Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 89 of 126
Found at i:27175691 original size:30 final size:30
Alignment explanation
Indices: 27175607--27175684 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
27175597 TATTTTATAA
*
27175607 TTAAAATTATAAAAAAATTATACA-AAATC
1 TTAAAATTATAAAAAAATTATAAAGAAATC
* * * *
27175636 ATAAAGTTTATATAAAAATTATAAAGAAATT
1 TTAAA-ATTATAAAAAAATTATAAAGAAATC
27175667 TTAAAATTATAAAAAAAT
1 TTAAAATTATAAAAAAAT
27175685 ATTAAAGTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 4 0.10
30 27 0.69
31 8 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
TTAAAATTATAAAAAAATTATAAAGAAATC
Found at i:27175819 original size:18 final size:17
Alignment explanation
Indices: 27175796--27175832 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
27175786 ATCATTAAAA
*
27175796 ATAAAAATGATATAAATT
1 ATAAAAATG-TAAAAATT
27175814 ATAAAAATGTAAAAATT
1 ATAAAAATGTAAAAATT
27175831 AT
1 AT
27175833 GAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAAAAATGTAAAAATT
Found at i:27176203 original size:9 final size:10
Alignment explanation
Indices: 27176157--27176215 Score: 61
Period size: 10 Copynumber: 6.2 Consensus size: 10
27176147 TAATAAAAAA
27176157 TTAT-ATTTT
1 TTATAATTTT
*
27176166 TT-TACTTTT
1 TTATAATTTT
*
27176175 ATATAATTTT
1 TTATAATTTT
*
27176185 TAAT-ATTTT
1 TTATAATTTT
*
27176194 TTGTAATTTT
1 TTATAATTTT
27176204 TTATAATTTT
1 TTATAATTTT
27176214 TT
1 TT
27176216 TCACTTTTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
8 1 0.03
9 14 0.36
10 24 0.62
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTATAATTTT
Found at i:27176208 original size:29 final size:28
Alignment explanation
Indices: 27176159--27176252 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 28
27176149 ATAAAAAATT
*
27176159 ATATTTTTTTACTTTTATATAATTTTTA
1 ATATTTTTTTAATTTTATATAATTTTTA
*
27176187 ATATTTTTTGTAATTTTTTATAATTTTT-
1 ATATTTTTT-TAATTTTATATAATTTTTA
* * * *
27176215 TTCACTTTTCTATATTTT-TATAATATTTA
1 AT-ATTTTTTTA-ATTTTATATAATTTTTA
27176244 AT-TTTTTTT
1 ATATTTTTTT
27176253 GGTATTTTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
27 5 0.09
28 21 0.40
29 27 0.51
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (28 bp):
ATATTTTTTTAATTTTATATAATTTTTA
Found at i:27176215 original size:20 final size:19
Alignment explanation
Indices: 27176178--27176253 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
27176168 TACTTTTATA
27176178 TAATTTTTAATATTTTTTG
1 TAATTTTTAATATTTTTTG
*
27176197 TAATTTTTTATAATTTTTT-
1 TAATTTTTAAT-ATTTTTTG
* *
27176216 TCACTTTTCT-ATA-TTTTTA
1 T-AATTTT-TAATATTTTTTG
* *
27176235 TAATATTTAATTTTTTTTG
1 TAATTTTTAATATTTTTTG
27176254 GTATTTTAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
17 1 0.02
18 11 0.24
19 18 0.40
20 14 0.31
21 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (19 bp):
TAATTTTTAATATTTTTTG
Found at i:27176362 original size:18 final size:17
Alignment explanation
Indices: 27176339--27176421 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 17
27176329 TTAATAATTA
* *
27176339 TTTTATATTTTTTTACTT
1 TTTTATAATTTTATA-TT
27176357 TTTTATAATTTTATATT
1 TTTTATAATTTTATATT
* *
27176374 TTTTTTCA-TTTATAATTGT
1 TTTTATAATTTTAT-A-T-T
* * *
27176393 TTTTATAAATTTCTATA
1 TTTTATAATTTTATATT
27176410 TTTTATAATTTT
1 TTTTATAATTTT
27176422 TTCACCTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.10
17 20 0.38
18 15 0.29
19 8 0.15
20 4 0.08
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (17 bp):
TTTTATAATTTTATATT
Found at i:27176486 original size:20 final size:19
Alignment explanation
Indices: 27176453--27176490 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27176443 TTCTTAGAAG
*
27176453 TATTTTTTTTATAATTTTA
1 TATTTTTTTAATAATTTTA
27176472 TATTATTTTTAATAATTTT
1 TATT-TTTTTAATAATTTT
27176491 TAATGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTTTTTAATAATTTTA
Found at i:27176499 original size:20 final size:19
Alignment explanation
Indices: 27176458--27176520 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
27176448 AGAAGTATTT
*
27176458 TTTTTATAA-TTTTATATTA
1 TTTTTATAATTTTTA-ATGA
27176477 TTTTTAATAATTTTTAATGA
1 TTTTT-ATAATTTTTAATGA
**
27176497 TTTTTATGGTTTTTTAATGA
1 TTTTTAT-AATTTTTAATGA
27176517 TTTT
1 TTTT
27176521 AAAAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 7 0.18
20 26 0.68
21 5 0.13
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTATAATTTTTAATGA
Found at i:27176520 original size:10 final size:10
Alignment explanation
Indices: 27176476--27176520 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
27176466 ATTTTATATT
*
27176476 ATTTTTAATA
1 ATTTTTAATG
27176486 ATTTTTAATG
1 ATTTTTAATG
27176496 ATTTTT-ATGG
1 ATTTTTAAT-G
*
27176506 TTTTTTAATG
1 ATTTTTAATG
27176516 ATTTT
1 ATTTT
27176521 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:27184817 original size:20 final size:20
Alignment explanation
Indices: 27184743--27184938 Score: 87
Period size: 20 Copynumber: 9.8 Consensus size: 20
27184733 GCATCATAGA
*
27184743 TGCATAATAGGGGCACCAAAG
1 TGCA-AATAGGGGCACCGAAG
*
27184764 TGC-AATAAGGAGCACC-AATG
1 TGCAAAT-AGGGGCACCGAA-G
** * *
27184784 TGGGATTAGAGGCACCGAAG
1 TGCAAATAGGGGCACCGAAG
* *
27184804 TGCAAATAGGGGCACAGATG
1 TGCAAATAGGGGCACCGAAG
** *
27184824 TGCATTTAGGGGTACCGAAG
1 TGCAAATAGGGGCACCGAAG
* *
27184844 TACAAACAGGGGCA-CGTAAG
1 TGCAAATAGGGGCACCG-AAG
* * *
27184864 TAC-AATAAGGGGTACCAAAG
1 TGCAAAT-AGGGGCACCGAAG
* * *
27184884 TACAAACAGGGGCA-TGTAAG
1 TGCAAATAGGGGCACCG-AAG
* * *
27184904 TGCCATTAGGGGCACCAAAG
1 TGCAAATAGGGGCACCGAAG
**
27184924 AACAAATAGGGGCAC
1 TGCAAATAGGGGCAC
27184939 GTAAATGCAA
Statistics
Matches: 127, Mismatches: 38, Indels: 21
0.68 0.20 0.11
Matches are distributed among these distances:
19 9 0.07
20 108 0.85
21 10 0.08
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.15
Consensus pattern (20 bp):
TGCAAATAGGGGCACCGAAG
Found at i:27184825 original size:40 final size:39
Alignment explanation
Indices: 27184754--27184858 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 39
27184744 GCATAATAGG
* * *
27184754 GGCACCAAAGTGC-AATAAGGAGCACCAATGTGGGA-TTAGA
1 GGCACCGAAGTGCAAAT-AGGGGCA-CAATGT-GCATTTAGA
*
27184794 GGCACCGAAGTGCAAATAGGGGCACAGATGTGCATTTAGG
1 GGCACCGAAGTGCAAATAGGGGCACA-ATGTGCATTTAGA
* * *
27184834 GGTACCGAAGTACAAACAGGGGCAC
1 GGCACCGAAGTGCAAATAGGGGCAC
27184859 GTAAGTACAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.07
40 48 0.87
41 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.14
Consensus pattern (39 bp):
GGCACCGAAGTGCAAATAGGGGCACAATGTGCATTTAGA
Found at i:27184875 original size:40 final size:40
Alignment explanation
Indices: 27184831--27184991 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
27184821 ATGTGCATTT
* *
27184831 AGGGGTACCGAAGTACAAACAGGGGCACGTAAGTACAATA
1 AGGGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATA
* * *
27184871 AGGGGTACCAAAGTACAAACAGGGGCATGTAAGTGCCATT
1 AGGGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATA
* * * * *
27184911 AGGGGCACCAAAGAACAAATAGGGGCACGTAAATGCAATC
1 AGGGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATA
** * *
27184951 AGGGGTACTGAAGTAGAAACAGGGGCACGTAAGTGTAATA
1 AGGGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATA
27184991 A
1 A
27184992 TTTAATAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.14
Consensus pattern (40 bp):
AGGGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATA
Found at i:27184984 original size:20 final size:20
Alignment explanation
Indices: 27184841--27184984 Score: 103
Period size: 20 Copynumber: 7.2 Consensus size: 20
27184831 AGGGGTACCG
27184841 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
* **
27184861 AAGTACAATA-AGGGGTACCA
1 AAGTACAA-ACAGGGGCACGT
*
27184881 AAGTACAAACAGGGGCATGT
1 AAGTACAAACAGGGGCACGT
* * ** **
27184901 AAGTGCCATTAGGGGCACCA
1 AAGTACAAACAGGGGCACGT
* *
27184921 AAGAACAAATAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
* * * *
27184941 AAATGCAATCAGGGGTAC-T
1 AAGTACAAACAGGGGCACGT
*
27184960 GAAGTAGAAACAGGGGCACGT
1 -AAGTACAAACAGGGGCACGT
27184981 AAGT
1 AAGT
27184985 GTAATAATTT
Statistics
Matches: 89, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
19 2 0.02
20 85 0.96
21 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.14
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACGT
Found at i:27186144 original size:17 final size:18
Alignment explanation
Indices: 27186112--27186150 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
27186102 ACTTGAACTT
*
27186112 AATAAATCTCTTAAATAA
1 AATAAATCTATTAAATAA
*
27186130 AATAAAT-TATTAAATCA
1 AATAAATCTATTAAATAA
27186147 AATA
1 AATA
27186151 CCTTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCTATTAAATAA
Found at i:27194378 original size:7 final size:7
Alignment explanation
Indices: 27194366--27194390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27194356 AAAATCATAG
27194366 AAAATTT
1 AAAATTT
27194373 AAAATTT
1 AAAATTT
27194380 AAAATTT
1 AAAATTT
27194387 AAAA
1 AAAA
27194391 ACAACCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:27196135 original size:23 final size:23
Alignment explanation
Indices: 27196103--27196149 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27196093 CATAGTTATC
* *
27196103 AATGAGAATGG-TGGAGGTTGCAT
1 AATGACAATGGAT-GAGGTTCCAT
27196126 AATGACAATGGATGAGGTTCCAT
1 AATGACAATGGATGAGGTTCCAT
27196149 A
1 A
27196150 GTGTCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (23 bp):
AATGACAATGGATGAGGTTCCAT
Found at i:27197775 original size:6 final size:6
Alignment explanation
Indices: 27197764--27197796 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27197754 CATTGTAGCC
27197764 ATGGCA ATGGCA ATGGCA ATGGCA ATGGCA ATG
1 ATGGCA ATGGCA ATGGCA ATGGCA ATGGCA ATG
27197797 ATCAGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (6 bp):
ATGGCA
Found at i:27198352 original size:3 final size:3
Alignment explanation
Indices: 27198344--27198369 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27198334 AGGATTTTTA
27198344 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
27198370 AGTAATTACG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:27203212 original size:14 final size:13
Alignment explanation
Indices: 27203180--27203229 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
27203170 TGTGAATCAA
*
27203180 AATTAAAGT-ATT
1 AATTAAACTAATT
27203192 AATTAAACTAATT
1 AATTAAACTAATT
*
27203205 ATATTAAATTAATT
1 A-ATTAAACTAATT
27203219 AACTTAAACTA
1 AA-TTAAACTA
27203230 TGCTGATGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 5 0.16
14 19 0.59
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (13 bp):
AATTAAACTAATT
Found at i:27204889 original size:20 final size:20
Alignment explanation
Indices: 27204852--27204904 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
27204842 CCTCCAATTC
** *
27204852 AAAGTATCGATATTAATTTG
1 AAAGTATCGATACAAATTAG
*
27204872 AATGTATCGATACAAATTAG
1 AAAGTATCGATACAAATTAG
*
27204892 AAAATATCGATAC
1 AAAGTATCGATAC
27204905 TAAACAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (20 bp):
AAAGTATCGATACAAATTAG
Found at i:27206091 original size:25 final size:25
Alignment explanation
Indices: 27206054--27206114 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27206044 ATGGGAGAAT
* *
27206054 GCTCGCACAAGTTGTAACAGTAAAG
1 GCTCACACGAGTTGTAACAGTAAAG
* * *
27206079 GCTCACACGAGTTGTACCTGTAAAT
1 GCTCACACGAGTTGTAACAGTAAAG
*
27206104 GCTCATACGAG
1 GCTCACACGAG
27206115 CTATGGGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCACACGAGTTGTAACAGTAAAG
Found at i:27208409 original size:15 final size:15
Alignment explanation
Indices: 27208391--27208423 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27208381 AAATAATAAG
27208391 AAAGGAAATAAATGA
1 AAAGGAAATAAATGA
*
27208406 AAAGTAAATAAATGA
1 AAAGGAAATAAATGA
27208421 AAA
1 AAA
27208424 ACAAGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (15 bp):
AAAGGAAATAAATGA
Found at i:27210941 original size:30 final size:30
Alignment explanation
Indices: 27210861--27210944 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 30
27210851 ATATTTGCAT
* * * *
27210861 TATCATACTCTGTAATAATTCATATTTTCA
1 TATCATACCCTGTAATCATTCACATTTACA
**
27210891 TATTCATACCCTGTCTTCATTCACATTTACA
1 TA-TCATACCCTGTAATCATTCACATTTACA
*
27210922 TATCATACCCTATAATCATTCAC
1 TATCATACCCTGTAATCATTCAC
27210945 GTTTTCATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 20 0.45
31 24 0.55
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
TATCATACCCTGTAATCATTCACATTTACA
Found at i:27212772 original size:17 final size:18
Alignment explanation
Indices: 27212750--27212789 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
27212740 AAACTATAAT
27212750 CATTTCCA-TATTTTTC-C
1 CATTTCCACTA-TTTTCAC
27212767 CATTT-CACTATTTTCAC
1 CATTTCCACTATTTTCAC
27212784 CATTTC
1 CATTTC
27212790 TATAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (18 bp):
CATTTCCACTATTTTCAC
Found at i:27212773 original size:50 final size:57
Alignment explanation
Indices: 27212666--27212782 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 57
27212656 CAGGTCACTT
27212666 TATTTTCATGTTGAAAAAACTATAATCATTTCCAAATGATTTCATTTCTCCATTTTCA-
1 TATTTTCATGTTGAAAAAACTATAATCATTTCC-AATGATTT-ATTTCTCCATTTTCAC
* *
27212724 T-TTTTCATTTTAGAGAAAACTATAATCATTTCC-AT-A-TT-TTTC-CCA-TTTCAC
1 TATTTTCATGTT-GAAAAAACTATAATCATTTCCAATGATTTATTTCTCCATTTTCAC
27212775 TATTTTCA
1 TATTTTCA
27212783 CCATTTCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
50 5 0.09
51 4 0.07
52 10 0.19
54 2 0.04
55 1 0.02
56 2 0.04
57 9 0.17
58 21 0.39
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (57 bp):
TATTTTCATGTTGAAAAAACTATAATCATTTCCAATGATTTATTTCTCCATTTTCAC
Found at i:27213967 original size:31 final size:31
Alignment explanation
Indices: 27213933--27214059 Score: 166
Period size: 31 Copynumber: 4.1 Consensus size: 31
27213923 GAATATGTTT
* *
27213933 TATACATTGCCAAATTTGATTTATATATGGT
1 TATACATTGCCGAATTTGATTTATATATGGA
* *
27213964 TATACATTGCTGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTATATATGGA
* *
27213995 TATTCATTGCCGAATTTGATTTGTATA-GAGA
1 TATACATTGCCGAATTTGATTTATATATG-GA
* *
27214026 TATACATTGCCGAATTTGATTCATATATTGA
1 TATACATTGCCGAATTTGATTTATATATGGA
27214057 TAT
1 TAT
27214060 TTGTTGCCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.01
31 83 0.99
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTATATATGGA
Found at i:27214011 original size:62 final size:61
Alignment explanation
Indices: 27213937--27214077 Score: 167
Period size: 62 Copynumber: 2.3 Consensus size: 61
27213927 ATGTTTTATA
* * **
27213937 CATTGCCAAATTTGATTTATATATG-GTTATACATTGCTGAATTTGATTTGTATATGGATATT
1 CATTGCC-AATTTGATTTATATA-GAGATATACATTGCCGAATTTGATTCATATATGGATATT
* *
27213999 CATTGCCGAATTTGATTTGTATAGAGATATACATTGCCGAATTTGATTCATATATTGATATT
1 CATTGCC-AATTTGATTTATATAGAGATATACATTGCCGAATTTGATTCATATATGGATATT
** *
27214061 TGTTGCCAAATTGATTT
1 CATTGCCAATTTGATTT
27214078 GAGCATTAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
61 10 0.15
62 58 0.85
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (61 bp):
CATTGCCAATTTGATTTATATAGAGATATACATTGCCGAATTTGATTCATATATGGATATT
Found at i:27214067 original size:31 final size:31
Alignment explanation
Indices: 27213937--27214078 Score: 142
Period size: 31 Copynumber: 4.6 Consensus size: 31
27213927 ATGTTTTATA
* * * * *
27213937 CATTGCCAAATTTGATTTATATATGGTTATA
1 CATTGCCGAATTTGATTTGTATATAGATATT
* *
27213968 CATTGCTGAATTTGATTTGTATATGGATATT
1 CATTGCCGAATTTGATTTGTATATAGATATT
* *
27213999 CATTGCCGAATTTGATTTGTATAGAGATATA
1 CATTGCCGAATTTGATTTGTATATAGATATT
** *
27214030 CATTGCCGAATTTGATTCATATATTGATATT
1 CATTGCCGAATTTGATTTGTATATAGATATT
** *
27214061 TGTTGCC-AAATTGATTTG
1 CATTGCCGAATTTGATTTG
27214079 AGCATTAGAT
Statistics
Matches: 92, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
30 8 0.09
31 84 0.91
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (31 bp):
CATTGCCGAATTTGATTTGTATATAGATATT
Found at i:27214263 original size:43 final size:43
Alignment explanation
Indices: 27214202--27214317 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
27214192 TGTGATTTCG
* * *
27214202 TGTAAGACCATGTTTGGGACATCGGCATCGAAGTTAGAAAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAACA
* **
27214245 TGTAAGACCATGTCTGGGACGTTGGCATCGAAGTGAGAAAATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAACA
*
27214288 TGTAAGACCATGTCTAGGACATTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
27214318 TATATGATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAACA
Found at i:27221896 original size:26 final size:26
Alignment explanation
Indices: 27221866--27221915 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
27221856 ATACTTGTAC
*
27221866 TGTAAATTGTTATACATACATACCGA
1 TGTAAATTGCTATACATACATACCGA
*
27221892 TGTAAATTGCTATACGTACATACC
1 TGTAAATTGCTATACATACATACC
27221916 AATTGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (26 bp):
TGTAAATTGCTATACATACATACCGA
Found at i:27232226 original size:27 final size:27
Alignment explanation
Indices: 27232195--27232421 Score: 265
Period size: 27 Copynumber: 8.4 Consensus size: 27
27232185 CCCTAAAATA
*
27232195 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * *
27232222 GGTAAAATAAACGAAAAACCCTCAAAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
27232249 GGTAAAATGACCGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
27232276 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
27232303 GGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
27232330 GGTAAAATGACTGAAATACCACCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * **
27232357 GGTAAAATGATCGAAATGCCTTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** *
27232384 GGTAAAATGATCGAAATACCATCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
27232411 GGTAAAATGAC
1 GGTAAAATGAC
27232422 TGTTATACCC
Statistics
Matches: 174, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:27233080 original size:11 final size:11
Alignment explanation
Indices: 27233064--27233088 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27233054 CCCAAACTGC
27233064 ATTTATCTACT
1 ATTTATCTACT
27233075 ATTTATCTACT
1 ATTTATCTACT
27233086 ATT
1 ATT
27233089 GTAGGCGGGT
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:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTATCTACT
Found at i:27237916 original size:27 final size:27
Alignment explanation
Indices: 27237874--27237958 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
27237864 AGCATGTCAA
*
27237874 GAAAGGAAAAGCCTTTGTGGCGAATTAT
1 GAAA-GAAAAGCCTTTATGGCGAATTAT
* * * *
27237902 GAAAGAAAAGGCTTTTTAGCGAATCAT
1 GAAAGAAAAGCCTTTATGGCGAATTAT
* *
27237929 GAAAGAAAAGCCTTTATGGCAAACTAT
1 GAAAGAAAAGCCTTTATGGCGAATTAT
27237956 GAA
1 GAA
27237959 GGATAGTCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 43 0.91
28 4 0.09
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTATGGCGAATTAT
Found at i:27242520 original size:75 final size:74
Alignment explanation
Indices: 27242389--27242560 Score: 227
Period size: 75 Copynumber: 2.3 Consensus size: 74
27242379 CGGAAGTTAC
* * * * *
27242389 GCCCAGTGCTAGTCGGATAAACCGACGAATAATTAGTGAGCGCAGCTCTAGTTGGATAAAGCAAC
1 GCCCAGTGCTAGTCGGATAAACCAACAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAAC
**
27242454 GTTATTTGT
66 AATATTTGT
* * *
27242463 GCCCAGTGCTATTTGGATAAACCAACAAAATAAATGGTGAGCCCAGCTCTAGTTGGATAAACCAA
1 GCCCAGTGCTAGTCGGATAAACCAAC-AAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAA
27242528 CAATATTTGT
65 CAATATTTGT
* *
27242538 GCCCAGCGCAAGTCGGATAAACC
1 GCCCAGTGCTAGTCGGATAAACC
27242561 GACGAATATG
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 23 0.28
75 60 0.72
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (74 bp):
GCCCAGTGCTAGTCGGATAAACCAACAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAAC
AATATTTGT
Found at i:27242578 original size:34 final size:34
Alignment explanation
Indices: 27242503--27242578 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
27242493 TAAATGGTGA
* * *
27242503 GCCCAGCTCTAGTTGGATAAACCAACAATATTTGT
1 GCCCAGCGCAAGTCGGATAAACCAACAATA-TTGT
*
27242538 GCCCAGCGCAAGTCGGATAAACCGACGAATA-TGT
1 GCCCAGCGCAAGTCGGATAAACCAAC-AATATTGT
27242572 GCCCAGC
1 GCCCAGC
27242579 ACTAGTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 10 0.28
35 22 0.61
36 4 0.11
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (34 bp):
GCCCAGCGCAAGTCGGATAAACCAACAATATTGT
Found at i:27254472 original size:27 final size:27
Alignment explanation
Indices: 27254448--27254514 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
27254438 ATTAGAGCAC
*
27254448 ATAATCAGGAAGCCCTCTCTTGAGCCAT
1 ATAA-CAGGAAGCCCTCTCTCGAGCCAT
*
27254476 ATAACGGGAAGCCCTCTCTCGAGCCAT
1 ATAACAGGAAGCCCTCTCTCGAGCCAT
*
27254503 ATAACGGGAAGC
1 ATAACAGGAAGC
27254515 TCATGTGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.19
Consensus pattern (27 bp):
ATAACAGGAAGCCCTCTCTCGAGCCAT
Found at i:27254532 original size:25 final size:25
Alignment explanation
Indices: 27254468--27254556 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
27254458 AGCCCTCTCT
*
27254468 TGAGCCATATAACGGGAAGCCCTC-TC
1 TGAGCCATATAACGGGAAG--CTCATG
27254494 TCGAGCCATATAACGGGAAGCTCATG
1 T-GAGCCATATAACGGGAAGCTCATG
*
27254520 TGAGCCATGTAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
*
27254545 CGAGCCA-ATAAC
1 TGAGCCATATAAC
27254557 ATGTAGCTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.07
25 32 0.56
26 3 0.05
27 18 0.32
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:27254646 original size:24 final size:24
Alignment explanation
Indices: 27254619--27254677 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
27254609 AAGTTCAAGC
27254619 GAGCCATATCGGGAAGCTCACAAA
1 GAGCCATATCGGGAAGCTCACAAA
* * *
27254643 GAGCCTTTAATCGGTAAGCTCACGAA
1 GAGCC-AT-ATCGGGAAGCTCACAAA
27254669 GAGCCATAT
1 GAGCCATAT
27254678 GACGGGACGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 7 0.24
25 2 0.07
26 20 0.69
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (24 bp):
GAGCCATATCGGGAAGCTCACAAA
Found at i:27257066 original size:10 final size:10
Alignment explanation
Indices: 27257051--27257075 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27257041 AAAACTGTCT
27257051 TTTTTTTTTC
1 TTTTTTTTTC
27257061 TTTTTTTTTC
1 TTTTTTTTTC
27257071 TTTTT
1 TTTTT
27257076 AAGAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:27259522 original size:1 final size:1
Alignment explanation
Indices: 27259518--27259545 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
27259508 CCCCCCCCCC
27259518 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
27259546 GGAGAGGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27262935 original size:125 final size:126
Alignment explanation
Indices: 27262633--27262947 Score: 497
Period size: 126 Copynumber: 2.5 Consensus size: 126
27262623 GATAAAATCA
* * * * * *
27262633 AAGCAGGATGCTTTTTGAGAAGAATATGTCAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGC
*
27262698 AGGTTCTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
27262759 AAGCATGATGCTTTATGAGAAGAATTTGTGAAACCGTGCCCTCGTGAACGCGCTTTTGCTACAGC
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGC
*
27262824 AGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
27262884 AAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGTGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAG
27262948 TAGTATGTTT
Statistics
Matches: 172, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
125 69 0.40
126 103 0.60
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGC
AGGTCCTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:27266360 original size:21 final size:21
Alignment explanation
Indices: 27266336--27266382 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
27266326 GCAACGGTTG
*
27266336 TGGTTCCTCCGGTAGGG-ATTC
1 TGGTTCCTCCAGTAGGGCA-TC
27266357 TGGTTCCTCCAGTAGGGCATC
1 TGGTTCCTCCAGTAGGGCATC
27266378 TGGTT
1 TGGTT
27266383 GTCGGAGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.11, C:0.23, G:0.32, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCAGTAGGGCATC
Found at i:27267323 original size:7 final size:7
Alignment explanation
Indices: 27267313--27267338 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27267303 TTATATACAT
27267313 AATACTA
1 AATACTA
27267320 AATACTA
1 AATACTA
27267327 AATACTA
1 AATACTA
27267334 AATAC
1 AATAC
27267339 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:27267544 original size:20 final size:20
Alignment explanation
Indices: 27267507--27267544 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27267497 ATTATTTTTA
*
27267507 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
27267527 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
27267545 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:27268517 original size:22 final size:23
Alignment explanation
Indices: 27268487--27268545 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
27268477 TAAAAATAGG
*
27268487 ATTTAAGAGAAATTTAAGAGG-A
1 ATTTGAGAGAAATTTAAGAGGTA
*
27268509 ATTTGAGAGCAAA-TTGAGAGGTA
1 ATTTGAGAG-AAATTTAAGAGGTA
27268532 A-TTGAGAGGAAATT
1 ATTTGAGA-GAAATT
27268546 GAGAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (23 bp):
ATTTGAGAGAAATTTAAGAGGTA
Found at i:27268525 original size:11 final size:11
Alignment explanation
Indices: 27268503--27268549 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
27268493 GAGAAATTTA
*
27268503 AGAGGAATTTG
1 AGAGGAAATTG
*
27268514 AGAGCAAATTG
1 AGAGGAAATTG
*
27268525 AGAGGTAATTG
1 AGAGGAAATTG
27268536 AGAGGAAATTG
1 AGAGGAAATTG
27268547 AGA
1 AGA
27268550 AAATAATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:27268556 original size:23 final size:22
Alignment explanation
Indices: 27268511--27268562 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
27268501 TAAGAGGAAT
**
27268511 TTGAGAGCAAATTGAGAGGTAA
1 TTGAGAGCAAATTGAGAAATAA
*
27268533 TTGAGAGGAAATTGAGAAAATAA
1 TTGAGAGCAAATTGAG-AAATAA
27268556 TTGAGAG
1 TTGAGAG
27268563 ATGATTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (22 bp):
TTGAGAGCAAATTGAGAAATAA
Found at i:27273422 original size:25 final size:25
Alignment explanation
Indices: 27273394--27273443 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27273384 ATTCTAAATA
27273394 TCTCTTTAGGTTAAATTCGTTTACC
1 TCTCTTTAGGTTAAATTCGTTTACC
*
27273419 TCTCTTTAGGTTAAATTTGTTTACC
1 TCTCTTTAGGTTAAATTCGTTTACC
27273444 CCATATGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (25 bp):
TCTCTTTAGGTTAAATTCGTTTACC
Found at i:27277414 original size:29 final size:29
Alignment explanation
Indices: 27277378--27277455 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
27277368 TTACAAAAAT
*
27277378 ATAA-TTTGTACATGATGGGTTCTGAA-AA
1 ATAATTTTG-ACAAGATGGGTTCTGAAGAA
* ****
27277406 ATAGTTTTGGGGGGATGGGTTCTGAAGAA
1 ATAATTTTGACAAGATGGGTTCTGAAGAA
27277435 ATAATTTTGACAAGATGGGTT
1 ATAATTTTGACAAGATGGGTT
27277456 GAGTTTTGTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (29 bp):
ATAATTTTGACAAGATGGGTTCTGAAGAA
Found at i:27279762 original size:15 final size:16
Alignment explanation
Indices: 27279744--27279776 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27279734 TAAGTTAATG
27279744 AAATGGAA-AGTAAGT
1 AAATGGAATAGTAAGT
*
27279759 AAATGGAATGGTAAGT
1 AAATGGAATAGTAAGT
27279775 AA
1 AA
27279777 GTAAATGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (16 bp):
AAATGGAATAGTAAGT
Found at i:27279790 original size:20 final size:20
Alignment explanation
Indices: 27279716--27279785 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
27279706 GCTTATGCTC
27279716 AGTAAATGGAATGGAAAGTA
1 AGTAAATGGAATGGAAAGTA
* *
27279736 AGTTAATGAAATGGAAAGTA
1 AGTAAATGGAATGGAAAGTA
*
27279756 AGTAAATGGAATGGTAAGTA
1 AGTAAATGGAATGGAAAGTA
27279776 AGTAAATGGA
1 AGTAAATGGA
27279786 GTGGTTCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.23
Consensus pattern (20 bp):
AGTAAATGGAATGGAAAGTA
Found at i:27281523 original size:16 final size:16
Alignment explanation
Indices: 27281502--27281536 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27281492 TTGAAATTGA
27281502 AGAAGTTCAAAAAAAT
1 AGAAGTTCAAAAAAAT
* *
27281518 AGAAGTTCAGAAGAAT
1 AGAAGTTCAAAAAAAT
27281534 AGA
1 AGA
27281537 GGTTGGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (16 bp):
AGAAGTTCAAAAAAAT
Found at i:27285525 original size:19 final size:19
Alignment explanation
Indices: 27285501--27285538 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27285491 CTAAAAAAGT
27285501 TGAGAGAATGATGA-ATGAG
1 TGAGAG-ATGATGAGATGAG
27285520 TGAGAGATGATGAGATGAG
1 TGAGAGATGATGAGATGAG
27285539 GGATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATGAGATGAG
Found at i:27300305 original size:12 final size:12
Alignment explanation
Indices: 27300288--27300314 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27300278 GGAACAGCCT
27300288 AAGCTTAAACTA
1 AAGCTTAAACTA
27300300 AAGCTTAAACTA
1 AAGCTTAAACTA
27300312 AAG
1 AAG
27300315 GTACTTCCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (12 bp):
AAGCTTAAACTA
Found at i:27319123 original size:94 final size:94
Alignment explanation
Indices: 27319019--27319708 Score: 803
Period size: 94 Copynumber: 7.4 Consensus size: 94
27319009 CTACAATTTT
* * * ** * * * *
27319019 TATACCCCTAAAGTTGCAGTAGGTTAGAATGAAACTACAATGGTGAATCTTATCTCCCTGAAGTT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
** * * *
27319084 ACAGTGGAGTAAGATGAAGTTATAAATCC
66 GTAGTGGAGCAAGATGAAGCTACAAATCC
* ** * * *
27319113 TATACCCCTAAAGTTACAGTGGGTTTGATTGAAGCTACCATAGCGAATCTTATCTCCTTGAAGTT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
* *
27319178 GCAGTGGAGTAAGATGAAGCTACAAATCC
66 GTAGTGGAGCAAGATGAAGCTACAAATCC
* * * *
27319207 TATACCCTTGAAGTTGCAGCGGGTC-GCATTGAAGTTACCATAGCGAATCTTAGT-TACCTAAAG
1 TATACCCCTAAAGTTGCAGTGGGTCAG-ATTGAAGTTACCATAGCGAATCTTA-TCTCCCTAAAG
*
27319270 TTATAGTGGAGCAAGATGAAGCTACAAATCC
64 TTGTAGTGGAGCAAGATGAAGCTACAAATCC
* * * * * * *
27319301 TATACCCCTAAAGCTGTAATGGGTCAGAATAAAGTTACTAT-GCTGAATCTTATCTCCCTAAATT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGC-GAATCTTATCTCCCTAAAGT
*
27319365 TGCAGTGGAGCAAGATGAAGCTACAAATCC
65 TGTAGTGGAGCAAGATGAAGCTACAAATCC
* * * * * *
27319395 TATGCCTCTGAAGTTGTAGT-GGTCAGATTTAAGTTACCATAGCAAATCTTATCTCCCTAAAGTT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
* *
27319459 GTAGTGGAGCAAGATGAAGCTCCAAATCG
66 GTAGTGGAGCAAGATGAAGCTACAAATCC
* * *
27319488 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAACAAATCTTATCTCCCTGAAGTT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
*
27319553 GTAGTGGAGTAAGATGAAGCTACAAATCC
66 GTAGTGGAGCAAGATGAAGCTACAAATCC
* * * * * * * *
27319582 TATATCCCTGAAGTTGTAATGGGTCAGATTGAAGTTATCATAACAAATCTTATCTCTCTAAAGTT
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
*
27319647 GTAGTGGAGCAAGATTAAGCTACAAATCC
66 GTAGTGGAGCAAGATGAAGCTACAAATCC
* *
27319676 TATACCCTTGAAGTTGCAGTGGGTCAGATTGAA
1 TATACCCCTAAAGTTGCAGTGGGTCAGATTGAA
27319709 ACTACAATAA
Statistics
Matches: 516, Mismatches: 73, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
93 82 0.16
94 432 0.84
95 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (94 bp):
TATACCCCTAAAGTTGCAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTT
GTAGTGGAGCAAGATGAAGCTACAAATCC
Found at i:27319500 original size:44 final size:44
Alignment explanation
Indices: 27319263--27319697 Score: 210
Period size: 44 Copynumber: 9.4 Consensus size: 44
27319253 ATCTTAGTTA
*
27319263 CCTAAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACC
1 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
* * * * *
27319307 CCTAAAGCTGTAATGG-GTC-AGAATAAAGTTACTATGCTGAATCTTAT-CTC
1 CCTAAAGTTGTAGTGGAG-CAAG-ATGAAG---CTA--C-AAATCCTATAC-C
* * *
27319357 CCTAAATTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATGCC
1 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
* * * * *
27319401 TCTGAAGTTGTAGTGG-TC-AGATTTAAGTTACCATAGCAAATCTTAT-CTC
1 CCTAAAGTTGTAGTGGAGCAAGA-TGAAG----C-TA-CAAATCCTATAC-C
* *
27319450 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTCCAAATCGTATACC
1 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
* *
27319494 CCTAAAGTTGCAGTGG-GTC-AGATTGAAGTTACCATAACAAATCTTAT-CTC
1 CCTAAAGTTGTAGTGGAG-CAAGA-TGAAG----C-T-ACAAATCCTATAC-C
* * *
27319544 CCTGAAGTTGTAGTGGAGTAAGATGAAGCTACAAATCCTATATC
1 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
* * *
27319588 CCTGAAGTTGTAATGG-GTC-AGATTGAAGTTATCATAACAAATCTTAT-CTC
1 CCTAAAGTTGTAGTGGAG-CAAGA-TGAAG----C-T-ACAAATCCTATAC-C
* *
27319638 TCTAAAGTTGTAGTGGAGCAAGATTAAGCTACAAATCCTATACC
1 CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
* * *
27319682 CTTGAAGTTGCAGTGG
1 CCTAAAGTTGTAGTGG
27319698 GTCAGATTGA
Statistics
Matches: 297, Mismatches: 47, Indels: 94
0.68 0.11 0.21
Matches are distributed among these distances:
42 3 0.01
43 16 0.05
44 124 0.42
45 7 0.02
46 3 0.01
47 7 0.02
48 5 0.02
49 29 0.10
50 89 0.30
51 14 0.05
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
Found at i:27319649 original size:50 final size:49
Alignment explanation
Indices: 27319405--27319728 Score: 226
Period size: 44 Copynumber: 6.9 Consensus size: 49
27319395 TATGCCTCTG
* *
27319405 AAGTTGTAGT-GGTCAGATTTAAGTTACCATAGCAAATCTTATCTCCCTA
1 AAGTTGTAGTGGGTCAGATTGAAGTTA-CATAACAAATCTTATCTCCCTA
* *
27319454 AAGTTGTAGTGGAG-CAAGA-TGAAG---C-T-CCAAATCGTATAC-CCCTA
1 AAGTTGTAGTGG-GTC-AGATTGAAGTTACATAACAAATCTTAT-CTCCCTA
* *
27319498 AAGTTGCAGTGGGTCAGATTGAAGTTACCATAACAAATCTTATCTCCCTG
1 AAGTTGTAGTGGGTCAGATTGAAGTTA-CATAACAAATCTTATCTCCCTA
* * * *
27319548 AAGTTGTAGTGGAGTAAGA-TGAAG---C-T-ACAAATCCTATATCCCTG
1 AAGTTGTAGTGG-GTCAGATTGAAGTTACATAACAAATCTTATCTCCCTA
* *
27319592 AAGTTGTAATGGGTCAGATTGAAGTTATCATAACAAATCTTATCTCTCTA
1 AAGTTGTAGTGGGTCAGATTGAAGTTA-CATAACAAATCTTATCTCCCTA
* * *
27319642 AAGTTGTAGTGGAG-CAAGATT-AAG---C-T-ACAAATCCTATAC-CCTTG
1 AAGTTGTAGTGG-GTC-AGATTGAAGTTACATAACAAATCTTAT-CTCCCTA
* **
27319686 AAGTTGCAGTGGGTCAGATTGAAACTACAATAACAAATCTTAT
1 AAGTTGTAGTGGGTCAGATTGAAGTTAC-ATAACAAATCTTAT
27319729 TTAATTGAAG
Statistics
Matches: 218, Mismatches: 25, Indels: 63
0.71 0.08 0.21
Matches are distributed among these distances:
43 15 0.07
44 89 0.41
45 5 0.02
46 3 0.01
47 1 0.00
48 2 0.01
49 14 0.06
50 74 0.34
51 15 0.07
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (49 bp):
AAGTTGTAGTGGGTCAGATTGAAGTTACATAACAAATCTTATCTCCCTA
Found at i:27319786 original size:47 final size:48
Alignment explanation
Indices: 27319685--27319790 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 48
27319675 CTATACCCTT
*
27319685 GAAGTTGCAGTGGGTCAGATTGAAACTACAATAACAAATCTTATTTAATT
1 GAAGTTGCAGTGGGTCAGATTGAAACTAC-A-AACAAATCTTATTTAATC
** *
27319735 GAAGTTGCAGTGGGTTGGATTGAAACTAC-AACAAATCTTATCTT-CTC
1 GAAGTTGCAGTGGGTCAGATTGAAACTACAAACAAATCTTAT-TTAATC
27319782 GAAGTTGCA
1 GAAGTTGCA
27319791 ATGGAGCAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
47 22 0.43
48 2 0.04
50 27 0.53
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (48 bp):
GAAGTTGCAGTGGGTCAGATTGAAACTACAAACAAATCTTATTTAATC
Found at i:27320128 original size:15 final size:16
Alignment explanation
Indices: 27320103--27320137 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27320093 CCCAAATACA
*
27320103 AAAACCCTAAAAGCCT
1 AAAACCCTAAAAGCCC
27320119 AAAA-CCTAAAAGCCC
1 AAAACCCTAAAAGCCC
27320134 AAAA
1 AAAA
27320138 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAACCCTAAAAGCCC
Found at i:27321373 original size:29 final size:28
Alignment explanation
Indices: 27321311--27321395 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
27321301 TAGTCCTTTA
27321311 CTTATTTAATTTC-ACCCCTTTT-ATTTT
1 CTTATTTAATTTCTA-CCCTTTTAATTTT
*
27321338 CTGTTATTCAATTTCTAGCCCTTTTAATTTT
1 C--TTATTTAATTTCTA-CCCTTTTAATTTT
*
27321369 CTTATTTATATTTTTACCC-TTTAATTT
1 CTTATTTA-ATTTCTACCCTTTTAATTT
27321396 GCGTAACTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
27 1 0.02
28 8 0.16
29 20 0.41
30 14 0.29
31 6 0.12
ACGTcount: A:0.20, C:0.19, G:0.02, T:0.59
Consensus pattern (28 bp):
CTTATTTAATTTCTACCCTTTTAATTTT
Found at i:27321638 original size:11 final size:11
Alignment explanation
Indices: 27321622--27321646 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27321612 ATCTTCCTGA
27321622 TATTACTTTTT
1 TATTACTTTTT
27321633 TATTACTTTTT
1 TATTACTTTTT
27321644 TAT
1 TAT
27321647 CATTGTTTTT
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:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTACTTTTT
Found at i:27323457 original size:21 final size:21
Alignment explanation
Indices: 27323423--27323462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27323413 ATAAAAATAT
*
27323423 AAATATGTACATATATATAAA
1 AAATAGGTACATATATATAAA
* *
27323444 AAATAGGTATATATGTATA
1 AAATAGGTACATATATATA
27323463 TATATATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATAGGTACATATATATAAA
Found at i:27323687 original size:20 final size:18
Alignment explanation
Indices: 27323662--27323713 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
27323652 TGCATGAATA
27323662 ATAATAGATTAATAACATTT
1 ATAATA-ATTAATAACA-TT
27323682 ATAATAATGATAATAACATT
1 ATAATAAT--TAATAACATT
*
27323702 AAAATAATTAAT
1 ATAATAATTAAT
27323714 TAAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
19 2 0.07
20 15 0.52
21 8 0.28
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAATAATTAATAACATT
Found at i:27325473 original size:14 final size:14
Alignment explanation
Indices: 27325451--27325496 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
27325441 AATTTACAAC
27325451 ATATACAAATAAAT
1 ATATACAAATAAAT
* * *
27325465 ATTTGCAAATATAT
1 ATATACAAATAAAT
27325479 ATATACAAATACAAT
1 ATATACAAATA-AAT
27325494 ATA
1 ATA
27325497 ACAGTAAAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:27327307 original size:90 final size:90
Alignment explanation
Indices: 27327141--27327539 Score: 441
Period size: 90 Copynumber: 4.5 Consensus size: 90
27327131 AGATCTGTAA
* * * ***
27327141 TCTTCAATCTATTCCACCACCAGTATGGGGA-G-AATATTTGTTGTATTTGATCTACTTCACGCC
1 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTTACCTTTGATCTACTTCACGCC
*
27327204 -GATACATAAAGACAAGATTTGCTTT
66 AG-TACATGAAGACAAGATTTGCTTT
* * *
27327229 TCTTCAATCTGCTCCACCACCAATATGGGGAGGCAAGATCTATTACCTTTGATCTACTTCACGCC
1 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTTACCTTTGATCTACTTCACGCC
*
27327294 AGTACATGAAGACAAGATCTG-TTT
66 AGTACATGAAGACAAGATTTGCTTT
* ** * *** * * * * *
27327318 CCTTTGATCTGCTTTGCCACCAGTATGAGGAGACAATATATGTTACCTTTGATCTACTTCACACC
1 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTTACCTTTGATCTACTTCACGCC
*
27327383 AGTACATGAAGACAAGATTTGTTTT
66 AGTACATGAAGACAAGATTTGCTTT
* *
27327408 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTCATCC-TTGATCTATTTCACGC
1 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTTA-CCTTTGATCTACTTCACGC
*
27327472 CAGTACATGAAGACAAGATTTACTTT
65 CAGTACATGAAGACAAGATTTGCTTT
* * * * **
27327498 T-TCCGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGT
1 TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGT
27327540 ATATTCGATC
Statistics
Matches: 259, Mismatches: 47, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
88 28 0.11
89 111 0.43
90 117 0.45
91 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (90 bp):
TCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTTACCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATTTGCTTT
Found at i:27327311 original size:44 final size:44
Alignment explanation
Indices: 27327262--27328043 Score: 460
Period size: 44 Copynumber: 17.6 Consensus size: 44
27327252 TATGGGGAGG
* * *
27327262 CAAGATCTATTACCTTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
*
27327306 CAAGATCTGTT-TCCTTTGATCTGCTTTGC-CACCAGT--ATGAGGAGA
1 CAAGATCTGTTAT-CTTTGATCTAC-TT-CACACCAGTACATGA--AGA
* * *
27327351 CAATATATGTTACCTTTGATCTACTTCACACCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* * ** * *** * *
27327395 CAAGATTTGTTTTTCTTCAATCTACTCCACCACCAGTATGGGGAGG
1 CAAGATCTG-TTATCTTTGATCTACTTCA-CACCAGTACATGAAGA
* * * *
27327441 CAAGATCTGTCATCCTTGATCTATTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* ***
27327485 CAAGA--T-TTACTTTTTCCGATCTACTTCACCACCAGTATGGGAAGA
1 CAAGATCTGTTA-TCTTT--GATCTACTTCA-CACCAGTACATGAAGA
* * * * * * *
27327530 TAAGATCTG-TATATTCGATCCACTTCGCTACC-GATATAGGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCAC-ACCAG-TACATGAAGA
* * * *
27327574 CAGGACCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* * * * * * *** *
27327618 TAAGATTTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGA
1 CAAGATCTGTTATCTTTGATCTACTTCA-CACCAGTACATGAAGA
* * *
27327663 CAAAATATGTT-TCTTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* * * * ***
27327706 CAAGATCTGTTTTCTTCGATCTATTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTACATGAAGA
*** * * *
27327751 CAAGATCCACTATCTTTGATCTGCTTCACGCCAATACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* * ** * ***
27327795 CAAGATCTGTTTTCTTCGATCCGCTTCGCCACCAGTATGGGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTACATGAAGA
* *
27327840 CAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* * * * * *** *
27327884 CAATATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
1 CAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTACATGAAGA
* * *
27327929 CAAGATCTGTCATCCTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
* *
27327973 CAAGATCTACTT-T-TTCCGATCTACTTCACCACCAGT--ATGGAAAGA
1 CAAGATCT-GTTATCTT-TGATCTACTTCA-CACCAGTACAT-G-AAGA
* * *
27328018 TAAGATCTG-TATATTCGATCTACTTC
1 CAAGATCTGTTATCTTTGATCTACTTC
27328044 GCTACTGATA
Statistics
Matches: 547, Mismatches: 157, Indels: 68
0.71 0.20 0.09
Matches are distributed among these distances:
41 2 0.00
42 4 0.01
43 31 0.06
44 257 0.47
45 223 0.41
46 27 0.05
47 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
CAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGA
Found at i:27327519 original size:179 final size:175
Alignment explanation
Indices: 27327147--27327525 Score: 487
Period size: 179 Copynumber: 2.1 Consensus size: 175
27327137 GTAATCTTCA
* * ** *
27327147 ATCTA-TTCCACCACCAGTATGGGGAGAATATTTGTTGTATTTGATCTACTTCACGCCGATACAT
1 ATCTACTT-CACCACCAGTATGGGGACAATATATGTTACATTTGATCTACTTCACACCGATACAT
* *
27327211 AAAGACAAGATTTGCTTTTCTTCAATCTGCTCCACCACCAATATGGGGAGGCAAGATCTATTACC
65 AAAGACAAGATTTGCTTTTCTTCAATCTACTCCACCACCAATATGGGGAGGCAAGATCTATCACC
27327276 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCCTTTG
130 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCC--TG
* ** *
27327324 ATCTGCTTTGCCACCAGTATGAGGAGACAATATATGTTACCTTTGATCTACTTCACACC-AGTAC
1 ATCTACTTCACCACCAGTATG-GG-GACAATATATGTTACATTTGATCTACTTCACACCGA-TAC
* * * *
27327388 ATGAAGACAAGATTTGTTTTTCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAGATCTGTCA
63 ATAAAGACAAGATTTGCTTTTCTTCAATCTACTCCACCACCAATATGGGGAGGCAAGATCTATCA
* *
27327453 TCC-TTGATCTATTTCACGCCAGTACATGAAGACAAGATTTACTTTTTCC-G
128 -CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGA--T-CTGTTTCCTG
27327503 ATCTACTTCACCACCAGTATGGG
1 ATCTACTTCACCACCAGTATGGG
27327526 AAGATAAGAT
Statistics
Matches: 174, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
177 15 0.09
178 7 0.04
179 142 0.82
180 2 0.01
181 1 0.01
182 7 0.04
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (175 bp):
ATCTACTTCACCACCAGTATGGGGACAATATATGTTACATTTGATCTACTTCACACCGATACATA
AAGACAAGATTTGCTTTTCTTCAATCTACTCCACCACCAATATGGGGAGGCAAGATCTATCACCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCCTG
Found at i:27327610 original size:133 final size:133
Alignment explanation
Indices: 27327186--27328001 Score: 514
Period size: 133 Copynumber: 6.1 Consensus size: 133
27327176 ATTTGTTGTA
* * * * * *
27327186 TTTGATCTACTTCACGCC-GATACATAAAGACAAGATTTGCTTTTCTTCAATCTGCTCCACCACC
1 TTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACC
* * * * * * * * * * *
27327250 AATATGGGGAGGCAAGATCTATTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
65 AGTATGGGAAGACAAGATCTGTT-TCTTCGATCCACTTCGCACCAGTATAGGAAGACAAGATCTG
*
27327315 -TTTCC
129 CTAT-C
* * * * * ** *
27327320 TTTGATCTGCTTTGC-CACCAGT--ATGAGGAGACAATATAT-GTTACCTTTGATCTACTTCA-C
1 TTTGATCTAC-TT-CACGCCAGTACATGA--AGACAAGATCTACTTTTCTTCGATCTACTTCACC
*** * * * * * * * *
27327380 ACCAGTACATGAAGACAAGATTTGTTTTTCTTCAATCTACTCCACCACCAGTATGGGGAGGCAAG
62 ACCAGTATGGGAAGACAAGATCTG--TTTCTTCGATCCACTTC-GCACCAGTATAGGAAGACAAG
27327445 ATCTG-TCATC
124 ATCTGCT-ATC
* * * *
27327455 CTTGATCTATTTCACGCCAGTACATGAAGACAAGATTTACTTTT-TCCGATCTACTTCACCACCA
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACCA
* * * * *
27327519 GTATGGGAAGATAAGATCTGTATATTCGATCCACTTCGCTACC-GATATAGGAAGACAGGACCTG
66 GTATGGGAAGACAAGATCTGTTTCTTCGATCCACTTCGC-ACCAG-TATAGGAAGACAAGATCTG
27327583 CTATC
129 CTATC
* * *
27327588 TTTGATCTACTTCACGCCAGTACATGAAGATAAGATTTA-TTTTCTTCGATCTACTCCACCACCA
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACCA
* * * * * * * * * *
27327652 GTATGGGGAGACAAAATATGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT
66 GTATGGGAAGACAAGATCTGTTTCTTCGATCCACTTCGCACCAGTATAGGAAGACAAGATCTGCT
*
27327717 TTC
131 ATC
* * * * *** * * * * *
27327720 TTCGATCTATTTCGCCACCAGTATGGGAAGACAAGATCCAC-TATCTTTGATCTGCTTCA-CGCC
1 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACC
* *** * *
27327783 AATACATGAAGACAAGATCTGTTTTCTTCGATCCGCTTCGCCACCAGTATGGGAAGACAAGATCT
65 AGTATGGGAAGACAAGATCTG-TTTCTTCGATCCACTTCG-CACCAGTATAGGAAGACAAGATCT
*
27327848 GGTATC
128 GCTATC
* * * *
27327854 TTTGATCTACTTCACGCCAGTACATGAAGACAATATCT-GTTTTCTTCGATCTGCTTCGCCACCA
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACCA
* * * * * * * *
27327918 GTATGGGAAGGCAAGATCTGTCATCCTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTA
66 GTATGGGAAGACAAGATCTGT--TTCTTCGATCCACTTCGCACCAGTATAGGAAGACAAGATCTG
27327982 CT-T-
129 CTATC
27327985 TTTCCGATCTACTTCAC
1 TTT--GATCTACTTCAC
27328002 CACCAGTATG
Statistics
Matches: 512, Mismatches: 141, Indels: 59
0.72 0.20 0.08
Matches are distributed among these distances:
131 3 0.01
132 55 0.11
133 251 0.49
134 125 0.24
135 71 0.14
136 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (133 bp):
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCTTCGATCTACTTCACCACCA
GTATGGGAAGACAAGATCTGTTTCTTCGATCCACTTCGCACCAGTATAGGAAGACAAGATCTGCT
ATC
Found at i:27327636 original size:89 final size:88
Alignment explanation
Indices: 27327502--27328043 Score: 649
Period size: 89 Copynumber: 6.1 Consensus size: 88
27327492 TACTTTTTCC
* *** * * * * *
27327502 GATCTACTTCACCACCAGTATGGGAAGATAAGATCTG-TATATTCGATCCACTTCGCTACC-GAT
1 GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAG-T
* * *
27327565 ATAGGAAGACAGGACCTGCTATCTTT
64 ATGGGAAGACAAGATCTG-TATCTTT
* * * * *
27327591 GATCTACTTCACGCCAGTACATGAAGATAAGATTTATTTTCTTCGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
* * * *
27327656 GGGGAGACAAAATATGTTTCTTT
66 GGGAAGACAAGATCTGTATCTTT
*
27327679 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTATTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
**
27327744 GGGAAGACAAGATCCACTATCTTT
66 GGGAAGACAAGAT-CTGTATCTTT
* * **
27327768 GATCTGCTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCCGCTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
27327833 GGGAAGACAAGATCTGGTATCTTT
66 GGGAAGACAAGATCT-GTATCTTT
* *
27327857 GATCTACTTCACGCCAGTACATGAAGACAATATCTGTTTTCTTCGATCTGCTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
* *
27327922 GGGAAGGCAAGATCTGTCATCCTT
66 GGGAAGACAAGATCTGT-ATCTTT
* * *
27327946 GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTT-TCCGATCTACTTCACCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTTTTCTTCGATCTACTTCGCCACCAGTA
* * * *
27328010 TGGAAAGATAAGATCTGTATATTC
65 TGGGAAGACAAGATCTGTATCTTT
27328034 GATCTACTTC
1 GATCTACTTC
27328044 GCTACTGATA
Statistics
Matches: 392, Mismatches: 55, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
88 111 0.28
89 276 0.70
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (88 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGTATCTTT
Found at i:27335671 original size:16 final size:17
Alignment explanation
Indices: 27335652--27335690 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
27335642 AAAACATGTT
27335652 TATAAAAATATAT-ATA
1 TATAAAAATATATAATA
*
27335668 TAT-ATAATATATAATA
1 TATAAAAATATATAATA
27335684 TATAAAA
1 TATAAAA
27335691 GTTAAAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 8 0.42
16 9 0.47
17 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAAATATATAATA
Found at i:27335679 original size:7 final size:7
Alignment explanation
Indices: 27335658--27335688 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
27335648 TGTTTATAAA
27335658 AATATAT
1 AATATAT
27335665 ATATATAT
1 A-ATATAT
27335673 AATATAT
1 AATATAT
27335680 AATATAT
1 AATATAT
27335687 AA
1 AA
27335689 AAGTTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:27338947 original size:27 final size:27
Alignment explanation
Indices: 27338883--27338947 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
27338873 CTAGTTTGGG
*
27338883 AATATTTTT-AAAAAGTGTTTTTAAAA
1 AATATTTTTAAAAAAATGTTTTTAAAA
* * * **
27338909 AAAAGTTGTAAAAAAATGTTTTTCGAA
1 AATATTTTTAAAAAAATGTTTTTAAAA
27338936 AATATTTTTAAA
1 AATATTTTTAAA
27338948 GGGTAAATTA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AATATTTTTAAAAAAATGTTTTTAAAA
Found at i:27340079 original size:19 final size:20
Alignment explanation
Indices: 27340057--27340094 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27340047 TATATATTTA
27340057 AATAATATT-TAAATTAGTT
1 AATAATATTATAAATTAGTT
* *
27340076 AATATTATTATAATTTAGT
1 AATAATATTATAAATTAGT
27340095 AAGAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AATAATATTATAAATTAGTT
Found at i:27340516 original size:18 final size:18
Alignment explanation
Indices: 27340467--27340516 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
27340457 AGTTTTTCTT
**
27340467 CCAAAAGTGCTTTTGGAG
1 CCAAAAGTATTTTTGGAG
27340485 CCAAAAGTATTTTTGGAG
1 CCAAAAGTATTTTTGGAG
27340503 CCAAAAGTATTTTT
1 CCAAAAGTATTTTT
27340517 TAAGCACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
CCAAAAGTATTTTTGGAG
Found at i:27343063 original size:20 final size:20
Alignment explanation
Indices: 27343038--27343134 Score: 58
Period size: 20 Copynumber: 4.9 Consensus size: 20
27343028 TACGGGATTG
*
27343038 CACTTCGGTGCCTCTGTTTA
1 CACTTCAGTGCCTCTGTTTA
* * * *
27343058 CACTTCAGTGTCTTTATTCA
1 CACTTCAGTGCCTCTGTTTA
* * *
27343078 -AC-TAAGGTGCCTCTGGTTG
1 CACTTCA-GTGCCTCTGTTTA
*
27343097 CA-TAATC-GTGCCTCTGTTTG
1 CACT--TCAGTGCCTCTGTTTA
27343117 CACTTCAGTGCCTCTGTT
1 CACTTCAGTGCCTCTGTT
27343135 ACGCATTTAT
Statistics
Matches: 56, Mismatches: 14, Indels: 14
0.67 0.17 0.17
Matches are distributed among these distances:
18 2 0.04
19 11 0.20
20 41 0.73
21 1 0.02
22 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (20 bp):
CACTTCAGTGCCTCTGTTTA
Found at i:27347657 original size:207 final size:204
Alignment explanation
Indices: 27347271--27347675 Score: 589
Period size: 204 Copynumber: 2.0 Consensus size: 204
27347261 AAGATTTCTG
* * * *
27347271 CTGATATTCGACCATTTAAAGTTGCTGCAATTAGTTAGAAATTGACCAAAAAGCTTGCTGCTATC
1 CTGATATTCGACCATTTAAAGTTACTGCAACTAGTTAGAAATTGACCAAAAAGCTTACTGCTATA
* * * *
27347336 TAGTTAAAAATATTCACATAGTTTTATCTTTTGACAAGAGTTGTTTCAACTAGATATTGTCAAGA
66 TAGTTAAAAATAGTCACATAGTTCTATCTTTTGACAAGAGTTGTTTCAACTAGATACTGCCAAGA
* * *
27347401 TGATTCTAACATTTTCTTATTTAAGTTGATGATGATATGTTTTCAGATTAGGAAAAAATAGAAAA
131 TGATTCTAACATTTGCTTATTTAAGTTAATGATGATATGTTTCCAGATTAGGAAAAAATAGAAAA
27347466 GCACTACTA
196 GCACTACTA
* *
27347475 CTGATATTCGACCATTTAAAGTTACTGGAACTAGTTATAAATTGACCAGAAAA-CTTACTGCTAT
1 CTGATATTCGACCATTTAAAGTTACTGCAACTAGTTAGAAATTGACCA-AAAAGCTTACTGCTAT
* * * *
27347539 ATAGTTCAAAATAGTCAGATCGTTAGTTCTATCTTTTGCCAAGAGTTGTTTCAACTAGTTACTGC
65 ATAGTTAAAAATAGTC--A-C-ATAGTTCTATCTTTTGACAAGAGTTGTTTCAACTAGATACTGC
*
27347604 CAA-ATGATTCTAACATTTGCTTATTTAAGTTAATGATGTTATGTTTCCAGATTAGGAAAAAATA
126 CAAGATGATTCTAACATTTGCTTATTTAAGTTAATGATGATATGTTTCCAGATTAGGAAAAAATA
27347668 GAAAAGCA
191 GAAAAGCA
27347676 TATAGAGAAG
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
204 67 0.38
205 4 0.02
206 1 0.01
207 66 0.37
208 40 0.22
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (204 bp):
CTGATATTCGACCATTTAAAGTTACTGCAACTAGTTAGAAATTGACCAAAAAGCTTACTGCTATA
TAGTTAAAAATAGTCACATAGTTCTATCTTTTGACAAGAGTTGTTTCAACTAGATACTGCCAAGA
TGATTCTAACATTTGCTTATTTAAGTTAATGATGATATGTTTCCAGATTAGGAAAAAATAGAAAA
GCACTACTA
Found at i:27355317 original size:20 final size:20
Alignment explanation
Indices: 27355292--27355332 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27355282 TCTAACATAG
27355292 CTTGACACAAGCCTAGGCAT
1 CTTGACACAAGCCTAGGCAT
27355312 CTTGACACAAGCCTAGGCAT
1 CTTGACACAAGCCTAGGCAT
27355332 C
1 C
27355333 ATCAACAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (20 bp):
CTTGACACAAGCCTAGGCAT
Found at i:27359499 original size:103 final size:103
Alignment explanation
Indices: 27359382--27359569 Score: 340
Period size: 103 Copynumber: 1.8 Consensus size: 103
27359372 CAGCCCGAAT
* *
27359382 TATATATTAAATATATATATTTAATATGAATCAGGCCGAACTCGAACTTAACAATTTTCTTTCAT
1 TATATATTAAATATATATATTTAATATGAATCAAGCCGAACTCAAACTTAACAATTTTCTTTCAT
*
27359447 GCCAAGCTTGAAAACTTTTTAATCAAATATATATATTA
66 GCCAAGCTTGAAAAATTTTTAATCAAATATATATATTA
*
27359485 TATATATTAAATATATATATTTAATATGAGTCAAGCCGAACTCAAACTTAACAATTTTCTTTCAT
1 TATATATTAAATATATATATTTAATATGAATCAAGCCGAACTCAAACTTAACAATTTTCTTTCAT
27359550 GCCAAGCTTGAAAAATTTTT
66 GCCAAGCTTGAAAAATTTTT
27359570 TAAGCCCATA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (103 bp):
TATATATTAAATATATATATTTAATATGAATCAAGCCGAACTCAAACTTAACAATTTTCTTTCAT
GCCAAGCTTGAAAAATTTTTAATCAAATATATATATTA
Found at i:27360954 original size:36 final size:36
Alignment explanation
Indices: 27360891--27360983 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
27360881 ACCTGCAGAA
* * *
27360891 AAATACAATATTAGG-CAATACAACTTGTAGACGGC
1 AAATACAATATTAGGATAATACAACTTGTACACAGC
* *
27360926 AAATACAATATTAGGATAATACACCTTGTACATAGC
1 AAATACAATATTAGGATAATACAACTTGTACACAGC
27360962 AAATACAATATTAGGATAATAC
1 AAATACAATATTAGGATAATAC
27360984 CTGTTGTTGG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 15 0.29
36 37 0.71
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (36 bp):
AAATACAATATTAGGATAATACAACTTGTACACAGC
Found at i:27364103 original size:8 final size:8
Alignment explanation
Indices: 27364090--27364142 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
27364080 ATATAATAAA
27364090 TTTATTTT
1 TTTATTTT
27364098 TTTATTTT
1 TTTATTTT
27364106 TTTATTTT
1 TTTATTTT
*
27364114 TAAAATATTTTT
1 T---TTA-TTTT
27364126 TTTATTTT
1 TTTATTTT
27364134 TTTATTTT
1 TTTATTTT
27364142 T
1 T
27364143 AAAATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 30 0.77
9 2 0.05
11 2 0.05
12 5 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:27364126 original size:28 final size:28
Alignment explanation
Indices: 27364094--27364148 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
27364084 AATAAATTTA
27364094 TTTTTTTATTTTTTTATTTTTAAAATAT
1 TTTTTTTATTTTTTTATTTTTAAAATAT
27364122 TTTTTTTATTTTTTTATTTTTAAAATA
1 TTTTTTTATTTTTTTATTTTTAAAATA
27364149 AATTTTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTTTATTTTTTTATTTTTAAAATAT
Found at i:27364154 original size:28 final size:28
Alignment explanation
Indices: 27364095--27364155 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
27364085 ATAAATTTAT
**
27364095 TTTTTTATTTTTTTATTTTTAAAATATT
1 TTTTTTATTTTTTTATTTTTAAAATAAA
27364123 TTTTTTATTTTTTTATTTTTAAAATAAA
1 TTTTTTATTTTTTTATTTTTAAAATAAA
27364151 TTTTT
1 TTTTT
27364156 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTTATTTTTTTATTTTTAAAATAAA
Found at i:27369244 original size:27 final size:27
Alignment explanation
Indices: 27369185--27369251 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
27369175 TACTCATCAG
*
27369185 GCCCCATGTTTAATGTCCTAATAGACT
1 GCCCCGTGTTTAATGTCCTAATAGACT
** * * *
27369212 TTCCCGTGTTTACTGTCCTAGTGGACT
1 GCCCCGTGTTTAATGTCCTAATAGACT
*
27369239 GCCCCGTTTTTAA
1 GCCCCGTGTTTAA
27369252 CATCTTGACG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (27 bp):
GCCCCGTGTTTAATGTCCTAATAGACT
Found at i:27372836 original size:23 final size:23
Alignment explanation
Indices: 27372810--27372972 Score: 149
Period size: 23 Copynumber: 7.0 Consensus size: 23
27372800 TGGATATGTT
*
27372810 GAAGGGTATATTGGTTGTGGTTG
1 GAAGGGTATATTGGTTGTGTTTG
*
27372833 GAA-GGTATACTTGGTTGTG-TTC
1 GAAGGGTATA-TTGGTTGTGTTTG
*
27372855 GAAGGTTATATATATGGTTGTGTTTG
1 GAAGG--GTATAT-TGGTTGTGTTTG
*
27372881 GAA-GGTATATTTGGTTGTG-TTC
1 GAAGGGTATA-TTGGTTGTGTTTG
* *
27372903 GAAGGATACATATGGTTGTGTTTG
1 GAAGGGTATAT-TGGTTGTGTTTG
*
27372927 G-AGGGTAAATTGGTTGTGTTTG
1 GAAGGGTATATTGGTTGTGTTTG
*
27372949 G-AGGCTATGATTGGTTGTGTTTG
1 GAAGGGTAT-ATTGGTTGTGTTTG
27372972 G
1 G
27372973 TGGGTGATAG
Statistics
Matches: 117, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
22 35 0.30
23 59 0.50
24 5 0.04
25 13 0.11
26 5 0.04
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (23 bp):
GAAGGGTATATTGGTTGTGTTTG
Found at i:27372963 original size:68 final size:69
Alignment explanation
Indices: 27372814--27372969 Score: 187
Period size: 68 Copynumber: 2.2 Consensus size: 69
27372804 TATGTTGAAG
* *
27372814 GGTATATTGGTTGTGGTTGGAAGGTATACTTGGTTGTGTTCGAAGGTTATATATATGGTTGTGTT
1 GGTATATTGGTTGT-GTTCGAAGGTATACTTGGTTGTGTTCGAAGGGTATATATATGGTTGTGTT
27372879 TGGAA
65 TGGAA
* *
27372884 GGTATATTTGGTTGTGTTCGAAGG-ATACATATGGTTGTGTTTGGAGGGTA-A-AT-TGGTTGTG
1 GGTATA-TTGGTTGTGTTCGAAGGTATAC-T-TGGTTGTGTTCGAAGGGTATATATATGGTTGTG
27372945 TTTGG-A
63 TTTGGAA
27372951 GGCTATGATTGGTTGTGTT
1 GG-TAT-ATTGGTTGTGTT
27372970 TGGTGGGTGA
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
67 3 0.04
68 27 0.35
69 7 0.09
70 16 0.21
71 24 0.31
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.43
Consensus pattern (69 bp):
GGTATATTGGTTGTGTTCGAAGGTATACTTGGTTGTGTTCGAAGGGTATATATATGGTTGTGTTT
GGAA
Found at i:27372964 original size:45 final size:47
Alignment explanation
Indices: 27372806--27372972 Score: 186
Period size: 48 Copynumber: 3.7 Consensus size: 47
27372796 TAAGTGGATA
* * *
27372806 TGTT-GAAGGGTAT-AT-TGGTTGTGGTTGGAAGGTATACTTGGTTG
1 TGTTCGAAGGATATCATATGGTTGTGTTTGGAAGGTATAATTGGTTG
*
27372850 TGTTCGAAGGTTATAT-ATATGGTTGTGTTTGGAAGGTATATTTGGTTG
1 TGTTCGAAGG--ATATCATATGGTTGTGTTTGGAAGGTATAATTGGTTG
*
27372898 TGTTCGAAGGATA-CATATGGTTGTGTTTGGAGGGTA-AATTGGTTG
1 TGTTCGAAGGATATCATATGGTTGTGTTTGGAAGGTATAATTGGTTG
* * * *
27372943 TGTTTGGAGGCTATGAT-TGGTTGTGTTTGG
1 TGTTCGAAGGATATCATATGGTTGTGTTTGG
27372973 TGGGTGATAG
Statistics
Matches: 108, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 4 0.04
45 36 0.33
46 26 0.24
47 5 0.05
48 37 0.34
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.43
Consensus pattern (47 bp):
TGTTCGAAGGATATCATATGGTTGTGTTTGGAAGGTATAATTGGTTG
Found at i:27374681 original size:32 final size:32
Alignment explanation
Indices: 27374635--27374697 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
27374625 GCTAAATTTC
*
27374635 TAATCAATCCTAATTTATTCAAGGGTTTGTAT
1 TAATCAATCCTAATTTATTCAAGGATTTGTAT
* *
27374667 TAATCAATCTTAATTTCTTCAAGGATTTGTA
1 TAATCAATCCTAATTTATTCAAGGATTTGTA
27374698 CTAAATCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (32 bp):
TAATCAATCCTAATTTATTCAAGGATTTGTAT
Found at i:27374977 original size:24 final size:24
Alignment explanation
Indices: 27374949--27374994 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
27374939 TTTCTAGAAG
* * *
27374949 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATAAGCATAATAT
27374973 ATTTAGCATTTATAAGCATAAT
1 ATTTAGCATTTATAAGCATAAT
27374995 TTGTTTCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATAAGCATAATAT
Found at i:27379417 original size:6 final size:6
Alignment explanation
Indices: 27379406--27379441 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
27379396 TACGTTTGAA
27379406 AAAAAT AAAAAT AAAAAT AAAACA- AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT
27379442 GTATATAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.04
6 26 0.93
7 1 0.04
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:27379424 original size:99 final size:99
Alignment explanation
Indices: 27379239--27379420 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 99
27379229 ACATGTGAAA
* * * * * *
27379239 TTGAGTAATCGGGATGAGGTGCTTGGGTTGTCATCTCATTTCACGTCAAAAGATTTGATTATGTC
1 TTGAGTAACCGGGATGAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTGGACTACGTC
*** * *
27379304 TCGAATTCATTATAAATAAATAGAATGTTTCGGG
66 TCGAAAAAAATAAAAATAAATAGAATGTTTCGGG
* *
27379338 TTGAGTAACCGGGGTGAGGTGCTT-GGTTGTCATCTCACTTCGCGTCAAAAGACTGGACTACGT-
1 TTGAGTAACCGGGATGAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTGGACTACGTC
*
27379401 TTGAAAAAAATAAAAATAAA
66 TCGAAAAAAATAAAAATAAA
27379421 AATAAAACAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
97 14 0.20
98 33 0.48
99 22 0.32
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (99 bp):
TTGAGTAACCGGGATGAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTGGACTACGTC
TCGAAAAAAATAAAAATAAATAGAATGTTTCGGG
Found at i:27380056 original size:23 final size:23
Alignment explanation
Indices: 27380030--27380104 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
27380020 TGATTTTTAA
* *
27380030 ATTTTGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
27380053 ATTTACAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
27380076 ATTTAGGATCATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
27380099 ATTTAG
1 ATTTAG
27380105 GAAAAATCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:27380080 original size:13 final size:13
Alignment explanation
Indices: 27380062--27380104 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27380052 TATTTACAAT
27380062 TATTTAGTGATAA
1 TATTTAGTGATAA
27380075 TATTTAG-GAT--
1 TATTTAGTGATAA
*
27380085 CATTTAGTGATAA
1 TATTTAGTGATAA
27380098 TATTTAG
1 TATTTAG
27380105 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:27381011 original size:5 final size:5
Alignment explanation
Indices: 27381001--27381038 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
27380991 TCGAATATAT
27381001 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT- TTTGTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT
27381039 CCTTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.10
5 25 0.81
6 3 0.10
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:27383093 original size:25 final size:25
Alignment explanation
Indices: 27383065--27383112 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27383055 ACTTCTATTT
*
27383065 TATTAAAA-ATATAAAAATAATTTAC
1 TATTAAAATAT-TAAAAACAATTTAC
27383090 TATTAAAATATTAAAAACAATTT
1 TATTAAAATATTAAAAACAATTT
27383113 TTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TATTAAAATATTAAAAACAATTTAC
Found at i:27383117 original size:24 final size:24
Alignment explanation
Indices: 27383062--27383117 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
27383052 AGAACTTCTA
*
27383062 TTTTATTAAAAATATAAAAATAAT
1 TTTTATTAAAAATATAAAAACAAT
*
27383086 TTACTATT-AAAATATTAAAAACAAT
1 TT-TTATTAAAAATA-TAAAAACAAT
27383111 TTTTATT
1 TTTTATT
27383118 TTATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTATTAAAAATATAAAAACAAT
Found at i:27387649 original size:5 final size:5
Alignment explanation
Indices: 27387639--27387684 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
27387629 TTAATATAAA
27387639 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
27387685 TTAAAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:27387713 original size:15 final size:15
Alignment explanation
Indices: 27387645--27387722 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 15
27387635 TAAATATATT
**
27387645 ATATTATATTATATT
1 ATATTATATTATAAA
**
27387660 ATATTATATTATATT
1 ATATTATATTATAAA
*
27387675 ATATTATATTTTAAA
1 ATATTATATTATAAA
***
27387690 ATGCAATATTATAAA
1 ATATTATATTATAAA
* *
27387705 ATTTTATA-TATGAA
1 ATATTATATTATAAA
27387719 ATAT
1 ATAT
27387723 AAAATTACTT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
14 8 0.16
15 43 0.84
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTATATTATAAA
Found at i:27388992 original size:14 final size:14
Alignment explanation
Indices: 27388975--27389023 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27388965 ATAAAAAAAT
27388975 AAAATTAAAATAGA
1 AAAATTAAAATAGA
* * *
27388989 AAAATTATATTACA
1 AAAATTAAAATAGA
27389003 AAAATATAAAATAGA
1 AAAAT-TAAAATAGA
27389018 TAAAAT
1 -AAAAT
27389024 AGAACAACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 6 0.22
16 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
AAAATTAAAATAGA
Found at i:27389119 original size:7 final size:7
Alignment explanation
Indices: 27389107--27389135 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
27389097 AAAGTAGTTT
27389107 GTTTGAA
1 GTTTGAA
27389114 GTTTGAA
1 GTTTGAA
27389121 GTTTGAA
1 GTTTGAA
27389128 GTTTGAA
1 GTTTGAA
27389135 G
1 G
27389136 CAGTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (7 bp):
GTTTGAA
Found at i:27391016 original size:47 final size:47
Alignment explanation
Indices: 27390947--27391040 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
27390937 TCAAAATTAT
27390947 AATTTTATTCTTCTTTGGCTCAGATATGTTGGGAAATTTATGAAAAA
1 AATTTTATTCTTCTTTGGCTCAGATATGTTGGGAAATTTATGAAAAA
*
27390994 AATTTTGTTCTTCTTTGGCTCAGATATGTTGGGAAATTTATGAAAAA
1 AATTTTATTCTTCTTTGGCTCAGATATGTTGGGAAATTTATGAAAAA
27391041 GAGTGATCGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (47 bp):
AATTTTATTCTTCTTTGGCTCAGATATGTTGGGAAATTTATGAAAAA
Found at i:27392340 original size:116 final size:116
Alignment explanation
Indices: 27392136--27392370 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
27392126 ACCAGCCTTT
27392136 CAACCATCATCGTTGCCCATGGTATTTATTTATCCTCCTTTTAGCAAGCATCTTAATGAGTAGAT
1 CAACCATCATCGTTGCCCATGGTATTTATTTATCCTCCTTTTAGCAAGCATCTTAATGAGTAGAT
27392201 TAGTGATTCAATCTACTATTTTACTTCATTTTGTATAGGTTCCTAGTAATC
66 TAGTGATTCAATCTACTATTTTACTTCATTTTGTATAGGTTCCTAGTAATC
27392252 CAACCATCATCGTTGCCCATGGTATTTATTTATCCTCCTTTTAGCAAGCATCTTAATGAGTAGAT
1 CAACCATCATCGTTGCCCATGGTATTTATTTATCCTCCTTTTAGCAAGCATCTTAATGAGTAGAT
*
27392317 TAGTGATTCAATCTACTATTTTACTTTATTTTGTATAGGTTCCTAGTAATC
66 TAGTGATTCAATCTACTATTTTACTTCATTTTGTATAGGTTCCTAGTAATC
27392368 CAA
1 CAA
27392371 GGCAAACTAG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (116 bp):
CAACCATCATCGTTGCCCATGGTATTTATTTATCCTCCTTTTAGCAAGCATCTTAATGAGTAGAT
TAGTGATTCAATCTACTATTTTACTTCATTTTGTATAGGTTCCTAGTAATC
Found at i:27393277 original size:13 final size:13
Alignment explanation
Indices: 27393259--27393284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27393249 TGCTATTAAG
27393259 TTTTTTTTATCTT
1 TTTTTTTTATCTT
27393272 TTTTTTTTATCTT
1 TTTTTTTTATCTT
27393285 AAAACCCCCG
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:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTATCTT
Found at i:27394139 original size:84 final size:84
Alignment explanation
Indices: 27394031--27394285 Score: 510
Period size: 84 Copynumber: 3.0 Consensus size: 84
27394021 TATTTAAATT
27394031 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
1 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
27394096 AAAAAAATCCTTTAAAACA
66 AAAAAAATCCTTTAAAACA
27394115 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
1 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
27394180 AAAAAAATCCTTTAAAACA
66 AAAAAAATCCTTTAAAACA
27394199 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
1 AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
27394264 AAAAAAATCCTTTAAAACA
66 AAAAAAATCCTTTAAAACA
27394283 AAT
1 AAT
27394286 TTTTCATATA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 171 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (84 bp):
AATCTCATATAAAGTACCTGGAGTATATGTAGCTGCTGCTTCTTCCACCTCCTATCAAAATGAAC
AAAAAAATCCTTTAAAACA
Found at i:27394968 original size:41 final size:41
Alignment explanation
Indices: 27394905--27395001 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
27394895 CCATTAGTGG
* *
27394905 CGTTTTTCCCATAAACGTCACAAAAGGTAAAGCAATAGCGA
1 CGTTTTTCCCATAAACGCCACAAAAGGTAAAGCAATAGCAA
* *
27394946 TGTTTTTCCTATAAACGCCACAAAAGGTAAAGCAATAGCAA
1 CGTTTTTCCCATAAACGCCACAAAAGGTAAAGCAATAGCAA
27394987 CGTTTTTCCCATAAA
1 CGTTTTTCCCATAAA
27395002 TGCCGCGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (41 bp):
CGTTTTTCCCATAAACGCCACAAAAGGTAAAGCAATAGCAA
Found at i:27395549 original size:32 final size:32
Alignment explanation
Indices: 27395508--27395568 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
27395498 TCCTTTAATT
27395508 TTCAATCGTGTTAAAATTTTAGAAATTTTAGC
1 TTCAATCGTGTTAAAATTTTAGAAATTTTAGC
27395540 TTCAATCGTGTTAAAATTTTAGAAATTTT
1 TTCAATCGTGTTAAAATTTTAGAAATTTT
27395569 TTAATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (32 bp):
TTCAATCGTGTTAAAATTTTAGAAATTTTAGC
Found at i:27397196 original size:17 final size:18
Alignment explanation
Indices: 27397174--27397208 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27397164 TACGTGTATC
27397174 AGATGGT-AGGGTCACAT
1 AGATGGTAAGGGTCACAT
*
27397191 AGATGGTAATGGTCACAT
1 AGATGGTAAGGGTCACAT
27397209 GTGTAGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (18 bp):
AGATGGTAAGGGTCACAT
Found at i:27403692 original size:18 final size:17
Alignment explanation
Indices: 27403659--27403697 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27403649 TTTTATAAAT
27403659 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
27403677 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
27403694 TGTG
1 TGTG
27403698 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:27403961 original size:23 final size:23
Alignment explanation
Indices: 27403935--27404052 Score: 112
Period size: 23 Copynumber: 5.1 Consensus size: 23
27403925 TTATTGATCT
* * * *
27403935 GTGGTAGCTTTGGCTACATTTTA
1 GTGGTAGCTTCGACTACATATCA
*
27403958 GTGGTAGCTACGACTACATATCA
1 GTGGTAGCTTCGACTACATATCA
* *
27403981 GTGGTAACTTCGACTACATTTCA
1 GTGGTAGCTTCGACTACATATCA
* * * *
27404004 GTGATAGCTACGGCTACGTATCA
1 GTGGTAGCTTCGACTACATATCA
*
27404027 GTGGTAGCTTC-AGCTATATATCA
1 GTGGTAGCTTCGA-CTACATATCA
27404050 GTG
1 GTG
27404053 TGGCACTTAT
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (23 bp):
GTGGTAGCTTCGACTACATATCA
Found at i:27404012 original size:46 final size:46
Alignment explanation
Indices: 27403948--27404037 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
27403938 GTAGCTTTGG
* *
27403948 CTACATTTTAGTGGTAGCTACGACTACATATCAGTGGTAACTTCGA
1 CTACATTTCAGTGATAGCTACGACTACATATCAGTGGTAACTTCGA
* * *
27403994 CTACATTTCAGTGATAGCTACGGCTACGTATCAGTGGTAGCTTC
1 CTACATTTCAGTGATAGCTACGACTACATATCAGTGGTAACTTC
27404038 AGCTATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (46 bp):
CTACATTTCAGTGATAGCTACGACTACATATCAGTGGTAACTTCGA
Found at i:27404484 original size:11 final size:10
Alignment explanation
Indices: 27404458--27404482 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27404448 TCTGACTTTG
27404458 AAAAATTGTT
1 AAAAATTGTT
27404468 AAAAATTGTT
1 AAAAATTGTT
27404478 AAAAA
1 AAAAA
27404483 ATAATTACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
AAAAATTGTT
Found at i:27404977 original size:59 final size:59
Alignment explanation
Indices: 27404885--27405025 Score: 273
Period size: 59 Copynumber: 2.4 Consensus size: 59
27404875 GTTTAAAAAA
27404885 AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTAC
1 AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTAC
27404944 AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTAC
1 AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTAC
*
27405003 AACAATTAATACAATTAACAATT
1 AACAATTAATACAATTAATAATT
27405026 AATAATTTGA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 81 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (59 bp):
AACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTAC
Found at i:27405057 original size:16 final size:16
Alignment explanation
Indices: 27405036--27405077 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27405026 AATAATTTGA
*
27405036 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
27405052 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
27405068 TAGTTTTAAT
1 TAATTTTAAT
27405078 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:27412719 original size:21 final size:21
Alignment explanation
Indices: 27412695--27412744 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
27412685 CTTAAAGCGA
**
27412695 AGGCAACAGTGAGGG-AAGCAG
1 AGGCAACAGCAAGGGCAA-CAG
*
27412716 AGGCAGCAGCAAGGGCAACAG
1 AGGCAACAGCAAGGGCAACAG
27412737 AGGCAACA
1 AGGCAACA
27412745 AGAAAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.02
Consensus pattern (21 bp):
AGGCAACAGCAAGGGCAACAG
Found at i:27414349 original size:21 final size:21
Alignment explanation
Indices: 27414315--27414354 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27414305 ATCTAATTTG
27414315 TTTTTAAAACTCCAAATTAAC
1 TTTTTAAAACTCCAAATTAAC
* * *
27414336 TTTTTTAAAGTCCATATTA
1 TTTTTAAAACTCCAAATTA
27414355 CATGTTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTTTAAAACTCCAAATTAAC
Found at i:27421682 original size:40 final size:40
Alignment explanation
Indices: 27421622--27421835 Score: 232
Period size: 40 Copynumber: 5.4 Consensus size: 40
27421612 AGATTAATTG
* * * *
27421622 AACACACCAGACAAAAGCTCATACGAGTTAATCCAACCGA
1 AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
* * **
27421662 AACACGCCAGACAGACGCTCATAAGAGCTAATCTAATTGA
1 AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
* * * * *
27421702 AACACACCAGACCGAATCTCATAAGAGTTAATCCAACTGA
1 AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
* ** * *
27421742 AACATGATAGACAGAAGCTCATAAGAGCTAATCTAATCGA
1 AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
* *
27421782 AACAAGCCAGACAGAAGCTCATAAGAGCTAATACAACCGA
1 AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
*
27421822 AACAAG-CAGACAGA
1 AACACGCCAGACAGA
27421836 GAGTATAACA
Statistics
Matches: 143, Mismatches: 31, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
39 8 0.06
40 135 0.94
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (40 bp):
AACACGCCAGACAGAAGCTCATAAGAGCTAATCCAACCGA
Found at i:27421755 original size:80 final size:80
Alignment explanation
Indices: 27421616--27421835 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 80
27421606 ATCATTAGAT
* * * *
27421616 TAATTG-AACACACCAGACAAAAGCTCATACGAGTTAATCCAACCGAAACACGCCAGACAGACGC
1 TAATTGAAACACACCAGACAGAAGCTCATAAGAGTTAATCCAACCGAAACACGACAGACAGAAGC
27421680 TCATAAGAGCTAATC
66 TCATAAGAGCTAATC
* * * * *
27421695 TAATTGAAACACACCAGACCGAATCTCATAAGAGTTAATCCAACTGAAACATGATAGACAGAAGC
1 TAATTGAAACACACCAGACAGAAGCTCATAAGAGTTAATCCAACCGAAACACGACAGACAGAAGC
27421760 TCATAAGAGCTAATC
66 TCATAAGAGCTAATC
* * * *
27421775 TAATCGAAACA-AGCCAGACAGAAGCTCATAAGAGCTAATACAACCGAAACAAG-CAGACAGA
1 TAATTGAAACACA-CCAGACAGAAGCTCATAAGAGTTAATCCAACCGAAACACGACAGACAGA
27421836 GAGTATAACA
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 14 0.11
80 108 0.89
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (80 bp):
TAATTGAAACACACCAGACAGAAGCTCATAAGAGTTAATCCAACCGAAACACGACAGACAGAAGC
TCATAAGAGCTAATC
Found at i:27428886 original size:9 final size:9
Alignment explanation
Indices: 27428872--27428901 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27428862 AAAATATCAT
27428872 ATTAATTTA
1 ATTAATTTA
*
27428881 ATTAATTTG
1 ATTAATTTA
27428890 ATTAATTTA
1 ATTAATTTA
27428899 ATT
1 ATT
27428902 TTACTTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:27428980 original size:13 final size:13
Alignment explanation
Indices: 27428964--27428996 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
27428954 TTTTTCAAGA
27428964 AAATTCTTTAATC
1 AAATTCTTTAATC
27428977 AAATTCTTTAATC
1 AAATTCTTTAATC
27428990 AAATTCT
1 AAATTCT
27428997 CTAGTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:27430106 original size:15 final size:15
Alignment explanation
Indices: 27430086--27430115 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27430076 CTATGCATGC
*
27430086 AAAATATAAAAGACA
1 AAAATACAAAAGACA
27430101 AAAATACAAAAGACA
1 AAAATACAAAAGACA
27430116 TAATAGTGAA
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:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:27430638 original size:78 final size:76
Alignment explanation
Indices: 27430545--27430688 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 76
27430535 AACCTAGACG
27430545 AAAACATACCAAAATACATACCAAGCATCAAATTATCCATCCAAAGTAAACATTGCACACGTTCT
1 AAAACATACCAAAATACATACCAAGCATCAAATTATCCATCCAAAGTAAACATTG--CACGTTCT
27430610 CAAACTTGCACAA
64 CAAACTTGCACAA
***
27430623 AAAACATACCAAAATACATTTTAAGCATCAAATTATCCATCCAAAGTAAACATTGCACGTTCTCA
1 AAAACATACCAAAATACATACCAAGCATCAAATTATCCATCCAAAGTAAACATTGCACGTTCTCA
27430688 A
66 A
27430689 CCTACAGTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 11 0.17
78 52 0.83
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (76 bp):
AAAACATACCAAAATACATACCAAGCATCAAATTATCCATCCAAAGTAAACATTGCACGTTCTCA
AACTTGCACAA
Done.