Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 24 of 190
Found at i:3815769 original size:2 final size:2
Alignment explanation
Indices: 3815762--3815791 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3815752 TCTTCTCCTC
*
3815762 TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3815792 GAAATGAATC
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:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:3823599 original size:21 final size:21
Alignment explanation
Indices: 3823565--3823615 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3823555 TCCAAAATTA
3823565 ATAAAATATATTTTTT-AAAT
1 ATAAAATATATTTTTTAAAAT
3823585 ATAAAATATTATTTTTTAAAAT
1 ATAAAATA-TATTTTTTAAAAT
3823607 AT-AAATATA
1 ATAAAATATA
3823616 AATTATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.34
21 13 0.45
22 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATATTTTTTAAAAT
Found at i:3824948 original size:30 final size:30
Alignment explanation
Indices: 3824882--3824955 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
3824872 TTAGATTATA
*
3824882 ATTTAAGAATAAAAAAATTATAAATGATATT
1 ATTTAA-AATATAAAAATTATAAATGATATT
*
3824913 ATTTAAAATATAAAATTTATTAAAT-ATATT
1 ATTTAAAATATAAAAATTA-TAAATGATATT
* *
3824943 TTTTAAAAAATAA
1 ATTTAAAATATAA
3824956 TTGTATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 27 0.71
31 11 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTTAAAATATAAAAATTATAAATGATATT
Found at i:3825183 original size:18 final size:17
Alignment explanation
Indices: 3825158--3825191 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3825148 GGTCTAAAAG
*
3825158 AAAAAAAATGAATAAAT
1 AAAAAAAAAGAATAAAT
3825175 AAAAGAAAAAGAATAAA
1 AAAA-AAAAAGAATAAA
3825192 AAAGTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAGAATAAAT
Found at i:3829386 original size:223 final size:224
Alignment explanation
Indices: 3828998--3829450 Score: 809
Period size: 223 Copynumber: 2.0 Consensus size: 224
3828988 GAATGTGTTA
* * *
3828998 AAAGATTAGATGTGATTTAGTTCCATGCTGTTTTTCCTTTCCTTCTGATCATTATAGGCTGTTGA
1 AAAGATTAGATGTGATTTAGTTCCATGCTGTTTTTCCTCTCCTTCTAATCATTATAGGCTATTGA
3829063 CTAGTAATTGATTTGCTCATGTGGATGGTAAAGTGGCATTGGGATAGTAAATATACGGATGTTTG
66 CTAGTAATTGATTTGCTCATGTGGATGGTAAAGTGGCATTGGGATAGTAAATATACGGATGTTTG
* *
3829128 CATGTATGATGAAATAGAATGTCAATCTTACTTGTATGAATATATT-TTCTGTATTTTAATGAAA
131 CATGTATGATGAAATAGAATGTCAATCTTACTTGTAGGAATATATTGTACTGTATTTTAATGAAA
*
3829192 TGCATGTGATCTTCGTGCCAGGATCTTCC
196 TACATGTGATCTTCGTGCCAGGATCTTCC
3829221 AAAGATTAGATGTGATTTAGTTCCATGCTGTTTTTCCTCTCCTTCTAATCATTATAGGCTATTGA
1 AAAGATTAGATGTGATTTAGTTCCATGCTGTTTTTCCTCTCCTTCTAATCATTATAGGCTATTGA
*
3829286 CTAGTAATTGATTTGCTCATGTGGATGGTAAAGTGGCATTGGGATAGTAAATATATGGATGTTTG
66 CTAGTAATTGATTTGCTCATGTGGATGGTAAAGTGGCATTGGGATAGTAAATATACGGATGTTTG
*
3829351 CATGTATGATGAAATAGAATGTCAATCTTACTTGTAGGAATATATTGTACTGTTTTTTAATGAAA
131 CATGTATGATGAAATAGAATGTCAATCTTACTTGTAGGAATATATTGTACTGTATTTTAATGAAA
* *
3829416 TATATGTGATCTTCGTGCCGGGATCTTCC
196 TACATGTGATCTTCGTGCCAGGATCTTCC
3829445 AAAGAT
1 AAAGAT
3829451 GTTTTGCATG
Statistics
Matches: 219, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
223 171 0.78
224 48 0.22
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (224 bp):
AAAGATTAGATGTGATTTAGTTCCATGCTGTTTTTCCTCTCCTTCTAATCATTATAGGCTATTGA
CTAGTAATTGATTTGCTCATGTGGATGGTAAAGTGGCATTGGGATAGTAAATATACGGATGTTTG
CATGTATGATGAAATAGAATGTCAATCTTACTTGTAGGAATATATTGTACTGTATTTTAATGAAA
TACATGTGATCTTCGTGCCAGGATCTTCC
Found at i:3838951 original size:29 final size:28
Alignment explanation
Indices: 3838909--3838971 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3838899 TTTTATTAAA
**
3838909 AATA-TTATTTATAATTTAAATTTAATT
1 AATATTTATTTATAATAAAAATTTAATT
* *
3838936 GATATTTATTTAATAATAAAAATTTTATT
1 AATATTTATTT-ATAATAAAAATTTAATT
3838965 AATATTT
1 AATATTT
3838972 TTATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 3 0.10
28 6 0.21
29 20 0.69
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AATATTTATTTATAATAAAAATTTAATT
Found at i:3839002 original size:26 final size:24
Alignment explanation
Indices: 3838952--3839006 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
3838942 TATTTAATAA
** *
3838952 TAAAAATTTTATTAATATTTTTAT
1 TAAAAATTTTATTAATAAATATAT
3838976 TAAAAATATTTATTTAATAAATATAT
1 TAAAAAT-TTTA-TTAATAAATATAT
3839002 TAAAA
1 TAAAA
3839007 TTTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 4 0.15
26 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAAAATTTTATTAATAAATATAT
Found at i:3846319 original size:90 final size:90
Alignment explanation
Indices: 3846166--3846347 Score: 319
Period size: 90 Copynumber: 2.0 Consensus size: 90
3846156 TGATAAACAC
* *
3846166 ATGTTGACTTCTTGCACTATCATTTGAATGCACGTTTTATACATTGAAACAGACATTCAAAGGCT
1 ATGTTGACTTCTTGCACTATCATTTGAATGCACGTTTTACACATTAAAACAGACATTCAAAGGCT
* *
3846231 CGCTTATGTGTATATATATATATAT
66 CGCTTATATATATATATATATATAT
*
3846256 ATGTTGACTTCTTGCAGTATCATTTGAATGCACGTTTTACACATTAAAACAGACATTCAAAGGCT
1 ATGTTGACTTCTTGCACTATCATTTGAATGCACGTTTTACACATTAAAACAGACATTCAAAGGCT
3846321 CGCTTATATATATATATATATATAT
66 CGCTTATATATATATATATATATAT
3846346 AT
1 AT
3846348 ATATATATAT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (90 bp):
ATGTTGACTTCTTGCACTATCATTTGAATGCACGTTTTACACATTAAAACAGACATTCAAAGGCT
CGCTTATATATATATATATATATAT
Found at i:3846332 original size:2 final size:2
Alignment explanation
Indices: 3846325--3846359 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3846315 AAGGCTCGCT
3846325 TA TA 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 TA TA T
3846360 TCTCCAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3854354 original size:17 final size:17
Alignment explanation
Indices: 3854332--3854368 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3854322 ACCAAATATG
3854332 GAACCAAGAGGGAAAGA
1 GAACCAAGAGGGAAAGA
*
3854349 GAACCAAGAGGGAGAGA
1 GAACCAAGAGGGAAAGA
3854366 GAA
1 GAA
3854369 GGCAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.38, T:0.00
Consensus pattern (17 bp):
GAACCAAGAGGGAAAGA
Found at i:3859663 original size:15 final size:17
Alignment explanation
Indices: 3859639--3859679 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
3859629 ATTTTAAAAG
3859639 ATAATA-TTTAAAATTT
1 ATAATATTTTAAAATTT
3859655 -TAA-ATTTTAAAATTT
1 ATAATATTTTAAAATTT
3859670 ATAATATTTT
1 ATAATATTTT
3859680 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 3 0.14
17 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATATTTTAAAATTT
Found at i:3866749 original size:10 final size:10
Alignment explanation
Indices: 3866720--3866759 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
3866710 TTTATTTTAC
*
3866720 AAATATTTAA
1 AAATATATAA
3866730 AAATATATAA
1 AAATATATAA
3866740 AAATCA-ATAA
1 AAAT-ATATAA
3866750 AAATATATAA
1 AAATATATAA
3866760 TTTAATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (10 bp):
AAATATATAA
Found at i:3881780 original size:52 final size:52
Alignment explanation
Indices: 3881697--3881801 Score: 142
Period size: 52 Copynumber: 2.0 Consensus size: 52
3881687 TATAATTATA
*
3881697 CAAACTTGCTTATTAAGAATCTCTCTACTCTTATAATTCTTTTTCTGTAAGT
1 CAAACTTGCTTATTAAGAATCTCTCTACTCTTAGAATTCTTTTTCTGTAAGT
* * *
3881749 CAAACTTG-TCTATTAAGAATCTC-CTTGCTCTTAGAATTCTTTTTTTGTTAGT
1 CAAACTTGCT-TATTAAGAATCTCTC-TACTCTTAGAATTCTTTTTCTGTAAGT
3881801 C
1 C
3881802 TTATTGTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (52 bp):
CAAACTTGCTTATTAAGAATCTCTCTACTCTTAGAATTCTTTTTCTGTAAGT
Found at i:3885006 original size:2 final size:2
Alignment explanation
Indices: 3884999--3885024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3884989 ATCCCTATTA
3884999 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
3885025 TGGATAAGTT
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:3886409 original size:24 final size:24
Alignment explanation
Indices: 3886370--3886416 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3886360 AGTGTAAATT
*
3886370 TTTTTTAGTTTTATATTTTTAAAA
1 TTTTTTAGTTTTATATATTTAAAA
3886394 TTTTTTA-TTTTAATATATTTAAA
1 TTTTTTAGTTTT-ATATATTTAAA
3886417 CAAATGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTTTAGTTTTATATATTTAAAA
Found at i:3888871 original size:25 final size:25
Alignment explanation
Indices: 3888843--3888953 Score: 73
Period size: 25 Copynumber: 4.3 Consensus size: 25
3888833 TTAAAGATGA
3888843 ATTAATTAAATTAAATTATAAATTT
1 ATTAATTAAATTAAATTATAAATTT
* *
3888868 ATTAATAAAGAATTATGAATTTTAAATTT
1 ATTAAT-TA-AATTA--AATTATAAATTT
* * ** **
3888897 ATTAAATGT-TATT-ATTTGGAAATGA
1 ATT-AAT-TAAATTAAATTATAAATTT
*
3888922 ATTAATTGAATTAAATTATAAATTT
1 ATTAATTAAATTAAATTATAAATTT
3888947 ATTAATT
1 ATTAATT
3888954 CAAAAAGTTT
Statistics
Matches: 63, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
23 1 0.02
24 6 0.10
25 30 0.48
26 1 0.02
27 5 0.08
28 3 0.05
29 14 0.22
30 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATTAATTAAATTAAATTATAAATTT
Found at i:3889659 original size:18 final size:16
Alignment explanation
Indices: 3889636--3889679 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
3889626 AAAGTTTTAC
3889636 ATAAATTTATTATTAATT
1 ATAAA-TTATT-TTAATT
3889654 ATAAATTATTTTAA-T
1 ATAAATTATTTTAATT
3889669 -TAAATTATTTT
1 ATAAATTATTTT
3889680 TTTTCATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 4 0.15
17 5 0.19
18 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAAATTATTTTAATT
Found at i:3893035 original size:20 final size:20
Alignment explanation
Indices: 3892989--3893036 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3892979 ATCATTAATT
*
3892989 TTAATCTTATCATTATAATAA
1 TTAAT-TTATCATTACAATAA
** *
3893010 CCAATTTATTATTACAATAA
1 TTAATTTATCATTACAATAA
3893030 TTAATTT
1 TTAATTT
3893037 TACTTTCATA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATTTATCATTACAATAA
Found at i:3893049 original size:18 final size:19
Alignment explanation
Indices: 3893026--3893079 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
3893016 TATTATTACA
3893026 ATAATTAATTTTACTT-TC
1 ATAATTAATTTTACTTATC
*
3893044 ATAATTATTTTTAATCTTATC
1 ATAATTAATTTT-A-CTTATC
* *
3893065 AAAATCAATTTTACT
1 ATAATTAATTTTACT
3893080 CTCAATCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 11 0.38
19 3 0.10
20 4 0.14
21 11 0.38
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATTAATTTTACTTATC
Found at i:3900156 original size:38 final size:39
Alignment explanation
Indices: 3900080--3900158 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
3900070 TCAAAACTAA
* *
3900080 ACTTTATTAGAAAATTAAAAAAAATTCAGTATGCTATTCT
1 ACTTTATCAGAAAATT-AAAAAAATTCAGTATACTATTCT
* * *
3900120 ACTTTATCAGAAAGTT-AAAATATTCAGTATATTATTCT
1 ACTTTATCAGAAAATTAAAAAAATTCAGTATACTATTCT
3900158 A
1 A
3900159 TACATTTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 20 0.59
40 14 0.41
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (39 bp):
ACTTTATCAGAAAATTAAAAAAATTCAGTATACTATTCT
Found at i:3910964 original size:15 final size:14
Alignment explanation
Indices: 3910935--3910990 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
3910925 TTTATATTTT
* *
3910935 TTTAATATTTAAAA
1 TTTAAAATTTTAAA
3910949 TTATAAAATTTTAAA
1 TT-TAAAATTTTAAA
*
3910964 TTT-TAATTATTAAA
1 TTTAAAATT-TTAAA
*
3910978 ATTAAAATTTTAA
1 TTTAAAATTTTAA
3910991 TACTCTATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.12
14 14 0.41
15 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAAATTTTAAA
Found at i:3910970 original size:30 final size:28
Alignment explanation
Indices: 3910934--3910990 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
3910924 TTTTATATTT
3910934 TTTTAA-TATTTAAAATTATAAAATTTTAAA
1 TTTTAATTA-TTAAAA-T-TAAAATTTTAAA
3910964 TTTTAATTATTAAAATTAAAATTTTAA
1 TTTTAATTATTAAAATTAAAATTTTAA
3910991 TACTCTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 11 0.42
29 1 0.04
30 12 0.46
31 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTAATTATTAAAATTAAAATTTTAAA
Found at i:3910973 original size:21 final size:21
Alignment explanation
Indices: 3910947--3910991 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
3910937 TAATATTTAA
*
3910947 AATTA-TAAAATTTTAAATTTT
1 AATTATTAAAA-TTAAAATTTT
3910968 AATTATTAAAATTAAAATTTT
1 AATTATTAAAATTAAAATTTT
3910989 AAT
1 AAT
3910992 ACTCTATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTATTAAAATTAAAATTTT
Found at i:3914605 original size:17 final size:17
Alignment explanation
Indices: 3914579--3914616 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3914569 TTAATATTGC
*
3914579 ATATTGGCTTACGTATG
1 ATATTGGCTTACGCATG
*
3914596 ATATTTGCTTACGCATG
1 ATATTGGCTTACGCATG
3914613 ATAT
1 ATAT
3914617 GAACTCATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (17 bp):
ATATTGGCTTACGCATG
Found at i:3915123 original size:23 final size:22
Alignment explanation
Indices: 3915092--3915145 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3915082 AATAAAAATA
* *
3915092 AAAAATTTTTAAAAAATATTTT
1 AAAATTTTTTAAAAAACATTTT
* **
3915114 AAAATTTTTTCATGAACATTTT
1 AAAATTTTTTAAAAAACATTTT
3915136 AAAATTTTTT
1 AAAATTTTTT
3915146 TGTCAATATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATTTTTTAAAAAACATTTT
Found at i:3916697 original size:17 final size:18
Alignment explanation
Indices: 3916672--3916705 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3916662 TTATATATTT
3916672 AATTATATTTT-TATTAA
1 AATTATATTTTATATTAA
*
3916689 AATTTTATTTTATATTA
1 AATTATATTTTATATTA
3916706 TTATATTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATATTTTATATTAA
Found at i:3918563 original size:13 final size:13
Alignment explanation
Indices: 3918547--3918587 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3918537 ATTTATTTTT
*
3918547 TTATTTTTATATA
1 TTATTTTAATATA
3918560 TTATTTTAATATA
1 TTATTTTAATATA
**
3918573 AAATTTTAATATA
1 TTATTTTAATATA
3918586 TT
1 TT
3918588 TAAGTAGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:3921974 original size:18 final size:17
Alignment explanation
Indices: 3921951--3921984 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3921941 AATTCTTAAA
3921951 ATTTTACTATTTTTTTTC
1 ATTTTA-TATTTTTTTTC
*
3921969 ATTTTATGTTTTTTTT
1 ATTTTATATTTTTTTT
3921985 GGGTGATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTATATTTTTTTTC
Found at i:3924644 original size:26 final size:26
Alignment explanation
Indices: 3924615--3924665 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
3924605 AAATTTAGAT
*
3924615 AAAATTTCTCACTTAAAAATTTTATA
1 AAAATTTATCACTTAAAAATTTTATA
* * *
3924641 AAAATTTATCATTTGAAATTTTTAT
1 AAAATTTATCACTTAAAAATTTTAT
3924666 GAATTCCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATTTATCACTTAAAAATTTTATA
Found at i:3924729 original size:194 final size:194
Alignment explanation
Indices: 3924364--3924714 Score: 451
Period size: 194 Copynumber: 1.8 Consensus size: 194
3924354 AAAAGAATAC
* * *
3924364 AATTACTTGTTTTGAAATTTCATCTAAATCATTTCACCATTTGGGCCAAATTTAGAGAAAATTTC
1 AATTACTTGTTTTAAAATTTCATCTAAATCATTTCACCATTTGAGACAAATTTAGAGAAAATTTC
* * * * * *
3924429 TCACATAGAGATTTTTTAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGGTGATTT
66 TCACATAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGATAATTA
* *
3924494 GTATTTAATTTCAAAATTTTTATATTTTTATGTTTTTAATTTTTTTTGTTTGAAAATAAATATT
131 ATATTTAATTCCAAAATTTTTATATTTTTATGTTTTTAATTTTTTTTGTTTGAAAATAAATATT
* * * *
3924558 AATTA-TTGTTATTAAAATTTTATCTATATTA-TTCTACCATTTGAGACAAATTTAGATAAAATT
1 AATTACTTGTT-TTAAAATTTCATCTAAATCATTTC-ACCATTTGAGACAAATTTAGAGAAAATT
* * * *
3924621 TCTCACTTAAAAATTTTATAAAAATTTATCATTTGAAATTTTTATGAAT-TCCATCATTGGATAA
64 TCTCACATAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAGAATCT-CATCATTGGATAA
*
3924685 TTAATA-TTCATTCCCAAAATTTTTAT-TTTT
128 TTAATATTTAATT-CCAAAATTTTTATATTTT
3924715 ACTTTATTTT
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
193 18 0.14
194 115 0.86
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (194 bp):
AATTACTTGTTTTAAAATTTCATCTAAATCATTTCACCATTTGAGACAAATTTAGAGAAAATTTC
TCACATAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGATAATTA
ATATTTAATTCCAAAATTTTTATATTTTTATGTTTTTAATTTTTTTTGTTTGAAAATAAATATT
Found at i:3924764 original size:25 final size:26
Alignment explanation
Indices: 3924730--3924792 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
3924720 ATTTTAATTT
*
3924730 AATAATTAAAAAAAAACAAATAA-AA
1 AATACTTAAAAAAAAACAAATAAGAA
* *
3924755 AATACTT-AAATAAAATAAATAAGAA
1 AATACTTAAAAAAAAACAAATAAGAA
*
3924780 AATAC-CAAAAAAA
1 AATACTTAAAAAAA
3924793 TTCGAAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (26 bp):
AATACTTAAAAAAAAACAAATAAGAA
Found at i:3925538 original size:9 final size:9
Alignment explanation
Indices: 3925520--3925601 Score: 64
Period size: 9 Copynumber: 9.3 Consensus size: 9
3925510 AATTTTGAAC
*
3925520 AAAAAAAAT
1 AAAAATAAT
3925529 AAAAATAAT
1 AAAAATAAT
*
3925538 -AAAATAAC
1 AAAAATAAT
*
3925546 GAAAATAAT
1 AAAAATAAT
3925555 -AAAATAAT
1 AAAAATAAT
3925563 AAAAA-AATT
1 AAAAATAA-T
3925572 CAAAAATAA-
1 -AAAAATAAT
*
3925581 AATAATAAT
1 AAAAATAAT
* *
3925590 AATAATTAT
1 AAAAATAAT
3925599 AAA
1 AAA
3925602 TTAAAGTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 24 0.39
9 30 0.49
10 5 0.08
11 2 0.03
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.22
Consensus pattern (9 bp):
AAAAATAAT
Found at i:3925541 original size:8 final size:8
Alignment explanation
Indices: 3925530--3925595 Score: 71
Period size: 8 Copynumber: 8.0 Consensus size: 8
3925520 AAAAAAAATA
3925530 AAAATAAT
1 AAAATAAT
*
3925538 AAAATAACG
1 AAAATAA-T
3925547 AAAATAAT
1 AAAATAAT
3925555 AAAATAAT
1 AAAATAAT
*
3925563 AAAAAAATT
1 AAAATAA-T
*
3925572 CAAA-AAT
1 AAAATAAT
3925579 AAAATAAT
1 AAAATAAT
3925587 AATAATAAT
1 AA-AATAAT
3925596 TATAAATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
7 4 0.08
8 28 0.57
9 17 0.35
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:3925567 original size:17 final size:17
Alignment explanation
Indices: 3925521--3925595 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
3925511 ATTTTGAACA
*
3925521 AAAAAAATAAAAATAAT
1 AAAATAATAAAAATAAT
**
3925538 AAAATAACGAAAATAAT
1 AAAATAATAAAAATAAT
3925555 AAAATAATAAAAA-AATT
1 AAAATAATAAAAATAA-T
*
3925572 CAAA-AAT-AAAATAAT
1 AAAATAATAAAAATAAT
3925587 AATAATAAT
1 AA-AATAAT
3925596 TATAAATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.13
16 9 0.19
17 32 0.68
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (17 bp):
AAAATAATAAAAATAAT
Found at i:3925602 original size:24 final size:24
Alignment explanation
Indices: 3925523--3925588 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
3925513 TTTGAACAAA
* ***
3925523 AAAAATAAAAATAATAAAATAACGA
1 AAAAAT-AAAATAATAAAAAAATTC
3925548 AAATAATAAAATAATAAAAAAATTC
1 AAA-AATAAAATAATAAAAAAATTC
3925573 AAAAATAAAATAATAA
1 AAAAATAAAATAATAA
3925589 TAATAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 13 0.36
25 20 0.56
26 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.20
Consensus pattern (24 bp):
AAAAATAAAATAATAAAAAAATTC
Found at i:3925899 original size:40 final size:41
Alignment explanation
Indices: 3925855--3925990 Score: 188
Period size: 41 Copynumber: 3.4 Consensus size: 41
3925845 AGTAACAGAC
*
3925855 TTCA-AAAATAAATGGCTTCTCTGAATAAAAGCAACGAACT
1 TTCAGAAAATAAATGGCTTCTCTGAATAAAGGCAACGAACT
* * *
3925895 TTCA-AAAATAAATGGCTCCTCTGAATAGAGGCAACAAACT
1 TTCAGAAAATAAATGGCTTCTCTGAATAAAGGCAACGAACT
* *
3925935 TTCAGAAAATAAATGGC-TCATCTAAATATAGGCAACGAACT
1 TTCAGAAAATAAATGGCTTC-TCTGAATAAAGGCAACGAACT
3925976 TTCAGAAAATAAATG
1 TTCAGAAAATAAATG
3925991 TTCCTTGACA
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 41 0.48
41 45 0.52
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (41 bp):
TTCAGAAAATAAATGGCTTCTCTGAATAAAGGCAACGAACT
Found at i:3926989 original size:8 final size:8
Alignment explanation
Indices: 3926968--3927005 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
3926958 AGTCTTTCTT
3926968 TTTTATTA
1 TTTTATTA
3926976 -TTTATTA
1 TTTTATTA
3926983 TTTTATTA
1 TTTTATTA
3926991 TTTTATTA
1 TTTTATTA
3926999 TTTTATT
1 TTTTATT
3927006 CTCTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:3932251 original size:36 final size:37
Alignment explanation
Indices: 3932176--3932256 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
3932166 TTAGAAATAG
3932176 TTTTG-ATGGTTGGTCAATCATGAAGACTTTAATATT
1 TTTTGAATGGTTGGTCAATCATGAAGACTTTAATATT
*
3932212 TTTTGAATGGTTGGTCAGTCATGAAGACTTTAATATT
1 TTTTGAATGGTTGGTCAATCATGAAGACTTTAATATT
3932249 TTTTGAAT
1 TTTTGAAT
3932257 CCCAATCTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 5 0.12
37 38 0.88
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (37 bp):
TTTTGAATGGTTGGTCAATCATGAAGACTTTAATATT
Found at i:3936462 original size:52 final size:52
Alignment explanation
Indices: 3936405--3936508 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
3936395 ACATGATTAT
* *
3936405 GAAAATGATGCATAAAATGATATGATATAATAATGCTTAAAACATGAGGATG
1 GAAAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATG
* * *
3936457 GAAAATGATGCATAGAATGATGTAACATGATAATGCTTAAAACATGAGGATG
1 GAAAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATG
3936509 CATGTTGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (52 bp):
GAAAATGATGCATAAAATGATATAACATAATAATGCTTAAAACATGAGGATG
Found at i:3938115 original size:26 final size:24
Alignment explanation
Indices: 3938086--3938143 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
3938076 AAATTTAGAT
3938086 AAAATTTCTCACTTAAGAATTTTATA
1 AAAATTTCTCACTTAA-AATTTT-TA
* * *
3938112 AAAATTTATCATTTGAAATTTTTA
1 AAAATTTCTCACTTAAAATTTTTA
*
3938136 TAAATTTC
1 AAAATTTC
3938144 ATCATTGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 8 0.30
25 6 0.22
26 13 0.48
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (24 bp):
AAAATTTCTCACTTAAAATTTTTA
Found at i:3938157 original size:26 final size:25
Alignment explanation
Indices: 3938103--3938157 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
3938093 CTCACTTAAG
*
3938103 AATTTTATAAAAATTTATCATTTGA
1 AATTTTATAAAAATTTATCATTGGA
*
3938128 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ATCATTGGA
3938153 TAATT
1 -AATT
3938158 AATATTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
AATTTTATAAAAATTTATCATTGGA
Found at i:3938973 original size:3 final size:3
Alignment explanation
Indices: 3938965--3939033 Score: 51
Period size: 3 Copynumber: 24.7 Consensus size: 3
3938955 TCTGACTAAA
** *
3938965 AAT AAT AAT AA- AAT AAT AA- AA- AAT AGC AAA AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3939009 AA- AAA AAT CAA- AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AA
3939034 ATTAAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 12 0.22
3 40 0.74
4 2 0.04
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:3938981 original size:8 final size:8
Alignment explanation
Indices: 3938968--3939033 Score: 62
Period size: 8 Copynumber: 7.6 Consensus size: 8
3938958 GACTAAAAAT
3938968 AATAATAA
1 AATAATAA
3938976 AATAATAA
1 AATAATAA
3938984 AA-AATAGCAAA
1 AATAAT----AA
3938995 AATAATAA
1 AATAATAA
3939003 AATAATAA
1 AATAATAA
*
3939011 AAAAATCAA
1 AATAAT-AA
3939020 AATAATAA
1 AATAATAA
3939028 TAATAA
1 -AATAA
3939034 ATTAAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
7 3 0.06
8 27 0.55
9 12 0.24
11 4 0.08
12 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (8 bp):
AATAATAA
Found at i:3939005 original size:27 final size:26
Alignment explanation
Indices: 3938968--3939042 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
3938958 GACTAAAAAT
3938968 AATAATAAAATAATAAAAAATAGCAAA
1 AATAATAAAATAATAAAAAATAGC-AA
*
3938995 AATAATAAAATAATAAAAAA-ATCAA
1 AATAATAAAATAATAAAAAATAGCAA
*
3939020 AATAATAATAATAAATTAAAAAT
1 AATAATAA-AAT-AATAAAAAAT
3939043 TAAAACTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 10 0.23
26 5 0.12
27 28 0.65
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (26 bp):
AATAATAAAATAATAAAAAATAGCAA
Found at i:3941540 original size:6 final size:6
Alignment explanation
Indices: 3941517--3941622 Score: 65
Period size: 6 Copynumber: 17.2 Consensus size: 6
3941507 AATAATAATG
* * *
3941517 ATAATAA ATGAAA TTAAAA ATAAAA ATTAAACA A-ATAAA AT-GAA ATAAAA
1 ATAA-AA ATAAAA ATAAAA ATAAAA A-TAAA-A ATA-AAA ATAAAA ATAAAA
* ** *
3941567 A-AAATA AAAAAA ATAAAA ATGTAA ATAAAA ATAAAA GAAAAAA ATAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA
*
3941616 AGAAAA A
1 ATAAAA A
3941623 CCTGCGATCG
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
5 7 0.09
6 51 0.66
7 17 0.22
8 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:3941554 original size:15 final size:15
Alignment explanation
Indices: 3941532--3941616 Score: 70
Period size: 14 Copynumber: 5.7 Consensus size: 15
3941522 AAATGAAATT
3941532 AAAAATAAAAATTAA
1 AAAAATAAAAATTAA
* *
3941547 ACAAAT-AAAATGAA
1 AAAAATAAAAATTAA
* *
3941561 ATAAA-AAAAATAAA
1 AAAAATAAAAATTAA
3941575 AAAAATAAAAATGTAA
1 AAAAATAAAAAT-TAA
*
3941591 ATAAAA-ATAAAA-GAA
1 A-AAAATA-AAAATTAA
3941606 AAAAATAAAAA
1 AAAAATAAAAA
3941617 GAAAAACCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
14 30 0.53
15 15 0.26
16 4 0.07
17 8 0.14
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAATTAA
Found at i:3941571 original size:9 final size:9
Alignment explanation
Indices: 3941538--3941616 Score: 70
Period size: 9 Copynumber: 8.2 Consensus size: 9
3941528 AATTAAAAAT
*
3941538 AAAAATTAA
1 AAAAATAAA
*
3941547 ACAAATAAA
1 AAAAATAAA
*
3941556 ATGAAATAAA
1 A-AAAATAAA
3941566 AAAAATAAA
1 AAAAATAAA
3941575 AAAAATAAA
1 AAAAATAAA
3941584 AATGTAAATAAA
1 AA---AAATAAA
3941596 AATAAA-AGAA
1 AA-AAATA-AA
3941606 AAAAATAAA
1 AAAAATAAA
3941615 AA
1 AA
3941617 GAAAAACCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
9 34 0.57
10 17 0.28
12 9 0.15
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:3941611 original size:31 final size:29
Alignment explanation
Indices: 3941517--3941620 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 29
3941507 AATAATAATG
3941517 ATAATAAATGAAATTAAAAATAAAAATTAAACAA
1 ATAA-AAATGAAA-TAAAAATAAAAA--AAA-AA
3941551 AT-AAAATGAAATAAAAA-AAATAAAAAAA
1 ATAAAAATGAAATAAAAATAAA-AAAAAAA
3941579 ATAAAAATGTAAATAAAAATAAAAGAAAAAA
1 ATAAAAATG-AAATAAAAATAAAA-AAAAAA
3941610 ATAAAAA-GAAA
1 ATAAAAATGAAA
3941621 AACCTGCGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
28 4 0.06
29 12 0.18
30 14 0.22
31 24 0.37
32 8 0.12
33 1 0.02
34 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (29 bp):
ATAAAAATGAAATAAAAATAAAAAAAAAA
Found at i:3942022 original size:20 final size:20
Alignment explanation
Indices: 3941983--3942023 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3941973 TCATCCTAAA
* *
3941983 TCTAGAAAAACCTAATTTTT
1 TCTAGAAAAACCCAACTTTT
*
3942003 TCTAGAAAAACCCAGCTTTT
1 TCTAGAAAAACCCAACTTTT
3942023 T
1 T
3942024 TCAATTTTAA
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:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (20 bp):
TCTAGAAAAACCCAACTTTT
Found at i:3942488 original size:3 final size:3
Alignment explanation
Indices: 3942482--3942542 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
3942472 TTAGTAAGTA
* *
3942482 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3942530 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
3942543 GTAAATACTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3943175 original size:64 final size:64
Alignment explanation
Indices: 3942992--3943321 Score: 188
Period size: 64 Copynumber: 5.2 Consensus size: 64
3942982 CGCGAGTCAA
* ** * * *** * *
3942992 AAAAATAAAATGATCTGAATCGAG-CTGAGATCAAAA-CAGGTGATTGAGATTAAACTGCAGGTT
1 AAAAATAAAATGATCTGGATTAAGTC-GAGATCAAAATGA-GTGATCGAGATTAAACCATAAGTC
3943055 T
64 T
* * * * * * * *
3943056 AAAAATAAAATGATCTAGATTGAA-CCAAGATCGAAACGAGT-ACCTGGGATGAAACCATAAGTC
1 AAAAATAAAATGATCTGGATT-AAGTCGAGATCAAAATGAGTGATC-GAGATTAAACCATAAGTC
3943119 T
64 T
* * *
3943120 GAAAATAAAATGATCTGGATTAAGTTGAGATCAAAATGAGTGATCGAGATTAAACCGTAAGTCT
1 AAAAATAAAATGATCTGGATTAAGTCGAGATCAAAATGAGTGATCGAGATTAAACCATAAGTCT
* * * * * ** * * *
3943184 AAAAATAAAATAATCT-G-TTAGAGTCAATATCAAAATG-GTAATCAAGATCGAACAACAGGTCT
1 AAAAATAAAATGATCTGGATTA-AGTCGAGATCAAAATGAGTGATCGAGATTAAACCATAAGTCT
** * * ** * * * *
3943246 TGAAATAAAATGATCTGGACTGAGTCGAGATTGAAACGAGTGACCGAGATTGAACCATAAATCT
1 AAAAATAAAATGATCTGGATTAAGTCGAGATCAAAATGAGTGATCGAGATTAAACCATAAGTCT
3943310 CAAAAATAAAAT
1 -AAAAATAAAAT
3943322 TCAAATTTTT
Statistics
Matches: 195, Mismatches: 60, Indels: 21
0.71 0.22 0.08
Matches are distributed among these distances:
62 33 0.17
63 29 0.15
64 119 0.61
65 14 0.07
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (64 bp):
AAAAATAAAATGATCTGGATTAAGTCGAGATCAAAATGAGTGATCGAGATTAAACCATAAGTCT
Found at i:3943486 original size:18 final size:18
Alignment explanation
Indices: 3943458--3943510 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
3943448 AAGATTCATA
*
3943458 AAGGCTTGCAAGAATTTT
1 AAGGTTTGCAAGAATTTT
*
3943476 AAGTTTTGCAAGAA-TTT
1 AAGGTTTGCAAGAATTTT
* *
3943493 CAGGTTTGCAAAAATTTT
1 AAGGTTTGCAAGAATTTT
3943511 TATCATTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (18 bp):
AAGGTTTGCAAGAATTTT
Found at i:3943502 original size:17 final size:17
Alignment explanation
Indices: 3943458--3943509 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
3943448 AAGATTCATA
*
3943458 AAGGCTTGCAAGAATTTT
1 AAGGTTTGCAAGAA-TTT
*
3943476 AAGTTTTGCAAGAATTT
1 AAGGTTTGCAAGAATTT
* *
3943493 CAGGTTTGCAAAAATTT
1 AAGGTTTGCAAGAATTT
3943510 TTATCATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (17 bp):
AAGGTTTGCAAGAATTT
Found at i:3944702 original size:30 final size:30
Alignment explanation
Indices: 3944657--3944720 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
3944647 TCCTGCAATC
*
3944657 TTTACTGAAGCTATTTTTTCAAGTTTTCAT
1 TTTACTGAAGCTATTTTTTCAAGTTTTCAG
* * **
3944687 TTTACTTAAGTTATTTTTTTGAGTTTTCAG
1 TTTACTGAAGCTATTTTTTCAAGTTTTCAG
3944717 TTTA
1 TTTA
3944721 AGTCTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (30 bp):
TTTACTGAAGCTATTTTTTCAAGTTTTCAG
Found at i:3947489 original size:21 final size:21
Alignment explanation
Indices: 3947451--3947490 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3947441 ATGCATGAGA
*
3947451 ATGAATGCAAAAATAAAATGC
1 ATGAATGCAAAAAGAAAATGC
**
3947472 ATGAATGCAATGAGAAAAT
1 ATGAATGCAAAAAGAAAAT
3947491 TTTACCATAT
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:0.07, G:0.17, T:0.20
Consensus pattern (21 bp):
ATGAATGCAAAAAGAAAATGC
Found at i:3949038 original size:11 final size:11
Alignment explanation
Indices: 3949022--3949052 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3949012 GGAAAAAATT
3949022 ATAGCACCCTC
1 ATAGCACCCTC
3949033 ATAGCACCCTC
1 ATAGCACCCTC
*
3949044 ACAGCACCC
1 ATAGCACCC
3949053 ATCTAAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.48, G:0.10, T:0.13
Consensus pattern (11 bp):
ATAGCACCCTC
Found at i:3949721 original size:17 final size:16
Alignment explanation
Indices: 3949701--3949740 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
3949691 AATAGAAGTA
3949701 AAATAAAAAATAAAAT
1 AAATAAAAAATAAAAT
*
3949717 GAAATAGAAAATAAAAT
1 -AAATAAAAAATAAAAT
3949734 AAATAAA
1 AAATAAA
3949741 TATAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:3949754 original size:22 final size:21
Alignment explanation
Indices: 3949668--3949754 Score: 70
Period size: 23 Copynumber: 3.9 Consensus size: 21
3949658 TAATAATGAT
*
3949668 AATAAATGAAATTAGAAAAATAA
1 AATAAAT-AAAATA-AAAAATAA
3949691 AATAGAAGTAAAATAAAAAATAA
1 AATA-AA-TAAAATAAAAAATAA
*
3949714 AATGAAATAGAAA-ATAAAAT-A
1 AAT-AAATA-AAATAAAAAATAA
3949735 AATAAATATAAATGAAAAAA
1 AATAAATA-AAAT-AAAAAA
3949755 AGAAAAACCT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.15
21 4 0.07
22 13 0.24
23 20 0.37
24 8 0.15
25 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (21 bp):
AATAAATAAAATAAAAAATAA
Found at i:3950603 original size:3 final size:3
Alignment explanation
Indices: 3950590--3950700 Score: 96
Period size: 3 Copynumber: 36.7 Consensus size: 3
3950580 ACCCTTTTTT
* *
3950590 TAA TAA GTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * * * *
3950636 CAA CAA CAA CAA CAA TAA TAA CAA CAA TAA TAA CAA CAA CAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3950684 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
3950701 GTAAATACTC
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
3 98 0.97
4 3 0.03
ACGTcount: A:0.66, C:0.12, G:0.01, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:3952872 original size:14 final size:14
Alignment explanation
Indices: 3952849--3952878 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3952839 AATTATAAAG
3952849 CAGGACAATAGTGA
1 CAGGACAATAGTGA
*
3952863 CAGGATAATAGTGA
1 CAGGACAATAGTGA
3952877 CA
1 CA
3952879 TATTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (14 bp):
CAGGACAATAGTGA
Found at i:3957974 original size:29 final size:29
Alignment explanation
Indices: 3957940--3957999 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
3957930 AGTTAATAAA
* *
3957940 TTTATAGTTCAGGTATCACATTAGAA-ATT
1 TTTATAGTTCAGATACCACATTA-AACATT
3957969 TTTATAGTTCAGATACCACATTAAACATT
1 TTTATAGTTCAGATACCACATTAAACATT
3957998 TT
1 TT
3958000 ACTAGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTATAGTTCAGATACCACATTAAACATT
Found at i:3959960 original size:13 final size:14
Alignment explanation
Indices: 3959942--3960046 Score: 58
Period size: 14 Copynumber: 7.5 Consensus size: 14
3959932 ATTAAAGATA
3959942 AATAT-AATATTTT
1 AATATAAATATTTT
3959955 AATATAAATATTTT
1 AATATAAATATTTT
* *
3959969 ATTAATTAATAAATTTAT
1 AAT-A-TAA-ATATTT-T
*
3959987 AAT-TAAATATTAT
1 AATATAAATATTTT
* *
3960000 ATTAAAAAT-TTTT
1 AATATAAATATTTT
* *
3960013 AAATTTAAATA-TTA
1 -AATATAAATATTTT
3960027 AAT-TAAATATTTT
1 AATATAAATATTTT
*
3960040 ATTATAA
1 AATATAA
3960047 TTCAACACCA
Statistics
Matches: 68, Mismatches: 14, Indels: 19
0.67 0.14 0.19
Matches are distributed among these distances:
12 6 0.09
13 18 0.26
14 29 0.43
15 4 0.06
16 3 0.04
17 5 0.07
18 3 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATAAATATTTT
Found at i:3959994 original size:31 final size:32
Alignment explanation
Indices: 3959945--3960004 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
3959935 AAAGATAAAT
*
3959945 ATAATATTTTAATATAAATATTTTATTAATTA
1 ATAATATTTTAATATAAATATTATATTAATTA
3959977 ATAA-ATTTATAAT-TAAATATTATATTAA
1 ATAATATTT-TAATATAAATATTATATTAA
3960005 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATAATATTTTAATATAAATATTATATTAATTA
Found at i:3960022 original size:28 final size:25
Alignment explanation
Indices: 3959968--3960039 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 25
3959958 ATAAATATTT
*
3959968 TATTAATTAATAAATTTATAATTAAA
1 TATTAATTAA-AAATTTTTAATTAAA
3959994 TATTATATTAAAAATTTTTAAATTTAAA
1 TATTA-ATTAAAAATTTTT-AA-TTAAA
*
3960022 TATTAAATTAAATATTTT
1 TATT-AATTAAAAATTTT
3960040 ATTATAATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 12 0.30
27 7 0.17
28 20 0.50
29 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAATTAAAAATTTTTAATTAAA
Found at i:3962100 original size:65 final size:65
Alignment explanation
Indices: 3961996--3962125 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
3961986 ATCTAAAGAT
3961996 CTTGTTGATTGAATCTCTACTGATTCAACCAACATTGAATAGGCTGCTGGTTTTATTTACAGCGG
1 CTTGTTGATTGAATCTCTACTGATTCAACCAACATTGAATAGGCTGCTGGTTTTATTTACAGCGG
*
3962061 CTTGTTGATTGAATCTCTACTGATTCAACCAACATTGAATAGGCTGCTGGTTTTGTTTACAGCGG
1 CTTGTTGATTGAATCTCTACTGATTCAACCAACATTGAATAGGCTGCTGGTTTTATTTACAGCGG
3962126 GCTTAACATC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (65 bp):
CTTGTTGATTGAATCTCTACTGATTCAACCAACATTGAATAGGCTGCTGGTTTTATTTACAGCGG
Found at i:3962240 original size:54 final size:54
Alignment explanation
Indices: 3962182--3962345 Score: 142
Period size: 54 Copynumber: 3.0 Consensus size: 54
3962172 CCATTAAGGG
3962182 TTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAGTTACAGTCAGGC
1 TTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAGTTACAGTCAGGC
** * * * ** * * *
3962236 TTAACATCTA--TCA-TTG-AATGTGG-TGGCTATAAAAGTTTTTCA-TGCCATTAAGGG
1 TTAAC-TCTAGGAAAGCTGTCATATGGCT-GCTAT---A-TTTTTCAGTTACAGTCAGGC
3962290 TTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAGTTACAGTCAGGC
1 TTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAGTTACAGTCAGGC
3962344 TT
1 TT
3962346 CACCAAGATG
Statistics
Matches: 78, Mismatches: 20, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
50 1 0.01
51 10 0.13
52 2 0.03
53 12 0.15
54 28 0.36
55 12 0.15
56 2 0.03
57 10 0.13
58 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (54 bp):
TTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAGTTACAGTCAGGC
Found at i:3962249 original size:108 final size:108
Alignment explanation
Indices: 3962117--3962345 Score: 442
Period size: 108 Copynumber: 2.1 Consensus size: 108
3962107 CTGGTTTTGT
*
3962117 TTACAG-CGGGCTTAACATCTATCATTGAATGTGGTGGCTATAAAAGTTTTTCATGCCATTAAGG
1 TTACAGTCAGGCTTAACATCTATCATTGAATGTGGTGGCTATAAAAGTTTTTCATGCCATTAAGG
3962181 GTTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAG
66 GTTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAG
3962224 TTACAGTCAGGCTTAACATCTATCATTGAATGTGGTGGCTATAAAAGTTTTTCATGCCATTAAGG
1 TTACAGTCAGGCTTAACATCTATCATTGAATGTGGTGGCTATAAAAGTTTTTCATGCCATTAAGG
3962289 GTTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAG
66 GTTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAG
3962332 TTACAGTCAGGCTT
1 TTACAGTCAGGCTT
3962346 CACCAAGATG
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 6 0.05
108 114 0.95
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (108 bp):
TTACAGTCAGGCTTAACATCTATCATTGAATGTGGTGGCTATAAAAGTTTTTCATGCCATTAAGG
GTTAACTCTAGGAAAGCTGTCATATGGCTGCTATATTTTTCAG
Found at i:3968232 original size:28 final size:26
Alignment explanation
Indices: 3968163--3968232 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 26
3968153 TTATTAAAAA
* * *
3968163 TTAAAAAATTAAA-AATTTTAGATAT
1 TTAAAAAAATAAATAATTTGAGACAT
*
3968188 TTAAAAAATATATATAATTTGGAGACAT
1 TTAAAAAA-ATAAATAATTT-GAGACAT
3968216 CTTAAAAAAATAAATAA
1 -TTAAAAAAATAAATAA
3968233 ATAAAAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.22
26 3 0.08
27 5 0.14
28 12 0.33
29 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (26 bp):
TTAAAAAAATAAATAATTTGAGACAT
Found at i:3968678 original size:19 final size:19
Alignment explanation
Indices: 3968651--3968703 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
3968641 TTTGTGAAAA
*
3968651 TATTTAATTTATATTTAAT
1 TATTAAATTTATATTTAAT
**
3968670 TATTAAATTTAATAAATAAT
1 TATTAAATTT-ATATTTAAT
3968690 T-TTAAA-TTATATTT
1 TATTAAATTTATATTT
3968704 TTATATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 14 0.50
20 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTAAATTTATATTTAAT
Found at i:3968854 original size:10 final size:11
Alignment explanation
Indices: 3968839--3968867 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3968829 ATTAATAAAA
3968839 TTATTTTA-TT
1 TTATTTTATTT
3968849 TTATTTTATTT
1 TTATTTTATTT
3968860 TTATTTTA
1 TTATTTTA
3968868 AAATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:3981027 original size:210 final size:203
Alignment explanation
Indices: 3980659--3981077 Score: 734
Period size: 210 Copynumber: 2.0 Consensus size: 203
3980649 AGTCCCACCA
3980659 CACT-TTTTTTTTTTCAATTTTATCTTTCTGAACCTTTTTTTTTTTTTTCATTTTTACCTTATAT
1 CACTATTTTTTTTTTCAATTTTATCTTTCTGAACC-TTTTTTTTTTTTTCATTTTTACCTTATAT
3980723 CATAAGTCTTTAATAGTTATTTTTCATTTTTATTTCATTTAATCGCTATATTTACATCCAAATAT
65 CATAAGTCTTTAATAGTTATTTTTCATTTTTATTTCATTTAATCGCTATATTTACATCCAAATAT
*
3980788 ATATCTTGTCATTACTTTTAATCTCATCGTTATAATAATTAATTTTTTTTACAGTTATTTTTAAT
130 ATATCTTGTCATTACTTTTAATCTCATCG---T--T-A-TAA-TTTTTTTACAATTATTTTTAAT
3980853 CTCATTAAAAATAATCT
187 CTCATTAAAAATAATCT
3980870 CACTATTTTTTTTTTCAATTTTATCTTTCTGAACC-TTTTTTTTTTTTCATTTTTACCTTATATC
1 CACTATTTTTTTTTTCAATTTTATCTTTCTGAACCTTTTTTTTTTTTTCATTTTTACCTTATATC
3980934 ATAAGTCTTTAATAGTTATTTTTCATTTTTATTTCATTTAATCGCTATATTTACATCCAAATATA
66 ATAAGTCTTTAATAGTTATTTTTCATTTTTATTTCATTTAATCGCTATATTTACATCCAAATATA
3980999 TATCTTGTCATTACTTTTAATCTCATCGTTATAATTTTTTTACAATTATTTTTAATCTCATTAAA
131 TATCTTGTCATTACTTTTAATCTCATCGTTATAATTTTTTTACAATTATTTTTAATCTCATTAAA
3981064 AATAATCT
196 AATAATCT
3981072 CACTAT
1 CACTAT
3981078 CTATCTAAAT
Statistics
Matches: 206, Mismatches: 1, Indels: 11
0.94 0.00 0.05
Matches are distributed among these distances:
202 44 0.21
203 3 0.01
204 1 0.00
205 1 0.00
207 1 0.00
210 122 0.59
211 4 0.02
212 30 0.15
ACGTcount: A:0.27, C:0.14, G:0.03, T:0.55
Consensus pattern (203 bp):
CACTATTTTTTTTTTCAATTTTATCTTTCTGAACCTTTTTTTTTTTTTCATTTTTACCTTATATC
ATAAGTCTTTAATAGTTATTTTTCATTTTTATTTCATTTAATCGCTATATTTACATCCAAATATA
TATCTTGTCATTACTTTTAATCTCATCGTTATAATTTTTTTACAATTATTTTTAATCTCATTAAA
AATAATCT
Found at i:3984090 original size:22 final size:22
Alignment explanation
Indices: 3984046--3984087 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3984036 TATTATTTAA
*
3984046 AATTTTAATAAAAATTATAAAT
1 AATTTTAATAAAAATTAAAAAT
3984068 AATTTTAAT-AAAATTAAAAA
1 AATTTTAATAAAAATTAAAAA
3984088 ATATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTTAATAAAAATTAAAAAT
Found at i:3985167 original size:22 final size:23
Alignment explanation
Indices: 3985132--3985183 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3985122 TTTTATATAT
* * *
3985132 AAATCTATTTAAAT-ATATTAAA
1 AAATTTATTAAAATAATATAAAA
*
3985154 AATTTTATTAAAATAATATAAAA
1 AAATTTATTAAAATAATATAAAA
3985177 AAATTTA
1 AAATTTA
3985184 AAAATTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTATTAAAATAATATAAAA
Found at i:3985268 original size:21 final size:20
Alignment explanation
Indices: 3985231--3985269 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3985221 TCGATTTAAA
3985231 TCAAATCAATTTAAAAAAAT
1 TCAAATCAATTTAAAAAAAT
*
3985251 TCAAATCAAATTTTAAAAA
1 TCAAATC-AATTTAAAAAA
3985270 TTTATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAAATCAATTTAAAAAAAT
Found at i:4011172 original size:19 final size:20
Alignment explanation
Indices: 4011150--4011190 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4011140 ATGAAATATG
4011150 TATTTTACTT-TTTAATAAA
1 TATTTTACTTGTTTAATAAA
* *
4011169 TATTTTAGTTGTTTACTAAA
1 TATTTTACTTGTTTAATAAA
4011189 TA
1 TA
4011191 ATCTTGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTACTTGTTTAATAAA
Found at i:4011371 original size:29 final size:29
Alignment explanation
Indices: 4011300--4011371 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
4011290 AAAATTATCT
*
4011300 TTTTAAAAAATTTACGTAAGACATTAAAA
1 TTTTAAAAATTTTACGTAAGACATTAAAA
* * * * **
4011329 ATTCAAACAGTTTTATGTAAGATTTTAAAA
1 TTTTAAA-AATTTTACGTAAGACATTAAAA
4011359 TTTTAAAAATTTT
1 TTTTAAAAATTTT
4011372 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTTAAAAATTTTACGTAAGACATTAAAA
Found at i:4012675 original size:20 final size:19
Alignment explanation
Indices: 4012652--4012706 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
4012642 AGAAGGAATC
4012652 TTTATATTAATAAATTTTG
1 TTTATATTAATAAATTTTG
*
4012671 TTT-TATTCAT-AA-TTTG
1 TTTATATTAATAAATTTTG
*
4012687 TTCTTATATTAAGAAATTTT
1 -T-TTATATTAATAAATTTT
4012707 AAAATAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 4 0.14
17 3 0.11
18 8 0.29
19 8 0.29
20 2 0.07
21 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATATTAATAAATTTTG
Found at i:4021549 original size:18 final size:20
Alignment explanation
Indices: 4021523--4021561 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4021513 TAGTCTAACT
4021523 AATATTTTTAAAT-AATAAA
1 AATATTTTTAAATAAATAAA
*
4021542 AATA-TTTTGAATAAATAAA
1 AATATTTTTAAATAAATAAA
4021561 A
1 A
4021562 CTTATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AATATTTTTAAATAAATAAA
Found at i:4023294 original size:24 final size:26
Alignment explanation
Indices: 4023249--4023297 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
4023239 CAAACATATA
*
4023249 TGTGAAAAAATTAAGAAATAAAACTG
1 TGTGAAAAAACTAAGAAATAAAACTG
*
4023275 TGTG-AAAAACTAAG-AGTAAAACT
1 TGTGAAAAAACTAAGAAATAAAACT
4023298 AAATGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.22
Consensus pattern (26 bp):
TGTGAAAAAACTAAGAAATAAAACTG
Found at i:4027133 original size:21 final size:21
Alignment explanation
Indices: 4027109--4027158 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
4027099 CGCAATAATC
4027109 GCAATAGCAACCGTTACATTT
1 GCAATAGCAACCGTTACATTT
4027130 GCAATAGCAACCGTTACATTT
1 GCAATAGCAACCGTTACATTT
4027151 GCAATAGC
1 GCAATAGC
4027159 GATAAACGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (21 bp):
GCAATAGCAACCGTTACATTT
Found at i:4036434 original size:37 final size:37
Alignment explanation
Indices: 4036379--4036455 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
4036369 TGATGGAAGA
* *
4036379 TCTGTCTCTGAGAGCCATATGATTAACTAAAAACAAG
1 TCTGCCTCTGAAAGCCATATGATTAACTAAAAACAAG
4036416 TCTGCCTCTGAAAGCCATATGATTAACTAAAAACAAG
1 TCTGCCTCTGAAAGCCATATGATTAACTAAAAACAAG
4036453 TCT
1 TCT
4036456 TCGATCAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (37 bp):
TCTGCCTCTGAAAGCCATATGATTAACTAAAAACAAG
Found at i:4038823 original size:23 final size:23
Alignment explanation
Indices: 4038797--4038844 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4038787 TAAAAATAAT
*
4038797 AATTATTATAATTATAATTAAAA
1 AATTATTATAATGATAATTAAAA
*
4038820 AATTATTATAATGATGATTAAAA
1 AATTATTATAATGATAATTAAAA
4038843 AA
1 AA
4038845 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
AATTATTATAATGATAATTAAAA
Found at i:4038857 original size:14 final size:15
Alignment explanation
Indices: 4038838--4038879 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
4038828 TAATGATGAT
4038838 TAAAAAAATTT-TAA
1 TAAAAAAATTTATAA
*
4038852 T-AAAAAATTTATAT
1 TAAAAAAATTTATAA
4038866 TAAATAAAATTTAT
1 TAAA-AAAATTTAT
4038880 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 2 0.08
16 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAAATTTATAA
Found at i:4038880 original size:14 final size:13
Alignment explanation
Indices: 4038836--4038884 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
4038826 TATAATGATG
4038836 ATTAAAAAAATTTT
1 ATTAAAAAAA-TTT
* *
4038850 AATAAAAAATTTAT
1 ATTAAAAAAATT-T
4038864 ATTAAATAAAATTT
1 ATTAAA-AAAATTT
4038878 ATTAAAA
1 ATTAAAA
4038885 TTAATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.10
14 21 0.72
15 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAAAAAAATTT
Found at i:4039608 original size:13 final size:13
Alignment explanation
Indices: 4039590--4039635 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
4039580 AATATTTGAG
4039590 TTTAAATTTATTA
1 TTTAAATTTATTA
*
4039603 TTTAAATTTA-TG
1 TTTAAATTTATTA
*
4039615 TTTAAA-TAATTA
1 TTTAAATTTATTA
4039627 TTTATAATT
1 TTTA-AATT
4039636 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
11 2 0.07
12 12 0.44
13 12 0.44
14 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTAAATTTATTA
Found at i:4042732 original size:3 final size:3
Alignment explanation
Indices: 4042724--4042749 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4042714 TAAAATTAAA
4042724 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4042750 CTTTCTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4047923 original size:19 final size:19
Alignment explanation
Indices: 4047888--4047954 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
4047878 AAAAATATTT
*
4047888 TTTAAATA-TAAATTTATAA
1 TTTAAATATTATA-TTATAA
4047907 TTTAAATATTATATTAT-A
1 TTTAAATATTATATTATAA
* *
4047925 TTT-AATATTTTATTCTAA
1 TTTAAATATTATATTATAA
*
4047943 TTTAAAAATTAT
1 TTTAAATATTAT
4047955 TTCTACCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.28
18 8 0.20
19 18 0.45
20 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAATATTATATTATAA
Found at i:4056135 original size:12 final size:12
Alignment explanation
Indices: 4056114--4056145 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4056104 TTTTGGGTTT
4056114 GCTTTT-TTCGG
1 GCTTTTCTTCGG
4056125 GCTTTTCTTCGG
1 GCTTTTCTTCGG
4056137 GCTTTTCTT
1 GCTTTTCTT
4056146 TTGTAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (12 bp):
GCTTTTCTTCGG
Found at i:4057153 original size:23 final size:24
Alignment explanation
Indices: 4057096--4057142 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4057086 TAAATAGAAT
*
4057096 ATTTGATAAATAATTTATAAATAA
1 ATTTAATAAATAATTTATAAATAA
4057120 ATTTAATAAATAA-TTATAAATAA
1 ATTTAATAAATAATTTATAAATAA
4057143 TTTTCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTTAATAAATAATTTATAAATAA
Found at i:4058827 original size:21 final size:21
Alignment explanation
Indices: 4058802--4058867 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
4058792 GTAACCCACG
* * *
4058802 TGCTGCTCAGTCTTCGAACTC
1 TGCTGGTCAGTCTTCAAACCC
*
4058823 TGCTGGTC-GTTCGTCAAACCC
1 TGCTGGTCAG-TCTTCAAACCC
4058844 TGCTGGTCAGTCTTCAAACCC
1 TGCTGGTCAGTCTTCAAACCC
4058865 TGC
1 TGC
4058868 ATCATCTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.30
Consensus pattern (21 bp):
TGCTGGTCAGTCTTCAAACCC
Found at i:4069984 original size:17 final size:18
Alignment explanation
Indices: 4069962--4070009 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
4069952 TTACAAAAAA
4069962 ATAATAATA-ATAA-TAAT
1 ATAATAATATATAACT-AT
4069979 ATAATAAATATATAACTAT
1 ATAAT-AATATATAACTAT
4069998 ATAAATAATATA
1 AT-AATAATATA
4070010 CATATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 14 0.52
20 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATAATATATAACTAT
Found at i:4070016 original size:15 final size:16
Alignment explanation
Indices: 4069970--4070018 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
4069960 AAATAATAAT
4069970 AATA-ATAA-TATAATA
1 AATATATAACTAT-ATA
4069985 AATATATAACTATATA
1 AATATATAACTATATA
4070001 AATA-ATATAC-ATATA
1 AATATATA-ACTATATA
4070016 AAT
1 AAT
4070019 TTATTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.48
16 13 0.42
17 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATATAACTATATA
Found at i:4070114 original size:16 final size:15
Alignment explanation
Indices: 4070066--4070130 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
4070056 TACATATATT
*
4070066 AATACATAATAATAAT
1 AATACATAA-AATAAA
4070082 AATA-ATAAATATAAA
1 AATACATAAA-ATAAA
*
4070097 AATACATAAAATACA
1 AATACATAAAATAAA
*
4070112 AA-AGA-AAAA-AAA
1 AATACATAAAATAAA
4070124 AATACAT
1 AATACAT
4070131 GATTGAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 4 0.10
13 6 0.15
14 3 0.08
15 18 0.45
16 9 0.22
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.22
Consensus pattern (15 bp):
AATACATAAAATAAA
Found at i:4070308 original size:18 final size:18
Alignment explanation
Indices: 4070285--4070337 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
4070275 CAACATTGTC
4070285 ATTTTTTTTGTTTTTTAT
1 ATTTTTTTTGTTTTTTAT
*
4070303 ATTTTTTTTGTTTTTTTT
1 ATTTTTTTTGTTTTTTAT
*
4070321 GTGTTTTTTT-TTTTTTA
1 AT-TTTTTTTGTTTTTTA
4070338 CCAAAGCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (18 bp):
ATTTTTTTTGTTTTTTAT
Found at i:4070325 original size:11 final size:10
Alignment explanation
Indices: 4070286--4070336 Score: 54
Period size: 9 Copynumber: 5.3 Consensus size: 10
4070276 AACATTGTCA
4070286 TTTTTTTTG-
1 TTTTTTTTGT
* *
4070295 TTTTTTAT-A
1 TTTTTTTTGT
4070304 TTTTTTTTGT
1 TTTTTTTTGT
4070314 TTTTTTTGTGT
1 TTTTTTT-TGT
4070325 TTTTTTTT-T
1 TTTTTTTTGT
4070334 TTT
1 TTT
4070337 ACCAAAGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 18 0.50
10 8 0.22
11 10 0.28
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:4070519 original size:42 final size:42
Alignment explanation
Indices: 4070343--4070638 Score: 483
Period size: 41 Copynumber: 7.1 Consensus size: 42
4070333 TTTTACCAAA
*
4070343 GCTCCTCTAAACAGAGGCTCCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
4070384 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
4070425 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
4070466 ACTCATCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
4070508 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
4070549 GCTCCTTTAAACAGAGGCACCATGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
4070591 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
4070633 ACTCCT
1 GCTCCT
4070639 TGACAATCAT
Statistics
Matches: 238, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
40 5 0.02
41 140 0.59
42 93 0.39
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:4070547 original size:83 final size:83
Alignment explanation
Indices: 4070343--4070638 Score: 479
Period size: 83 Copynumber: 3.6 Consensus size: 83
4070333 TTTTACCAAA
* *
4070343 GCTCCTCTAAACAGAGGCTCCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTACTCCTCTAAACAGAGGCACCACG
*
4070408 ACTTT-GAAAAATAAATT
66 ACTTTGGAAAAGTAAATT
*
4070425 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTACTCATCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTACTCCTCTAAACAGAGGCACCACG
4070490 ACTTTGGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
* * * *
4070508 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAATGTAAATTGCTCCTTTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-ATAAATTACTCCTCTAAACAGAGGCACCAC
4070572 GACTTTGGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATT
*
4070591 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTACTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATTACTCCT
4070639 TGACAATCAT
Statistics
Matches: 199, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
82 71 0.36
83 113 0.57
84 15 0.08
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTACTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAGTAAATT
Found at i:4071854 original size:26 final size:26
Alignment explanation
Indices: 4071825--4071877 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4071815 AATTTGAATC
4071825 TCTTTTTT-TTATTTTCTCATTTTTTT
1 TCTTTTTTCTT-TTTTCTCATTTTTTT
* *
4071851 TCTTTTTTCTTTTTTTTCCTTTTTTT
1 TCTTTTTTCTTTTTTCTCATTTTTTT
4071877 T
1 T
4071878 TTCATCATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (26 bp):
TCTTTTTTCTTTTTTCTCATTTTTTT
Found at i:4071863 original size:16 final size:16
Alignment explanation
Indices: 4071825--4071879 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
4071815 AATTTGAATC
* *
4071825 TCTTTTTTTTATTTTC
1 TCTTTTTTTTCTTTTT
4071841 TCATTTTTTTTCTTTTT
1 TC-TTTTTTTTCTTTTT
*
4071858 TCTTTTTTTTCCTTTT
1 TCTTTTTTTTCTTTTT
4071874 T-TTTTT
1 TCTTTTT
4071880 CATCATCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.14
16 16 0.46
17 14 0.40
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTTTTTTCTTTTT
Found at i:4071872 original size:17 final size:16
Alignment explanation
Indices: 4071825--4071879 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
4071815 AATTTGAATC
* *
4071825 TCTTTTTTTTATTTTC
1 TCTTTTTTTTCTTTTT
4071841 TCATTTTTTTTCTTTTT
1 TC-TTTTTTTTCTTTTT
4071858 TCTTTTTTTTCCTTTTT
1 TCTTTTTTTT-CTTTTT
4071875 T-TTTT
1 TCTTTT
4071880 CATCATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 14 0.40
17 21 0.60
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTTTTTTCTTTTT
Found at i:4075821 original size:56 final size:59
Alignment explanation
Indices: 4075745--4075901 Score: 257
Period size: 56 Copynumber: 2.7 Consensus size: 59
4075735 TTTGTGTAGA
* *
4075745 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAA-TTT-ATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTCAAG
*
4075802 G-AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAATTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTCAAG
*
4075860 GAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTGA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGA
4075902 TTTTTATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
56 41 0.45
57 4 0.04
58 9 0.10
59 38 0.41
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTGATTTTCAAG
Found at i:4075974 original size:15 final size:15
Alignment explanation
Indices: 4075925--4075974 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
4075915 AATATAAAAC
4075925 AAAATAAAAGTAAAAGT
1 AAAAT-AAAG-AAAAGT
*
4075942 -AAATAAAGAAGAA-A
1 AAAATAAAGAA-AAGT
4075956 AAAATAAAGAAAAGT
1 AAAATAAAGAAAAGT
4075971 AAAA
1 AAAA
4075975 CAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAATAAAGAAAAGT
Found at i:4075985 original size:29 final size:31
Alignment explanation
Indices: 4075925--4075986 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
4075915 AATATAAAAC
*
4075925 AAAATAAAAGTAAAAGTAAATAAAGAAGAAA
1 AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
*
4075956 AAAAT-AAAG-AAAAGTAAA-ACAAAAATAAA
1 AAAATAAAAGTAAAAGTAAATA-AAAAAGAAA
4075985 AA
1 AA
4075987 TAAGATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 18 0.64
30 4 0.14
31 5 0.18
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (31 bp):
AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
Found at i:4076065 original size:20 final size:20
Alignment explanation
Indices: 4076027--4076065 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4076017 CTAATCTAAT
*
4076027 AAATAAAAAAATAGAAAAAC
1 AAATAAAAAAATAAAAAAAC
*
4076047 AAATAAACAAATAAAAAAA
1 AAATAAAAAAATAAAAAAA
4076066 AAACTTGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (20 bp):
AAATAAAAAAATAAAAAAAC
Found at i:4076452 original size:22 final size:22
Alignment explanation
Indices: 4076422--4076466 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4076412 CCGAAATCTG
* * *
4076422 GAAAATTTGTCGGAGGTTCACC
1 GAAAATTTGCCGGAAGATCACC
*
4076444 GAAAGTTTGCCGGAAGATCACC
1 GAAAATTTGCCGGAAGATCACC
4076466 G
1 G
4076467 GTTTCTGGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (22 bp):
GAAAATTTGCCGGAAGATCACC
Found at i:4076626 original size:26 final size:27
Alignment explanation
Indices: 4076583--4076635 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
4076573 TGGAAATTTT
*
4076583 CCAAAAATTTCCAGAAAAAT-TTTTCG
1 CCAAAAATTTCCAAAAAAATATTTTCG
*
4076609 CCAAAAA-TTCCTAAAAAATTATTTTCG
1 CCAAAAATTTCC-AAAAAAATATTTTCG
4076636 ATCCCTACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 13 0.57
27 6 0.26
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (27 bp):
CCAAAAATTTCCAAAAAAATATTTTCG
Found at i:4077102 original size:3 final size:3
Alignment explanation
Indices: 4077094--4077146 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
4077084 TATATTACAA
*
4077094 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAAT ATAT AAT TAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT
4077139 AAAT AAT A
1 -AAT AAT A
4077147 TACATATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
2 4 0.09
3 32 0.73
4 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:4077120 original size:17 final size:17
Alignment explanation
Indices: 4077098--4077155 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
4077088 TTACAAAATA
4077098 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
4077115 ATAATAATAAATATATAAT
1 ATAATAAT-AATA-ATAAT
4077134 -TATATAAATAAT-ATACAT
1 ATA-AT-AATAATAATA-AT
4077152 ATAA
1 ATAA
4077156 ATCTATTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
17 11 0.31
18 9 0.26
19 12 0.34
20 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:4077120 original size:20 final size:21
Alignment explanation
Indices: 4077095--4077155 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
4077085 ATATTACAAA
4077095 ATAATAATAATA-ATAATAAT
1 ATAATAATAATATATAATAAT
*
4077115 ATAATAATAAATATATAATTAT
1 ATAATAAT-AATATATAATAAT
*
4077137 ATAAATAATATACATATAA
1 AT-AATAATA-ATATATAA
4077156 ATCTATTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 8 0.23
21 4 0.11
22 10 0.29
23 13 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATAATATATAATAAT
Found at i:4077224 original size:12 final size:12
Alignment explanation
Indices: 4077094--4077229 Score: 53
Period size: 12 Copynumber: 11.6 Consensus size: 12
4077084 TATATTACAA
4077094 AATAAT-AATAAT
1 AATAATAAAT-AT
4077106 AATAAT-AATAT
1 AATAATAAATAT
4077117 AATAATAAATAT
1 AATAATAAATAT
*
4077129 -ATAAT-TATAT
1 AATAATAAATAT
4077139 -A-AAT-AATAT
1 AATAATAAATAT
*
4077148 ACAT-ATAAATCT
1 A-ATAATAAATAT
**
4077160 -ATTCTAAATA-
1 AATAATAAATAT
*
4077170 AATAAATAAATAC
1 AAT-AATAAATAT
4077183 AGAT-ATACATATATT
1 A-ATAATA-A-ATA-T
4077198 AATACAT-AATAAT
1 AATA-ATAAAT-AT
4077211 AATAATAAATAT
1 AATAATAAATAT
*
4077223 AAAAATA
1 AATAATA
4077230 CAAAAAAAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
9 7 0.07
10 7 0.07
11 23 0.23
12 37 0.38
13 12 0.12
14 9 0.09
15 1 0.01
16 2 0.02
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:4082777 original size:189 final size:186
Alignment explanation
Indices: 4082453--4082824 Score: 663
Period size: 189 Copynumber: 2.0 Consensus size: 186
4082443 ACAATTTGTT
4082453 AGCTGGAGCAGGAAACACTAGCCCACCATGTTTCAATCTGGGCCTGCCAGATTAAATAATAGACC
1 AGCTGGAGCAGGAAACACTAGCCCACCATGTTTCAATCTGGGCCTGCCAGATTAAATAATAGACC
*
4082518 AGACTACAGTTAACAGATTTCATCTCACAAACCACACCAACCAAGTGGCAAAACTTATGCTGTAG
66 AGACTACAGTTAACAGATTTCATCTCACAAACCACACCAACCAAGTGGCAAAACTTATACTGTAG
4082583 TTGAATATGATTAATAACTAAAAAAATAAACCTATAATTAACAGGGTGTACTTGAG
131 TTGAATATGATTAATAACTAAAAAAATAAACCTATAATTAACAGGGTGTACTTGAG
*
4082639 AGCTGGAGCAGGAAACACTAGCCCATCATGTTTCAATCTGGGCCTGCCAGATTAAATAATAATAG
1 AGCTGGAGCAGGAAACACTAGCCCACCATGTTTCAATCTGGGCCTGCCAGATT--A-AATAATAG
*
4082704 ACCAGACTACAGTTAACAGATTTGATCTCACAAACCACACCAACCAAGTGGCAAAACTTATACTG
63 ACCAGACTACAGTTAACAGATTTCATCTCACAAACCACACCAACCAAGTGGCAAAACTTATACTG
* * *
4082769 TGGTTGAATATGATTAATAACTAAAAATATAAACCTATAATTAACAGTGTGTACTT
128 TAGTTGAATATGATTAATAACTAAAAAAATAAACCTATAATTAACAGGGTGTACTT
4082825 TAGTAGATCT
Statistics
Matches: 177, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
186 52 0.29
188 1 0.01
189 124 0.70
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (186 bp):
AGCTGGAGCAGGAAACACTAGCCCACCATGTTTCAATCTGGGCCTGCCAGATTAAATAATAGACC
AGACTACAGTTAACAGATTTCATCTCACAAACCACACCAACCAAGTGGCAAAACTTATACTGTAG
TTGAATATGATTAATAACTAAAAAAATAAACCTATAATTAACAGGGTGTACTTGAG
Found at i:4083593 original size:10 final size:11
Alignment explanation
Indices: 4083571--4083599 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4083561 AAACTACATG
4083571 TTTTTCTTCTT
1 TTTTTCTTCTT
4083582 TTTTTCTT-TT
1 TTTTTCTTCTT
4083592 TTTTTCTT
1 TTTTTCTT
4083600 GTCTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:4084229 original size:16 final size:16
Alignment explanation
Indices: 4084205--4084239 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4084195 AATGAAATTT
*
4084205 TAATCTAAATATAATA
1 TAATCTAAATATAAAA
*
4084221 TAATTTAAATATAAAA
1 TAATCTAAATATAAAA
4084237 TAA
1 TAA
4084240 AATATATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATCTAAATATAAAA
Found at i:4084349 original size:16 final size:17
Alignment explanation
Indices: 4084328--4084367 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4084318 GAATAATTTT
4084328 ATTTAAAACATAA-AAA
1 ATTTAAAACATAATAAA
* *
4084344 ATTTAAAATATAATATA
1 ATTTAAAACATAATAAA
4084361 ATTTAAA
1 ATTTAAA
4084368 TATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAACATAATAAA
Found at i:4085053 original size:18 final size:18
Alignment explanation
Indices: 4085025--4085066 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4085015 TGTTTATAAT
4085025 TTGATTTTAATTGAATTAA
1 TTGA-TTTAATTGAATTAA
**
4085044 TTGATTTAATTTTATTAA
1 TTGATTTAATTGAATTAA
4085062 TTGAT
1 TTGAT
4085067 CGATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTGATTTAATTGAATTAA
Found at i:4085438 original size:20 final size:20
Alignment explanation
Indices: 4085392--4085438 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4085382 AAAATAAAAT
*
4085392 AAATTAATTAATTTAGATTA
1 AAATTAAATAATTTAGATTA
**
4085412 ATTTTAAATAATTTA-ATATA
1 AAATTAAATAATTTAGAT-TA
4085432 AAATTAA
1 AAATTAA
4085439 CCGATCTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATTAAATAATTTAGATTA
Found at i:4085579 original size:920 final size:903
Alignment explanation
Indices: 4083758--4085584 Score: 3029
Period size: 920 Copynumber: 2.0 Consensus size: 903
4083748 TTTGACCTAA
4083758 TTTTTTTATATATATTTTAGAATTTAAAATTTGATTATTTAAATTTAAATTTAAATTTTATAATT
1 TTTTTTTATATATATTTTAGAATTTAAAATTTGATTATTTAAATTTAAATTTAAATTTTATAATT
*
4083823 TTATCAACAGGCCATATTGAAAGTTTGACGTAGTTATTAGTATGGTTGGGACCGGCTAGCAATTT
66 TTATCAACAGACCATATTGAAAGTTTGACGTAGTTATTAGTATGGTTGGGACCGGCTAGCAATTT
*
4083888 AATTAGGCTGTTGGAACTGGGATAATCCTAGTTGGTGATGGGCGGTGGGCTGGTGGCTAACTAAA
131 AATTAGGCTGTTGGAACTGGAATAATCCTAGTTGGTGATGGGCGGTGGGCTGGTGGCTAACTAAA
*
4083953 CCAATGATTGACCGAATATTTGGTGGTCAAGTCCTAGGTTGATGAAATTTGGTAAAAATTTACTT
196 CCAATGATTGACCGAATATTTGGTGGTCAAGTCCTAGGTTGACGAAATTTGGTAAAAATTTACTT
* *
4084018 AACGCTAGACCAATGCCCCGGTTCTGGTGAGCGCCGTGGCGTTAAAAAAAAAATCCCGCCAGAAC
261 AACGCTAGACCAATACCCCGGTTCTGGTGAGCGCCGTGGCGTTAAAAAAAAAATCCAGCCAGAAC
*
4084083 AAATTTTTTAGTGTTTATAATTTGATTTTAATTGATTTAATTTTATTAATTGATCGGTTATAAAA
326 AAATTTTTTAGTGTTTATAATTTGATTTTAATTGATTTAATTTTATTAATTGATCGATTATAAAA
* *
4084148 TTAATTTTCATCTACTAATAAAAATGATTTAAAAAAATAATTTTCAAAATGAAATTTTAATCTAA
391 TTAATTTTCATCTACTAACAAAAATGATTTAAAAAAATAAATTTCAAAATGAAATTTTAATCTAA
4084213 ATATAATATAATTTAAATATAAAATAAAATATATGAAATTAATTATTTTATTTCATAAGTTATTA
456 ATATAATATAATTTAAATATAAAATAAAATATATGAAATTAATTATTTTATTTCATAAGTTATTA
*
4084278 GAATTCTTGATATAATATTTTGATATTTAAATATTTTATTGAATAATTTTATTTAAAACATAAAA
521 GAAATCTTGATATAATATTTTG-------AATATTTTA-T-AATAATTTTATTTAAAACATAAAA
4084343 AATTTAAAATATAATATAATTTAAATATATTTTTATTCGATTAAATGAAAAATAAATCAAATTAA
577 AATTTAAAATATAATATAATTTAAATATATTTTTATTCGATTAAATGAAAAATAAATCAAATTAA
* * * * * *
4084408 TTAAATTCAATTCAATCAATTCATTTTTAAAATTAATAATTTTAATTTAATTAATAAAATTAAAA
642 TTAAATTAAATTCAATCAATTAACTTTTAAAATTAATAAATTTAATTCAATTAATAAAAATAAAA
4084473 TAAATTAATTAATTTAAATTAATTTTAAATAATTCAATATAAAATTAACCAATCTTAATCGATCA
707 TAAATTAATTAATTTAAATTAATTTTAAATAATTCAATATAAAATTAACCAATCTTAATCGATCA
*
4084538 AATAAAGATCCATTTAATCTCATACTATACACGGTACAAAAATTTTTATTTTCTGCCCAAAGACC
772 AATAAAGATCCATTTAATCTCATACTATACACAGTACAAAAATTTTTATTTTCTGCCCAAAGACC
* *
4084603 CTCTTAAACACAGTTTTAGCCATGCGACGTCGATTAACCACAATCCAAAGCCCCCCCCCCCCTAA
837 CTCTCAAACACAGTTTTAGCCATGCGACGTCGATTAACCACAATCCAAACCCCCCCCCCCCCTAA
4084668 TT
902 TT
4084670 TTTTTTTATATATATTTTAGAATTTAAAATTTGATTATTTAAATTTAAATTTAAATTTTATAATT
1 TTTTTTTATATATATTTTAGAATTTAAAATTTGATTATTTAAATTTAAATTTAAATTTTATAATT
*
4084735 TTATCAACAGACCATATTGAAAGTTTGACGTAGTTATTAGTATGGTTGGGACCGGGTAGCAATTT
66 TTATCAACAGACCATATTGAAAGTTTGACGTAGTTATTAGTATGGTTGGGACCGGCTAGCAATTT
*
4084800 AATTAGGCTGTTGGAACTGGAATAATCCTGGTTGGTGATGGGCGGTGGGCTGGTGGGCTGGTGGC
131 AATTAGGCTGTTGGAACTGGAATAATCCTAGTTGGTGA-------TGGGC-GGTGGGCTGGTGGC
*
4084865 TCACTAAACCAATGATTGACCGAATATTTGGTGGTCAAGTCCTAGGTTGACGAAATTTGGTAAAA
188 TAACTAAACCAATGATTGACCGAATATTTGGTGGTCAAGTCCTAGGTTGACGAAATTTGGTAAAA
4084930 ATTTACTTAACGCTAGACCAATACCCCGGTTCTGGTGAGCGCCGTGGCGTTAAAAAAAAAAATCC
253 ATTTACTTAACGCTAGACCAATACCCCGGTTCTGGTGAGCGCCGTGGCGTT-AAAAAAAAAATCC
4084995 AGCCAGAACAAATTTTTTAGTGTTTATAATTTGATTTTAATTGAATTAATTGATTTAATTTTATT
317 AGCCAGAACAAATTTTTTAGTGTTTATAATTTG------ATT---TTAATTGATTTAATTTTATT
*
4085060 AATTGATCGATTATAAAATTAATTTTCGTCTACTAACAAAAATGATTTAAAAAAATAAATTTCAA
373 AATTGATCGATTATAAAATTAATTTTCATCTACTAACAAAAATGATTTAAAAAAATAAATTTCAA
4085125 AATGAAATTTTAATCTAAA-ATAATATAATTTAAATATAAAATAAAAATATATGAAATTAATTAT
438 AATGAAATTTTAATCTAAATATAATATAATTTAAATATAAAAT-AAAATATATGAAATTAATTAT
4085189 TTTATTTCATAAGTTATTAGAAATCTTGATATAATATTTTG-ATA-TTTA-AAT-ATTTTATTTA
502 TTTATTTCATAAGTTATTAGAAATCTTGATATAATATTTTGAATATTTTATAATAATTTTATTTA
* * *
4085250 AAATATAAAAAATTT-AAATTTAATTTAATTTAAATATATTTATTATTCGATTAAATGAAAAAAT
567 AAACATAAAAAATTTAAAATATAATATAATTTAAATATATTT-TTATTCGATTAAATG-AAAAAT
* *
4085314 AAATCAAATTAATTGAATTAAATTCAATCAATTAACTTTTAAAGTTAATAAATTTAATTCAATTA
630 AAATCAAATTAATTAAATTAAATTCAATCAATTAACTTTTAAAATTAATAAATTTAATTCAATTA
* * *
4085379 ATAAAAATAAAATAAATTAATTAATTTAGATTAATTTTAAATAATTTAATATAAAATTAACCGAT
695 ATAAAAATAAAATAAATTAATTAATTTAAATTAATTTTAAATAATTCAATATAAAATTAACCAAT
4085444 CTTAATCGATCAAATAAAGATCCATTTAATCTCATACTATACACATAGTACAAAAA-TTTTATTT
760 CTTAATCGATCAAATAAAGATCCATTTAATCTCATACTATACAC--AGTACAAAAATTTTTATTT
*
4085508 TCTGCCCAAAGACCCTCTCGAACAACAGTTTTAGCCATGCGACGTCGATTAACCACAATCCAAAC
823 TCTGCCCAAAGACCCTCTCAAAC-ACAGTTTTAGCCATGCGACGTCGATTAACCACAATCCAAAC
4085573 CCCCCCCCCCCC
887 CCCCCCCCCCCC
4085585 CCCCCCCCAA
Statistics
Matches: 860, Mismatches: 31, Indels: 40
0.92 0.03 0.04
Matches are distributed among these distances:
912 164 0.19
916 24 0.03
917 39 0.05
918 172 0.20
919 34 0.04
920 188 0.22
921 49 0.06
922 3 0.00
927 3 0.00
929 23 0.03
930 161 0.19
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (903 bp):
TTTTTTTATATATATTTTAGAATTTAAAATTTGATTATTTAAATTTAAATTTAAATTTTATAATT
TTATCAACAGACCATATTGAAAGTTTGACGTAGTTATTAGTATGGTTGGGACCGGCTAGCAATTT
AATTAGGCTGTTGGAACTGGAATAATCCTAGTTGGTGATGGGCGGTGGGCTGGTGGCTAACTAAA
CCAATGATTGACCGAATATTTGGTGGTCAAGTCCTAGGTTGACGAAATTTGGTAAAAATTTACTT
AACGCTAGACCAATACCCCGGTTCTGGTGAGCGCCGTGGCGTTAAAAAAAAAATCCAGCCAGAAC
AAATTTTTTAGTGTTTATAATTTGATTTTAATTGATTTAATTTTATTAATTGATCGATTATAAAA
TTAATTTTCATCTACTAACAAAAATGATTTAAAAAAATAAATTTCAAAATGAAATTTTAATCTAA
ATATAATATAATTTAAATATAAAATAAAATATATGAAATTAATTATTTTATTTCATAAGTTATTA
GAAATCTTGATATAATATTTTGAATATTTTATAATAATTTTATTTAAAACATAAAAAATTTAAAA
TATAATATAATTTAAATATATTTTTATTCGATTAAATGAAAAATAAATCAAATTAATTAAATTAA
ATTCAATCAATTAACTTTTAAAATTAATAAATTTAATTCAATTAATAAAAATAAAATAAATTAAT
TAATTTAAATTAATTTTAAATAATTCAATATAAAATTAACCAATCTTAATCGATCAAATAAAGAT
CCATTTAATCTCATACTATACACAGTACAAAAATTTTTATTTTCTGCCCAAAGACCCTCTCAAAC
ACAGTTTTAGCCATGCGACGTCGATTAACCACAATCCAAACCCCCCCCCCCCCTAATT
Found at i:4086566 original size:28 final size:29
Alignment explanation
Indices: 4086526--4086581 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
4086516 GATCCATCTA
*
4086526 TACTATTATATTTT-TTATGCAATTTTAT
1 TACTATTATATTTTGTGATGCAATTTTAT
*
4086554 TACTATTATATTTTGTGATGTAATTTTA
1 TACTATTATATTTTGTGATGCAATTTTA
4086582 ATTATTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (29 bp):
TACTATTATATTTTGTGATGCAATTTTAT
Found at i:4087093 original size:18 final size:19
Alignment explanation
Indices: 4087063--4087099 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4087053 AAAAAAATAT
4087063 ATTATTAATAAAT-TTTAA
1 ATTATTAATAAATATTTAA
4087081 ATTA-TAATAAAATATTTAA
1 ATTATTAAT-AAATATTTAA
4087100 TATAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATTAATAAATATTTAA
Found at i:4087148 original size:29 final size:29
Alignment explanation
Indices: 4087067--4087148 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
4087057 AAATATATTA
4087067 TTAATA-AAT-TTTAAATTATAATAAAATAT
1 TTAATATAATATTTAAATTAT-A-AAAATAT
4087096 TTAATATAATATTTAAAATT-TAAAAAT-T
1 TTAATATAATATTT-AAATTATAAAAATAT
* *
4087124 TATGATATGATATTTAAATTATAAA
1 T-TAATATAATATTTAAATTATAAA
4087149 TTTATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 7 0.15
29 26 0.57
30 4 0.09
31 4 0.09
32 5 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
TTAATATAATATTTAAATTATAAAAATAT
Done.