Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 54 of 64
Found at i:8589069 original size:22 final size:23
Alignment explanation
Indices: 8588978--8589081 Score: 81
Period size: 24 Copynumber: 4.6 Consensus size: 23
8588968 CATGTTTTCT
* * ** *
8588978 TTTTTCTTTTTCTTTTTTTTTTT
1 TTTTTATTTTTATTTTGATTTTA
*
8589001 TTTTCTATTTTGATTTTGATTTTA
1 TTTT-TATTTTTATTTTGATTTTA
*
8589025 --TTTA-TTTTATGTTGATTTTTA
1 TTTTTATTTTTATTTTGA-TTTTA
8589046 TTTTTATTTTTATTTTG-TTTTA
1 TTTTTATTTTTATTTTGATTTTA
* *
8589068 TTATTATTATTATT
1 TTTTTATTTTTATT
8589082 ATTATTATGT
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
20 9 0.14
21 7 0.11
22 19 0.29
23 8 0.12
24 22 0.34
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTTTATTTTTATTTTGATTTTA
Found at i:8589073 original size:3 final size:3
Alignment explanation
Indices: 8589043--8589089 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
8589033 ATGTTGATTT
* * *
8589043 TTA TTT TTA TTT TTA TT- TTG TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8589089 T
1 T
8589090 GTTATTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:8589081 original size:28 final size:28
Alignment explanation
Indices: 8589025--8589092 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
8589015 TTTGATTTTA
* * *
8589025 TTTATTTTATGTTGATTTTTATTTTTATT
1 TTTATTTTGT-TTGATTATTATTATTATT
*
8589054 TTTATTTTGTTTTATTATTATTATTATT
1 TTTATTTTGTTTGATTATTATTATTATT
* *
8589082 ATTATTATGTT
1 TTTATTTTGTT
8589093 ATTCATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTATTTTGTTTGATTATTATTATTATT
Found at i:8589184 original size:21 final size:21
Alignment explanation
Indices: 8589159--8589198 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8589149 AATTTTTGCA
8589159 AAAATAATTTAAGGAAAATTG
1 AAAATAATTTAAGGAAAATTG
** *
8589180 AAAATTTTTTAAGTAAAAT
1 AAAATAATTTAAGGAAAAT
8589199 GTTGCTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAATAATTTAAGGAAAATTG
Found at i:8589452 original size:12 final size:11
Alignment explanation
Indices: 8589437--8589486 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
8589427 TTATTTAAAC
8589437 AATATAAAAAAT
1 AATA-AAAAAAT
8589449 AATAAAATAAAT
1 AATAAAA-AAAT
*
8589461 AA-GAAAAAA-
1 AATAAAAAAAT
8589470 AATAAAAACAAT
1 AATAAAAA-AAT
8589482 AATAA
1 AATAA
8589487 TGGATTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 7 0.22
11 8 0.25
12 15 0.47
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:8589482 original size:21 final size:20
Alignment explanation
Indices: 8589433--8589483 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8589423 AGTTTTATTT
*
8589433 AAACAATATAAAAAATAATAA
1 AAACAATA-AAAAAAAAATAA
8589454 AATA-AATAAGAAAAAAAATAA
1 AA-ACAATAA-AAAAAAAATAA
8589475 AAACAATAA
1 AAACAATAA
8589484 TAATGGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (20 bp):
AAACAATAAAAAAAAAATAA
Found at i:8589869 original size:12 final size:13
Alignment explanation
Indices: 8589853--8589885 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8589843 TACAATGAAA
8589853 ATTAATTAAATAT
1 ATTAATTAAATAT
*
8589866 -TTAATTAAATCT
1 ATTAATTAAATAT
8589878 ATTAATTA
1 ATTAATTA
8589886 TCATCAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTAAATAT
Found at i:8602118 original size:40 final size:39
Alignment explanation
Indices: 8601976--8602240 Score: 212
Period size: 40 Copynumber: 6.6 Consensus size: 39
8601966 AAGTTTTATT
* * *
8601976 GCCTTTTGAATTTAAAGTTTCA-TAGCCTTAGGTCAAAATA
1 GCCTTTTAAATTTAAAGTTTCATTA-CCTT-GGTCAGAAGA
* * * * *
8602016 GCCTTTTAAATTCTAAAGTTTCATTGCTTTTAGTCAGATGG
1 GCCTTTTAAATT-TAAAGTTTCATTAC-CTTGGTCAGAAGA
* * * *
8602057 GCCTTTTTAATTTAAACTTTCATTACCTTGGTTAGAGGA
1 GCCTTTTAAATTTAAAGTTTCATTACCTTGGTCAGAAGA
* * *
8602096 GCCTTTTAAATTCTAAAGTTTCATTGCCTATGGTTAGAAAA
1 GCCTTTTAAATT-TAAAGTTTCATTACCT-TGGTCAGAAGA
* ***
8602137 GCTTTTTAAATTTAAAGTTTCATTGTTTCTGGTCAGAAGA
1 GCCTTTTAAATTTAAAGTTTCATTACCT-TGGTCAGAAGA
* * *
8602177 ACCTTTTAAATTTAAAGTTTTA-TAGCCTTTAGTCAG-AGAA
1 GCCTTTTAAATTTAAAGTTTCATTA-CC-TTGGTCAGAAG-A
8602217 GCCTTTTAAATTTCAAAGTTTCAT
1 GCCTTTTAAATTT-AAAGTTTCAT
8602241 AGCCTCTGCT
Statistics
Matches: 179, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
39 22 0.12
40 98 0.55
41 56 0.31
42 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (39 bp):
GCCTTTTAAATTTAAAGTTTCATTACCTTGGTCAGAAGA
Found at i:8602266 original size:80 final size:80
Alignment explanation
Indices: 8601976--8602245 Score: 280
Period size: 80 Copynumber: 3.4 Consensus size: 80
8601966 AAGTTTTATT
* *
8601976 GCCTTTTGAATTTAAAGTTTCATAGCCTTAGGTCA-AAATAGCCTTTTAAATTCTAAAGTTTCAT
1 GCCTTTTAAATTTAAAGTTTCATAGCCTT-GGTCAGAGA-AGCCTTTTAAATTCTAAAGTTTCAT
* *
8602040 TGCTTTTAGTCAGATG-G
64 TGCCTTTAGTCAGA-GAA
* * * *
8602057 GCCTTTTTAATTTAAACTTTCATTA-CCTTGGTTAGAGGAGCCTTTTAAATTCTAAAGTTTCATT
1 GCCTTTTAAATTTAAAGTTTCA-TAGCCTTGGTCAGAGAAGCCTTTTAAATTCTAAAGTTTCATT
* * * *
8602121 GCCTATGGTTAGAAAA
65 GCCTTTAGTCAGAGAA
* * ** *
8602137 GCTTTTTAAATTTAAAGTTTCATTGTTTCTGGTCAGAAGAA-CCTTTTAAATT-TAAAGTTTTAT
1 GCCTTTTAAATTTAAAGTTTCATAGCCT-TGGTCAG-AGAAGCCTTTTAAATTCTAAAGTTTCAT
*
8602200 AGCCTTTAGTCAGAGAA
64 TGCCTTTAGTCAGAGAA
8602217 GCCTTTTAAATTTCAAAGTTTCATAGCCT
1 GCCTTTTAAATTT-AAAGTTTCATAGCCT
8602246 CTGCTTAGAT
Statistics
Matches: 153, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.01
80 93 0.61
81 54 0.35
82 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (80 bp):
GCCTTTTAAATTTAAAGTTTCATAGCCTTGGTCAGAGAAGCCTTTTAAATTCTAAAGTTTCATTG
CCTTTAGTCAGAGAA
Found at i:8602269 original size:41 final size:40
Alignment explanation
Indices: 8602098--8602355 Score: 134
Period size: 40 Copynumber: 6.3 Consensus size: 40
8602088 TTAGAGGAGC
* * * *
8602098 CTTTTAAA-TTCTAAAGTTTCATTGCCTATGGTTAGAAAAG
1 CTTTTAAATTTC-AAAGTTTCATAGCCTCTGCTTAGATAAG
* ** * * * *
8602138 CTTTTTAAATTT-AAAGTTTCATTGTTTCTGGTCAGAAGAAC
1 C-TTTTAAATTTCAAAGTTTCATAGCCTCTGCTTAG-ATAAG
* * * *
8602179 CTTTTAAATTT-AAAGTTTTATAGCCTTTAG-TCAGAGAAG
1 CTTTTAAATTTCAAAGTTTCATAGCCTCT-GCTTAGATAAG
8602218 CCTTTTAAATTTCAAAGTTTCATAGCCTCTGCTTAGATAAG
1 -CTTTTAAATTTCAAAGTTTCATAGCCTCTGCTTAGATAAG
* * * *
8602259 CTTTTAAAATTTTTAAAAGTTGT--TGAACCTTTGCTTAGATGAG
1 CTTTT-AAA--TTTCAAAGTT-TCAT-AGCCTCTGCTTAGATAAG
* * * *
8602302 CTTTTAATTTTTCAAAAGTTGTCA-AGTCTCTACTTAGATGAG
1 CTTTTAA-ATTTC-AAAGTT-TCATAGCCTCTGCTTAGATAAG
8602344 CTTTTCAAATTT
1 CTTTT-AAATTT
8602356 TCTTTAAAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
39 4 0.02
40 63 0.36
41 40 0.23
42 35 0.20
43 31 0.18
44 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (40 bp):
CTTTTAAATTTCAAAGTTTCATAGCCTCTGCTTAGATAAG
Found at i:8602338 original size:42 final size:43
Alignment explanation
Indices: 8602219--8602356 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
8602209 TCAGAGAAGC
*
8602219 CTTTTAAA--TTTC-AAAGTT-TCATAGCCTCTGCTTAGATAAG
1 CTTTTAAATTTTTCAAAAGTTGTCA-AGCCTCTGCTTAGATGAG
* *
8602259 CTTTTAAAATTTTT-AAAAGTTGTTGAA-CCTTTGCTTAGATGAG
1 CTTTT-AAATTTTTCAAAAGTTG-TCAAGCCTCTGCTTAGATGAG
* *
8602302 CTTTT-AATTTTTCAAAAGTTGTCAAGTCTCTACTTAGATGAG
1 CTTTTAAATTTTTCAAAAGTTGTCAAGCCTCTGCTTAGATGAG
8602344 CTTTTCAAATTTT
1 CTTTT-AAATTTT
8602357 CTTTAAAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
40 5 0.06
41 13 0.16
42 26 0.32
43 28 0.35
44 7 0.09
45 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (43 bp):
CTTTTAAATTTTTCAAAAGTTGTCAAGCCTCTGCTTAGATGAG
Found at i:8603075 original size:10 final size:10
Alignment explanation
Indices: 8603059--8603088 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8603049 TTTGTTTTAA
8603059 GAATTTTTTT
1 GAATTTTTTT
8603069 -AATTTTTTT
1 GAATTTTTTT
8603078 GAATTTTTTT
1 GAATTTTTTT
8603088 G
1 G
8603089 GGGTCGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
GAATTTTTTT
Found at i:8603292 original size:21 final size:21
Alignment explanation
Indices: 8603268--8603310 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
8603258 CGGCTGGCAG
8603268 AAGA-GATATTTTTTAGAGAGA
1 AAGACGAT-TTTTTTAGAGAGA
8603289 AAGACTGATTTTTTTAGAGAGA
1 AAGAC-GATTTTTTTAGAGAGA
8603311 GAAAGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (21 bp):
AAGACGATTTTTTTAGAGAGA
Found at i:8603532 original size:3 final size:3
Alignment explanation
Indices: 8603526--8603580 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8603516 ATGATGATGA
8603526 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8603574 TAT TAT T
1 TAT TAT T
8603581 CATTTTTTAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8603776 original size:15 final size:14
Alignment explanation
Indices: 8603751--8603782 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
8603741 TAATTTTTGC
8603751 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
8603765 TAAAAGATAAAAAAA
1 TAAAA-ATAAAAAAA
8603780 TAA
1 TAA
8603783 TGAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:8604248 original size:16 final size:15
Alignment explanation
Indices: 8604223--8604252 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8604213 ATAATAGAAA
8604223 ACAAGAAAATTAATC
1 ACAAGAAAATTAATC
8604238 ACAATGAAAATTAAT
1 ACAA-GAAAATTAAT
8604253 TAAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (15 bp):
ACAAGAAAATTAATC
Found at i:8604591 original size:3 final size:3
Alignment explanation
Indices: 8604583--8604615 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
8604573 AAAATACGAA
*
8604583 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8604616 TTCACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8604843 original size:18 final size:20
Alignment explanation
Indices: 8604807--8604844 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8604797 AACAAATTTT
8604807 TTTTAATAAATCTTAATTAA
1 TTTTAATAAATCTTAATTAA
*
8604827 TTTTAA-AATTCTT-ATTAA
1 TTTTAATAAATCTTAATTAA
8604845 AAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAATAAATCTTAATTAA
Found at i:8606212 original size:3 final size:3
Alignment explanation
Indices: 8606204--8606249 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8606194 AGAAAGAAAT
8606204 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8606250 CATACCAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8607178 original size:20 final size:19
Alignment explanation
Indices: 8607138--8607176 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8607128 ATTTTTTTTT
8607138 ATTAAAAACGATTAAATAAA
1 ATTAAAAACGA-TAAATAAA
8607158 ATTAAAAACGA-AAATAAA
1 ATTAAAAACGATAAATAAA
8607176 A
1 A
8607177 AAATGATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
ATTAAAAACGATAAATAAA
Found at i:8608499 original size:2 final size:2
Alignment explanation
Indices: 8608492--8608524 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8608482 TTTGTTTATG
8608492 AT AT 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 AT AT A
8608525 GACTATTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8611997 original size:22 final size:22
Alignment explanation
Indices: 8611972--8612014 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8611962 AAAATTAATT
*
8611972 AAATAGATCAAATTAATTTAAA
1 AAATAAATCAAATTAATTTAAA
* *
8611994 AAATAAATTAAATTATTTTAA
1 AAATAAATCAAATTAATTTAA
8612015 TTAATTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATAAATCAAATTAATTTAAA
Found at i:8612047 original size:20 final size:19
Alignment explanation
Indices: 8611999--8612057 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
8611989 TTAAAAAATA
* *
8611999 AATTAAATTATTTTAA-TT
1 AATTAAAATAATTTAATTT
8612017 AATTAAAATAATTTAATTT
1 AATTAAAATAATTTAATTT
*
8612036 AATTTTAAATAATTTAATTT
1 AA-TTAAAATAATTTAATTT
8612056 AA
1 AA
8612058 AATTAATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 14 0.39
19 4 0.11
20 18 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTAAAATAATTTAATTT
Found at i:8612048 original size:15 final size:15
Alignment explanation
Indices: 8612030--8612060 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8612020 TAAAATAATT
*
8612030 TAATTTAATTTTAAA
1 TAATTTAATTTAAAA
8612045 TAATTTAATTTAAAA
1 TAATTTAATTTAAAA
8612060 T
1 T
8612061 TAATCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Found at i:8612063 original size:20 final size:20
Alignment explanation
Indices: 8611984--8612063 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
8611974 ATAGATCAAA
* *
8611984 TTAATTTAAAAAATAAATTAAA
1 TTAATTT-AAAATTAAA-TAAT
*
8612006 TTATTTTAATTAATTAAAATAAT
1 TTAATTTAA--AATT-AAATAAT
**
8612029 TTAATTTAATTTTAAATAAT
1 TTAATTTAAAATTAAATAAT
8612049 TTAATTTAAAATTAA
1 TTAATTTAAAATTAA
8612064 TCAAATTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 20 0.43
21 4 0.09
22 6 0.13
23 14 0.30
24 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTTAAAATTAAATAAT
Found at i:8613291 original size:36 final size:35
Alignment explanation
Indices: 8613223--8613297 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
8613213 AAATCAATAA
*
8613223 AAATAAATAACAAAAATTATTTTAATTATAA-TTT
1 AAATAAATAACAAAAATTAATTTAATTATAATTTT
*
8613257 AAATAAAATAACATAAAATTAATTTGA-TACTAATTTT
1 AAAT-AAATAACA-AAAATTAATTTAATTA-TAATTTT
8613294 AAAT
1 AAAT
8613298 GGTATGAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 4 0.11
35 10 0.29
36 14 0.40
37 7 0.20
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (35 bp):
AAATAAATAACAAAAATTAATTTAATTATAATTTT
Found at i:8617174 original size:24 final size:25
Alignment explanation
Indices: 8617146--8617200 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
8617136 TATTTATCAA
*
8617146 ATTAATAAATAATT-TAAAATATTT
1 ATTAATAAATAATTCAAAAATATTT
8617170 ATTAATAAATAATTCAAAAATATTT
1 ATTAATAAATAATTCAAAAATATTT
8617195 ATTAAT
1 ATTAAT
8617201 TTATTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTAATAAATAATTCAAAAATATTT
Found at i:8617197 original size:29 final size:28
Alignment explanation
Indices: 8617135--8617233 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 28
8617125 AAATTATTAG
* *
8617135 ATATTTATCAAATTAATAAATAATTTAAA-
1 ATATTTAT-TAATTAATAAATAA-TAAAAT
*
8617164 ATATTTATTAATAAAT-AAT--TCAAAA-
1 ATATTTATTAATTAATAAATAAT-AAAAT
* *
8617189 ATATTTATTAATTTATTATATAATAAAAT
1 ATATTTATTAA-TTAATAAATAATAAAAT
8617218 ATATTTATTAATTAAT
1 ATATTTATTAATTAAT
8617234 TTATTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
24 1 0.02
25 14 0.25
26 3 0.05
27 5 0.09
28 14 0.25
29 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATTTATTAATTAATAAATAATAAAAT
Found at i:8617265 original size:33 final size:34
Alignment explanation
Indices: 8617190--8617265 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
8617180 AATTCAAAAA
*
8617190 TATT-TATTAATTTATTATATAATAAAATATATT
1 TATTATATTAATTTATTATATAATAAAATATAAT
* *
8617223 TATTA-ATTAATTTATTATATAATAAATTTTAAT
1 TATTATATTAATTTATTATATAATAAAATATAAT
8617256 T-TTATATTAA
1 TATTATATTAA
8617266 ATTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 3 0.08
33 35 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
TATTATATTAATTTATTATATAATAAAATATAAT
Found at i:8617659 original size:21 final size:20
Alignment explanation
Indices: 8617615--8617667 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
8617605 AAAAAAAAAT
*
8617615 TTATATTTAATTAATTAATT
1 TTATATTTAATTAATTAATA
* *
8617635 TTATATTTTATATATTTAATA
1 TTATATTTAAT-TAATTAATA
8617656 TTAT-TTT-ATTAA
1 TTATATTTAATTAA
8617668 ATAAGATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 13 0.46
21 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATTTAATTAATTAATA
Found at i:8619186 original size:19 final size:17
Alignment explanation
Indices: 8619156--8619203 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
8619146 TCGACATTTA
8619156 TTTTTTTA-TTTTAAAT
1 TTTTTTTATTTTTAAAT
8619172 CTTTTTTTAGTTTTTAAAT
1 -TTTTTTTA-TTTTTAAAT
*
8619191 TTTTTTTCTTTTT
1 TTTTTTTATTTTT
8619204 TAAAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 7 0.25
19 8 0.29
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTTTAAAT
Found at i:8619203 original size:18 final size:18
Alignment explanation
Indices: 8619131--8619207 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 18
8619121 TTCTGTTTTT
*
8619131 ATTTTTTTTATTTTTTCGAC
1 ATTTTTTTTATTTTTT--AA
8619151 ATTTATTTTT-TTATTTTAA
1 ATTT-TTTTTATT-TTTTAA
*
8619170 ATCTTTTTTTAGTTTTTAA
1 AT-TTTTTTTATTTTTTAA
*
8619189 ATTTTTTTTCTTTTTTAA
1 ATTTTTTTTATTTTTTAA
8619207 A
1 A
8619208 GAAAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.31
19 16 0.33
20 9 0.18
21 9 0.18
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTTTTTATTTTTTAA
Found at i:8620336 original size:2 final size:2
Alignment explanation
Indices: 8620329--8620359 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8620319 TCTCTTGTAC
8620329 TA TA 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 TA TA T
8620360 GGTACCTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8620587 original size:12 final size:13
Alignment explanation
Indices: 8620559--8620592 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8620549 AAATTATGAT
*
8620559 ATAATATGATAAA
1 ATAATATTATAAA
8620572 ATAATATTAT-AA
1 ATAATATTATAAA
8620584 ATAATATTA
1 ATAATATTA
8620593 GATTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATTATAAA
Found at i:8621964 original size:368 final size:367
Alignment explanation
Indices: 8621482--8622153 Score: 1148
Period size: 366 Copynumber: 1.8 Consensus size: 367
8621472 CCCAGTCAAT
*
8621482 TCCAATTCCATTTATGGGCTGGATTTTTAAATTTAATTTACTCTCTTATTCATTAATCCTAAAAC
1 TCCAATTCCACTTATGGGCTGGATTTTTAAATTTAATTTACTCTCTTATTCATTAATCCTAAAAC
* * * * * *
8621547 AGTGCCATTTGGTGCCTTTTTTATATACAAAGGAAATAACTTTCTTTCTTTTCTAATTTTTTAGT
66 AGTGCCATTTAGTGCCTCTTCTACATACAAAGGAAATAACTTTCTTTCTTTTCGAATTTTCTAGT
**
8621612 CTTACAACTGTCTTTCTATCTATTTCTTTGAAACGAGAAATTTAATTTAGCCTCAAACTGTTGCC
131 CTTACAACTGT-TTTCTATCTATTT-TTTGAAACGAGAAATTTAATTTAGCCTCAAACTACTGCC
* * *
8621677 TTTATGTTATCTATCCAGCAATGCTGTTATCAAGTTTGGATTCACTGATGATGAATTCTTTTAGC
194 TTTATGTTATCTATCCAGCAACGCTGTTATCAAGTTTGGATTCACTAACGATGAATTCTTTTAGC
* *
8621742 TTCTTTTATTTATGTTCTCTTTATTATCAAAACGGTGCCT-TTTTTATCTATTTGTCCAAGACCA
259 TTCTTTTATTTATATTCTCTTTATTATCAAAACAGTGCCTCTTTTTATCTATTTGTCCAAGACCA
8621806 AAGAATCAAAACCTAAACTTCAGTTGCCGTTGACCTCAATCCCC
324 AAGAATCAAAACCTAAACTTCAGTTGCCGTTGACCTCAATCCCC
8621850 TCCAATTCCACTTATGGGCTGGATTTTTAAATTTAATTTACTCTCTTATTCATTAATCCTAAAAC
1 TCCAATTCCACTTATGGGCTGGATTTTTAAATTTAATTTACTCTCTTATTCATTAATCCTAAAAC
*
8621915 AGTGCCATTTAGTGCCTCTTCTGCATACAAAGGAAATAACTTTCTTTCTTTTCGAATTTTCTAGT
66 AGTGCCATTTAGTGCCTCTTCTACATACAAAGGAAATAACTTTCTTTCTTTTCGAATTTTCTAGT
* *
8621980 CTTACAACTGTTTTTTATCTATTTTTTGAAACTAGAAATTTAATTTAGCCTCAAACTACTGCCTT
131 CTTACAACTGTTTTCTATCTATTTTTTGAAACGAGAAATTTAATTTAGCCTCAAACTACTGCCTT
8622045 TATGTTATCTATCCAGCAACGCTGTTATCAAGTTTGGATTCACTAACGATGAATTCTTTTAGCTT
196 TATGTTATCTATCCAGCAACGCTGTTATCAAGTTTGGATTCACTAACGATGAATTCTTTTAGCTT
* *
8622110 TTTTTATTTATATTCTCTTTCTTATCAAAACAGTGCCTCTTTTT
261 CTTTTATTTATATTCTCTTTATTATCAAAACAGTGCCTCTTTTT
8622154 TTATTTATAT
Statistics
Matches: 284, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
366 134 0.47
367 17 0.06
368 133 0.47
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.43
Consensus pattern (367 bp):
TCCAATTCCACTTATGGGCTGGATTTTTAAATTTAATTTACTCTCTTATTCATTAATCCTAAAAC
AGTGCCATTTAGTGCCTCTTCTACATACAAAGGAAATAACTTTCTTTCTTTTCGAATTTTCTAGT
CTTACAACTGTTTTCTATCTATTTTTTGAAACGAGAAATTTAATTTAGCCTCAAACTACTGCCTT
TATGTTATCTATCCAGCAACGCTGTTATCAAGTTTGGATTCACTAACGATGAATTCTTTTAGCTT
CTTTTATTTATATTCTCTTTATTATCAAAACAGTGCCTCTTTTTATCTATTTGTCCAAGACCAAA
GAATCAAAACCTAAACTTCAGTTGCCGTTGACCTCAATCCCC
Found at i:8622164 original size:41 final size:41
Alignment explanation
Indices: 8622107--8622193 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
8622097 ATTCTTTTAG
8622107 CTTTTTTTATTTATATTCTCTTTCTTATCAAAACAG-TGCCT
1 CTTTTTTTATTTATATTCTCTTTCTTATCAAAA-AGATGCCT
*
8622148 CTTTTTTTATTTATATTCTCTTTCTTATCAAAATGATGCCT
1 CTTTTTTTATTTATATTCTCTTTCTTATCAAAAAGATGCCT
8622189 CTTTT
1 CTTTT
8622194 ATCTATTTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (41 bp):
CTTTTTTTATTTATATTCTCTTTCTTATCAAAAAGATGCCT
Found at i:8623981 original size:5 final size:6
Alignment explanation
Indices: 8623965--8624000 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
8623955 AAATTAGCCC
*
8623965 ATTTTT ATTTTT ATTTTT ATTTTT GTTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
8624001 TAAGGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:8625508 original size:51 final size:51
Alignment explanation
Indices: 8625408--8625508 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
8625398 AGAAAAAGAA
* ***
8625408 TTTTAAATAGGCCCAAAATGGTGAAAAATTTAAAAGTTTTGAAAAAATAATT
1 TTTTAAATAGACCCAAAATGGTGAAAAATTTAAAAG-TAAAAAAAAATAATT
*
8625460 TTTTAAATTGACCC-AAATGGTGAAAAATTTAGAAA-TAAAAAAATAATAA
1 TTTTAAATAGACCCAAAATGGTGAAAAATTTA-AAAGTAAAAAAA-AATAA
8625509 AAAGAATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 5 0.12
51 22 0.52
52 15 0.36
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (51 bp):
TTTTAAATAGACCCAAAATGGTGAAAAATTTAAAAGTAAAAAAAAATAATT
Found at i:8625534 original size:107 final size:108
Alignment explanation
Indices: 8625400--8625596 Score: 276
Period size: 107 Copynumber: 1.8 Consensus size: 108
8625390 TCCAAGAAAG
* *
8625400 AAAAAGAATTTTAAATAGGCCCAAAATGGTGAAAAA-TTTAAAAGTTTTGAAAAAATAAT-TTTT
1 AAAAAGAATTTTAAATAGGCCCAAAATGGT-AAAAATTTTAAAAATTTTGAAAAAA-AATATTTC
8625463 TAAATTGACCCAAATGGTGAAA-AATTTAGAAATAAAAAAATAAT
64 TAAATTGACCCAAATGGTGAAATAATTTAGAAATAAAAAAATAAT
*
8625507 AAAAAGAATTTCTAAATAGG-CCTAAATGGTAAAAATTTTAAAAATTTTGAAAAAAAATATTTCT
1 AAAAAGAATTT-TAAATAGGCCCAAAATGGTAAAAATTTTAAAAATTTTGAAAAAAAATATTTCT
* * * *
8625571 AATTTGGCTCAAATTGTGAAATAATT
65 AAATTGACCCAAATGGTGAAATAATT
8625597 AGAGATATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
106 8 0.10
107 59 0.75
108 12 0.15
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (108 bp):
AAAAAGAATTTTAAATAGGCCCAAAATGGTAAAAATTTTAAAAATTTTGAAAAAAAATATTTCTA
AATTGACCCAAATGGTGAAATAATTTAGAAATAAAAAAATAAT
Found at i:8626688 original size:50 final size:50
Alignment explanation
Indices: 8626613--8626766 Score: 263
Period size: 50 Copynumber: 3.1 Consensus size: 50
8626603 GCATCTGCGC
* * *
8626613 CATTTTCATATAATTTCATTCTATGCATCATTTCCAACCTCATGTTTTAA
1 CATTTCCATATCATTTCATTCTATGCATCATTTCCATCCTCATGTTTTAA
*
8626663 CATTTCCATATCATTTCATTCTATGCATCATTCCCATCCTCATGTTTTAA
1 CATTTCCATATCATTTCATTCTATGCATCATTTCCATCCTCATGTTTTAA
*
8626713 CATTTCCATATCATTTCATTCTATACATCATTTCCATCCTCATGTTTTAA
1 CATTTCCATATCATTTCATTCTATGCATCATTTCCATCCTCATGTTTTAA
8626763 CATT
1 CATT
8626767 ATCATTTACA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.45
Consensus pattern (50 bp):
CATTTCCATATCATTTCATTCTATGCATCATTTCCATCCTCATGTTTTAA
Found at i:8626744 original size:28 final size:28
Alignment explanation
Indices: 8626663--8626749 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
8626653 CATGTTTTAA
*
8626663 CATTTCCATATCATTTCATTCTATGCAT
1 CATTTCCATATCATTTCATTCTATACAT
* * *
8626691 CA-TTCC-CATC--CTCATGT-TTTA-A-
1 CATTTCCATATCATTTCAT-TCTATACAT
8626713 CATTTCCATATCATTTCATTCTATACAT
1 CATTTCCATATCATTTCATTCTATACAT
8626741 CATTTCCAT
1 CATTTCCAT
8626750 CCTCATGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
22 2 0.05
23 5 0.11
24 9 0.20
25 2 0.05
26 10 0.23
27 5 0.11
28 11 0.25
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.45
Consensus pattern (28 bp):
CATTTCCATATCATTTCATTCTATACAT
Found at i:8626766 original size:22 final size:22
Alignment explanation
Indices: 8626691--8626766 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
8626681 TTCTATGCAT
*
8626691 CATTCCCATCCTCATGTTTTAA
1 CATTTCCATCCTCATGTTTTAA
* *
8626713 CATTTCCATATCATTTCAT-TCTATACA
1 CATTTCC--ATC--CTCATGT-TTTA-A
8626740 TCATTTCCATCCTCATGTTTTAA
1 -CATTTCCATCCTCATGTTTTAA
8626763 CATT
1 CATT
8626767 ATCATTTACA
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
22 10 0.24
23 1 0.02
24 10 0.24
25 2 0.05
26 10 0.24
27 1 0.02
28 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.45
Consensus pattern (22 bp):
CATTTCCATCCTCATGTTTTAA
Found at i:8636114 original size:20 final size:19
Alignment explanation
Indices: 8636076--8636114 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8636066 TACTATGCTT
*
8636076 AAAAAAAAAACAAGAAAGA
1 AAAAAAAAAAAAAGAAAGA
*
8636095 AAAAAATAAAAAAAGGAAGA
1 AAAAAA-AAAAAAAGAAAGA
8636115 CTCAAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAGAAAGA
Found at i:8637144 original size:42 final size:41
Alignment explanation
Indices: 8637085--8637209 Score: 180
Period size: 41 Copynumber: 3.0 Consensus size: 41
8637075 ATGATTGTCA
** *
8637085 AGGAGCATTTTATTTTCAAAAGTTATGGTTGCCTCTATTTAG
1 AGGAGCATTTTATTTTCAAAAGTCGTGG-TGCCTCTGTTTAG
*
8637127 AGGAGCATTTTATTTTCAAAAGTCGTGGTGCTTCTGTTTAG
1 AGGAGCATTTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAG
*
8637168 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCATTTTA-TTTTCAAAAGTCGTGGTGCCTCTGTTTAG
8637209 A
1 A
8637210 ATAACAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 45 0.59
42 31 0.41
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (41 bp):
AGGAGCATTTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:8637180 original size:41 final size:42
Alignment explanation
Indices: 8637085--8637229 Score: 179
Period size: 41 Copynumber: 3.5 Consensus size: 42
8637075 ATGATTGTCA
* ** *
8637085 AGGAGCATTTTA-TTTTCAAAAGTTATGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAAGTCGTGG-TGCCTCTGTTTAG
* *
8637127 AGGAGCATTTTA-TTTTCAAAAGTCGTGGTGCTTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
8637168 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
** *
8637209 AATAACAATTTATTTTTCAAA
1 AGGAGCAATTTATTTTTCAAA
8637230 GTTGTTAAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
41 59 0.64
42 33 0.36
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (42 bp):
AGGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:8637245 original size:41 final size:41
Alignment explanation
Indices: 8637135--8637250 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
8637125 AGAGGAGCAT
** * * *
8637135 TTTA-TTTTCAAAAGTCGTGGTGCTTCTGTTTAGAGGAGCAA
1 TTTATTTTTC-AAAGTCGTGAAGCATCTGTTTAGAAGAACAA
** * *
8637176 TTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAATAACAA
1 TTTATTTTTCAAAGTCGTGAAGCATCTGTTTAGAAGAACAA
* *
8637217 TTTATTTTTCAAAGTTGTTAAGCATCTGTTTAGA
1 TTTATTTTTCAAAGTCGTGAAGCATCTGTTTAGA
8637251 GAAGCTTTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (41 bp):
TTTATTTTTCAAAGTCGTGAAGCATCTGTTTAGAAGAACAA
Found at i:8637474 original size:6 final size:6
Alignment explanation
Indices: 8637463--8637493 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8637453 CAAATTAACC
8637463 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
8637494 TGGGTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:8637920 original size:20 final size:20
Alignment explanation
Indices: 8637897--8637936 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8637887 ATTTTCTGCA
8637897 TGTTTTTCCAGATTTCAATG
1 TGTTTTTCCAGATTTCAATG
* *
8637917 TGTTTTTCTAGTTTTCAATG
1 TGTTTTTCCAGATTTCAATG
8637937 AAAATTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.55
Consensus pattern (20 bp):
TGTTTTTCCAGATTTCAATG
Found at i:8638988 original size:52 final size:52
Alignment explanation
Indices: 8638900--8639000 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 52
8638890 TTCTTTCCAA
*
8638900 GAAAAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTC
1 GAAAAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTTC
* * *
8638952 GAAAAAAAA-ATATTTCTAAATTGACCTAAATTGTGAAAAATTTAGAAAT
1 GAAAAAAAAGA-ATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT
8639001 AAAAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (52 bp):
GAAAAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAAATTTAGAAATTTC
Found at i:8639033 original size:44 final size:44
Alignment explanation
Indices: 8638945--8639052 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
8638935 AAAAATTTAG
* * *
8638945 AAATTTCGAAA-AAAAAATATTTCTAAATTGACCTAAATTGTGAA
1 AAATTTAGAAATAAAAAA-ATTTCTAAATAGACCCAAATTGTGAA
*
8638989 AAATTTAGAAATAAAAAAATTTCTAAATAGGCCCAAA-TGATGAA
1 AAATTTAGAAATAAAAAAATTTCTAAATAGACCCAAATTG-TGAA
* * *
8639033 AATTTTAAAAATTAAAAAAT
1 AAATTTAGAAATAAAAAAAT
8639053 ATATATTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.04
44 47 0.85
45 6 0.11
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (44 bp):
AAATTTAGAAATAAAAAAATTTCTAAATAGACCCAAATTGTGAA
Found at i:8639301 original size:34 final size:35
Alignment explanation
Indices: 8639257--8639328 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
8639247 ATTTAATATA
8639257 AAAATTTGAAACTATTAAACTCAAGACCATAGGAT
1 AAAATTTGAAACTATTAAACTCAAGACCATAGGAT
8639292 AAAA-TTGAAACTATTAAACTCAAGACCATAGGAT
1 AAAATTTGAAACTATTAAACTCAAGACCATAGGAT
8639326 AAA
1 AAA
8639329 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 33 0.89
35 4 0.11
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (35 bp):
AAAATTTGAAACTATTAAACTCAAGACCATAGGAT
Found at i:8639659 original size:28 final size:28
Alignment explanation
Indices: 8639621--8639691 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
8639611 AATCATAGAT
*
8639621 TTGAATATTGGCTTCAGCTATGAATTTG
1 TTGAATGTTGGCTTCAGCTATGAATTTG
*
8639649 TTGAATGTTGGCTTTAGCTATGAATTTG
1 TTGAATGTTGGCTTCAGCTATGAATTTG
*
8639677 TTAAATG-TGGCTTCA
1 TTGAATGTTGGCTTCA
8639692 ATAGCAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.44
Consensus pattern (28 bp):
TTGAATGTTGGCTTCAGCTATGAATTTG
Found at i:8648886 original size:21 final size:22
Alignment explanation
Indices: 8648856--8648898 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8648846 AAAATAATTA
*
8648856 GTTTTCTTCTCT-GTTTTTTTT
1 GTTTTCTTCTCTAATTTTTTTT
*
8648877 GTTTTTTTCTCTAATTTTTTTT
1 GTTTTCTTCTCTAATTTTTTTT
8648899 ACTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (22 bp):
GTTTTCTTCTCTAATTTTTTTT
Found at i:8653590 original size:8 final size:7
Alignment explanation
Indices: 8653577--8653610 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8653567 AAATATAATA
8653577 AAAAAGTT
1 AAAAAG-T
8653585 AAAAAGT
1 AAAAAGT
8653592 AAAAAGT
1 AAAAAGT
*
8653599 AAAAGGT
1 AAAAAGT
8653606 AAAAA
1 AAAAA
8653611 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAAGT
Found at i:8653611 original size:15 final size:16
Alignment explanation
Indices: 8653575--8653611 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8653565 TAAAATATAA
8653575 TAAAAAAGTTAAAAAG
1 TAAAAAAGTTAAAAAG
*
8653591 T-AAAAAG-TAAAAGG
1 TAAAAAAGTTAAAAAG
8653605 TAAAAAA
1 TAAAAAA
8653612 AAAAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (16 bp):
TAAAAAAGTTAAAAAG
Found at i:8653616 original size:21 final size:21
Alignment explanation
Indices: 8653578--8653617 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8653568 AATATAATAA
* **
8653578 AAAAGTTAAAAAGTAAAAAGT
1 AAAAGGTAAAAAAAAAAAAGT
8653599 AAAAGGTAAAAAAAAAAAA
1 AAAAGGTAAAAAAAAAAAA
8653618 AACACAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAGGTAAAAAAAAAAAAGT
Found at i:8662012 original size:27 final size:27
Alignment explanation
Indices: 8661978--8662029 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
8661968 TAAGATTACG
*
8661978 ATAAAATATAATAAAATAATATTATAA
1 ATAAAATAAAATAAAATAATATTATAA
*
8662005 ATAAAATAAAATTAAATAATATTAT
1 ATAAAATAAAATAAAATAATATTAT
8662030 TTTTTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAAAATAAAATAAAATAATATTATAA
Found at i:8665223 original size:9 final size:9
Alignment explanation
Indices: 8665209--8665237 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8665199 AAACAACACC
8665209 TCAAGGTTT
1 TCAAGGTTT
8665218 TCAAGGTTT
1 TCAAGGTTT
8665227 TCAAGGTTT
1 TCAAGGTTT
8665236 TC
1 TC
8665238 TAGTATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (9 bp):
TCAAGGTTT
Found at i:8667684 original size:2 final size:2
Alignment explanation
Indices: 8667677--8667703 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8667667 ATTTCCATTG
8667677 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
8667704 GATGTGATAC
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:8669171 original size:2 final size:2
Alignment explanation
Indices: 8669129--8669160 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8669119 CGAAAATCAT
*
8669129 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8669161 AGTTCTATAT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8680063 original size:67 final size:67
Alignment explanation
Indices: 8679953--8680087 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
8679943 TGTCTACAAG
8679953 ATGGGCTTCCAACAAAGAATTGTGGGGATGATGTTTCTCTATGTGTTAGAACACGGGCTTACGTG
1 ATGGGCTTCCAACAAAGAATTGTGGGGATGATGTTTCTCTATGTGTTAGAACACGGGCTTACGTG
8680018 AA
66 AA
* * *
8680020 ATGGGCTTCCAACAAAGAATTGTGGGGATGGTGTTTCTTTATGTGTTAGAATACGGGCTTACGTG
1 ATGGGCTTCCAACAAAGAATTGTGGGGATGATGTTTCTCTATGTGTTAGAACACGGGCTTACGTG
8680085 AA
66 AA
8680087 A
1 A
8680088 CAATGAAGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (67 bp):
ATGGGCTTCCAACAAAGAATTGTGGGGATGATGTTTCTCTATGTGTTAGAACACGGGCTTACGTG
AA
Found at i:8682827 original size:4 final size:4
Alignment explanation
Indices: 8682820--8682846 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8682810 GTTTTATATA
8682820 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
8682847 CGACATGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:8683127 original size:4 final size:4
Alignment explanation
Indices: 8683118--8683143 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8683108 TTGCGAAATC
8683118 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
8683144 TTGTCGCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:8683567 original size:30 final size:29
Alignment explanation
Indices: 8683531--8683592 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
8683521 TTTAATATAA
8683531 ATATATAT-AAATTAATTTTTTAAAAATTAT
1 ATATATATAAAATTAA-TTTTT-AAAATTAT
8683561 ATATATATACAAATTAATTTTTAAAATTAT
1 ATATATATA-AAATTAATTTTTAAAATTAT
8683591 AT
1 AT
8683593 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 18 0.60
31 5 0.17
32 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATATATAAAATTAATTTTTAAAATTAT
Found at i:8683575 original size:32 final size:30
Alignment explanation
Indices: 8683526--8683592 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 30
8683516 ATTTATTTAA
* *
8683526 TATAAATATATATAAATTAATTTTTTAAAAAT
1 TATATATATATACAAATTAA-TTTTT-AAAAT
8683558 TATATATATATACAAATTAATTTTTAAAAT
1 TATATATATATACAAATTAATTTTTAAAAT
8683588 TATAT
1 TATAT
8683593 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 10 0.30
31 5 0.15
32 18 0.55
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
TATATATATATACAAATTAATTTTTAAAAT
Found at i:8683813 original size:12 final size:12
Alignment explanation
Indices: 8683796--8683820 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8683786 AATATATATT
8683796 ATTAAATAATAA
1 ATTAAATAATAA
8683808 ATTAAATAATAA
1 ATTAAATAATAA
8683820 A
1 A
8683821 AAAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAATAA
Found at i:8684697 original size:2 final size:2
Alignment explanation
Indices: 8684690--8684729 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8684680 TGTATGTTAT
8684690 TA TA TA TA TA TA TA TA TA 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 TA TA TA TA
8684730 GGATTGGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8687223 original size:2 final size:2
Alignment explanation
Indices: 8687216--8687245 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8687206 ATATAATACT
*
8687216 TA TA TA TA TA CA 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
8687246 CACACGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8692492 original size:10 final size:10
Alignment explanation
Indices: 8692479--8692509 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8692469 TTCCTTTCCC
8692479 TTCTCTCTCT
1 TTCTCTCTCT
*
8692489 TTCTCTTTCT
1 TTCTCTCTCT
8692499 TTCTCTCTCT
1 TTCTCTCTCT
8692509 T
1 T
8692510 AGAGGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (10 bp):
TTCTCTCTCT
Found at i:8694717 original size:12 final size:12
Alignment explanation
Indices: 8694700--8694735 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8694690 TACGAAATTT
8694700 TATAAAATTAAA
1 TATAAAATTAAA
*
8694712 TATAAAATGAAA
1 TATAAAATTAAA
*
8694724 TAAAAAATTAAA
1 TATAAAATTAAA
8694736 AAAATGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
TATAAAATTAAA
Found at i:8695464 original size:15 final size:16
Alignment explanation
Indices: 8695444--8695473 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8695434 AAAAAGACAA
8695444 TAATAATAAT-GAAAT
1 TAATAATAATAGAAAT
8695459 TAATAATAATAGAAA
1 TAATAATAATAGAAA
8695474 ATGTGGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
TAATAATAATAGAAAT
Found at i:8698624 original size:2 final size:2
Alignment explanation
Indices: 8698613--8698641 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8698603 TTATTCAAGG
8698613 AT AT -T 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 AT AT
8698642 GCTTTGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8700391 original size:22 final size:22
Alignment explanation
Indices: 8700366--8700416 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
8700356 GAATAGCGCT
8700366 ACAAATGTTCTTGAATGAGCCC
1 ACAAATGTTCTTGAATGAGCCC
8700388 ACAAATGTTCTTGAATGAGCCC
1 ACAAATGTTCTTGAATGAGCCC
8700410 ACAAATG
1 ACAAATG
8700417 CAAACATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (22 bp):
ACAAATGTTCTTGAATGAGCCC
Found at i:8704607 original size:20 final size:22
Alignment explanation
Indices: 8704575--8704624 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
8704565 AAAAATTACA
* *
8704575 TTAATTATTAGATTTAT-AG-T
1 TTAAGTATAAGATTTATAAGAT
*
8704595 TTAAGTATAAGATTTTTAAGAT
1 TTAAGTATAAGATTTATAAGAT
8704617 TTAAGTAT
1 TTAAGTAT
8704625 CACATTGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.56
21 2 0.08
22 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
TTAAGTATAAGATTTATAAGAT
Found at i:8709929 original size:96 final size:96
Alignment explanation
Indices: 8709762--8709956 Score: 318
Period size: 96 Copynumber: 2.0 Consensus size: 96
8709752 CTTTCTCCCT
* * *
8709762 AAACATTAACCTGTATATGAAAATGCACACTACTTACTCCCTTCTTAGAGACTGCAGAAAAGAGA
1 AAACAATAACCTATATATGAAAATGCACACTACTTACTCCCTCCTTAGAGACTGCAGAAAAGAGA
* *
8709827 ATATATTATAGAAACCACATGGGACTAACTG
66 ACATATTATAGAAACAACATGGGACTAACTG
*
8709858 AAACAATAACCTATATATGAAAATGCACACTACTTTCTCCCTCCTTAGAGACTGCAGAAAAGAGA
1 AAACAATAACCTATATATGAAAATGCACACTACTTACTCCCTCCTTAGAGACTGCAGAAAAGAGA
* *
8709923 ACATATTGTAGAAACAACATGGGACTAAGTG
66 ACATATTATAGAAACAACATGGGACTAACTG
8709954 AAA
1 AAA
8709957 AAGTTACCCC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (96 bp):
AAACAATAACCTATATATGAAAATGCACACTACTTACTCCCTCCTTAGAGACTGCAGAAAAGAGA
ACATATTATAGAAACAACATGGGACTAACTG
Found at i:8716812 original size:25 final size:26
Alignment explanation
Indices: 8716777--8716834 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
8716767 TTAGAAAGGG
8716777 AAAAAAGATATTGAAGAAA-AA-TAGA
1 AAAAAAGATA-TGAAGAAAGAATTAGA
* *
8716802 AAAAAATATATGTAGAAAGAATTAGA
1 AAAAAAGATATGAAGAAAGAATTAGA
8716828 AAAAAAG
1 AAAAAAG
8716835 GAGAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.25
25 11 0.39
26 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.17
Consensus pattern (26 bp):
AAAAAAGATATGAAGAAAGAATTAGA
Found at i:8716818 original size:24 final size:25
Alignment explanation
Indices: 8716776--8716833 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
8716766 ATTAGAAAGG
8716776 GAAAAAAGATATTGAAGAAA-AA-TA
1 GAAAAAA-ATATTGAAGAAAGAATTA
*
8716800 GAAAAAAATATATGTAGAAAGAATTA
1 GAAAAAAATAT-TGAAGAAAGAATTA
8716826 GAAAAAAA
1 GAAAAAAA
8716834 GGAGAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 4 0.13
24 14 0.47
25 2 0.07
26 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.17
Consensus pattern (25 bp):
GAAAAAAATATTGAAGAAAGAATTA
Found at i:8731476 original size:41 final size:41
Alignment explanation
Indices: 8731431--8731552 Score: 208
Period size: 41 Copynumber: 3.0 Consensus size: 41
8731421 TTAAAATTTT
* * **
8731431 TTATTTTTCAATGCCTTTTCACACAGATGCACCACTGGTTC
1 TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTTC
8731472 TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTTC
1 TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTTC
8731513 TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTT
1 TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTT
8731553 ATCATAATAT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (41 bp):
TTATTTTTCAATGCCATATCACACAGATGCGTCACTGGTTC
Found at i:8735056 original size:24 final size:24
Alignment explanation
Indices: 8735028--8735145 Score: 90
Period size: 24 Copynumber: 5.2 Consensus size: 24
8735018 CTAAGACCAA
*
8735028 TAATGTAATGGTTCATTCTATAAC
1 TAATGTAATGGTTCATTCAATAAC
* * *
8735052 TAATGT--T-ATT-ATCCAATAAT
1 TAATGTAATGGTTCATTCAATAAC
*
8735072 TAATGTAATGGTTCATTCCATAAC
1 TAATGTAATGGTTCATTCAATAAC
* * *
8735096 TAATGT--T-ATT-ATCCAATAAT
1 TAATGTAATGGTTCATTCAATAAC
**
8735116 TAATGTAATGGTTCATTCTCTAAC
1 TAATGTAATGGTTCATTCAATAAC
8735140 TAATGT
1 TAATGT
8735146 TATTATCTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
20 26 0.38
21 4 0.06
22 4 0.06
23 4 0.06
24 31 0.45
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (24 bp):
TAATGTAATGGTTCATTCAATAAC
Found at i:8735075 original size:20 final size:20
Alignment explanation
Indices: 8735047--8735121 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
8735037 GGTTCATTCT
8735047 ATAACTAATGTTATTATCCA
1 ATAACTAATGTTATTATCCA
* *
8735067 ATAATTAATGTAATGGTTCATTCC-
1 ATAACTAATGT--T-ATT-A-TCCA
8735091 ATAACTAATGTTATTATCCA
1 ATAACTAATGTTATTATCCA
*
8735111 ATAATTAATGT
1 ATAACTAATGT
8735122 AATGGTTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 3 0.07
20 21 0.48
21 2 0.05
22 2 0.05
23 2 0.05
24 11 0.25
25 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (20 bp):
ATAACTAATGTTATTATCCA
Found at i:8735083 original size:44 final size:44
Alignment explanation
Indices: 8735028--8735152 Score: 232
Period size: 44 Copynumber: 2.8 Consensus size: 44
8735018 CTAAGACCAA
8735028 TAATGTAATGGTTCATTCTATAACTAATGTTATTATCCAATAAT
1 TAATGTAATGGTTCATTCTATAACTAATGTTATTATCCAATAAT
*
8735072 TAATGTAATGGTTCATTCCATAACTAATGTTATTATCCAATAAT
1 TAATGTAATGGTTCATTCTATAACTAATGTTATTATCCAATAAT
*
8735116 TAATGTAATGGTTCATTCTCTAACTAATGTTATTATC
1 TAATGTAATGGTTCATTCTATAACTAATGTTATTATC
8735153 TTAGAGAGGA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (44 bp):
TAATGTAATGGTTCATTCTATAACTAATGTTATTATCCAATAAT
Found at i:8743268 original size:25 final size:26
Alignment explanation
Indices: 8743234--8743282 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
8743224 AAAATGATTT
8743234 TTGAAAAATA-TTTATATTTTTTGAA
1 TTGAAAAATATTTTATATTTTTTGAA
*
8743259 TTGAAAAATATTTTTTATTTTTTG
1 TTGAAAAATATTTTATATTTTTTG
8743283 GATGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
TTGAAAAATATTTTATATTTTTTGAA
Found at i:8743389 original size:25 final size:27
Alignment explanation
Indices: 8743350--8743404 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
8743340 AATAATATTA
*
8743350 ATTTAATTATTAAAATAT-TAAAAATT
1 ATTTAATTATGAAAATATATAAAAATT
*
8743376 ATTT-ATTATGAAAATATATTAAAATT
1 ATTTAATTATGAAAATATATAAAAATT
8743402 ATT
1 ATT
8743405 AATATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTTAATTATGAAAATATATAAAAATT
Found at i:8743415 original size:26 final size:23
Alignment explanation
Indices: 8743359--8743415 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
8743349 AATTTAATTA
8743359 TTAAAATATTAAAAATTATTTAT
1 TTAAAATATTAAAAATTATTTAT
*
8743382 TATGAAAATATATTAAAATTATTAATAT
1 T-T-AAAATAT-TAAAAATTATT--TAT
8743410 TTAAAA
1 TTAAAA
8743416 ATAATGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.04
24 1 0.04
25 7 0.25
26 14 0.50
27 1 0.04
28 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAAAATATTAAAAATTATTTAT
Found at i:8743416 original size:27 final size:27
Alignment explanation
Indices: 8743364--8743418 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
8743354 AATTATTAAA
*
8743364 ATATTAAAAATTATTTATTATGAAAAT
1 ATATTAAAAATTATTTATTATAAAAAT
8743391 ATATT-AAAATTATTAATATT-TAAAAAT
1 ATATTAAAAATTATT--TATTATAAAAAT
8743418 A
1 A
8743419 ATGATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 9 0.36
27 12 0.48
28 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTAAAAATTATTTATTATAAAAAT
Found at i:8743520 original size:16 final size:16
Alignment explanation
Indices: 8743501--8743556 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
8743491 TATTATTCTT
8743501 TATATTATTTTATTAA
1 TATATTATTTTATTAA
* * *
8743517 TATATTATATTAATAG
1 TATATTATTTTATTAA
8743533 TATATTA-TTTATTAA
1 TATATTATTTTATTAA
*
8743548 TATAATATT
1 TATATTATT
8743557 ATTTACAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 11 0.34
16 21 0.66
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATATTATTTTATTAA
Found at i:8743559 original size:18 final size:19
Alignment explanation
Indices: 8743514--8743561 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
8743504 ATTATTTTAT
8743514 TAATA-TATTATATTAATAG
1 TAATATTATT-TATTAATAG
8743533 T-ATATTATTTATTAATA-
1 TAATATTATTTATTAATAG
8743550 TAATATTATTTA
1 TAATATTATTTA
8743562 CAAGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 21 0.78
19 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATATTATTTATTAATAG
Found at i:8744751 original size:18 final size:17
Alignment explanation
Indices: 8744728--8744825 Score: 82
Period size: 18 Copynumber: 5.9 Consensus size: 17
8744718 TTTAGTTAAA
8744728 ATAATTTTTTAAAAATT
1 ATAATTTTTTAAAAATT
8744745 ATCAATTTTTTATAAAA-T
1 AT-AATTTTTTA-AAAATT
*
8744763 A-AATTTTTAAAAAATCT
1 ATAATTTTTTAAAAAT-T
*
8744780 ATAATTTTTTGAAAATCT
1 ATAATTTTTTAAAAAT-T
*
8744798 AT--TTTTTTAGAAATT
1 ATAATTTTTTAAAAATT
*
8744813 -T-ATTTTTGAAAAA
1 ATAATTTTTTAAAAA
8744826 ATTTATAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.01
15 14 0.21
16 18 0.26
17 4 0.06
18 27 0.40
19 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
ATAATTTTTTAAAAATT
Found at i:8744763 original size:33 final size:35
Alignment explanation
Indices: 8744715--8744789 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 35
8744705 CTTATATATT
*
8744715 TTTTTTAGTTAAAAT-AATTTTTTAAAAAT-TATCAA
1 TTTTTTAG-TAAAATAAATTTTTAAAAAATCTAT-AA
8744750 TTTTTTA-TAAAATAAATTTTTAAAAAATCTATAA
1 TTTTTTAGTAAAATAAATTTTTAAAAAATCTATAA
8744784 TTTTTT
1 TTTTTT
8744790 GAAAATCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 6 0.16
34 21 0.57
35 10 0.27
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (35 bp):
TTTTTTAGTAAAATAAATTTTTAAAAAATCTATAA
Found at i:8744803 original size:15 final size:15
Alignment explanation
Indices: 8744783--8744824 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8744773 AAAATCTATA
8744783 ATTTTTTGAAAATCT
1 ATTTTTTGAAAATCT
* *
8744798 ATTTTTTTAGAAATTT
1 ATTTTTTGA-AAATCT
8744814 A-TTTTTGAAAA
1 ATTTTTTGAAAA
8744825 AATTTATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 14 0.61
16 6 0.26
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (15 bp):
ATTTTTTGAAAATCT
Found at i:8744804 original size:34 final size:33
Alignment explanation
Indices: 8744715--8744804 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 33
8744705 CTTATATATT
8744715 TTTTTTAGTTAAAATAATTTTTTAAAAATTATCAA
1 TTTTTTAG--AAAATAATTTTTTAAAAATTATCAA
* *
8744750 TTTTTTATAAAATAAATTTTTAAAAAATCTAT-AA
1 TTTTTTAGAAAAT-AATTTTTTAAAAAT-TATCAA
*
8744784 TTTTTT-GAAAATCTATTTTTT
1 TTTTTTAGAAAAT-AATTTTTT
8744805 TAGAAATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
33 16 0.34
34 21 0.45
35 10 0.21
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (33 bp):
TTTTTTAGAAAATAATTTTTTAAAAATTATCAA
Found at i:8744805 original size:16 final size:15
Alignment explanation
Indices: 8744749--8744819 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 15
8744739 AAAATTATCA
**
8744749 ATTTTTTATAAAATAA
1 ATTTTTT-TAAAATCT
**
8744765 ATTTTTAAAAAATCT
1 ATTTTTTTAAAATCT
8744780 ATAATTTTTTGAAAATCT
1 AT--TTTTTT-AAAATCT
*
8744798 ATTTTTTTAGAAATTT
1 ATTTTTTTA-AAATCT
8744814 ATTTTT
1 ATTTTT
8744820 GAAAAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
15 8 0.18
16 23 0.52
17 4 0.09
18 9 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTTTTAAAATCT
Found at i:8745153 original size:20 final size:20
Alignment explanation
Indices: 8745114--8745154 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8745104 GGTCAGACGC
* * *
8745114 TCAGACAGTACCCCATCGTG
1 TCAGACAGAACCCAAACGTG
8745134 TCAGACAGAACCCAAACGTG
1 TCAGACAGAACCCAAACGTG
8745154 T
1 T
8745155 TAGGTCGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.17
Consensus pattern (20 bp):
TCAGACAGAACCCAAACGTG
Found at i:8745739 original size:13 final size:13
Alignment explanation
Indices: 8745723--8745751 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8745713 TCCCTACTGA
8745723 TTATTGAAAAAAG
1 TTATTGAAAAAAG
8745736 TTATTGAAAAAAG
1 TTATTGAAAAAAG
8745749 TTA
1 TTA
8745752 AGATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (13 bp):
TTATTGAAAAAAG
Found at i:8749856 original size:2 final size:2
Alignment explanation
Indices: 8749849--8749874 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8749839 GTTTCCTGTT
8749849 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
8749875 ACACACGCAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8752554 original size:19 final size:20
Alignment explanation
Indices: 8752517--8752564 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
8752507 CGACATAAAA
8752517 TTAATA-AAA-TATTATTTT
1 TTAATATAAATTATTATTTT
8752535 TTAATATAAATTATTA-TTT
1 TTAATATAAATTATTATTTT
*
8752554 TTAATGTAAAT
1 TTAATATAAAT
8752565 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 16 0.59
20 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATATAAATTATTATTTT
Found at i:8752584 original size:16 final size:16
Alignment explanation
Indices: 8752563--8752609 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
8752553 TTTAATGTAA
8752563 ATATAAAAT-TAAATAT
1 ATATAAAATATAAA-AT
8752579 ATATAAAATATAAAAT
1 ATATAAAATATAAAAT
8752595 ATAT-AAATATAAAAT
1 ATATAAAATATAAAAT
8752610 TAAATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.37
16 15 0.50
17 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAAATATAAAAT
Found at i:8752589 original size:7 final size:7
Alignment explanation
Indices: 8752561--8752613 Score: 56
Period size: 7 Copynumber: 7.3 Consensus size: 7
8752551 TTTTTAATGT
8752561 AAATATA
1 AAATATA
8752568 AAAT-TAA
1 AAATAT-A
8752575 ATATATATA
1 A-A-ATATA
8752584 AAATATA
1 AAATATA
8752591 AAATATA
1 AAATATA
8752598 TAAATATA
1 -AAATATA
8752606 AAAT-TA
1 AAATATA
8752612 AA
1 AA
8752614 TAAATAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.12
7 22 0.54
8 9 0.22
9 4 0.10
10 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AAATATA
Found at i:8752616 original size:16 final size:16
Alignment explanation
Indices: 8752560--8752619 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
8752550 ATTTTTAATG
8752560 TAAATATAAAATTAAA
1 TAAATATAAAATTAAA
*
8752576 TATATATAAAATATAAAATATA
1 TAAATATAAAAT-T---A-A-A
8752598 TAAATATAAAATTAAA
1 TAAATATAAAATTAAA
8752614 TAAATA
1 TAAATA
8752620 ATTATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
16 18 0.50
17 2 0.06
18 1 0.03
20 1 0.03
21 2 0.06
22 12 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATATAAAATTAAA
Found at i:8752623 original size:12 final size:12
Alignment explanation
Indices: 8752560--8752615 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
8752550 ATTTTTAATG
8752560 TAAATATAAAAT
1 TAAATATAAAAT
*
8752572 TAAATAT-ATAT
1 TAAATATAAAAT
*
8752583 AAAATATAAAATAT
1 TAAATAT-AAA-AT
8752597 ATAAATATAAAAT
1 -TAAATATAAAAT
8752610 TAAATA
1 TAAATA
8752616 AATAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 9 0.25
12 13 0.36
13 3 0.08
14 5 0.14
15 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:8752626 original size:6 final size:6
Alignment explanation
Indices: 8752560--8752643 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
8752550 ATTTTTAATG
*
8752560 TAAATA TAAA-A TTAAATA TATATA -AAATA TAAA-A T--ATA TAAATA
1 TAAATA TAAATA -TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
* * *
8752604 TAAA-A TTAAATAAA TAATTA TAAATA TATATA TATATA TA
1 TAAATA -TAAAT--A TAAATA TAAATA TAAATA TAAATA TA
8752644 CACTTAGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
3 1 0.02
4 2 0.03
5 8 0.13
6 46 0.73
7 1 0.02
8 4 0.06
9 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:8752643 original size:38 final size:38
Alignment explanation
Indices: 8752560--8752641 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
8752550 ATTTTTAATG
8752560 TAAATATAAAATTAAATATATATAAAATATAAAATATA
1 TAAATATAAAATTAAATATATATAAAATATAAAATATA
*
8752598 TAAATATAAAATTAAATA-A-AT-AATTATAAATATATA
1 TAAATATAAAATTAAATATATATAAAATATAAA-ATATA
*
8752634 TATATATA
1 TAAATATA
8752642 TACACTTAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 8 0.20
36 14 0.34
37 1 0.02
38 18 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (38 bp):
TAAATATAAAATTAAATATATATAAAATATAAAATATA
Found at i:8767371 original size:23 final size:23
Alignment explanation
Indices: 8767345--8767391 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8767335 TGATGGTCAC
*
8767345 TAATGGAGAATATAGCAAAATAT
1 TAATGAAGAATATAGCAAAATAT
8767368 TAATGAAGAATATAGCAAAATAT
1 TAATGAAGAATATAGCAAAATAT
8767391 T
1 T
8767392 TTTCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (23 bp):
TAATGAAGAATATAGCAAAATAT
Found at i:8768452 original size:21 final size:20
Alignment explanation
Indices: 8768422--8768460 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8768412 TTATGAAAAT
*
8768422 AATAATAATAATATATTTACA
1 AATAAAAATAATA-ATTTACA
*
8768443 AATAAAAATATTAATTTA
1 AATAAAAATAATAATTTA
8768461 AAGATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAAAATAATAATTTACA
Found at i:8776196 original size:63 final size:63
Alignment explanation
Indices: 8776078--8776195 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
8776068 AAACGCCTTT
* **
8776078 AATAATCCCTCATGAAAAATTAGAAGGGATCATTAAAGGTATTTTTAGCTAAAAAATACCATC
1 AATAATCCCTCATAAAAAATTAGAAGGGATCATTAAAGACATTTTTAGCTAAAAAATACCATC
* *
8776141 AATAATCCCCTC-TAAAAAATTAGAAGGGATTATTAAAGACATTTTT-GGTAAAAAA
1 AATAAT-CCCTCATAAAAAATTAGAAGGGATCATTAAAGACATTTTTAGCTAAAAAA
8776196 AAATGCATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 8 0.16
63 36 0.73
64 5 0.10
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (63 bp):
AATAATCCCTCATAAAAAATTAGAAGGGATCATTAAAGACATTTTTAGCTAAAAAATACCATC
Found at i:8783385 original size:15 final size:15
Alignment explanation
Indices: 8783367--8783412 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
8783357 AAAATATTAA
8783367 AAATTATTTATTATT
1 AAATTATTTATTATT
*
8783382 AAATTA--TA-T-TG
1 AAATTATTTATTATT
8783393 AAATTATTTATTATT
1 AAATTATTTATTATT
8783408 AAATT
1 AAATT
8783413 TGTTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
11 7 0.28
12 1 0.04
13 4 0.16
14 1 0.04
15 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
AAATTATTTATTATT
Found at i:8783615 original size:21 final size:20
Alignment explanation
Indices: 8783564--8783615 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
8783554 ATATCATTTT
* *
8783564 TATTAATATTAAATTAGTAA
1 TATTTATATTAAAATAGTAA
* *
8783584 TATTTATTATTAAAATATTTA
1 TATTTA-TATTAAAATAGTAA
8783605 TATTTTATATT
1 TA-TTTATATT
8783616 GAAAGTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 17 0.65
22 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTATATTAAAATAGTAA
Found at i:8784313 original size:27 final size:25
Alignment explanation
Indices: 8784279--8784330 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
8784269 GGTAAGATAA
*
8784279 TTTTTTAAAGAAAAAATTATCTTTTT
1 TTTTTTAAACAAAAAATTAT-TTTTT
* *
8784305 TTTTATTAATCAATAAATTATTTTTT
1 TTTT-TTAAACAAAAAATTATTTTTT
8784331 GTTAATCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTTAAACAAAAAATTATTTTTT
Found at i:8784335 original size:22 final size:21
Alignment explanation
Indices: 8784301--8784349 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
8784291 AAAATTATCT
8784301 TTTTTTTTATTAATCAATAAA
1 TTTTTTTTATTAATCAATAAA
* *
8784322 TTATTTTTTGTTAATCAATTAA
1 TT-TTTTTTATTAATCAATAAA
8784344 TTTTTT
1 TTTTTT
8784350 ATCAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTTTATTAATCAATAAA
Found at i:8784634 original size:6 final size:6
Alignment explanation
Indices: 8784623--8784650 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8784613 ATTCATTGCT
8784623 TCACTA TCACTA TCACTA TCACTA TCAC
1 TCACTA TCACTA TCACTA TCACTA TCAC
8784651 CGTTCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (6 bp):
TCACTA
Found at i:8785132 original size:14 final size:15
Alignment explanation
Indices: 8785113--8785146 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8785103 AAAATTATAT
*
8785113 ATATTTTTAA-ATAA
1 ATATTTTTAATAAAA
8785127 ATATTTTTAATAAAA
1 ATATTTTTAATAAAA
8785142 ATATT
1 ATATT
8785147 GATGAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTTAATAAAA
Found at i:8785954 original size:25 final size:25
Alignment explanation
Indices: 8785922--8785991 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 25
8785912 TATTAATATA
8785922 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTATTT
**
8785947 ATTATTAAAGTATATATTGAAATTATTT
1 ATTATTAAA--ATAT-TAAAAATTATTT
8785975 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
8785992 TATTCAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.24
26 2 0.05
27 7 0.19
28 19 0.51
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATTT
Found at i:8786168 original size:17 final size:16
Alignment explanation
Indices: 8786137--8786179 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
8786127 TTAAAATAAT
8786137 AATATTTAT-TATTAA
1 AATATTTATATATTAA
8786152 AATATTTATACTATTAA
1 AATATTTATA-TATTAA
8786169 AATATTTATAT
1 AATATTTATAT
8786180 TTTATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:8786422 original size:40 final size:42
Alignment explanation
Indices: 8786342--8786441 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
8786332 TTAAGAAAAT
8786342 AATATTATTATATTATTTAACATTAATTATTAAAATAATAAA
1 AATATTATTATATTATTTAACATTAATTATTAAAATAATAAA
*
8786384 AATATTATTATA-TA-TT-ACTATTTATTATTAAAATAATAATA
1 AATATTATTATATTATTTAAC-ATTAATTATTAAAATAATAA-A
*
8786425 TAATACTATT-TATTATT
1 -AATATTATTATATTATT
8786442 GAAATATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
39 2 0.04
40 21 0.41
41 5 0.10
42 22 0.43
43 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (42 bp):
AATATTATTATATTATTTAACATTAATTATTAAAATAATAAA
Found at i:8786455 original size:26 final size:28
Alignment explanation
Indices: 8786399--8786455 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
8786389 TATTATATAT
*
8786399 TACTATTTATTATTAAAATAATAATATAA
1 TACTATTTATTATTAAAATAAT-ATAAAA
*
8786428 TACTATTTATTATTGAAAT-AT-TAAAA
1 TACTATTTATTATTAAAATAATATAAAA
8786454 TA
1 TA
8786456 TTTATGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
28 2 0.08
29 18 0.69
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TACTATTTATTATTAAAATAATATAAAA
Found at i:8786660 original size:24 final size:24
Alignment explanation
Indices: 8786632--8786683 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
8786622 TCATATTGAG
8786632 TAAAACTA-TAAAAATA-TTTAATAT
1 TAAAA-TATTAAAAA-ACTTTAATAT
8786656 TAAAATATTAAAAAACTTTTAATAT
1 TAAAATATTAAAAAAC-TTTAATAT
8786681 TAA
1 TAA
8786684 TATTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.12
24 11 0.44
25 11 0.44
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAATATTAAAAAACTTTAATAT
Found at i:8787724 original size:10 final size:11
Alignment explanation
Indices: 8787704--8787753 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
8787694 CAACCTAAAA
*
8787704 ATAATATATTT
1 ATAATAAATTT
8787715 -TAATAAATTT
1 ATAATAAATTT
**
8787725 ATAATAAATAA
1 ATAATAAATTT
*
8787736 ATAA-AAATTA
1 ATAATAAATTT
8787746 ATAATAAA
1 ATAATAAA
8787754 AAATAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 18 0.55
11 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATAAATTT
Found at i:8787731 original size:11 final size:11
Alignment explanation
Indices: 8787715--8787753 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8787705 TAATATATTT
*
8787715 TAATAAATTTA
1 TAATAAATTAA
*
8787726 TAATAAATAAA
1 TAATAAATTAA
8787737 TAA-AAATTAA
1 TAATAAATTAA
8787747 TAATAAA
1 TAATAAA
8787754 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8787764 original size:21 final size:21
Alignment explanation
Indices: 8787719--8787762 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8787709 ATATTTTAAT
*
8787719 AAATTTATAATAAATAAATAA
1 AAATTAATAATAAATAAATAA
8787740 AAATTAATAATAAA-AAATAA
1 AAATTAATAATAAATAAATAA
8787760 AAA
1 AAA
8787763 ATAAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATTAATAATAAATAAATAA
Found at i:8789015 original size:11 final size:11
Alignment explanation
Indices: 8788995--8789037 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8788985 ATTCATAAAT
*
8788995 TTATTTATTTG
1 TTATTCATTTG
*
8789006 TTATTCATTTA
1 TTATTCATTTG
8789017 TTATTCATTTG
1 TTATTCATTTG
* *
8789028 ATATTTATTT
1 TTATTCATTT
8789038 ATAATAATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (11 bp):
TTATTCATTTG
Done.