Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 39
Found at i:6507897 original size:20 final size:21
Alignment explanation
Indices: 6507872--6507910 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
6507862 TTCAATCTTA
6507872 TTTTCTGTTTTT-TATTTTAT
1 TTTTCTGTTTTTCTATTTTAT
6507892 TTTTCTGTTTTTCTATTTT
1 TTTTCTGTTTTTCTATTTT
6507911 TTATTAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTTCTGTTTTTCTATTTTAT
Found at i:6507927 original size:56 final size:59
Alignment explanation
Indices: 6507818--6507928 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 59
6507808 TATTTTTATT
* * * *
6507818 TGTTTTTTATTTTCTGTTTTCTATTTATTTCTGTTTTTTATAAGTTCAATCTTATTTTC
1 TGTTTTTTATTTTATGTTTTCTAGTTATTTCTATTTTTTATAAGCTCAATCTTATTTTC
*
6507877 TGTTTTTTATTTTAT-TTTTCT-GTT-TTTCTATTTTTTATTAGCT-AATTCTTAT
1 TGTTTTTTATTTTATGTTTTCTAGTTATTTCTATTTTTTATAAGCTCAA-TCTTAT
6507929 GTTAATGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 2 0.04
56 22 0.48
57 2 0.04
58 6 0.13
59 14 0.30
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.69
Consensus pattern (59 bp):
TGTTTTTTATTTTATGTTTTCTAGTTATTTCTATTTTTTATAAGCTCAATCTTATTTTC
Found at i:6508027 original size:87 final size:88
Alignment explanation
Indices: 6507912--6508075 Score: 240
Period size: 87 Copynumber: 1.9 Consensus size: 88
6507902 TTCTATTTTT
* *
6507912 TATTAGCTAATTCTTATGTTAATGTGAAGTACTTTGAATTAGCTGATTATTATATTATTTTCT-G
1 TATTAGCTAATTCTTACGTTAATGTGAAGGACTTTGAATTAGCTGATTATTATATTATTTTCTAG
6507976 TTTGTATTTGTTGATGTGAAGGA
66 TTTGTATTTGTTGATGTGAAGGA
* * * * * *
6507999 TATTAGCTGATTTTTACGTTAATGTGAAGGACTTTGAATTAGTTGATTCTTATATTGTTTTCTAT
1 TATTAGCTAATTCTTACGTTAATGTGAAGGACTTTGAATTAGCTGATTATTATATTATTTTCTAG
*
6508064 TTTTTATTTGTT
66 TTTGTATTTGTT
6508076 TTTGTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 56 0.84
88 11 0.16
ACGTcount: A:0.24, C:0.06, G:0.17, T:0.52
Consensus pattern (88 bp):
TATTAGCTAATTCTTACGTTAATGTGAAGGACTTTGAATTAGCTGATTATTATATTATTTTCTAG
TTTGTATTTGTTGATGTGAAGGA
Found at i:6508083 original size:17 final size:17
Alignment explanation
Indices: 6508048--6508147 Score: 80
Period size: 18 Copynumber: 5.7 Consensus size: 17
6508038 TAGTTGATTC
6508048 TTATATTGTTTTCTATTTT
1 TTAT-TTGTTTT-TATTTT
*
6508067 TTATTTGTTTTTGTTTT
1 TTATTTGTTTTTATTTT
*
6508084 TTATTTGTTTTTTATTAT
1 TTATTTG-TTTTTATTTT
*
6508102 TTAGTT-TTTTTATTTGT
1 TTATTTGTTTTTATTT-T
*
6508119 TT-TCTGTTATTTATTTAT
1 TTATTTGTT-TTTATTT-T
*
6508137 TT-TATGTTTTT
1 TTATTTGTTTTT
6508148 TGTTTATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
16 9 0.13
17 20 0.29
18 35 0.51
19 4 0.06
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (17 bp):
TTATTTGTTTTTATTTT
Found at i:6508090 original size:11 final size:11
Alignment explanation
Indices: 6508048--6508099 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
6508038 TAGTTGATTC
6508048 TTATATTGTTTT
1 TTAT-TTGTTTT
* *
6508060 CTATTTTTTATT
1 TTATTTGTT-TT
*
6508072 TGTTTTTGTTTT
1 T-TATTTGTTTT
6508084 TTATTTGTTTT
1 TTATTTGTTTT
6508095 TTATT
1 TTATT
6508100 ATTTAGTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 18 0.56
12 8 0.25
13 6 0.19
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.79
Consensus pattern (11 bp):
TTATTTGTTTT
Found at i:6508110 original size:27 final size:26
Alignment explanation
Indices: 6508080--6508161 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
6508070 TTTGTTTTTG
6508080 TTTTTTATTTGTTTTTTATTATTTAGT
1 TTTTTTATTTGTTTTTTATTATTTA-T
* *
6508107 TTTTTTATTTGTTTTCTGTTATTTAT
1 TTTTTTATTTGTTTTTTATTATTTAT
*
6508133 TTATTTTATGTTTTTTGTTTA-TATTTAT
1 TT-TTTTAT-TTGTTT-TTTATTATTTAT
6508161 T
1 T
6508162 GTTCTAACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.06
27 29 0.62
28 13 0.28
29 2 0.04
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTGTTTTTTATTATTTAT
Found at i:6508128 original size:14 final size:12
Alignment explanation
Indices: 6508076--6508154 Score: 63
Period size: 13 Copynumber: 6.1 Consensus size: 12
6508066 TTTATTTGTT
6508076 TTTG-TTTTTTA
1 TTTGTTTTTTTA
6508087 TTTGTTTTTTATTA
1 TTTG-TTTTT-TTA
6508101 TTTAGTTTTTTTA
1 TTT-GTTTTTTTA
6508114 TTTGTTTTCTGTTA
1 TTTGTTTT-T-TTA
*
6508128 TTTATTTATTTTA
1 TTTGTTT-TTTTA
6508141 TGTT-TTTTGTTTA
1 T-TTGTTTT-TTTA
6508154 T
1 T
6508155 ATTTATTGTT
Statistics
Matches: 58, Mismatches: 1, Indels: 16
0.77 0.01 0.21
Matches are distributed among these distances:
11 4 0.07
12 6 0.10
13 23 0.40
14 23 0.40
15 2 0.03
ACGTcount: A:0.13, C:0.01, G:0.09, T:0.77
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:6508153 original size:18 final size:18
Alignment explanation
Indices: 6508089--6508160 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
6508079 GTTTTTTATT
6508089 TGTTTTTTA-TTA-TTTA
1 TGTTTTTTATTTATTTTA
* *
6508105 -GTTTTTTTATTTGTTTTC
1 TG-TTTTTTATTTATTTTA
*
6508123 TGTTATTTATTTATTTTA
1 TGTTTTTTATTTATTTTA
*
6508141 TGTTTTTTGTTTATATTTA
1 TGTTTTTTATTTAT-TTTA
6508160 T
1 T
6508161 TGTTCTAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 2 0.05
18 28 0.64
19 6 0.14
ACGTcount: A:0.15, C:0.01, G:0.08, T:0.75
Consensus pattern (18 bp):
TGTTTTTTATTTATTTTA
Found at i:6513721 original size:16 final size:15
Alignment explanation
Indices: 6513700--6513754 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
6513690 GGTATTACCC
6513700 GACCTGTTTTCAACCT
1 GACCTGTTTT-AACCT
6513716 GACCTGGTTTTAACCT
1 GACCT-GTTTTAACCT
* *
6513732 GGCCTGTTTTTAACTT
1 GACCTG-TTTTAACCT
6513748 GACCTGT
1 GACCTGT
6513755 AAATGATCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 2 0.06
16 27 0.79
17 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (15 bp):
GACCTGTTTTAACCT
Found at i:6514001 original size:23 final size:24
Alignment explanation
Indices: 6513967--6514016 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
6513957 ATGCAAAGGA
*
6513967 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATCTATAT
6513991 AAATT-ATATAGTTTAATCTATAT
1 AAATTAATATAGTTTAATCTATAT
6514014 AAA
1 AAA
6514017 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATATAGTTTAATCTATAT
Found at i:6514686 original size:7 final size:7
Alignment explanation
Indices: 6514670--6514734 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
6514660 CTCATTTACA
6514670 TTAGGGT
1 TTAGGGT
*
6514677 TTATGGT
1 TTAGGGT
6514684 TTAGGGT
1 TTAGGGT
**
6514691 TTAGTAT
1 TTAGGGT
*
6514698 TTAGAGT
1 TTAGGGT
*
6514705 TTAAGGT
1 TTAGGGT
**
6514712 TTAAAGT
1 TTAGGGT
6514719 TTAGGGT
1 TTAGGGT
*
6514726 TTAAGGT
1 TTAGGGT
6514733 TT
1 TT
6514735 CTATAACCTA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:6515032 original size:19 final size:19
Alignment explanation
Indices: 6514999--6515046 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6514989 ATATGTTTTC
* *
6514999 ATGAACAATACTATACGGT
1 ATGAACAGTATTATACGGT
* *
6515018 ATGAATAGTATTATACTGT
1 ATGAACAGTATTATACGGT
6515037 ATGAACAGTA
1 ATGAACAGTA
6515047 CCACGAACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (19 bp):
ATGAACAGTATTATACGGT
Found at i:6515619 original size:21 final size:21
Alignment explanation
Indices: 6515593--6515632 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6515583 GAGAAATTAT
6515593 TTTTAAAATACAAAAATGATA
1 TTTTAAAATACAAAAATGATA
**
6515614 TTTTAAAATTGAAAAATGA
1 TTTTAAAATACAAAAATGA
6515633 AAATAATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
TTTTAAAATACAAAAATGATA
Found at i:6519561 original size:20 final size:20
Alignment explanation
Indices: 6519536--6519585 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
6519526 CTTGAATGTA
6519536 CATCGATGCACAAAGCCATG
1 CATCGATGCACAAAGCCATG
6519556 CATCGATGCACAAAGCCATG
1 CATCGATGCACAAAGCCATG
*
6519576 CATTGATGCA
1 CATCGATGCA
6519586 TCTGCCATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (20 bp):
CATCGATGCACAAAGCCATG
Found at i:6522343 original size:45 final size:46
Alignment explanation
Indices: 6522246--6522353 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 46
6522236 ATGCACATAC
* * *
6522246 CATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGCTATTTATGAAAACATCGAATGCACTT
* *
6522292 GATGCATCGATGCACTCAGACTATTT-TG-AAATATCGAATGCACTT
1 CATGCATCGATGCACTCAG-CTATTTATGAAAACATCGAATGCACTT
*
6522337 CATGCATTGATGCACTC
1 CATGCATCGATGCACTC
6522354 TTAGTGCACC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 30 0.56
46 20 0.37
47 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGCTATTTATGAAAACATCGAATGCACTT
Found at i:6523811 original size:22 final size:22
Alignment explanation
Indices: 6523786--6523831 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6523776 GGCATATGAA
*
6523786 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCAAATGACCTATGT
*
6523808 ATTTGTCCCAAATGACCTCTGT
1 ATTTGTCCCAAATGACCTATGT
6523830 AT
1 AT
6523832 ACTGTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (22 bp):
ATTTGTCCCAAATGACCTATGT
Found at i:6524074 original size:27 final size:26
Alignment explanation
Indices: 6524033--6524092 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 26
6524023 CATATAACCC
6524033 ATATCACATAAGTTCATATCATATCACAT
1 ATATCACAT-AGTTCATAT-A-ATCACAT
*
6524062 ATATCACAT-GTTCATGTAATCACAT
1 ATATCACATAGTTCATATAATCACAT
*
6524087 AGATCA
1 ATATCA
6524093 TATCATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.41
26 1 0.03
27 7 0.24
29 9 0.31
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (26 bp):
ATATCACATAGTTCATATAATCACAT
Found at i:6525772 original size:2 final size:2
Alignment explanation
Indices: 6525699--6525757 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6525689 CGATGTTACA
6525699 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
6525741 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6525758 CATGGTTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6526098 original size:7 final size:7
Alignment explanation
Indices: 6526082--6526125 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
6526072 TTCATTTACA
6526082 TTAGGGT
1 TTAGGGT
*
6526089 TTATGGT
1 TTAGGGT
* *
6526096 TTAGTGC
1 TTAGGGT
6526103 TTAGGGT
1 TTAGGGT
6526110 TTAGGGT
1 TTAGGGT
6526117 TTAGGGT
1 TTAGGGT
6526124 TT
1 TT
6526126 CTATAACCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:6526218 original size:13 final size:13
Alignment explanation
Indices: 6526200--6526244 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
6526190 TAATTTACTT
6526200 TATATAGTTTATA
1 TATATAGTTTATA
*
6526213 TATATATATGTTATA
1 TATATA-GT-TTATA
6526228 TATATAGTTTATA
1 TATATAGTTTATA
6526241 TATA
1 TATA
6526245 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 15 0.54
14 2 0.07
15 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:6526220 original size:15 final size:15
Alignment explanation
Indices: 6526200--6526249 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
6526190 TAATTTACTT
6526200 TATATAGTTTATATA
1 TATATAGTTTATATA
*
6526215 TATATA-TGT-TATA
1 TATATAGTTTATATA
6526228 TATATAGTTTATATA
1 TATATAGTTTATATA
6526243 TACTATA
1 TA-TATA
6526250 CATGGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 10 0.33
14 4 0.13
15 12 0.40
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:6526288 original size:24 final size:24
Alignment explanation
Indices: 6526259--6526325 Score: 93
Period size: 22 Copynumber: 2.8 Consensus size: 24
6526249 ACATGGTTTA
6526259 TAAATAAATATTATATAAAATTATT
1 TAAATAAA-ATTATATAAAATTATT
6526284 T-AATAAAATTA-ATAAAATTATT
1 TAAATAAAATTATATAAAATTATT
*
6526306 TAAATGTAAATTATATAAAA
1 TAAAT-AAAATTATATAAAA
6526326 CATGATTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
22 12 0.32
23 7 0.18
24 12 0.32
25 7 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (24 bp):
TAAATAAAATTATATAAAATTATT
Found at i:6527099 original size:13 final size:13
Alignment explanation
Indices: 6527083--6527109 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6527073 TACATATTAT
6527083 ATAAAATTATTTA
1 ATAAAATTATTTA
6527096 ATAAAATTATTTA
1 ATAAAATTATTTA
6527109 A
1 A
6527110 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:6527119 original size:15 final size:14
Alignment explanation
Indices: 6527083--6527125 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
6527073 TACATATTAT
6527083 ATAAAATTATTT-A
1 ATAAAATTATTTAA
6527096 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
6527110 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
6527125 A
1 A
6527126 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:6527311 original size:401 final size:402
Alignment explanation
Indices: 6526292--6527346 Score: 1945
Period size: 401 Copynumber: 2.6 Consensus size: 402
6526282 TTTAATAAAA
6526292 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
*
6526357 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGCCATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
6526422 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
6526487 AGTAATAATAAAACCCAAAAATAAGTCCATTTGCAATAGTGCTAGTCCATTTACATTAAGGTTTA
196 AGTAATAATAAAACCCAAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTAAGGTTTA
6526552 TGGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTAT
261 TGGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTAT
*
6526617 ATAAGTAATTTACTTTATATATAGTTTATATATAGAGAGAGATAGAGAGTTTACATATACATATT
326 ATAAGTAATTTACTTTATATATAGTTTATATATAGAGAGAGATAGAGAATTTACATATACATATT
*
6526682 ATATACAATTAT
391 ATATAAAATTAT
6526694 TTAATAAAATTATTTAAATGTAAA-TATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
6526758 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
6526823 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
6526888 AGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTAGTGCTAGTCCATTTACATTAAGGTTTA
196 AGTAATAATAAAACCCAAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTAAGGTTTA
*
6526953 TGGTTTTTATAAA-T-TATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTAT
261 TGGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTAT
*
6527016 ATAAGTAATTTACTTTATATATAGTTTTTATATAGAGAGAGATAGAGAATTTACATATACATATT
326 ATAAGTAATTTACTTTATATATAGTTTATATATAGAGAGAGATAGAGAATTTACATATACATATT
6527081 ATATAAAATTAT
391 ATATAAAATTAT
* * *
6527093 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAAATAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
6527158 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
* * *
6527223 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTCATAGCCCATTTATTTTGTTGCTATAAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
* *
6527288 AATAATAATAAACCCCAAAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTA
196 AGTAATAATAAAACCC-AAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTA
6527347 GTTTACATAA
Statistics
Matches: 635, Mismatches: 16, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
399 147 0.23
400 179 0.28
401 285 0.45
402 24 0.04
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.42
Consensus pattern (402 bp):
TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTTGGAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
AGTAATAATAAAACCCAAAAATAAGTTCATTTGCAATAGTGCTAGTCCATTTACATTAAGGTTTA
TGGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTAT
ATAAGTAATTTACTTTATATATAGTTTATATATAGAGAGAGATAGAGAATTTACATATACATATT
ATATAAAATTAT
Found at i:6527569 original size:17 final size:17
Alignment explanation
Indices: 6527547--6527602 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
6527537 TAATTTACTT
*
6527547 TATATAGTTTTTATATA
1 TATATAGTTTATATATA
*
6527564 TATATAGGTTATATATA
1 TATATAGTTTATATATA
6527581 TATATAGTTTATATATA
1 TATATAGTTTATATATA
6527598 CTATA
1 -TATA
6527603 CATGGTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
TATATAGTTTATATATA
Found at i:6527610 original size:20 final size:20
Alignment explanation
Indices: 6527550--6527618 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 20
6527540 TTTACTTTAT
*
6527550 ATAGTTT-T-TATA-TATAT
1 ATAGTTTATATATACTATAC
*
6527567 ATAGGTTATATATA-TAT--
1 ATAGTTTATATATACTATAC
6527584 ATAGTTTATATATACTATAC
1 ATAGTTTATATATACTATAC
* *
6527604 ATGGTTTATACATAC
1 ATAGTTTATATATAC
6527619 ATATTATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 19 0.44
18 4 0.09
19 7 0.16
20 13 0.30
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (20 bp):
ATAGTTTATATATACTATAC
Found at i:6527636 original size:13 final size:13
Alignment explanation
Indices: 6527626--6527652 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6527616 TACATATTAT
6527626 ATAAAATTATTTA
1 ATAAAATTATTTA
6527639 ATAAAATTATTTA
1 ATAAAATTATTTA
6527652 A
1 A
6527653 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:6527662 original size:15 final size:14
Alignment explanation
Indices: 6527626--6527668 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
6527616 TACATATTAT
6527626 ATAAAATTATTT-A
1 ATAAAATTATTTAA
6527639 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
6527653 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
6527668 A
1 A
6527669 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:6528519 original size:20 final size:20
Alignment explanation
Indices: 6528494--6528547 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
6528484 TTTCTATTCT
6528494 CTCTAAATTTCCCAATTTCC
1 CTCTAAATTTCCCAATTTCC
*
6528514 CTCTAAATTTCCCAATTTCT
1 CTCTAAATTTCCCAATTTCC
6528534 CTCTAAA-TTCCCAA
1 CTCTAAATTTCCCAA
6528548 ATAAAATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (20 bp):
CTCTAAATTTCCCAATTTCC
Found at i:6528791 original size:10 final size:11
Alignment explanation
Indices: 6528769--6528805 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
6528759 TTTATATATA
6528769 ATATAGTTTAT
1 ATATAGTTTAT
6528780 ATATAGTTATAT
1 ATATAGTT-TAT
6528792 ATATAGTTTAT
1 ATATAGTTTAT
6528803 ATA
1 ATA
6528806 AACTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (11 bp):
ATATAGTTTAT
Found at i:6528799 original size:23 final size:23
Alignment explanation
Indices: 6528763--6528827 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
6528753 ATGTAGTTTA
*
6528763 TATATAATATAGTTTATATATAGT
1 TATAT-ATATAGTTTATATATACT
*
6528787 TATATATATAGTTTATATAAACT
1 TATATATATAGTTTATATATACT
*
6528810 TATAT-TATA-TATATATAT
1 TATATATATAGTTTATATAT
6528828 TTTTTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
23 21 0.57
24 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
TATATATATAGTTTATATATACT
Found at i:6530557 original size:20 final size:20
Alignment explanation
Indices: 6530482--6530549 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
6530472 TTAAAATAAT
*
6530482 AATAAATTTAATA-TTTTAA
1 AATAAATTCAATATTTTTAA
* * *
6530501 AATATATTCAATATGTATAAA
1 AATAAATTCAATAT-TTTTAA
6530522 AATAAATTCAATATTTTTAA
1 AATAAATTCAATATTTTTAA
6530542 AATAAATT
1 AATAAATT
6530550 TGAAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 11 0.28
20 12 0.30
21 17 0.43
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
AATAAATTCAATATTTTTAA
Found at i:6531325 original size:20 final size:20
Alignment explanation
Indices: 6531302--6531351 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
6531292 ACAAGTTCCA
*
6531302 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGAGAATAGGT
* *
6531322 AAATCGCAACGATAATATGT
1 AAATCGCAACGAGAATAGGT
6531342 AAATCGCAAC
1 AAATCGCAAC
6531352 ACAGAAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGAGAATAGGT
Found at i:6531700 original size:20 final size:20
Alignment explanation
Indices: 6531663--6531700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6531653 GGAGAATTCG
*
6531663 CGTTGCGATTTATATATTAT
1 CGTTGCGATTTACATATTAT
*
6531683 CGTTGCGATTTACCTATT
1 CGTTGCGATTTACATATT
6531701 CGTGTTGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:6531914 original size:110 final size:110
Alignment explanation
Indices: 6531728--6531936 Score: 321
Period size: 110 Copynumber: 1.9 Consensus size: 110
6531718 AAATCGCAAC
* *
6531728 GCGAATTTTGTTTTCGCAACGCGATTCTCCAAAATCGCAACGCAAATTTCATTTTCGCAATGCTA
1 GCGAATTTTGTTTTCACAACGCGATTCTCCAAAATCGCAACGCAAATTTCATTTTCGCAACGCTA
* *
6531793 ATTACCTATATCGGTAATTGGCGTTGCGATTTTGACTTTCGCATT
66 ATTACCTATATCGGTAATTAGCGTTGCGAATTTGACTTTCGCATT
* ** * *
6531838 GCGAATTTTGTTTTTACAACTTGATT-TCCCGAAATCGCAACGCGAATTTCATTTTCGCAACGCT
1 GCGAATTTTGTTTTCACAACGCGATTCT-CCAAAATCGCAACGCAAATTTCATTTTCGCAACGCT
6531902 AATTACCTATATCGGTAATTAGCGTTGCGAATTTG
65 AATTACCTATATCGGTAATTAGCGTTGCGAATTTG
6531937 GAGAATTCGC
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.01
110 88 0.99
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (110 bp):
GCGAATTTTGTTTTCACAACGCGATTCTCCAAAATCGCAACGCAAATTTCATTTTCGCAACGCTA
ATTACCTATATCGGTAATTAGCGTTGCGAATTTGACTTTCGCATT
Found at i:6531993 original size:20 final size:20
Alignment explanation
Indices: 6531946--6531983 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6531936 GGAGAATTCG
6531946 CATTGCGATTTACATATTAT
1 CATTGCGATTTACATATTAT
*
6531966 CATTGCGATTTACCTATT
1 CATTGCGATTTACATATT
6531984 TGCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (20 bp):
CATTGCGATTTACATATTAT
Found at i:6532094 original size:63 final size:63
Alignment explanation
Indices: 6532002--6532120 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
6531992 GAATTTCATT
*
6532002 TTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAATTCAAGTTGCGAAAATGAAA
1 TTCGCAACGCTAATTACCGATATAGGTAATTAGCATTGCGAAATTCAAGTTGCGAAAATGAAA
* *
6532065 TTCGCAACGCTAATTACCTATATCA-GTAATTAGCATTGCGAAATTCGAGTTGCGAA
1 TTCGCAACGCTAATTACCGATAT-AGGTAATTAGCATTGCGAAATTCAAGTTGCGAA
6532121 TTTGGAGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
63 51 0.98
64 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (63 bp):
TTCGCAACGCTAATTACCGATATAGGTAATTAGCATTGCGAAATTCAAGTTGCGAAAATGAAA
Found at i:6532164 original size:20 final size:20
Alignment explanation
Indices: 6532135--6532181 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6532125 GAGAATTCGT
* *
6532135 GTTGCCATTTACATATTATC
1 GTTGCGATTTACATATTAGC
* *
6532155 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTAGC
6532175 GTTGCGA
1 GTTGCGA
6532182 ATTTGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTAGC
Found at i:6532217 original size:20 final size:20
Alignment explanation
Indices: 6532192--6532259 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
6532182 ATTTGGAAAA
6532192 TCGCAACGCGGATTTCGTTT
1 TCGCAACGCGGATTTCGTTT
****
6532212 TCGCAACGC-GATTCTCCAAAA
1 TCGCAACGCGGATT-T-CGTTT
*
6532233 TCGCAACGCGAATTTCGTTT
1 TCGCAACGCGGATTTCGTTT
6532253 TCGCAAC
1 TCGCAAC
6532260 TCTAATTACC
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 4 0.11
20 18 0.50
21 11 0.31
22 3 0.08
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGGATTTCGTTT
Found at i:6532358 original size:20 final size:20
Alignment explanation
Indices: 6532321--6532386 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
6532311 GGAGAATTTG
* *
6532321 CGTTGTGATTTACATATTAT
1 CGTTGCGATATACATATTAT
* **
6532341 CGTTGCGATATACCTATTCG
1 CGTTGCGATATACATATTAT
6532361 CGTTGCGA-ATTACATATTAT
1 CGTTGCGATA-TACATATTAT
*
6532381 CATTGC
1 CGTTGC
6532387 AATTTAACTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (20 bp):
CGTTGCGATATACATATTAT
Found at i:6532374 original size:40 final size:40
Alignment explanation
Indices: 6532320--6532411 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
6532310 TGGAGAATTT
* * * * *
6532320 GCGTTGTGATTTACATATTATCGTTGCGATATACCTATTC
1 GCGTTGCGAATTACATATTATCATTGCAATATAACTATTC
*
6532360 GCGTTGCGAATTACATATTATCATTGCAATTTAACTATTC
1 GCGTTGCGAATTACATATTATCATTGCAATATAACTATTC
6532400 GCGTTGCGAATT
1 GCGTTGCGAATT
6532412 TAACTTTCGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
GCGTTGCGAATTACATATTATCATTGCAATATAACTATTC
Found at i:6532426 original size:40 final size:40
Alignment explanation
Indices: 6532381--6532488 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
6532371 TACATATTAT
*
6532381 CATTGC-AATTTAACTATTCGCGTTGCGAATTTAACTTTCG
1 CATTGCGATTTTAACT-TTCGCGTTGCGAATTTAACTTTCG
* * * * *
6532421 TATTGCGATTTTGACTTTGGCGTTGCGAATTTGACTTTTG
1 CATTGCGATTTTAACTTTCGCGTTGCGAATTTAACTTTCG
6532461 CATTGCGATTTTAACTTTCGCGTTGCGA
1 CATTGCGATTTTAACTTTCGCGTTGCGA
6532489 TTTTGGAACC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 51 0.88
41 7 0.12
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (40 bp):
CATTGCGATTTTAACTTTCGCGTTGCGAATTTAACTTTCG
Found at i:6532489 original size:20 final size:20
Alignment explanation
Indices: 6532389--6532492 Score: 118
Period size: 20 Copynumber: 5.2 Consensus size: 20
6532379 ATCATTGCAA
*
6532389 TTTAACTATTCGCGTTGCGAA
1 TTTAACT-TTCGCGTTGCGAT
**
6532410 TTTAACTTTCGTATTGCGAT
1 TTTAACTTTCGCGTTGCGAT
* * *
6532430 TTTGACTTTGGCGTTGCGAA
1 TTTAACTTTCGCGTTGCGAT
* * *
6532450 TTTGACTTTTGCATTGCGAT
1 TTTAACTTTCGCGTTGCGAT
6532470 TTTAACTTTCGCGTTGCGAT
1 TTTAACTTTCGCGTTGCGAT
6532490 TTT
1 TTT
6532493 GGAACCCGTG
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
20 62 0.90
21 7 0.10
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTAACTTTCGCGTTGCGAT
Found at i:6535289 original size:2 final size:2
Alignment explanation
Indices: 6535282--6535314 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6535272 TATGTTTTCC
6535282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6535315 GATGTGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6552856 original size:12 final size:12
Alignment explanation
Indices: 6552839--6552864 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6552829 TTCAACCCAA
6552839 CCCCATCTTCTT
1 CCCCATCTTCTT
6552851 CCCCATCTTCTT
1 CCCCATCTTCTT
6552863 CC
1 CC
6552865 TTAACACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.54, G:0.00, T:0.38
Consensus pattern (12 bp):
CCCCATCTTCTT
Found at i:6557476 original size:20 final size:21
Alignment explanation
Indices: 6557422--6557484 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
6557412 GATTCCCCTG
6557422 TGGGGGGAATCGGTTCCCCATCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
6557446 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
6557466 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
6557485 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:6568037 original size:12 final size:12
Alignment explanation
Indices: 6568000--6568040 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6567990 TTAAATTGAT
*
6568000 TTAAAAATTTTA
1 TTAAAAATATTA
* *
6568012 TGAATAATATTA
1 TTAAAAATATTA
6568024 TTAAAAATATTA
1 TTAAAAATATTA
6568036 TTAAA
1 TTAAA
6568041 GTTTATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:6570038 original size:23 final size:23
Alignment explanation
Indices: 6570012--6570078 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
6570002 ATGACGTGTA
6570012 GTTTAGTAACTATAGCTTTTGTT
1 GTTTAGTAACTATAGCTTTTGTT
* *
6570035 GTTT-G-AA--AT-GAC--GTGTA
1 GTTTAGTAACTATAG-CTTTTGTT
6570052 GTTTAGTAACTATAGCTTTTGTT
1 GTTTAGTAACTATAGCTTTTGTT
6570075 GTTT
1 GTTT
6570079 GATCATGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
17 7 0.22
18 2 0.06
19 5 0.16
21 5 0.16
22 2 0.06
23 11 0.34
ACGTcount: A:0.22, C:0.07, G:0.21, T:0.49
Consensus pattern (23 bp):
GTTTAGTAACTATAGCTTTTGTT
Found at i:6570054 original size:40 final size:40
Alignment explanation
Indices: 6569999--6570080 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
6569989 CGGTCGTAAG
6569999 GAAATGACGTGTAGTTTAGTAACTATAGCTTTTGTTGTTT
1 GAAATGACGTGTAGTTTAGTAACTATAGCTTTTGTTGTTT
6570039 GAAATGACGTGTAGTTTAGTAACTATAGCTTTTGTTGTTT
1 GAAATGACGTGTAGTTTAGTAACTATAGCTTTTGTTGTTT
6570079 GA
1 GA
6570081 TCATGCAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (40 bp):
GAAATGACGTGTAGTTTAGTAACTATAGCTTTTGTTGTTT
Found at i:6578948 original size:27 final size:27
Alignment explanation
Indices: 6578918--6578973 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
6578908 GAAGATGACG
6578918 AATTCGAGAAGGCTGAGGCCTTAAAGA
1 AATTCGAGAAGGCTGAGGCCTTAAAGA
* *
6578945 AATTTGAGAAGGCTGAGGCCTTGAAGA
1 AATTCGAGAAGGCTGAGGCCTTAAAGA
6578972 AA
1 AA
6578974 CTGGAGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (27 bp):
AATTCGAGAAGGCTGAGGCCTTAAAGA
Found at i:6578980 original size:27 final size:27
Alignment explanation
Indices: 6578923--6578980 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
6578913 TGACGAATTC
* *
6578923 GAGAAGGCTGAGGCCTTAAAGAAATTT
1 GAGAAGGCTGAGGCCTTAAAGAAACTG
*
6578950 GAGAAGGCTGAGGCCTTGAAGAAACTG
1 GAGAAGGCTGAGGCCTTAAAGAAACTG
6578977 GAGA
1 GAGA
6578981 TTAAAGAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.17
Consensus pattern (27 bp):
GAGAAGGCTGAGGCCTTAAAGAAACTG
Found at i:6579362 original size:2 final size:2
Alignment explanation
Indices: 6579357--6579394 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
6579347 AATCACACAC
*
6579357 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6579395 ATTTTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6589796 original size:32 final size:30
Alignment explanation
Indices: 6589760--6589831 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
6589750 CGATCACTTC
* *
6589760 ATATTATTTAAAATAATAATAT-TATTATTAAT
1 ATATTATTTAAAAT-ATAATCTATA-TAAT-AT
**
6589792 ATATTAAATAAAATATAATCTATATAATAT
1 ATATTATTTAAAATATAATCTATATAATAT
6589822 ATATTATTTA
1 ATATTATTTA
6589832 TATGTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 10 0.30
31 9 0.27
32 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTATTTAAAATATAATCTATATAATAT
Found at i:6590647 original size:49 final size:49
Alignment explanation
Indices: 6590574--6590668 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
6590564 CACCGTCAGT
**
6590574 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCGGGCAACCCCTCATC
1 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
* *
6590623 CAGGGGTGGACCTCCATGGTGCCCGGGGTATCCCAAGCAACCCCTC
1 CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTC
6590669 CACAAGTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.17, C:0.38, G:0.32, T:0.14
Consensus pattern (49 bp):
CAGGGGCGGACCTCCATGGAGCCCGGGGTATCCCAAGCAACCCCTCATC
Found at i:6590950 original size:20 final size:20
Alignment explanation
Indices: 6590925--6590966 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6590915 TCTATATCAT
6590925 TAACAAAATTTAAAATTTAA
1 TAACAAAATTTAAAATTTAA
6590945 TAACAAAATTTAAAATTTAA
1 TAACAAAATTTAAAATTTAA
6590965 TA
1 TA
6590967 TATTTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAACAAAATTTAAAATTTAA
Found at i:6592214 original size:2 final size:2
Alignment explanation
Indices: 6592207--6592232 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6592197 GAAGAGATGG
6592207 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
6592233 TTCTTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6603228 original size:29 final size:29
Alignment explanation
Indices: 6603171--6603228 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6603161 CCCCCAAAAT
**
6603171 CATTCAAAAGTTTAAGAATAAATTTAGAA
1 CATTCAAAAGTTTAAGAATAAATAGAGAA
* * *
6603200 CATTCAAAAGTTTAGGTATCAATAGAGAA
1 CATTCAAAAGTTTAAGAATAAATAGAGAA
6603229 TGAGGGTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (29 bp):
CATTCAAAAGTTTAAGAATAAATAGAGAA
Found at i:6605143 original size:25 final size:25
Alignment explanation
Indices: 6605109--6605160 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
6605099 CGTAAATTTC
6605109 CATTAGTTTTATTCATTTCAGATCT
1 CATTAGTTTTATTCATTTCAGATCT
6605134 CATTAGTTTTATTCATTTCAGATCT
1 CATTAGTTTTATTCATTTCAGATCT
6605159 CA
1 CA
6605161 ATCTCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (25 bp):
CATTAGTTTTATTCATTTCAGATCT
Found at i:6613684 original size:2 final size:2
Alignment explanation
Indices: 6613679--6613728 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6613669 CTCCCCCCCC
6613679 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6613721 CT CT CT CT
1 CT CT CT CT
6613729 GTCTATCAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6614151 original size:19 final size:20
Alignment explanation
Indices: 6614124--6614165 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
6614114 CACTTTTGTT
*
6614124 TTTGGTAATCGT-CTTCTTC
1 TTTGCTAATCGTCCTTCTTC
* *
6614143 TTTGCTAATTGTCCTTTTTC
1 TTTGCTAATCGTCCTTCTTC
6614163 TTT
1 TTT
6614166 TATCTGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.10, C:0.19, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTGCTAATCGTCCTTCTTC
Found at i:6620131 original size:21 final size:21
Alignment explanation
Indices: 6620105--6620175 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
6620095 TCGAGGGTTT
6620105 TATGTGGTCCTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
6620126 TATGTGG-CACTTCGGTG-CAAA
1 TATGTGGTC-CTTCGG-GACAAA
* *
6620147 CCTATGTGGTCCTTTGGGACAAT
1 --TATGTGGTCCTTCGGGACAAA
6620170 TATGTG
1 TATGTG
6620176 ACACTTCGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
20 1 0.02
21 23 0.55
22 2 0.05
23 15 0.36
24 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:6620168 original size:44 final size:44
Alignment explanation
Indices: 6620105--6620190 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
6620095 TCGAGGGTTT
*
6620105 TATGTGGTCCTTCGGGACAAATATGTGGCACTTCGGTGCAAACC
1 TATGTGGTCCTTCGGGACAAATATGTGACACTTCGGTGCAAACC
* *
6620149 TATGTGGTCCTTTGGGACAATTATGTGACACTTCGGTGCAAA
1 TATGTGGTCCTTCGGGACAAATATGTGACACTTCGGTGCAAA
6620191 TTACGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (44 bp):
TATGTGGTCCTTCGGGACAAATATGTGACACTTCGGTGCAAACC
Found at i:6621320 original size:18 final size:18
Alignment explanation
Indices: 6621297--6621331 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6621287 CTACTGGTTC
*
6621297 ACTGGTTCAACCGGTCGA
1 ACTGGTCCAACCGGTCGA
*
6621315 ACTGGTCCGACCGGTCG
1 ACTGGTCCAACCGGTCG
6621332 GAAGAACCGG
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:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (18 bp):
ACTGGTCCAACCGGTCGA
Found at i:6621585 original size:14 final size:14
Alignment explanation
Indices: 6621568--6621595 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6621558 ATCATAACAA
6621568 AATTATATAACTAT
1 AATTATATAACTAT
6621582 AATTATATAACTAT
1 AATTATATAACTAT
6621596 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:6626427 original size:59 final size:60
Alignment explanation
Indices: 6626356--6626492 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 60
6626346 TAATGAATAA
* * * * *
6626356 TCGGGTGACCATTT-TGTAACTTTTAATAGTCGATGAGCTCAACAAAGCAG-CTCTTTATAG
1 TCGGG-GACCATTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATC-TTATAG
6626416 TCGGGGACCATTTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
1 TCGGGGACCA-TTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
6626477 TCGGGGACCATTTATA
1 TCGGGGACCATTTATA
6626493 CTTTACCTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
59 5 0.07
60 14 0.20
61 48 0.70
62 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (60 bp):
TCGGGGACCATTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
Found at i:6627762 original size:2 final size:2
Alignment explanation
Indices: 6627755--6627783 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6627745 TATCAAAATT
6627755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6627784 TAACGGAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6628532 original size:5 final size:5
Alignment explanation
Indices: 6628522--6628569 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
6628512 TTAAAATCTC
* * *
6628522 AAATT AAATT AAATT AAATT AAATTT TAATC AAATA AAATAT AAATT A
1 AAATT AAATT AAATT AAATT AAA-TT AAATT AAATT AAAT-T AAATT A
6628570 CTAGTGAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:6628542 original size:15 final size:15
Alignment explanation
Indices: 6628522--6628569 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
6628512 TTAAAATCTC
6628522 AAATTAAATTAAATT
1 AAATTAAATTAAATT
* *
6628537 AAATTAAATTTTAATC
1 AAATTAAA-TTAAATT
*
6628553 AAATAAAATATAAATT
1 AAATTAAAT-TAAATT
6628569 A
1 A
6628570 CTAGTGAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTAAATTAAATT
Found at i:6628807 original size:2 final size:2
Alignment explanation
Indices: 6628800--6628825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6628790 TGGAACTCAT
6628800 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
6628826 GACTCGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6629264 original size:84 final size:86
Alignment explanation
Indices: 6629109--6629484 Score: 214
Period size: 85 Copynumber: 4.4 Consensus size: 86
6629099 AAAAATGATT
** * * * *
6629109 AAATTAGGGGTTTAAATTATAAAAGTAAAAAGT-ATGATTAAAAAAATTAAGGACCCCAATTATA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGAT-ATTGAAAAAATTAAGGACCCAAATTATA
* *
6629173 AAGTTAAAA-A-ATGATATTAAA
65 AAGTTAAAATATAGGAT-TGAAA
* * * * * *
6629194 AAA-TAGGGGTATCGATTTTAAAGGTAAAAAGTGATATTGAAAAAATTAGGGGCCTAAATTAT-A
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
*
6629257 TGATTAAAATATAGGATTGAAA
66 AG-TTAAAATATAGGATTGAAA
** * * ** * * *
6629279 AAATTATTGGCCTTAATTATAAAGGTAAAAAGTGATATTGAAAAAA-GCAGAAGCCTAATTATAA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
* * * *
6629343 AGGTACAATGTGGGATTGAAA
66 AGTTAAAATATAGGATTGAAA
* ** * * * *
6629364 AACTTAGGATCATCAATTATAAATGTAAGAAAATGGTAATGAAAAAAAAATTAA-GAGCCTC-AA
1 AAATTAGGGGCATCAATTATAAAGGTAA-AAAGTGATATTG---AAAAAATTAAGGA-CC-CAAA
* *
6629427 TTATAAAGATAAAA-AGTAAGATT-ACAA
60 TTATAAAGTTAAAATA-TAGGATTGA-AA
* * * *
6629454 AAATTAGGGACTTCAATTATAATGATAAAAA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAA
6629485 ACTAAAATTA
Statistics
Matches: 216, Mismatches: 60, Indels: 26
0.72 0.20 0.09
Matches are distributed among these distances:
83 2 0.01
84 52 0.24
85 56 0.26
86 50 0.23
89 11 0.05
90 44 0.20
91 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.27
Consensus pattern (86 bp):
AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
AGTTAAAATATAGGATTGAAA
Found at i:6629265 original size:43 final size:43
Alignment explanation
Indices: 6629109--6629462 Score: 175
Period size: 43 Copynumber: 8.2 Consensus size: 43
6629099 AAAAATGATT
** * *
6629109 AAATTAGGGGTTTAAATTATAAAAGTAAAAAGT-ATGATTAAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGAT-ATTGAAA
* * ** * *
6629152 AAATTAAGGACCCCAATTATAAAGTTAAAAAATGATATT-AAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
** ** *
6629194 AAA-TAGGGGTATCGATTTTAAAGGTAAAAAGTGATATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
* * *
6629236 AAATTAGGGGCCTAAATTAT-ATGATTAAAATA-T-AGGATTGAAA
1 AAATTAGGGGCCTAAATTATAAAG-GTAAAA-AGTGA-TATTGAAA
** *
6629279 AAATTATTGGCCTTAATTATAAAGGTAAAAAGTGATATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
** ** * * **
6629322 AAAGCAGAAGCCT-AATTATAAAGGTACAATGTGGGATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
* ** * * * * * *
6629364 AACTTAGGATCATCAATTATAAATGTAAGAAAATGGTAATGAAAAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAA-AAAGTGATATTG---AAA
* * * * * *
6629411 AAATTAAGAGCCTCAATTATAAAGATAAAAAGTAAGATT-ACAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGA-AA
6629454 AAATTAGGG
1 AAATTAGGG
6629463 ACTTCAATTA
Statistics
Matches: 230, Mismatches: 66, Indels: 30
0.71 0.20 0.09
Matches are distributed among these distances:
41 26 0.11
42 49 0.21
43 110 0.48
44 14 0.06
46 6 0.03
47 25 0.11
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (43 bp):
AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
Found at i:6630774 original size:17 final size:16
Alignment explanation
Indices: 6630705--6630774 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
6630695 CTATTGATTA
*
6630705 TTATGTTAATATTATT
1 TTATGTTAATATTTTT
* * * *
6630721 TTGTATAAATATTTGT
1 TTATGTTAATATTTTT
* * *
6630737 TAATTTTACTATTTTT
1 TTATGTTAATATTTTT
6630753 GTTATGTTAATATTATTT
1 -TTATGTTAATATT-TTT
6630771 TTAT
1 TTAT
6630775 ATTGTATAAT
Statistics
Matches: 38, Mismatches: 14, Indels: 3
0.69 0.25 0.05
Matches are distributed among these distances:
16 21 0.55
17 14 0.37
18 3 0.08
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.63
Consensus pattern (16 bp):
TTATGTTAATATTTTT
Found at i:6635104 original size:61 final size:60
Alignment explanation
Indices: 6635002--6635144 Score: 193
Period size: 61 Copynumber: 2.4 Consensus size: 60
6634992 TAATGAATAA
* * * * *
6635002 TCGGGTGACCATTT-TGTAACTTTTAATAGTCGATGAGCTCAACAAAGCAG-CTCTTTATAG
1 TCGGG-GACCATTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATC-TTATAG
6635062 TCGGGGACCATTTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
1 TCGGGGACCA-TTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
6635123 TCGGGGACCATTTATAT-ACTTT
1 TCGGGGACCATTTATATAACTTT
6635145 ACCTTATTCG
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 10 0.13
60 15 0.20
61 48 0.64
62 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (60 bp):
TCGGGGACCATTTATATAACTTTTAATAGTCGAAGAACTCAACAAAACAGTATCTTATAG
Found at i:6636408 original size:2 final size:2
Alignment explanation
Indices: 6636401--6636441 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6636391 TATCAAAATT
6636401 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6636442 TAACGGAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6637195 original size:5 final size:5
Alignment explanation
Indices: 6637185--6637232 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
6637175 TTAAAATCTC
* * *
6637185 AAATT AAATT AAATT AAATT AAATTT TAATC AAATA AAATAT AAATT A
1 AAATT AAATT AAATT AAATT AAA-TT AAATT AAATT AAAT-T AAATT A
6637233 CTAGTGAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:6637205 original size:15 final size:15
Alignment explanation
Indices: 6637185--6637232 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
6637175 TTAAAATCTC
6637185 AAATTAAATTAAATT
1 AAATTAAATTAAATT
* *
6637200 AAATTAAATTTTAATC
1 AAATTAAA-TTAAATT
*
6637216 AAATAAAATATAAATT
1 AAATTAAAT-TAAATT
6637232 A
1 A
6637233 CTAGTGAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTAAATTAAATT
Found at i:6637470 original size:2 final size:2
Alignment explanation
Indices: 6637463--6637488 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6637453 TGGAACTCAT
6637463 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
6637489 GACTCGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6637927 original size:84 final size:86
Alignment explanation
Indices: 6637772--6638145 Score: 219
Period size: 85 Copynumber: 4.4 Consensus size: 86
6637762 AAAAATGATT
** * * * *
6637772 AAATTAGGGGTTTAAATTATAAAAGTAAAAAGT-ATGATTAAAAAAATTAAGGACCCCAATTATA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGAT-ATTGAAAAAATTAAGGACCCAAATTATA
* *
6637836 AAGTTAAAA-A-ATGATATTAAA
65 AAGTTAAAATATAGGAT-TGAAA
* * * * * *
6637857 AAA-TAGGGGTATCGATTTTAAAGGTAAAAAGTGATATTGAAAAAATTAGGGGCCTAAATTAT-A
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
*
6637920 TGATTAAAATATAGGATTGAAA
66 AG-TTAAAATATAGGATTGAAA
** * * ** * * *
6637942 AAATTATTGGCCTTAATTATAAAGGTAAAAAGTGATATTGAAAAAA-GCAGAAGCCTAATTATAA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
* * * *
6638006 AGGTACAATGTGGGATTGAAA
66 AGTTAAAATATAGGATTGAAA
* ** * * * *
6638027 AACTTAGGATCATCAATTATAAATGTAAGAAAATGGTAATGAAAAAAAATTAA-GAGCCTC-AAT
1 AAATTAGGGGCATCAATTATAAAGGTAA-AAAGTGATATTG--AAAAAATTAAGGA-CC-CAAAT
* * *
6638090 TATAAAGATAAAA-AGTAAGATT-ACA
61 TATAAAGTTAAAATA-TAGGATTGAAA
* * * *
6638115 AAATTAGGGACTTCAATTATAATGATAAAAA
1 AAATTAGGGGCATCAATTATAAAGGTAAAAA
6638146 ACTAAAATTA
Statistics
Matches: 215, Mismatches: 61, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
83 2 0.01
84 52 0.24
85 56 0.26
86 50 0.23
87 3 0.01
88 30 0.14
89 21 0.10
90 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (86 bp):
AAATTAGGGGCATCAATTATAAAGGTAAAAAGTGATATTGAAAAAATTAAGGACCCAAATTATAA
AGTTAAAATATAGGATTGAAA
Found at i:6637928 original size:43 final size:43
Alignment explanation
Indices: 6637772--6638123 Score: 180
Period size: 43 Copynumber: 8.2 Consensus size: 43
6637762 AAAAATGATT
** * *
6637772 AAATTAGGGGTTTAAATTATAAAAGTAAAAAGT-ATGATTAAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGAT-ATTGAAA
* * ** * *
6637815 AAATTAAGGACCCCAATTATAAAGTTAAAAAATGATATT-AAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
** ** *
6637857 AAA-TAGGGGTATCGATTTTAAAGGTAAAAAGTGATATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
* * *
6637899 AAATTAGGGGCCTAAATTAT-ATGATTAAAATA-T-AGGATTGAAA
1 AAATTAGGGGCCTAAATTATAAAG-GTAAAA-AGTGA-TATTGAAA
** *
6637942 AAATTATTGGCCTTAATTATAAAGGTAAAAAGTGATATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
** ** * * **
6637985 AAAGCAGAAGCCT-AATTATAAAGGTACAATGTGGGATTGAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
* ** * * * * * *
6638027 AACTTAGGATCATCAATTATAAATGTAAGAAAATGGTAATGAAAAA
1 AAATTAGGGGCCTAAATTATAAAGGTAA-AAAGTGATATTG--AAA
* * * * * * *
6638073 AAATTAAGAGCCTCAATTATAAAGATAAAAAGTAAGATT-ACA
1 AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
6638115 AAATTAGGG
1 AAATTAGGG
6638124 ACTTCAATTA
Statistics
Matches: 229, Mismatches: 67, Indels: 27
0.71 0.21 0.08
Matches are distributed among these distances:
41 26 0.11
42 57 0.25
43 101 0.44
44 14 0.06
45 6 0.03
46 25 0.11
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (43 bp):
AAATTAGGGGCCTAAATTATAAAGGTAAAAAGTGATATTGAAA
Found at i:6639429 original size:17 final size:16
Alignment explanation
Indices: 6639360--6639429 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
6639350 CTATTGATTA
*
6639360 TTATGTTAATATTATT
1 TTATGTTAATATTTTT
* * * *
6639376 TTGTATAAATATTTGT
1 TTATGTTAATATTTTT
* * *
6639392 TAATTTTACTATTTTT
1 TTATGTTAATATTTTT
6639408 GTTATGTTAATATTATTT
1 -TTATGTTAATATT-TTT
6639426 TTAT
1 TTAT
6639430 ATTGTATATA
Statistics
Matches: 38, Mismatches: 14, Indels: 3
0.69 0.25 0.05
Matches are distributed among these distances:
16 21 0.55
17 14 0.37
18 3 0.08
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.63
Consensus pattern (16 bp):
TTATGTTAATATTTTT
Found at i:6639448 original size:49 final size:49
Alignment explanation
Indices: 6639344--6639454 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 49
6639334 TATTTGAGGT
* * * *
6639344 ATTTTACTATTGATTATTATGTTAATATTATTTTGTATAAATATTTGTTA
1 ATTTTACTATT-TTTATTATGTTAATATTATTTTGTATAAATATATATCA
* **
6639394 ATTTTACTATTTTTGTTATGTTAATATTATTTT-TATATTGTATATATCA
1 ATTTTACTATTTTTATTATGTTAATATTATTTTGTATA-AATATATATCA
* *
6639443 TTTTTACGATTT
1 ATTTTACTATTT
6639455 ATGATCATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 4 0.08
49 36 0.71
50 11 0.22
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (49 bp):
ATTTTACTATTTTTATTATGTTAATATTATTTTGTATAAATATATATCA
Found at i:6641787 original size:20 final size:20
Alignment explanation
Indices: 6641762--6641799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6641752 TAATTTAAAA
* *
6641762 AAAATAATAATTGAATAACC
1 AAAATAAAAATTAAATAACC
6641782 AAAATAAAAATTAAATAA
1 AAAATAAAAATTAAATAA
6641800 TAGTTGAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAATAAAAATTAAATAACC
Found at i:6642732 original size:17 final size:16
Alignment explanation
Indices: 6642664--6642732 Score: 52
Period size: 17 Copynumber: 4.2 Consensus size: 16
6642654 CTAATGATTA
6642664 TTATGTTAATATTATTT
1 TTATGTTAATATT-TTT
* *
6642681 TTA--TAAATATTTGT
1 TTATGTTAATATTTTT
* * *
6642695 TAATTTTACTATTTTT
1 TTATGTTAATATTTTT
6642711 GTTATGTTAATATTATTT
1 -TTATGTTAATATT-TTT
6642729 TTAT
1 TTAT
6642733 ATTGTATAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 4 0.10
15 7 0.18
16 8 0.21
17 17 0.44
18 3 0.08
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATGTTAATATTTTT
Found at i:6646712 original size:103 final size:103
Alignment explanation
Indices: 6646526--6646751 Score: 393
Period size: 103 Copynumber: 2.2 Consensus size: 103
6646516 GTCGATGGTC
6646526 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
6646591 TTGATCCTTGGTAGATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTAGATGTATATGATTCTTAAGGAATGA
6646629 TATGTGGTCCTTC-GGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 TATGTGGTCCTTCAGG-ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
6646693 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
65 CTTGATCCCTAGTAGATGTATATGATTCTTAAGGAATGA
6646732 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
6646752 TATTATATGG
Statistics
Matches: 117, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
102 2 0.02
103 113 0.97
104 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTAGATGTATATGATTCTTAAGGAATGA
Found at i:6646826 original size:23 final size:23
Alignment explanation
Indices: 6646750--6646827 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
6646740 CCTTATGGAC
*
6646750 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
6646774 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
6646797 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
6646820 ATTATATG
1 ATTATATG
6646828 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:6649727 original size:19 final size:19
Alignment explanation
Indices: 6649691--6649727 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6649681 TGAAAATGAT
*
6649691 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
6649710 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
6649728 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:6650792 original size:19 final size:19
Alignment explanation
Indices: 6650768--6650805 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6650758 TCCAATTTCG
6650768 CGTTGCCATTTTCCAAATT
1 CGTTGCCATTTTCCAAATT
*
6650787 CGTTGCGATTTTCCAAATT
1 CGTTGCCATTTTCCAAATT
6650806 TATGTTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (19 bp):
CGTTGCCATTTTCCAAATT
Found at i:6650892 original size:40 final size:40
Alignment explanation
Indices: 6650843--6651042 Score: 181
Period size: 40 Copynumber: 5.0 Consensus size: 40
6650833 TCCAAGTTCA
* * *
6650843 CGTTACGATAGTCGAAGTTCGCGTTGCAATTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT
* ** *
6650883 CGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT
** * * * *
6650923 CGCGTTGCGATTTTCCAAATT--CGTTGCGATAGTT-GAAGTT
1 --CGTTGCGATAGTCCAAGTTCGCGTTGCGAT-TTTCCAAATT
* * * *
6650963 CGTGTTGTGATAGTCGAAGTTCGCATTACGATTTTCCAAATT
1 C--GTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT
6651005 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
6651043 ATCGCAATGA
Statistics
Matches: 125, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.01
40 93 0.74
41 3 0.02
42 28 0.22
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:6650913 original size:61 final size:61
Alignment explanation
Indices: 6650814--6651034 Score: 334
Period size: 61 Copynumber: 3.6 Consensus size: 61
6650804 TTTATGTTAG
* * *
6650814 TCCAAATTTGTTGCGATAGTCCAAGTTCACGTTACGATAGTCGAAGTTCGCGTTGCAATTT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
*
6650875 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
** ** * * *
6650936 TCCAAATTCGTTGCGATAGTTGAAGTTCGTGTTGTGATAGTCGAAGTTCGCATTACGATTT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
*
6650997 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGAT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGAT
6651035 TTTCCAAAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 144 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (61 bp):
TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
Found at i:6651041 original size:21 final size:21
Alignment explanation
Indices: 6650823--6651034 Score: 193
Period size: 21 Copynumber: 10.4 Consensus size: 21
6650813 GTCCAAATTT
*
6650823 GTTGCGATAGTCCAAGTTCAC
1 GTTGCGATAGTCCAAGTTCGC
* *
6650844 GTTACGATAGTCGAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
* ** *
6650865 GTTGCAATTTTCCAAATT--C
1 GTTGCGATAGTCCAAGTTCGC
*
6650884 GTTGCGATAGTCCAAGTTCAC
1 GTTGCGATAGTCCAAGTTCGC
6650905 GTTGCGATAGTCCAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
** *
6650926 GTTGCGATTTTCCAAATT--C
1 GTTGCGATAGTCCAAGTTCGC
** *
6650945 GTTGCGATAGTTGAAGTTCGT
1 GTTGCGATAGTCCAAGTTCGC
* *
6650966 GTTGTGATAGTCGAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
* * ** *
6650987 ATTACGATTTTCCAAATT--C
1 GTTGCGATAGTCCAAGTTCGC
6651006 GTTGCGATAGTCCAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
6651027 GTTGCGAT
1 GTTGCGAT
6651035 TTTCCAAAAT
Statistics
Matches: 147, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
19 43 0.29
21 104 0.71
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (21 bp):
GTTGCGATAGTCCAAGTTCGC
Found at i:6651047 original size:21 final size:21
Alignment explanation
Indices: 6650991--6651047 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
6650981 GTTCGCATTA
*
6650991 CGATTTTCC-AAAT-TCGTTG
1 CGATTTTCCAAAATCGCGTTG
** **
6651010 CGATAGTCCAAGTTCGCGTTG
1 CGATTTTCCAAAATCGCGTTG
6651031 CGATTTTCCAAAATCGC
1 CGATTTTCCAAAATCGC
6651048 AATGACTGGT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 7 0.26
20 2 0.07
21 18 0.67
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (21 bp):
CGATTTTCCAAAATCGCGTTG
Found at i:6651465 original size:19 final size:20
Alignment explanation
Indices: 6651440--6651530 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
6651430 CTTATTTTGG
6651440 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
6651460 -TTTTTCACTATCGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
*
6651480 ACGTTTTTCAAACTCTCGCAACAC
1 A--TTTTTC--ACTATCGCAACAC
*
6651504 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
6651523 ATTTTTCA
1 ATTTTTCA
6651531 AAATCGCGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 30 0.50
20 7 0.12
21 4 0.07
23 6 0.10
24 3 0.05
25 10 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:6651502 original size:44 final size:41
Alignment explanation
Indices: 6651451--6651532 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
6651441 TTTTTCACTA
* *
6651451 TCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
6651495 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
6651533 ATCGCGTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 3 0.08
44 24 0.67
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:6651555 original size:20 final size:19
Alignment explanation
Indices: 6651532--6651587 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
6651522 CATTTTTCAA
6651532 AATCGCGTTGCGAATCTTAC
1 AATCGCGTTGCGAATC-TAC
* *
6651552 AATCGCGTTGAGAATCTAG
1 AATCGCGTTGCGAATCTAC
6651571 ATATTCGCGTTGCGAAT
1 A-A-TCGCGTTGCGAAT
6651588 TTGGAAACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 16 0.52
21 12 0.39
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (19 bp):
AATCGCGTTGCGAATCTAC
Found at i:6653951 original size:56 final size:54
Alignment explanation
Indices: 6653859--6653975 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 54
6653849 TATGTATTTG
** * *
6653859 TATGTATATATTTGATTTTTTTTTTATAATAATTAACTTGATTTTATAATAATT
1 TATGTATATATTTGATTCATATTGTATAATAATTAACTTGATTTTATAATAATT
*
6653913 TATGTATATATTTGATATCATATTGTATTAATAATTAACTTTATTTTATAATAATT
1 TATGTATATATTTGAT-TCATATTGTA-TAATAATTAACTTGATTTTATAATAATT
6653969 TATGTAT
1 TATGTAT
6653976 TTGTTAGCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 16 0.29
55 6 0.11
56 34 0.61
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (54 bp):
TATGTATATATTTGATTCATATTGTATAATAATTAACTTGATTTTATAATAATT
Found at i:6654391 original size:31 final size:31
Alignment explanation
Indices: 6654334--6654405 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
6654324 TTAATTTATG
*
6654334 TATCTTTT--AATATAATAATTTATGTATTT
1 TATCTTTTAAAATATAATAATTTATGTATCT
* * *
6654363 TATCTTTTAAAATATATTTATTTTTGTATCT
1 TATCTTTTAAAATATAATAATTTATGTATCT
*
6654394 TAACTTATTAAA
1 TATCTT-TTAAA
6654406 TACATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 8 0.23
31 22 0.63
32 5 0.14
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.57
Consensus pattern (31 bp):
TATCTTTTAAAATATAATAATTTATGTATCT
Found at i:6655568 original size:8 final size:8
Alignment explanation
Indices: 6655555--6655580 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6655545 ATTAGACGTG
6655555 AAATTATA
1 AAATTATA
6655563 AAATTATA
1 AAATTATA
6655571 AAATTATA
1 AAATTATA
6655579 AA
1 AA
6655581 TAAATAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTATA
Found at i:6655691 original size:5 final size:5
Alignment explanation
Indices: 6655683--6655709 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6655673 TAAATAATAT
6655683 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
6655710 AAATGTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:6656169 original size:3 final size:3
Alignment explanation
Indices: 6656161--6656232 Score: 76
Period size: 3 Copynumber: 23.7 Consensus size: 3
6656151 TCTTTCTTTA
*
6656161 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTCC TTC TTC CT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TT-C TTC TTC TTC
* *
6656207 TTC TTTC TTC -TC CTC TTA TTC TTC TT
1 TTC -TTC TTC TTC TTC TTC TTC TTC TT
6656233 TACTCCCAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
2 3 0.05
3 47 0.80
4 9 0.15
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:6658721 original size:51 final size:51
Alignment explanation
Indices: 6658647--6658774 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 51
6658637 GTAGCAGTAA
* * **
6658647 AGCGCGCTCCCTGCCCCGCGCTATATGCTGATTTGGCGT-CACGTGGGGTAT
1 AGCGCGCTCCCTGCACCGCGCTATACGCTGACATGGCGTACACGT-GGGTAT
* * * *
6658698 AGCGTGCTCCCTGTACCGTGCTATACGCTGACATGGCTTACACGTGGGTAT
1 AGCGCGCTCCCTGCACCGCGCTATACGCTGACATGGCGTACACGTGGGTAT
*
6658749 AGCAC-C-CCCTG-ATCCGCGCTATACGC
1 AGCGCGCTCCCTGCA-CCGCGCTATACGC
6658775 CACGTTTATC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.02
49 17 0.27
50 1 0.02
51 40 0.62
52 5 0.08
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (51 bp):
AGCGCGCTCCCTGCACCGCGCTATACGCTGACATGGCGTACACGTGGGTAT
Found at i:6673231 original size:25 final size:24
Alignment explanation
Indices: 6673183--6673258 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
6673173 TAAAAGTTAT
** *
6673183 ATTAAATATTTTAAGACGTGTAAA
1 ATTAAATATTTTAAGAAATATAAA
*
6673207 GTTATAATATTTTAAGAAATATAAA
1 ATTA-AATATTTTAAGAAATATAAA
* *
6673232 ATTAAATAATTAATAAAAAATATAAA
1 ATTAAAT-ATT-TTAAGAAATATAAA
6673258 A
1 A
6673259 GAATTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
24 6 0.14
25 23 0.55
26 13 0.31
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTAAATATTTTAAGAAATATAAA
Found at i:6674120 original size:20 final size:20
Alignment explanation
Indices: 6674095--6674141 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
6674085 CCCTCTTACT
6674095 TGTTGTGCTCTTCACTTGAG
1 TGTTGTGCTCTTCACTTGAG
6674115 TGTTGTGCTCTTCACTTGAG
1 TGTTGTGCTCTTCACTTGAG
*
6674135 AGTTGTG
1 TGTTGTG
6674142 ATTTTCTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.28, T:0.45
Consensus pattern (20 bp):
TGTTGTGCTCTTCACTTGAG
Found at i:6677613 original size:22 final size:23
Alignment explanation
Indices: 6677562--6677617 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
6677552 AACGTTTTTG
*
6677562 TTTTTTTATATAAAATGATAATA
1 TTTTATTATATAAAATGATAATA
* *
6677585 TAGTTATTATATAAAATTATAA-A
1 T-TTTATTATATAAAATGATAATA
6677608 TTTTATTATA
1 TTTTATTATA
6677618 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAATA
Found at i:6678019 original size:21 final size:21
Alignment explanation
Indices: 6677995--6678039 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6677985 AAGACAATCA
6677995 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
6678016 AGAGTTGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
6678037 AGA
1 AGA
6678040 CATAAGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.33, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:6678115 original size:33 final size:33
Alignment explanation
Indices: 6678078--6678170 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
6678068 TGGAGTGGTG
*
6678078 AAAGAAGTTGAGGTGTTGAAGGGTGAAGTGATA
1 AAAGAAGTTGAGGTGTTGAGGGGTGAAGTGATA
* *
6678111 AAAGAAGTTGAGGTGTTGAGGGGTGAAGTGGTG
1 AAAGAAGTTGAGGTGTTGAGGGGTGAAGTGATA
*
6678144 AAAGAAGTTGAGGTGTAGAGGGGTGAA
1 AAAGAAGTTGAGGTGTTGAGGGGTGAA
6678171 CTTAAGATGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AAAGAAGTTGAGGTGTTGAGGGGTGAAGTGATA
Found at i:6678414 original size:35 final size:34
Alignment explanation
Indices: 6678351--6678445 Score: 140
Period size: 35 Copynumber: 2.8 Consensus size: 34
6678341 CTGAAAAAAT
*
6678351 ATGAAGAAGAAAGA--GATGAAGAAGAAAAGAGAG
1 ATGAAGAAGAAAGAGGGAGGAAGAAGAAAAGAG-G
6678384 ATGAAGAAGAAAGAGGGAGGAAGAAGAAAAGAGG
1 ATGAAGAAGAAAGAGGGAGGAAGAAGAAAAGAGG
*
6678418 AGGAAGAAGAAAAGAGGGAGGAAGAAGA
1 ATGAAGAAG-AAAGAGGGAGGAAGAAGA
6678446 TGGAGGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
33 14 0.25
34 9 0.16
35 34 0.60
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (34 bp):
ATGAAGAAGAAAGAGGGAGGAAGAAGAAAAGAGG
Found at i:6678451 original size:17 final size:17
Alignment explanation
Indices: 6678353--6678445 Score: 111
Period size: 17 Copynumber: 5.5 Consensus size: 17
6678343 GAAAAAATAT
*
6678353 GAAGAAGAAAGA--GAT
1 GAAGAAGAAAGAGGGAG
* *
6678368 GAAGAAGAAAAGAGAGAT
1 GAAGAAG-AAAGAGGGAG
6678386 GAAGAAGAAAGAGGGAG
1 GAAGAAGAAAGAGGGAG
6678403 GAAGAAGAAA-AGAGGAG
1 GAAGAAGAAAGAG-GGAG
6678420 GAAGAAGAAAAGAGGGAG
1 GAAGAAG-AAAGAGGGAG
6678438 GAAGAAGA
1 GAAGAAGA
6678446 TGGAGGAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
15 7 0.10
16 7 0.10
17 30 0.43
18 24 0.34
19 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (17 bp):
GAAGAAGAAAGAGGGAG
Found at i:6680723 original size:200 final size:201
Alignment explanation
Indices: 6680357--6682113 Score: 1979
Period size: 200 Copynumber: 8.8 Consensus size: 201
6680347 TAAGCATATT
* * *
6680357 TGTCGATACAGTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* * * * * *
6680422 GTAATTTTATAATATAACCGATATAA-ATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
6680486 ATCGACACCTT-T-TCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
131 ATCGACA-CTTGTGTAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCAC
6680549 GCATAAAG
194 GCATAAAG
** * *
6680557 TGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
6680622 GTAAATTTACAATGTAACGGGTATAACTTA-ACCGGATTTATGAAAGAATAGGTCTACATAATGT
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * * *
6680686 ATCAACACTTCTGGAATTTGTTTTGATACTGTTTGTCCAGAATGAATACCCAAAAAGGGTGCACA
131 ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCACG
6680751 CA-ACAAG
195 CATA-AAG
*
6680758 TGTCGATACA-TTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 TGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
6680822 GGTAAGTTTTCAATGTAACCGGTAT-GCATATACCAGTTTTTATAAGAGAATAGGTTTACA-ATA
65 GGTAAATTTACAATGTAACCGGTATAACATATACC-GGTTTTATGAGAGAATAGGTCTACATA-A
* *
6680885 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAGAAAGGGTGC
128 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA-AAAGGGTGC
*
6680950 AC-CATTAAG
192 ACGCATAAAG
* * * *
6680959 TGTCGATACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCGATAATTATAATGAAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* ** * * * * * *
6681024 GTAATTTTGTAATATAACAGGTATAA-ATATACCAGTTTTAAGTGATAATAGGTCTACATAATGT
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * * *
6681088 ATCGTCACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACAC
131 ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
6681153 ATAAAG
196 ATAAAG
** * * * * *
6681159 TGTCGATACATTTATTGAAAGTGTCAATCCCAGGAACATCGAAACTCATAAATA-AATATAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* * * * * *
6681223 GTAAATTTACAATATAACCAGTATAAC-TAAACTGGTTTTATGAAAGAATTGGTCTACATAATGT
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
** * *
6681287 ATCGACACTTCCAG-AATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCAC
131 ATCGACACTT-GTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCAC
6681351 GCA-ACAAG
194 GCATA-AAG
* * * *
6681359 TATCAATAGATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 TGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
6681424 GGTAATTTTTCAATGTAACCGGTAT-ACATATACCGGTTTTATGAGAGAATAGGTCTACAGT-AT
65 GGTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACA-TAAT
* * * * *
6681487 GTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAAAAAGGGTGCA
129 GTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCCAAAAGGGTGCA
*
6681552 C-CATTAAG
193 CGCATAAAG
* *
6681560 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* ** * * * *
6681625 GTAATTTTGTAATATAACCGGTATAA-ATATACTGGTTTTATGTGAGAATAAGTCTACATAATGT
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * * *
6681689 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAAAATGATGAACGC
131 ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
6681754 ATAAAG
196 ATAAAG
* ** *
6681760 TGTCGATATATTTAT-AAAAGTGTCGATATCAGAAACATCGAAACCCATAAATATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
6681824 GAAAATTTACAATGTAACTGGTATAAC-TATACCGATTTTATGAGAGAATATGTCTACA-ACATG
66 GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
*
6681887 TATCGACA-TTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-TCAAAAGGGTTGCAC
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG-TGCAC
6681950 GCATAAAG
194 GCATAAAG
* * * * *
6681958 TGTCAATACAATTT-TAAAAAGTGTCGATCTCAAAAACATCGAAATCGATAA-T-TAATGTAATA
1 TGTCGATAC-ATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
** * * * *
6682020 GGTAAATTTTTAATGTAATCGGTATAA-ATATACCGATTTTATGAGAAAATAGGTC-ATCATAAA
65 GGTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTA-CATAAT
* * *
6682083 GTATCGATAATTGT-TAAATTTGTGTCAATAC
129 GTATCGACACTTGTGT-AATTTGTGTCGATAC
6682114 CATTTTAAAT
Statistics
Matches: 1311, Mismatches: 207, Indels: 80
0.82 0.13 0.05
Matches are distributed among these distances:
196 1 0.00
197 75 0.06
198 77 0.06
199 261 0.20
200 460 0.35
201 237 0.18
202 197 0.15
203 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (201 bp):
TGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAACATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
ATAAAG
Found at i:6681426 original size:401 final size:400
Alignment explanation
Indices: 6680357--6682089 Score: 1964
Period size: 401 Copynumber: 4.3 Consensus size: 400
6680347 TAAGCATATT
*
6680357 TGTCGATACAGTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
* * * * * * **
6680422 GTAATTTTATAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGTA
66 GTAAATTTACAATATAACCGGTATAAATAAACTGGTTTTATGAAAGAATAGGTCTACATAATGTA
* * *
6680487 TCGACACCTTT-T-CATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACG
131 TCGACA-CTTTCTGAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAACG
** *
6680550 CATAAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAAT
194 CATAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAAT
* * * *
6680615 GTAATAGGTAAATTTACAATGTAACGGGTATAACT-TAACCGGATTTATGAAAGAATAGGTCTAC
259 GTAATAGGTAAATTTACAATGTAACAGGTATAAATAT-ACCGGTTTTATGAGAGAATAGGTCTAC
* * * * * * *
6680679 ATAATGTATCAACACTTCTGGAATTTGTTTTGATACTGTTTGTCCAGAATGAATACCCAAAAAGG
323 ATAATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGG
6680744 GTGCACACA-ACAAG
387 GTGCACACATA-AAG
* * *
6680758 TGTCGATACA-TTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 TGTCGATACATTTATAAA-AAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * * ** * * * *
6680822 GGTAAGTTTTCAATGTAACCGGTATGCATATACCAGTTTTTAT-AAGAGAATAGGTTTACA-ATA
65 GGTAAATTTACAATATAACCGGTATAAATA-AACTGGTTTTATGAA-AGAATAGGTCTACATA-A
* * *
6680885 TGTATCGACAC-TTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAGAAAGGGTG
127 TGTATCGACACTTTCTG-AATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCA-AAAGGATG
* * * * * *
6680949 CAC-CATTAAGTGTCGATACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAACCGATAATTA
190 AACGCATAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATA
* * ** * * * * *
6681013 TAATGAAATAGGTAATTTTGTAATATAACAGGTATAAATATACCAGTTTTAAGTGATAATAGGTC
255 TAATGTAATAGGTAAATTTACAATGTAACAGGTATAAATATACCGGTTTTATGAGAGAATAGGTC
* * * *
6681078 TACATAATGTATCGTCACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
320 TACATAATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA
* * *
6681143 TGATGAACACATAAAG
385 GGGTGCACACATAAAG
** * ** * *
6681159 TGTCGATACATTTATTGAAAGTGTCAATCCCAGGAACATCGAAACTCATAAATA-AATATAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
* * *
6681223 GTAAATTTACAATATAACCAGTATAACTAAACTGGTTTTATGAAAGAATTGGTCTACATAATGTA
66 GTAAATTTACAATATAACCGGTATAAATAAACTGGTTTTATGAAAGAATAGGTCTACATAATGTA
* * * * *
6681288 TCGACACTTCCAGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCACGC
131 TCGACACTTTCTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGATGAACGC
* * * * *
6681353 A-ACAAGTATCAATAGATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAA
195 ATA-AAGTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAA
* * * *
6681417 TGTAATAGGTAATTTTTCAATGTAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTCTAC
258 TGTAATAGGTAAATTTACAATGTAACAGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAC
* * * * *
6681482 AGT-ATGTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAAAAAG
323 A-TAATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCCAAAAG
*
6681546 GGTGCAC-CATTAAG
386 GGTGCACACATAAAG
6681560 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
* ** * ** *
6681625 GTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATAAGTCTACATAATGTA
66 GTAAATTTACAATATAACCGGTATAAATAAACTGGTTTTATGAAAGAATAGGTCTACATAATGTA
* * * * * * *
6681690 TCAACACTTTTTTATTTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAAAATGATGAACGCA
131 TCGACACTTTCTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAACGCA
* **
6681755 TAAAGTGTCGATATATTTAT-AAAAGTGTCGATATCAGAAACATCGAAACCCATAAATATAATGT
196 TAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGT
* * * * *
6681819 AATAGGAAAATTTACAATGTAACTGGTATAACTATACCGATTTTATGAGAGAATATGTCTACA-A
261 AATAGGTAAATTTACAATGTAACAGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA
*
6681883 CATGTATCGACA-TTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-TCAAAAGGGTT
326 -ATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG-T
*
6681946 GCACGCATAAAG
389 GCACACATAAAG
* *
6681958 TGTCAATACAATTT-TAAAAAGTGTCGATCTCAAAAACATCGAAA-TCGATAA-T-TAATGTAAT
1 TGTCGATAC-ATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTC-ATAATTATAATGTAAT
** * * * * *
6682019 AGGTAAATTTTTAATGTAATCGGTATAAATATACCGATTTTATGAGAA-AATAGGTC-ATCATAA
64 AGGTAAATTTACAATATAACCGGTATAAATAAACTGGTTTTATGA-AAGAATAGGTCTA-CATAA
*
6682082 AGTATCGA
127 TGTATCGA
6682090 TAATTGTTAA
Statistics
Matches: 1126, Mismatches: 176, Indels: 65
0.82 0.13 0.05
Matches are distributed among these distances:
395 1 0.00
396 72 0.06
397 9 0.01
398 83 0.07
399 187 0.17
400 68 0.06
401 352 0.31
402 342 0.30
403 12 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (400 bp):
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
GTAAATTTACAATATAACCGGTATAAATAAACTGGTTTTATGAAAGAATAGGTCTACATAATGTA
TCGACACTTTCTGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGATGAACGCA
TAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAATATAATGT
AATAGGTAAATTTACAATGTAACAGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATA
ATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGC
ACACATAAAG
Found at i:6681618 original size:601 final size:601
Alignment explanation
Indices: 6680357--6682074 Score: 2568
Period size: 601 Copynumber: 2.9 Consensus size: 601
6680347 TAAGCATATT
*
6680357 TGTCGATACAGTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
* *
6680422 GTAATTTTATAATATAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGTA
66 GTAATTTTGTAATATAACCGGTATAAATATACCG-TTTTATGTGAGAATAGGTCTACATAATGTA
* * *
6680487 TCGACACCTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCA
130 TCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCA
6680552 TAAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATGT
195 TAAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATGT
* * * *
6680617 AATAGGTAAATTTACAATGTAACGGGTATAACTTAACCGGATTTATGAAAGAATAGGTCTACATA
260 AATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGGTTTTATGAAAGAATTGGTCTACATA
* ** * * *
6680682 ATGTATCAACACTTCTGGAATTTGTTTTGATACTGTTTGTCCAGAATGAATACCCAAAAAGGGTG
325 ATGTATCGACACTTCCAGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAAGGGTG
* * *
6680747 CACACAACAAGTGTCGATACA-TTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATT
390 CACGCAACAAGTGTCAATAAATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATT
* * * *
6680811 ATAATGTAATAGGTAAGTTTTCAATGTAACCGGTATGCATATACCAGTTTTTATAAGAGAATAGG
455 ATAATGTAATAGGTAATTTTTCAATGTAACCGGTATACATATACC-GATTTTATGAGAGAATAGG
* * * * *
6680876 TTTACAATATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAG
519 TCTACAATATGTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAA
6680941 AAAGGGTGCACCATTAAG
584 AAAGGGTGCACCATTAAG
* *
6680959 TGTCGATACATTTATAAAAAGTGTCAATCCCAAAAACATCGAAAC-CGATAATTATAATGAAATA
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTC-ATAATTATAATGTAATA
* * *
6681023 GGTAATTTTGTAATATAACAGGTATAAATATACCAGTTTTAAGTGATAATAGGTCTACATAATGT
65 GGTAATTTTGTAATATAACCGGTATAAATATACC-GTTTTATGTGAGAATAGGTCTACATAATGT
* *
6681088 ATCGTCACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACAC
129 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
* * * * *
6681153 ATAAAGTGTCGATACATTTATTGAAAGTGTCAATCCCAGGAACATCGAAACTCATAAATA-AATA
194 ATAAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATG
* * *
6681217 TAATAGGTAAATTTACAATATAACCAGTATAACTAAACTGGTTTTATGAAAGAATTGGTCTACAT
259 TAATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGGTTTTATGAAAGAATTGGTCTACAT
*
6681282 AATGTATCGACACTTCCAGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAAGGGT
324 AATGTATCGACACTTCCAGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAAGGGT
* *
6681347 GCACGCAACAAGTATCAATAGATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAAT
389 GCACGCAACAAGTGTCAATAAATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAAT
*
6681412 TATAATGTAATAGGTAATTTTTCAATGTAACCGGTATACATATACCGGTTTTATGAGAGAATAGG
454 TATAATGTAATAGGTAATTTTTCAATGTAACCGGTATACATATACCGATTTTATGAGAGAATAGG
*
6681477 TCTACAGTATGTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAA
519 TCTACAATATGTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAA
6681542 AAAGGGTGCACCATTAAG
584 AAAGGGTGCACCATTAAG
6681560 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
* *
6681625 GTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATAAGTCTACATAATGTA
66 GTAATTTTGTAATATAACCGGTATAAATATAC-CGTTTTATGTGAGAATAGGTCTACATAATGTA
* *
6681690 TCAACACTTTTTTATTTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAAAATGATGAACGCA
130 TCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCA
* * *
6681755 TAAAGTGTCGATATATTTA-TAAAAGTGTCGATATCAGAAACATCGAAACCCATAAATATAATGT
195 TAAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATGT
* * * * *
6681819 AATAGGAAAATTTACAATGTAACTGGTATAACTATACCGATTTTATGAGAGAATAT-GTCTACA-
260 AATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGGTTTTATGAAAGAAT-TGGTCTACAT
** * *
6681882 ACATGTATCGACA-TT-GTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-TC-AAAAGG
324 A-ATGTATCGACACTTCCAG-AATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAAGG
* * * * *
6681943 GTTGCACGCATA-AAGTGTCAATACAATTT-TAAA-AAGTGTCGATCTCAAAAACATCGAAATCG
387 G-TGCACGCA-ACAAGTGTCAATA-AATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCC
* * *
6682005 ATAA-T-TAATGTAATAGGTAAATTTTT-AATGTAATCGGTATAAATATACCGATTTTATGAGAA
449 ATAATTATAATGTAATAGGT-AATTTTTCAATGTAACCGGTATACATATACCGATTTTATGAGAG
6682067 AATAGGTC
513 AATAGGTC
6682075 ATCATAAAGT
Statistics
Matches: 1014, Mismatches: 89, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
596 53 0.05
597 8 0.01
598 35 0.03
599 24 0.02
600 73 0.07
601 499 0.49
602 321 0.32
603 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (601 bp):
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAG
GTAATTTTGTAATATAACCGGTATAAATATACCGTTTTATGTGAGAATAGGTCTACATAATGTAT
CGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGCAT
AAAGTGTCGATACATTTATTGAAAGTGTCGATCTCAGAAACATCGAAACCCATAAATATAATGTA
ATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGGTTTTATGAAAGAATTGGTCTACATAA
TGTATCGACACTTCCAGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAAGGGTGC
ACGCAACAAGTGTCAATAAATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTA
TAATGTAATAGGTAATTTTTCAATGTAACCGGTATACATATACCGATTTTATGAGAGAATAGGTC
TACAATATGTATCGACACTTGTCTAATTTGTGTCGATACTTTTGGTCAAGAAGGAATGACCAAAA
AGGGTGCACCATTAAG
Found at i:6684463 original size:137 final size:137
Alignment explanation
Indices: 6684217--6684494 Score: 556
Period size: 137 Copynumber: 2.0 Consensus size: 137
6684207 TCATACATTG
6684217 ATTGATTAACAATTGATGTGTTTATATAGAAATACAATTACATATGTCCACATTCCTTTGACGAT
1 ATTGATTAACAATTGATGTGTTTATATAGAAATACAATTACATATGTCCACATTCCTTTGACGAT
6684282 GCTTCCCATTCGGGCGACAATGCTCTAGGTATGACACAAATTTATTCATGCTTATGCGAATTTAG
66 GCTTCCCATTCGGGCGACAATGCTCTAGGTATGACACAAATTTATTCATGCTTATGCGAATTTAG
6684347 TAGTAAA
131 TAGTAAA
6684354 ATTGATTAACAATTGATGTGTTTATATAGAAATACAATTACATATGTCCACATTCCTTTGACGAT
1 ATTGATTAACAATTGATGTGTTTATATAGAAATACAATTACATATGTCCACATTCCTTTGACGAT
6684419 GCTTCCCATTCGGGCGACAATGCTCTAGGTATGACACAAATTTATTCATGCTTATGCGAATTTAG
66 GCTTCCCATTCGGGCGACAATGCTCTAGGTATGACACAAATTTATTCATGCTTATGCGAATTTAG
6684484 TAGTAAA
131 TAGTAAA
6684491 ATTG
1 ATTG
6684495 TACCTCATTA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 141 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (137 bp):
ATTGATTAACAATTGATGTGTTTATATAGAAATACAATTACATATGTCCACATTCCTTTGACGAT
GCTTCCCATTCGGGCGACAATGCTCTAGGTATGACACAAATTTATTCATGCTTATGCGAATTTAG
TAGTAAA
Found at i:6685142 original size:15 final size:15
Alignment explanation
Indices: 6685122--6685160 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
6685112 TCTCCACAAC
* *
6685122 AAAGTTTTCATACAT
1 AAAGTTTCCAAACAT
*
6685137 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACAT
6685152 AAAGTTTCC
1 AAAGTTTCC
6685161 CATAAAGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAGTTTCCAAACAT
Found at i:6685527 original size:21 final size:21
Alignment explanation
Indices: 6685497--6685551 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
6685487 CTACATAATA
6685497 TGTCGACACTTTTGAATGTTG
1 TGTCGACACTTTTGAATGTTG
*
6685518 TGTTGACACTTTTGAATGTTG
1 TGTCGACACTTTTGAATGTTG
*
6685539 TGTCGATACTTTT
1 TGTCGACACTTTT
6685552 TGTCTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.13, G:0.22, T:0.47
Consensus pattern (21 bp):
TGTCGACACTTTTGAATGTTG
Found at i:6686297 original size:201 final size:197
Alignment explanation
Indices: 6685522--6686350 Score: 890
Period size: 200 Copynumber: 4.1 Consensus size: 197
6685512 ATGTTGTGTT
* * * * * *
6685522 GACACTTTT-GAATGTTGTGTCGATACTTTTTGTCTAGAATAAATGCCCAAAAGGGTGAACGCTT
1 GACACTTTTAG-AT-TTGTGTCGATACTTTTTGTCCAAAATGAATG-TCAAAAGGGTGCACGCAT
*
6685586 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTA
63 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * * ** *
6685651 ATAGGTAAATTTACAATGTAACTGGTATAAATAAACCATTTTTTGAGAAAATAAAT-ATAAATAA
128 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCATTTTATGAGAAAATAGGTGA-ACATAA
6685715 TGTATC
192 TGTATC
* * * * * * ** *
6685721 GACACTTGTGGAATTTGTGTTGATACTTTTGGTCCACAAGGAAAATACAAAAAGGGTGCACCCAT
1 GACACTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGT-C-AAAAGGGTGCACGCAT
* * * * ** * *
6685786 AAAGTGTCAATATATTTTTAAACAGTATCGATCCCTTAAACATCGAAACCCATAAATATAATGTA
63 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* ** * * * ** * **
6685851 ATAGGTAATTTTGTAATATAATCGGTATATATATACCAGTTTTATGTCAGAATAGGTCTACATAA
128 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCA-TTTTATGAGAAAATAGGTGAACATAA
*
6685916 TGTGTC
192 TGTATC
* * * * * *
6685922 GACACTTTT-GAGTGATGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACGAAT
1 GACACTTTTAGA-T-TTGTGTCGATACTTTTTGTCCAAAATGAATG-TCAAAAGGGTGCACGCAT
* * * * *
6685986 AAAATGTCGATACATTTATAAAAAGTATAGATCCTAAAAATATCGAAACTGATAATTATAATGTA
63 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
** **
6686051 ATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGTTAAAATAGGTGAACATAA
128 ATAGGTAAATTTACAATGTAACCGGTATAAATATAC-CATTTTATGAGAAAATAGGTGAACATAA
6686116 TGTATC
192 TGTATC
** * *
6686122 GACACGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGTCAAGATTGTTGCATGCATA
1 GACAC-TTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGTCAA-AAGGGTGCACGCATA
* *
6686187 AAGTGTCGATACATTTTTTAAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTATAATGTA
64 AAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * *
6686252 ATAGGTGAATTTACAATGTAACCGATATAAATGTACCGATTTTATGAGAAAATAGGTGAACATAA
128 ATAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTTATGAGAAAATAGGTGAACATAA
6686317 TGTATC
192 TGTATC
6686323 GACACGTTTTAGATTTGTGTCGATACTT
1 GACAC-TTTTAGATTTGTGTCGATACTT
6686351 GTAAATAACG
Statistics
Matches: 514, Mismatches: 102, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
199 36 0.07
200 281 0.55
201 195 0.38
202 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (197 bp):
GACACTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGTCAAAAGGGTGCACGCATAAA
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCATTTTATGAGAAAATAGGTGAACATAATGTA
TC
Found at i:6690751 original size:199 final size:198
Alignment explanation
Indices: 6690305--6691005 Score: 835
Period size: 199 Copynumber: 3.5 Consensus size: 198
6690295 ACCTAAATAT
* * *
6690305 GTGTCGATACTTTTACTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * *
6690369 AGGTAAATTAACAATGTAACCGGTATAAATATACCGG-TTAATTAGAAAACAGGTCAACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATAAGAAAATAAGTCATCATAATG
* * *
6690433 TATCGACACTTGTGT-AATTTGTGTCAATCCTTATTGTCCAGAATGAATGCCCAAAAGAGGTGCA
130 TATCGACACTT-T-TAAATTTGTGTCGATACTTATTGTCCAGAATGAATG-CCAAACG-GGTGCA
*
6690497 CACATAAA
191 CGCATAAA
* * *
6690505 GTGTCGCTACAATTATTAAAAGTATCGATCTCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * * * *
6690569 ATGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAAATCATCATAAAG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATAAGAAAATAAGTCATCATAATG
* *
6690634 TATCGACACTTATTAAATTTGTGTTGATACATT-TTGTCCATAATGAATGCCAAACGGGTGCACG
130 TATCGACACTT-TTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCAAACGGGTGCACG
6690698 CATAAA
193 CATAAA
* * *
6690704 GTGTCGATACATTTATTAAAAGTATCGATCCCAGAAACATCGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
6690769 GGTAAATTTACAATGTATCCGATAGAAATATACCGGTTTTATAAAAAAATATGTC-TAAATAATG
66 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATAAGAAAATAAGTCAT-CATAATG
* * * * * *
6690833 TATCCACACTCTTTAAGTTTGTGTCGATACTTGTT-TCCAGATTGAATGCCCAACAAGGTGCACG
130 TATCGACACT-TTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAAC-GGGTGCACG
6690897 CATAAA
193 CATAAA
* * *
6690903 GTGTAGATACATTTA--AAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
6690966 AAGTAAATTTACAATGTTACCGTTATAAATATACCGGTTT
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTT
6691006 ACTTATAAAA
Statistics
Matches: 432, Mismatches: 58, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
197 3 0.01
198 96 0.22
199 175 0.41
200 92 0.21
201 64 0.15
202 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATAAGAAAATAAGTCATCATAATGT
ATCGACACTTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGGGTGCACGCAT
AAA
Found at i:6691121 original size:87 final size:87
Alignment explanation
Indices: 6691023--6691185 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
6691013 AAATAGGTCA
* * *
6691023 ATATAAGCGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTATTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
6691088 CCAGTTAAATGCCTATTTTATT
66 CCAGTTAAATGCCTATTTTATT
* *
6691110 ATATAATCGCTACCTATTACATTATATAAGATCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
**
6691175 CTGGTTAAATG
66 CCAGTTAAATG
6691186 ATATAACATA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAGTTAAATGCCTATTTTATT
Found at i:6697763 original size:10 final size:11
Alignment explanation
Indices: 6697745--6697779 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
6697735 TAATTGTATC
6697745 TTCAATTTTTT
1 TTCAATTTTTT
6697756 TT-AATTTTTT
1 TTCAATTTTTT
6697766 TTCAATTTGTTT
1 TTCAATTT-TTT
6697778 TT
1 TT
6697780 TTCTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 7 0.32
12 5 0.23
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (11 bp):
TTCAATTTTTT
Found at i:6700274 original size:14 final size:14
Alignment explanation
Indices: 6700254--6700283 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6700244 CAAAGATCTT
6700254 AAAAAAAGAAAAAGC
1 AAAAAAA-AAAAAGC
6700269 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
6700283 A
1 A
6700284 CACCCACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:6705446 original size:28 final size:29
Alignment explanation
Indices: 6705409--6705466 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
6705399 AATAAAAAAT
* *
6705409 AATTCAAAAGTTCAGTGATTAAAAT-GAA
1 AATTCAAAAGTTCAGTAATCAAAATAGAA
* *
6705437 AATTCTAAAGTTTAGTAATCAAAATAGAA
1 AATTCAAAAGTTCAGTAATCAAAATAGAA
6705466 A
1 A
6705467 TGAGAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (29 bp):
AATTCAAAAGTTCAGTAATCAAAATAGAA
Done.