Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 81 of 335
Found at i:26861464 original size:5 final size:5
Alignment explanation
Indices: 26861454--26861508 Score: 74
Period size: 5 Copynumber: 10.8 Consensus size: 5
26861444 GATTGAATCT
* * *
26861454 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTG TTTTG TTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
26861505 TTTT
1 TTTT
26861509 TTAGGTACTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:26864985 original size:68 final size:66
Alignment explanation
Indices: 26864910--26865081 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
26864900 CATCATGTGT
* * * *
26864910 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
26864973 TGTAG
62 TGTAG
** * *
26864978 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
26865043 AG
65 AG
* * * *
26865045 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
26865082 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:26865015 original size:64 final size:64
Alignment explanation
Indices: 26864934--26865117 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
26864924 AGACATTATG
* * *
26864934 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
26864998 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26865063 AA
63 AA
* * *
26865065 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
26865118 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:26867305 original size:21 final size:21
Alignment explanation
Indices: 26867281--26867323 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26867271 GAGTAGAAAA
26867281 TGAACAGGTGACCTTTAAGGT
1 TGAACAGGTGACCTTTAAGGT
*
26867302 TGAATAGGTGACCTTTAAGGT
1 TGAACAGGTGACCTTTAAGGT
26867323 T
1 T
26867324 TTCTCTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (21 bp):
TGAACAGGTGACCTTTAAGGT
Found at i:26869167 original size:48 final size:49
Alignment explanation
Indices: 26869113--26869220 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 49
26869103 TTGCACATAG
* *
26869113 TCACATATCACACACCAAAGCCATAGCCCTGCCATGGTCTTACACAG-A
1 TCACATATCACACACCAAAGCCATAGCCCAGACATGGTCTTACACAGAA
* * * * * *
26869161 TCACATAT-A-ATACCGAGGCCATATCCCAGATATGGTCTTATACAGAA
1 TCACATATCACACACCAAAGCCATAGCCCAGACATGGTCTTACACAGAA
26869208 TCACATTATCACA
1 TCACA-TATCACA
26869221 TCACACCGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
46 28 0.58
47 7 0.15
48 11 0.23
49 1 0.02
50 1 0.02
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (49 bp):
TCACATATCACACACCAAAGCCATAGCCCAGACATGGTCTTACACAGAA
Found at i:26869322 original size:52 final size:50
Alignment explanation
Indices: 26869113--26869325 Score: 159
Period size: 52 Copynumber: 4.3 Consensus size: 50
26869103 TTGCACATAG
* * * * *
26869113 TCACATATCACA--CACCAAAGCCATAGCCCTGCCATGGTCTTACACAGA
1 TCACATATCACATTCACCGACGCCATAGCCCAGCTATGGTCTTACACGGA
* * * * *
26869161 TCACATAT-A-A-T-ACCGAGGCCATATCCCAGATATGGTCTTATACAGAA
1 TCACATATCACATTCACCGACGCCATAGCCCAGCTATGGTCTTACAC-GGA
* * * **
26869208 TCACATTATCACATCACACCGACGCCATAGCCTAACTATGGTCTTATTCGGGA
1 TCACA-TATCACAT-TCACCGACGCCATAGCCCAGCTATGGTCTTACAC-GGA
* * * *
26869261 ACACGTATCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTACACGGG
1 TCACATATCACATT-CACCGACGCCATAGCCCAGCTATGGTCTTACACGGA
26869312 TGCACATATCACAT
1 T-CACATATCACAT
26869326 CTTTTTTGTC
Statistics
Matches: 126, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
46 26 0.21
47 7 0.06
48 11 0.09
49 1 0.01
50 1 0.01
51 2 0.02
52 47 0.37
53 31 0.25
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (50 bp):
TCACATATCACATTCACCGACGCCATAGCCCAGCTATGGTCTTACACGGA
Found at i:26872348 original size:17 final size:18
Alignment explanation
Indices: 26872326--26872361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26872316 TTATTTTCAT
26872326 TTTGAA-TTTAATTATAA
1 TTTGAAGTTTAATTATAA
*
26872343 TTTGAAGTTTCATTATAA
1 TTTGAAGTTTAATTATAA
26872361 T
1 T
26872362 ATTTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTGAAGTTTAATTATAA
Found at i:26873811 original size:47 final size:47
Alignment explanation
Indices: 26873747--26873857 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
26873737 GACATTGAGT
* *
26873747 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
26873794 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
26873841 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
26873858 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:26881040 original size:47 final size:47
Alignment explanation
Indices: 26880976--26881086 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
26880966 GACATTGAGT
*
26880976 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
26881023 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
26881070 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
26881087 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:26884050 original size:2 final size:2
Alignment explanation
Indices: 26884045--26884089 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
26884035 AAAATTAGTC
26884045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26884087 TA T
1 TA T
26884090 TACATCAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26889803 original size:25 final size:24
Alignment explanation
Indices: 26889775--26889887 Score: 72
Period size: 25 Copynumber: 4.5 Consensus size: 24
26889765 TAATAATTGA
26889775 TATAAATTTATAATAAAATTTTTTT
1 TATAAATTTAT-ATAAAATTTTTTT
* *
26889800 TAT-AATTGTCTATATAAATTTTATTAA
1 TATAAATT-TATATA-AAATTTT-TT-T
*
26889827 TATATATTTATATAAAAATTTTTTT
1 TATAAATTTATAT-AAAATTTTTTT
* *
26889852 T-TACTATTTA-ATATAATTTTATTT
1 TATA-AATTTATATAAAATTTT-TTT
*
26889876 TA-AAGTTTATAT
1 TATAAATTTATAT
26889888 CTTTATAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
23 11 0.16
24 18 0.26
25 19 0.27
26 4 0.06
27 14 0.20
28 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATAAATTTATATAAAATTTTTTT
Found at i:26891615 original size:20 final size:20
Alignment explanation
Indices: 26891574--26891616 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
26891564 TGAGTTCAAA
*
26891574 GTTTAGAGCTTAAGTTTGAG
1 GTTTAGAGCTTAAGTTTAAG
*
26891594 GTTTAGAGTTTGAA-TTTAAG
1 GTTTAGAGCTT-AAGTTTAAG
26891614 GTT
1 GTT
26891617 CGAGGGACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
GTTTAGAGCTTAAGTTTAAG
Found at i:26894757 original size:13 final size:15
Alignment explanation
Indices: 26894728--26894762 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
26894718 ATAAAAATTC
26894728 AAAAAATGAATATAT
1 AAAAAATGAATATAT
26894743 AAAAAATGAA-A-AT
1 AAAAAATGAATATAT
26894756 AAAAAAT
1 AAAAAAT
26894763 TAAGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 1 0.05
15 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAAAATGAATATAT
Found at i:26896154 original size:2 final size:2
Alignment explanation
Indices: 26896147--26896171 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26896137 AACACATGAA
26896147 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26896172 ACAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26897046 original size:16 final size:16
Alignment explanation
Indices: 26897025--26897056 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26897015 CAAACAGAAA
26897025 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
26897041 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
26897057 GGTGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAATAGTAGTAAGTTT
Found at i:26897214 original size:13 final size:13
Alignment explanation
Indices: 26897185--26897221 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
26897175 GAAAATAATT
26897185 TAAAAATTATAAA
1 TAAAAATTATAAA
*
26897198 -AAAAATTGTAAA
1 TAAAAATTATAAA
26897210 TAAAAATTATAA
1 TAAAAATTATAA
26897222 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAAAATTATAAA
Found at i:26897278 original size:12 final size:12
Alignment explanation
Indices: 26897255--26897287 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
26897245 GCTTTTCAAA
26897255 ATTTACAAAAAAT
1 ATTTA-AAAAAAT
26897268 ATTTAAAAAAAT
1 ATTTAAAAAAAT
26897280 -TTTAAAAA
1 ATTTAAAAA
26897288 TTCAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 7 0.35
13 5 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTTAAAAAAAT
Found at i:26899813 original size:16 final size:16
Alignment explanation
Indices: 26899792--26899838 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
26899782 AAGATTATTT
26899792 TTTATATTTTATGTTA
1 TTTATATTTTATGTTA
*
26899808 TTTATATATTTAT-ATA
1 TTTATAT-TTTATGTTA
*
26899824 TTATATAATTTATGT
1 TT-TATATTTTATGT
26899839 CATATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTATATTTTATGTTA
Found at i:26901233 original size:17 final size:17
Alignment explanation
Indices: 26901211--26901243 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26901201 ACGACGTCAG
26901211 AAACTTGAATCTCAGTA
1 AAACTTGAATCTCAGTA
26901228 AAACTTGAATCTCAGT
1 AAACTTGAATCTCAGT
26901244 GAATAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (17 bp):
AAACTTGAATCTCAGTA
Found at i:26901490 original size:24 final size:24
Alignment explanation
Indices: 26901424--26901490 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
26901414 TTTTAAATAA
26901424 TTTAATTATATTCAAA-ATTTATTTT
1 TTTAATT-TATT-AAATATTTATTTT
26901449 TTTAATATTTATCT-AATATTTATTTT
1 TTT-A-ATTTAT-TAAATATTTATTTT
26901475 TTTAATTTATTAAATA
1 TTTAATTTATTAAATA
26901491 CAGACTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
23 1 0.03
24 10 0.27
25 6 0.16
26 16 0.43
27 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAATTTATTAAATATTTATTTT
Found at i:26907102 original size:25 final size:25
Alignment explanation
Indices: 26907068--26907115 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26907058 GTTTTAGAAG
*
26907068 TTTTAGTTCAACAAACTCTTATAAAT
1 TTTTAGTTCAACAAA-TATTATAAAT
*
26907094 TTTTA-TTCACCAAATATTATAA
1 TTTTAGTTCAACAAATATTATAA
26907116 TTAGAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTTAGTTCAACAAATATTATAAAT
Found at i:26909762 original size:21 final size:21
Alignment explanation
Indices: 26909736--26909778 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26909726 GCGTCTATGA
*
26909736 AATCCCAACGAACACGATCAT
1 AATCCCAACGAACACAATCAT
26909757 AATCCCAACGAACACAATCAT
1 AATCCCAACGAACACAATCAT
26909778 A
1 A
26909779 GGCCTTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.33, G:0.07, T:0.14
Consensus pattern (21 bp):
AATCCCAACGAACACAATCAT
Found at i:26911952 original size:24 final size:25
Alignment explanation
Indices: 26911908--26911982 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 25
26911898 TCATTGTGCA
*
26911908 TATATGTT-TT-TGTTATCATATCTT
1 TATATGTTGTTATGCTAT-ATATCTT
26911932 TATATGTTGTTATG-TATATAT-TT
1 TATATGTTGTTATGCTATATATCTT
* * *
26911955 TA-ATATTGTCA-GCTATTTATCTT
1 TATATGTTGTTATGCTATATATCTT
26911978 TATAT
1 TATAT
26911983 TATTGTACGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.02
22 13 0.30
23 8 0.19
24 14 0.33
25 5 0.12
26 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (25 bp):
TATATGTTGTTATGCTATATATCTT
Found at i:26912232 original size:26 final size:25
Alignment explanation
Indices: 26912173--26912232 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
26912163 ACACCATTCC
26912173 ATATACATACATTTTTAAATCATCTT
1 ATATACATA-ATTTTTAAATCATCTT
** *
26912199 ATGCACAT-ATTTTTAAATACTATGTT
1 ATATACATAATTTTTAAAT-C-ATCTT
26912225 ATATACAT
1 ATATACAT
26912233 GCATACATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 10 0.37
25 1 0.04
26 16 0.59
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.45
Consensus pattern (25 bp):
ATATACATAATTTTTAAATCATCTT
Found at i:26915568 original size:54 final size:54
Alignment explanation
Indices: 26915362--26915568 Score: 174
Period size: 54 Copynumber: 3.9 Consensus size: 54
26915352 ACCATACCGG
* * * * * * **
26915362 TGCCATATCCCAGATATGGTCTTACACGGA-AGCACTTATCA-TTATTCTCCGA
1 TGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTTATCTAA
* * * *
26915414 TGCCATAGCGCAGCTATGGTCTTCTACGG--ATCACTTGTATCACAT-TAATCTGAA
1 TGCCATAGCCCAGCTATGGTCTTATACGGATATCAC-T-TATCACTTGTTATCT-AA
* * * ** *
26915468 -GCCATAACCCAGCTATGGTCTTATACGGAAATTACTTATCTTTTGTTTTCTAA
1 TGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTTATCTAA
*
26915521 TGCCATAGCCCAGCTATGGTCTTATACGGATATCGCTTATCACTTGTT
1 TGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTT
26915569 GCCATGGTCC
Statistics
Matches: 121, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
51 4 0.03
52 25 0.21
53 40 0.33
54 48 0.40
55 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (54 bp):
TGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTTATCTAA
Found at i:26916331 original size:21 final size:21
Alignment explanation
Indices: 26916305--26916347 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
26916295 AAAATTCAAG
26916305 AAATAATCAAGATTTGAACTT
1 AAATAATCAAGATTTGAACTT
26916326 AAATAATCAAGATTTGAACTT
1 AAATAATCAAGATTTGAACTT
26916347 A
1 A
26916348 CTTGCAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (21 bp):
AAATAATCAAGATTTGAACTT
Found at i:26918557 original size:8 final size:8
Alignment explanation
Indices: 26918544--26918572 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26918534 TTATGTTTAG
26918544 TATATTAT
1 TATATTAT
26918552 TATATTAT
1 TATATTAT
26918560 TATATTAT
1 TATATTAT
26918568 TATAT
1 TATAT
26918573 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:26918605 original size:5 final size:5
Alignment explanation
Indices: 26918595--26918626 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
26918585 TTATGTTTTA
26918595 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
26918627 ATACAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:26918701 original size:24 final size:23
Alignment explanation
Indices: 26918674--26918724 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
26918664 AGAATGAAAC
26918674 GAAACAAAGAGCAGGGGAGAAAA-A
1 GAAACAAAGA--AGGGGAGAAAAGA
*
26918698 GAAAGAAAGAAGGGGAGAAAAGA
1 GAAACAAAGAAGGGGAGAAAAGA
26918721 GAAA
1 GAAA
26918725 ATTCAAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 5 0.20
24 9 0.36
ACGTcount: A:0.61, C:0.04, G:0.35, T:0.00
Consensus pattern (23 bp):
GAAACAAAGAAGGGGAGAAAAGA
Found at i:26919921 original size:15 final size:15
Alignment explanation
Indices: 26919901--26919957 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
26919891 CGATGAATTT
26919901 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
26919916 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
26919931 ATTGAATTTATATTG
1 ATTGAATTTATATTG
26919946 ATTGAA-TTATAT
1 ATTGAATTTATAT
26919958 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:26920367 original size:23 final size:23
Alignment explanation
Indices: 26920341--26920401 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
26920331 AGGCACTTTA
*
26920341 TGTGTCGTATTTCAGGCATCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
26920364 TGTGTTGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
26920385 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
26920402 TTTATGTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 8 0.24
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:26920409 original size:21 final size:21
Alignment explanation
Indices: 26920331--26920413 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
26920321 TTTATCGATC
*
26920331 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCATGTGTCGT-TTT
* * * *
26920353 CAGGCA-TCTCGTGTGTTGTATC
1 -AGGCACT-TCATGTGTCGTTTT
* *
26920375 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTCATGTGTCGTTTT
*
26920396 AGGCACTTTATGTGTCGT
1 AGGCACTTCATGTGTCGT
26920414 ACTCTGATCA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 31 0.67
22 2 0.04
23 13 0.28
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (21 bp):
AGGCACTTCATGTGTCGTTTT
Found at i:26921918 original size:20 final size:20
Alignment explanation
Indices: 26921893--26921932 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26921883 AACGAGAGTA
26921893 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
26921913 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
26921933 TAAATAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
AGCTTATATAAATTATTATT
Found at i:26927996 original size:35 final size:35
Alignment explanation
Indices: 26927951--26928077 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
26927941 TCCTCATTGA
* *
26927951 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* * **
26927986 AATGCTATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
26928021 AATACCATACCTACGTTTCACAACTCAATACGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
26928056 AATATCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
26928078 TCTTATCATG
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 3 0.04
35 74 0.96
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:26931321 original size:20 final size:21
Alignment explanation
Indices: 26931280--26931322 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
26931270 TAAAAATGAT
*
26931280 ATTAAATGTTTAATTGATTTA
1 ATTAAATGTTTAAATGATTTA
26931301 ATTAAA-GTTTAAAT-ATATTA
1 ATTAAATGTTTAAATGAT-TTA
26931321 AT
1 AT
26931323 ATCCGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTAAATGTTTAAATGATTTA
Found at i:26931824 original size:29 final size:29
Alignment explanation
Indices: 26931760--26931831 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
26931750 AAATTCTTGA
*
26931760 AGGATTATTTAAATATTAACCTAAAAAAT
1 AGGATGATTTAAATATTAACCTAAAAAAT
* *
26931789 -GGATGATTTAAATATTAACCTCAAAATT
1 AGGATGATTTAAATATTAACCTAAAAAAT
26931817 AGGATGATTTAAATA
1 AGGATGATTTAAATA
26931832 GAGTCAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (29 bp):
AGGATGATTTAAATATTAACCTAAAAAAT
Found at i:26932136 original size:21 final size:21
Alignment explanation
Indices: 26932112--26932160 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
26932102 GGAAATACAT
**
26932112 AAAAATATAAAAATACTTTTA
1 AAAAATATAAAAATAAATTTA
* *
26932133 AAAAACATAATAATAAATTTA
1 AAAAATATAAAAATAAATTTA
26932154 AAAAATA
1 AAAAATA
26932161 GTGGTGATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATATAAAAATAAATTTA
Found at i:26932649 original size:29 final size:29
Alignment explanation
Indices: 26932586--26932650 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
26932576 GTAATTATAA
* *
26932586 ACATAAAATTTTAATTATAGTTTAAATAT
1 ACATAAAAATTTAATTATAATTTAAATAT
* *
26932615 -CTATAAAAATTTAATTATAATTTAATTGT
1 AC-ATAAAAATTTAATTATAATTTAAATAT
26932644 ACATAAA
1 ACATAAA
26932651 TAAATATGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (29 bp):
ACATAAAAATTTAATTATAATTTAAATAT
Found at i:26933834 original size:2 final size:2
Alignment explanation
Indices: 26933827--26933859 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
26933817 AAATATAACC
*
26933827 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26933860 CCTATACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:26942372 original size:16 final size:15
Alignment explanation
Indices: 26942345--26942411 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 15
26942335 TATCATTTCA
26942345 ATATATAATTTAAAT
1 ATATATAATTTAAAT
26942360 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
26942376 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
26942389 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
26942404 A-ATATAAT
1 ATATATAAT
26942412 AATATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 11 0.25
15 10 0.23
16 14 0.32
17 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:26942389 original size:11 final size:11
Alignment explanation
Indices: 26942373--26942415 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
26942363 TATAAATTTA
26942373 AATATATTAAT
1 AATATATTAAT
*
26942384 AATATATAAAT
1 AATATATTAAT
26942395 -A-ATATTAAT
1 AATATATTAAT
*
26942404 AATATAATAAT
1 AATATATTAAT
26942415 A
1 A
26942416 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:26942401 original size:20 final size:19
Alignment explanation
Indices: 26942355--26942409 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
26942345 ATATATAATT
*
26942355 TAAATATA-T-ATAA-ATT
1 TAAATATATTAATAATATA
26942371 TAAATATATTAATAATATA
1 TAAATATATTAATAATATA
26942390 TAAATAATATTAATAATATA
1 TAAAT-ATATTAATAATATA
26942410 ATAATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 4 0.12
19 7 0.21
20 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATATTAATAATATA
Found at i:26967531 original size:2 final size:2
Alignment explanation
Indices: 26967524--26967551 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26967514 GATGTCATTA
26967524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26967552 CAATGCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26973474 original size:23 final size:23
Alignment explanation
Indices: 26973447--26973500 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
26973437 ATAATCATAA
* *
26973447 TTAAATTGTATATTTTTATCA-TT
1 TTAAATTG-ATATCTTTATAACTT
26973470 TTAAAGTTGATATCTTTATAACTT
1 TTAAA-TTGATATCTTTATAACTT
26973494 TTAAATT
1 TTAAATT
26973501 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
TTAAATTGATATCTTTATAACTT
Found at i:26977827 original size:85 final size:85
Alignment explanation
Indices: 26977721--26977886 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 85
26977711 AGTAATTAAA
* * * ** *
26977721 TTTTTTTCATTCAATTAAATACTTTAACTTTTAAAATGTATTAAAAA-ACCTTTAAACTTCTTCA
1 TTTTTTTCACTCAATTAAATACTTGAACTTTCAAAATACATCAAAAAGACC-TTAAACTTCTTCA
*
26977785 GAAAAAA-CAATTAAGCCCATG
65 -AAAAAAGCAAATAAGCCCATG
* * * *
26977806 TTTTTTTTACTCAATTGAATACTTGAACTTTCAAAATACATCAAAAAGACCTTAAATTTTTTCAA
1 TTTTTTTCACTCAATTAAATACTTGAACTTTCAAAATACATCAAAAAGACCTTAAACTTCTTCAA
26977871 AAAAAGCAAATAAGCC
66 AAAAAGCAAATAAGCC
26977887 AATGCTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 6 0.09
85 59 0.87
86 3 0.04
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (85 bp):
TTTTTTTCACTCAATTAAATACTTGAACTTTCAAAATACATCAAAAAGACCTTAAACTTCTTCAA
AAAAAGCAAATAAGCCCATG
Found at i:26977941 original size:18 final size:18
Alignment explanation
Indices: 26977908--26977973 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
26977898 AAAAAAAAAA
26977908 TAATAAAAAATAATAAATTT
1 TAAT-AAAAAT-ATAAATTT
**
26977928 TAATAAAAATATAAAGAT
1 TAATAAAAATATAAATTT
* *
26977946 TATTAAAAAT-TATATTTT
1 TAATAAAAATATA-AATTT
*
26977964 TTATAAAAAT
1 TAATAAAAAT
26977974 CATACAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 2 0.05
18 25 0.68
19 6 0.16
20 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TAATAAAAATATAAATTT
Found at i:26978279 original size:10 final size:10
Alignment explanation
Indices: 26978264--26978346 Score: 57
Period size: 10 Copynumber: 8.6 Consensus size: 10
26978254 TTCTTACAAC
26978264 TTTATAAAAT
1 TTTATAAAAT
*
26978274 TTTAT-AATT
1 TTTATAAAAT
* * *
26978283 TTTTTATACT
1 TTTATAAAAT
* *
26978293 TCTAT-ATAT
1 TTTATAAAAT
26978302 TTTAT-AAAT
1 TTTATAAAAT
*
26978311 TTT-TACAATT
1 TTTATA-AAAT
26978321 TTTATAAAAT
1 TTTATAAAAT
26978331 TTTATAAAAT
1 TTTATAAAAT
*
26978341 TATATA
1 TTTATA
26978347 TTTTTATTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
8 1 0.02
9 18 0.33
10 34 0.62
11 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:26978282 original size:29 final size:28
Alignment explanation
Indices: 26978247--26978337 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
26978237 TTATATTTTG
26978247 TATAATTTTCTTACAACTTTATAAAATTT
1 TATAATTTT-TTACAACTTTATAAAATTT
* *
26978276 TATAATTTTTTTA-TACTTCTAT-ATATTT
1 TATAA-TTTTTTACAACTT-TATAAAATTT
* *
26978304 TATAAATTTTTACAATTTTTATAAAATTT
1 TATAATTTTTTACAA-CTTTATAAAATTT
26978333 TATAA
1 TATAA
26978338 AATTATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 6 0.12
28 18 0.35
29 23 0.45
30 4 0.08
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (28 bp):
TATAATTTTTTACAACTTTATAAAATTT
Found at i:26978284 original size:39 final size:39
Alignment explanation
Indices: 26978201--26978285 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
26978191 TTCGGTACGG
* **
26978201 TAATTTTTATAATTTTTTTACGAAATTTATATTTCTTTA
1 TAATTTTTATAATTTTCTTACGAAATTTATAAATCTTTA
*
26978240 T-ATTTTGTATAATTTTCTTAC-AACTTTATAAAAT-TTTA
1 TAATTTT-TATAATTTTCTTACGAAATTTAT-AAATCTTTA
26978278 TAATTTTT
1 TAATTTTT
26978286 TTATACTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 18 0.46
39 21 0.54
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (39 bp):
TAATTTTTATAATTTTCTTACGAAATTTATAAATCTTTA
Found at i:26978299 original size:67 final size:67
Alignment explanation
Indices: 26978205--26978375 Score: 152
Period size: 67 Copynumber: 2.5 Consensus size: 67
26978195 GTACGGTAAT
* * *
26978205 TTTTATAATTTTTTTACGAAATTTATAT-TTCTT-TATATTTTGTATAATTTTCT-TACAACTTT
1 TTTTATAATTTTTTTAC-AAATTTATATATT-TTATAAATTTT-TACAATTTT-TATAAAACTTT
26978267 ATAAAA
62 ATAAAA
* * *
26978273 TTTTATAATTTTTTTA-TACTTCTATATATTTTATAAATTTTTACAATTTTTATAAAATTTTATA
1 TTTTATAATTTTTTTACAAATT-TATATATTTTATAAATTTTTACAATTTTTATAAAACTTTATA
26978337 AAA
65 AAA
* * * * *
26978340 TTATATATTTTTATTTTCTAATTTTTAATATTTTAT
1 TTTTATAATTTT-TTTACAAATTTAT-ATATTTTAT
26978376 TATTTATTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
66 4 0.05
67 38 0.45
68 30 0.35
69 13 0.15
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (67 bp):
TTTTATAATTTTTTTACAAATTTATATATTTTATAAATTTTTACAATTTTTATAAAACTTTATAA
AA
Found at i:26978350 original size:28 final size:28
Alignment explanation
Indices: 26978264--26978353 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
26978254 TTCTTACAAC
* *
26978264 TTTATAAAATTTTATAATTTTTTTATACT
1 TTTATAAAATTTTATAA-ATTTTTATATT
* * *
26978293 TCTAT-ATATTTTATAAATTTTTACAATT
1 TTTATAAAATTTTATAAATTTTTA-TATT
* *
26978321 TTTATAAAATTTTATAAAATTATATATT
1 TTTATAAAATTTTATAAATTTTTATATT
26978349 TTTAT
1 TTTAT
26978354 TTTCTAATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 6 0.12
28 24 0.49
29 19 0.39
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTATAAAATTTTATAAATTTTTATATT
Found at i:26978437 original size:10 final size:11
Alignment explanation
Indices: 26978418--26978447 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
26978408 TTATTGATTT
26978418 TAATTTTTTTC
1 TAATTTTTTTC
26978429 TAATTTTTTTC
1 TAATTTTTTTC
26978440 TAATTTTT
1 TAATTTTT
26978448 AGTAAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (11 bp):
TAATTTTTTTC
Found at i:26979081 original size:32 final size:32
Alignment explanation
Indices: 26979045--26979108 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
26979035 TATAAAAACT
26979045 AAATTTATAACCTTTTCAAAAGCAAAATTTAA
1 AAATTTATAACCTTTTCAAAAGCAAAATTTAA
26979077 AAATTTATAACCTTTTCAAAAGCAAAATTTAA
1 AAATTTATAACCTTTTCAAAAGCAAAATTTAA
26979109 CCTTATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (32 bp):
AAATTTATAACCTTTTCAAAAGCAAAATTTAA
Found at i:26979393 original size:14 final size:13
Alignment explanation
Indices: 26979360--26979419 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
26979350 GATCATTTAA
* *
26979360 AAAATTAAATATG
1 AAAATTAAGTATT
*
26979373 AATAATTAAGTGTT
1 AA-AATTAAGTATT
26979387 AGAAATTAAGTATT
1 A-AAATTAAGTATT
*
26979401 AAATTTAAGT-TAT
1 AAAATTAAGTAT-T
26979414 AAAATT
1 AAAATT
26979420 TATTTGGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.03
13 16 0.42
14 20 0.53
15 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (13 bp):
AAAATTAAGTATT
Found at i:26979527 original size:17 final size:15
Alignment explanation
Indices: 26979497--26979525 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26979487 ATTATGAAAA
26979497 AAATATTTTTATTAT
1 AAATATTTTTATTAT
26979512 AAATA-TTTTATTAT
1 AAATATTTTTATTAT
26979526 TAAGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATATTTTTATTAT
Found at i:26980163 original size:17 final size:17
Alignment explanation
Indices: 26980143--26980180 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
26980133 AAAATATTAA
*
26980143 AAAAGTAAATTAATTCT
1 AAAACTAAATTAATTCT
26980160 AAAACTAAATTAATTCT
1 AAAACTAAATTAATTCT
26980177 AAAA
1 AAAA
26980181 AAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAACTAAATTAATTCT
Found at i:26986854 original size:13 final size:13
Alignment explanation
Indices: 26986836--26986863 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26986826 CACAGTTTCA
26986836 TGATTCAATTATG
1 TGATTCAATTATG
26986849 TGATTCAATTATG
1 TGATTCAATTATG
26986862 TG
1 TG
26986864 TACATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (13 bp):
TGATTCAATTATG
Found at i:26987350 original size:5 final size:5
Alignment explanation
Indices: 26987342--26987366 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26987332 TTTGTTAAAG
26987342 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
26987367 GTTACATTCC
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:26990718 original size:21 final size:21
Alignment explanation
Indices: 26990693--26990735 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26990683 CAAACAAATC
26990693 AAAATCTGAATAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
*
26990714 AAAATCTGAGTAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
26990735 A
1 A
26990736 TAATGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (21 bp):
AAAATCTGAATAAATTGGAGA
Found at i:26991791 original size:15 final size:14
Alignment explanation
Indices: 26991761--26991809 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
26991751 ATTGTGTTGG
*
26991761 TAAAAAAATATTTT
1 TAAAATAATATTTT
*
26991775 TAAAATAGATATATT
1 TAAAATA-ATATTTT
* *
26991790 TATAATATTATTTT
1 TAAAATAATATTTT
26991804 TAAAAT
1 TAAAAT
26991810 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAAAATAATATTTT
Found at i:26991914 original size:22 final size:22
Alignment explanation
Indices: 26991875--26991917 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26991865 AGGATTGTAT
*
26991875 TTTTAAATAATTATTTTAAAGA
1 TTTTAAATAATTAGTTTAAAGA
26991897 TTTTAAATAAATT-GTTTAAAG
1 TTTTAAAT-AATTAGTTTAAAG
26991918 CATAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTAAATAATTAGTTTAAAGA
Found at i:26994088 original size:17 final size:18
Alignment explanation
Indices: 26994061--26994095 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
26994051 AAATAGATTT
26994061 TTAATTAAAAATTTTTAA
1 TTAATTAAAAATTTTTAA
26994079 TTAATT-AAAATTTTTAA
1 TTAATTAAAAATTTTTAA
26994096 ACCTAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAAAAATTTTTAA
Found at i:26996239 original size:7 final size:8
Alignment explanation
Indices: 26996223--26996255 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
26996213 CGCATTCACG
26996223 AATAAAAA
1 AATAAAAA
26996231 AATAAAAA
1 AATAAAAA
26996239 AATAAAAA
1 AATAAAAA
26996247 AATAAAAA
1 AATAAAAA
26996255 A
1 A
26996256 CAATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:27010717 original size:38 final size:38
Alignment explanation
Indices: 27010666--27010744 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
27010656 GTTATGGTTA
27010666 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
*
27010704 TTAAAGATTGAGATAATTGACATAGTGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
27010742 TTA
1 TTA
27010745 TATGTTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (38 bp):
TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
Found at i:27011728 original size:1 final size:1
Alignment explanation
Indices: 27011722--27011747 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
27011712 TGCATTCTAG
27011722 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
27011748 CTCGTGTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27014971 original size:11 final size:10
Alignment explanation
Indices: 27014945--27014970 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27014935 ACTTGGCTTC
27014945 TTTTTTCTTT
1 TTTTTTCTTT
27014955 TTTTTTCTTT
1 TTTTTTCTTT
27014965 TTTTTT
1 TTTTTT
27014971 TAATTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:27016747 original size:3 final size:3
Alignment explanation
Indices: 27016739--27016771 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27016729 TACATAGAAT
27016739 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27016772 TATACACCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27017389 original size:6 final size:6
Alignment explanation
Indices: 27017378--27017410 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27017368 TTCAATACTA
27017378 TATTTT TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT
27017411 AATTTCTATA
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:27017935 original size:46 final size:45
Alignment explanation
Indices: 27017873--27017963 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
27017863 CCCAACAAAC
* * * *
27017873 AAACATTATCAAGATCTGTGGTGTGTTCTATATTCAAGTGTAACAA
1 AAACATTATCAAGATCTG-GATATGCTCTATATTCAACTGTAACAA
* *
27017919 AAACATTATCGAGATCTGGATATGCTCTTTATTCAACTGTAACAA
1 AAACATTATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
27017964 GGTAGGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (45 bp):
AAACATTATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
Found at i:27022644 original size:21 final size:20
Alignment explanation
Indices: 27022619--27022659 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27022609 TTTAGAAACT
27022619 AATTTTATTAAAGAAATTATA
1 AATTTT-TTAAAGAAATTATA
* *
27022640 AATTTTTTTAATAAATTATA
1 AATTTTTTAAAGAAATTATA
27022660 TTATTAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTTTTTAAAGAAATTATA
Found at i:27027481 original size:20 final size:20
Alignment explanation
Indices: 27027456--27027513 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
27027446 GAATAGGGGC
* *
27027456 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCCTGGA
*
27027476 ACATGCTCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
27027496 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
27027514 CTCGTGGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.12, C:0.28, G:0.36, T:0.24
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:27028854 original size:3 final size:3
Alignment explanation
Indices: 27028846--27028924 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
27028836 ATACACATAT
27028846 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27028894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27028925 GTAAATATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27050756 original size:11 final size:12
Alignment explanation
Indices: 27050726--27050756 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27050716 AGAAAATGGC
27050726 TGATTTTTTCCT
1 TGATTTTTTCCT
27050738 TGATTTTTTCCT
1 TGATTTTTTCCT
*
27050750 TTATTTT
1 TGATTTT
27050757 CCCATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (12 bp):
TGATTTTTTCCT
Found at i:27052773 original size:37 final size:34
Alignment explanation
Indices: 27052706--27052770 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
27052696 ACTTAACAAG
27052706 CAAATGCCTCTAAAATAATAATAATAATAATTAA
1 CAAATGCCTCTAAAATAATAATAATAATAATTAA
* * *
27052740 CAAATGCCTTTAAAATAATAAGATTAATAAT
1 CAAATGCCTCTAAAATAATAATAATAATAAT
27052771 AATAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (34 bp):
CAAATGCCTCTAAAATAATAATAATAATAATTAA
Found at i:27054778 original size:2 final size:2
Alignment explanation
Indices: 27054771--27054813 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27054761 TTGAAAATTA
27054771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27054813 A
1 A
27054814 ATTTCAAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27060758 original size:21 final size:22
Alignment explanation
Indices: 27060733--27060776 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
27060723 GTCAGCATTT
27060733 AATTAATTCT-TAA-ATTTTTAA
1 AATTAATT-TATAATATTTTTAA
27060754 AATTAATTTATAATATTTTTAA
1 AATTAATTTATAATATTTTTAA
27060776 A
1 A
27060777 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 11 0.52
22 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTAATTTATAATATTTTTAA
Found at i:27067877 original size:93 final size:93
Alignment explanation
Indices: 27067718--27067890 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
27067708 CGCCCATAAG
* * * *
27067718 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
27067783 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
27067811 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTAAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
27067876 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
27067891 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27067886 original size:46 final size:46
Alignment explanation
Indices: 27067711--27067886 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
27067701 TGTAACCCGC
* * * *
27067711 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
27067757 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
27067807 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
27067850 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27067887 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 30 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:27071223 original size:53 final size:53
Alignment explanation
Indices: 27071146--27071253 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
27071136 TGGTAAAATA
*
27071146 AAATAAAAGAAGAATTCATATAGAATTACACTTCTTTTATTTTATTTTAGAAT
1 AAATAAAAGAAGAATCCATATAGAATTACACTTCTTTTATTTTATTTTAGAAT
27071199 AAATAAAAGAAGAATCCATATAGAATTACACTTCTTTTATTTTATTTTAGAAT
1 AAATAAAAGAAGAATCCATATAGAATTACACTTCTTTTATTTTATTTTAGAAT
27071252 AA
1 AA
27071254 GGTTTTTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (53 bp):
AAATAAAAGAAGAATCCATATAGAATTACACTTCTTTTATTTTATTTTAGAAT
Found at i:27076371 original size:23 final size:22
Alignment explanation
Indices: 27076344--27076406 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
27076334 AGTCTCGTTT
*
27076344 TTTATTTGTTTCTTATTTTAATA
1 TTTATTTGTTTATTATTTTAA-A
*
27076367 TTTA-TT-TTTATGATTTTAAA
1 TTTATTTGTTTATTATTTTAAA
*
27076387 TGTATTTGATTTATTATTTT
1 TTTATTTG-TTTATTATTTT
27076407 TTTAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 13 0.39
22 2 0.06
23 14 0.42
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTATTTGTTTATTATTTTAAA
Found at i:27078746 original size:24 final size:24
Alignment explanation
Indices: 27078715--27078780 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
27078705 GTAAGAAAGG
*
27078715 AGTG-GTAATTTTTGCATT-TTCTA
1 AGTGCGTAACTTTTGC-TTATTCTA
27078738 AGTGCGTAACTTTTGCTTATTCTA
1 AGTGCGTAACTTTTGCTTATTCTA
*
27078762 ACTGCGTAACTTTTGCTTA
1 AGTGCGTAACTTTTGCTTA
27078781 ATCCTAAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
23 6 0.15
24 33 0.85
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
AGTGCGTAACTTTTGCTTATTCTA
Found at i:27078885 original size:2 final size:2
Alignment explanation
Indices: 27078878--27078907 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27078868 TAAGTCTTAT
27078878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27078908 GGTTTTGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27084094 original size:26 final size:26
Alignment explanation
Indices: 27084058--27084167 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
27084048 TGATACAAAT
27084058 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27084084 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
27084110 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
27084136 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27084162 TGATAA
1 TGATAA
27084168 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:27085675 original size:26 final size:26
Alignment explanation
Indices: 27085646--27085698 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27085636 TTTACAGTTT
27085646 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
27085672 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
27085698 T
1 T
27085699 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:27088833 original size:14 final size:14
Alignment explanation
Indices: 27088816--27088847 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27088806 AATTTAAAGA
27088816 AAAATGAATATTGT
1 AAAATGAATATTGT
*
27088830 AAAATGAATGTTGT
1 AAAATGAATATTGT
27088844 AAAA
1 AAAA
27088848 ATCATGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (14 bp):
AAAATGAATATTGT
Found at i:27098636 original size:13 final size:14
Alignment explanation
Indices: 27098608--27098641 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27098598 CTTTTTCCAA
27098608 AAATAAAATGAAAT
1 AAATAAAATGAAAT
*
27098622 AAATAACAT-AAAT
1 AAATAAAATGAAAT
27098635 AAATAAA
1 AAATAAA
27098642 TGTATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:27111962 original size:13 final size:14
Alignment explanation
Indices: 27111928--27111959 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27111918 AGGGCATGTT
*
27111928 ATTTTAGTTAATGG
1 ATTTTAATTAATGG
27111942 ATTTTAATTAATGG
1 ATTTTAATTAATGG
27111956 ATTT
1 ATTT
27111960 AATGGCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTTTAATTAATGG
Found at i:27119830 original size:6 final size:6
Alignment explanation
Indices: 27119819--27119851 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27119809 TCACCGATAA
27119819 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATA
1 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATA
27119852 AATCCATGAA
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:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATAGAT
Found at i:27126537 original size:42 final size:42
Alignment explanation
Indices: 27126479--27126562 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
27126469 CTTTAGTAGG
* *
27126479 CGGTTCCTGGCTACCATCTGCCCCAAAATTCTCAACTTTACC
1 CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
* * *
27126521 CGGTTCCTGACCACCATCTGCCTCAAATTTCTCATCTTTACC
1 CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
27126563 TAACTCAGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.38, G:0.11, T:0.31
Consensus pattern (42 bp):
CGGTTCCTGACCACCATCTGCCCCAAAATTCTCAACTTTACC
Found at i:27136297 original size:33 final size:33
Alignment explanation
Indices: 27136248--27136345 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
27136238 TGGAATGTTG
27136248 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
1 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
* * * *
27136281 TTTGGATCTGTCTGGTATGCTTTTTAAGTTATC
1 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
* * * *
27136314 TTT-TATTTTGTATGATATGCTTTTTAAGTTAC
1 TTTGCA-TCTGTATGGTATACTTTTTAAGTTAC
27136346 ATTGTCACAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.53
Consensus pattern (33 bp):
TTTGCATCTGTATGGTATACTTTTTAAGTTACC
Found at i:27154723 original size:46 final size:47
Alignment explanation
Indices: 27154658--27154922 Score: 360
Period size: 46 Copynumber: 5.7 Consensus size: 47
27154648 TTATCTTTAA
* * * *
27154658 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
27154704 CATGTTGCCATGGTATCTTTCTACCATAGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
*
27154750 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
27154796 CATGCTGCCATTGTATCTTTCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
27154842 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
*
27154888 CATGTTGCCATAGTATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
27154923 ATATTTCATT
Statistics
Matches: 196, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
45 9 0.05
46 183 0.93
47 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
Found at i:27154911 original size:138 final size:138
Alignment explanation
Indices: 27154658--27154921 Score: 411
Period size: 138 Copynumber: 1.9 Consensus size: 138
27154648 TTATCTTTAA
* *
27154658 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
* ** * * *
27154723 TCTACCATAGTCTTATTCTTTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATAGTCTTACACATTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTATTCA
27154788 TTTCATGT
131 TTTCATGT
* * *
27154796 CATGCTGCCATTGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
* *
27154861 TCAACTATGGTCTTACACATTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
66 TCAACCATAGTCTTACACATTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTA
27154922 CATATTTCAT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 113 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
TCAACCATAGTCTTACACATTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTATTCA
TTTCATGT
Found at i:27156787 original size:11 final size:11
Alignment explanation
Indices: 27156771--27156818 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
27156761 CTTTATATAC
27156771 TAATAAAATAA
1 TAATAAAATAA
*
27156782 TAATAAAATATCT
1 TAATAAAATA--A
* *
27156795 TATTAAAATAT
1 TAATAAAATAA
27156806 TAATAAAATAA
1 TAATAAAATAA
27156817 TA
1 TA
27156819 TTTATGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:27157461 original size:22 final size:25
Alignment explanation
Indices: 27157405--27157465 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 25
27157395 TACATTAAAC
27157405 ATTCAATTCACATTCATGTCACATAA
1 ATTCAATTCA-ATTCATGTCACATAA
27157431 ATATACAATTCAATTCAT-TCA-AT-A
1 AT-T-CAATTCAATTCATGTCACATAA
27157455 ATTCAATTCAA
1 ATTCAATTCAA
27157466 GCTGCACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 8 0.24
23 1 0.03
24 3 0.09
25 2 0.06
26 5 0.15
27 7 0.21
28 7 0.21
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (25 bp):
ATTCAATTCAATTCATGTCACATAA
Found at i:27165690 original size:87 final size:87
Alignment explanation
Indices: 27165544--27165725 Score: 319
Period size: 87 Copynumber: 2.1 Consensus size: 87
27165534 CTTCATTACA
* *
27165544 ACTTCGTCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
27165609 GTCATGGCTTGGCGTATCTTCG
66 GCCATGGCTTGGCGTATCTTCG
*
27165631 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCGACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
27165696 GCCATGGCTTGGCGTCTCTTCG
66 GCCATGGCTTGGCGTATCTTCG
27165718 ACTTCATC
1 ACTTCATC
27165726 TTCCGAACTG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (87 bp):
ACTTCATCGACAGTGGAACCATTCTCCCCAACGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
GCCATGGCTTGGCGTATCTTCG
Found at i:27168172 original size:11 final size:11
Alignment explanation
Indices: 27168156--27168229 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
27168146 TTGGTTGGAA
*
27168156 TAATTTATGAT
1 TAATTTATAAT
27168167 TAATTTATAAT
1 TAATTTATAAT
* *
27168178 TATTTTATTAT
1 TAATTTATAAT
27168189 TAGGTATTT-TAAT
1 TA---ATTTATAAT
*
27168202 TAATTAATTAAT
1 TAATTTA-TAAT
*
27168214 TAATTAATTAAT
1 TAATTTA-TAAT
27168226 TAAT
1 TAAT
27168230 GGTTAAGTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
10 3 0.06
11 21 0.40
12 20 0.38
13 5 0.10
14 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (11 bp):
TAATTTATAAT
Found at i:27168206 original size:4 final size:4
Alignment explanation
Indices: 27168197--27168229 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
27168187 ATTAGGTATT
27168197 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
27168230 GGTTAAGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:27172355 original size:55 final size:54
Alignment explanation
Indices: 27172228--27172358 Score: 135
Period size: 54 Copynumber: 2.4 Consensus size: 54
27172218 ACTTTTTTAT
* *
27172228 ATTAAAAAATATTTTTTAGGGCTTTGGACACTAGATGGCCGGCACCATGTATTTT
1 ATTAAAAAA-ATTTTTTTGGGCTTTGGACACTAGATGGCCGGCACCATGTATTTG
* **
27172283 TTTCAAAAAAA-AATTTTGGG-TGTTGGCACACT-GATGGCCGGCACCCCA-GTATTTG
1 ATT-AAAAAAATTTTTTTGGGCT-TTGG-ACACTAGATGGCCGGCA--CCATGTATTTG
27172338 ATTAAAAAAATTTTTTTGGGC
1 ATTAAAAAAATTTTTTTGGGC
27172359 AAAGTGGTGT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
53 1 0.02
54 28 0.46
55 23 0.38
56 9 0.15
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (54 bp):
ATTAAAAAAATTTTTTTGGGCTTTGGACACTAGATGGCCGGCACCATGTATTTG
Found at i:27174036 original size:10 final size:10
Alignment explanation
Indices: 27174023--27174055 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
27174013 TTGATTAACT
27174023 AAAATTATTA
1 AAAATTATTA
27174033 AAAATTATTTA
1 AAAATTA-TTA
27174044 AAAATTA-TA
1 AAAATTATTA
27174053 AAA
1 AAA
27174056 CTATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:27174046 original size:11 final size:11
Alignment explanation
Indices: 27174023--27174051 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27174013 TTGATTAACT
27174023 AAAATTA-TTA
1 AAAATTATTTA
27174033 AAAATTATTTA
1 AAAATTATTTA
27174044 AAAATTAT
1 AAAATTAT
27174052 AAAACTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATTATTTA
Found at i:27174060 original size:19 final size:21
Alignment explanation
Indices: 27174023--27174065 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
27174013 TTGATTAACT
*
27174023 AAAATTATTAAAAATTATTTA
1 AAAATTATTAAAAACTATTTA
27174044 AAAATTA-T-AAAACTATTTA
1 AAAATTATTAAAAACTATTTA
27174063 AAA
1 AAA
27174066 TAAAAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 1 0.05
21 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATTATTAAAAACTATTTA
Found at i:27174122 original size:19 final size:21
Alignment explanation
Indices: 27174080--27174123 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
27174070 AAAACCTTGC
*
27174080 AAAATGTTATATAGAAAATTT
1 AAAATGTTATATAGAAAATAT
*
27174101 AAAAT-TTATTTA-AAAATAT
1 AAAATGTTATATAGAAAATAT
27174120 AAAA
1 AAAA
27174124 ACATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATGTTATATAGAAAATAT
Found at i:27174144 original size:40 final size:40
Alignment explanation
Indices: 27174111--27174202 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
27174101 AAAATTTATT
* *
27174111 TAAAAATATAAAAACAT-ATAAAAATTATTTAAAAATTCA
1 TAAAAATATAAAAAAATGAAAAAAATTATTTAAAAATTCA
* *
27174150 TAAAAATGTAAAAAAATGAAAAAAATTA--TAATAATT-A
1 TAAAAATATAAAAAAATGAAAAAAATTATTTAAAAATTCA
*
27174187 TAATAAT-TAAAAAAAT
1 TAAAAATATAAAAAAAT
27174203 ATTTTTTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 9 0.19
37 7 0.15
38 7 0.15
39 15 0.32
40 9 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (40 bp):
TAAAAATATAAAAAAATGAAAAAAATTATTTAAAAATTCA
Found at i:27174161 original size:29 final size:28
Alignment explanation
Indices: 27174088--27174163 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
27174078 GCAAAATGTT
* * *
27174088 ATATAGAAAATTTAAAATTTATTTAAAA
1 ATATAAAAAATATAAAAATTATTTAAAA
27174116 ATATAAAAACATATAAAAATTATTTAAAA
1 ATATAAAAA-ATATAAAAATTATTTAAAA
*
27174145 AT-TCATAAAAATGTAAAAA
1 ATAT-A-AAAAATATAAAAA
27174164 AATGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.22
29 28 0.68
30 4 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
ATATAAAAAATATAAAAATTATTTAAAA
Found at i:27174180 original size:28 final size:28
Alignment explanation
Indices: 27174141--27174202 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
27174131 AAAATTATTT
27174141 AAAAATTCATAAAAATGTAAAAAAATGAA
1 AAAAATTCATAAAAAT-TAAAAAAATGAA
* * * *
27174170 AAAAATT-ATAATAATTATAATAATTAA
1 AAAAATTCATAAAAATTAAAAAAATGAA
27174197 AAAAAT
1 AAAAAT
27174203 ATTTTTTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 15 0.52
28 7 0.24
29 7 0.24
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAATTCATAAAAATTAAAAAAATGAA
Found at i:27174723 original size:22 final size:23
Alignment explanation
Indices: 27174680--27174724 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
27174670 AAAACTATAA
* *
27174680 TTTAAATATAAAAATGGTGAAAAT
1 TTTAAATAAAAAAAT-GAGAAAAT
27174704 TTTAAATAAAAAAAT-AGAAAA
1 TTTAAATAAAAAAATGAGAAAA
27174725 AGCCACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
24 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
TTTAAATAAAAAAATGAGAAAAT
Found at i:27180244 original size:31 final size:31
Alignment explanation
Indices: 27180178--27180250 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
27180168 TTCAAAATGG
* * * * *
27180178 TCAAATAAAGGCCAAATCTTTTTTTAAAGTGC
1 TCAAAT-AAGGACAAAACTTTTTTAAAAATAC
27180210 TCAAATAAGGACAAAACTTTTTTAAAAATAC
1 TCAAATAAGGACAAAACTTTTTTAAAAATAC
*
27180241 TCAAGTAAGG
1 TCAAATAAGG
27180251 GCTTTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (31 bp):
TCAAATAAGGACAAAACTTTTTTAAAAATAC
Found at i:27186380 original size:18 final size:17
Alignment explanation
Indices: 27186359--27186419 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
27186349 CCTATTTTTA
*
27186359 TTTAATAAAATAATAAAT
1 TTTAATAAAATAAT-TAT
*
27186377 TTTAATATAATTAATTAT
1 TTTAATA-AAATAATTAT
* *
27186395 TTCAATAAAATTATTAT
1 TTTAATAAAATAATTAT
27186412 TTTAATAA
1 TTTAATAA
27186420 TAAATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.42
18 15 0.42
19 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAATAAAATAATTAT
Found at i:27186477 original size:38 final size:39
Alignment explanation
Indices: 27186410--27186488 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 39
27186400 TAAAATTATT
27186410 ATTTTAATAATAAATTTTAACAGTAATAATAATATTAAA
1 ATTTTAATAATAAATTTTAACAGTAATAATAATATTAAA
* * * * *
27186449 ATTTTAATAAT-ATTTTTAATATTTATAATAATATTTAA
1 ATTTTAATAATAAATTTTAACAGTAATAATAATATTAAA
27186487 AT
1 AT
27186489 AATAAATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 24 0.69
39 11 0.31
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
ATTTTAATAATAAATTTTAACAGTAATAATAATATTAAA
Found at i:27186489 original size:20 final size:20
Alignment explanation
Indices: 27186435--27186489 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
27186425 TTTAACAGTA
27186435 ATAATAATA-TTAAA-ATTT
1 ATAATAATATTTAAATATTT
*
27186453 -TAATAATATTTTTAATATTT
1 ATAATAATA-TTTAAATATTT
27186473 ATAATAATATTTAAATA
1 ATAATAATATTTAAATA
27186490 ATAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 8 0.26
19 4 0.13
20 11 0.35
21 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATAATATTTAAATATTT
Found at i:27186492 original size:14 final size:12
Alignment explanation
Indices: 27186449--27186527 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 12
27186439 TAATATTAAA
27186449 ATTT-TAATAAT
1 ATTTATAATAAT
27186460 ATTT-T--TAAT
1 ATTTATAATAAT
27186469 ATTTATAATAAT
1 ATTTATAATAAT
27186481 ATTTA-AATAAT
1 ATTTATAATAAT
** *
27186492 AAATATATATTAT
1 ATTTATA-ATAAT
27186505 AATTTAT-A-AAT
1 -ATTTATAATAAT
27186516 ATTTAGTAATAA
1 ATTTA-TAATAA
27186528 ATGGTTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
9 8 0.15
10 6 0.11
11 17 0.32
12 12 0.23
13 6 0.11
14 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
ATTTATAATAAT
Found at i:27186526 original size:57 final size:57
Alignment explanation
Indices: 27186416--27186526 Score: 124
Period size: 57 Copynumber: 1.9 Consensus size: 57
27186406 TATTATTTTA
*
27186416 ATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTTTAATATTT
1 ATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTGTAATATTT
*
27186473 ATAAT-AATATTTAA-A-TAATAAATATATATTATAA-TTT-ATAAATATTTAGTAATA
1 ATAATAAAT-TTTAACAGTAAT-AATA-ATATTAAAATTTTAAT-AATATTT-GTAATA
27186527 AATGGTTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
55 6 0.13
56 18 0.38
57 23 0.49
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (57 bp):
ATAATAAATTTTAACAGTAATAATAATATTAAAATTTTAATAATATTTGTAATATTT
Found at i:27189034 original size:18 final size:18
Alignment explanation
Indices: 27189007--27189041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27188997 ACTTTGAAAT
* *
27189007 TCACTTCACTTCAATATA
1 TCACTACACTTAAATATA
27189025 TCACTACACTTAAATAT
1 TCACTACACTTAAATAT
27189042 GTTATTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACTACACTTAAATATA
Found at i:27189945 original size:11 final size:11
Alignment explanation
Indices: 27189929--27189959 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27189919 AATATCTTAA
*
27189929 TAAAATATTAT
1 TAAAATAATAT
27189940 TAAAATAATAT
1 TAAAATAATAT
27189951 TAAAATAAT
1 TAAAATAAT
27189960 TCCACCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:27207019 original size:45 final size:46
Alignment explanation
Indices: 27206953--27207116 Score: 147
Period size: 47 Copynumber: 3.5 Consensus size: 46
27206943 TGAGCTGATG
*
27206953 AACAGTAAGCTCTATTA--AGCTGAAACGGTAAGGTCT-ATCGAGCTG-
1 AACAGTAAGCTC-A-TACGAGCTGAAACGGTAAGGTCTAAT-GAACTGA
* *
27206998 ACCAGTAAGCTCATACGAGCTGAAACGATAAGGTCTAATGAACTGAA
1 AACAGTAAGCTCATACGAGCTGAAACGGTAAGGTCTAATGAACTG-A
* * * * **
27207045 AACAGTAAGCTTATATGAGCTGAAACGGTAAGCTCCAATGAGTTGAA
1 AACAGTAAGCTCATACGAGCTGAAACGGTAAGGTCTAATGAACTG-A
* * *
27207092 AACAATAATCTCATACGAGTTGAAA
1 AACAGTAAGCTCATACGAGCTGAAA
27207117 TATCGGTAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 34 0.35
46 2 0.02
47 59 0.60
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (46 bp):
AACAGTAAGCTCATACGAGCTGAAACGGTAAGGTCTAATGAACTGA
Found at i:27207069 original size:47 final size:47
Alignment explanation
Indices: 27206943--27207095 Score: 161
Period size: 47 Copynumber: 3.3 Consensus size: 47
27206933 AAGCTCCTCT
* *
27206943 TGAGCTGATGAACAGTAAGCTCTAT-TAAGCTGAAACGGTAAGGTCT-A
1 TGAGCTGA-AAACAGTAAGCT-TATATGAGCTGAAACGGTAAGGTCTAA
* * * *
27206990 TCGAGCTG--ACCAGTAAGCTCATACGAGCTGAAACGATAAGGTCTAA
1 T-GAGCTGAAAACAGTAAGCTTATATGAGCTGAAACGGTAAGGTCTAA
* * *
27207036 TGAACTGAAAACAGTAAGCTTATATGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTTATATGAGCTGAAACGGTAAGGTCTAA
*
27207083 TGAGTTGAAAACA
1 TGAGCTGAAAACA
27207096 ATAATCTCAT
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
45 33 0.38
46 2 0.02
47 44 0.51
48 6 0.07
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (47 bp):
TGAGCTGAAAACAGTAAGCTTATATGAGCTGAAACGGTAAGGTCTAA
Found at i:27207085 original size:23 final size:22
Alignment explanation
Indices: 27206943--27207092 Score: 88
Period size: 23 Copynumber: 6.5 Consensus size: 22
27206933 AAGCTCCTCT
*
27206943 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTC-AA
* * * *
27206968 TAAGCTGAAACGGTAAGGTCTA
1 TGAGCTGAAACAGTAAGCTCAA
*
27206990 TCGAGCTG-ACCAGTAAGCTCATA
1 T-GAGCTGAAACAGTAAGCTCA-A
* *
27207013 CGAGCTGAAAC-GATAAGGTCTAA
1 TGAGCTGAAACAG-TAAGCTC-AA
* *
27207036 TGAACTGAAAACAGTAAGCTTATA
1 TGAGCTG-AAACAGTAAGCTCA-A
*
27207060 TGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCT-CAA
*
27207083 TGAGTTGAAA
1 TGAGCTGAAA
27207093 ACAATAATCT
Statistics
Matches: 95, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
22 17 0.18
23 52 0.55
24 18 0.19
25 8 0.08
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (22 bp):
TGAGCTGAAACAGTAAGCTCAA
Found at i:27207831 original size:17 final size:18
Alignment explanation
Indices: 27207811--27207844 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27207801 AAGTGAATTG
27207811 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
27207828 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
27207845 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:27208580 original size:10 final size:9
Alignment explanation
Indices: 27208565--27208610 Score: 56
Period size: 10 Copynumber: 4.7 Consensus size: 9
27208555 ATTCTAAAAG
27208565 ATAAATACAA
1 ATAAATA-AA
27208575 ATAAATAAA
1 ATAAATAAA
27208584 GATAAATGAAA
1 -ATAAAT-AAA
27208595 ATAAATAAAA
1 ATAAAT-AAA
27208605 ATAAAT
1 ATAAAT
27208611 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.85
11 3 0.09
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (9 bp):
ATAAATAAA
Found at i:27208584 original size:20 final size:20
Alignment explanation
Indices: 27208561--27208610 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
27208551 TGAAATTCTA
27208561 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
27208581 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
*
27208601 AAAAATAAAT
1 AAAGATAAAT
27208611 CCTAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Done.