Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 12 of 185
Found at i:3271550 original size:65 final size:65
Alignment explanation
Indices: 3271387--3271557 Score: 209
Period size: 71 Copynumber: 2.5 Consensus size: 65
3271377 ATTTTGTATG
****
3271387 AATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTTTTTATGAATATT
1 AATATTGTAATTTTTTGTATGAATATTGTAA-TTTGTATGAATATTGTAATTCGGGAT-AATATT
3271452 GT
64 GT
*
3271454 AATATTATAATTTTGTATGAATATTGTAATATTGTAATTTGTATGAATATTGTAATGTCGGGAT-
1 AATATTGTAATTTT-T-TG--TA-TG-AATATTGTAATTTGTATGAATATTGTAAT-TCGGGATA
3271518 ATATTGT
59 ATATTGT
3271525 AATATTGTAATTTTTTGTATGAATATTGTAATT
1 AATATTGTAATTTTTTGTATGAATATTGTAATT
3271558 ATTTTATAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
65 12 0.13
66 2 0.02
67 15 0.16
68 1 0.01
69 4 0.04
70 1 0.01
71 22 0.24
72 21 0.23
73 13 0.14
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (65 bp):
AATATTGTAATTTTTTGTATGAATATTGTAATTTGTATGAATATTGTAATTCGGGATAATATTGT
Found at i:3271738 original size:16 final size:16
Alignment explanation
Indices: 3271695--3271738 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
3271685 AAAATCAAAT
*
3271695 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
3271711 AAAGTTACATTATATA
1 AAAATTAAATTATATA
3271727 AAAATTAAATTA
1 AAAATTAAATTA
3271739 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:3271814 original size:38 final size:38
Alignment explanation
Indices: 3271771--3271852 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
3271761 AAAAAGTCAG
3271771 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
3271809 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
3271847 TTATAA
1 TTATAA
3271853 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:3271978 original size:60 final size:60
Alignment explanation
Indices: 3271885--3272006 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
3271875 ATATTAAACT
* * * * *
3271885 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
3271945 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
3272005 AA
1 AA
3272007 TATTAATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:3272034 original size:8 final size:8
Alignment explanation
Indices: 3272021--3272157 Score: 76
Period size: 8 Copynumber: 15.4 Consensus size: 8
3272011 AATACAAAAA
3272021 ATTACAAT
1 ATTACAAT
3272029 ATTACAAT
1 ATTACAAT
* * *
3272037 ATATCCCGAC
1 AT-T-ACAAT
3272047 ATTACAAT
1 ATTACAAT
*
3272055 ATTCATACAAA
1 A-T--TACAAT
3272066 ATTACAAT
1 ATTACAAT
3272074 ATTACAAT
1 ATTACAAT
*
3272082 ATTCATACAAA
1 A-T--TACAAT
3272093 ATTACAAT
1 ATTACAAT
3272101 ATTACAAT
1 ATTACAAT
*
3272109 ATTCATACAAA
1 A-T--TACAAT
*
3272120 ATTATAAT
1 ATTACAAT
3272128 ATTACAAT
1 ATTACAAT
*
3272136 ATTCATACAAA
1 A-T--TACAAT
3272147 ATTACAAT
1 ATTACAAT
3272155 ATT
1 ATT
3272158 CATACAAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
8 61 0.62
9 6 0.06
10 8 0.08
11 24 0.24
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:3272083 original size:27 final size:27
Alignment explanation
Indices: 3272047--3272371 Score: 249
Period size: 27 Copynumber: 12.8 Consensus size: 27
3272037 ATATCCCGAC
3272047 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
3272074 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
3272101 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
3272128 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
3272155 ATT-C-ATA--CA-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
* * * *
3272176 ATT-CATATAAAATACTAATCCAAAACTATAA-
1 ATTACA-AT---AT--TCATACAAAATTACAAT
** *
3272207 A-TACAA-ATT--TA-ATTA-TAAAAT
1 ATTACAATATTCATACAAAATTACAAT
3272228 AATTACAATATTCATACAAAAAATTACAAT
1 -ATTACAATATTCATAC--AAAATTACAAT
* * *
3272258 ATTACAATA-T-AT-C------CCGAC
1 ATTACAATATTCATACAAAATTACAAT
*
3272276 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAT
*
3272303 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
3272330 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
3272352 A-TACAATATTCATACAAAAT
1 ATTACAATATTCATACAAAAT
3272372 ACTAATCCAA
Statistics
Matches: 244, Mismatches: 21, Indels: 70
0.73 0.06 0.21
Matches are distributed among these distances:
18 11 0.05
19 1 0.00
20 6 0.02
21 32 0.13
22 7 0.03
23 11 0.05
24 5 0.02
25 3 0.01
26 10 0.04
27 127 0.52
28 1 0.00
29 11 0.05
30 8 0.03
31 3 0.01
32 8 0.03
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:3272118 original size:46 final size:47
Alignment explanation
Indices: 3272068--3272371 Score: 180
Period size: 46 Copynumber: 6.2 Consensus size: 47
3272058 CATACAAAAT
* *
3272068 TACAATATTACAATATTCATACAAAAT-TACAATATTACAATATTCA
1 TACAAAATTACAATATTCATACAAAATATACAAAATTACAATATTCA
* *
3272114 TACAAAATTATAATA-T--TACAATATTCATACAAAATTACAATATTCA
1 TACAAAATTACAATATTCATACAA-AAT-ATACAAAATTACAATATTCA
*
3272160 TACAAAAAATTACAATATTCATATAAAATACTAATCCAAAACTATAAATACAAATTTAATT-A
1 TAC--AAAATTACAATATTCATACAAAATA-T-A--C-AAA--AT---TAC-AA--T-ATTCA
* * *
3272222 TAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-A
1 TACAA-AATTACAATATTCATACAAAATA-TACAAAATTACAATATTCA
* * *
3272269 TCCCGACATTACAATATTCATACAAAAT-TACAAAATTACAATATTCA
1 T-ACAAAATTACAATATTCATACAAAATATACAAAATTACAATATTCA
* * *
3272316 TACAAAATTATAATA-T--TACAATATTCATACAAAAAAATACAATATTCA
1 TACAAAATTACAATATTCATACAA-AAT-ATAC--AAAATTACAATATTCA
3272364 TACAAAAT
1 TACAAAAT
3272372 ACTAATCCAA
Statistics
Matches: 203, Mismatches: 24, Indels: 60
0.71 0.08 0.21
Matches are distributed among these distances:
43 10 0.05
44 4 0.02
45 16 0.08
46 48 0.24
47 25 0.12
48 36 0.18
49 3 0.01
50 3 0.01
51 7 0.03
52 3 0.01
53 1 0.00
54 3 0.01
55 2 0.01
56 2 0.01
57 2 0.01
58 1 0.00
59 3 0.01
60 5 0.02
61 22 0.11
62 4 0.02
63 3 0.01
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (47 bp):
TACAAAATTACAATATTCATACAAAATATACAAAATTACAATATTCA
Found at i:3272356 original size:21 final size:21
Alignment explanation
Indices: 3272300--3272370 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 21
3272290 ACAAAATTAC
*
3272300 AAAATTACAATATTCATACAAA
1 AAAAATACAATATTCATAC-AA
3272322 ATTATAATATTACAATATTCATACAA
1 A--A-AA-A-TACAATATTCATACAA
3272348 AAAAATACAATATTCATACAA
1 AAAAATACAATATTCATACAA
3272369 AA
1 AA
3272371 TACTAATCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 18 0.42
22 2 0.05
23 2 0.05
24 2 0.05
25 2 0.05
26 3 0.07
27 14 0.33
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATACAATATTCATACAA
Found at i:3272478 original size:27 final size:27
Alignment explanation
Indices: 3272440--3272506 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
3272430 AATTACAATA
3272440 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
*
3272467 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
3272494 TTCATTGGCGCCT
1 TTCATTGGCGCCT
3272507 ACTTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:3274246 original size:24 final size:24
Alignment explanation
Indices: 3274217--3274265 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3274207 AAATGGAAAG
3274217 TTAGCTTCGAAGAGGGATATTAGT
1 TTAGCTTCGAAGAGGGATATTAGT
3274241 TTAGCTTCGAAGAGGGATATTAGT
1 TTAGCTTCGAAGAGGGATATTAGT
3274265 T
1 T
3274266 ATAATGCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (24 bp):
TTAGCTTCGAAGAGGGATATTAGT
Found at i:3276983 original size:4 final size:4
Alignment explanation
Indices: 3276974--3277001 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3276964 CACATGAGAT
3276974 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
3277002 AAATGAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:3278566 original size:30 final size:29
Alignment explanation
Indices: 3278501--3278566 Score: 123
Period size: 29 Copynumber: 2.2 Consensus size: 29
3278491 CTTATGTCTG
3278501 TAACAGAGCTATTGTTTTCCGTTATTGAC
1 TAACAGAGCTATTGTTTTCCGTTATTGAC
3278530 TAACAGAGCTATTGTTTTCCGTTATTGAC
1 TAACAGAGCTATTGTTTTCCGTTATTGAC
3278559 TTAACAGA
1 -TAACAGA
3278567 AATGTCACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 29 0.81
30 7 0.19
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (29 bp):
TAACAGAGCTATTGTTTTCCGTTATTGAC
Found at i:3278692 original size:16 final size:17
Alignment explanation
Indices: 3278667--3278699 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3278657 TGTCTCCCCC
*
3278667 TCTTCCCCAT-ATTCCT
1 TCTTCACCATCATTCCT
3278683 TCTTCACCATCATTCCT
1 TCTTCACCATCATTCCT
3278700 CTCACCCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (17 bp):
TCTTCACCATCATTCCT
Found at i:3282246 original size:18 final size:18
Alignment explanation
Indices: 3282225--3282261 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3282215 TGAGTTTTCG
3282225 AATTCGAATAATTTAAAT
1 AATTCGAATAATTTAAAT
*
3282243 AATTCGAATAATTTGAAT
1 AATTCGAATAATTTAAAT
3282261 A
1 A
3282262 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTCGAATAATTTAAAT
Found at i:3286402 original size:14 final size:15
Alignment explanation
Indices: 3286383--3286414 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3286373 TTTTGATCAC
3286383 ATAAAATT-AAATTA
1 ATAAAATTAAAATTA
3286397 ATAAAATTAAAATTA
1 ATAAAATTAAAATTA
3286412 ATA
1 ATA
3286415 TAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAAATTAAAATTA
Found at i:3286937 original size:17 final size:17
Alignment explanation
Indices: 3286891--3286941 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
3286881 ATAGTATTTT
*
3286891 ATTAATTTGATATTAAA
1 ATTAATTTAATATTAAA
*
3286908 GTTATTATCTTAATATTAAA
1 ATTA--AT-TTAATATTAAA
3286928 ATTAATTTAATATT
1 ATTAATTTAATATT
3286942 TATCTTGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 2 0.07
20 13 0.46
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTAATTTAATATTAAA
Found at i:3292297 original size:34 final size:34
Alignment explanation
Indices: 3292254--3292321 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
3292244 GCATTTTTGA
* *
3292254 CACTGTACTGAGATGGGC-TAGGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTTA-GGCCCAAGACTGT
3292287 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTTAGGCCCAAGACTGT
3292322 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.60
35 7 0.23
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTTAGGCCCAAGACTGT
Found at i:3295093 original size:17 final size:17
Alignment explanation
Indices: 3295067--3295165 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
3295057 ATTTATCTAC
*
3295067 AAATTAAATATTAAATT
1 AAATTTAATATTAAATT
3295084 AAATTTAATATTAAGA-T
1 AAATTTAATATTAA-ATT
3295101 AACCACTTTAATATTAAATTT
1 AA--A-TTTAATATTAAA-TT
* *
3295122 AAA---AA-ATTACTATC
1 AAATTTAATATTA-AATT
3295136 AAA--TAAGTATTAAATT
1 AAATTTAA-TATTAAATT
3295152 AAATTTAATATTAA
1 AAATTTAATATTAA
3295166 TTTATTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
14 8 0.12
15 5 0.08
16 5 0.08
17 26 0.40
18 4 0.06
19 3 0.05
20 11 0.17
21 3 0.05
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATTTAATATTAAATT
Found at i:3298330 original size:14 final size:14
Alignment explanation
Indices: 3298292--3298324 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3298282 TACATGTATG
*
3298292 TAATTTAACAAATA
1 TAATCTAACAAATA
3298306 TAATCTAACAAATA
1 TAATCTAACAAATA
3298320 TAATC
1 TAATC
3298325 ATACAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATCTAACAAATA
Found at i:3300663 original size:27 final size:29
Alignment explanation
Indices: 3300633--3300688 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
3300623 GCAAAGTCAC
*
3300633 ATGTGCATATTTG-AC-AATCAAAATTTT
1 ATGTGCATAATTGCACAAATCAAAATTTT
*
3300660 ATGTTCATAATTGCACAAAATCAAAATTT
1 ATGTGCATAATTGCAC-AAATCAAAATTT
3300689 ACAAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.46
28 2 0.08
30 11 0.46
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (29 bp):
ATGTGCATAATTGCACAAATCAAAATTTT
Found at i:3313255 original size:6 final size:6
Alignment explanation
Indices: 3313244--3313268 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3313234 AGATATGCCG
3313244 ATATGT ATATGT ATATGT ATATGT A
1 ATATGT ATATGT ATATGT ATATGT A
3313269 CGTATGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:3314666 original size:2 final size:2
Alignment explanation
Indices: 3314659--3314705 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
3314649 ATACATACAT
* * *
3314659 AC AC AC AC AC GC AC GC AC GC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
3314701 GC AC A
1 AC AC A
3314706 TACATACATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.43, C:0.49, G:0.09, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3316441 original size:9 final size:9
Alignment explanation
Indices: 3316423--3316471 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
3316413 TTTGGTTAAA
*
3316423 AATTAACCG
1 AATTACCCG
3316432 AATTACCCG
1 AATTACCCG
3316441 AATTACCCG
1 AATTACCCG
*
3316450 AATTAACCG
1 AATTACCCG
3316459 AATTACCCG
1 AATTACCCG
3316468 AATT
1 AATT
3316472 GAATCATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:3316680 original size:38 final size:39
Alignment explanation
Indices: 3316636--3316713 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
3316626 ACTTAAGAGT
*
3316636 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
3316674 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTATTTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
3316713 T
1 T
3316714 TGGGTTGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 27 0.73
39 10 0.27
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.53
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:3316728 original size:17 final size:18
Alignment explanation
Indices: 3316695--3316732 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3316685 TTTAGTTTTA
*
3316695 TTGGGTTGGGTATTTGGG
1 TTGGGTTGGGTAATTGGG
3316713 TTGGGTT-GGTAATTGGG
1 TTGGGTTGGGTAATTGGG
3316730 TTG
1 TTG
3316733 AGTAATTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.45
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:3316730 original size:12 final size:13
Alignment explanation
Indices: 3316713--3316744 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3316703 GGTATTTGGG
3316713 TTGGGTTG-GTAA
1 TTGGGTTGAGTAA
3316725 TTGGGTTGAGTAA
1 TTGGGTTGAGTAA
3316738 TTGGGTT
1 TTGGGTT
3316745 TGGTTGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (13 bp):
TTGGGTTGAGTAA
Found at i:3316730 original size:30 final size:31
Alignment explanation
Indices: 3316694--3316757 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
3316684 TTTTAGTTTT
* *
3316694 ATTGGGTTGGGTATTTGGGTTGGGTTGG-TA
1 ATTGGGTTGAGTAATTGGGTTGGGTTGGATA
*
3316724 ATTGGGTTGAGTAATTGGGTTTGGTTGGATA
1 ATTGGGTTGAGTAATTGGGTTGGGTTGGATA
3316755 ATT
1 ATT
3316758 TTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (31 bp):
ATTGGGTTGAGTAATTGGGTTGGGTTGGATA
Found at i:3317397 original size:9 final size:9
Alignment explanation
Indices: 3317370--3317406 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
3317360 TGAGTTTTTG
3317370 AATTCGAAT
1 AATTCGAAT
* *
3317379 AACTCAAAT
1 AATTCGAAT
3317388 AATTCGAAT
1 AATTCGAAT
3317397 AATTCGAAT
1 AATTCGAAT
3317406 A
1 A
3317407 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:3323857 original size:124 final size:125
Alignment explanation
Indices: 3323692--3323952 Score: 418
Period size: 124 Copynumber: 2.1 Consensus size: 125
3323682 TGTTACACAG
*
3323692 TAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTAGC
1 TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * *
3323756 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCGGCCTCGTGAAC-AACTTTTGCTACAA
66 AGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGAACTTTTGCTACAA
*
3323815 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * ** *
3323880 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGAACTTTTGCTACAA
3323940 TAGGTCCTGGAAA
1 TAGGTCCTGGAAA
3323953 TTGAGAGGAA
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
123 8 0.06
124 94 0.75
125 23 0.18
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (125 bp):
TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGAATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGAACTTTTGCTACAA
Found at i:3341179 original size:27 final size:27
Alignment explanation
Indices: 3341122--3341179 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
3341112 AATGTCAAAT
* ***
3341122 TTTTTAATATTTATTGGATTAGATTTT
1 TTTTTAATATTTATGGGATTAGATCAA
* *
3341149 TTTTTAATATTTGTGGGATTAGGTCAA
1 TTTTTAATATTTATGGGATTAGATCAA
3341176 TTTT
1 TTTT
3341180 CTCATTCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (27 bp):
TTTTTAATATTTATGGGATTAGATCAA
Found at i:3347660 original size:11 final size:13
Alignment explanation
Indices: 3347649--3347691 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
3347639 ATTATAATAT
3347649 ATAA-ATGTTATA
1 ATAATATGTTATA
*
3347661 ATAAGTATATTATA
1 ATAA-TATGTTATA
*
3347675 TTAATATGTTATA
1 ATAATATGTTATA
3347688 ATAA
1 ATAA
3347692 ACATTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 4 0.16
13 11 0.44
14 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATAATATGTTATA
Found at i:3347697 original size:25 final size:26
Alignment explanation
Indices: 3347645--3347697 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
3347635 TATTATTATA
*
3347645 ATATATAAATGTTATAATAAGTATATT
1 ATATATAAATGTTATAATAAG-ACATT
3347672 ATAT-TAATATGTTATAATAA-ACATT
1 ATATATAA-ATGTTATAATAAGACATT
3347697 A
1 A
3347698 AAAGAAAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATAAATGTTATAATAAGACATT
Found at i:3348624 original size:43 final size:42
Alignment explanation
Indices: 3348562--3348686 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
3348552 GGACTCTGAT
**
3348562 ATGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 ATGTGTTTACGTGTAAGACCACGTCTGGGACGT-GGCATCGAC
* **
3348605 CTGTGTTTACGTGTAAGACC-CTGTCTGGGACAGTGGCATCGGT
1 ATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGAC
* *
3348648 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTGTTTACGTGTAAGACCACGTCTGGGACG-TGGCAT
3348687 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (42 bp):
ATGTGTTTACGTGTAAGACCACGTCTGGGACGTGGCATCGAC
Found at i:3353556 original size:18 final size:18
Alignment explanation
Indices: 3353535--3353574 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3353525 GATTGAGAGT
* * *
3353535 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
3353553 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
3353571 GAAA
1 GAAA
3353575 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:3356019 original size:10 final size:10
Alignment explanation
Indices: 3356001--3356030 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3355991 TTTTTCCCAA
3356001 TTTTC-TTTT
1 TTTTCTTTTT
3356010 TTTTCTTTTT
1 TTTTCTTTTT
3356020 TTTTCTTTTT
1 TTTTCTTTTT
3356030 T
1 T
3356031 CTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:3356040 original size:10 final size:9
Alignment explanation
Indices: 3356001--3356040 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
3355991 TTTTTCCCAA
3356001 TTTTCTTTT
1 TTTTCTTTT
3356010 TTTTCTTTT
1 TTTTCTTTT
*
3356019 TTTT-TCTT
1 TTTTCTTTT
3356027 TTTTCTTTT
1 TTTTCTTTT
3356036 ATTTT
1 -TTTT
3356041 AGTTACTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 7 0.26
9 16 0.59
10 4 0.15
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:3356040 original size:17 final size:17
Alignment explanation
Indices: 3356008--3356040 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3355998 CAATTTTCTT
*
3356008 TTTTTTCTTTTTTTTTC
1 TTTTTTCTTTTATTTTC
3356025 TTTTTTCTTTTATTTT
1 TTTTTTCTTTTATTTT
3356041 AGTTACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTCTTTTATTTTC
Found at i:3361835 original size:13 final size:13
Alignment explanation
Indices: 3361797--3361874 Score: 60
Period size: 13 Copynumber: 6.3 Consensus size: 13
3361787 AGCACTTACA
*
3361797 ATTTATGCATTTT
1 ATTTATACATTTT
*
3361810 ATTT-T-TA-TTT
1 ATTTATACATTTT
3361820 ATTTATACATTTT
1 ATTTATACATTTT
*
3361833 ATTT-TATCAATTT
1 ATTTATA-CATTTT
*
3361846 A-CTATATCA-TTT
1 ATTTATA-CATTTT
3361858 ATTTATACATTTT
1 ATTTATACATTTT
3361871 ATTT
1 ATTT
3361875 TATTTTATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 11 0.21
13 33 0.62
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (13 bp):
ATTTATACATTTT
Found at i:3361845 original size:22 final size:23
Alignment explanation
Indices: 3361795--3361846 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
3361785 TTAGCACTTA
*
3361795 CAATTTATGCATTTTATTTTTAT
1 CAATTTATACATTTTATTTTTAT
**
3361818 TTATTTATACATTTTA-TTTTAT
1 CAATTTATACATTTTATTTTTAT
3361840 CAATTTA
1 CAATTTA
3361847 CTATATCATT
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:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (23 bp):
CAATTTATACATTTTATTTTTAT
Found at i:3362078 original size:16 final size:15
Alignment explanation
Indices: 3362059--3362088 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3362049 TCTTCATCTA
3362059 TTTATTTATTCATTTG
1 TTTATTTA-TCATTTG
3362075 TTTATTTATCATTT
1 TTTATTTATCATTT
3362089 TAACGCCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTATTTATCATTTG
Found at i:3363725 original size:30 final size:31
Alignment explanation
Indices: 3363689--3363746 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
3363679 GGTTACCCAC
**
3363689 ACGGCCTGGTGACACGGCCGTGT-GCGGCAT
1 ACGGCCTGGACACACGGCCGTGTCGCGGCAT
*
3363719 ACGGCCTGGACACACGGGCGTGTCGCGG
1 ACGGCCTGGACACACGGCCGTGTCGCGG
3363747 GCCGTGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.14, C:0.31, G:0.41, T:0.14
Consensus pattern (31 bp):
ACGGCCTGGACACACGGCCGTGTCGCGGCAT
Found at i:3366699 original size:13 final size:13
Alignment explanation
Indices: 3366661--3366738 Score: 60
Period size: 13 Copynumber: 6.3 Consensus size: 13
3366651 AGCACTTAAA
*
3366661 ATTTATGCATTTT
1 ATTTATACATTTT
*
3366674 ATTT-T-TA-TTT
1 ATTTATACATTTT
3366684 ATTTATACATTTT
1 ATTTATACATTTT
*
3366697 ATTT-TATCAATTT
1 ATTTATA-CATTTT
*
3366710 A-CTATATCA-TTT
1 ATTTATA-CATTTT
3366722 ATTTATACATTTT
1 ATTTATACATTTT
3366735 ATTT
1 ATTT
3366739 TTATTTTATC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 11 0.21
13 33 0.62
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (13 bp):
ATTTATACATTTT
Found at i:3366709 original size:22 final size:23
Alignment explanation
Indices: 3366660--3366710 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3366650 TAGCACTTAA
* *
3366660 AATTTATGCATTTTATTTTTATT
1 AATTTATACATTTTATTTTTATC
*
3366683 TATTTATACATTTTA-TTTTATC
1 AATTTATACATTTTATTTTTATC
3366705 AATTTA
1 AATTTA
3366711 CTATATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTTATACATTTTATTTTTATC
Found at i:3366943 original size:16 final size:15
Alignment explanation
Indices: 3366924--3366953 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3366914 TCTTCATCTA
3366924 TTTATTTATTCATTTG
1 TTTATTTA-TCATTTG
3366940 TTTATTTATCATTT
1 TTTATTTATCATTT
3366954 AAACGTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTATTTATCATTTG
Found at i:3371746 original size:9 final size:9
Alignment explanation
Indices: 3371732--3371773 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
3371722 TTGTTATAAT
3371732 AATTAATAC
1 AATTAATAC
3371741 AATTAATAC
1 AATTAATAC
3371750 AATT-A-AC
1 AATTAATAC
3371757 AATTAATAC
1 AATTAATAC
3371766 AATTAATA
1 AATTAATA
3371774 ATTTGATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.19
8 2 0.06
9 23 0.74
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAATAC
Found at i:3371758 original size:16 final size:16
Alignment explanation
Indices: 3371739--3371776 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
3371729 AATAATTAAT
3371739 ACAATTAATACAATTA
1 ACAATTAATACAATTA
3371755 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
3371771 ATAATT
1 ACAATT
3371777 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:3378718 original size:44 final size:44
Alignment explanation
Indices: 3378616--3378718 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
3378606 TCTTATCTCT
* * * *
3378616 CTGAAGTTACAGTGGAACGAGATGAAGTTACAAGTCCTATATCC
1 CTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACCC
* ** *
3378660 CAGAAGTTGTAGTGGAACAAGATGAAGCTATAAATCCTATACCC
1 CTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACCC
3378704 CTGAAGTTACAGTGG
1 CTGAAGTTACAGTGG
3378719 GTTGGAATGA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (44 bp):
CTGAAGTTACAGTGGAACAAGATGAAGCTACAAATCCTATACCC
Found at i:3380070 original size:31 final size:28
Alignment explanation
Indices: 3380026--3380092 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 28
3380016 GTCCCTTCAC
* *
3380026 TTTTTTTTCTTTTTAATTTTGTCCTATTTCA
1 TTTTATTT-TTTTTAATTTTATCCT-TTT-A
*
3380057 TCTTTATTTTTTTTATTTTTATCCTTTTA
1 T-TTTATTTTTTTTAATTTTATCCTTTTA
3380086 TTTTATT
1 TTTTATT
3380093 CTTGTGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 3 0.09
31 15 0.47
32 6 0.19
ACGTcount: A:0.13, C:0.10, G:0.01, T:0.75
Consensus pattern (28 bp):
TTTTATTTTTTTTAATTTTATCCTTTTA
Found at i:3381286 original size:27 final size:27
Alignment explanation
Indices: 3381247--3381299 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
3381237 GTTACCGTTT
3381247 TTGGGCGTCATGAAGGCACTTAGGTTG
1 TTGGGCGTCATGAAGGCACTTAGGTTG
*
3381274 TTGGGCGTTATGAAGGCACTTAGGTT
1 TTGGGCGTCATGAAGGCACTTAGGTT
3381300 TTAACCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.13, G:0.36, T:0.32
Consensus pattern (27 bp):
TTGGGCGTCATGAAGGCACTTAGGTTG
Found at i:3381612 original size:45 final size:45
Alignment explanation
Indices: 3381558--3381649 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
3381548 AAATTGATTA
3381558 TTATTTAGTTCTATGTTAATTGAGCTTGAACAGTTAAATTCATAG
1 TTATTTAGTTCTATGTTAATTGAGCTTGAACAGTTAAATTCATAG
3381603 TTATTTAGTTCTATGTTAATTGAGCTTGAACAGTTAAATTCATAG
1 TTATTTAGTTCTATGTTAATTGAGCTTGAACAGTTAAATTCATAG
3381648 TT
1 TT
3381650 TGACAATAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (45 bp):
TTATTTAGTTCTATGTTAATTGAGCTTGAACAGTTAAATTCATAG
Found at i:3387677 original size:18 final size:18
Alignment explanation
Indices: 3387656--3387701 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
3387646 TAATTTAGCC
*
3387656 ATTTTTATTTCTATTATA
1 ATTTTTATTTCTAGTATA
3387674 ATTTTTATTTCTAGTATA
1 ATTTTTATTTCTAGTATA
3387692 ATTTTTATTT
1 ATTTTTATTT
3387702 TGTTTTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTCTAGTATA
Found at i:3387711 original size:23 final size:23
Alignment explanation
Indices: 3387676--3387721 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3387666 CTATTATAAT
3387676 TTTTATTTCTAGTATAATTTTTA
1 TTTTATTTCTAGTATAATTTTTA
* * *
3387699 TTTTGTTTTTAGTTTAATTTTTA
1 TTTTATTTCTAGTATAATTTTTA
3387722 CATTCTAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTATTTCTAGTATAATTTTTA
Found at i:3391618 original size:6 final size:6
Alignment explanation
Indices: 3391609--3391675 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
3391599 TTTATTTTCT
* * * *
3391609 TTTTAG TTTTAG TTTTA- TTTTA- TGTCTA- TGATTAT TTTTAT TTTTAG
1 TTTTAG TTTTAG TTTTAG TTTTAG T-TTTAG T-TTTAG TTTTAG TTTTAG
3391656 TTTTAG TTTTAG TTTTAG TT
1 TTTTAG TTTTAG TTTTAG TT
3391676 GTTTTAGTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
5 6 0.11
6 47 0.87
7 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.12, T:0.69
Consensus pattern (6 bp):
TTTTAG
Found at i:3393301 original size:22 final size:23
Alignment explanation
Indices: 3393275--3393321 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3393265 TTCCTAATTA
* *
3393275 ATGGCTCTC-TGAGCTTCCCGAT
1 ATGGCTCGCTTGAACTTCCCGAT
3393297 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCTTGAACTTCCCGAT
3393320 AT
1 AT
3393322 ATGGTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (23 bp):
ATGGCTCGCTTGAACTTCCCGAT
Found at i:3396613 original size:30 final size:30
Alignment explanation
Indices: 3396525--3396613 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
3396515 AGCTTCAGGG
* * *
3396525 GCCACACGGGTTGGGCACATGCCCATGTAA
1 GCCACACGGGCTGGCCACATGCCCATGTGA
*
3396555 GCCACACGGGCTGGCCATATGCCCATGTGA
1 GCCACACGGGCTGGCCACATGCCCATGTGA
3396585 GCCACACGGGCTGGCCACATGCCCATGTG
1 GCCACACGGGCTGGCCACATGCCCATGTG
3396614 CCAGCCTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (30 bp):
GCCACACGGGCTGGCCACATGCCCATGTGA
Found at i:3406750 original size:14 final size:14
Alignment explanation
Indices: 3406731--3406757 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3406721 ACCTAAACTA
3406731 TTTATAGAAGAAAT
1 TTTATAGAAGAAAT
3406745 TTTATAGAAGAAA
1 TTTATAGAAGAAA
3406758 ATCCTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
TTTATAGAAGAAAT
Found at i:3408299 original size:14 final size:14
Alignment explanation
Indices: 3408278--3408311 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3408268 TGGTATGGGT
3408278 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
3408291 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
3408305 TTATAGG
1 TTATAGG
3408312 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:3417574 original size:9 final size:10
Alignment explanation
Indices: 3417552--3417585 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
3417542 TAGATTTTTA
3417552 AAAAAAATTGT
1 AAAAAAATT-T
3417563 AAAAAAA-TT
1 AAAAAAATTT
3417572 AAAAAAATTT
1 AAAAAAATTT
3417582 AAAA
1 AAAA
3417586 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 7 0.32
11 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:3417585 original size:27 final size:27
Alignment explanation
Indices: 3417555--3417610 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
3417545 ATTTTTAAAA
*
3417555 AAAATTGTAAAAAAATTAAAAAAATTT
1 AAAATTGTAAAAAAATCAAAAAAATTT
* * *
3417582 AAAATTTTATAAAAATCATAAAAATTT
1 AAAATTGTAAAAAAATCAAAAAAATTT
3417609 AA
1 AA
3417611 CGACCCCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATTGTAAAAAAATCAAAAAAATTT
Found at i:3418457 original size:19 final size:20
Alignment explanation
Indices: 3418433--3418492 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
3418423 ATTCTTTACA
3418433 TTTTATAATTTTTTAC-AAT
1 TTTTATAATTTTTTACTAAT
3418452 TTTTATAATTTTTT-CTAAT
1 TTTTATAATTTTTTACTAAT
* *
3418471 TTTTAATAACTTTTTAATAAT
1 TTTT-ATAATTTTTTACTAAT
3418492 T
1 T
3418493 GAATTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 21 0.58
20 9 0.25
21 5 0.14
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTACTAAT
Found at i:3418465 original size:11 final size:10
Alignment explanation
Indices: 3418433--3418492 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
3418423 ATTCTTTACA
3418433 TTTTATAATT
1 TTTTATAATT
*
3418443 TTTTACAA-T
1 TTTTATAATT
3418452 TTTTATAATT
1 TTTTATAATT
*
3418462 TTTTCTAATT
1 TTTTATAATT
*
3418472 TTTAATAACTT
1 TTTTATAA-TT
*
3418483 TTTAATAATT
1 TTTTATAATT
3418493 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 8 0.19
10 25 0.58
11 10 0.23
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:3421824 original size:27 final size:26
Alignment explanation
Indices: 3421794--3421849 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
3421784 AGGCTATCCC
3421794 TTCATAATT-CACCACAAAGGCATTCAT
1 TTCAT-ATTGCACCACAAAGGCATTC-T
* *
3421821 TTCATATTGCGCCACAAAGGCTTTCT
1 TTCATATTGCACCACAAAGGCATTCT
3421847 TTC
1 TTC
3421850 TTTCCTGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.34
Consensus pattern (26 bp):
TTCATATTGCACCACAAAGGCATTCT
Found at i:3422873 original size:61 final size:61
Alignment explanation
Indices: 3422798--3422925 Score: 256
Period size: 61 Copynumber: 2.1 Consensus size: 61
3422788 ATTACTAAAT
3422798 TATCTTATCAAAAGTTTACAACTTCCAAGAAACCTAATTTAATATCCCCTTATCTTTTAAC
1 TATCTTATCAAAAGTTTACAACTTCCAAGAAACCTAATTTAATATCCCCTTATCTTTTAAC
3422859 TATCTTATCAAAAGTTTACAACTTCCAAGAAACCTAATTTAATATCCCCTTATCTTTTAAC
1 TATCTTATCAAAAGTTTACAACTTCCAAGAAACCTAATTTAATATCCCCTTATCTTTTAAC
3422920 TATCTT
1 TATCTT
3422926 GGTTCACATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (61 bp):
TATCTTATCAAAAGTTTACAACTTCCAAGAAACCTAATTTAATATCCCCTTATCTTTTAAC
Found at i:3426018 original size:22 final size:22
Alignment explanation
Indices: 3425975--3426018 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3425965 TATATAAATT
* **
3425975 AAGTTAAAATTATTGTGGGTCA
1 AAGTCAAAATTATCATGGGTCA
*
3425997 AAGTCAAAATTATCATGTGTCA
1 AAGTCAAAATTATCATGGGTCA
3426019 TAATTAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
AAGTCAAAATTATCATGGGTCA
Found at i:3429419 original size:12 final size:12
Alignment explanation
Indices: 3429402--3429444 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
3429392 TAAGGGAAGA
3429402 GAGCCCAAGCAT
1 GAGCCCAAGCAT
*
3429414 GAGCCCAAGTAT
1 GAGCCCAAGCAT
3429426 GAGCCCAAGCAT
1 GAGCCCAAGCAT
3429438 GAGCCCA
1 GAGCCCA
3429445 GGTATGTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.26, T:0.09
Consensus pattern (12 bp):
GAGCCCAAGCAT
Found at i:3429434 original size:24 final size:24
Alignment explanation
Indices: 3429402--3429450 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3429392 TAAGGGAAGA
3429402 GAGCCCAAGCATGAGCCCAAGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
*
3429426 GAGCCCAAGCATGAGCCCAGGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
3429450 G
1 G
3429451 TCGCCTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12
Consensus pattern (24 bp):
GAGCCCAAGCATGAGCCCAAGTAT
Found at i:3435585 original size:19 final size:22
Alignment explanation
Indices: 3435547--3435595 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
3435537 AAATAGTGAG
*
3435547 AATT-TATTTTCTAAGTAT-A-
1 AATTCTATTTTCTAAGAATAAC
3435566 AATTCTATTTTCT-AGAATAAC
1 AATTCTATTTTCTAAGAATAAC
3435587 AATTCTATT
1 AATTCTATT
3435596 GGTTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 9 0.35
21 9 0.35
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTCTATTTTCTAAGAATAAC
Found at i:3438153 original size:17 final size:17
Alignment explanation
Indices: 3438122--3438154 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3438112 TAGAATTGAG
3438122 TTGAGATAATTATTTAA
1 TTGAGATAATTATTTAA
3438139 TTGAG-TAATTAATTTA
1 TTGAGATAATT-ATTTA
3438155 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TTGAGATAATTATTTAA
Found at i:3438162 original size:13 final size:13
Alignment explanation
Indices: 3438135--3438176 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
3438125 AGATAATTAT
*
3438135 TTAATTGAG-TAA
1 TTAATTTAGTTAA
3438147 TTAATTTAGTTAA
1 TTAATTTAGTTAA
* *
3438160 TTAAATTAATTAA
1 TTAATTTAGTTAA
3438173 TTAA
1 TTAA
3438177 ATAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAATTTAGTTAA
Found at i:3438177 original size:13 final size:13
Alignment explanation
Indices: 3438144--3438178 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
3438134 TTTAATTGAG
* *
3438144 TAATTAATTTAGT
1 TAATTAAATTAAT
3438157 TAATTAAATTAAT
1 TAATTAAATTAAT
3438170 TAATTAAAT
1 TAATTAAAT
3438179 AATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
TAATTAAATTAAT
Found at i:3439599 original size:15 final size:16
Alignment explanation
Indices: 3439569--3439602 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3439559 ACATGTGTGC
*
3439569 ATAAAACAACAAATTT
1 ATAAAACAAAAAATTT
3439585 ATAAAA-AAAAAATTT
1 ATAAAACAAAAAATTT
3439600 ATA
1 ATA
3439603 GCAAGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAACAAAAAATTT
Found at i:3441773 original size:19 final size:19
Alignment explanation
Indices: 3441743--3441792 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
3441733 AAAATATAGA
3441743 AAAAGTAAAAAGTA-AAAAT
1 AAAAG-AAAAAGTACAAAAT
3441762 AAGAAGAAAAAGTACAAAAT
1 AA-AAGAAAAAGTACAAAAT
*
3441782 AAAAGCAAAAG
1 AAAAGAAAAAG
3441793 CCTTATGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.72, C:0.04, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAAGAAAAAGTACAAAAT
Found at i:3448450 original size:26 final size:27
Alignment explanation
Indices: 3448389--3448447 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
3448379 GTCAGGAAAT
*
3448389 GAAGCCTTTGTGGATAACTTTAAAAAG
1 GAAGCCTTTGTGGATAACTCTAAAAAG
* *
3448416 AAAGCCTTTGTGGCTAACTCTAAAAAG
1 GAAGCCTTTGTGGATAACTCTAAAAAG
3448443 GAAGC
1 GAAGC
3448448 TTTCAAGGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAGCCTTTGTGGATAACTCTAAAAAG
Found at i:3448563 original size:28 final size:28
Alignment explanation
Indices: 3448497--3448563 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
3448487 TTGTAATAGG
*
3448497 ATAGCCTTTGTGGCGCAATGTAAAAGGA
1 ATAGCCTTTGTGGCGCAATGTAAAAAGA
* *
3448525 ACA-CCTGTGTGGCG-AAT-TATGAAAAGA
1 ATAGCCTTTGTGGCGCAATGTA--AAAAGA
3448552 ATAGCCTTTGTG
1 ATAGCCTTTGTG
3448564 ATGGATTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.06
26 3 0.10
27 17 0.55
28 9 0.29
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (28 bp):
ATAGCCTTTGTGGCGCAATGTAAAAAGA
Found at i:3450644 original size:11 final size:11
Alignment explanation
Indices: 3450628--3450653 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3450618 TAGAAGAGAC
3450628 GAAACAGGGGA
1 GAAACAGGGGA
3450639 GAAACAGGGGA
1 GAAACAGGGGA
3450650 GAAA
1 GAAA
3450654 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:3451329 original size:3 final size:3
Alignment explanation
Indices: 3451309--3451344 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3451299 GTGCGGTAAG
* *
3451309 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3451345 GAGTGGGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3456914 original size:14 final size:14
Alignment explanation
Indices: 3456895--3456945 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3456885 TTTAACAAAA
3456895 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
3456909 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
3456923 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
3456938 G-AATAAAA
1 GAAATAAAA
3456946 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:3456956 original size:17 final size:16
Alignment explanation
Indices: 3456934--3456967 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3456924 AAGTTAAAAT
3456934 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
3456951 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
3456967 A
1 A
3456968 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:3463669 original size:125 final size:125
Alignment explanation
Indices: 3463426--3463992 Score: 636
Period size: 126 Copynumber: 4.5 Consensus size: 125
3463416 GATAAAATTA
* * * * ** *
3463426 AAGCAGGATGATTTATCAGAAGGATTTTTGATGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
3463491 AGGTCCTGGGAAAATAATTTCGACTTGATGTTTTTGAGCAAATAGTTTAAAAAACATTTC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
* ** *
3463551 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCGTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
3463616 TGGTCCTAGAAGAAATAATTTCGAGTTGATGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
* * * * *
3463677 AAACAGGATGCTTTATAAGAAGAATTTGTGAAGTCGTGCCCACGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * * * *
3463742 AGGTCCTAAAAAAATAATTTTGAGTTAACGTTTCTGAGCAAATAATATAAAACAACGCTGC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAA-AACACTTC
* * * * * * *
3463803 AAGTAGCATGCTATT-TGAGAAGAATTTGTGAAATTGTGCCCTCGTGAACGTGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * *
3463867 TTGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGA-TTC
65 TAGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAC-ACTTC
* * *
3463927 TAGAAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
3463992 A
66 A
3463993 ACATGTTTGG
Statistics
Matches: 373, Mismatches: 64, Indels: 11
0.83 0.14 0.02
Matches are distributed among these distances:
123 2 0.01
124 57 0.15
125 100 0.27
126 212 0.57
127 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
Found at i:3463885 original size:251 final size:251
Alignment explanation
Indices: 3463424--3463992 Score: 705
Period size: 251 Copynumber: 2.3 Consensus size: 251
3463414 AAGATAAAAT
* * * * * *
3463424 TAAAGCAGGATGATTTATCAGAAGGATTTTTGATGTCGCGCCCACGTGTACGCGCTTTTGCTACA
1 TAAA-CAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACA
*** * * * * * * *
3463489 GTAGGTCCTGGGAAAATAATTTCGACTTGATGTTTTTGAGCAAATAGTTTAAAAAACATTTCAAG
65 GTAGGTCCTAAAAAAATAATTTCGACTTAACGTTTCTGAGCAAATAATATAAAAAACACTGCAAG
* * *
3463554 CAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCGTCGTGGACGCGCTTTTACTACAGTTGG
130 CAGCATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTACTACAGTTGG
* * * * *
3463619 TCCTAGAAGAAATAATTTCGAGTTGATGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
195 TCCTAGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAACGATTC
* *
3463677 -AAACAGGATGCTTTATAAGAAGAATTTGTGAAGTCGTGCCCACGTGGATGCGCTTTTGCTACAG
1 TAAACAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
3463741 TAGGTCCTAAAAAAATAATTTTGAGTTAACGTTTCTGAGCAAATAATATAAAACAACGCTGCAAG
66 TAGGTCCTAAAAAAATAATTTCGACTTAACGTTTCTGAGCAAATAATATAAAA-AACACTGCAAG
* * * * *
3463806 TAGCATGCTATT-TGAGAAGAATTTGTGAAATTGTGCCCTCGTGAACGTGCTTTTGCTACAGTTG
130 CAGCATGCT-TTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTACTACAGTTG
* * *
3463870 GTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATCGATTC
194 GTCCTAGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACGATTC
* * * *
3463927 TAGA-AGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAG
1 TAAACAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAG
3463991 TA
66 TA
3463993 ACATGTTTGG
Statistics
Matches: 270, Mismatches: 43, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
250 66 0.24
251 130 0.48
252 72 0.27
253 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (251 bp):
TAAACAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAG
TAGGTCCTAAAAAAATAATTTCGACTTAACGTTTCTGAGCAAATAATATAAAAAACACTGCAAGC
AGCATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTACTACAGTTGGT
CCTAGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACGATTC
Found at i:3467159 original size:21 final size:21
Alignment explanation
Indices: 3467133--3468422 Score: 1244
Period size: 21 Copynumber: 59.8 Consensus size: 21
3467123 TCAAATTATA
3467133 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
3467154 TTTAAGTTAAGGGTTAAGGGTTAAGGAT
1 TTTAAGTTAAGGGTT-AGGG-T-----T
3467182 TTTAAAGTTAAGGGTCTAGGGTT
1 TTT-AAGTTAAGGGT-TAGGGTT
* * *
3467205 TTAAAGTTAAGGATTTATGGTT
1 TTTAAGTTAAGG-GTTAGGGTT
*
3467227 TTTAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * **
3467248 TTTAGGTTTAGGGTTTATAGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
3467270 TTTAATTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
3467291 TTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
3467313 TTAAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
3467335 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
3467356 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3467378 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
3467399 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3467421 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
3467442 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
3467464 TTAAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
3467486 TTAAAGTTAAGGTTTAAGG--
1 TTTAAGTTAAGGGTTAGGGTT
*
3467505 TTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
3467527 TTAAAGTTAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467548 TTTAGGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467569 TTTAGGTTAAGGTTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTT
*
3467589 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467610 TTTAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467631 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467652 TTTAGGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
3467673 TTTAATTTAATGATTAGGATT
1 TTTAAGTTAAGGGTTAGGGTT
*
3467694 TTTAAGTTAAGCGTTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
*
3467716 TTTAAGTTAATGGGTCTAAGGTT
1 TTTAAGTTAA-GGGT-TAGGGTT
* *
3467739 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467760 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467781 TTTAGGTTAAAGGTTTAGGG-T
1 TTTAAGTT-AAGGGTTAGGGTT
* *
3467802 TTTAATTTAAGGGTTAAGGTTT
1 TTTAAGTTAAGGGTT-AGGGTT
3467824 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3467846 TTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* * *
3467868 TTAAAGTTAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467889 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3467910 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3467932 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
3467954 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
** *
3467975 TTTGGGTTAAGAGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
3467996 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3468018 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
3468039 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
3468061 TCTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
** * *
3468083 TAAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
3468104 TTTCAGGTTAAGGGTTAGGG-T
1 TTT-AAGTTAAGGGTTAGGGTT
* **
3468125 TTTAGGTTAAAGATTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
* * * *
3468147 TTAAATTTAAGGATTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTT
3468168 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
*
3468189 TTTAAGTTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGGT-TAGGGTT
* *
3468211 TTAAAGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
3468232 TTTAGGTTTAGGGGTTATGGTT
1 TTTAAG-TTAAGGGTTAGGGTT
* *
3468254 TTTAATTTAAGGGTTTAGGTTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * *
3468276 TTTAATTTAAAAGTTTAGGGTTT
1 TTTAAGTT-AAGGGTTAGGG-TT
*
3468299 TTTAAGTTAAGGGTTTAAGG-T
1 TTTAAGTTAAGGG-TTAGGGTT
* *
3468320 TTTAAGGTTAATGGTTAAGGTT
1 TTTAA-GTTAAGGGTTAGGGTT
*
3468342 TTTAGGTTAAGGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
* *
3468364 TTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
3468385 TTTAGGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
* *
3468407 TTAAAGTTAAAGGTTA
1 TTTAAGTTAAGGGTTA
3468423 ATGAGTTAGG
Statistics
Matches: 1063, Mismatches: 158, Indels: 96
0.81 0.12 0.07
Matches are distributed among these distances:
19 12 0.01
20 33 0.03
21 487 0.46
22 467 0.44
23 43 0.04
28 5 0.00
29 15 0.01
30 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:3467172 original size:28 final size:29
Alignment explanation
Indices: 3467138--3467204 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
3467128 TTATATTTAA
* *
3467138 GTTAAGGGTT-AGGGTTTTTAAGTTAAGG
1 GTTAAGGGTTAAGGATTTTAAAGTTAAGG
3467166 GTTAAGGGTTAAGGATTTTAAAGTTAAGG
1 GTTAAGGGTTAAGGATTTTAAAGTTAAGG
3467195 GTCT-AGGGTT
1 GT-TAAGGGTT
3467205 TTAAAGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 10 0.29
29 24 0.69
30 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.34, T:0.37
Consensus pattern (29 bp):
GTTAAGGGTTAAGGATTTTAAAGTTAAGG
Found at i:3467191 original size:22 final size:22
Alignment explanation
Indices: 3467166--3468423 Score: 1051
Period size: 22 Copynumber: 58.5 Consensus size: 22
3467156 TAAGTTAAGG
* *
3467166 GTTAAGGGTTAAGGATTTTAAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467188 GTTAAGGGTCT-AGGGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* * * *
3467210 GTTAAGGATTTATGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467232 GTTAAGGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* * **
3467253 GTTTAGGGTTTATAGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467275 TTTAAGGGTT-ATGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467296 GTTAAGGGTCT-ATGGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* * *
3467318 GTTAATGGTTTAGGGTTTTAAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467340 GTTAAGGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467361 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
3467383 GTTAAGGGTTAA-GGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467404 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
3467426 GTTAAGGGTTAA-GGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467447 GTTAAGGGTTTAGGGTTTTAAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467469 GTTAAGGGTCT-ATGGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
*
3467491 GTTAAGGTTTAA-GG--TTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467510 GTTAAGGGTCT-ATGGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* *
3467532 GTTAAGGTTTAA-GGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467553 GTTAAGGGTT-ATGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467574 GTTAA-GGTTTAGGG-TTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467594 TTTAAGGGTT-AGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* * * *
3467615 GTTAA-AGTTTAGGGTTTTCAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467636 GTTAAGGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467657 GTTAA-GGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* * * *
3467678 TTTAATGATT-AGGATTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467699 GTTAAGCGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467721 GTTAATGGGTCTAA-GGTTTTAAA
1 GTTAA-GGGT-TAAGGGTTTTTAA
* * *
3467744 GTTAA-GGTTTAGGGTTTTCAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467765 GTTAAGGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467786 GTTAAAGGTTTAGGG-TTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467807 TTTAAGGGTTAAGGTTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467829 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467851 GTTAAGGGTCT-ATGGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* * * *
3467873 GTTAA-GGTTTATGGTTTTCAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467894 GTTAAGGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467915 GTTAAGGGTTTATGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3467937 GTTAAGGGTTTAA-GGTTTTAAA
1 GTTAAGGG-TTAAGGGTTTTTAA
* **
3467959 GTTAA-GGTTTAGGGTTTTTGG
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3467980 GTTAAGAGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
*
3468001 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3468023 TTTAAGGGTT-AGGGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3468044 GTTAAGGGTTTAGGGTTTCTAA
1 GTTAAGGGTTAAGGGTTTTTAA
**
3468066 GTTAAGGGTCT-AGGGTTTAAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* * *
3468088 GTTAA-AGTTTAGGGTTTTTCAG
1 GTTAAGGGTTAAGGGTTTTT-AA
*
3468110 GTTAAGGGTT-AGGG-TTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* * * *
3468130 GTTAAAGATTTAGGGTTTTAAA
1 GTTAAGGGTTAAGGGTTTTTAA
* * *
3468152 TTTAAGGATT-AGTGTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3468173 GTTAAGGGTTTAGGG-TTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3468194 GTTAAGGGTCTAA-GGTTTTAAA
1 GTTAAGGGT-TAAGGGTTTTTAA
* *
3468216 GTTAAGGGTT-ATGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* *
3468237 GTTTAGGGGTT-ATGGTTTTTAA
1 G-TTAAGGGTTAAGGGTTTTTAA
* * *
3468259 TTTAAGGGTTTAGGTTTTTTAA
1 GTTAAGGGTTAAGGGTTTTTAA
* ** *
3468281 TTTAAAAGTTTAGGGTTTTTTAA
1 GTTAAGGGTTAAGGG-TTTTTAA
3468304 GTTAAGGGTTTAA-GG-TTTTAA
1 GTTAAGGG-TTAAGGGTTTTTAA
* *
3468325 GGTTAATGGTTAA-GGTTTTTAG
1 -GTTAAGGGTTAAGGGTTTTTAA
*
3468347 GTTAAGGGGTT-AGGGTTTTAAA
1 GTTAA-GGGTTAAGGGTTTTTAA
* *
3468369 GTTAATGGTT-AGGGTTTTTAG
1 GTTAAGGGTTAAGGGTTTTTAA
* * *
3468390 GTTAATGGTTTAGGGTTTTAAA
1 GTTAAGGGTTAAGGGTTTTTAA
*
3468412 GTTAAAGGTTAA
1 GTTAAGGGTTAA
3468424 TGAGTTAGGG
Statistics
Matches: 1040, Mismatches: 138, Indels: 116
0.80 0.11 0.09
Matches are distributed among these distances:
19 13 0.01
20 46 0.04
21 455 0.44
22 481 0.46
23 40 0.04
24 5 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (22 bp):
GTTAAGGGTTAAGGGTTTTTAA
Found at i:3467265 original size:43 final size:42
Alignment explanation
Indices: 3467133--3468422 Score: 1244
Period size: 43 Copynumber: 29.9 Consensus size: 42
3467123 TCAAATTATA
3467133 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGGTTAAGGAT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT-AGGG-T-----T
* * *
3467182 TTTAAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGATTTATGGTT
1 TTT-AAGTTAAGGGT-TAGGGTTTTTAAGTTAAGG-GTTAGGGTT
* * * **
3467227 TTTAGGTTAAGGGTTAGGGTTTTTAGGTTTAGGGTTTATAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * *
3467270 TTTAATTTAAGGGTTATGGTTTTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * *
3467313 TTAAAGTTAATGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
3467356 TTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
3467399 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
3467442 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * * *
3467486 TTAAAGTTAAGGTTTAAGG--TTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * * * *
3467527 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
3467569 TTTAGGTTAAGGTTTAGGG-TTTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
3467610 TTTAAGTTAAAGTTTAGGGTTTTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * * * *
3467652 TTTAGGTTAAGGTTTAGGGTTTTTAATTTAATGATTAGGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
3467694 TTTAAGTTAAGCGTTTAGGGTTTTTAAGTTAATGGGTCTAAGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAA-GGGT-TAGGGTT
* * * *
3467739 TTAAAGTTAAGGTTTAGGGTTTTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
3467781 TTTAGGTTAAAGGTTTAGGG-TTTTAATTTAAGGGTTAAGGTTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTT-AGGGTT
*
3467824 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTCTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * * * *
3467868 TTAAAGTTAAGGTTTATGGTTTTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
3467910 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * ** *
3467954 TTAAAGTTAAGGTTTAGGGTTTTTGGGTTAAGAGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
3467996 TTTAGGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
3468039 TTTAAGTTAAGGGTTTAGGGTTTCTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
** * * *
3468083 TAAAAGTTAAAGTTTAGGGTTTTTCAGGTTAAGGGTTAGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTT-AAGTTAAGGGTTAGGGTT
* ** * * * *
3468125 TTTAGGTTAAAGATTTAGGGTTTTAAATTTAAGGATTAGTGTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
3468168 TTTAAGTTAAGGGTTTAGGG-TTTTAAGTTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * * * *
3468211 TTAAAGTTAAGGGTTATGGTTTTTAGGTTTAGGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAG-TTAAGGGTTAGGGTT
* * * * *
3468254 TTTAATTTAAGGGTTTAGGTTTTTTAATTTAAAAGTTTAGGGTTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AAGGGTTAGGG-TT
* * *
3468299 TTTAAGTTAAGGGTTTAAGG-TTTTAAGGTTAATGGTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAA-GTTAAGGGTTAGGGTT
* * *
3468342 TTTAGGTTAAGGGGTTAGGGTTTTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
3468385 TTTAGGTTAATGGTTTAGGGTTTTAAAGTTAAAGGTTA
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTA
3468423 ATGAGTTAGG
Statistics
Matches: 1048, Mismatches: 157, Indels: 78
0.82 0.12 0.06
Matches are distributed among these distances:
41 76 0.07
42 189 0.18
43 517 0.49
44 187 0.18
45 41 0.04
49 3 0.00
50 12 0.01
51 21 0.02
52 2 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:3467504 original size:7 final size:7
Alignment explanation
Indices: 3467492--3467590 Score: 55
Period size: 7 Copynumber: 14.3 Consensus size: 7
3467482 GGTTTTAAAG
3467492 TTAAGGT
1 TTAAGGT
3467499 TTAAGGT
1 TTAAGGT
3467506 TTAA-G-
1 TTAAGGT
3467511 TTAAGGGT
1 TTAA-GGT
* *
3467519 CTATGGTT
1 TTAAGG-T
*
3467527 TTAAAG-
1 TTAAGGT
3467533 TTAAGGT
1 TTAAGGT
3467540 TTAAGGTT
1 TTAAGG-T
*
3467548 TTTAGG-
1 TTAAGGT
*
3467554 TTAAGGG
1 TTAAGGT
*
3467561 TTATGGTT
1 TTAAGG-T
*
3467569 TTTAGG-
1 TTAAGGT
3467575 TTAAGGT
1 TTAAGGT
*
3467582 TTAGGGT
1 TTAAGGT
3467589 TT
1 TT
3467591 TAATTTAAGG
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
5 4 0.06
6 16 0.23
7 33 0.48
8 16 0.23
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.45
Consensus pattern (7 bp):
TTAAGGT
Found at i:3468730 original size:21 final size:21
Alignment explanation
Indices: 3468705--3468767 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
3468695 TCCAGCTTTT
*
3468705 GGCGGCGATTATAGTTCTTCC
1 GGCGGCGATTATGGTTCTTCC
* *
3468726 GGCGGCGGTTGTGGTTCTTCC
1 GGCGGCGATTATGGTTCTTCC
* *
3468747 GGCGGGGATTCTGGTTCTTCC
1 GGCGGCGATTATGGTTCTTCC
3468768 AGTAGGGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.06, C:0.24, G:0.37, T:0.33
Consensus pattern (21 bp):
GGCGGCGATTATGGTTCTTCC
Found at i:3472159 original size:18 final size:18
Alignment explanation
Indices: 3472133--3472175 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3472123 GACTCGAAAA
* *
3472133 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
3472151 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
3472169 AGGAAAC
1 AGGAAAC
3472176 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:3472980 original size:20 final size:20
Alignment explanation
Indices: 3472943--3472980 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3472933 TTTATTTTTA
*
3472943 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
3472963 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
3472981 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:3480694 original size:27 final size:27
Alignment explanation
Indices: 3480643--3480694 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3480633 CCAATGAAAT
* * *
3480643 CGGGGAATCAGCACTTAGCACCCCCTC
1 CGGGGAATCAGCACATAACAACCCCTC
3480670 CGGGGAATCAGCACATAACAACCCC
1 CGGGGAATCAGCACATAACAACCCC
3480695 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.21, T:0.12
Consensus pattern (27 bp):
CGGGGAATCAGCACATAACAACCCCTC
Found at i:3480819 original size:103 final size:103
Alignment explanation
Indices: 3480413--3482634 Score: 4300
Period size: 103 Copynumber: 21.6 Consensus size: 103
3480403 GGTAGATCCC
* * * * *
3480413 GCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
*
3480478 AGCAACCCCCTTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCC-TTTTCATTTCAAAGATACGGTGGATATT
* *
3480517 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
*
3480582 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATC
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
* *
3480620 GCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACA
1 GCACTTAGCATCACCAATG-AATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACA
3480685 TAACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
65 TAACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3480724 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3480789 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3480827 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3480892 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3480930 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3480995 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481033 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481098 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481136 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481201 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481239 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481304 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481342 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481407 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481445 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481510 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481548 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481613 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481651 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481716 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481754 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481819 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481857 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3481922 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3481960 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482025 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3482063 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482128 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3482166 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482231 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3482269 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482334 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3482372 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482437 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
3482475 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
3482540 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
66 AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
* * *
3482578 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGTAACCCCTCGGGGGAAT
1 GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAAT
3482635 TTGAATCACC
Statistics
Matches: 2102, Mismatches: 15, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
103 1933 0.92
104 169 0.08
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (103 bp):
GCACTTAGCATCACCAATGAATCAGGGAATCAGCACTTAGCACCCCCTCCGGGGAATCAGCACAT
AACAACCCCCTTTTCATTTCAAAGATACGGTGGATATT
Found at i:3486620 original size:15 final size:15
Alignment explanation
Indices: 3486602--3486646 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
3486592 AATATATATA
*
3486602 TCAATTCCATCCAAT
1 TCAATTCAATCCAAT
3486617 TCAATTCAATCCAAT
1 TCAATTCAATCCAAT
*
3486632 TCAATTCAATTCAAT
1 TCAATTCAATCCAAT
3486647 AATCAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.36
Consensus pattern (15 bp):
TCAATTCAATCCAAT
Found at i:3486623 original size:5 final size:5
Alignment explanation
Indices: 3486602--3486646 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
3486592 AATATATATA
* * *
3486602 TCAAT TCCAT CCAAT TCAAT TCAAT CCAAT TCAAT TCAAT TCAAT
1 TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT
3486647 AATCAATACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.36
Consensus pattern (5 bp):
TCAAT
Found at i:3487953 original size:37 final size:36
Alignment explanation
Indices: 3487911--3488255 Score: 336
Period size: 37 Copynumber: 9.2 Consensus size: 36
3487901 CTTGAACAAC
* * *
3487911 TTTCAGTATATTCAATAGACATTGCTCTTTTGAGCA
1 TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
*
3487947 TGTTCAGTATAATTAGTAGATATTGCT-TATTTGAGCAA
1 T-TTCAGTATAATCAGTAGATATTGCTCT-TTTGAGC-A
* *
3487985 CTTTCAATATAATCAGTAGATATTGCTCTTTTAAGCACA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAG--CA
3488024 TTT-AGTATAATCAGTAGATATTGCT-TATTTGAGCAA
1 TTTCAGTATAATCAGTAGATATTGCTCT-TTTGAGC-A
* * **
3488060 CTTTCAGTATAATCAATAGACATTATTCTTTTGAGCA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
* * *
3488097 CGTTCAATATAATCAGTAGATATTGCTCGTTTGAGCAA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGC-A
*
3488135 CTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
* * * * *
3488172 CGTCCAATATAATCAGAAGATATTGCTCGTTTGAGCA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
* * *
3488209 CATTCAGTATAATAAGTAGATATTGCTCATTTGAGCA
1 -TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
3488246 TATTCAGTAT
1 T-TTCAGTAT
3488256 TTAATCGATT
Statistics
Matches: 258, Mismatches: 37, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
35 1 0.00
36 4 0.02
37 158 0.61
38 90 0.35
39 4 0.02
40 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (36 bp):
TTTCAGTATAATCAGTAGATATTGCTCTTTTGAGCA
Found at i:3488032 original size:75 final size:75
Alignment explanation
Indices: 3487902--3488255 Score: 458
Period size: 75 Copynumber: 4.7 Consensus size: 75
3487892 TATCGTTCGC
* * * * *
3487902 TTGAACAACTTTCAGTATATTCAATAGACATTGCTCTTTTGAGCATGTTCAGTATAATTAGTAGA
1 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTATAATCAGTAGA
*
3487967 TATTGCTTAT
66 TATTGCTCAT
* * * * *
3487977 TTGAGCAACTTTCAATATAATCAGTAGATATTGCTCTTTTAAGCACATTTAGTATAATCAGTAGA
1 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTATAATCAGTAGA
*
3488042 TATTGCTTAT
66 TATTGCTCAT
* ** *
3488052 TTGAGCAACTTTCAGTATAATCAATAGACATTATTCTTTTGAGCACGTTCAATATAATCAGTAGA
1 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTATAATCAGTAGA
*
3488117 TATTGCTCGT
66 TATTGCTCAT
* * *
3488127 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTCCAATATAATCAGAAGA
1 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTATAATCAGTAGA
*
3488192 TATTGCTCGT
66 TATTGCTCAT
* * * * **
3488202 TTGAGC-ACATTCAGTATAATAAGTAGATATTGCTCATTTGAGCATATTCAGTAT
1 TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTAT
3488256 TTAATCGATT
Statistics
Matches: 245, Mismatches: 34, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
74 40 0.16
75 205 0.84
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (75 bp):
TTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAGTATAATCAGTAGA
TATTGCTCAT
Found at i:3488112 original size:112 final size:110
Alignment explanation
Indices: 3487915--3488255 Score: 353
Period size: 112 Copynumber: 3.0 Consensus size: 110
3487905 AACAACTTTC
* * * * * * * * * **
3487915 AGTATATTCAATAGACATTGCTCTTTTGAGCATGTTCAGTATAATTAGTAGATATTGCTTATTTG
1 AGTATAATCAGTAGACATTGCTCTTTTGAGCACGTCCAATATAATCAGAAGACATTACTCGTTTG
* * *
3487980 AGCAACTTTCAATATAATCAGTAGATATTGCTCTTTTAAGCACATTT
66 AGC-ACATTCAATATAATCAGTAGATATTGCTCATTTGAGCA-ATTT
* * * * * *
3488027 AGTATAATCAGTAGATATTGCT-TATTTGAGCAACTTTCAGTATAATCA-ATAGACATTATTCTT
1 AGTATAATCAGTAGACATTGCTCT-TTTGAGC-ACGTCCAATATAATCAGA-AGACATTACTCGT
* *
3488090 TTGAGCACGTTCAATATAATCAGTAGATATTGCTCGTTTGAGCAACTTT
63 TTGAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGCAA-TTT
* *
3488139 CAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTCCAATATAATCAGAAGATATTGCTCGTTT
1 -AGTATAATCAGTAGACATTGCTCTTTTGAGCACGTCCAATATAATCAGAAGACATTACTCGTTT
* * *
3488204 GAGCACATTCAGTATAATAAGTAGATATTGCTCATTTGAGCATATTC
65 GAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGCA-ATTT
3488251 AGTAT
1 AGTAT
3488256 TTAATCGATT
Statistics
Matches: 193, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
111 7 0.04
112 128 0.66
113 57 0.30
114 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (110 bp):
AGTATAATCAGTAGACATTGCTCTTTTGAGCACGTCCAATATAATCAGAAGACATTACTCGTTTG
AGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGCAATTT
Found at i:3492112 original size:62 final size:59
Alignment explanation
Indices: 3492043--3492159 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
3492033 AGTGATTATC
* * * * *
3492043 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATATAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
3492105 TTAATATTAAATTTAATATAATATTTATCTTAATAAACATTATATTAATTTAATA
1 TTAATATTAAATTTAATATAATATTTATCTTAATAAACATTATATTAATTTAATA
3492160 TTAAAGTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 1 0.02
62 27 0.54
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATATAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:3492128 original size:17 final size:17
Alignment explanation
Indices: 3492106--3492164 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
3492096 TAATAAGATT
3492106 TAATATTAAATTTAATA
1 TAATATTAAATTTAATA
*
3492123 TAATATT-TATCTTAATA
1 TAATATTAAAT-TTAATA
* * *
3492140 -AACATTATA-TTAATT
1 TAATATTAAATTTAATA
3492155 TAATATTAAA
1 TAATATTAAA
3492165 GTCATTAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.15
16 14 0.41
17 15 0.44
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTAAATTTAATA
Found at i:3495554 original size:45 final size:45
Alignment explanation
Indices: 3495485--3495584 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 45
3495475 GATGTGTTCG
* *
3495485 TATAACAGGTTTGGATATCGTAAATGAGCTTACACACGTCCAACC
1 TATAACAGATTTGGATATCATAAATGAGCTTACACACGTCCAACC
* * *
3495530 TATAACAGATTTGGATATCATAAATGGGCTTGCACATGTCCAACC
1 TATAACAGATTTGGATATCATAAATGAGCTTACACACGTCCAACC
3495575 TATAACAGAT
1 TATAACAGAT
3495585 CACTCTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
TATAACAGATTTGGATATCATAAATGAGCTTACACACGTCCAACC
Found at i:3496202 original size:25 final size:25
Alignment explanation
Indices: 3496163--3496219 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
3496153 TGCAAATTTT
3496163 TTAAGAATTACAAAAAGTTAT-AAAAA
1 TTAA-AATTAC-AAAAGTTATCAAAAA
* *
3496189 TTAAAATTATAAAATTTATCAAAAA
1 TTAAAATTACAAAAGTTATCAAAAA
*
3496214 TAAAAA
1 TTAAAA
3496220 ATGTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 8 0.30
25 15 0.56
26 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
TTAAAATTACAAAAGTTATCAAAAA
Found at i:3496256 original size:17 final size:18
Alignment explanation
Indices: 3496202--3496256 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
3496192 AAATTATAAA
*
3496202 ATTTATCAAAAATAAAAAAT
1 ATTTAT-AAAAA-ATAAAAT
* *
3496222 GTTTATAAAAAAT-TAAT
1 ATTTATAAAAAATAAAAT
3496239 ATTT-TAAAAAATAAAAT
1 ATTTATAAAAAATAAAAT
3496256 A
1 A
3496257 AATATAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 8 0.28
17 10 0.34
18 1 0.03
19 5 0.17
20 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
ATTTATAAAAAATAAAAT
Found at i:3497021 original size:21 final size:21
Alignment explanation
Indices: 3496995--3497034 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3496985 AATAAATACC
3496995 AAAAATTTATTTTAAAAATTA
1 AAAAATTTATTTTAAAAATTA
3497016 AAAAATTTATTTTAAAAAT
1 AAAAATTTATTTTAAAAAT
3497035 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATTTATTTTAAAAATTA
Found at i:3497039 original size:11 final size:11
Alignment explanation
Indices: 3497023--3497083 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
3497013 TTAAAAAATT
3497023 TATTTTAAAAA
1 TATTTTAAAAA
3497034 TATTTT--AAA
1 TATTTTAAAAA
3497043 -A--TTAAAAA
1 TATTTTAAAAA
* * *
3497051 AAATTAAAAAA
1 TATTTTAAAAA
3497062 GTATTTTAAAAA
1 -TATTTTAAAAA
3497074 TATTTTAAAA
1 TATTTTAAAA
3497084 TTAAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 4 0.10
11 22 0.55
12 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:3497067 original size:40 final size:41
Alignment explanation
Indices: 3497008--3497088 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
3496998 AATTTATTTT
*
3497008 AAAAATTAAAAAATTTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAAA
3497049 AAAAATTAAAAAA-GTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAAA
3497089 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 26 0.67
41 13 0.33
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (41 bp):
AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAAA
Found at i:3504277 original size:21 final size:20
Alignment explanation
Indices: 3504253--3504339 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
3504243 AATAAGATTA
3504253 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
3504274 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
3504294 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
3504311 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
3504330 TTAATA-AAAT
1 TTAATATAAAT
3504340 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:3504282 original size:11 final size:11
Alignment explanation
Indices: 3504263--3504295 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3504253 TTAATATAAA
3504263 TAATAAATAATT
1 TAAT-AATAATT
3504275 TAATAATAATT
1 TAATAATAATT
3504286 TAA-AATAATT
1 TAATAATAATT
3504296 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:3504316 original size:24 final size:21
Alignment explanation
Indices: 3504240--3504352 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
3504230 GTTATTAAAT
3504240 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
3504262 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
3504284 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
3504310 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
3504329 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
3504351 TT
1 TT
3504353 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:3504319 original size:29 final size:28
Alignment explanation
Indices: 3504286--3504376 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
3504276 AATAATAATT
3504286 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
3504315 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
3504343 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
3504370 CTAAAAT
1 -TAAAAT
3504377 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:3504329 original size:56 final size:57
Alignment explanation
Indices: 3504253--3504381 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
3504243 AATAAGATTA
3504253 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
3504311 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
3504367 TTACTAAAATCATAA
1 TTAATAAAATAATAA
3504382 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:3504803 original size:77 final size:77
Alignment explanation
Indices: 3504676--3504837 Score: 324
Period size: 77 Copynumber: 2.1 Consensus size: 77
3504666 ATTTTTTGTC
3504676 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
3504741 TTATTGACATAA
66 TTATTGACATAA
3504753 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
3504818 TTATTGACATAA
66 TTATTGACATAA
3504830 CACTTTAA
1 CACTTTAA
3504838 GATTGTCTCA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (77 bp):
CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
TTATTGACATAA
Found at i:3505931 original size:15 final size:15
Alignment explanation
Indices: 3505911--3505939 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3505901 ATCGGCTTGC
3505911 CTTCCTCTTTCAGCG
1 CTTCCTCTTTCAGCG
3505926 CTTCCTCTTTCAGC
1 CTTCCTCTTTCAGC
3505940 TTAACCATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.41, G:0.10, T:0.41
Consensus pattern (15 bp):
CTTCCTCTTTCAGCG
Found at i:3519802 original size:21 final size:21
Alignment explanation
Indices: 3519777--3519823 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3519767 AAAAAATAAA
3519777 ATATTAAAA-ATATATTATTTT
1 ATATTAAAATATATA-TATTTT
* *
3519798 ATATTAATATTTATATATTTT
1 ATATTAAAATATATATATTTT
3519819 ATATT
1 ATATT
3519824 TAAACTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTAAAATATATATATTTT
Found at i:3520038 original size:29 final size:31
Alignment explanation
Indices: 3520006--3520070 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
3519996 AAAATTTTAA
* *
3520006 GTATAAATTTATACA-TA-ATCAAAGTTCAT
1 GTATAAAATTACACATTAGATCAAAGTTCAT
* *
3520035 GTATAAAATTGCACATTAGATCAAATTTCAT
1 GTATAAAATTACACATTAGATCAAAGTTCAT
3520066 GTATA
1 GTATA
3520071 TTTTTGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.40
30 2 0.07
31 16 0.53
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (31 bp):
GTATAAAATTACACATTAGATCAAAGTTCAT
Found at i:3520152 original size:20 final size:21
Alignment explanation
Indices: 3520110--3520153 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3520100 GTATGTTTTA
* *
3520110 ATATTTACATTGTAATACTAT
1 ATATTTAAATTGTAATACAAT
*
3520131 ATATTTAAATT-TTATACAAT
1 ATATTTAAATTGTAATACAAT
3520151 ATA
1 ATA
3520154 AAATACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATTTAAATTGTAATACAAT
Found at i:3522945 original size:16 final size:16
Alignment explanation
Indices: 3522924--3522956 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3522914 TGAGGTAAAG
3522924 TTGTTACACTACTTCA
1 TTGTTACACTACTTCA
3522940 TTGTTACACTACTTCA
1 TTGTTACACTACTTCA
3522956 T
1 T
3522957 AAAAACTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGTTACACTACTTCA
Found at i:3524109 original size:149 final size:149
Alignment explanation
Indices: 3523824--3524109 Score: 323
Period size: 149 Copynumber: 1.9 Consensus size: 149
3523814 ATCACTAATA
* *
3523824 TGGTATTAAAATTTCGTTAGAAAATTTCTACATTTGGGTAGCTAATTAAGTGAAAAAGACTAAAT
1 TGGTATTAAAATTTCATTAGAAAATTTCTACATTTGGGTAGCTAATTAAATGAAAAAGACTAAAT
* * ** *
3523889 TGAAAAGGGTGTAAAAGTTACTAAAAGGATTAAATAGCTCAATTGTTAAATGAGGAGGGACATAA
66 TGAAAAGGGTGTAAAAGTGACTAAAAGGATTAAATAGCTCAAGTGTTAAATGAAAAAGGACATAA
*
3523954 ATTGCAAATATGAGTTATG
131 AATGCAAATATGAGTTATG
3523973 TGGTATTAAAATTTCATTAGAAAATTT-TA-ATGTTTGGGTAG-TCAATTAAAT-AAAAATGACT
1 TGGTATTAAAATTTCATTAGAAAATTTCTACA--TTTGGGTAGCT-AATTAAATGAAAAA-GACT
* * *** * *
3524034 AAATTGGAAAA-TGTGTAAAAGTGGCTTGGATGATTAAATAGCTTAAGTGTCT-AATGAAAAAGG
62 AAATT-GAAAAGGGTGTAAAAGTGACTAAAAGGATTAAATAGCTCAAGTGT-TAAATGAAAAAGG
**
3524097 ATTTAAAATGCAA
125 ACATAAAATGCAA
3524110 TTAGACCCAA
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
147 1 0.01
148 8 0.07
149 99 0.87
150 6 0.05
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (149 bp):
TGGTATTAAAATTTCATTAGAAAATTTCTACATTTGGGTAGCTAATTAAATGAAAAAGACTAAAT
TGAAAAGGGTGTAAAAGTGACTAAAAGGATTAAATAGCTCAAGTGTTAAATGAAAAAGGACATAA
AATGCAAATATGAGTTATG
Found at i:3540489 original size:11 final size:11
Alignment explanation
Indices: 3540466--3540503 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
3540456 GTAAGATGGC
3540466 TTTTCTT-TCT
1 TTTTCTTCTCT
3540476 TTTTCTTCTCT
1 TTTTCTTCTCT
*
3540487 TTTTTTTCT-T
1 TTTTCTTCTCT
3540497 TTTTCTT
1 TTTTCTT
3540504 TTTTCTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 14 0.56
11 11 0.44
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTCTCT
Found at i:3540494 original size:14 final size:13
Alignment explanation
Indices: 3540467--3540509 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
3540457 TAAGATGGCT
3540467 TTTCTTTCTTTTTC
1 TTTCTTT-TTTTTC
3540481 TTCTCTTTTTTTTC
1 TT-TCTTTTTTTTC
*
3540495 TTTTTTCTTTTTTC
1 TTTCTT-TTTTTTC
3540509 T
1 T
3540510 GTAGTTGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.69
15 5 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:3542848 original size:12 final size:12
Alignment explanation
Indices: 3542831--3542860 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3542821 ACAAAATTCG
3542831 AATTTAATTTCC
1 AATTTAATTTCC
*
3542843 AATTTAATTTCT
1 AATTTAATTTCC
3542855 AATTTA
1 AATTTA
3542861 TTTATGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:3547923 original size:12 final size:12
Alignment explanation
Indices: 3547906--3547937 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3547896 ACAAAATCCG
3547906 AATTTAATTTCC
1 AATTTAATTTCC
*
3547918 AATTTAATTTCT
1 AATTTAATTTCC
3547930 AATTTAAT
1 AATTTAAT
3547938 AAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:3548362 original size:6 final size:6
Alignment explanation
Indices: 3548351--3548375 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3548341 GCTTTTTTAT
3548351 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
3548376 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Done.