Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 248 of 290
Found at i:85384384 original size:18 final size:17
Alignment explanation
Indices: 85384344--85384384 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
85384334 AAAATTATAC
*
85384344 CTTCTTTTTTTTCTTCT
1 CTTCTTTTTTTCCTTCT
85384361 CTTTCTTTTTCTTCCTTCT
1 C-TTCTTTTT-TTCCTTCT
85384380 CTTCT
1 CTTCT
85384385 CCTTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTCTTTTTTTCCTTCT
Found at i:85384407 original size:25 final size:23
Alignment explanation
Indices: 85384345--85384413 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
85384335 AAATTATACC
85384345 TTCTTTTTTTTCTTCT-CTTTCT
1 TTCTTTTTTTTCTTCTCCTTTCT
*
85384367 TT-TTCTTCCTTCTCTTCTCCTTTCT
1 TTCTT-TT--TTTTCTTCTCCTTTCT
85384392 TTCCTTTTATTTTCTTCTCCTT
1 TT-CTTTT-TTTTCTTCTCCTT
85384414 GCTGCTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 4 0.11
24 8 0.21
25 20 0.53
26 2 0.05
27 2 0.05
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCTTTTTTTTCTTCTCCTTTCT
Found at i:85395945 original size:11 final size:11
Alignment explanation
Indices: 85395929--85395953 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85395919 CTCTCCCAAC
85395929 AAAAAATTCAA
1 AAAAAATTCAA
85395940 AAAAAATTCAA
1 AAAAAATTCAA
85395951 AAA
1 AAA
85395954 TCAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:85395971 original size:19 final size:20
Alignment explanation
Indices: 85395949--85395990 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
85395939 AAAAAAATTC
85395949 AAAAATC-AAAATATTTATA
1 AAAAATCTAAAATATTTATA
* * *
85395968 AAAATTCTAAAATTTTTTTA
1 AAAAATCTAAAATATTTATA
85395988 AAA
1 AAA
85395991 TAATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATCTAAAATATTTATA
Found at i:85399180 original size:5 final size:5
Alignment explanation
Indices: 85399170--85399201 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
85399160 TTGTGTGTTC
85399170 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
85399202 TTTCTCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:85407742 original size:19 final size:21
Alignment explanation
Indices: 85407714--85407760 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
85407704 TGTGGTTATG
* *
85407714 ATTTTTATTATT-TTTTAA-A
1 ATTTTAATTATTGATTTAAGA
85407733 ATTTTAATTATTGATTTAAGA
1 ATTTTAATTATTGATTTAAGA
85407754 ATTTTAA
1 ATTTTAA
85407761 ATTTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTAATTATTGATTTAAGA
Found at i:85416372 original size:6 final size:6
Alignment explanation
Indices: 85416361--85416390 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
85416351 CCTAGGTTGT
85416361 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
85416391 AATTAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:85417279 original size:16 final size:17
Alignment explanation
Indices: 85417253--85417286 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85417243 AACATAAAAG
85417253 AAAATACAAAAAAATAA
1 AAAATACAAAAAAATAA
*
85417270 AAAATA-AAAAATATAA
1 AAAATACAAAAAAATAA
85417286 A
1 A
85417287 TTTTTACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATACAAAAAAATAA
Found at i:85430119 original size:145 final size:145
Alignment explanation
Indices: 85429856--85430613 Score: 1310
Period size: 145 Copynumber: 5.2 Consensus size: 145
85429846 CTTTCCAAGG
85429856 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
85429921 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
66 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
*
85429986 TTAGTTTATATTTCA
131 TTAGTTTATGTTTCA
85430001 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
85430066 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
66 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
85430131 TTAGTTTATGTTTCA
131 TTAGTTTATGTTTCA
*
85430146 AAAATTGACTCATATTGTGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
85430211 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
66 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
85430276 TTAGTTTATGTTTCA
131 TTAGTTTATGTTTCA
*
85430291 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCATGTCACGCTGAGGTATTTTAATTCATG
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
85430356 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
66 TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
85430421 TTAGTTTATGTTTCA
131 TTAGTTTATGTTTCA
* *
85430436 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCATGTCACGCTGAGGTATTTTAATTCCTT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATT-CAT
* * * *** ** *
85430501 TTGTTTCAAAAA-TCAGCTCATATTGCGAGGGGTGAGTTGAGCCTC-GG-GGCACGCCGAGGTAT
65 GT-TTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
85430563 TTTTAGTTTATGTTT--
129 TTTTAGTTTATGTTTCA
* * *
85430578 TAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCT
85430614 TTTAATTTTT
Statistics
Matches: 594, Mismatches: 17, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
142 33 0.06
144 27 0.05
145 494 0.83
146 31 0.05
147 9 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (145 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCATG
TTTTCAAAAACTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
TTAGTTTATGTTTCA
Found at i:85430716 original size:54 final size:54
Alignment explanation
Indices: 85430585--85430720 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
85430575 TTTTAAATTG
*
85430585 ACTCATATTGCGAGAAGTGAGTT-AAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTGAAGCCTTTTAATTTTCGTTTTTCAAAATCA
* * *
85430638 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACG-TTTTCTAAATCA
1 ACTCATATTGCGAGAAGTGAGTTGAAGCCTTTTAATTT-T-CGTTTTTCAAAATCA
* *
85430692 ACTCATATTGCGAAAAATGAGTTG-AGCCT
1 ACTCATATTGCGAGAAGTGAGTTGAAGCCT
85430721 CAGGACACGC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
53 33 0.46
54 37 0.52
55 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
ACTCATATTGCGAGAAGTGAGTTGAAGCCTTTTAATTTTCGTTTTTCAAAATCA
Found at i:85430888 original size:75 final size:73
Alignment explanation
Indices: 85430686--85430896 Score: 250
Period size: 75 Copynumber: 2.9 Consensus size: 73
85430676 TACGTTTTCT
* * * * *
85430686 AAATCAACTCATATTGCGAAAAATGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGTTACACACTGAGGTATTTTCAATTTCT
*
85430750 GTTTTCAA
66 GTTTTAAA
* * * *
85430758 AAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGTT-CACATGCTGAAGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGTTACACA--CTGAGGTATTTTCAATTT
85430822 CTGTTTTAAAA
64 CTGTTTT-AAA
*
85430833 AAATCAACTCATATTGCGAGAGATGAGTTGAGCTTCAGATTACACACT-ATGGTATTTT-AATTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG-TTACACACTGA-GGTATTTTCAATTT
85430896 C
64 C
85430897 AACTCATATT
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
72 36 0.31
74 30 0.26
75 45 0.38
76 2 0.02
77 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGTTACACACTGAGGTATTTTCAATTTCT
GTTTTAAA
Found at i:85431474 original size:88 final size:87
Alignment explanation
Indices: 85431278--85431896 Score: 433
Period size: 90 Copynumber: 7.1 Consensus size: 87
85431268 GTGTTTTAAT
*
85431278 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TC
* *
85431343 -CTTTTGATTTCTATTTTTCAAAAAA
62 TGTTTTCATTTCTATTTTTCAAAAAA
* *
85431368 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTT
** *
85431433 TTCATTAT-TATGTTTTTGAAAGA
66 TTCATT-TCTAT-TTTTCAAAAAA
** * ** *
85431456 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTT
**
85431521 TTCA-----A-AATTC----AA
66 TTCATTTCTATTTTTCAAAAAA
* * * ** * * * * * * * ** *
85431533 CTCATATTGC-GA--GAAATGAGTTGAGCCTCAGGACACACG-C-CGA--G-GTAT-TTTCAATT
1 ATCA-ACT-CATATTGCGA-GAGGTGAG-TTGA-GCCTCAGGACAC-ACCGAG-GTATTTTCAAT
** * *
85431589 AAGC-CTTTTGATTTCTATTTTTCAAAAAA
59 -TTCTGTTTTCATTTCTATTTTTCAAAAAA
*
85431618 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TC
* *
85431683 -CTTTTGATTTCTATTTTTCAAAAAA
62 TGTTTTCATTTCTATTTTTCAAAAAA
*
85431708 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TC
* *
85431773 -CTTTTGATTTCTATTTTTCAAAAAA
62 TGTTTTCATTTCTATTTTTCAAAAAA
*
85431798 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CCGAGGTATTTTCAATT--TC
* *
85431863 -CTTTTGATTTCTATTTTTCAAAAAA
62 TGTTTTCATTTCTATTTTTCAAAAAA
85431888 ATCAACTCA
1 ATCAACTCA
85431897 GGCTCAAGAT
Statistics
Matches: 436, Mismatches: 59, Indels: 68
0.77 0.10 0.12
Matches are distributed among these distances:
75 10 0.02
76 5 0.01
77 11 0.03
78 7 0.02
79 6 0.01
80 1 0.00
81 5 0.01
83 7 0.02
84 7 0.02
85 13 0.03
86 3 0.01
87 10 0.02
88 88 0.20
89 6 0.01
90 257 0.59
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (87 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCGAGGTATTTTCAATTTCTGTT
TTCATTTCTATTTTTCAAAAAA
Found at i:85431652 original size:250 final size:249
Alignment explanation
Indices: 85431204--85431896 Score: 924
Period size: 250 Copynumber: 2.7 Consensus size: 249
85431194 TACTTTTTCG
* * * *
85431204 AAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTG
* *
85431269 TGTTTTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTT
66 T-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTT
85431334 CAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
130 CAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * **
85431399 CTCAGGTCACA-CCGAGGTATTTTCCATT-TCTGTTTTCATTAT-TATGTTTTTGAAA
195 CTCAGGACACACCCGAGGTATTTTCAATTAGC-CTTTTCATT-TCTAT-TTTTCAAAA
* ** * * *
85431454 GAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTG
**
85431519 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACGCCGAGGTATTTT
66 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTT
85431584 CAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
130 CAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
85431649 CTCAGGACACACGCCGAGGTATTTTCAATTAAGCCTTTTGATTTCTATTTTTCAAAA
195 CTCAGGACACAC-CCGAGGTATTTTCAATT-AGCCTTTTCATTTCTATTTTTCAAAA
*
85431706 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTATTTTC-----A
*
85431771 GCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
59 --------ATTTCT-GTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
85431836 CACACGCCGAGGTATTTTCAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCA
112 CACACGCCGAGGTATTTTCAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCA
85431897 GGCTCAAGAT
Statistics
Matches: 387, Mismatches: 31, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
249 6 0.02
250 184 0.48
252 64 0.17
253 10 0.03
254 11 0.03
259 1 0.00
267 6 0.02
268 5 0.01
270 96 0.25
271 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (249 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTCTG
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTC
AATTAAGCCTTTTGATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGACACACCCGAGGTATTTTCAATTAGCCTTTTCATTTCTATTTTTCAAAA
Found at i:85431682 original size:90 final size:90
Alignment explanation
Indices: 85431524--85431896 Score: 719
Period size: 90 Copynumber: 4.1 Consensus size: 90
85431514 TTCTGTTTTC
* **
85431524 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
85431589 AAGCCTTTTGATTTCTATTTTTCAA
66 AAGCCTTTTGATTTCTATTTTTCAA
85431614 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
85431679 AAGCCTTTTGATTTCTATTTTTCAA
66 AAGCCTTTTGATTTCTATTTTTCAA
85431704 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
85431769 AAGCCTTTTGATTTCTATTTTTCAA
66 AAGCCTTTTGATTTCTATTTTTCAA
85431794 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
85431859 AAGCCTTTTGATTTCTATTTTTCAA
66 AAGCCTTTTGATTTCTATTTTTCAA
85431884 AAAAATCAACTCA
1 AAAAATCAACTCA
85431897 GGCTCAAGAT
Statistics
Matches: 280, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 280 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
AAGCCTTTTGATTTCTATTTTTCAA
Found at i:85432048 original size:42 final size:42
Alignment explanation
Indices: 85431999--85432153 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
85431989 AAGTTGCAAG
85431999 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
* * * * *
85432041 TCTTATCTCCCTAAGTAATAATAGAGCAGATC-GCATCA-AG-
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAGAACCACAGA
* * ** *
85432081 TCTTATCTCCCTAAGCAGTAGCGGAGTGGACAAAACCACAGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
85432123 TCTTATCTCCCTAAGC-ATCAGTGGAGCAGAC
1 TCTTATCTCCCTAAGCAAT-AGTGGAGCAGAC
85432154 GAAAAAAACC
Statistics
Matches: 89, Mismatches: 19, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
39 1 0.01
40 26 0.29
41 5 0.06
42 56 0.63
43 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
Found at i:85443466 original size:32 final size:33
Alignment explanation
Indices: 85443402--85443467 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85443392 GTGCATGACT
* *
85443402 ACTAGATCCATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCAACTCTAAATACATTCATTAA
*
85443435 ACTAGATACATCAACTCT-AATTCATTCATTAA
1 ACTAGATACATCAACTCTAAATACATTCATTAA
85443467 A
1 A
85443468 TATAAGTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (33 bp):
ACTAGATACATCAACTCTAAATACATTCATTAA
Found at i:85443478 original size:33 final size:33
Alignment explanation
Indices: 85443404--85443467 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
85443394 GCATGACTAC
* * *
85443404 TAGATCCATCTACTCTAAATACATTCATTAAAC
1 TAGATACATCAACTCTAAATACATTCATTAAAA
*
85443437 TAGATACATCAACTCT-AATTCATTCATTAAA
1 TAGATACATCAACTCTAAATACATTCATTAAA
85443468 TATAAGTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (33 bp):
TAGATACATCAACTCTAAATACATTCATTAAAA
Found at i:85447837 original size:32 final size:33
Alignment explanation
Indices: 85447777--85447842 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
85447767 ATGCATGAGT
85447777 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
85447810 ACTAGATACATCTACTCT-AATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
85447842 A
1 A
85447843 TATAAGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:85448411 original size:81 final size:81
Alignment explanation
Indices: 85448323--85448485 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
85448313 TAACAATAGC
*
85448323 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAGCAATACATACATTC
1 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAGCAAGACATACATTC
85448388 ACGGGTCTTAAATCAA
66 ACGGGTCTTAAATCAA
85448404 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAGCAAGACATACATTC
1 ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAGCAAGACATACATTC
85448469 ACGGGTCTTAAATCAA
66 ACGGGTCTTAAATCAA
85448485 A
1 A
85448486 CTTACGAGAC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (81 bp):
ATCCAATTCATCAAATTAATTAACAATATTCATAAATAATTCAAAATGAAGCAAGACATACATTC
ACGGGTCTTAAATCAA
Found at i:85452118 original size:27 final size:27
Alignment explanation
Indices: 85452084--85452146 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
85452074 AAATTTCTTT
85452084 AGAAATTTTCTGAAATAATTTCTTCAG
1 AGAAATTTTCTGAAATAATTTCTTCAG
85452111 AGAAATTTTCTGAAATAATTTCTTCAG
1 AGAAATTTTCTGAAATAATTTCTTCAG
85452138 AGAAATTTT
1 AGAAATTTT
85452147 GCTCTACAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (27 bp):
AGAAATTTTCTGAAATAATTTCTTCAG
Found at i:85454303 original size:16 final size:17
Alignment explanation
Indices: 85454270--85454303 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
85454260 TCGGGCTATA
*
85454270 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
85454287 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
85454303 A
1 A
85454304 TAGTATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:85454914 original size:77 final size:73
Alignment explanation
Indices: 85454763--85454905 Score: 180
Period size: 77 Copynumber: 1.9 Consensus size: 73
85454753 TTCTCTTATC
*
85454763 AATAGAGAACGCAAATGATAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATAGGATTTT
1 AATAGAGAACGCAAATGAAAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATA-GATTTT
*
85454828 CCCCTTTTT
65 CACCTTTTT
* * * *
85454837 AATAGATAATGCAAATGAAAAGTTAGAAAAAAAGGAATTATATTCTTTTCAAAAGAATATTA-AT
1 AATAGAGAACGCAAATG-AAAGTTAG--AAAAAGGAATTATATTCTTTCCAAAAAAATA-TAGAT
85454901 TTTCA
62 TTTCA
85454906 TGTCTTTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
74 15 0.25
75 7 0.12
76 6 0.10
77 29 0.49
78 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (73 bp):
AATAGAGAACGCAAATGAAAGTTAGAAAAAGGAATTATATTCTTTCCAAAAAAATATAGATTTTC
ACCTTTTT
Found at i:85455052 original size:112 final size:112
Alignment explanation
Indices: 85454893--85455126 Score: 351
Period size: 112 Copynumber: 2.1 Consensus size: 112
85454883 TTTCAAAAGA
* * ** * * * *
85454893 ATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATGAATATAATTGTTTATATTAATAT
1 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
* * *
85454958 ATTCGGTAAAATATATACAATTAATATTTTGTATGAGTCTAATTCAT
66 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
* *
85455005 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATTAATATAACTATTTCTATTAATAA
1 ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
85455070 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
66 ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
85455117 ATATTAATTT
1 ATATTAATTT
85455127 TTTCTATGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (112 bp):
ATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATGAATATAACTATTTATATTAATAA
ATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
Found at i:85456108 original size:20 final size:20
Alignment explanation
Indices: 85456083--85456122 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
85456073 TATACATAGA
85456083 AAAGAAACTGAAATAATGAT
1 AAAGAAACTGAAATAATGAT
85456103 AAAGAAACTGAAATAATGAT
1 AAAGAAACTGAAATAATGAT
85456123 GGAAATGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (20 bp):
AAAGAAACTGAAATAATGAT
Found at i:85456328 original size:3 final size:3
Alignment explanation
Indices: 85456322--85456365 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
85456312 TATTAATACC
* * *
85456322 ATT ATT ATT AAAT ATT ATT ATT ATT ATT ATT TTT AAT ATT ATT A
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
85456366 GCTAATTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:85457040 original size:31 final size:31
Alignment explanation
Indices: 85457002--85457060 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
85456992 GATGACATAA
85457002 AATCTTTCTACGTATTTGAATTAAATGTAAT
1 AATCTTTCTACGTATTTGAATTAAATGTAAT
85457033 AATCTTTCTACGTATTTGAATTAAATGT
1 AATCTTTCTACGTATTTGAATTAAATGT
85457061 TCACTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
AATCTTTCTACGTATTTGAATTAAATGTAAT
Found at i:85466876 original size:54 final size:54
Alignment explanation
Indices: 85466811--85466937 Score: 169
Period size: 48 Copynumber: 2.5 Consensus size: 54
85466801 TTACGGCTAC
*
85466811 GATTTAGCCTGGACTGGTAGTCCTAATTGAGCTTTCG-AGCATACGTTATATAAG
1 GATTTAGCCTGGACTGGTAGTCCTAATTAAGCTTT-GAAGCATACGTTATATAAG
85466865 GATTTAG-C----CTGG-AGTCCTAATTAAGCTTTGAAGCATACGTTATATAAG
1 GATTTAGCCTGGACTGGTAGTCCTAATTAAGCTTTGAAGCATACGTTATATAAG
* *
85466913 GATTTATCCTGGACTGGTAATCCTA
1 GATTTAGCCTGGACTGGTAGTCCTA
85466938 TTATACAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
47 1 0.02
48 39 0.62
49 5 0.08
53 5 0.08
54 13 0.21
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (54 bp):
GATTTAGCCTGGACTGGTAGTCCTAATTAAGCTTTGAAGCATACGTTATATAAG
Found at i:85472604 original size:52 final size:52
Alignment explanation
Indices: 85472534--85472641 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
85472524 GAGTCTGAAG
85472534 GAAGCACACGAGCCGTTCTCAAGCACCAGTAGAGGACCTGTTCATGAAGATC
1 GAAGCACACGAGCCGTTCTCAAGCACCAGTAGAGGACCTGTTCATGAAGATC
**
85472586 GAAGCACGGGAGCCGTTCTCAAGCACCAGTAGAGGACCTGTTCATGAAGATC
1 GAAGCACACGAGCCGTTCTCAAGCACCAGTAGAGGACCTGTTCATGAAGATC
85472638 GAAG
1 GAAG
85472642 ATTACAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.17
Consensus pattern (52 bp):
GAAGCACACGAGCCGTTCTCAAGCACCAGTAGAGGACCTGTTCATGAAGATC
Found at i:85472628 original size:25 final size:25
Alignment explanation
Indices: 85472548--85472628 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
85472538 CACACGAGCC
85472548 GTTCTCAAGCACCAGTAGAGGACCT
1 GTTCTCAAGCACCAGTAGAGGACCT
* * *
85472573 GTTCATGAAG-ATC-GAAGCACGGGAGCC-
1 GTTC-TCAAGCACCAGTAG-A--GGA-CCT
85472600 GTTCTCAAGCACCAGTAGAGGACCT
1 GTTCTCAAGCACCAGTAGAGGACCT
85472625 GTTC
1 GTTC
85472629 ATGAAGATCG
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
24 5 0.12
25 14 0.33
26 8 0.19
27 10 0.24
28 5 0.12
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (25 bp):
GTTCTCAAGCACCAGTAGAGGACCT
Found at i:85473000 original size:57 final size:57
Alignment explanation
Indices: 85472931--85473046 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
85472921 TGAGATTGAT
* *
85472931 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATGACCATTCACTGGAGAGGTA
1 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATGACCATTCACAGAAGAGGTA
*
85472988 AGCAGGAATGAGGAGTATAAACTCCTCAAACCACCATGACCATTCACAGAAGAGGTA
1 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATGACCATTCACAGAAGAGGTA
85473045 AG
1 AG
85473047 TCGAGCTTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (57 bp):
AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATGACCATTCACAGAAGAGGTA
Found at i:85473419 original size:55 final size:55
Alignment explanation
Indices: 85473294--85473406 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 55
85473284 TGAGCCTGCC
* ** *
85473294 AAAACAACACAGGCGTGCGACACGCCCGTGTGGAAGAACCGTGGGTGAACCTGTT
1 AAAACAACACGGGCGTTTGACACGCCCGTGTGGAACAACCGTGGGTGAACCTGTT
* *
85473349 AAAACAACACGGGCGTTTGACACGCTCGTGTGGAACACCCGT-GGTCGAACCTGTT
1 AAAACAACACGGGCGTTTGACACGCCCGTGTGGAACAACCGTGGGT-GAACCTGTT
85473404 AAA
1 AAA
85473407 TTAACATGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (55 bp):
AAAACAACACGGGCGTTTGACACGCCCGTGTGGAACAACCGTGGGTGAACCTGTT
Found at i:85476506 original size:141 final size:141
Alignment explanation
Indices: 85476184--85476510 Score: 413
Period size: 141 Copynumber: 2.3 Consensus size: 141
85476174 CCGAATGGAA
** ** * * * ** *
85476184 AATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAACATGAACATGCACATATGTGAGAAAGCCGAATGGAAAATGTGATAAATGTGAAC
* * * *
85476249 ATGTACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACGTGCATATGTGTGATAAG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
**
85476314 GCCGAATGGCC
131 GCAAAATGGCC
* * *
85476325 AATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGAAAATGTGATAAATGTGAAC
1 AATGTGATGAACATGAACATGCACATATGTGAGAAAGCCGAATGGAAAATGTGATAAATGTGAAC
*
85476390 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
66 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
85476455 GCAAAATGGCC
131 GCAAAATGGCC
* * * * *
85476466 AATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGG
1 AATGTGATGAACAT-GAACATGCACATATGTGAGAAAGCCGAATGG
85476511 TTAATGCGAA
Statistics
Matches: 163, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
141 160 0.98
142 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.25
Consensus pattern (141 bp):
AATGTGATGAACATGAACATGCACATATGTGAGAAAGCCGAATGGAAAATGTGATAAATGTGAAC
ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
GCAAAATGGCC
Found at i:85476510 original size:47 final size:47
Alignment explanation
Indices: 85476138--85476476 Score: 480
Period size: 47 Copynumber: 7.2 Consensus size: 47
85476128 TTAGGATTTT
* ** * * * **
85476138 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
85476185 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
85476232 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
85476279 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
85476326 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
85476373 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
85476420 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
85476467 ATGTGATGAA
1 ATGTGATGAA
85476477 CGTGGAAGTG
Statistics
Matches: 260, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 260 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:85476543 original size:46 final size:46
Alignment explanation
Indices: 85476490--85476580 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
85476480 GGAAGTGTAT
* * *
85476490 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
85476536 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
85476581 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:85482578 original size:16 final size:16
Alignment explanation
Indices: 85482557--85482590 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
85482547 AAAATGACTC
85482557 TAACCACAA-TCAAACA
1 TAACCA-AATTCAAACA
85482573 TAACCAAATTCAAACA
1 TAACCAAATTCAAACA
85482589 TA
1 TA
85482591 GAAATTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (16 bp):
TAACCAAATTCAAACA
Found at i:85488602 original size:19 final size:20
Alignment explanation
Indices: 85488570--85488614 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
85488560 TGATTCAACG
85488570 GACA-GAAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
85488589 GACATGAAAA-TCTTGAGAT
1 GACATGAAAACTCTTGACAT
*
85488608 GAAATGA
1 GACATGA
85488615 TAATAACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:85492936 original size:39 final size:39
Alignment explanation
Indices: 85492843--85492994 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
85492833 AGTGTTACAA
* *
85492843 GGTATGGCTCGATTGAGCATACTTTCAATAGAATCCA-TAG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAAT-CAGT-G
* *
85492883 GGTATGACTCAATTGAGCATACTTTCAGTCGAATCAGTG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
*
85492922 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATTAGTG
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
* *
85492961 GGTATGGCTCGATTGAGCATACTTTTAGTAGAAT
1 GGTATGGCTCAATTGAGCATACTTTCAGTAGAAT
85492995 AATATCCCAT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 71 0.70
40 31 0.30
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (39 bp):
GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTG
Found at i:85494617 original size:24 final size:22
Alignment explanation
Indices: 85494575--85494625 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
85494565 AAAAACGGGC
*
85494575 TATTATAATAAATATATATCAAA
1 TATTATAATAAACATATAT-AAA
85494598 -ATTATAATATAACATAATATAAA
1 TATTATAATA-AACAT-ATATAAA
85494621 TATTA
1 TATTA
85494626 CATAGTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.38
23 7 0.29
24 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTATAATAAACATATATAAA
Found at i:85508763 original size:69 final size:69
Alignment explanation
Indices: 85508680--85508817 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
85508670 TGGTTCATTG
85508680 TCAATATACTTTTATATCAACTTGATTACCAATTTTATTTAAAAAAATTGGGCTTAATATTTTTT
1 TCAATATACTTTTATATCAACTTGATTACCAATTTTATTTAAAAAAATTGGGCTTAATATTTTTT
85508745 TTCT
66 TTCT
85508749 TCAATATACTTTTATATCAACTTGATTACCAATTTTATTTAAAAAAATTGGGCTTAATATTTTTT
1 TCAATATACTTTTATATCAACTTGATTACCAATTTTATTTAAAAAAATTGGGCTTAATATTTTTT
85508814 TTCT
66 TTCT
85508818 ATATTTTATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (69 bp):
TCAATATACTTTTATATCAACTTGATTACCAATTTTATTTAAAAAAATTGGGCTTAATATTTTTT
TTCT
Found at i:85511854 original size:20 final size:19
Alignment explanation
Indices: 85511824--85511879 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
85511814 GCAAACTCTT
*
85511824 GATTTCCAAAAGAAAAAAA
1 GATTTTCAAAAGAAAAAAA
*
85511843 GGATTTTGAAAAGACAAAAAA
1 -GATTTTCAAAAGA-AAAAAA
*
85511864 GATTTTCAACAGAAAA
1 GATTTTCAAAAGAAAA
85511880 CTGAGGCGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 22 0.71
21 6 0.19
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (19 bp):
GATTTTCAAAAGAAAAAAA
Found at i:85513464 original size:26 final size:26
Alignment explanation
Indices: 85513435--85513542 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
85513425 TGGTACAAAC
85513435 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
85513461 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85513487 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85513513 TTATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85513539 TGAT
1 TGAT
85513543 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85515244 original size:32 final size:27
Alignment explanation
Indices: 85515162--85515248 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
85515152 AGGAAGCGTC
*
85515162 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
85515189 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
85515216 CTGGTGGCTCTGCCACA-ATATTTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
85515243 CTGGTG
1 CTGGTG
85515249 ACTTCGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 8 0.15
27 46 0.85
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:85516261 original size:17 final size:16
Alignment explanation
Indices: 85516230--85516260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85516220 TGGGTTTACA
85516230 AAAAACAAAGATTTTC
1 AAAAACAAAGATTTTC
*
85516246 AAAAACAAATATTTT
1 AAAAACAAAGATTTT
85516261 TTTGCGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAACAAAGATTTTC
Found at i:85526519 original size:12 final size:12
Alignment explanation
Indices: 85526502--85526529 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85526492 AGGTAATTTG
85526502 ATGACATGAGGT
1 ATGACATGAGGT
85526514 ATGACATGAGGT
1 ATGACATGAGGT
85526526 ATGA
1 ATGA
85526530 TATAATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (12 bp):
ATGACATGAGGT
Found at i:85529014 original size:26 final size:26
Alignment explanation
Indices: 85528985--85529092 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
85528975 TGATACAAAT
*
85528985 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
85529011 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85529037 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85529063 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85529089 TGAT
1 TGAT
85529093 GGAATTTCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85530810 original size:27 final size:27
Alignment explanation
Indices: 85530713--85530817 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
85530703 AAGAAGCGTC
* *
85530713 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
85530740 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
85530767 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
85530794 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
85530818 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.14
27 60 0.86
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:85531232 original size:28 final size:28
Alignment explanation
Indices: 85531192--85531250 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
85531182 GCTTAAGGTA
85531192 TGGTAATGGCGATTTGCAGCTCTAGGAT
1 TGGTAATGGCGATTTGCAGCTCTAGGAT
*
85531220 TGGTAATGGCGATTTGCATCTCTAGGAT
1 TGGTAATGGCGATTTGCAGCTCTAGGAT
85531248 TGG
1 TGG
85531251 ATCCGAAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (28 bp):
TGGTAATGGCGATTTGCAGCTCTAGGAT
Found at i:85531610 original size:5 final size:5
Alignment explanation
Indices: 85531596--85531660 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
85531586 GCAACCCAAT
* *
85531596 TTTTA TTTTTA TTTTT TTTTA TTTTA TTTTTTA TTTTA TTCTT- TATTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA --TTTTA TTTTA TT-TTA TTTTA
* *
85531644 CTTTA ATTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
85531661 ATTTATTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.04
5 34 0.71
6 7 0.15
7 5 0.10
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:85531611 original size:12 final size:12
Alignment explanation
Indices: 85531594--85531677 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 12
85531584 AGGCAACCCA
85531594 ATTTTTATTTTT
1 ATTTTTATTTTT
85531606 A-TTTT-TTTTT
1 ATTTTTATTTTT
85531616 A-TTTTATTTTT
1 ATTTTTATTTTT
85531627 -TATTTTATTCTTT
1 AT-TTTTATT-TTT
*
85531640 ATTACTTTA-ATTT
1 ATT--TTTATTTTT
85531653 A-TTTTATTATTT
1 ATTTTTATT-TTT
85531665 ATTACTTTATTTT
1 ATT--TTTATTTT
85531678 GTTTGGATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
10 14 0.24
11 9 0.16
12 13 0.22
13 9 0.16
14 3 0.05
15 10 0.17
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:85531659 original size:25 final size:25
Alignment explanation
Indices: 85531625--85531673 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
85531615 TATTTTATTT
*
85531625 TTTATTTTATTCTTTATTACTTTAA
1 TTTATTTTATTATTTATTACTTTAA
85531650 TTTATTTTATTATTTATTACTTTA
1 TTTATTTTATTATTTATTACTTTA
85531674 TTTTGTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTATTTATTACTTTAA
Found at i:85531673 original size:8 final size:8
Alignment explanation
Indices: 85531630--85531675 Score: 51
Period size: 7 Copynumber: 5.8 Consensus size: 8
85531620 TATTTTTTAT
85531630 TTTATT-C
1 TTTATTAC
85531637 TTTATTAC
1 TTTATTAC
*
85531645 TTTAATTTAT
1 TTT-A-TTAC
85531655 TTTATTA-
1 TTTATTAC
85531662 TTTATTAC
1 TTTATTAC
85531670 TTTATT
1 TTTATT
85531676 TTGTTTGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 13 0.38
8 13 0.38
9 2 0.06
10 6 0.18
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTATTAC
Found at i:85531688 original size:25 final size:25
Alignment explanation
Indices: 85531625--85531691 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
85531615 TATTTTATTT
* *
85531625 TTTATTTTATTCTTTATTACTTTAA
1 TTTATTTGATTATTTATTACTTTAA
* *
85531650 TTTATTTTATTATTTATTACTTTAT
1 TTTATTTGATTATTTATTACTTTAA
*
85531675 TTTGTTTGGA-TATTTAT
1 TTTATTT-GATTATTTAT
85531692 AAATTTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATTTGATTATTTATTACTTTAA
Found at i:85546243 original size:20 final size:20
Alignment explanation
Indices: 85546195--85546243 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
85546185 CGTGGGGCAC
*
85546195 GCCCGTGTACCCTAATTTTA
1 GCCCGTGTGCCCTAATTTTA
*
85546215 GCCCGTGTGCCCTAATTTTG
1 GCCCGTGTGCCCTAATTTTA
85546235 GCCCGTGTG
1 GCCCGTGTG
85546244 TATCGTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.33
Consensus pattern (20 bp):
GCCCGTGTGCCCTAATTTTA
Found at i:85555151 original size:10 final size:10
Alignment explanation
Indices: 85555132--85555160 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
85555122 GTTATTGTCA
85555132 TTTTTA-TTT
1 TTTTTATTTT
85555141 TTTTTATTTT
1 TTTTTATTTT
85555151 TTTTTATTTT
1 TTTTTATTTT
85555161 GGAAGCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:85556410 original size:46 final size:46
Alignment explanation
Indices: 85556343--85556432 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
85556333 ATATTTACCT
85556343 ATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGGCA
1 ATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGGCA
* *
85556389 ATTGAAGTTTCATTATTACTTCAATCGATATGCTACTATAGAGG
1 ATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGG
85556433 TTATCAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (46 bp):
ATTGAAGTTTCATTACTACTTCAATCGATATACTACTATAGAGGCA
Found at i:85561372 original size:38 final size:38
Alignment explanation
Indices: 85561330--85561418 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
85561320 CTCCGTTCAC
* * *
85561330 CCCTACACACCACG-TGAGGATAATATCAACCCACCTAG
1 CCCTACACACCAAGATGAGGATAA-ATCAACCCACCCAA
85561368 CCCTACACACCAAGTATGAGGATAAATCAACCCACCCAA
1 CCCTACACACCAAG-ATGAGGATAAATCAACCCACCCAA
*
85561407 CCATACACACCA
1 CCCTACACACCA
85561419 TAAGGTACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 13 0.29
39 23 0.51
40 9 0.20
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (38 bp):
CCCTACACACCAAGATGAGGATAAATCAACCCACCCAA
Found at i:85569827 original size:38 final size:38
Alignment explanation
Indices: 85569776--85569851 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
85569766 AACCAACGTG
85569776 GGATTATCCACTTAACATTACCAACACCATGTACTTAA
1 GGATTATCCACTTAACATTACCAACACCATGTACTTAA
85569814 GGATTATCCACTTAACATTACCAACACCATGTACTTAA
1 GGATTATCCACTTAACATTACCAACACCATGTACTTAA
85569852 TAAGTGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (38 bp):
GGATTATCCACTTAACATTACCAACACCATGTACTTAA
Found at i:85573498 original size:30 final size:30
Alignment explanation
Indices: 85573434--85573520 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
85573424 TTTATAAATG
** **
85573434 TATATAATTGAATCAAAATCATAGTTTTTTTA
1 TATATAATTGAA-CAAAATCA-AAATTTGATA
*
85573466 TATATATTTGAAGCAAAAT-AAAATTTGATA
1 TATATAATTGAA-CAAAATCAAAATTTGATA
*
85573496 TATATAATTGCACAAAATCAAAATT
1 TATATAATTGAACAAAATCAAAATT
85573521 CAACATAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 6 0.13
30 22 0.48
31 1 0.02
32 17 0.37
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (30 bp):
TATATAATTGAACAAAATCAAAATTTGATA
Found at i:85580002 original size:13 final size:13
Alignment explanation
Indices: 85579986--85580015 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
85579976 ATTATATAGA
85579986 ATTAATTTATTAT
1 ATTAATTTATTAT
85579999 ATTAATTTATTAT
1 ATTAATTTATTAT
85580012 ATTA
1 ATTA
85580016 TTCTTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTAATTTATTAT
Found at i:85592888 original size:46 final size:46
Alignment explanation
Indices: 85592821--85592929 Score: 182
Period size: 46 Copynumber: 2.3 Consensus size: 46
85592811 AATAGAGGTT
85592821 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
*
85592867 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTTAGTTGTTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
* *
85592913 TTACTCTCGAAAGAGAT
1 TTAAT-TAGAAAGAGAT
85592930 ATTACCATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
46 49 0.83
47 10 0.17
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (46 bp):
TTAATTAGAAAGAGATTTCAATTAATCAACCTAGAGTCAGTTGTTC
Found at i:85596123 original size:21 final size:21
Alignment explanation
Indices: 85596084--85596123 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85596074 ATTTCGGTGC
*
85596084 CAAAAACCCACTTCCAAAACA
1 CAAAAACCCACTTCAAAAACA
85596105 CAAAAACCGCACTT-AAAAA
1 CAAAAACC-CACTTCAAAAA
85596124 TCAACAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.55, C:0.33, G:0.03, T:0.10
Consensus pattern (21 bp):
CAAAAACCCACTTCAAAAACA
Found at i:85597645 original size:5 final size:5
Alignment explanation
Indices: 85597635--85597668 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
85597625 ATTGAGTCTA
85597635 TTTAT TTTAT TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
85597669 CCCCTTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:85612821 original size:19 final size:19
Alignment explanation
Indices: 85612781--85612823 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
85612771 GTCTCTTTAG
* *
85612781 GCATTCATTTCATGCATTT
1 GCATTCATTGCATGCATAT
85612800 GCATTGCATTGCAT-CATAT
1 GCATT-CATTGCATGCATAT
85612819 GCATT
1 GCATT
85612824 AGATTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (19 bp):
GCATTCATTGCATGCATAT
Found at i:85617239 original size:44 final size:44
Alignment explanation
Indices: 85617191--85617327 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 44
85617181 AGACATAAAC
85617191 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
85617235 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
* *
85617279 CTTGCCTCTGTCGGTTGTGATAGAGCTGGTT-AA-AGAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
85617321 CTTGCCT
1 CTTGCCT
85617328 TCCTACATTG
Statistics
Matches: 63, Mismatches: 26, Indels: 10
0.64 0.26 0.10
Matches are distributed among these distances:
41 4 0.06
42 10 0.16
43 8 0.13
44 23 0.37
45 18 0.29
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:85617293 original size:88 final size:86
Alignment explanation
Indices: 85617143--85617350 Score: 335
Period size: 88 Copynumber: 2.4 Consensus size: 86
85617133 ATGAAGTTAC
* * * * * *
85617143 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGGTTG
85617208 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTT-AA-ACAAA
85617231 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGGTTG
*
85617296 TGATAGAGCTGGTTAAAGAAA
66 TGATAGAGCTGGTTAAACAAA
85617317 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGA
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGA
85617351 ACATGAAATA
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
86 38 0.34
87 2 0.02
88 73 0.65
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (86 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTGTCGGTTG
TGATAGAGCTGGTTAAACAAA
Found at i:85622375 original size:86 final size:86
Alignment explanation
Indices: 85622230--85623169 Score: 1731
Period size: 86 Copynumber: 10.9 Consensus size: 86
85622220 ACAGCAGGAA
85622230 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622295 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622316 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622381 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622402 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622467 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622488 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622553 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622574 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622639 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622660 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622725 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622746 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622811 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622832 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622897 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85622918 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
85622983 AGAGCTGGTTAAAGAAAAGAT
66 AGAGCTGGTTAAAGAAAAGAT
85623004 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
* *
85623069 GGAGCTGGTTGAAGAAGAAGAT
66 AGAGCTGGTTAAAGAA-AAGAT
* * * * * * ** *
85623091 CTTGCCTTCCTGCATTAACAACAAAGCAGATC-AAAAAACAAAGCCTTGCCTCCATCGGTTG-CA
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTTGTGA
*
85623154 TTGGAGCTGGTTAAAG
65 -TAGAGCTGGTTAAAG
85623170 GTTACAGATT
Statistics
Matches: 839, Mismatches: 12, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
86 776 0.92
87 63 0.08
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (86 bp):
CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGTGAT
AGAGCTGGTTAAAGAAAAGAT
Found at i:85623498 original size:41 final size:41
Alignment explanation
Indices: 85623438--85623621 Score: 113
Period size: 41 Copynumber: 4.4 Consensus size: 41
85623428 AAATAAATTA
* * *
85623438 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGG
* * **
85623479 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAG-AT-ATAA
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATC---GCATCA-GG
* ** * *** *
85623522 TCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGCAGA-TCGCAT-CAGG
* * *
85623564 ATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGG
1 -TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGG
*
85623606 TCTTATTTCCCTGAAG
1 TCTTATCTCCCTGAAG
85623622 ATGCAGTGGA
Statistics
Matches: 104, Mismatches: 29, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
41 43 0.41
42 19 0.18
43 28 0.27
44 14 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGG
Found at i:85623568 original size:127 final size:128
Alignment explanation
Indices: 85623350--85623619 Score: 400
Period size: 127 Copynumber: 2.1 Consensus size: 128
85623340 AAGCCAGAAA
** *
85623350 TCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGTCGATAATTCAATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAAATCAAAGTC-ATAATCCAATCTCCCTGAAGTTACA
** *
85623415 GTGGAGCAGATTAAAATAAATTATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
65 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
* * *
85623479 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGAT-ATAATCCTATCTCCCT-AAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAAATCAAAG-TCATAATCCAATCTCCCTGAAGTTACA
* *
85623542 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGG
65 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
*
85623606 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
85623620 AGATGCAGTG
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 80 0.62
128 14 0.11
129 33 0.26
130 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAAATCAAAGTCATAATCCAATCTCCCTGAAGTTACAG
TGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
Found at i:85630138 original size:52 final size:52
Alignment explanation
Indices: 85630064--85630250 Score: 275
Period size: 52 Copynumber: 3.6 Consensus size: 52
85630054 CCATGGAAAC
* * * *
85630064 ATGTGATATGTGCTTCCGTATAAGACCATAGCAGGGCGATGGAATCGGTGTG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
85630116 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
* * * *
85630168 ATGTGATATGTGTTCCCGTATAAGACCATAATAGGGTTATGGCATCGGTGAG
1 ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
* *
85630220 ATGTGACTATATGCTTCCGTATAAGACCATA
1 ATGTGA-TATGTGCTCCCGTATAAGACCATA
85630251 TCTAAGATAT
Statistics
Matches: 123, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 102 0.83
53 21 0.17
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCTCCCGTATAAGACCATAACAGGGCTATGGCATCGGTGTG
Found at i:85644267 original size:45 final size:45
Alignment explanation
Indices: 85644139--85644270 Score: 169
Period size: 45 Copynumber: 2.9 Consensus size: 45
85644129 ACTATACACC
* * *
85644139 AAGTTGAGTAAGACTATAGCTGAAAGAA-GCTATGGCATCATGATA
1 AAGTTGAGTAAGACCATAGCTGAAA-AATGCTATGACATTATGATA
* * *
85644184 AAGATGAGTAAGACCATAGCTGAAAGATTCTATGACATTATGATA
1 AAGTTGAGTAAGACCATAGCTGAAAAATGCTATGACATTATGATA
*
85644229 GAA-TTGAGTAAGGCCATAGCTGAAAAATGCTATGACATTATG
1 -AAGTTGAGTAAGACCATAGCTGAAAAATGCTATGACATTATG
85644271 TGAAAGTATG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 72 0.96
46 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGTTGAGTAAGACCATAGCTGAAAAATGCTATGACATTATGATA
Found at i:85649247 original size:27 final size:28
Alignment explanation
Indices: 85649210--85649347 Score: 171
Period size: 27 Copynumber: 5.1 Consensus size: 28
85649200 AGCATGGCTG
* *
85649210 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
85649236 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
85649264 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
85649291 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
85649318 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
85649345 CCA
1 CCA
85649348 AAACGCTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 80 0.78
28 17 0.17
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:85651004 original size:26 final size:26
Alignment explanation
Indices: 85650968--85651067 Score: 157
Period size: 26 Copynumber: 3.8 Consensus size: 26
85650958 CATGAAATTC
85650968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
85650994 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
* *
85651020 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85651046 TTATCATTG-AACATTTACCTAA
1 TTATCA-TGAAACATTTACCTAA
85651068 ATGGATATCA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 67 0.97
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85656148 original size:22 final size:22
Alignment explanation
Indices: 85656119--85656178 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
85656109 CTAGAACATT
* *
85656119 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTAACA-ATTC
*
85656142 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAACAATTC
85656163 AGTGCTCTCTGTTTAA
1 AGTGCTCTCTGTTTAA
85656179 TAGTTCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAACAATTC
Found at i:85656185 original size:22 final size:21
Alignment explanation
Indices: 85656119--85656185 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
85656109 CTAGAACATT
*
85656119 AGTGCTCTCTATTTAGCATATTC
1 AGTGCTCTCTGTTTA--ATATTC
*
85656142 -GTGCTCTCTGTTTAACACTTC
1 AGTGCTCTCTGTTTAATA-TTC
85656163 AGTGCTCTCTGTTTAATAGTTC
1 AGTGCTCTCTGTTTAATA-TTC
85656185 A
1 A
85656186 TAATAATGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 33 0.87
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (21 bp):
AGTGCTCTCTGTTTAATATTC
Found at i:85656903 original size:33 final size:34
Alignment explanation
Indices: 85656860--85656931 Score: 128
Period size: 33 Copynumber: 2.1 Consensus size: 34
85656850 GGGACACTTG
*
85656860 GTTAATGAGAAAACAAAACGACAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
85656894 -TTAATGAGAAAACAAAACGAAAGTTTAACATAT
1 GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
85656927 GTTAA
1 GTTAA
85656932 CTTAAGCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (34 bp):
GTTAATGAGAAAACAAAACGAAAGTTTAACATAT
Found at i:85668314 original size:13 final size:13
Alignment explanation
Indices: 85668296--85668320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85668286 CTTACTCCAC
85668296 ATGTAAAAAAATT
1 ATGTAAAAAAATT
85668309 ATGTAAAAAAAT
1 ATGTAAAAAAAT
85668321 GGGGTAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
ATGTAAAAAAATT
Found at i:85681624 original size:44 final size:44
Alignment explanation
Indices: 85681561--85681651 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
85681551 TAATTGTAAT
* * * *
85681561 TTAAATTCTAATTCTTTTTAAATGTGTAATTAGT-ACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTA-TAACAACTTCTA
*
85681605 TTAAATTATAGTTATTTTTAAATGTATAATTATAACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
85681649 TTA
1 TTA
85681652 TATTTCAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATAACAACTTCTA
Found at i:85682535 original size:11 final size:11
Alignment explanation
Indices: 85682519--85682551 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
85682509 AATAAACTTT
85682519 GTAATTTTATA
1 GTAATTTTATA
85682530 GTAATTTTATA
1 GTAATTTTATA
*
85682541 ATAATTTTATA
1 GTAATTTTATA
85682552 TTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
GTAATTTTATA
Found at i:85682924 original size:3 final size:3
Alignment explanation
Indices: 85682916--85682945 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
85682906 GGGTTTATAC
85682916 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
85682946 GAAAAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:85684879 original size:16 final size:17
Alignment explanation
Indices: 85684848--85684880 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85684838 TTCATAAGTA
85684848 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
85684865 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
85684881 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:85685226 original size:46 final size:46
Alignment explanation
Indices: 85685166--85685286 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
85685156 TTTGACATGA
* * * **
85685166 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACAT
* *
85685212 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACAT
85685258 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
85685287 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 4 0.06
46 63 0.94
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACAT
Found at i:85687766 original size:26 final size:26
Alignment explanation
Indices: 85687737--85687815 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 26
85687727 ATATTACATT
**
85687737 TATTTATAAAATTTTTAAAA-AATGTA
1 TATTTATAAAA-TAATAAAATAATGTA
*
85687763 TATTAAT-AAATAATAAAATAATGTA
1 TATTTATAAAATAATAAAATAATGTA
*
85687788 TACTTTATAATAA-AATAAAGGTAATGTA
1 TA-TTTATAA-AATAATAAA-ATAATGTA
85687816 AGGAAGTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.14
25 11 0.26
26 10 0.23
27 7 0.16
28 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.39
Consensus pattern (26 bp):
TATTTATAAAATAATAAAATAATGTA
Found at i:85687851 original size:5 final size:5
Alignment explanation
Indices: 85687843--85687933 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
85687833 ATATATAGTG
* * *
85687843 TATAA TATAA TTTACA AATAA -A-AA TAT-A TAGTAA TATAA -ATTA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA
* *
85687891 TATAA TATAA -AAATA TATAA TATAA TGT-A TATAA TATAA TATA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATA
85687934 TAAAAAAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 13 0.19
5 45 0.66
6 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:85687933 original size:12 final size:12
Alignment explanation
Indices: 85687868--85688126 Score: 67
Period size: 12 Copynumber: 20.8 Consensus size: 12
85687858 AAATAAAAAT
85687868 ATATAGTAATATAA
1 ATATA-TAATAT-A
85687882 ATTATATAATAT-
1 A-TATATAATATA
85687894 A-ATATAA-A-A
1 ATATATAATATA
85687903 ATATATAATATA
1 ATATATAATATA
85687915 ATGTATATAATATA
1 A--TATATAATATA
85687929 ATATATAA-A-A
1 ATATATAATATA
* *
85687939 AAAGTATTATGATA
1 ATA-TATAAT-ATA
*
85687953 GATAGTAAAATATA
1 -ATA-TATAATATA
*
85687967 ATATGTAATA-A
1 ATATATAATATA
*
85687978 AAATTCATAA-ATAA
1 ATA-T-ATAATAT-A
85687992 ATATAATGAAATATA
1 ATAT-AT--AATATA
*
85688007 ATATAAAATAT-
1 ATATATAATATA
*
85688018 GTATACTAATAATA
1 ATATA-TAAT-ATA
* *
85688032 ATAATGTAACA-A
1 AT-ATATAATATA
*
85688044 ATATTTTACATATAA
1 ATA-TATA-ATAT-A
*
85688059 AAATATAATGA-A
1 ATATATAAT-ATA
*
85688071 ATAAATAATATA
1 ATATATAATATA
* *
85688083 ATAAAGATATATA
1 ATATATA-ATATA
* *
85688096 ACATATAATAAA
1 ATATATAATATA
*
85688108 ATTTAT-ATAT-
1 ATATATAATATA
85688118 ATATATAAT
1 ATATATAAT
85688127 GTTACAAATA
Statistics
Matches: 182, Mismatches: 32, Indels: 65
0.65 0.11 0.23
Matches are distributed among these distances:
9 2 0.01
10 20 0.11
11 20 0.11
12 54 0.30
13 26 0.14
14 35 0.19
15 23 0.13
16 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (12 bp):
ATATATAATATA
Found at i:85687940 original size:37 final size:36
Alignment explanation
Indices: 85687860--85687939 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
85687850 TAATTTACAA
85687860 ATAAAAATATATAGTAATATAAATTATATAATATAAT
1 ATAAAAA-ATATAGTAATATAAATTATATAATATAAT
85687897 AT-AAAAATATA-TAATAT-AATGTATATAATATAAT
1 ATAAAAAATATAGTAATATAAAT-TATATAATATAAT
85687931 ATATAAAAA
1 ATA-AAAAA
85687940 AAGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 3 0.08
34 21 0.52
35 5 0.12
36 9 0.22
37 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAAAAAATATAGTAATATAAATTATATAATATAAT
Found at i:85689929 original size:173 final size:173
Alignment explanation
Indices: 85689640--85689962 Score: 646
Period size: 173 Copynumber: 1.9 Consensus size: 173
85689630 CAAATGGTCT
85689640 GGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCT
1 GGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCT
85689705 GCTCTCCATCGAAATGGAGATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAA
66 GCTCTCCATCGAAATGGAGATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAA
85689770 GGCCAGATCTGCTATGCTTTTGATTTGTCCCTTGTAAACACAA
131 GGCCAGATCTGCTATGCTTTTGATTTGTCCCTTGTAAACACAA
85689813 GGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCT
1 GGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCT
85689878 GCTCTCCATCGAAATGGAGATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAA
66 GCTCTCCATCGAAATGGAGATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAA
85689943 GGCCAGATCTGCTATGCTTT
131 GGCCAGATCTGCTATGCTTT
85689963 GGTCTGGTAC
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 150 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (173 bp):
GGATGCCAAATCATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCT
GCTCTCCATCGAAATGGAGATGTCAGATCTGTTATCTTGGATCTGCTTTAGTGTAAACACGTGAA
GGCCAGATCTGCTATGCTTTTGATTTGTCCCTTGTAAACACAA
Found at i:85689943 original size:86 final size:86
Alignment explanation
Indices: 85689652--85689958 Score: 317
Period size: 86 Copynumber: 3.6 Consensus size: 86
85689642 ATGCCAAATC
**
85689652 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGA
85689717 AATGGAGATGTCAGATCTGTT
66 AATGGAGATGTCAGATCTGTT
* * * *
85689738 ATCTTGGATCTGCTTTAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATGCT-TTTGATTTGTCC
1 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGCCAGATCTGCTATG-TATCTG--CTCTCC
* * *** * *
85689800 CTTGTAAACACAAGGATGCCAAATC----
61 ATCG-AAA-TGGA-GATGTCAGATCTGTT
**
85689825 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGA
85689890 AATGGAGATGTCAGATCTGTT
66 AATGGAGATGTCAGATCTGTT
*
85689911 ATCTTGGATCTGCTTTAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGCCAGATCTGCTATG
85689959 CTTTGGTCTG
Statistics
Matches: 175, Mismatches: 29, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
82 9 0.05
83 1 0.01
84 3 0.02
85 8 0.05
86 85 0.49
87 49 0.28
88 7 0.04
89 3 0.02
90 1 0.01
91 9 0.05
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (86 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGA
AATGGAGATGTCAGATCTGTT
Found at i:85701953 original size:5 final size:5
Alignment explanation
Indices: 85701945--85702035 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
85701935 ATATATAGTG
* * *
85701945 TATAA TATAA TTTACA AATAA -A-AA TAT-A TAGTAA TATAA -ATTA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA
* *
85701993 TATAA TATAA -AAATA TATAA TATAA TGT-A TATAA TATAA TATA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATA
85702036 TAAAAAAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 13 0.19
5 45 0.66
6 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:85702042 original size:37 final size:36
Alignment explanation
Indices: 85701962--85702041 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
85701952 TAATTTACAA
85701962 ATAAAAATATATAGTAATATAAATTATATAATATAAT
1 ATAAAAA-ATATAGTAATATAAATTATATAATATAAT
85701999 AT-AAAAATATA-TAATAT-AATGTATATAATATAAT
1 ATAAAAAATATAGTAATATAAAT-TATATAATATAAT
85702033 ATATAAAAA
1 ATA-AAAAA
85702042 AAGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 3 0.08
34 21 0.52
35 5 0.12
36 9 0.22
37 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAAAAAATATAGTAATATAAATTATATAATATAAT
Found at i:85709411 original size:30 final size:31
Alignment explanation
Indices: 85709370--85709429 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
85709360 ATAAAAATAA
*
85709370 TAAAATTTATT-AAATTTATAAAAATATATT
1 TAAAATTTATTAAAAATTATAAAAATATATT
*
85709400 TAAATTTTATTAAAAATTATAAAAATATAT
1 TAAAATTTATTAAAAATTATAAAAATATAT
85709430 AAAAATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TAAAATTTATTAAAAATTATAAAAATATATT
Found at i:85709425 original size:21 final size:21
Alignment explanation
Indices: 85709384--85709445 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
85709374 ATTTATTAAA
**
85709384 TTTATAAAAATATATTTAAAT
1 TTTATAAAAATATATAAAAAT
85709405 TTTATTAAAAAT-TATAAAAA-
1 TTTA-TAAAAATATATAAAAAT
* *
85709425 TATATAAAAATAGTAAAAAAA
1 TTTATAAAAATA-TATAAAAA
85709446 CGTAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 3 0.09
21 17 0.50
22 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TTTATAAAAATATATAAAAAT
Found at i:85709444 original size:10 final size:10
Alignment explanation
Indices: 85709353--85709436 Score: 59
Period size: 10 Copynumber: 8.6 Consensus size: 10
85709343 TAAAAATGAT
*
85709353 AAAATAAATA
1 AAAATATATA
85709363 AAAATA-AT-
1 AAAATATATA
*
85709371 AAAATTTAT-
1 AAAATATATA
* *
85709380 TAAATTTATA
1 AAAATATATA
*
85709390 AAAATATATTT
1 AAAATATA-TA
* *
85709401 AAATTTTATTA
1 AAAATATA-TA
85709412 AAAAT-TATA
1 AAAATATATA
85709421 AAAATATATA
1 AAAATATATA
85709431 AAAATA
1 AAAATA
85709437 GTAAAAAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
8 5 0.08
9 19 0.31
10 24 0.39
11 13 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATATATA
Found at i:85714594 original size:5 final size:5
Alignment explanation
Indices: 85714584--85714612 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
85714574 AAATGAGAAT
85714584 GGGAG GGGAG GGGAG GGGAG GGGAG GGGA
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGA
85714613 TAATTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:85721051 original size:21 final size:20
Alignment explanation
Indices: 85721010--85721054 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
85721000 TTAGAAATCC
*
85721010 TAAAAAATTATATTATATTA
1 TAAAAAATTATATCATATTA
* *
85721030 TAAAAAATTATGTACATTTTA
1 TAAAAAATTATAT-CATATTA
85721051 TAAA
1 TAAA
85721055 GTTATAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAAAAATTATATCATATTA
Found at i:85721077 original size:31 final size:31
Alignment explanation
Indices: 85721042--85721103 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
85721032 AAAAATTATG
*
85721042 TACATTTTATAAAGTTATAAGAAAACTCTTA
1 TACATTTTATAAAGTTATAAGAAAAATCTTA
85721073 TACATTTTATAAAGTTATAAGAAAAATCTTA
1 TACATTTTATAAAGTTATAAGAAAAATCTTA
85721104 CTTAAATCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (31 bp):
TACATTTTATAAAGTTATAAGAAAAATCTTA
Found at i:85721423 original size:16 final size:14
Alignment explanation
Indices: 85721402--85721435 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
85721392 ATAAAACATT
85721402 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
85721418 TTATAAATTTTATA
1 TTATAAATTTTATA
85721432 TTAT
1 TTAT
85721436 TTTTTTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:85723593 original size:103 final size:103
Alignment explanation
Indices: 85723414--85723641 Score: 422
Period size: 103 Copynumber: 2.2 Consensus size: 103
85723404 GGGCGTTACA
85723414 AAGAAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGACAATGGA
1 AAGAAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGACAATGGA
85723479 GCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGC
66 GCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGC
85723517 AAGAAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGACAATGGA
1 AAGAAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGACAATGGA
85723582 GCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGC
66 GCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGC
* *
85723620 AAGAGAGCA-AGTTGAAGATTGA
1 AAGAAAGCAGA-CTGAAGATTGA
85723642 GTCTTATCTT
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
102 1 0.01
103 121 0.99
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (103 bp):
AAGAAAGCAGACTGAAGATTGAAGATTGGAAGAGGCAAATCTTATCTCTATGTATCGACAATGGA
GCAGATTTAAACCTCAAGCCTTATCTCTCTGAGGTAGC
Found at i:85723679 original size:43 final size:43
Alignment explanation
Indices: 85723601--85723696 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
85723591 AACCTCAAGC
* *
85723601 CTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
* *
85723644 CTTATCTTTCTGAGGTAGCAAGAAAGC-AGACTGAAGATTAAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAAG-CTGAAGATT-GAG-T
85723689 CTTATCTC
1 CTTATCTC
85723697 CCTAAGCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 2 0.04
43 33 0.73
44 2 0.04
45 8 0.18
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAAGCTGAAGATTGAGT
Found at i:85723877 original size:176 final size:174
Alignment explanation
Indices: 85723545--85723941 Score: 521
Period size: 176 Copynumber: 2.3 Consensus size: 174
85723535 TTGAAGATTG
* * * *
85723545 GAAGA-GGCAAATCTTATCTCTATGTATCGACAATGGAGCAGATTTAAACCTCAAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTC
*
85723609 TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGA
66 TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGA
85723674 CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATC
131 CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAAC--ATC
* * * * *
85723720 GAAGATGGCGAGTCTTATCTCCATGTATCGATAATGGAACAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTC
* * * *
85723785 TCTGAGGTAGCAAGAGAGTAGGTTGGCA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGAAAGTA
66 TCTGAGGTAGCAAGAGAGCAAGTT-GAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGAAAGCA
* * * * * *
85723849 GACTGAAGATTGAAGAT-TTATTTCCCTAAGTAGTTGTGGAGCATC
129 GACTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACATC
* * * *
85723894 GAGGCTGGCGAATCTTATCTCCATGTATTGGCAATGGAACAGATTTAA
1 GAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAACAGATTTAA
85723942 GTCACCAAGC
Statistics
Matches: 192, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
174 44 0.23
175 5 0.03
176 96 0.50
177 47 0.24
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (174 bp):
GAAGATGGCGAATCTTATCTCCATGTATCGACAATGGAACAGATTTAAACCACAAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAAGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGA
CTGAAGATTAAAGATCTTATCTCCCTAAGCAGTAGCGGAACATC
Found at i:85725712 original size:31 final size:32
Alignment explanation
Indices: 85725640--85725712 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
85725630 ATGTTATTTT
* *
85725640 ATACAT-ATATATATTTTTTTAAATCTACTTGT
1 ATACATAAT-TATTTTTTTTTAAATCTACTTGC
*
85725672 ATACGTAATTATTTTTTTTTAAATCTA-TTGC
1 ATACATAATTATTTTTTTTTAAATCTACTTGC
*
85725703 ATATATAATT
1 ATACATAATT
85725713 TATGATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 11 0.31
32 22 0.63
33 2 0.06
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (32 bp):
ATACATAATTATTTTTTTTTAAATCTACTTGC
Found at i:85729812 original size:21 final size:21
Alignment explanation
Indices: 85729787--85729833 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
85729777 ACAAAATGGT
*
85729787 TTTTTCATGTAAAAAT-TAAAG
1 TTTTTCATATAAAAATCT-AAG
*
85729808 TTTTTCTTATAAAAATCTAAG
1 TTTTTCATATAAAAATCTAAG
85729829 TTTTT
1 TTTTT
85729834 TTCTGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTCATATAAAAATCTAAG
Found at i:85733903 original size:124 final size:125
Alignment explanation
Indices: 85733756--85733981 Score: 366
Period size: 124 Copynumber: 1.8 Consensus size: 125
85733746 TATTCATTAT
* *
85733756 TTAATCTATTTTTTATTTTAATATTGTACATAT-TTAATGTGTTATTATGATTAATTAGTTTCAA
1 TTAATCTATTTTTTATTTTAATATCGTACATATATT-ATGTGTTATTATGATTAATTAATTTCAA
**
85733820 ACCATACGGTTCATTAATTATTGTATGTTATTTTTAAATAAAAATCTATAATCATATATAA
65 ACCATACGGTTCATTAATTATTACATGTTATTTTTAAATAAAAATCTATAATCATATATAA
85733881 TTAATCTA-TTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCAAA
1 TTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCAAA
* * *
85733945 CTATATGTTTCATTAATTATTACATGTTATTTTTAAA
66 CCATACGGTTCATTAATTATTACATGTTATTTTTAAA
85733982 CATACATCTG
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
124 83 0.89
125 10 0.11
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (125 bp):
TTAATCTATTTTTTATTTTAATATCGTACATATATTATGTGTTATTATGATTAATTAATTTCAAA
CCATACGGTTCATTAATTATTACATGTTATTTTTAAATAAAAATCTATAATCATATATAA
Found at i:85740519 original size:9 final size:9
Alignment explanation
Indices: 85740505--85740535 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
85740495 GAGTCAACTG
85740505 TTAAATTTT
1 TTAAATTTT
85740514 TTAAATTTTT
1 TTAAA-TTTT
85740524 TTAAATTTT
1 TTAAATTTT
85740533 TTA
1 TTA
85740536 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTAAATTTT
Found at i:85740525 original size:10 final size:10
Alignment explanation
Indices: 85740505--85740534 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
85740495 GAGTCAACTG
85740505 TTAAA-TTTT
1 TTAAATTTTT
85740514 TTAAATTTTT
1 TTAAATTTTT
85740524 TTAAATTTTT
1 TTAAATTTTT
85740534 T
1 T
85740535 ATTTAATTAA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTAAATTTTT
Found at i:85744296 original size:10 final size:10
Alignment explanation
Indices: 85744283--85744315 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
85744273 AGCTGAATTT
85744283 TTTTATAAAA
1 TTTTATAAAA
85744293 TTTTATAAAA
1 TTTTATAAAA
85744303 TTTT-TAATAA
1 TTTTATAA-AA
85744313 TTT
1 TTT
85744316 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:85754336 original size:45 final size:45
Alignment explanation
Indices: 85754245--85754361 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 45
85754235 CCGGTATTTC
* * * * *
85754245 GCCTGCTAGGCTCGAA-G-CCTAATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGACATCATA
85754288 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
85754333 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
85754362 CTGTACGATA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 15 0.23
44 1 0.02
45 49 0.74
46 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
Found at i:85764343 original size:10 final size:10
Alignment explanation
Indices: 85764328--85764418 Score: 67
Period size: 9 Copynumber: 10.0 Consensus size: 10
85764318 TATTTTACAT
85764328 ATAAAATATA
1 ATAAAATATA
85764338 ATAAAATA-A
1 ATAAAATATA
85764347 ATAAAA-ATA
1 ATAAAATATA
85764356 A-AAAATA-A
1 ATAAAATATA
85764364 ATAAAA-AT-
1 ATAAAATATA
85764372 A-AAAATA-A
1 ATAAAATATA
* *
85764380 A-AAAACAGA
1 ATAAAATATA
*
85764389 AT-ATATATA
1 ATAAAATATA
*
85764398 TATAAAATAAA
1 -ATAAAATATA
85764409 ATAAAATATA
1 ATAAAATATA
85764419 TAATAAAAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
7 4 0.06
8 16 0.25
9 20 0.31
10 19 0.30
11 5 0.08
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (10 bp):
ATAAAATATA
Found at i:85764345 original size:5 final size:5
Alignment explanation
Indices: 85764328--85764426 Score: 58
Period size: 5 Copynumber: 18.2 Consensus size: 5
85764318 TATTTTACAT
* *
85764328 ATAAA ATATA ATAAA AT-AA ATAAAA ATAAA AAATAA ATAAAA ATAAAA
1 ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATA-AA AT-AAA AT-AAA
* *
85764376 ATAAA A-AAA CAGAATA TATATAT ATAAA ATAAA ATAAA ATATATA ATAAA
1 ATAAA ATAAA -ATAA-A -ATA-AA ATAAA ATAAA ATAAA ATA-A-A ATAAA
85764426 A
1 A
85764427 GATTTTTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 7 0.09
5 36 0.47
6 24 0.32
7 8 0.11
8 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:85764356 original size:6 final size:6
Alignment explanation
Indices: 85764345--85764382 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
85764335 ATAATAAAAT
*
85764345 AAATAA AAATAA AAA-AT AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
85764383 AACAGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:85764362 original size:17 final size:17
Alignment explanation
Indices: 85764328--85764384 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
85764318 TATTTTACAT
85764328 ATAAAATATAATAAAATAA
1 ATAAAA-ATAA-AAAATAA
85764347 ATAAAAATAAAAAATAA
1 ATAAAAATAAAAAATAA
85764364 ATAAAAAT-AAAAATAA
1 ATAAAAATAAAAAATAA
85764380 A-AAAA
1 ATAAAA
85764385 CAGAATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.11
16 9 0.24
17 15 0.39
18 4 0.11
19 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
ATAAAAATAAAAAATAA
Found at i:85764375 original size:23 final size:22
Alignment explanation
Indices: 85764337--85764383 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
85764327 TATAAAATAT
*
85764337 AATAAAATAAATAAAAATAAAA
1 AATAAAAAAAATAAAAATAAAA
85764359 AATAAATAAAAATAAAAATAAAA
1 AATAAA-AAAAATAAAAATAAAA
85764382 AA
1 AA
85764384 ACAGAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (22 bp):
AATAAAAAAAATAAAAATAAAA
Found at i:85764402 original size:23 final size:22
Alignment explanation
Indices: 85764333--85764426 Score: 69
Period size: 23 Copynumber: 4.5 Consensus size: 22
85764323 TACATATAAA
*
85764333 ATATAATAAAAT-AAA-TAAA-
1 ATATAATAAAATAAAAGAAAAT
85764352 A-ATAA-AAAATAAATA-AAAAT
1 ATATAATAAAATAAA-AGAAAAT
* *
85764372 A-AAAATAAAA-AAACAGAATAT
1 ATATAATAAAATAAA-AGAAAAT
*
85764393 ATATATATAAAATAAAATAAAAT
1 ATATA-ATAAAATAAAAGAAAAT
85764416 ATATAATAAAA
1 ATATAATAAAA
85764427 GATTTTTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 5 0.08
18 6 0.10
19 5 0.08
20 8 0.13
21 9 0.15
22 8 0.13
23 16 0.27
24 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (22 bp):
ATATAATAAAATAAAAGAAAAT
Found at i:85776310 original size:20 final size:21
Alignment explanation
Indices: 85776285--85776334 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
85776275 GCTTGCACAG
85776285 GTTTGCACTTTGATGCC-TTT
1 GTTTGCACTTTGATGCCTTTT
*
85776305 GTTTGCACTTTGGTGCCTTTT
1 GTTTGCACTTTGATGCCTTTT
*
85776326 GTTTTCACT
1 GTTTGCACT
85776335 ACTGTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.52
Consensus pattern (21 bp):
GTTTGCACTTTGATGCCTTTT
Found at i:85779688 original size:12 final size:12
Alignment explanation
Indices: 85779671--85779695 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85779661 TTGTGTGTTC
85779671 TTTATTTTATTT
1 TTTATTTTATTT
85779683 TTTATTTTATTT
1 TTTATTTTATTT
85779695 T
1 T
85779696 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:85780095 original size:26 final size:26
Alignment explanation
Indices: 85780058--85780216 Score: 291
Period size: 26 Copynumber: 6.1 Consensus size: 26
85780048 TGATACAAAT
*
85780058 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85780084 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85780110 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85780136 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85780162 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85780188 TGATAATGGCTTAGGAAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85780214 TGA
1 TGA
85780217 CGGGCATTTC
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85803801 original size:894 final size:894
Alignment explanation
Indices: 85802085--85803874 Score: 3580
Period size: 894 Copynumber: 2.0 Consensus size: 894
85802075 TTATACAACT
85802085 CAGACATAATAGATTCCAAATAACTCAGATTCAACCATTTCCTAACTCAGACAAACTTGAATTGA
1 CAGACATAATAGATTCCAAATAACTCAGATTCAACCATTTCCTAACTCAGACAAACTTGAATTGA
85802150 CAATTTCTTATGTCTTTCATAACCATGAATACACCTATTTTCAAAACAAACAAATTGTCAGGGTG
66 CAATTTCTTATGTCTTTCATAACCATGAATACACCTATTTTCAAAACAAACAAATTGTCAGGGTG
85802215 GATATCCTTTTTAACTTACAGATACACACTTCTTTTCAGAACTTCCTTATCTAATTCAACCAAAT
131 GATATCCTTTTTAACTTACAGATACACACTTCTTTTCAGAACTTCCTTATCTAATTCAACCAAAT
85802280 TAACCTTAGATATTCCATGACCTTATCATAGAAGTATCTATCATAGAACAATCAGAAACTACCAA
196 TAACCTTAGATATTCCATGACCTTATCATAGAAGTATCTATCATAGAACAATCAGAAACTACCAA
85802345 AAGGATGGATAAGCATACCTTGCCAAACAGATTTAGTAGAGTGCGTCATAAGGGCCAAACAGAAT
261 AAGGATGGATAAGCATACCTTGCCAAACAGATTTAGTAGAGTGCGTCATAAGGGCCAAACAGAAT
85802410 ACGCCATAAAGGCATCATACAGATTCATGTGTTTATTATCCCAGCGGACTTTCATAGAAGGTGTC
326 ACGCCATAAAGGCATCATACAGATTCATGTGTTTATTATCCCAGCGGACTTTCATAGAAGGTGTC
85802475 ATGGGTGTCTCCTTCATTGACTTATACATAAGTTCATGTATCGTGATATACCCAATCAATTTACA
391 ATGGGTGTCTCCTTCATTGACTTATACATAAGTTCATGTATCGTGATATACCCAATCAATTTACA
85802540 CATCATCGAAGGTTACACCATGAACATTCATATAGATATATCTTGCCATGGGTCTTAACCACATG
456 CATCATCGAAGGTTACACCATGAACATTCATATAGATATATCTTGCCATGGGTCTTAACCACATG
85802605 GCTTTACACACATTCATGTATCGTGATCTATCAATCTAGTCTTCATTTTACTGGAGGCTACACCA
521 GCTTTACACACATTCATGTATCGTGATCTATCAATCTAGTCTTCATTTTACTGGAGGCTACACCA
85802670 TAAGTGTTTCCAAATCATATCACGATACAATGGGTATCAACCTCATGGTCTTACACTTGCTTTCA
586 TAAGTGTTTCCAAATCATATCACGATACAATGGGTATCAACCTCATGGTCTTACACTTGCTTTCA
85802735 TATCGTGATCTACCAATCTGGTTAGCAATCTAACTGTCCTACCAGACACTTCAGAAAGGGACGTT
651 TATCGTGATCTACCAATCTGGTTAGCAATCTAACTGTCCTACCAGACACTTCAGAAAGGGACGTT
85802800 TCCCATAATTTAATTACCTAGATTTATTTGCATTCTAGATTGTCTCATACATTTCATATCTTAAA
716 TCCCATAATTTAATTACCTAGATTTATTTGCATTCTAGATTGTCTCATACATTTCATATCTTAAA
85802865 TTTTACTTGCATACTTATCAATCAACATTCACCTTCAATAAAACTTATTATATATCATCATAGCA
781 TTTTACTTGCATACTTATCAATCAACATTCACCTTCAATAAAACTTATTATATATCATCATAGCA
85802930 CTTATTTCCTCTTAACTATACTCGTACACTTACCTCTTATTATAAATGC
846 CTTATTTCCTCTTAACTATACTCGTACACTTACCTCTTATTATAAATGC
85802979 CAGACATAATAGATTCCAAATAACTCAGATTCAACCATTTCCTAACTCAGACAAACTTGAATTGA
1 CAGACATAATAGATTCCAAATAACTCAGATTCAACCATTTCCTAACTCAGACAAACTTGAATTGA
85803044 CAATTTCTTATGTCTTTCATAACCATGAATACACCTATTTTCAAAACAAACAAATTGTCAGGGTG
66 CAATTTCTTATGTCTTTCATAACCATGAATACACCTATTTTCAAAACAAACAAATTGTCAGGGTG
85803109 GATATCCTTTTTAACTTACAGATACACACTTCTTTTCAGAACTTCCTTATCTAATTCAACCAAAT
131 GATATCCTTTTTAACTTACAGATACACACTTCTTTTCAGAACTTCCTTATCTAATTCAACCAAAT
85803174 TAACCTTAGATATTCCATGACCTTATCATAGAAGTATCTATCATAGAACAATCAGAAACTACCAA
196 TAACCTTAGATATTCCATGACCTTATCATAGAAGTATCTATCATAGAACAATCAGAAACTACCAA
85803239 AAGGATGGATAAGCATACCTTGCCAAACAGATTTAGTAGAGTGCGTCATAAGGGCCAAACAGAAT
261 AAGGATGGATAAGCATACCTTGCCAAACAGATTTAGTAGAGTGCGTCATAAGGGCCAAACAGAAT
85803304 ACGCCATAAAGGCATCATACAGATTCATGTGTTTATTATCCCAGCGGACTTTCATAGAAGGTGTC
326 ACGCCATAAAGGCATCATACAGATTCATGTGTTTATTATCCCAGCGGACTTTCATAGAAGGTGTC
85803369 ATGGGTGTCTCCTTCATTGACTTATACATAAGTTCATGTATCGTGATATACCCAATCAATTTACA
391 ATGGGTGTCTCCTTCATTGACTTATACATAAGTTCATGTATCGTGATATACCCAATCAATTTACA
85803434 CATCATCGAAGGTTACACCATGAACATTCATATAGATATATCTTGCCATGGGTCTTAACCACATG
456 CATCATCGAAGGTTACACCATGAACATTCATATAGATATATCTTGCCATGGGTCTTAACCACATG
85803499 GCTTTACACACATTCATGTATCGTGATCTATCAATCTAGTCTTCATTTTACTGGAGGCTACACCA
521 GCTTTACACACATTCATGTATCGTGATCTATCAATCTAGTCTTCATTTTACTGGAGGCTACACCA
85803564 TAAGTGTTTCCAAATCATATCACGATACAATGGGTATCAACCTCATGGTCTTACACTTGCTTTCA
586 TAAGTGTTTCCAAATCATATCACGATACAATGGGTATCAACCTCATGGTCTTACACTTGCTTTCA
85803629 TATCGTGATCTACCAATCTGGTTAGCAATCTAACTGTCCTACCAGACACTTCAGAAAGGGACGTT
651 TATCGTGATCTACCAATCTGGTTAGCAATCTAACTGTCCTACCAGACACTTCAGAAAGGGACGTT
85803694 TCCCATAATTTAATTACCTAGATTTATTTGCATTCTAGATTGTCTCATACATTTCATATCTTAAA
716 TCCCATAATTTAATTACCTAGATTTATTTGCATTCTAGATTGTCTCATACATTTCATATCTTAAA
85803759 TTTTACTTGCATACTTATCAATCAACATTCACCTTCAATAAAACTTATTATATATCATCATAGCA
781 TTTTACTTGCATACTTATCAATCAACATTCACCTTCAATAAAACTTATTATATATCATCATAGCA
85803824 CTTATTTCCTCTTAACTATACTCGTACACTTACCTCTTATTATAAATGC
846 CTTATTTCCTCTTAACTATACTCGTACACTTACCTCTTATTATAAATGC
85803873 CA
1 CA
85803875 TCATCTTATA
Statistics
Matches: 896, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
894 896 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (894 bp):
CAGACATAATAGATTCCAAATAACTCAGATTCAACCATTTCCTAACTCAGACAAACTTGAATTGA
CAATTTCTTATGTCTTTCATAACCATGAATACACCTATTTTCAAAACAAACAAATTGTCAGGGTG
GATATCCTTTTTAACTTACAGATACACACTTCTTTTCAGAACTTCCTTATCTAATTCAACCAAAT
TAACCTTAGATATTCCATGACCTTATCATAGAAGTATCTATCATAGAACAATCAGAAACTACCAA
AAGGATGGATAAGCATACCTTGCCAAACAGATTTAGTAGAGTGCGTCATAAGGGCCAAACAGAAT
ACGCCATAAAGGCATCATACAGATTCATGTGTTTATTATCCCAGCGGACTTTCATAGAAGGTGTC
ATGGGTGTCTCCTTCATTGACTTATACATAAGTTCATGTATCGTGATATACCCAATCAATTTACA
CATCATCGAAGGTTACACCATGAACATTCATATAGATATATCTTGCCATGGGTCTTAACCACATG
GCTTTACACACATTCATGTATCGTGATCTATCAATCTAGTCTTCATTTTACTGGAGGCTACACCA
TAAGTGTTTCCAAATCATATCACGATACAATGGGTATCAACCTCATGGTCTTACACTTGCTTTCA
TATCGTGATCTACCAATCTGGTTAGCAATCTAACTGTCCTACCAGACACTTCAGAAAGGGACGTT
TCCCATAATTTAATTACCTAGATTTATTTGCATTCTAGATTGTCTCATACATTTCATATCTTAAA
TTTTACTTGCATACTTATCAATCAACATTCACCTTCAATAAAACTTATTATATATCATCATAGCA
CTTATTTCCTCTTAACTATACTCGTACACTTACCTCTTATTATAAATGC
Found at i:85808556 original size:3 final size:3
Alignment explanation
Indices: 85808548--85808584 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
85808538 ATGATACTCT
85808548 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
85808585 GCTGCTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:85810223 original size:5 final size:5
Alignment explanation
Indices: 85810213--85810237 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
85810203 ATTTATGTAA
85810213 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
85810238 GATTCTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:85814810 original size:15 final size:15
Alignment explanation
Indices: 85814790--85814829 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
85814780 TTTGATAAAC
*
85814790 TGAAAAATTAAGTAT
1 TGAAAAATTAAATAT
* *
85814805 TGAAAATTTAAATCT
1 TGAAAAATTAAATAT
85814820 TGAAAAATTA
1 TGAAAAATTA
85814830 TGTGCTCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (15 bp):
TGAAAAATTAAATAT
Found at i:85815929 original size:23 final size:23
Alignment explanation
Indices: 85815893--85815941 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
85815883 TAAACAAAAT
85815893 AAAAACCACAAAAAATATAGACAA
1 AAAAACCACAAAAAATATAGA-AA
* *
85815917 AAAAACCA-TAAAATTATAGAAA
1 AAAAACCACAAAAAATATAGAAA
85815939 AAA
1 AAA
85815942 TCACGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 10 0.43
24 8 0.35
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAAACCACAAAAAATATAGAAA
Done.