATTTTAAGGGGATT
*** * *
9463408 ATTGAAGGTGTTTTTTTCTTCACTAATTTTCTCTAATTTTTTGAAGGAATTTATTGAATGCATTT
131 ATTGAAGACATTTTTTTCTTCACTAATTTTCTCTAATTTTTTGAAAGAATTTATTGAAGGCATTT
* * * *
9463473 TTTGCATAATATGCCTTCAATAATTTCTTCCATTTTTATCAGGGGAATATTAGTGAAGGTGATTT
196 TTTGCATAATACGCCTTCAATAATTCCTTCCATTTTTATCAGGGGAATATCAGTGAAGGTGAGTT
* * *
9463538 TTTTACTAAAAACGCCTTCAATAATTCACTCCAATTTTTAAGAGGAATTTATTGAAGGTGTTTTT
261 TTCTACTAAAAACGCCTTCAATAATTCACTCCAATTTTTAAGAGAAATTTATTGAAGATGTTTTT
* *
9463603 GGCATTACATGGCTTCAATAATTTTTTTACAAAATTATTGAAGGCATTTTTTGAGAAAAATGCCT
326 GGCATCACATGGCTTCAATAATTTTTATACAAAATTATTGAAGGCATTTTTTGAGAAAAATGCCT
* * * * ** * * * *
9463668 TTAATAATTTTTTTTAAAAAATTTTGTGAGATTATTAAAGGCGTCTTTTAGTAAAAACGCCTTCA
391 TCAATAATTCTCTCT-AAAAATTTTAAGAAATTATTAAAGGCATCTTTTAATAAAAACACCTTCA
* * * * * *
9463733 CTAATCTAGTAGTAAAATTTTAAGGAGATTATTGAAGGCATTTTTGTCAAAAAAAATACCTTTAC
455 ATAATCTACTA-TAAAATTTTAAGGAGATTAGTGAAGGCATTTTTCTCAAAAAAAATACCTTCAA
** * *
9463798 TAATTTTCTCTAATTTTTTGAAG-GAA-TTTATTGAAAGCGTTTTTTGCATAATACGCCTTCAAT
519 TAATTCACTCTAA-TTTTT-AAGAAAACTTTATTGAAAGCATTTTTTGCATAATACGCCTTCAAT
9463861 AATTTCTCTATTTTTGTCAAGTGAATATCAATGAATGCGATTTTCTACTAAAAATACCTTCAATA
582 AATTTCTCTATTTTTGTCAAGTGAATATCAATGAATGCGATTTTCTACTAAAAATACCTTCAATA
9463926 ATTCACTCTAATTTTTAAGAAAAATTTATTGAAGACATTTTTTACATCATATGCCTTCAATAATT
647 ATTCACTCTAATTTTTAAGAAAAATTTATTGAAGACATTTTTTACATCATATGCCTTCAATAATT
9463991 TTTGTACAAA
712 TTTGTACAAA
* * **
9464001 ATTATTAAAGGTGTTTTC-TAAGAAAAAATGCCTTCAAT-AATTTCTTTTTAAAATTTTTTT-GA
1 ATTATTAAAGGTATTTTCTTAAAAAAAAAAACCTTCAATAAATTTC-TTTTAAAATTTTTTTAG-
* * *
9464063 GATTATTAAAGGTGTATTTTAGTAAAA-ATGCCTTCAATAATCTCGTAGTAAAATTTTAA-GGGA
64 GATTATTAAAGGTATATTTTAGTAAAACACGCCTTCAATAATCTCATAGTAAAATTTTAAGGGGA
*
9464126 TTATTGAAGACATTTTTGCCAGAAAAACATT-TTTACTAATTTTCTCTAATTTTTTGAAAGAATT
129 TTATTGAAGACATTTTT------------TTCTTCACTAATTTTCTCTAATTTTTTGAAAGAATT
* * * * * *
9464190 TATTTAAGGCGTTTTTTGCATAATACGCCTTTAATAATTCCTTTCATTTTTTTCAGGTGAATATC
182 TATTGAAGGCATTTTTTGCATAATACGCCTTCAATAATTCCTTCCATTTTTATCAGGGGAATATC
* *
9464255 AGTGAAGGTG-GTTTTCTACTAAAAACGCTTTCAATAATTCACTTCAATTTTTAAGAGAAATTTA
247 AGTGAAGGTGAGTTTTCTACTAAAAACGCCTTCAATAATTCACTCCAATTTTTAAGAGAAATTTA
* * * *
9464319 TTGAAGACAT-TTTTTTGCATCATAT-GCTCTCAATAATTTTTATACAGAATTATTGAAGGTA-T
312 TTGAAG--ATGTTTTTGGCATCACATGGCT-TCAATAATTTTTATACAAAATTATTGAAGGCATT
* ** * *
9464381 TTTTGCTAGAAAAATGCCTTCACTAATTCTCTCT-AATTTTTTAAGAAATT-TATAGAAGGTATT
374 TTTTG--AGAAAAATGCCTTCAATAATTCTCTCTAAAAATTTTAAGAAATTAT-TA-AAGGCATC
* * ***
9464444 TTTTACAT-AATACACCTTCAATAATTCTCCT-TATTTTTATTAA-GAGAATTCAGTGAATGAG-
435 TTTTA-ATAAAAACACCTTCAATAA-TCTACTATAAAATT-TTAAGGAG-ATT-AGTGAA-G-GC
*** * *
9464505 A-TTTTCT-ACTGAAAATACCTTCAATAATTCACTTTAATTTTTAAGAAAACTTTATTGAAGGCA
493 ATTTTTCTCAAAAAAAATACCTTCAATAATTCACTCTAATTTTTAAGAAAACTTTATTGAAAGCA
* *
9464568 TTTTTTGTATCATACGCCTTCAATAA
558 TTTTTTGCATAATACGCCTTCAATAA
9464594 ATTTTGTACA
Statistics
Matches: 488, Mismatches: 75, Indels: 52
0.79 0.12 0.08
Matches are distributed among these distances:
720 18 0.04
721 37 0.08
722 55 0.11
723 16 0.03
729 4 0.01
730 91 0.19
731 224 0.46
732 40 0.08
733 2 0.00
734 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (721 bp):
ATTATTAAAGGTATTTTCTTAAAAAAAAAAACCTTCAATAAATTTCTTTTAAAATTTTTTTAGGA
TTATTAAAGGTATATTTTAGTAAAACACGCCTTCAATAATCTCATAGTAAAATTTTAAGGGGATT
ATTGAAGACATTTTTTTCTTCACTAATTTTCTCTAATTTTTTGAAAGAATTTATTGAAGGCATTT
TTTGCATAATACGCCTTCAATAATTCCTTCCATTTTTATCAGGGGAATATCAGTGAAGGTGAGTT
TTCTACTAAAAACGCCTTCAATAATTCACTCCAATTTTTAAGAGAAATTTATTGAAGATGTTTTT
GGCATCACATGGCTTCAATAATTTTTATACAAAATTATTGAAGGCATTTTTTGAGAAAAATGCCT
TCAATAATTCTCTCTAAAAATTTTAAGAAATTATTAAAGGCATCTTTTAATAAAAACACCTTCAA
TAATCTACTATAAAATTTTAAGGAGATTAGTGAAGGCATTTTTCTCAAAAAAAATACCTTCAATA
ATTCACTCTAATTTTTAAGAAAACTTTATTGAAAGCATTTTTTGCATAATACGCCTTCAATAATT
TCTCTATTTTTGTCAAGTGAATATCAATGAATGCGATTTTCTACTAAAAATACCTTCAATAATTC
ACTCTAATTTTTAAGAAAAATTTATTGAAGACATTTTTTACATCATATGCCTTCAATAATTTTTG
TACAAA
Found at i:9464561 original size:240 final size:239
Alignment explanation
Indices: 9464160--9464645 Score: 589
Period size: 240 Copynumber: 2.0 Consensus size: 239
9464150 AAACATTTTT
* ** * * * *
9464160 ACTAATTTTCTCTAATTTTTTGAAAGAATTTATTTAAGGCGTTTTTTGCATAATACGCCTTTAAT
1 ACTAATTCTCTCTAATTTTTTGAAAGAATTTATAGAAGGCATTTTTTACATAATACACCTTCAAT
* * * * *
9464225 AATTCCTTTCATTTTTTTCAGGTGAATATCAGTGAAGGTGGTTTTCTACTAAAAACGCTTTCAAT
66 AATTCCCTTCATTTTTTTCAAGAGAATATCAGTGAAGGAGATTTTCTACTAAAAACGCTTTCAAT
*
9464290 AATTCACTTCAATTTTTAAGAGAAATTTATTGAAGACATTTTTTTGCATCATATG-CTCTCAATA
131 AATTCACTTCAATTTTTAAGAGAAATTTATTGAAGACA-TTTTTTGCATCATACGCCT-TCAATA
* *
9464354 ATTTTTATACAGAATTATTGAAGGTATTTTTGCT-AG-AAAAATGCCTTC
194 AATTTTATACAAAATTA-T-AAGGTATTTTT--TAAGAAAAAATGCCTTC
*
9464402 ACTAATTCTCTCTAATTTTTT--AAGAAATTTATAGAAGGTATTTTTTACATAATACACCTTCAA
1 ACTAATTCTCTCTAATTTTTTGAAAG-AATTTATAGAAGGCATTTTTTACATAATACACCTTCAA
*
9464465 TAATTCTCCTT-ATTTTTATT-AAGAGAAT-TCAGTGAATGAGATTTTCTACTGAAAATAC-C-T
65 TAATTC-CCTTCATTTTT-TTCAAGAGAATATCAGTGAAGGAGATTTTCTACT-AAAA-ACGCTT
* * *
9464525 TCAATAATTCACTTTAATTTTTAAGA-AAACTTTATTGAAGGCATTTTTTGTATCATACGCCTTC
126 TCAATAATTCACTTCAATTTTTAAGAGAAA-TTTATTGAAGACATTTTTTGCATCATACGCCTTC
*
9464589 AATAAATTTTGTACAAAATTATAAGGTATTTTTTAAGAAAAAATGCCTTC
190 AATAAATTTTATACAAAATTATAAGGTATTTTTTAAGAAAAAATGCCTTC
*
9464639 AATAATT
1 ACTAATT
9464646 TTCTTTTAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
235 1 0.00
236 2 0.01
237 29 0.14
238 1 0.00
239 37 0.17
240 62 0.29
241 54 0.25
242 27 0.13
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (239 bp):
ACTAATTCTCTCTAATTTTTTGAAAGAATTTATAGAAGGCATTTTTTACATAATACACCTTCAAT
AATTCCCTTCATTTTTTTCAAGAGAATATCAGTGAAGGAGATTTTCTACTAAAAACGCTTTCAAT
AATTCACTTCAATTTTTAAGAGAAATTTATTGAAGACATTTTTTGCATCATACGCCTTCAATAAA
TTTTATACAAAATTATAAGGTATTTTTTAAGAAAAAATGCCTTC
Found at i:9468317 original size:127 final size:127
Alignment explanation
Indices: 9468109--9468348 Score: 333
Period size: 127 Copynumber: 1.9 Consensus size: 127
9468099 CAAAATCGCC
* * *
9468109 TTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCGTTTTAGCCAAAAAATGCCT
1 TTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCCTTTCAGCCAAAAAACGCCT
* * *
9468174 TTAAGAATCTATTCCAACTTTTTTGTATGGATTATTAAAGGTATTTTTTTTTCAAAACCACA
66 TTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTAGTTTTTTTTCAAAACCACA
* * *
9468236 TTCAATAATCCCTTATAAAAATTTATTGAT-T-GAATTATTGAAGGCACTTTCGGCC-AAAAACG
1 TTCAATAATCCCTAATAAAAATTTATTG-TGTAG-ATTATTAAAGGC-CTTTCAGCCAAAAAACG
* *
9468298 TCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTGAAGGTAGTTTT
63 CCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTAGTTTT
9468349 CTCCTGAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
126 1 0.01
127 91 0.92
128 7 0.07
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (127 bp):
TTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCCTTTCAGCCAAAAAACGCCT
TTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTAGTTTTTTTTCAAAACCACA
Found at i:9468367 original size:127 final size:126
Alignment explanation
Indices: 9468099--9468369 Score: 316
Period size: 127 Copynumber: 2.1 Consensus size: 126
9468089 CATTTTTGAC
* *
9468099 CAAAATCGCCTTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCGTTTTAGCCA
1 CAAAAT-GCCTTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCCTTTCAGCCA
* * * * **
9468164 AAAAATGCCTTTAAGAATCTATTCCAACTTTTTTGTATGGATTATTAAAGGTATTTTTTTTT
65 AAAAACGCCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTATTTTCTCCT
* * * *
9468226 CAAAA-CCACATTCAATAATCCCTTATAAAAATTTATTGAT-T-GAATTATTGAAGGCACTTTCG
1 CAAAATGC-C-TTCAATAATCCCTAATAAAAATTTATTG-TGTAG-ATTATTAAAGGC-CTTTCA
* *
9468288 GCC-AAAAACGTCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTGAAGGTAGTTTTCTC
61 GCCAAAAAACGCCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTA-TTTTCTC
9468352 CT
125 CT
*
9468354 GAAAATGCCTTCAATA
1 CAAAATGCCTTCAATA
9468370 TTCTCTCTCC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
125 1 0.01
126 2 0.02
127 99 0.82
128 18 0.15
129 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (126 bp):
CAAAATGCCTTCAATAATCCCTAATAAAAATTTATTGTGTAGATTATTAAAGGCCTTTCAGCCAA
AAAACGCCTTTAAGAATCTATTCCAAATTTTTTCTATGGATTATTAAAGGTATTTTCTCCT
Found at i:9469350 original size:18 final size:18
Alignment explanation
Indices: 9469312--9469350 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9469302 TTTAAAATCC
*
9469312 AAAATTCAAAAATTTTAA
1 AAAATTCAAAAAATTTAA
9469330 AAAATTCAAAAAATTTGAA
1 AAAATTCAAAAAATTT-AA
9469349 AA
1 AA
9469351 TTTAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATTCAAAAAATTTAA
Found at i:9469474 original size:19 final size:18
Alignment explanation
Indices: 9469416--9469474 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
9469406 AAATTTTCTT
*
9469416 AAAATTCAAAAAAATAGCA
1 AAAATTCAAAAAAAT-GTA
*
9469435 AAAACTT-AAAAAAATTATA
1 AAAA-TTCAAAAAAA-TGTA
9469454 AAAATTCAAATAAAATGTA
1 AAAATTCAAA-AAAATGTA
9469473 AA
1 AA
9469475 TTTTTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 2 0.06
19 24 0.73
20 7 0.21
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAATTCAAAAAAATGTA
Found at i:9469525 original size:10 final size:10
Alignment explanation
Indices: 9469491--9469581 Score: 55
Period size: 10 Copynumber: 9.4 Consensus size: 10
9469481 TTAAAAATCT
*
9469491 AAAATTTTTA
1 AAAAATTTTA
* *
9469501 AACAGATTTTG
1 AA-AAATTTTA
9469512 AAAAATTTT-
1 AAAAATTTTA
**
9469521 AAAAATTTGG
1 AAAAATTTTA
9469531 AAAAATTTTA
1 AAAAATTTTA
*
9469541 AAAGA--TTA
1 AAAAATTTTA
* *
9469549 AAAAA-TCTG
1 AAAAATTTTA
*
9469558 AAACATTTTA
1 AAAAATTTTA
*
9469568 AAAAATTATA
1 AAAAATTTTA
9469578 AAAA
1 AAAA
9469582 TAAAAAATTA
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
8 7 0.11
9 13 0.21
10 34 0.56
11 7 0.11
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (10 bp):
AAAAATTTTA
Done.