Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 66 of 153
Found at i:21141709 original size:20 final size:20
Alignment explanation
Indices: 21141669--21141739 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
21141659 TTTTAAATTT
21141669 TTATTTTTAAAATTATTTTAAA
1 TTATTTTTAAAA-T-TTTTAAA
* *
21141691 ATATTTTTAATATTTTT-AA
1 TTATTTTTAAAATTTTTAAA
*
21141710 TTATTTTTAAGA-TTTTAGAA
1 TTATTTTTAAAATTTTTA-AA
21141730 TTATTTTTAA
1 TTATTTTTAA
21141740 GAAATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.09
19 12 0.28
20 16 0.37
21 1 0.02
22 10 0.23
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTATTTTTAAAATTTTTAAA
Found at i:21141717 original size:10 final size:10
Alignment explanation
Indices: 21141669--21141739 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
21141659 TTTTAAATTT
21141669 TTATTTTTAAAA
1 TTATTTTT--AA
*
21141681 TTATTTTAAA
1 TTATTTTTAA
*
21141691 ATATTTTTAA
1 TTATTTTTAA
21141701 -TATTTTTAA
1 TTATTTTTAA
21141710 TTATTTTTAA
1 TTATTTTTAA
* *
21141720 -GATTTTAGAA
1 TTATTTT-TAA
21141730 TTATTTTTAA
1 TTATTTTTAA
21141740 GAAATTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 14 0.29
10 23 0.47
11 5 0.10
12 7 0.14
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:21141740 original size:20 final size:19
Alignment explanation
Indices: 21141683--21141741 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
21141673 TTTTAAAATT
* *
21141683 ATTTTAAAATATTTTTAAT
1 ATTTTAAATTATTTTTAAG
*
21141702 ATTTTTAATTATTTTTAAG
1 ATTTTAAATTATTTTTAAG
21141721 ATTTTAGAATTATTTTTAAG
1 ATTTTA-AATTATTTTTAAG
21141741 A
1 A
21141742 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTAAATTATTTTTAAG
Found at i:21142457 original size:3 final size:3
Alignment explanation
Indices: 21142442--21142482 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
21142432 GTTATTTTCA
*
21142442 TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
21142483 GTACATTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21142808 original size:22 final size:23
Alignment explanation
Indices: 21142780--21142834 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
21142770 AATTTTTTTA
21142780 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
21142802 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
21142826 -TA-ATATTAT
1 ATATATATTAT
21142835 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:21144989 original size:18 final size:17
Alignment explanation
Indices: 21144962--21145001 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
21144952 ATTGAAAAAT
21144962 AAAAATTCAAAATTCAA
1 AAAAATTCAAAATTCAA
*
21144979 AAAAATATCAAAATTGAA
1 AAAAAT-TCAAAATTCAA
21144997 AAAAA
1 AAAAA
21145002 AAACCCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAAATTCAAAATTCAA
Found at i:21145403 original size:13 final size:13
Alignment explanation
Indices: 21145385--21145444 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
21145375 TTTAATTTAT
21145385 ATATTTTTTAAAA
1 ATATTTTTTAAAA
21145398 ATATTTTTT--AA
1 ATATTTTTTAAAA
* * ***
21145409 TTA-TTTTGATTC
1 ATATTTTTTAAAA
21145421 ATATTTTTTAAAA
1 ATATTTTTTAAAA
21145434 ATATTTTTTAA
1 ATATTTTTTAA
21145445 TTATTTTGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 2 0.06
13 25 0.71
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:21145425 original size:36 final size:36
Alignment explanation
Indices: 21145385--21145461 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
21145375 TTTAATTTAT
21145385 ATATTTTTTAAAAATATTTTTTAATTATTTTGATTC
1 ATATTTTTTAAAAATATTTTTTAATTATTTTGATTC
21145421 ATATTTTTTAAAAATATTTTTTAATTATTTTGATTC
1 ATATTTTTTAAAAATATTTTTTAATTATTTTGATTC
21145457 ATATT
1 ATATT
21145462 GGGTTATTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
ATATTTTTTAAAAATATTTTTTAATTATTTTGATTC
Found at i:21146077 original size:17 final size:19
Alignment explanation
Indices: 21146052--21146090 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
21146042 AAATAATTAA
21146052 TTAATATT-GGAAATAAAT
1 TTAATATTGGGAAATAAAT
21146070 TTAA-ATTGGGAAATAAAT
1 TTAATATTGGGAAATAAAT
21146088 TTA
1 TTA
21146091 GATTTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (19 bp):
TTAATATTGGGAAATAAAT
Found at i:21147462 original size:13 final size:13
Alignment explanation
Indices: 21147444--21147470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21147434 GAATTTTAAA
21147444 TTTTTTTGAATTT
1 TTTTTTTGAATTT
21147457 TTTTTTTGAATTT
1 TTTTTTTGAATTT
21147470 T
1 T
21147471 GGTTGAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGAATTT
Found at i:21150121 original size:18 final size:18
Alignment explanation
Indices: 21150098--21150133 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21150088 GCTCATGCTT
21150098 CTAAGAGGCGAAAGGCAA
1 CTAAGAGGCGAAAGGCAA
21150116 CTAAGAGGCGAAAGGCAA
1 CTAAGAGGCGAAAGGCAA
21150134 ATTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.33, T:0.06
Consensus pattern (18 bp):
CTAAGAGGCGAAAGGCAA
Found at i:21154319 original size:25 final size:25
Alignment explanation
Indices: 21154291--21154362 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
21154281 CTGATGTATT
21154291 TAGGTTGCTAACACTAGCTTCTAAG
1 TAGGTTGCTAACACTAGCTTCTAAG
* *
21154316 TAGGATTGCTAACACTAGCTTGGTACG
1 TAGG-TTGCTAACACTAGCTT-CTAAG
* *
21154343 -ACGCTGCTAACACTAGCTTC
1 TAGGTTGCTAACACTAGCTTC
21154363 AGAAAATCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 19 0.47
26 18 0.45
27 3 0.08
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
TAGGTTGCTAACACTAGCTTCTAAG
Found at i:21158506 original size:305 final size:306
Alignment explanation
Indices: 21157954--21158556 Score: 1073
Period size: 305 Copynumber: 2.0 Consensus size: 306
21157944 CTACTGATGG
21157954 TTATTATTCGGTCAAATCGGGATACTGTTTGGCAGTTGACCTTTATACTAATTTTGACCCATAAT
1 TTATTATTCGGTCAAATCGGGATACTGTTTGGCAGTTGACCTTTATACTAATTTTGACCCATAAT
* * * * *
21158019 AGGGAAGATGACCGATGTTTGAAGCTATAGACTAGCCGTGTTCCGCCAAAGGTTAAAGATTTCGT
66 AGGGAAGATGACCCATGTTTGAAGCCATAGAATAGCCATGTTCCGCCAAAAGTTAAAGATTTCGT
* *
21158084 TTGGCGGTGTATGAAGAACTTTGTCTCGACTAAGGTGAAATTACATGGTAAAGGCATTAATATTG
131 TTGGCGGTGTATGAACAACTTTGTCTCGACTAAGGTGAAATTACATGGTAAAGGCATTAACATTG
*
21158149 ATGATGCCTGTGCGTGATGTGGTAATGTTGAATCTTTGGATCATGTGGTTATGTCTTGCTCTCCG
196 ATGATGCCTGTGCGTAATGTGGTAATGTTGAATCTTTGGATCATGTGGTTATGTCTTGCTCTCCG
* *
21158214 ACTCAGGCTGTTTGGAAGCAAGTTGGTTGTATGTCTTTGGGATCAA
261 ACTCAAGCCGTTTGGAAGCAAGTTGGTTGTATGTCTTTGGGATCAA
*
21158260 TTATTATTCGGTCAAATCGGGATATTGTTTGGCAGTTGACCTTTATACTAATTTTGACCCATAAT
1 TTATTATTCGGTCAAATCGGGATACTGTTTGGCAGTTGACCTTTATACTAATTTTGACCCATAAT
*
21158325 AGGGAAGATGACCCATGTTTGAAGCCCTAGAATAGCCATGTTCCGCCAAAAG-TAAAGATTTCGT
66 AGGGAAGATGACCCATGTTTGAAGCCATAGAATAGCCATGTTCCGCCAAAAGTTAAAGATTTCGT
*
21158389 TTGGCTGTGTATGAACAACTTTGTCTCGACTAAGGTGAAATTACATGGTAAAGGCATTAACATTG
131 TTGGCGGTGTATGAACAACTTTGTCTCGACTAAGGTGAAATTACATGGTAAAGGCATTAACATTG
*
21158454 ATGATGCCTGTGCGTAATGTGGTAATGTTGAATCTTTGGATCATGTGGTTATGTCTTGCTCTTCG
196 ATGATGCCTGTGCGTAATGTGGTAATGTTGAATCTTTGGATCATGTGGTTATGTCTTGCTCTCCG
21158519 ACTCAAGCCGTTTGGAAGCAAGTTGGTTGTATGTCTTT
261 ACTCAAGCCGTTTGGAAGCAAGTTGGTTGTATGTCTTT
21158557 AGCATCAAAT
Statistics
Matches: 283, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
305 173 0.61
306 110 0.39
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (306 bp):
TTATTATTCGGTCAAATCGGGATACTGTTTGGCAGTTGACCTTTATACTAATTTTGACCCATAAT
AGGGAAGATGACCCATGTTTGAAGCCATAGAATAGCCATGTTCCGCCAAAAGTTAAAGATTTCGT
TTGGCGGTGTATGAACAACTTTGTCTCGACTAAGGTGAAATTACATGGTAAAGGCATTAACATTG
ATGATGCCTGTGCGTAATGTGGTAATGTTGAATCTTTGGATCATGTGGTTATGTCTTGCTCTCCG
ACTCAAGCCGTTTGGAAGCAAGTTGGTTGTATGTCTTTGGGATCAA
Found at i:21161248 original size:24 final size:23
Alignment explanation
Indices: 21161215--21161262 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
21161205 TTTTTTTAAG
* *
21161215 TTTATCATTTCAATAATTTATATT
1 TTTATAATTTCAAAAATTTA-ATT
*
21161239 TTTATAATTTTAAAAATTTAATT
1 TTTATAATTTCAAAAATTTAATT
21161262 T
1 T
21161263 AAATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATAATTTCAAAAATTTAATT
Found at i:21161260 original size:29 final size:30
Alignment explanation
Indices: 21161228--21161289 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
21161218 ATCATTTCAA
*
21161228 TAATTTATATTTTTATAATTTTAA-AAATT
1 TAATTTAAATTTTTATAATTTTAATAAATT
* *
21161257 TAATTTAAATTTTTATTATTTTAATAGATT
1 TAATTTAAATTTTTATAATTTTAATAAATT
21161287 TAA
1 TAA
21161290 GTATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TAATTTAAATTTTTATAATTTTAATAAATT
Found at i:21161299 original size:29 final size:27
Alignment explanation
Indices: 21161233--21161304 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
21161223 TTCAATAATT
* *
21161233 TATATTTTTATAATTTTAAAAATTTAA
1 TATAATTTTATTATTTTAAAAATTTAA
* *
21161260 TTTAAATTTTTATTATTTTAATAGATTTAA
1 TAT-AA-TTTTATTATTTTAA-AAATTTAA
21161290 GTATAATTTTATTAT
1 -TATAATTTTATTAT
21161305 ATACTAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 22 0.61
30 9 0.25
31 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
TATAATTTTATTATTTTAAAAATTTAA
Found at i:21162750 original size:24 final size:24
Alignment explanation
Indices: 21162700--21162751 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
21162690 TTTCTAGAAG
* *
21162700 ATTTAGTATGTATTAGTATAATAT
1 ATTTAGTATGTATTAGCACAATAT
* * *
21162724 ATTTAGTATTTGTTAGCACAATTT
1 ATTTAGTATGTATTAGCACAATAT
21162748 ATTT
1 ATTT
21162752 TATCTATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTAGTATGTATTAGCACAATAT
Found at i:21166169 original size:2 final size:2
Alignment explanation
Indices: 21166162--21166203 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
21166152 TAGGTGGGGA
21166162 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21166204 GACAGTTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21172636 original size:3 final size:3
Alignment explanation
Indices: 21172630--21172655 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21172620 GTAATAATGG
21172630 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
21172656 GGACTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:21183049 original size:18 final size:18
Alignment explanation
Indices: 21183028--21183077 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
21183018 AAGATAACGT
*
21183028 TGGAGATGAAGATGTAGG
1 TGGAGATGGAGATGTAGG
21183046 TGGAGATGGAGATGTAGG
1 TGGAGATGGAGATGTAGG
21183064 TGGAGATGGAGATG
1 TGGAGATGGAGATG
21183078 GAGATAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (18 bp):
TGGAGATGGAGATGTAGG
Found at i:21183055 original size:6 final size:6
Alignment explanation
Indices: 21183028--21183082 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
21183018 AAGATAACGT
* * * * *
21183028 TGGAGA TGAAGA TGTAGG TGGAGA TGGAGA TGTAGG TGGAGA TGGAGA
1 TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA TGGAGA
21183076 TGGAGA T
1 TGGAGA T
21183083 AAAGATGATG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.47, T:0.22
Consensus pattern (6 bp):
TGGAGA
Found at i:21183088 original size:12 final size:12
Alignment explanation
Indices: 21183028--21183089 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
21183018 AAGATAACGT
21183028 TGGAGATGAAGA
1 TGGAGATGAAGA
* * *
21183040 TGTAGGTGGAGA
1 TGGAGATGAAGA
* *
21183052 TGGAGATGTAGG
1 TGGAGATGAAGA
*
21183064 TGGAGATGGAGA
1 TGGAGATGAAGA
*
21183076 TGGAGATAAAGA
1 TGGAGATGAAGA
21183088 TG
1 TG
21183090 ATGAGCCAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (12 bp):
TGGAGATGAAGA
Found at i:21184879 original size:29 final size:32
Alignment explanation
Indices: 21184823--21184892 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
21184813 AATAATTCTA
21184823 AAAAAAATCTTTAAAATATATATAAATTATGT
1 AAAAAAATCTTTAAAATATATATAAATTATGT
* * *
21184855 AAAAATATTTTTAAAA-ATA-A-AAATTATGA
1 AAAAAAATCTTTAAAATATATATAAATTATGT
21184884 ATAAAAAAT
1 A-AAAAAAT
21184893 TTCTAGAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.27
30 7 0.21
31 3 0.09
32 14 0.42
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
AAAAAAATCTTTAAAATATATATAAATTATGT
Found at i:21186031 original size:26 final size:26
Alignment explanation
Indices: 21185991--21186040 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
21185981 AAGTTTTGGC
21185991 TTTAATAAAACTTGG-TTTGATTTAT
1 TTTAATAAAACTTGGCTTTGATTTAT
*
21186016 TTTAATGAAAATTTGGCTTTGATTT
1 TTTAAT-AAAACTTGGCTTTGATTT
21186041 CTTAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (26 bp):
TTTAATAAAACTTGGCTTTGATTTAT
Found at i:21186536 original size:23 final size:23
Alignment explanation
Indices: 21186506--21186549 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21186496 TTAAAGTATA
*
21186506 AATATGAAAA-ATTTGAAGGGCT
1 AATATGAAAATATTTAAAGGGCT
21186528 AATAGTGAAAATATTTAAAGGG
1 AATA-TGAAAATATTTAAAGGG
21186550 TGGAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (23 bp):
AATATGAAAATATTTAAAGGGCT
Found at i:21187031 original size:19 final size:19
Alignment explanation
Indices: 21187007--21187044 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21186997 AATATCAAGT
21187007 TAGATTCATGAAAATAGAA
1 TAGATTCATGAAAATAGAA
21187026 TAGATTCATGAAAATAGAA
1 TAGATTCATGAAAATAGAA
21187045 GTTGGAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (19 bp):
TAGATTCATGAAAATAGAA
Found at i:21187817 original size:16 final size:18
Alignment explanation
Indices: 21187785--21187817 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
21187775 TGGAAATTAA
21187785 GGGATAAATTATATATTT
1 GGGATAAATTATATATTT
21187803 GGGA-AAATT-TATATT
1 GGGATAAATTATATATT
21187818 AGAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (18 bp):
GGGATAAATTATATATTT
Found at i:21192367 original size:45 final size:45
Alignment explanation
Indices: 21192300--21192405 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
21192290 AACCCTCGAC
* *
21192300 TTGGATCCTCATTCATAGACCCTCGAAATTACTTAAGGTGTTGAT
1 TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
* * ** *
21192345 TTGGATCCTCACTCATAAACCCTTAAAATTGTTTAATGTGTTGAT
1 TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
21192390 TTGGATCCTCATTCAT
1 TTGGATCCTCATTCAT
21192406 CTGGATCATT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TTGGATCCTCATTCATAAACCCTCAAAATTACTTAAGGTGTTGAT
Found at i:21193629 original size:21 final size:22
Alignment explanation
Indices: 21193605--21193645 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21193595 AAAACTTAAA
21193605 TAACAT-GAAACCAAAAGCATT
1 TAACATAGAAACCAAAAGCATT
* *
21193626 TAACATAGAAATCTAAAGCA
1 TAACATAGAAACCAAAAGCA
21193646 AGAAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.20
Consensus pattern (22 bp):
TAACATAGAAACCAAAAGCATT
Found at i:21197405 original size:25 final size:25
Alignment explanation
Indices: 21197355--21197406 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
21197345 GATTTTTAAA
* *
21197355 AAAAATATATTTAACATTTTATATT
1 AAAAATATATTTAACATTATAAATT
*
21197380 AAAAATATATTT-TCATTATACAATT
1 AAAAATATATTTAACATTATA-AATT
21197405 AA
1 AA
21197407 TTATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAATATATTTAACATTATAAATT
Found at i:21201805 original size:21 final size:21
Alignment explanation
Indices: 21201778--21201819 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21201768 TATAATGTAC
* *
21201778 ATTTTTATATTAATTTTTTTGG
1 ATTTTAAT-TTAATTATTTTGG
21201800 ATTTTAATTTAATTATTTTG
1 ATTTTAATTTAATTATTTTG
21201820 ATTAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTTTAATTTAATTATTTTGG
Found at i:21204738 original size:29 final size:30
Alignment explanation
Indices: 21204685--21204755 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
21204675 TTTTTATAAA
* *
21204685 TTTAAAATTTAGTCTATGT-ACTTTTA-TT
1 TTTAAAATTTAATCTATGTAATTTTTAGTT
* *
21204713 TTTAAAAATTTAATCTCTTTAATTTTTAGTT
1 TTT-AAAATTTAATCTATGTAATTTTTAGTT
21204744 TTTAAAATTTAA
1 TTTAAAATTTAA
21204756 GTTTAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 13 0.36
30 15 0.42
31 5 0.14
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTAAAATTTAATCTATGTAATTTTTAGTT
Found at i:21208949 original size:66 final size:66
Alignment explanation
Indices: 21208818--21208942 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
21208808 CAAAAATGCC
* * * *
21208818 GCTATAGATCGAGAATTAGTGGCGCTTTTTAAAAATCGCCGCTATAGATCGAGCATTAGAAACGC
1 GCTATAGATCGAGAATTAGCGACGCTTTTAAAAAATCGCCGCTATAGATCGACCATTAGAAACGC
21208883 T
66 T
* * *
21208884 GCTATAGATTGAGCATTAGCGACGCTTTTCAAAAAAT-GCCGCTATAGGTCGACCATTAG
1 GCTATAGATCGAGAATTAGCGACGCTTTT-AAAAAATCGCCGCTATAGATCGACCATTAG
21208943 CGACGCTTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 45 0.88
67 6 0.12
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (66 bp):
GCTATAGATCGAGAATTAGCGACGCTTTTAAAAAATCGCCGCTATAGATCGACCATTAGAAACGC
T
Found at i:21209241 original size:189 final size:189
Alignment explanation
Indices: 21208872--21209248 Score: 551
Period size: 189 Copynumber: 2.0 Consensus size: 189
21208862 TAGATCGAGC
* * * *
21208872 ATTAGAAACGCTGCTATAGATTGAGCATTAGCGACGCTTTTCAAAAAATGCCGCTATAGGTCGAC
1 ATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAACGCCACTACAGGTCGAC
*
21208937 CATTAGCGACGCTTTCTGAAAAACGCTGAAAAAAATTAAGCACAACGTCGTCATTTTATGTTGAG
66 CATTAGCGACGCTTTCTGAAAAACGCCGAAAAAAATTAAGCACAACGTCGTCATTTTATGTTGAG
* * *
21209002 CTTTACTGGCATTAGCGGCGCATTCCTAAAAACGCCGCTATAGATCGAGCATTAGCGGT
131 CTTTAATGGCATTAGCAGCGCATTCCTAAAAACGCCGCCATAGATCGAGCATTAGCGGT
* * *
21209061 ATTA-AAATGCTGCTATAGATCGAGCATTAGCGGCGCTTCTT-GAAAAACGCCACTACAGGTCGA
1 ATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTT-TTCAAAAAACGCCACTACAGGTCGA
* * *
21209124 CCATTAGCGGCGCTTTCTGAAAAACGCCGCAAAAAAATTAAGCACAATGTCGTCGTTTTATGTTG
65 CCATTAGCGACGCTTTCTGAAAAACGCCG-AAAAAAATTAAGCACAACGTCGTCATTTTATGTTG
* ** * *
21209189 AGCTTTAATGGCATTAGCAGCGCTTTTTTAAAATCGCTGCCATAGATCGAGCATTAGCGG
129 AGCTTTAATGGCATTAGCAGCGCATTCCTAAAAACGCCGCCATAGATCGAGCATTAGCGG
21209249 CGCTTTTCGA
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
188 76 0.46
189 91 0.54
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (189 bp):
ATTAGAAACGCTGCTATAGATCGAGCATTAGCGACGCTTTTCAAAAAACGCCACTACAGGTCGAC
CATTAGCGACGCTTTCTGAAAAACGCCGAAAAAAATTAAGCACAACGTCGTCATTTTATGTTGAG
CTTTAATGGCATTAGCAGCGCATTCCTAAAAACGCCGCCATAGATCGAGCATTAGCGGT
Found at i:21209346 original size:21 final size:21
Alignment explanation
Indices: 21209317--21209427 Score: 93
Period size: 21 Copynumber: 5.3 Consensus size: 21
21209307 ATTAGTGTCA
* *
21209317 TTAGAGTTTATGGGTTATGGT
1 TTAGGGTTTATGGTTTATGGT
**
21209338 TTAGGGTTTATGGTTTATAAT
1 TTAGGGTTTATGGTTTATGGT
*
21209359 TTAGGGCTTA-GAGTTTATGGT
1 TTAGGGTTTATG-GTTTATGGT
* *
21209380 TTGGGGTTTATGGTTTGA-GAT
1 TTAGGGTTTATGGTTT-ATGGT
* *
21209401 TTAAGGTTTAAGGTTTA-GGAT
1 TTAGGGTTTATGGTTTATGG-T
21209422 TTAGGG
1 TTAGGG
21209428 GTAAATATGG
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
20 3 0.04
21 66 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTATGGT
Found at i:21209348 original size:14 final size:14
Alignment explanation
Indices: 21209322--21209427 Score: 74
Period size: 14 Copynumber: 7.6 Consensus size: 14
21209312 TGTCATTAGA
21209322 GTTTATGGG-TTATG
1 GTTTA-GGGTTTATG
21209336 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
*** *
21209350 GTTTATAATTTAGG
1 GTTTAGGGTTTATG
* *
21209364 GCTTAGAGTTTATG
1 GTTTAGGGTTTATG
*
21209378 GTTTGGGGTTTATG
1 GTTTAGGGTTTATG
* *
21209392 GTTT-GAGATTTAAG
1 GTTTAG-GGTTTATG
*
21209406 GTTTAAGGTTTA-G
1 GTTTAGGGTTTATG
21209419 GATTTAGGG
1 G-TTTAGGG
21209428 GTAAATATGG
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
13 6 0.08
14 66 0.92
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:21209394 original size:7 final size:7
Alignment explanation
Indices: 21209322--21209417 Score: 61
Period size: 7 Copynumber: 13.7 Consensus size: 7
21209312 TGTCATTAGA
21209322 GTTTATG
1 GTTTATG
*
21209329 GGTTATG
1 GTTTATG
*
21209336 GTTTAGG
1 GTTTATG
21209343 GTTTATG
1 GTTTATG
*
21209350 GTTTATA
1 GTTTATG
* *
21209357 ATTTAGG
1 GTTTATG
*
21209364 GCTTA-G
1 GTTTATG
21209370 AGTTTATG
1 -GTTTATG
**
21209378 GTTTGGG
1 GTTTATG
21209385 GTTTATG
1 GTTTATG
21209392 GTTTGA-G
1 GTTT-ATG
* *
21209399 ATTTAAG
1 GTTTATG
*
21209406 GTTTAAG
1 GTTTATG
21209413 GTTTA
1 GTTTA
21209418 GGATTTAGGG
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
6 2 0.03
7 64 0.94
8 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:21209937 original size:15 final size:15
Alignment explanation
Indices: 21209917--21209964 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
21209907 ACTATTTTAA
21209917 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
21209932 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
21209946 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
21209961 GGTT
1 GGTT
21209965 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:21209937 original size:22 final size:20
Alignment explanation
Indices: 21209857--21209961 Score: 75
Period size: 22 Copynumber: 5.0 Consensus size: 20
21209847 ATTGAATTAA
* *
21209857 TTATCATTATAGTTTAAGGT
1 TTATGATTATGGTTTAAGGT
* *
21209877 TTATGATTTAGGGTTTAAAGT
1 TTATGA-TTATGGTTTAAGGT
**
21209898 TTATGAGTTACTATTTTAAGGT
1 TTATGA-TTA-TGGTTTAAGGT
* *
21209920 TTATGGATTATGGGTTTAGGGA
1 TTAT-GATTAT-GGTTTAAGGT
*
21209942 TTATGGTTTATGGTTTAAGG
1 TTAT-GATTATGGTTTAAGG
21209962 GTTGGGGTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.08
21 29 0.44
22 30 0.45
23 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (20 bp):
TTATGATTATGGTTTAAGGT
Found at i:21209955 original size:7 final size:7
Alignment explanation
Indices: 21209863--21209958 Score: 52
Period size: 7 Copynumber: 13.4 Consensus size: 7
21209853 TTAATTATCA
*
21209863 TTATAGT
1 TTATGGT
*
21209870 TTAAGGT
1 TTATGGT
*
21209877 TTATGAT
1 TTATGGT
*
21209884 TTAGGGT
1 TTATGGT
**
21209891 TTAAAGT
1 TTATGGT
21209898 TTATGAGT
1 TTATG-GT
21209906 TACTAT--T
1 T--TATGGT
*
21209913 TTAAGGT
1 TTATGGT
*
21209920 TTATGGA
1 TTATGGT
21209927 TTATGGGT
1 TTAT-GGT
* *
21209935 TTAGGGA
1 TTATGGT
21209942 TTATGGT
1 TTATGGT
21209949 TTATGGT
1 TTATGGT
21209956 TTA
1 TTA
21209959 AGGGTTGGGG
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
5 2 0.03
7 52 0.80
8 8 0.12
10 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:21209995 original size:21 final size:21
Alignment explanation
Indices: 21209946--21209992 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21209936 TAGGGATTAT
* *
21209946 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
21209967 GGTTTAAGGCTTAATGGTTAGG
1 GGTTTAAGGCTTAAGGGTT-GG
21209989 GGTT
1 GGTT
21209993 AAGTGTTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:21210788 original size:114 final size:114
Alignment explanation
Indices: 21210547--21210892 Score: 509
Period size: 114 Copynumber: 3.1 Consensus size: 114
21210537 GGCATTTTTA
* *
21210547 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGTATAAACGCCACAAAAGGTTATTCTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCACTAAAGGTTATTCTG
* * * * *
21210612 -TTACA-CCAAACGAAGTCATTTTGTTGGATTTTTAGTGGCGTTTTAAG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
* * * * * *
21210659 GTAAAACACAGCAATAGGCTGGATTTAGCGGCGCTAGGGGATAAACGCCATTAACGGTTATTTTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCACTAAAGGTTATTCTG
* *
21210724 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAATGGCATTTTAGG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
* *
21210773 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAATGCCACTAAAAGTTATTCTG
1 GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCACTAAAGGTTATTCTG
*
21210838 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTT-GTGGTGTTTTAGG
66 TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
21210886 GTAAAAC
1 GTAAAAC
21210893 ACCTTTAGCC
Statistics
Matches: 206, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
112 57 0.28
113 21 0.10
114 128 0.62
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (114 bp):
GTAAAACGCCGCAATAGGTTGGATTTAGCGGCGCTAGGGGATAAACGCCACTAAAGGTTATTCTG
TTTATATCAAAACGACGTCGTTTTGTTGGATTTTTAGTGGCGTTTTAGG
Found at i:21213666 original size:9 final size:9
Alignment explanation
Indices: 21213609--21213769 Score: 96
Period size: 9 Copynumber: 17.9 Consensus size: 9
21213599 GTGTTAAAAT
*
21213609 TTACATAAG
1 TTACATAAC
21213618 TTACATAAC
1 TTACATAAC
*
21213627 GTACATAA-
1 TTACATAAC
* * *
21213635 ATATATATC
1 TTACATAAC
*
21213644 ATACCATAAC
1 TTA-CATAAC
*
21213654 TTACATAAT
1 TTACATAAC
21213663 TTACATAAC
1 TTACATAAC
*
21213672 ATACATAA-
1 TTACATAAC
* * *
21213680 ATATATATC
1 TTACATAAC
*
21213689 ATATCATAAC
1 TTA-CATAAC
21213699 TTACATAAC
1 TTACATAAC
* *
21213708 TTACATTAT
1 TTACATAAC
21213717 TTACATAAC
1 TTACATAAC
*
21213726 GTACATAA-
1 TTACATAAC
* * *
21213734 ATATAT-AT
1 TTACATAAC
21213742 TATATCATAAC
1 T-TA-CATAAC
21213753 TTACATAAC
1 TTACATAAC
21213762 TTACATAA
1 TTACATAA
21213770 GTAACTGTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
7 1 0.01
8 15 0.13
9 84 0.71
10 16 0.14
11 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:21213669 original size:54 final size:54
Alignment explanation
Indices: 21213609--21213771 Score: 218
Period size: 54 Copynumber: 3.2 Consensus size: 54
21213599 GTGTTAAAAT
21213609 TTACATAAGTTACATAACGTACAT--A-A-ATAT-ATATCAT-AC---CATAAC
1 TTACATAAGTTACATAACGTACATAAATATATATCATATCATAACTTACATAAC
* *
21213654 TTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAAC
1 TTACATAAGTTACATAACGTACATAAATATATATCATATCATAACTTACATAAC
* * *
21213708 TTACATTATTTACATAACGTACATAAATATATATTATATCATAACTTACATAAC
1 TTACATAAGTTACATAACGTACATAAATATATATCATATCATAACTTACATAAC
21213762 TTACATAAGT
1 TTACATAAGT
21213772 AACTGTAACT
Statistics
Matches: 102, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
45 22 0.22
47 1 0.01
48 1 0.01
49 4 0.04
50 7 0.07
51 2 0.02
54 65 0.64
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (54 bp):
TTACATAAGTTACATAACGTACATAAATATATATCATATCATAACTTACATAAC
Found at i:21213677 original size:45 final size:45
Alignment explanation
Indices: 21213609--21213769 Score: 187
Period size: 45 Copynumber: 3.4 Consensus size: 45
21213599 GTGTTAAAAT
*
21213609 TTACATAAGTTACATAACGTACATAAATATATATCATACCATAAC
1 TTACATAATTTACATAACGTACATAAATATATATCATACCATAAC
*
21213654 TTACATAATTTACATAACATACATAAATATATATCATATCATAACTTACATAAC
1 TTACATAATTTACATAACGTACAT--A-A-ATAT-ATATCAT-AC---CATAAC
* * *
21213708 TTACATTATTTACATAACGTACATAAATATATATTATATCATAAC
1 TTACATAATTTACATAACGTACATAAATATATATCATACCATAAC
*
21213753 TTACATAACTTACATAA
1 TTACATAATTTACATAA
21213770 GTAACTGTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
45 43 0.43
47 1 0.01
48 2 0.02
49 10 0.10
50 11 0.11
51 3 0.03
52 1 0.01
54 28 0.28
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (45 bp):
TTACATAATTTACATAACGTACATAAATATATATCATACCATAAC
Found at i:21219638 original size:43 final size:43
Alignment explanation
Indices: 21219590--21219745 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
21219580 TTTTTTAGCA
*
21219590 GCGTTTGTGGCAAAAGCGCCGCTAAAAAACATGACCTTTGGCG
1 GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
* * *
21219633 GCGTTTGTGTCAAAAACGCCGCTAAAGAACATGACCTTTGGTG
1 GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
** * * * * *
21219676 GCGCTTT-TATCAAAAATGTCGTTAAAGAACATGACCTTTAGCG
1 GCG-TTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
* *
21219719 GCATTTGTGGCAAAAGCGCCGCTAAAA
1 GCGTTTGTGGCAAAAACGCCGCTAAAA
21219746 GTCATGTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 87 0.94
44 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
GCGTTTGTGGCAAAAACGCCGCTAAAAAACATGACCTTTGGCG
Found at i:21220258 original size:86 final size:85
Alignment explanation
Indices: 21219891--21220340 Score: 469
Period size: 87 Copynumber: 5.3 Consensus size: 85
21219881 TATTGCAGTG
* * * * * * * *
21219891 TCTGTTAAATGGCGGGATTAAATCTCGAAACAGA--TTATTCAA-TTAAATTCTAATTTGGAAAC
1 TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTATTTTGGAAAT
* *
21219953 AACATCAAAATTGAATAAAA
66 AAAATCAAAATGGAATAAAA
* ** *
21219973 TCTGTTAAACGAAGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTTCT-TGTTT-GAC
1 TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAA-TTCTAT-TTTGGA-
*
21220036 AACAAAATCAAGAATGGAATAAAA
63 AATAAAATCAA-AATGGAATAAAA
* * * * *
21220060 TCTATTGAACAGCGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATACTCTTTTGGAAAC
1 TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTATTTTGGAAA-
* *
21220125 AAAAATAAAGAATGGAATAAAA
65 TAAAATCAA-AATGGAATAAAA
* * *
21220147 TCTGTTGAACGACGAGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTCTAATTTTGGAAA
1 TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCT-ATTTTGGAAA
*
21220212 TAAAATCAAAATAGAATAAAA
65 TAAAATCAAAATGGAATAAAA
* * * * * **
21220233 TTTATTGAACGGTGGGAATAAATCCCGAAACAAATTTTATTTAACTTTAATTCTCGTTTGGAAAT
1 TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTATTTTGGAAAT
* *
21220298 AAAATAAAAATGAAATAAAA
66 AAAATCAAAATGGAATAAAA
**
21220318 TCTGTTGAACCACGGGAATAAAT
1 TCTGTTGAACGGCGGGAATAAAT
21220341 AATAAATCCC
Statistics
Matches: 309, Mismatches: 48, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
82 28 0.09
84 7 0.02
85 50 0.16
86 82 0.27
87 133 0.43
88 9 0.03
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (85 bp):
TCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTATTTTGGAAAT
AAAATCAAAATGGAATAAAA
Found at i:21220525 original size:22 final size:21
Alignment explanation
Indices: 21220498--21220539 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
21220488 TAGCGAACAA
21220498 AAATATATAAATATAAATAAAC
1 AAATATATAAATA-AAATAAAC
* *
21220520 AAATATTTATATAAAATAAA
1 AAATATATAAATAAAATAAA
21220540 TTAAGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATATAAATAAAATAAAC
Found at i:21221021 original size:20 final size:20
Alignment explanation
Indices: 21220980--21221028 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21220970 AGGGGTAATT
* *
21220980 AAATCAATTTGATTAAAGTC
1 AAATCAAATTGACTAAAGTC
21221000 AAATCAAATTGACTAGAA-TC
1 AAATCAAATTGACTA-AAGTC
*
21221020 AAATAAAAT
1 AAATCAAAT
21221029 CAAGATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGACTAAAGTC
Found at i:21222776 original size:40 final size:40
Alignment explanation
Indices: 21222692--21222824 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
21222682 TTTTGAGCCT
* *
21222692 TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGA
1 TCGA-GCATTAGCGACGCTTTTTGAA-AAACGCCGCTATAGA
*
21222734 TCGAG-ATTTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
1 TCGAGCA-TTAGCGACGCTTTTTGAAAAACGCCGCTATAGA
*
21222774 TCGAGCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGG
1 TCGAGCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGA
*
21222814 TCAAGCATTAG
1 TCGAGCATTAG
21222825 TGGCGTTTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
40 61 0.73
41 18 0.22
42 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (40 bp):
TCGAGCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGA
Found at i:21222835 original size:40 final size:40
Alignment explanation
Indices: 21222692--21222841 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 40
21222682 TTTTGAGCCT
* * *
21222692 TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGA
1 TCGA-GCATTAGCGGCGCTTTTTGAA-AAACGCCGCTATAGA
21222734 TCGAG-ATTTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
1 TCGAGCA-TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
* *
21222774 TCGAGCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGG
1 TCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
* * * *
21222814 TCAAGCATTAGTGGCGTTTTTTAAAAAA
1 TCGAGCATTAGCGGCGCTTTTTGAAAAA
21222842 ATCCGTAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 74 0.77
41 18 0.19
42 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
TCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGA
Found at i:21222842 original size:81 final size:82
Alignment explanation
Indices: 21222692--21222841 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 82
21222682 TTTTGAGCCT
* * *
21222692 TCGAGGCATTAGCGACGCTTTTTCAAGAAATGCCGCTATAGATCGAGATTTAGCGGCGCTTTTTG
1 TCGAGGCATTAGCGACGCTTTTTCAAGAAACGCCGCTATAGATCAAGATTTAGCGGCGCTTTTTA
21222757 AAAAACGCCGCTATAGA
66 AAAAACGCCGCTATAGA
* * * *
21222774 TCGA-GCATTAGCGACGCTTTTTGAA-AAACGCCGCTATAGGTCAAGCA-TTAGTGGCGTTTTTT
1 TCGAGGCATTAGCGACGCTTTTTCAAGAAACGCCGCTATAGATCAAG-ATTTAGCGGCGCTTTTT
21222836 AAAAAA
65 AAAAAA
21222842 ATCCGTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 35 0.58
81 21 0.35
82 4 0.07
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (82 bp):
TCGAGGCATTAGCGACGCTTTTTCAAGAAACGCCGCTATAGATCAAGATTTAGCGGCGCTTTTTA
AAAAACGCCGCTATAGA
Found at i:21223310 original size:15 final size:15
Alignment explanation
Indices: 21223290--21223326 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21223280 AATATTTTAA
21223290 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
21223305 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
*
21223320 AGTTTAT
1 GGTTTAT
21223327 AGTTTAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:21223345 original size:37 final size:37
Alignment explanation
Indices: 21223304--21223376 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
21223294 TATGGATTAT
*
21223304 GGGTTTAGGGATTATGAGTTTATAGTTTAAGGTTTAG
1 GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTAG
* * *
21223341 GGGTTTATGGTTTATGAGTTAATATTTTAAGGTTTA
1 GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTA
21223377 TGGATTTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.47
Consensus pattern (37 bp):
GGGTTTAGGGATTATGAGTTAATAGTTTAAGGTTTAG
Found at i:21223632 original size:15 final size:15
Alignment explanation
Indices: 21223609--21223734 Score: 75
Period size: 15 Copynumber: 8.5 Consensus size: 15
21223599 AGTTAATGGC
21223609 TAAGGGTTTAGGGGT
1 TAAGGGTTTAGGGGT
* **
21223624 TAGGGGTTTAGGATT
1 TAAGGGTTTAGGGGT
*
21223639 TAA-GGTTTAGAGGT
1 TAAGGGTTTAGGGGT
* *
21223653 TAAAGGTTTAGGAGT
1 TAAGGGTTTAGGGGT
*
21223668 TATA-TG-TTAGGGGTT
1 TA-AGGGTTTAGGGG-T
*
21223683 TAAGGGTTAATGGGGCT
1 TAAGGGTTTA-GGGG-T
*
21223700 T--GGG-TTAGAGGT
1 TAAGGGTTTAGGGGT
*
21223712 TAAGGGTTTAGGAGT
1 TAAGGGTTTAGGGGT
*
21223727 TAGGGGTT
1 TAAGGGTT
21223735 AAGGCATTAA
Statistics
Matches: 83, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
12 2 0.02
13 3 0.04
14 23 0.28
15 46 0.55
16 3 0.04
17 6 0.07
ACGTcount: A:0.23, C:0.01, G:0.40, T:0.36
Consensus pattern (15 bp):
TAAGGGTTTAGGGGT
Found at i:21223645 original size:29 final size:30
Alignment explanation
Indices: 21223613--21223687 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
21223603 AATGGCTAAG
** *
21223613 GGTTTAGGGGTTAGGGGTTTAGGATTTA-A
1 GGTTTAGGGGTTAAAGGTTTAGGAGTTATA
*
21223642 GGTTTAGAGGTTAAAGGTTTAGGAGTTATA
1 GGTTTAGGGGTTAAAGGTTTAGGAGTTATA
* *
21223672 TG-TTAGGGGTTTAAGG
1 GGTTTAGGGGTTAAAGG
21223688 GTTAATGGGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (30 bp):
GGTTTAGGGGTTAAAGGTTTAGGAGTTATA
Found at i:21223936 original size:16 final size:16
Alignment explanation
Indices: 21223883--21223936 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
21223873 ATATTAAATA
*
21223883 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
21223899 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
21223913 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
21223925 ATTTCAAATTTT
1 ATTTCAAATTTT
21223937 ATCTAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:21226505 original size:13 final size:14
Alignment explanation
Indices: 21226489--21226517 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21226479 TTATAAATAT
21226489 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
21226502 TTATAATGGTTTAA
1 TTATAATGGTTTAA
21226516 TT
1 TT
21226518 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:21229541 original size:24 final size:22
Alignment explanation
Indices: 21229489--21229544 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
21229479 AACGAGAAAA
*
21229489 GAAATAAAAATAAAATAATAAC
1 GAAATAAAAATAAAAAAATAAC
21229511 GACAATAATAAATAATAAAAATACAC
1 GA-AATAA-AAATAA-AAAAATA-AC
21229537 -AAATAAAA
1 GAAATAAAA
21229545 GGGCATAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 2 0.07
23 7 0.24
24 11 0.38
25 7 0.24
26 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (22 bp):
GAAATAAAAATAAAAAAATAAC
Found at i:21242219 original size:21 final size:21
Alignment explanation
Indices: 21242185--21242225 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21242175 AGATGAGCGA
* * *
21242185 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
21242206 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
21242226 TTAAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:21243809 original size:124 final size:124
Alignment explanation
Indices: 21243589--21243835 Score: 476
Period size: 124 Copynumber: 2.0 Consensus size: 124
21243579 AACGTCGTTC
21243589 AACTACGGGGTATCTGTTTACTCTTGCGAAAGCCCCAGTGAGTTGGAAGTCTACCTTACAGTCTA
1 AACTACGGGGTATCTGTTTACTCTTGCGAAAGCCCCAGTGAGTTGGAAGTCTACCTTACAGTCTA
21243654 CAGTAGCAGTGTCTACTACAGAGGCAGAATATATGGCAGTTACAAAAGCTGTTAAGGAA
66 CAGTAGCAGTGTCTACTACAGAGGCAGAATATATGGCAGTTACAAAAGCTGTTAAGGAA
21243713 AACTACGGGGTATCTGTTTACTCTTGCGAAAGCCCCAGTGAGTTGGAAGTCTACCTTACAGTCTA
1 AACTACGGGGTATCTGTTTACTCTTGCGAAAGCCCCAGTGAGTTGGAAGTCTACCTTACAGTCTA
* *
21243778 CAGTAGCTGTGTCTACTACAGAGGCAGAATATATGGCAGTTACAGAAGCTGTTAAGGA
66 CAGTAGCAGTGTCTACTACAGAGGCAGAATATATGGCAGTTACAAAAGCTGTTAAGGA
21243836 GGCTATTTGG
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (124 bp):
AACTACGGGGTATCTGTTTACTCTTGCGAAAGCCCCAGTGAGTTGGAAGTCTACCTTACAGTCTA
CAGTAGCAGTGTCTACTACAGAGGCAGAATATATGGCAGTTACAAAAGCTGTTAAGGAA
Found at i:21245717 original size:15 final size:16
Alignment explanation
Indices: 21245697--21245736 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
21245687 AAAATAACTT
21245697 AATATTCTATATT-AA
1 AATATTCTATATTAAA
21245712 AATATTCT-T-TTAAA
1 AATATTCTATATTAAA
*
21245726 AATATTATATA
1 AATATTCTATA
21245737 ATAGTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 2 0.10
14 10 0.48
15 9 0.43
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTCTATATTAAA
Found at i:21246666 original size:23 final size:23
Alignment explanation
Indices: 21246624--21246687 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
21246614 AAAAAATTTA
*
21246624 TAATATTATTAATTAGTTTTGATAGT
1 TAATATTATTAATTA-TTTTCA-A-T
21246650 TAATATTATTAA-T-TTTTCAAT
1 TAATATTATTAATTATTTTCAAT
21246671 TAA-ATTATTAAATTATT
1 TAATATTATT-AATTATT
21246688 ACATAGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 6 0.18
21 6 0.18
22 2 0.06
23 7 0.21
25 1 0.03
26 12 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TAATATTATTAATTATTTTCAAT
Found at i:21249839 original size:13 final size:13
Alignment explanation
Indices: 21249821--21249846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21249811 CACACAAATC
21249821 TCATATCATAATA
1 TCATATCATAATA
21249834 TCATATCATAATA
1 TCATATCATAATA
21249847 ATCAATCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TCATATCATAATA
Found at i:21253251 original size:17 final size:16
Alignment explanation
Indices: 21253206--21253257 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
21253196 AATCACTTTT
* *
21253206 ATATTAAATTAATATA
1 ATATTATATTAAAATA
*
21253222 ATATT-TATCAAAATAA
1 ATATTATATTAAAAT-A
21253238 ATATTATATTAAAATTA
1 ATATTATATTAAAA-TA
21253255 ATA
1 ATA
21253258 ATAAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.21
16 11 0.38
17 11 0.38
18 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTATATTAAAATA
Found at i:21253257 original size:21 final size:22
Alignment explanation
Indices: 21253232--21253279 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
21253222 ATATTTATCA
21253232 AAATAAATATTATATTAAAATTAAT
1 AAATAAATA-T-TATTAAAA-TAAT
21253257 -AATAAATATTATTAAAATAAT
1 AAATAAATATTATTAAAATAAT
21253278 AA
1 AA
21253280 TAAGATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 1 0.05
24 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAAATATTATTAAAATAAT
Found at i:21253280 original size:21 final size:24
Alignment explanation
Indices: 21253233--21253282 Score: 79
Period size: 21 Copynumber: 2.2 Consensus size: 24
21253223 TATTTATCAA
21253233 AATAAATATTATATTAAAATTAAT
1 AATAAATATTATATTAAAATTAAT
21253257 AATAAATA-T-TATTAAAA-TAAT
1 AATAAATATTATATTAAAATTAAT
21253278 AATAA
1 AATAA
21253283 GATAAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 1 0.04
24 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAAATATTATATTAAAATTAAT
Found at i:21255396 original size:752 final size:752
Alignment explanation
Indices: 21253952--21256214 Score: 4400
Period size: 752 Copynumber: 3.0 Consensus size: 752
21253942 ATATCCAGAA
21253952 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
1 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
*
21254017 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCACCCAACTGCTTTGTTCAATGACCTCGTC
66 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
21254082 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
131 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
21254147 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
196 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
21254212 ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
261 ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
21254277 CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
326 CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
21254342 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
391 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
21254407 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
456 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
21254472 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
521 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
21254537 GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
586 GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
21254602 TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
651 TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
21254667 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
716 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
21254704 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
1 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
21254769 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
66 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
21254834 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
131 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
21254899 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
196 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
21254964 ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
261 ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
*
21255029 CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTATTGCTAGTAAAGCCAT
326 CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
21255094 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
391 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
21255159 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
456 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
*
21255224 TTACACTATGAACGTCACAAGTAAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
521 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
21255289 GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
586 GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
21255354 TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
651 TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
21255419 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
716 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
21255456 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
1 GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
21255521 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
66 AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
21255586 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
131 ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
21255651 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
196 TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
*
21255716 ATAAATTGCTCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
261 ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
* *
21255781 CCAATGAGAGGATATCATTTACTCTTTAATTGAGCTATGGATGCCACTGTTGCTAGTAAAGCCAT
326 CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
*
21255846 GCCATACACAAGTCATGTACCCAACATACCGACTATAGGCTTGATCATTTTTAGAACATAAGTAT
391 GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
* *
21255911 ACACTCATATTAAAGTACATGAGTTGCATACGCATGGTCAGTGACTAATACAAGATTTAGGTAAA
456 ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
21255976 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
521 TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
* *
21256041 GTAACAGTCGATTTTTTTGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTGACGTGTCAA
586 GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
* *
21256106 TTCATAAAATTTATTAGTTAAATATTTACGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
651 TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
21256171 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
716 ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
*
21256208 GAATCGT
1 GCATCGT
21256215 AAAAGCTATA
Statistics
Matches: 1495, Mismatches: 16, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
752 1495 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (752 bp):
GCATCGTTCTGATAATTCACAATTACTTAATCATGGAGTCAATCTACAAGAAATACCATGATTGA
AAACTCCTTATTGTATACTCTTTACGAAAGTAATTCATCCAACTGCTTTGTTCAATGACCTCGTC
ATGTGTGCGTTACCCTCATATAATATCCTTGATTCCTTTGAGTTAAATCCATTTACTCAATACAA
TCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGTCACTGTCAACAAATG
ATAAATTGCCCATTCGAGAAGTAACAACCCGTGGCCACATTTCATATTTATCAATCCACACAATG
CCAATGAAAGGATATCATTTACTCTTTAATTGAGCTATGGATTCCACTGTTGCTAGTAAAGCCAT
GCCATACACAAGTCATGTACCCAACATACCGACTATGGGCTTGATCATTTTTAGAACATAAGTAT
ACACTCATATTAAAGTACATGAGTTGCATATGCATGGTCAGTGACTAACACAAGATTTAGGTAAA
TTACACTATGAACGTCACAAGTGAATTAATTCACAAAAAGATTCAGAATTAATTCATCTTGAGTT
GTAACAGTCGATTTTTTAGTGGTGTCAGGAATAGTAGTTTCAGGATAAAAAATCTAACGTGTCAA
TTCATAAAATTTATTAGCTAAATATTTATGAGGTCATTAGTGTAATACTAAAATTTGGTTATGAG
ATTATAATATTTAAATAGTTACTTAGTAAAAAGGACT
Found at i:21259144 original size:39 final size:39
Alignment explanation
Indices: 21259090--21259168 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
21259080 GATGATCCGC
*
21259090 AACAAATGCTAAATCATCAAATGACATGATATAACTCTA
1 AACAAATACTAAATCATCAAATGACATGATATAACTCTA
*
21259129 AACAAATACTAAATCATCAAATGACGTGATATAACTCTA
1 AACAAATACTAAATCATCAAATGACATGATATAACTCTA
21259168 A
1 A
21259169 CTCTGTAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (39 bp):
AACAAATACTAAATCATCAAATGACATGATATAACTCTA
Found at i:21260424 original size:53 final size:53
Alignment explanation
Indices: 21260343--21260493 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
21260333 CTTACACGGT
* *
21260343 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
21260398 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
21260451 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
21260494 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:21264576 original size:85 final size:85
Alignment explanation
Indices: 21264446--21264615 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
21264436 CCCTTAACTT
21264446 TCAGTGAGCAGTTATGACATATTAAATTAACTACCACACTTTGACCTAACGGATTTGTAACTTGT
1 TCAGTGAGCAGTTATGACATATTAAATTAACTACCACACTTTGACCTAACGGATTTGTAACTTGT
21264511 ACATCATAATCAGTAGGCTC
66 ACATCATAATCAGTAGGCTC
21264531 TCAGTG-GACAGTTATGACATATTAAATTAACTACCACACTTTGACCTAACGGATTTGTAACTTG
1 TCAGTGAG-CAGTTATGACATATTAAATTAACTACCACACTTTGACCTAACGGATTTGTAACTTG
21264595 TACATCATAATCAGTAGGCTC
65 TACATCATAATCAGTAGGCTC
21264616 AACAAATAAG
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 1 0.01
85 83 0.99
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (85 bp):
TCAGTGAGCAGTTATGACATATTAAATTAACTACCACACTTTGACCTAACGGATTTGTAACTTGT
ACATCATAATCAGTAGGCTC
Found at i:21267430 original size:53 final size:53
Alignment explanation
Indices: 21267349--21267499 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
21267339 CTTACACGGT
* *
21267349 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
21267404 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
21267457 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
21267500 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:21269528 original size:3 final size:3
Alignment explanation
Indices: 21269520--21269546 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21269510 TCTCCAACTC
21269520 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
21269547 GCTCAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:21270770 original size:261 final size:262
Alignment explanation
Indices: 21270306--21270827 Score: 1010
Period size: 261 Copynumber: 2.0 Consensus size: 262
21270296 TCTCAATTCA
21270306 AATTTGCTTCATGGCCGAATACACATAAACATAAACATAGATTCTCAGCACATTTTTTTTCTTTT
1 AATTTGCTTCATGGCCGAATACACATAAACATAAACATAGATTCTCAGCACATTTTTTTTCTTTT
21270371 TCTTAAAGTTCATACGATGCATTTAAATCAAATAATCTCATATATTAACAACATTTGACATAATA
66 TCTTAAAGTTCATACGATGCATTTAAATCAAATAATCTCATATATTAACAACATTTGACATAATA
*
21270436 GGTCATTGTTTTACTCGTAGATATAACAATCATTCACATTTAAGTATCATTCTTTAATACTAATA
131 GGTCATTGTTTTACTCGTAGATATAACAATCATTCACACTTAAGTATCATTCTTTAATACTAATA
* *
21270501 ATTCACAAAATCATTGACTGAATGTACATGTGT-CATAAAGTAATTTTAACATATAATTCATATA
196 ATTCACAAAATCATTGACTGAATGTACATGAGTACATAAAGAAATTTTAACATATAATTCATATA
21270565 CC
261 CC
21270567 AATTTGCTTCATGGCCGAATACACATAAACATAAACATAGATTCTCAGCACATTTTTTTTCTTTT
1 AATTTGCTTCATGGCCGAATACACATAAACATAAACATAGATTCTCAGCACATTTTTTTTCTTTT
21270632 TCTTAAAGTTCATACGATGCATTTAAATCAAATAATCTCATATATTAACAACATTTGACATAATA
66 TCTTAAAGTTCATACGATGCATTTAAATCAAATAATCTCATATATTAACAACATTTGACATAATA
21270697 GGTCATTGTTTTACTCGTAGATATAACAATCATTCACACTTAAGTATCATTCTTTAATACTAATA
131 GGTCATTGTTTTACTCGTAGATATAACAATCATTCACACTTAAGTATCATTCTTTAATACTAATA
21270762 ATTCACAAAATCATTGACTGAATGTACATGAGTACATAAAGAAATTTTAACATATAATTCATATA
196 ATTCACAAAATCATTGACTGAATGTACATGAGTACATAAAGAAATTTTAACATATAATTCATATA
21270827 C
261 C
21270828 AAATATACCA
Statistics
Matches: 257, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
261 226 0.88
262 31 0.12
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (262 bp):
AATTTGCTTCATGGCCGAATACACATAAACATAAACATAGATTCTCAGCACATTTTTTTTCTTTT
TCTTAAAGTTCATACGATGCATTTAAATCAAATAATCTCATATATTAACAACATTTGACATAATA
GGTCATTGTTTTACTCGTAGATATAACAATCATTCACACTTAAGTATCATTCTTTAATACTAATA
ATTCACAAAATCATTGACTGAATGTACATGAGTACATAAAGAAATTTTAACATATAATTCATATA
CC
Found at i:21271168 original size:39 final size:39
Alignment explanation
Indices: 21271105--21271268 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
21271095 GAATTTAAAC
* * * * *
21271105 CCGG-TATAATACCAGCTCGAAGCCTGCGGGA-CTTTAGC
1 CCGGATATAATTCCAGCACGTAGCCTGC-GGACCTTAAGT
* * * *
21271143 CCGGACATATTTTCAGCACGTAGCCTGCAGACCTTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
* *
21271182 CCGGTTATAATTCCAGCATGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
*
21271221 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
21271260 CCGGATATA
1 CCGGATATA
21271269 CTTCATCACT
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
38 6 0.06
39 100 0.94
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
Found at i:21271983 original size:29 final size:28
Alignment explanation
Indices: 21271941--21272000 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 28
21271931 ATATATATAC
21271941 TTATATATGACTATCACAATTTAAATCAT
1 TTATATATGACTATCACAATTT-AATCAT
21271970 TTATATATGACTATCACAATTTAATCAT
1 TTATATATGACTATCACAATTTAATCAT
21271998 TTA
1 TTA
21272001 CTCATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (28 bp):
TTATATATGACTATCACAATTTAATCAT
Found at i:21280072 original size:18 final size:18
Alignment explanation
Indices: 21280026--21280072 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
21280016 ATTATTCTAA
*
21280026 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
21280043 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
21280061 TAATTTT-TTTAT
1 T-ATTTTATTTAT
21280073 CTTACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:21282825 original size:17 final size:17
Alignment explanation
Indices: 21282803--21282836 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21282793 GAATTTAAAC
21282803 TTGAGATGCTACTTGAG
1 TTGAGATGCTACTTGAG
*
21282820 TTGAGATGCTATTTGAG
1 TTGAGATGCTACTTGAG
21282837 AAAGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (17 bp):
TTGAGATGCTACTTGAG
Found at i:21282946 original size:15 final size:16
Alignment explanation
Indices: 21282922--21282954 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21282912 TGTTGCGGTT
21282922 AAAAAGTATTTTT-AA
1 AAAAAGTATTTTTGAA
*
21282937 AAAAATTATTTTTGAA
1 AAAAAGTATTTTTGAA
21282953 AA
1 AA
21282955 GTATGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAAAGTATTTTTGAA
Found at i:21282977 original size:25 final size:26
Alignment explanation
Indices: 21282936--21282984 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
21282926 AGTATTTTTA
* *
21282936 AAAAAATTATTTTTGAAAAGTATGAT
1 AAAAAATTATTTATGAAAAATATGAT
21282962 AAAAAATTA-TTATGAAAAATATG
1 AAAAAATTATTTATGAAAAATATG
21282985 GACAGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (26 bp):
AAAAAATTATTTATGAAAAATATGAT
Found at i:21282980 original size:26 final size:25
Alignment explanation
Indices: 21282936--21282984 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
21282926 AGTATTTTTA
*
21282936 AAAAAATTATTTTTGAAAAGTATGAT
1 AAAAAATTATTTATGAAAA-TATGAT
21282962 AAAAAATTA-TTATGAAAAATATG
1 AAAAAATTATTTATG-AAAATATG
21282985 GACAGTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (25 bp):
AAAAAATTATTTATGAAAATATGAT
Found at i:21295881 original size:46 final size:46
Alignment explanation
Indices: 21295814--21295907 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
21295804 AGTTTTCCTT
21295814 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
1 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
21295860 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
1 AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
21295906 AA
1 AA
21295908 CCAGGTAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (46 bp):
AATAGTTATTACCATTGCCTTTTTAAGCAGTTAAGCCTCACTTCCC
Found at i:21296181 original size:17 final size:17
Alignment explanation
Indices: 21296167--21296200 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21296157 AAATATACAC
21296167 AGTATGACCATATACCT
1 AGTATGACCATATACCT
21296184 AGTATGACCATATACCT
1 AGTATGACCATATACCT
21296201 GCAGCTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
AGTATGACCATATACCT
Found at i:21301972 original size:20 final size:20
Alignment explanation
Indices: 21301930--21301973 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21301920 AATTTAAATC
* *
21301930 ATTTTTTAATTTTTATTTGT
1 ATTTTGTAATTTATATTTGT
21301950 ATTTTGTAATTTAATATTT-T
1 ATTTTGTAATTT-ATATTTGT
21301970 ATTT
1 ATTT
21301974 GATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTTGTAATTTATATTTGT
Found at i:21309852 original size:14 final size:15
Alignment explanation
Indices: 21309832--21309866 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
21309822 AAAAAAAAAT
*
21309832 TATATTATTAATTTA
1 TATATTAATAATTTA
21309847 -ATATTAATAATTTA
1 TATATTAATAATTTA
21309861 TATATT
1 TATATT
21309867 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTAATAATTTA
Found at i:21312933 original size:2 final size:2
Alignment explanation
Indices: 21312926--21312952 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21312916 GGTAATTCCT
21312926 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21312953 TTAAGCTACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21313957 original size:25 final size:25
Alignment explanation
Indices: 21313910--21313962 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
21313900 AATTATTTTT
* *
21313910 ATTTTATAATTGAAAATAATTATTTA
1 ATTTTATAAATGAAAAGAATTA-TTA
*
21313936 ATTTTATAAAT-AAAAGAGTTATTA
1 ATTTTATAAATGAAAAGAATTATTA
21313960 ATT
1 ATT
21313963 AAAAAGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 8 0.33
26 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATTTTATAAATGAAAAGAATTATTA
Found at i:21315175 original size:29 final size:29
Alignment explanation
Indices: 21315142--21315198 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
21315132 TATTTTATTA
*
21315142 TTAATTTTGTTTTTATTTTAAAGGCATTG
1 TTAATTTTGTTATTATTTTAAAGGCATTG
*
21315171 TTAATTTTGTTATTATTTTAGAGGCATT
1 TTAATTTTGTTATTATTTTAAAGGCATT
21315199 TGCTTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.58
Consensus pattern (29 bp):
TTAATTTTGTTATTATTTTAAAGGCATTG
Found at i:21315872 original size:22 final size:20
Alignment explanation
Indices: 21315837--21315880 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
21315827 TTAGGTTTAA
21315837 ATAAATTTATTAATATTTATTT
1 ATAAATTTATTAAT-TTT-TTT
21315859 ATAAATTT-TCTAATTTTTTT
1 ATAAATTTAT-TAATTTTTTT
21315879 AT
1 AT
21315881 TTTGTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATAAATTTATTAATTTTTTT
Found at i:21316761 original size:22 final size:23
Alignment explanation
Indices: 21316721--21316773 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
21316711 TAATTTTGTT
*
21316721 ATTTGAATTATAAAATAAAAATAA
1 ATTTCAATTATAAAATAAAAA-AA
*
21316745 A-TTCAATT-TAAAGTAAAAAAA
1 ATTTCAATTATAAAATAAAAAAA
21316766 ATTTCAAT
1 ATTTCAAT
21316774 ATCTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 16 0.62
23 6 0.23
24 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (23 bp):
ATTTCAATTATAAAATAAAAAAA
Found at i:21331853 original size:10 final size:10
Alignment explanation
Indices: 21331834--21331865 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
21331824 ATTAAAATGA
*
21331834 AAAAAAGGCT
1 AAAAAGGGCT
21331844 AAAAAGGGCT
1 AAAAAGGGCT
21331854 AAAAAGGGCT
1 AAAAAGGGCT
21331864 AA
1 AA
21331866 TAACAACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.25, T:0.09
Consensus pattern (10 bp):
AAAAAGGGCT
Found at i:21336195 original size:6 final size:6
Alignment explanation
Indices: 21336186--21336224 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
21336176 GAAAGATACC
* *
21336186 GTAACA GTAACA TTAACA GTAATA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
21336225 TCGGTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:21338435 original size:3 final size:3
Alignment explanation
Indices: 21338429--21338458 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21338419 TGATGAGATT
21338429 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21338459 CGGGGAGCGC
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):
GAA
Found at i:21339053 original size:30 final size:30
Alignment explanation
Indices: 21339019--21339106 Score: 158
Period size: 30 Copynumber: 2.9 Consensus size: 30
21339009 CTTAACAAGT
**
21339019 AAATGTCCCTAAAATAATAACAAAATTAAC
1 AAATGTCTTTAAAATAATAACAAAATTAAC
21339049 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGTCTTTAAAATAATAACAAAATTAAC
21339079 AAATGTCTTTAAAATAATAACAAAATTA
1 AAATGTCTTTAAAATAATAACAAAATTA
21339107 GCAATAAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
AAATGTCTTTAAAATAATAACAAAATTAAC
Found at i:21341488 original size:5 final size:5
Alignment explanation
Indices: 21341478--21341502 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21341468 TGTTTAAAGG
21341478 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
21341503 TAAGTTTTAA
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:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:21342398 original size:21 final size:21
Alignment explanation
Indices: 21342369--21342408 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21342359 AGTTACACGA
*
21342369 CTAGATCACACGGGCATGTCC
1 CTAGATCACACAGGCATGTCC
*
21342390 CTAGGTCACACAGGCATGT
1 CTAGATCACACAGGCATGT
21342409 GCCTTAGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
CTAGATCACACAGGCATGTCC
Found at i:21342782 original size:13 final size:14
Alignment explanation
Indices: 21342764--21342794 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21342754 AGGCATTCTA
21342764 ATTCTGTAT-TTTG
1 ATTCTGTATGTTTG
21342777 ATTCTGTATGTTTG
1 ATTCTGTATGTTTG
21342791 ATTC
1 ATTC
21342795 CAAAGAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.58
Consensus pattern (14 bp):
ATTCTGTATGTTTG
Found at i:21345028 original size:20 final size:20
Alignment explanation
Indices: 21344990--21345037 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
21344980 TAATTTTTAA
* **
21344990 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
21345010 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
21345030 AAA-ATAAA
1 AAAGATAAA
21345038 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:21345081 original size:15 final size:15
Alignment explanation
Indices: 21345061--21345090 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21345051 ATAATCCTAA
*
21345061 TAATTATCTTAATAT
1 TAATTATCCTAATAT
21345076 TAATTATCCTAATAT
1 TAATTATCCTAATAT
21345091 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:21345815 original size:16 final size:17
Alignment explanation
Indices: 21345778--21345819 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
21345768 CTTATATCAA
*
21345778 TAAAA-TAAAATAATTT
1 TAAAATTAAAATAACTT
21345794 TAAAAATTAAAAT-ACTT
1 T-AAAATTAAAATAACTT
21345811 TAAAATTAA
1 TAAAATTAA
21345820 CTTAATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATTAAAATAACTT
Found at i:21347691 original size:24 final size:24
Alignment explanation
Indices: 21347664--21347714 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
21347654 GACAGCGGTG
*
21347664 GAGATGAATATGAATATGAGG-GTC
1 GAGATGAACATGAATATG-GGAGTC
21347688 GAGATGAACATGAATATGGGAGTC
1 GAGATGAACATGAATATGGGAGTC
21347712 GAG
1 GAG
21347715 GTGCTAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.22
Consensus pattern (24 bp):
GAGATGAACATGAATATGGGAGTC
Found at i:21349586 original size:19 final size:19
Alignment explanation
Indices: 21349562--21349659 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
21349552 AATCTTTAAG
21349562 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21349581 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21349600 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21349617 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21349636 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
21349657 GAT
1 GAT
21349660 CTTGTAATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21349592 original size:36 final size:35
Alignment explanation
Indices: 21349552--21349659 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
21349542 ATGGAAATAT
21349552 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
21349588 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
21349624 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
21349660 CTTGTAATAT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:21355793 original size:44 final size:44
Alignment explanation
Indices: 21355733--21356316 Score: 431
Period size: 44 Copynumber: 13.3 Consensus size: 44
21355723 CAGAGAAACA
* *
21355733 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAATATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * ***
21355777 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTT
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
21355822 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGAGAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * *
21355865 AAATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
21355909 AGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
21355954 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGAGAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
21355997 AGATTTGGCATCCCTGTGTTTATAGGGAACAAAACGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * ***
21356041 AGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTT
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
21356086 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* ** * * *
21356129 AGATTTTTCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
** * * * * ***
21356173 AGATCTAACA-CTCCTGTGATTACAGCGAAGCAGATTGAAGATTTT
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
21356218 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
21356261 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* *
21356305 AAATCTGACATC
1 AGATCTGGCATC
21356317 TCCATTTCGA
Statistics
Matches: 418, Mismatches: 94, Indels: 56
0.74 0.17 0.10
Matches are distributed among these distances:
42 4 0.01
43 49 0.12
44 306 0.73
45 59 0.14
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:21355972 original size:132 final size:132
Alignment explanation
Indices: 21355733--21356315 Score: 995
Period size: 132 Copynumber: 4.4 Consensus size: 132
21355723 CAGAGAAACA
* * * *
21355733 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAATATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
21355798 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
21355863 GC
131 GC
* *
21355865 AAATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
*
21355930 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
21355995 GC
131 GC
*
21355997 AGATTTGGCATCCCTGTGTTTATAGGGAACAAAACGAAGATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
*
21356062 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
21356127 GC
131 GC
** * * * *
21356129 AGATTTTTCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGTAGATCTAACACTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
* *
21356194 ACAGCGAAGCAGATTGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
21356259 GC
131 GC
* *
21356261 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAAATCTGACAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACAT
21356316 CTCCATTTCG
Statistics
Matches: 423, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 423 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAGA
GC
Found at i:21356912 original size:19 final size:19
Alignment explanation
Indices: 21356888--21356985 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
21356878 AATCTTTAAG
21356888 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21356907 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21356926 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21356943 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAT
21356962 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
21356983 GAT
1 GAT
21356986 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.66
21 8 0.11
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21356918 original size:36 final size:35
Alignment explanation
Indices: 21356878--21356985 Score: 121
Period size: 36 Copynumber: 2.9 Consensus size: 35
21356868 ATGGAAATAT
21356878 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
21356914 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
21356950 AATCTTTGATATGATATGCAATCTTGAAGATATGAT
1 AATCTTT-A-A-GATATGCAATCTT--AGATATGAT
21356986 CTTGTAATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.45
37 2 0.03
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:21359547 original size:17 final size:19
Alignment explanation
Indices: 21359505--21359548 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21359495 TCCTAAACAA
21359505 AAAAAACTCTAACCCTCTT
1 AAAAAACTCTAACCCTCTT
*
21359524 AACAAACTCTAA-CC-CTT
1 AAAAAACTCTAACCCTCTT
21359541 AAAAAACT
1 AAAAAACT
21359549 ATAAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAACTCTAACCCTCTT
Found at i:21384138 original size:20 final size:19
Alignment explanation
Indices: 21384082--21384152 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
21384072 AAAAAAATAA
21384082 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
* *
21384102 ATTTTAAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
21384121 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
21384141 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
21384153 TTTTTGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 3 0.07
19 25 0.56
20 17 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:21384153 original size:20 final size:20
Alignment explanation
Indices: 21384082--21384152 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
21384072 AAAAAAATAA
*
21384082 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
*
21384102 ATTTT-AAATTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
21384121 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
21384141 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
21384153 TTTTTGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 10 0.22
19 12 0.27
20 23 0.51
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:21392878 original size:27 final size:27
Alignment explanation
Indices: 21392848--21392903 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
21392838 ACTTATAACA
21392848 CATAGCATGAAAATTGATCATTCCCAT
1 CATAGCATGAAAATTGATCATTCCCAT
21392875 CATAGCATGAAAATTGATCATTCCCAT
1 CATAGCATGAAAATTGATCATTCCCAT
21392902 CA
1 CA
21392904 CCTTTATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (27 bp):
CATAGCATGAAAATTGATCATTCCCAT
Found at i:21393414 original size:3 final size:3
Alignment explanation
Indices: 21393406--21393437 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21393396 CACCAGTTGC
*
21393406 TCT TCT TCT TCT TCT TCT TCT TCT TCT ACT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
21393438 CTCAAGCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:21394920 original size:17 final size:18
Alignment explanation
Indices: 21394898--21394935 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
21394888 ATATAAATAT
* *
21394898 ATTTTTTAATATT-ATTA
1 ATTTTTAAAAATTAATTA
21394915 ATTTTTAAAAATTAATTA
1 ATTTTTAAAAATTAATTA
21394933 ATT
1 ATT
21394936 GTAAATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTAAAAATTAATTA
Found at i:21396592 original size:15 final size:15
Alignment explanation
Indices: 21396574--21396604 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21396564 TTTTAGTGGA
21396574 TTTCATTTTAGTCAC
1 TTTCATTTTAGTCAC
*
21396589 TTTCATTTTGGTCAC
1 TTTCATTTTAGTCAC
21396604 T
1 T
21396605 CAGTTTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.10, T:0.55
Consensus pattern (15 bp):
TTTCATTTTAGTCAC
Found at i:21408717 original size:22 final size:21
Alignment explanation
Indices: 21408668--21408718 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
21408658 ATATAACCAA
*
21408668 AAATAAATAAAAATTGAAAAT
1 AAATAAATAAAAATTAAAAAT
** *
21408689 ACTTAAATCAATAATTAAAAAT
1 AAATAAAT-AAAAATTAAAAAT
21408711 AAATAAAT
1 AAATAAAT
21408719 GATAAAAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAATAAAAATTAAAAAT
Found at i:21411571 original size:30 final size:30
Alignment explanation
Indices: 21411535--21411595 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
21411525 TACACCCCAT
*
21411535 TTAGTATGTACCACCTTATTTTGGTCCGTA
1 TTAGTATGTACCACCTTATTCTGGTCCGTA
21411565 TTAGTATGTACCACCTTATTCTGGTCCGTA
1 TTAGTATGTACCACCTTATTCTGGTCCGTA
21411595 T
1 T
21411596 CATAGCCCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (30 bp):
TTAGTATGTACCACCTTATTCTGGTCCGTA
Found at i:21415216 original size:23 final size:23
Alignment explanation
Indices: 21415147--21415234 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 23
21415137 ACCTGATCAG
* *
21415147 AATACGACACATAAAGTGCCT-A
1 AATACGACACATGAGGTGCCTGA
21415169 AA-ACGACACATGAGGTGCCTG-
1 AATACGACACATGAGGTGCCTGA
*
21415190 -ATACGACACACGAGGTGCCTGA
1 AATACGACACATGAGGTGCCTGA
* *
21415212 AATACGACACATAAAGTGCCTGA
1 AATACGACACATGAGGTGCCTGA
21415235 TCAGTAAAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.61
22 2 0.04
23 19 0.34
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
AATACGACACATGAGGTGCCTGA
Found at i:21415233 original size:44 final size:42
Alignment explanation
Indices: 21415148--21415235 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
21415138 CCTGATCAGA
* * *
21415148 ATACGACACATAAAGTGCCTAAAACGACACATGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACATAAAGTGCCTG
* *
21415190 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCT-AAA-ACGACACATAAAGTGCCTG
21415234 AT
1 AT
21415236 CAGTAAAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 17 0.44
43 3 0.08
44 19 0.49
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACATAAAGTGCCTG
Found at i:21416403 original size:23 final size:23
Alignment explanation
Indices: 21416376--21416432 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
21416366 AAATTAGTTA
*
21416376 TTTTATTACAAGTGTA-C-ATAT
1 TTTTATTACAAATGTACCAATAT
21416397 CTATTTATTACAAATGTACCAATAT
1 -T-TTTATTACAAATGTACCAATAT
21416422 TTTTATTACAA
1 TTTTATTACAA
21416433 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 24 0.77
24 2 0.06
25 4 0.13
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTATTACAAATGTACCAATAT
Found at i:21416673 original size:3 final size:3
Alignment explanation
Indices: 21416665--21416726 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
21416655 TAATGAAACC
* ** *
21416665 ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21416710 ATA ATTA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA A
21416727 AATCTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.