Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 62
Found at i:5976320 original size:64 final size:65
Alignment explanation
Indices: 5976167--5976327 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
5976157 GAATTAATTG
* * *** *
5976167 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
5976232 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
5976295 A
65 A
5976296 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
5976328 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:5976342 original size:64 final size:64
Alignment explanation
Indices: 5976167--5976347 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
5976157 GAATTAATTG
* * * *
5976167 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
5976232 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
5976296 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
5976348 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:5978413 original size:50 final size:51
Alignment explanation
Indices: 5978359--5978454 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 51
5978349 TTTGTTTGGG
* * **
5978359 ATCCTCTTTGAAGGGCAATATCCCCATTTTGATTTTTGT-TTCTGACTGGA
1 ATCCTCTTCGAAGGGCAACATCCCCATACTGATTTTTGTATTCTGACTGGA
* * *
5978409 ATCCTCTTCGTAGGGTAGCATCCCCATACTGATTTTTGTATTCTGA
1 ATCCTCTTCGAAGGGCAACATCCCCATACTGATTTTTGTATTCTGA
5978455 TTTGGGTACC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.84
51 6 0.16
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (51 bp):
ATCCTCTTCGAAGGGCAACATCCCCATACTGATTTTTGTATTCTGACTGGA
Found at i:5983004 original size:21 final size:21
Alignment explanation
Indices: 5982972--5983025 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
5982962 ATTTACCATG
*
5982972 ATTGCAGCCGTCGCGGGA-GCT
1 ATTGCGGCCGTCGC-GGACGCT
*
5982993 ATTGCGGTCGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
5983014 ATTGCGGCCGTC
1 ATTGCGGCCGTC
5983026 ACGAGTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.11, C:0.30, G:0.37, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:5983249 original size:7 final size:7
Alignment explanation
Indices: 5983235--5983268 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
5983225 CCCAAGAATC
5983235 AACATTA
1 AACATTA
*
5983242 AGCATTA
1 AACATTA
5983249 AACATTA
1 AACATTA
5983256 AACATTA
1 AACATTA
5983263 AACATT
1 AACATT
5983269 TCCCCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (7 bp):
AACATTA
Found at i:5983990 original size:30 final size:32
Alignment explanation
Indices: 5983932--5984007 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 32
5983922 ATTATTGTAT
* *
5983932 ATATTTAATATTAAT-ATAATATATTTAATAA-A
1 ATATTT-ATATTATTGA-AATAAATTTAATAATA
5983964 ATATTTA-ATTATTGAAATAAATTTAATAATA
1 ATATTTATATTATTGAAATAAATTTAATAATA
*
5983995 ATTTTTATATTAT
1 ATATTTATATTAT
5984008 AATATAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 18 0.47
31 9 0.24
32 11 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATATTTATATTATTGAAATAAATTTAATAATA
Found at i:5984015 original size:22 final size:22
Alignment explanation
Indices: 5983989--5984039 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
5983979 AATAAATTTA
*
5983989 ATAATAATTTTT-ATATTATAAT
1 ATAAT-ATTTTTAATAATATAAT
5984011 ATAATATTTTTAATAATATAAT
1 ATAATATTTTTAATAATATAAT
*
5984033 ATTATAT
1 ATAATAT
5984040 GATAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAATATTTTTAATAATATAAT
Found at i:5984180 original size:22 final size:23
Alignment explanation
Indices: 5984139--5984187 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
5984129 TTACTAGATA
*
5984139 TTTAAAATATATTTATTAATAATT
1 TTTAAAATATATATATTAAT-ATT
5984163 TTTAAAATATA-ATA-TAATATT
1 TTTAAAATATATATATTAATATT
5984184 TTTA
1 TTTA
5984188 TTATAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 2 0.08
24 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAAATATATATATTAATATT
Found at i:5984207 original size:19 final size:19
Alignment explanation
Indices: 5984170--5984245 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 19
5984160 ATTTTTAAAA
* *
5984170 TATAATATAATATTTTTAT
1 TATAATATAATAATATTAT
*
5984189 TATAATATTATAATATTAT
1 TATAATATAATAATATTAT
* * *
5984208 TTTAATA-AGT-A-ATTAA
1 TATAATATAATAATATTAT
5984224 TATAAT-TAATAATATTTAT
1 TATAATATAATAATA-TTAT
5984243 TAT
1 TAT
5984246 TTTAATTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
16 11 0.26
17 2 0.05
18 2 0.05
19 28 0.65
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (19 bp):
TATAATATAATAATATTAT
Found at i:5984215 original size:22 final size:22
Alignment explanation
Indices: 5984162--5984270 Score: 58
Period size: 22 Copynumber: 5.2 Consensus size: 22
5984152 TATTAATAAT
5984162 TTTTAA-AATATAATATAATATT-
1 TTTTAATAATAT--TATAATATTA
*
5984184 TTTATTATAATATTATAATATTA
1 TTT-TAATAATATTATAATATTA
*
5984207 TTTTAATAAGTAAT-TAATA-TA
1 TTTTAATAA-TATTATAATATTA
*
5984228 -ATTAATAATA-T-T--TATTA
1 TTTTAATAATATTATAATATTA
* * *
5984245 TTTTAATTATATAAT-ATATCA
1 TTTTAATAATATTATAATATTA
5984266 TTTTA
1 TTTTA
5984271 TATTAATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 10 0.14
19 2 0.03
20 8 0.11
21 11 0.16
22 22 0.31
23 8 0.11
24 5 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTTAATAATATTATAATATTA
Found at i:5984228 original size:35 final size:33
Alignment explanation
Indices: 5984189--5984307 Score: 111
Period size: 34 Copynumber: 3.6 Consensus size: 33
5984179 ATATTTTTAT
* *
5984189 TATAATATTATAATATTATTTTAATAAGTAATTAA
1 TATAAT-TTATAATATTATATTAATAAATAATT-A
* **
5984224 TATAATTAATAATATT-TATT-AT-TTTAATTA
1 TATAATTTATAATATTATATTAATAAATAATTA
* * *
5984254 TATAATATATCATTTTATATTAATAAATAATTCA
1 TATAATTTATAATATTATATTAATAAATAATT-A
5984288 TATAATTTATAATATT-TATT
1 TATAATTTATAATATTATATT
5984308 GTAATAAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
30 13 0.19
31 9 0.13
32 4 0.06
33 12 0.18
34 23 0.34
35 6 0.09
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (33 bp):
TATAATTTATAATATTATATTAATAAATAATTA
Found at i:5984270 original size:21 final size:21
Alignment explanation
Indices: 5984226--5984279 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
5984216 GTAATTAATA
*
5984226 TAATTAATAATATTTATTATTT
1 TAATTAATAATA-TTATCATTT
5984248 TAATTATATAATA-TATCATTT
1 TAATTA-ATAATATTATCATTT
5984269 TATATTAATAA
1 TA-ATTAATAA
5984280 ATAATTCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 13 0.45
22 10 0.34
23 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAATAATATTATCATTT
Found at i:5984313 original size:35 final size:33
Alignment explanation
Indices: 5984189--5984315 Score: 111
Period size: 35 Copynumber: 3.8 Consensus size: 33
5984179 ATATTTTTAT
*
5984189 TATAATATTATAATA-TTATTTTAATAAGTAATTAA
1 TATAAT-TTATAATATTTA-TTTAATAAATAATT-A
* **
5984224 TATAATTAATAATATTTA-TT-AT-TTTAATTA
1 TATAATTTATAATATTTATTTAATAAATAATTA
* *
5984254 TATAATATATCAT-TTTATATTAATAAATAATTCA
1 TATAATTTATAATATTTAT-TTAATAAATAATT-A
5984288 TATAATTTATAATATTTATTGTAATAAA
1 TATAATTTATAATATTTATT-TAATAAA
5984316 ATATACTAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
29 4 0.05
30 11 0.15
31 7 0.09
32 4 0.05
33 7 0.09
34 20 0.27
35 21 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
TATAATTTATAATATTTATTTAATAAATAATTA
Found at i:5984911 original size:9 final size:9
Alignment explanation
Indices: 5984894--5984927 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
5984884 TGTATCATTA
5984894 TATTTTTTT
1 TATTTTTTT
*
5984903 T-TATTTTT
1 TATTTTTTT
5984911 TATTTTTTT
1 TATTTTTTT
5984920 TATTTTTT
1 TATTTTTT
5984928 AATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:5984918 original size:16 final size:16
Alignment explanation
Indices: 5984897--5984928 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5984887 ATCATTATAT
5984897 TTTTTTTTATTTTTTA
1 TTTTTTTTATTTTTTA
5984913 TTTTTTTTATTTTTTA
1 TTTTTTTTATTTTTTA
5984929 ATAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:5988739 original size:20 final size:21
Alignment explanation
Indices: 5988691--5988763 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
5988681 TTTGCTAAGT
** *
5988691 AGTATCGATACTGAATCGATC
1 AGTATCGATACTGAAGAGAGC
5988712 AGTATCGATACTGAAGAGAGC
1 AGTATCGATACTGAAGAGAGC
* *
5988733 A-TATCGATACCGAAG-G-GA
1 AGTATCGATACTGAAGAGAGC
5988751 AGGTATCGATACT
1 A-GTATCGATACT
5988764 ATTTCAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 22 0.50
21 19 0.43
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (21 bp):
AGTATCGATACTGAAGAGAGC
Found at i:5988811 original size:19 final size:20
Alignment explanation
Indices: 5988787--5988858 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
5988777 ATGCAAAAAT
5988787 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTAGG
5988806 GGTATC-AGTACCATAGTATGG
1 GGTATCGA-TACCATAGTA-GG
* * *
5988827 TAGTATCGATACAATGGTAGG
1 -GGTATCGATACCATAGTAGG
5988848 GGTATCGATAC
1 GGTATCGATAC
5988859 TGAGGAGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 10 0.23
21 3 0.07
22 13 0.30
23 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:5989290 original size:20 final size:20
Alignment explanation
Indices: 5989265--5989391 Score: 74
Period size: 20 Copynumber: 5.7 Consensus size: 20
5989255 TAATTAAAAT
5989265 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
5989285 GCATGAAAAGATGTCATAATTTAAAAT
1 GCATGAAAGGATG-C---A-TT--AAG
5989312 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
5989332 GCATGAAAGGGTGCCATCATTTAAAAT
1 GCATGAAAGGATG----CA-TT--AAG
*
5989359 ACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
5989379 GCATGAAATGATG
1 GCATGAAAGGATG
5989392 TCATAATTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
20 39 0.48
21 1 0.01
22 4 0.05
23 3 0.04
24 3 0.04
25 4 0.05
26 1 0.01
27 27 0.33
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:5989321 original size:47 final size:46
Alignment explanation
Indices: 5989253--5989417 Score: 242
Period size: 47 Copynumber: 3.5 Consensus size: 46
5989243 ATATCGAATC
5989253 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGT
* * *
5989299 CATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGGTGC
1 CATAA-TTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGT
* * *
5989346 CATCATTTAAAATACATGAAAGGATGCATTAAGGCATGAAATGATGT
1 CAT-AATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGT
5989393 CATAATTAAAATGCAT-AAATGGATG
1 CATAATTAAAATGCATGAAA-GGATG
5989418 TTTTAATGTG
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
45 3 0.03
46 21 0.20
47 81 0.76
48 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (46 bp):
CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGATGT
Found at i:5995307 original size:19 final size:19
Alignment explanation
Indices: 5995264--5995307 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
5995254 GGATGCAAAA
5995264 ATGGTATCGATACCATAAT
1 ATGGTATCGATACCATAAT
* * *
5995283 AGGGTATCGGTACCATAGT
1 ATGGTATCGATACCATAAT
5995302 ATGGTA
1 ATGGTA
5995308 GTATCGATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (19 bp):
ATGGTATCGATACCATAAT
Found at i:5995769 original size:20 final size:20
Alignment explanation
Indices: 5995744--5995837 Score: 170
Period size: 20 Copynumber: 4.7 Consensus size: 20
5995734 TAATTAAAAT
5995744 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
5995764 GCATGAAAGGATGCAATATG
1 GCATGAAAGGATGCATTAAG
5995784 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
5995804 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
5995824 GCATGAAAGGATGC
1 GCATGAAAGGATGC
5995838 CATAATTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.31, T:0.19
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:5997259 original size:12 final size:13
Alignment explanation
Indices: 5997232--5997260 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5997222 TCAATTAGGA
5997232 TTTAAGATATTAT
1 TTTAAGATATTAT
5997245 TTTAA-ATATTAT
1 TTTAAGATATTAT
5997257 TTTA
1 TTTA
5997261 TTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAGATATTAT
Found at i:5998053 original size:13 final size:12
Alignment explanation
Indices: 5998035--5998068 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
5998025 TCTTTTAACA
5998035 TTTTTTTATATT
1 TTTTTTTATATT
5998047 TTTTTTTATATT
1 TTTTTTTATATT
5998059 TTTCTTTTAT
1 TTT-TTTTAT
5998069 GAAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTATATT
Found at i:6008535 original size:21 final size:21
Alignment explanation
Indices: 6008509--6008549 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6008499 TCTGAGCAAA
6008509 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
6008530 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
6008550 AGGAAGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:6008617 original size:87 final size:88
Alignment explanation
Indices: 6008461--6008637 Score: 331
Period size: 87 Copynumber: 2.0 Consensus size: 88
6008451 AGAAGAATTG
6008461 AAGGAAGAGTTAAGGATTTTCGGGTGTAAAATACGAATTCTGAGCAAAGTGTATCGATGCACATT
1 AAGGAAGAGTTAAGGATTTTCGGGTGTAAAATACGAATTCTGAGCAAAGTGTATCGATGCACATT
6008526 CAATGTGTATCGATGCACTTTCA
66 CAATGTGTATCGATGCACTTTCA
6008549 AAGGAAGAG-TAAGGATTTT-GGGTTGTAAAATACGAATTCTGAGCAAAGTGTATCGATGCACAT
1 AAGGAAGAGTTAAGGATTTTCGGG-TGTAAAATACGAATTCTGAGCAAAGTGTATCGATGCACAT
6008612 TCAATGTGTATCGATGCACTTTCA
65 TCAATGTGTATCGATGCACTTTCA
6008636 AA
1 AA
6008638 TAAATGAACA
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
86 3 0.03
87 76 0.86
88 9 0.10
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (88 bp):
AAGGAAGAGTTAAGGATTTTCGGGTGTAAAATACGAATTCTGAGCAAAGTGTATCGATGCACATT
CAATGTGTATCGATGCACTTTCA
Found at i:6008622 original size:21 final size:21
Alignment explanation
Indices: 6008596--6008636 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6008586 TCTGAGCAAA
6008596 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
6008617 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
6008637 ATAAATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:6010308 original size:22 final size:23
Alignment explanation
Indices: 6010273--6010330 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
6010263 CATTTTATAT
6010273 GGCAC-TCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
6010295 GGCACTTCGG-GCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
6010317 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
6010331 TTTATACGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:6015601 original size:23 final size:23
Alignment explanation
Indices: 6015534--6015593 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
6015524 CATTTTATAT
*
6015534 AGCACTTCGGTGCAATTCTATGC
1 AGCACTTCGGTGCAATTCTACGC
* *
6015557 AGCACTTCGGTGAAATTCTACGT
1 AGCACTTCGGTGCAATTCTACGC
*
6015580 GGCACTTCGGTGCA
1 AGCACTTCGGTGCA
6015594 TTTATACGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
AGCACTTCGGTGCAATTCTACGC
Found at i:6017482 original size:270 final size:269
Alignment explanation
Indices: 6016985--6017599 Score: 853
Period size: 270 Copynumber: 2.3 Consensus size: 269
6016975 TACAAGATTG
* * * *
6016985 GATTTCAACTTCACAACGAAGGATATTGTACCCAAAAGATTGACCCAACTTCACGATGAAGGAGT
1 GATTTCAACTTCACAACGAAAGATATCGTACCCAAAAGATTGACCCAACTTCACGAAGAATGAGT
*
6017050 CATCTGTAACACAACAATAAAAAAAAGTTTCATACCAAAGTCTTCAGGTCAAATTTCATCTTCAA
66 CATCTGTAACACAACAATAAAAAAAAGTTTCATACCAAAGTCTTCAGGTCAAATTTCAGCTTCAA
* * * *
6017115 GACGAAGTATATTGGGCTAGAAGATGATCCAAGAGAAACTTTCCAATGCTTTGTGCTCGATTTCA
131 GACGAAGTATATTGGGCTAGAAGACGATCCAAGAGAAACTTTCCAATGCTTTGAGCCCAATTTCA
* *
6017180 ACTTCACAACGAAGGATATGAAGCTCAGGATTTTTCAGTTCAAAGCTCAACTTCACAACGAATGA
196 ACTTCACAACGAAGGATATGAAGCTCAGGATTTTTCAGTTCAAAGCACAAATTCACAACGAATGA
*
6017245 GCCAC-CTAT
261 GCCACTC-AC
*
6017254 GATTTCGACTTCACAACGAAAGATATCGTACCCAAAAGATTGACCCAACTTCACGAAGAATGAGT
1 GATTTCAACTTCACAACGAAAGATATCGTACCCAAAAGATTGACCCAACTTCACGAAGAATGAGT
**
6017319 CATCTGTAACACAACAATGAAAAACCAGTTTCATACCAAAGTCTTCAGGTCAAATTTCAGCTTCA
66 CATCTGTAACACAACAAT-AAAAAAAAGTTTCATACCAAAGTCTTCAGGTCAAATTTCAGCTTCA
* * * ** *
6017384 CGGCGAAGTATATTGGGCTAGAAGACGATCCAGGAGCGATTTTCCAATGCTTTGAGCCCAATTTC
130 AGACGAAGTATATTGGGCTAGAAGACGATCCAAGAGAAACTTTCCAATGCTTTGAGCCCAATTTC
* * * *
6017449 AACTTCACGATGAAGGATATCG-TGCTTAGGATTTTTCAGTTCAAAGCACAAATTCACAACGAAT
195 AACTTCACAACGAAGGATAT-GAAGCTCAGGATTTTTCAGTTCAAAGCACAAATTCACAACGAAT
6017513 GAGCCACTCAC
259 GAGCCACTCAC
* * * * * *
6017524 GATTTCAACTTCACGAA-GAATGATATCATGCCCAATAGATTGACTCAA-TTCCACAGCA-AATG
1 GATTTCAACTTCAC-AACGAAAGATATCGTACCCAAAAGATTGACCCAACTT-CAC-GAAGAATG
*
6017586 AGTCATCTTTAACA
63 AGTCATCTGTAACA
6017600 ACAAGGAACT
Statistics
Matches: 307, Mismatches: 33, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
269 80 0.26
270 221 0.72
271 6 0.02
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (269 bp):
GATTTCAACTTCACAACGAAAGATATCGTACCCAAAAGATTGACCCAACTTCACGAAGAATGAGT
CATCTGTAACACAACAATAAAAAAAAGTTTCATACCAAAGTCTTCAGGTCAAATTTCAGCTTCAA
GACGAAGTATATTGGGCTAGAAGACGATCCAAGAGAAACTTTCCAATGCTTTGAGCCCAATTTCA
ACTTCACAACGAAGGATATGAAGCTCAGGATTTTTCAGTTCAAAGCACAAATTCACAACGAATGA
GCCACTCAC
Found at i:6019878 original size:10 final size:10
Alignment explanation
Indices: 6019849--6019917 Score: 63
Period size: 10 Copynumber: 7.1 Consensus size: 10
6019839 GCTGCTGGAA
6019849 AACCGGTTTG
1 AACCGGTTTG
*
6019859 -ACCAGTTTTG
1 AACC-GGTTTG
6019869 AACCGGTTTG
1 AACCGGTTTG
*
6019879 -ACCGGTTCG
1 AACCGGTTTG
*
6019888 AACCAGTTTG
1 AACCGGTTTG
*
6019898 -ACCGGTCTG
1 AACCGGTTTG
*
6019907 AACCAGTTTG
1 AACCGGTTTG
6019917 A
1 A
6019918 CCAGTCTGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 18 0.39
10 25 0.54
11 3 0.07
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:6019922 original size:9 final size:9
Alignment explanation
Indices: 6019854--6019922 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
6019844 TGGAAAACCG
6019854 GTTTGACCA
1 GTTTGACCA
*
6019863 GTTTTGAACCG
1 G-TTTG-ACCA
*
6019874 GTTTGACCG
1 GTTTGACCA
*
6019883 GTTCGAACCA
1 GTTTG-ACCA
*
6019893 GTTTGACCG
1 GTTTGACCA
*
6019902 GTCTGAACCA
1 GTTTG-ACCA
6019912 GTTTGACCA
1 GTTTGACCA
6019921 GT
1 GT
6019923 CTGAACAGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 22 0.46
10 22 0.46
11 4 0.08
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (9 bp):
GTTTGACCA
Found at i:6019924 original size:19 final size:19
Alignment explanation
Indices: 6019849--6019928 Score: 90
Period size: 19 Copynumber: 4.2 Consensus size: 19
6019839 GCTGCTGGAA
* *
6019849 AACCGGTTTGACCAGTTTTG
1 AACCAGTTTGACCAG-TCTG
* *
6019869 AACCGGTTTGACCGGT-TCG
1 AACCAGTTTGACCAGTCT-G
*
6019888 AACCAGTTTGACCGGTCTG
1 AACCAGTTTGACCAGTCTG
6019907 AACCAGTTTGACCAGTCTG
1 AACCAGTTTGACCAGTCTG
6019926 AAC
1 AAC
6019929 AGGGTTGACC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
18 1 0.02
19 39 0.71
20 15 0.27
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (19 bp):
AACCAGTTTGACCAGTCTG
Found at i:6019936 original size:19 final size:19
Alignment explanation
Indices: 6019856--6019938 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
6019846 GAAAACCGGT
*
6019856 TTGACCAGTTTTGAACC-GG
1 TTGACCAG-TCTGAACCAGG
* *
6019875 TTTGACCGGT-TCGAACCAGT
1 -TTGACCAGTCT-GAACCAGG
* *
6019895 TTGACCGGTCTGAACCAGT
1 TTGACCAGTCTGAACCAGG
6019914 TTGACCAGTCTGAA-CAGGG
1 TTGACCAGTCTGAACCA-GG
6019933 TTGACC
1 TTGACC
6019939 CGACCCGACT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.05
19 43 0.78
20 9 0.16
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (19 bp):
TTGACCAGTCTGAACCAGG
Found at i:6019954 original size:17 final size:17
Alignment explanation
Indices: 6019932--6020005 Score: 114
Period size: 17 Copynumber: 4.4 Consensus size: 17
6019922 TCTGAACAGG
6019932 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
*
6019949 GTTGACCCGACCCTACT
1 GTTGACCCGACCCGACT
*
6019966 GTTGACTCGACCCGACT
1 GTTGACCCGACCCGACT
*
6019983 GTTGACCCGACCCG-CC
1 GTTGACCCGACCCGACT
6019999 GTTGACC
1 GTTGACC
6020006 GTGACTGTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
16 8 0.15
17 44 0.85
ACGTcount: A:0.16, C:0.41, G:0.23, T:0.20
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:6026941 original size:9 final size:9
Alignment explanation
Indices: 6026909--6026981 Score: 83
Period size: 10 Copynumber: 7.7 Consensus size: 9
6026899 CTGCTGGAAA
6026909 ACCGGTTTG
1 ACCGGTTTG
*
6026918 ACCAGTTTTG
1 ACC-GGTTTG
6026928 AACCGGTTTG
1 -ACCGGTTTG
*
6026938 ACCGGTCTG
1 ACCGGTTTG
6026947 AACCGGTTTG
1 -ACCGGTTTG
*
6026957 ACCGGTCTG
1 ACCGGTTTG
6026966 AACCGGTTTG
1 -ACCGGTTTG
6026976 ACCGGT
1 ACCGGT
6026982 CTGAACAGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 25 0.46
10 26 0.48
11 3 0.06
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:6026950 original size:19 final size:19
Alignment explanation
Indices: 6026908--6026997 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
6026898 GCTGCTGGAA
* *
6026908 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
6026928 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
6026947 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
6026966 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
6026985 AACAGGGTTGACC
1 AACCGGTTTGACC
6026998 CGACCCGACT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
19 53 0.80
20 13 0.20
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:6027013 original size:17 final size:17
Alignment explanation
Indices: 6026991--6027057 Score: 116
Period size: 17 Copynumber: 3.9 Consensus size: 17
6026981 TCTGAACAGG
6026991 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
6027008 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
* *
6027025 GTTGACTCGACCCGACC
1 GTTGACCCGACCCGACT
6027042 GTTGACCCGACCCGAC
1 GTTGACCCGACCCGAC
6027058 CGTTAACCGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 47 1.00
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:6027079 original size:6 final size:7
Alignment explanation
Indices: 6027055--6027091 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6027045 GACCCGACCC
6027055 GACCGTT
1 GACCGTT
*
6027062 AACCGTT
1 GACCGTT
6027069 GACCG-T
1 GACCGTT
6027075 GACCGTT
1 GACCGTT
6027082 GACCGTT
1 GACCGTT
6027089 GAC
1 GAC
6027092 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:6027081 original size:13 final size:13
Alignment explanation
Indices: 6027063--6027087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6027053 CCGACCGTTA
6027063 ACCGTTGACCGTG
1 ACCGTTGACCGTG
6027076 ACCGTTGACCGT
1 ACCGTTGACCGT
6027088 TGACTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (13 bp):
ACCGTTGACCGTG
Found at i:6030196 original size:2 final size:2
Alignment explanation
Indices: 6030189--6030217 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6030179 TGATTTTTGA
6030189 AT AT AT AT AT -T 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
6030218 TATTTGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6030912 original size:34 final size:34
Alignment explanation
Indices: 6030869--6030956 Score: 149
Period size: 34 Copynumber: 2.6 Consensus size: 34
6030859 ATAATGATGA
6030869 TCTTCGTTGATTCTTTGAATTAATATGACATCAT
1 TCTTCGTTGATTCTTTGAATTAATATGACATCAT
*
6030903 TCTTCGTTGATTCTTTGAATTAATATGACATCGT
1 TCTTCGTTGATTCTTTGAATTAATATGACATCAT
* *
6030937 TTTTCGTTGATTCTTCGAAT
1 TCTTCGTTGATTCTTTGAAT
6030957 CTTTTTCTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.49
Consensus pattern (34 bp):
TCTTCGTTGATTCTTTGAATTAATATGACATCAT
Found at i:6033279 original size:204 final size:204
Alignment explanation
Indices: 6032929--6033317 Score: 778
Period size: 204 Copynumber: 1.9 Consensus size: 204
6032919 CACTGAATAG
6032929 ATCCTAAGGAGAAAAATAGATATTCCAATGATCTTTATTTCATTTCCACGTTGTAACAATATAAA
1 ATCCTAAGGAGAAAAATAGATATTCCAATGATCTTTATTTCATTTCCACGTTGTAACAATATAAA
6032994 AAATGTTGGCGTACTTGATTCGTGGTTCATAACCCATAGGGATAGTACATCATGTAAGTTCATCA
66 AAATGTTGGCGTACTTGATTCGTGGTTCATAACCCATAGGGATAGTACATCATGTAAGTTCATCA
6033059 GCGTTTTCAGACTTTTCCAATTCACTTACTTAATCCTCAGTCAATGACGTTACTTCATTAGTAGT
131 GCGTTTTCAGACTTTTCCAATTCACTTACTTAATCCTCAGTCAATGACGTTACTTCATTAGTAGT
6033124 CTAGTCAGT
196 CTAGTCAGT
6033133 ATCCTAAGGAGAAAAATAGATATTCCAATGATCTTTATTTCATTTCCACGTTGTAACAATATAAA
1 ATCCTAAGGAGAAAAATAGATATTCCAATGATCTTTATTTCATTTCCACGTTGTAACAATATAAA
6033198 AAATGTTGGCGTACTTGATTCGTGGTTCATAACCCATAGGGATAGTACATCATGTAAGTTCATCA
66 AAATGTTGGCGTACTTGATTCGTGGTTCATAACCCATAGGGATAGTACATCATGTAAGTTCATCA
6033263 GCGTTTTCAGACTTTTCCAATTCACTTACTTAATCCTCAGTCAATGACGTTACTT
131 GCGTTTTCAGACTTTTCCAATTCACTTACTTAATCCTCAGTCAATGACGTTACTT
6033318 AGTTCATTTA
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 185 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (204 bp):
ATCCTAAGGAGAAAAATAGATATTCCAATGATCTTTATTTCATTTCCACGTTGTAACAATATAAA
AAATGTTGGCGTACTTGATTCGTGGTTCATAACCCATAGGGATAGTACATCATGTAAGTTCATCA
GCGTTTTCAGACTTTTCCAATTCACTTACTTAATCCTCAGTCAATGACGTTACTTCATTAGTAGT
CTAGTCAGT
Found at i:6039910 original size:55 final size:55
Alignment explanation
Indices: 6039826--6040172 Score: 428
Period size: 55 Copynumber: 6.5 Consensus size: 55
6039816 TATATGTTGA
* * *
6039826 AATTTCCATATTAGCACTATGTGTGCAACCTCACAAAATTCATAAAGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
*
6039881 AATTTCCGTATTGGCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
* *
6039936 AATTTCCGTATTGGCACTATGTGTGCAACTTCTCAAAATTCATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
* * * *
6039991 AATTT-CGTATTCGCACTATGTGT--AACATCACAAAATTCATTATGAGTTCATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
*
6040043 -A-------ATTGGCACTATGTGTGCATCCTCACAAAATTCATAATGAGTTTATG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
* * * * *
6040090 AATTTCCGTATTGGCACTATGTGTGCAACCCCACATAATTTATAATTAGTTTGTG
1 AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
* * ** *
6040145 AATTACTGTATCAGCACTACGTGTGCAA
1 AATTTCCGTATTGGCACTATGTGTGCAA
6040173 AACCAAGAAA
Statistics
Matches: 254, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
45 14 0.06
47 25 0.10
48 1 0.00
51 1 0.00
52 25 0.10
54 17 0.07
55 171 0.67
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (55 bp):
AATTTCCGTATTGGCACTATGTGTGCAACCTCACAAAATTCATAATGAGTTTATG
Found at i:6040053 original size:45 final size:46
Alignment explanation
Indices: 6040003--6040093 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 46
6039993 TTTCGTATTC
*
6040003 GCACTATGTGT-AACATCACAAAATTCATTATGAGTTCATGAATTG
1 GCACTATGTGTCAACATCACAAAATTCATAATGAGTTCATGAATTG
* * *
6040048 GCACTATGTGTGCATCCTCACAAAATTCATAATGAGTTTATGAATT
1 GCACTATGTGT-CAACATCACAAAATTCATAATGAGTTCATGAATT
6040094 TCCGTATTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 11 0.28
47 29 0.73
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (46 bp):
GCACTATGTGTCAACATCACAAAATTCATAATGAGTTCATGAATTG
Found at i:6044253 original size:20 final size:19
Alignment explanation
Indices: 6044228--6044280 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
6044218 TGATTCAATC
* *
6044228 AGTATCGATACCGAAGGGGG
1 AGTATCGATACC-AAAGGGA
6044248 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
6044267 AGGTATCGATACCA
1 A-GTATCGATACCA
6044281 TTTCGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:6044349 original size:22 final size:22
Alignment explanation
Indices: 6044321--6044362 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6044311 TACCATAGCA
*
6044321 TAGTATCAGTACCATAGTATTG
1 TAGTATCAATACCATAGTATTG
*
6044343 TAGTATCAATACCATGGTAT
1 TAGTATCAATACCATAGTAT
6044363 GGGTATCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATTG
Found at i:6044850 original size:54 final size:54
Alignment explanation
Indices: 6044699--6045041 Score: 467
Period size: 54 Copynumber: 6.3 Consensus size: 54
6044689 TGTGTACTAA
* * *
6044699 AGGCACTATGTGTGCAAATCCAC-AGAATTTATCATGAGTTTATGAATAACCGTAC
1 AGGCACTATGTGTGC-AACCCACGAG-ATTCATCATGAGTTGATGAATAACCGTAC
* * * *
6044754 AAGCACTATGTGTACAAACCCACGAGATTCATCATGTGTTGATGAATAACCGTAT
1 AGGCACTATGTGTGC-AACCCACGAGATTCATCATGAGTTGATGAATAACCGTAC
* *
6044809 AGGCACTATGTGTGCAACCCACGAGATTCATCACGAGTTGATGAATAAGCGTAC
1 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAC
* *
6044863 AGACACTATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGC-AACCCACGAGATTCATCATGAGTTGATGAATAACCGTAC
*
6044918 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATAAATAACCGTAC
1 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAC
* * * *
6044972 ATGCACTATGTGTGCAACCCAC-ATAATTCATCATGAGTTGATGAATTACCGTAT
1 AGGCACTATGTGTGCAACCCACGA-GATTCATCATGAGTTGATGAATAACCGTAC
6045026 AGGCACTACT-TGTGCA
1 AGGCACTA-TGTGTGCA
6045042 TTCTAATAAA
Statistics
Matches: 258, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.00
54 146 0.57
55 109 0.42
56 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (54 bp):
AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAC
Found at i:6044892 original size:109 final size:109
Alignment explanation
Indices: 6044699--6045041 Score: 482
Period size: 109 Copynumber: 3.1 Consensus size: 109
6044689 TGTGTACTAA
* * *
6044699 AGGCACTATGTGTGCAAATCCAC-AGAATTTATCATGAGTTTATGAATAACCGTACA-AGCACTA
1 AGGCACTATGTGTGC-AACCCACGAG-ATTCATCATGAGTTGATGAATAACCGTACAGA-CACTA
* *
6044762 TGTGTACAAACCCACGAGATTCATCATGTGTTGATGAATAACCGTAT
63 TGTGTGCAAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAT
* *
6044809 AGGCACTATGTGTGCAACCCACGAGATTCATCACGAGTTGATGAATAAGCGTACAGACACTATGT
1 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTACAGACACTATGT
* *
6044874 GTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTAC
66 GTGCAAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAT
*
6044918 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATAAATAACCGTACATG-CACTATG
1 AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTACA-GACACTATG
* *
6044982 TGTGC-AACCCAC-ATAATTCATCATGAGTTGATGAATTACCGTAT
65 TGTGCAAACCCACGA-GATTCATCATGAGTTGATGAATAACCGTAT
6045026 AGGCACTACT-TGTGCA
1 AGGCACTA-TGTGTGCA
6045042 TTCTAATAAA
Statistics
Matches: 212, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
108 48 0.23
109 145 0.68
110 19 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (109 bp):
AGGCACTATGTGTGCAACCCACGAGATTCATCATGAGTTGATGAATAACCGTACAGACACTATGT
GTGCAAACCCACGAGATTCATCATGAGTTGATGAATAACCGTAT
Found at i:6045324 original size:35 final size:36
Alignment explanation
Indices: 6045269--6045343 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 36
6045259 AGATCATCAA
6045269 ACATCAAGTCAGAGTCGCCTCATCAGTAACAATAT-
1 ACATCAAGTCAGAGTCGCCTCATCAGTAACAATATG
* * *
6045304 ACATTAAGTCAGAGTTGCCTCATCAGTAACAGTATG
1 ACATCAAGTCAGAGTCGCCTCATCAGTAACAATATG
6045340 ACAT
1 ACAT
6045344 ACCTGTCTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (36 bp):
ACATCAAGTCAGAGTCGCCTCATCAGTAACAATATG
Found at i:6051347 original size:20 final size:21
Alignment explanation
Indices: 6051281--6051351 Score: 85
Period size: 22 Copynumber: 3.5 Consensus size: 21
6051271 TGCAAAAATG
* *
6051281 GTATCGATACTATAGCAT--A
1 GTATCGATACCATAGTATGGA
6051300 GTATCGATACCATAGTATGGTA
1 GTATCGATACCATAGTATGG-A
*
6051322 GTATCGATACCATGGTATGG-
1 GTATCGATACCATAGTATGGA
6051342 GTATCGATAC
1 GTATCGATAC
6051352 TGAGGAGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.35
20 10 0.22
22 20 0.43
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
GTATCGATACCATAGTATGGA
Found at i:6051739 original size:55 final size:55
Alignment explanation
Indices: 6051673--6051855 Score: 264
Period size: 55 Copynumber: 3.4 Consensus size: 55
6051663 CTATGTGTAC
* *
6051673 TACAGGCACTATGTGTGGAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGAGATTCATCATGAGTTGATGAATAACCG
* *
6051728 TACAGGCACTATGAGTGCAAACCCAC-AGGATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGA-GATTCATCATGAGTTGATGAATAACCG
* *
6051783 TACAGGCACTATGTGTGCAACT-CACGGGATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAAATCCACGAGATTCATCATGAGTTGATGAATAACCG
* *
6051837 TA-AGGCAATATGTATGCAA
1 TACAGGCACTATGTGTGCAA
6051856 GGTTATAAGG
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
53 15 0.13
54 33 0.28
55 68 0.59
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (55 bp):
TACAGGCACTATGTGTGCAAATCCACGAGATTCATCATGAGTTGATGAATAACCG
Found at i:6058782 original size:29 final size:29
Alignment explanation
Indices: 6058742--6058926 Score: 352
Period size: 29 Copynumber: 6.4 Consensus size: 29
6058732 TAAAGGACTA
6058742 AAATGCGAACATGGAATCTTGGCAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
6058771 AAATGCGAACATGGAATCTTGGCAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
6058800 AAATGCGAACATGGAATCTTGGCAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
6058829 AAATGCGAACATGGAATCTTGGCAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
* *
6058858 AAATACGAACATGGAATCTTGACAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
6058887 AAATGCGAACATGGAATCTTGGCAGATCT
1 AAATGCGAACATGGAATCTTGGCAGATCT
6058916 AAATGCGAACA
1 AAATGCGAACA
6058927 ACAGAAACAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (29 bp):
AAATGCGAACATGGAATCTTGGCAGATCT
Found at i:6068869 original size:42 final size:42
Alignment explanation
Indices: 6068817--6069066 Score: 387
Period size: 42 Copynumber: 5.9 Consensus size: 42
6068807 GAGCCTAGGA
*
6068817 AAACTGTAAGGTTTATCCTT-GCACACAGCAAAGGGACCTGGG
1 AAACTGTAAGGCTTA-CCTTCGCACACAGCAAAGGGACCTGGG
*
6068859 AAACTGTAAGGCTTACCTTCGAACACAGCAAAGGGACCTGGG
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
*
6068901 AAACTGTAAGGCTTACCCTT-GCACACAGCAAAAGGGACCTGGT
1 AAACTGTAAGGCTTA-CCTTCGCACACAGC-AAAGGGACCTGGG
* * *
6068944 AAACTGTAAAGCTTACCTTCGCACACAGCAAAGGAACCTGGT
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
* *
6068986 AAACTGTAAGGCTTACCTTCCCACACAGCAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
6069028 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCT
1 AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCT
6069067 TCCTTCAATT
Statistics
Matches: 193, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
41 4 0.02
42 150 0.78
43 39 0.20
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGG
Found at i:6068876 original size:21 final size:21
Alignment explanation
Indices: 6068852--6068917 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
6068842 CAGCAAAGGG
6068852 ACCTGGGAAACTGTAAGGCTT
1 ACCTGGGAAACTGTAAGGCTT
** * * *
6068873 ACCTTCGAACACAGCAAAGG--G
1 ACCTGGGAA-ACTG-TAAGGCTT
6068894 ACCTGGGAAACTGTAAGGCTT
1 ACCTGGGAAACTGTAAGGCTT
6068915 ACC
1 ACC
6068918 CTTGCACACA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 17 0.55
22 3 0.10
23 4 0.13
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (21 bp):
ACCTGGGAAACTGTAAGGCTT
Found at i:6069019 original size:127 final size:126
Alignment explanation
Indices: 6068817--6069066 Score: 396
Period size: 127 Copynumber: 2.0 Consensus size: 126
6068807 GAGCCTAGGA
* * * *
6068817 AAACTGTAAGGTTTATCCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTCGAA
1 AAACTGTAAAGCTTATCCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCCAA
*
6068882 CACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCCTT-GCACACAGCAAAAGGGACCTGGT
66 CACAGCAAAGGAACCTGGGAAACTGTAAGGCTTA-CCTTCGCACACAGC-AAAGGGACCTGGT
* *
6068944 AAACTGTAAAGCTTA-CCTTCGCACACAGCAAAGGAACCTGGTAAACTGTAAGGCTTACCTTCCC
1 AAACTGTAAAGCTTATCCTT-GCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCCA
6069008 ACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCT
65 ACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCT
6069067 TCCTTCAATT
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
126 18 0.16
127 96 0.84
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (126 bp):
AAACTGTAAAGCTTATCCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCCAA
CACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGT
Found at i:6070050 original size:29 final size:29
Alignment explanation
Indices: 6069973--6070159 Score: 115
Period size: 29 Copynumber: 6.3 Consensus size: 29
6069963 CATTTTACAC
** * * **
6069973 AAATAGCACCCTTTTTAAAATAATTAACA
1 AAATAGCACCAATTTTGAATTAATTCCCA
* *
6070002 AAATAGCACC-CTTTACGAATTAATTCCCA
1 AAATAGCACCAATTT-TGAATTAATTCCCA
*
6070031 AAATAACACCAATTTTGAATTAATTCCCA
1 AAATAGCACCAATTTTGAATTAATTCCCA
* **** ** *
6070060 AAATATCATTTTTTTTTTGAAAAAAATTACCA
1 AAATAGCA--CCAATTTTG-AATTAATTCCCA
*
6070092 AAATAGCACCCATTTTGAATTAATTCCCA
1 AAATAGCACCAATTTTGAATTAATTCCCA
** * * *
6070121 AAATAGCACCAAAATCGAATAAATTCTCA
1 AAATAGCACCAATTTTGAATTAATTCCCA
*
6070150 GAATAGCACC
1 AAATAGCACC
6070160 GGTCAACGGG
Statistics
Matches: 121, Mismatches: 32, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
28 3 0.02
29 89 0.74
30 8 0.07
31 5 0.04
32 16 0.13
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATAGCACCAATTTTGAATTAATTCCCA
Found at i:6070189 original size:18 final size:18
Alignment explanation
Indices: 6070166--6070225 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
6070156 CACCGGTCAA
*
6070166 CGGGTCGTGTCAACGAG-T
1 CGGGTCGGGTCAACG-GTT
6070184 CGGGTCGGGTCAACGGTT
1 CGGGTCGGGTCAACGGTT
6070202 CGGGTCGGGTCAACGGTT
1 CGGGTCGGGTCAACGGTT
6070220 CGGGTC
1 CGGGTC
6070226 AACGGGTCGG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 1 0.03
18 39 0.98
ACGTcount: A:0.12, C:0.23, G:0.43, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGTT
Found at i:6076423 original size:42 final size:42
Alignment explanation
Indices: 6076332--6076621 Score: 399
Period size: 42 Copynumber: 6.8 Consensus size: 42
6076322 CTATACACCA
* * *
6076332 GTAAGGCTTAACCTGT-GCACAAAGCAGA-GGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCT-TCGCACACAGCAAAGGGA-CCT-GGGAAACT
*
6076376 GTAAGGTTTATCCTT-GCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTA-CCTTCGCACACAGCAAAGGGACCTGGGAAACT
*
6076418 GTAAGGCTTACCTTCGAACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
*
6076460 GTAAGGCTTACCCTT-GCACACAGCAAAAGGGACCTGGTAAACT
1 GTAAGGCTTA-CCTTCGCACACAGC-AAAGGGACCTGGGAAACT
* * *
6076503 GTAAAGCTTACCTTCGCACACAGCAAAGGAACCTGGTAAACT
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
*
6076545 GTAAGGCTTACCTTCGCACACAGCAAAGGAACCTGGGAAACT
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
6076587 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
6076622 ATAATACTTC
Statistics
Matches: 227, Mismatches: 13, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
41 4 0.02
42 155 0.68
43 54 0.24
44 14 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (42 bp):
GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
Found at i:6076430 original size:21 final size:21
Alignment explanation
Indices: 6076406--6076471 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
6076396 CAGCAAAGGG
6076406 ACCTGGGAAACTGTAAGGCTT
1 ACCTGGGAAACTGTAAGGCTT
** * * *
6076427 ACCTTCGAACACAGCAAAGG--G
1 ACCTGGGAA-ACTG-TAAGGCTT
6076448 ACCTGGGAAACTGTAAGGCTT
1 ACCTGGGAAACTGTAAGGCTT
6076469 ACC
1 ACC
6076472 CTTGCACACA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 17 0.55
22 3 0.10
23 4 0.13
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (21 bp):
ACCTGGGAAACTGTAAGGCTT
Found at i:6076475 original size:84 final size:83
Alignment explanation
Indices: 6076332--6076621 Score: 404
Period size: 85 Copynumber: 3.4 Consensus size: 83
6076322 CTATACACCA
* * * *
6076332 GTAAGGCTTAACCTGT-GCACAAAGCAGA-GGAGCCTAGGAAAACTGTAAGGTTTATCCTTGCAC
1 GTAAGGCTT-ACCT-TCGCACACAGCAAAGGGA-CCT-GGGAAACTGTAAGGCTTA-CCTTGCAC
6076395 ACAGCAAAGGGACCTGGGAAACT
61 ACAGCAAAGGGACCTGGGAAACT
*
6076418 GTAAGGCTTACCTTCGAACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCCTTGCACACAG
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTA-CCTTGCACACAG
*
6076483 CAAAAGGGACCTGGTAAACT
65 C-AAAGGGACCTGGGAAACT
* * *
6076503 GTAAAGCTTACCTTCGCACACAGCAAAGGAACCTGGTAAACTGTAAGGCTTACCTTCGCACACAG
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTT-GCACACAG
*
6076568 CAAAGGAACCTGGGAAACT
65 CAAAGGGACCTGGGAAACT
6076587 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
6076622 ATAATACTTC
Statistics
Matches: 185, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
84 83 0.45
85 90 0.49
86 12 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (83 bp):
GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTGCACACAGC
AAAGGGACCTGGGAAACT
Found at i:6076573 original size:127 final size:125
Alignment explanation
Indices: 6076332--6076621 Score: 413
Period size: 127 Copynumber: 2.3 Consensus size: 125
6076322 CTATACACCA
* * * *
6076332 GTAAGGCTTAACCTGTGCACAAAGCAGA-GGAGCCTAGGAAAACTGTAAGGTTTATCCTTGCACA
1 GTAAGGCTT-ACCT-TGCACACAGCAAAGGGA-CCT-GGAAAACTGTAAAGCTTATCCTTGCACA
* *
6076396 CAGCAAAGGGACCTGGGAAACTGTAAGGCTTACCTTCGAACACAGCAAAGGGACCTGGGAAACT
62 CAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGAACACAGCAAAGGAACCTGGGAAACT
*
6076460 GTAAGGCTTACCCTTGCACACAGCAAAAGGGACCTGGTAAACTGTAAAGCTTA-CCTTCGCACAC
1 GTAAGGCTTA-CCTTGCACACAGC-AAAGGGACCTGGAAAACTGTAAAGCTTATCCTT-GCACAC
* *
6076524 AGCAAAGGAACCTGGTAAACTGTAAGGCTTACCTTCGCACACAGCAAAGGAACCTGGGAAACT
63 AGCAAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGAACACAGCAAAGGAACCTGGGAAACT
6076587 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
1 GTAAGGCTTACCTT-GCACACAGCAAAGGGACCTG
6076622 ATAATACTTC
Statistics
Matches: 148, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
126 19 0.13
127 109 0.74
128 17 0.11
129 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (125 bp):
GTAAGGCTTACCTTGCACACAGCAAAGGGACCTGGAAAACTGTAAAGCTTATCCTTGCACACAGC
AAAGGAACCTGGGAAACTGTAAGGCTTACCTTCGAACACAGCAAAGGAACCTGGGAAACT
Found at i:6077608 original size:29 final size:28
Alignment explanation
Indices: 6077557--6077709 Score: 94
Period size: 29 Copynumber: 5.4 Consensus size: 28
6077547 CATTTTACAC
* * *
6077557 AAATAACACCTTTTTAAAATAATTACCA
1 AAATAGCACCTTTTTGAATTAATTACCA
*
6077585 AAATAGCACCCTTTTTGAATTAATTCCCA
1 AAATAGCA-CCTTTTTGAATTAATTACCA
* *
6077614 AAAT-GACACCAATTTCGAATTAATT-CCTA
1 AAATAG-CACC-TTTTTGAATTAATTACC-A
* * ** * **
6077643 GAATATCATTTTTTTCAAAAAAATTACCA
1 AAATAGCACCTTTTT-GAATTAATTACCA
* * *
6077672 AAATAGCACCATTTCGAATTAATTCCCA
1 AAATAGCACCTTTTTGAATTAATTACCA
*
6077700 AAATAACACC
1 AAATAGCACC
6077710 AAAATCGAAT
Statistics
Matches: 92, Mismatches: 26, Indels: 14
0.70 0.20 0.11
Matches are distributed among these distances:
28 33 0.36
29 57 0.62
30 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (28 bp):
AAATAGCACCTTTTTGAATTAATTACCA
Found at i:6077718 original size:86 final size:86
Alignment explanation
Indices: 6077567--6077733 Score: 255
Period size: 86 Copynumber: 1.9 Consensus size: 86
6077557 AAATAACACC
* * * * **
6077567 TTTTTAAAATAATTACCAAAATAGCACCCTTTTTGAATTAATTCCCAAAATGACACCAATTTCGA
1 TTTTTAAAAAAATTACCAAAATAGCACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCGA
*
6077632 ATTAATTCCTAGAATATCATT
66 ATAAATTCCTAGAATATCATT
6077653 TTTTTCAAAAAAATTACCAAAATAGCA-CCATTTCGAATTAATTCCCAAAATAACACCAAAATCG
1 TTTTT-AAAAAAATTACCAAAATAGCACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCG
6077717 AATAAATTCCTAGAATA
65 AATAAATTCCTAGAATA
6077734 ACACCTGTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 53 0.73
87 20 0.27
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (86 bp):
TTTTTAAAAAAATTACCAAAATAGCACCCATTTCGAATTAATTCCCAAAATAACACCAAAATCGA
ATAAATTCCTAGAATATCATT
Found at i:6077771 original size:13 final size:13
Alignment explanation
Indices: 6077753--6077813 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
6077743 AACGGTCAAC
6077753 GGTCAACGGGTCG
1 GGTCAACGGGTCG
6077766 GGTCAACGGTTCGGGTCG
1 GGTCAA-----CGGGTCG
*
6077784 GGTCAACGGTTCG
1 GGTCAACGGGTCG
6077797 GGTCAACGGGTCG
1 GGTCAACGGGTCG
6077810 GGTC
1 GGTC
6077814 GTGACCGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 28 0.68
18 13 0.32
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:6077782 original size:18 final size:18
Alignment explanation
Indices: 6077759--6077800 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
6077749 CAACGGTCAA
6077759 CGGGTCGGGTCAACGGTT
1 CGGGTCGGGTCAACGGTT
6077777 CGGGTCGGGTCAACGGTT
1 CGGGTCGGGTCAACGGTT
6077795 CGGGTC
1 CGGGTC
6077801 AACGGGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.24, G:0.45, T:0.21
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGTT
Found at i:6077791 original size:31 final size:31
Alignment explanation
Indices: 6077753--6077814 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
6077743 AACGGTCAAC
*
6077753 GGTCAACGGGTCGGGTCAACGGTTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
6077784 GGTCAACGGTTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
6077815 TGACCGGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:6081563 original size:36 final size:36
Alignment explanation
Indices: 6081507--6081641 Score: 182
Period size: 36 Copynumber: 3.8 Consensus size: 36
6081497 AGATGAACAA
* *
6081507 TTGAGTCGAAAGTGCTGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
* *
6081543 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
* * *
6081578 CTTGAATCGAAATTGTCTATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
*
6081615 TTGAATCGAAAGTGCTGATGCTTCCTT
1 TTGAATCGAAAGTGCCGATGCTTCCTT
6081642 TCGTACTTCT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
35 1 0.01
36 82 0.98
37 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACT
Found at i:6081629 original size:72 final size:72
Alignment explanation
Indices: 6081507--6081652 Score: 240
Period size: 72 Copynumber: 2.0 Consensus size: 72
6081497 AGATGAACAA
*
6081507 TTGAGTCGAAAGTGCTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
*
6081572 GTTCTTC
66 GTACTTC
* *
6081579 TTGAATCGAAATTGTCT-ATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCTGATGCTTCCTTT
1 TTGAATCGAAAGTG-CTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTT
6081643 CGTACTTC
65 CGTACTTC
6081651 TT
1 TT
6081653 ATTCACCTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 67 0.97
73 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (72 bp):
TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTACTTC
Found at i:6084372 original size:45 final size:45
Alignment explanation
Indices: 6084285--6084368 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 45
6084275 GGAATATATA
6084285 AAAAATGAAGACAATGGAATAAGATAAATAAATAAATAAAATAGG
1 AAAAATGAAGACAATGGAATAAGATAAATAAATAAATAAAATAGG
*
6084330 AAAAATGAA-TCAAT-GAATAAAGA-AAAT-AA-AAATAAAATA
1 AAAAATGAAGACAATGGAAT-AAGATAAATAAATAAATAAAATA
6084369 AATAAACAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 10 0.27
42 2 0.05
43 8 0.22
44 8 0.22
45 9 0.24
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (45 bp):
AAAAATGAAGACAATGGAATAAGATAAATAAATAAATAAAATAGG
Found at i:6084507 original size:23 final size:22
Alignment explanation
Indices: 6084467--6084514 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
6084457 AGAAATAACG
* * *
6084467 TAATATATATATATATATAATA
1 TAATATACATATAAATATAAAA
6084489 TAATATAACATATAAATATAAAA
1 TAATAT-ACATATAAATATAAAA
6084512 TAA
1 TAA
6084515 GTAAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATATACATATAAATATAAAA
Found at i:6084527 original size:16 final size:15
Alignment explanation
Indices: 6084501--6084530 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6084491 ATATAACATA
6084501 TAAATATAAAATAAG
1 TAAATATAAAATAAG
6084516 TAAATAATAAAATAA
1 TAAAT-ATAAAATAA
6084531 TAATGATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
TAAATATAAAATAAG
Found at i:6086470 original size:106 final size:106
Alignment explanation
Indices: 6085941--6086471 Score: 839
Period size: 106 Copynumber: 5.0 Consensus size: 106
6085931 GTATTGTTCA
* * * * * *
6085941 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTGGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
6086006 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
*
6086047 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
6086112 CCAGTCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* *
6086153 GAGTCTAAT-TCCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATAT-CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
6086217 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTTTGTTGTCTT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * *
6086259 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
6086324 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
* * *
6086365 GAGTCCAATATCCTTCGCTGCGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
6086430 CCAGCCATCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
6086471 G
1 G
6086472 GGTGGCGCGA
Statistics
Matches: 395, Mismatches: 28, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
105 1 0.00
106 393 0.99
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
Found at i:6087132 original size:37 final size:37
Alignment explanation
Indices: 6087050--6087134 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
6087040 GTTTCATGAG
* * * * **
6087050 AAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
6087087 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
*
6087123 GAAATTGTCTCA
1 -AAACTGTCTCA
6087135 CGGGGAGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
Found at i:6087339 original size:36 final size:36
Alignment explanation
Indices: 6087287--6087357 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
6087277 ATTTCAAAAG
* *
6087287 GTTTTTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 GTTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAA
6087323 GTTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAA
1 GTTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAA
6087358 TGGTGAGCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (36 bp):
GTTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAA
Found at i:6087870 original size:18 final size:18
Alignment explanation
Indices: 6087843--6087878 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6087833 TGTTGAATCC
*
6087843 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
*
6087861 CCAAAAATGCCCTAATAT
1 CCAAAAATGCCCCAATAT
6087879 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:6092374 original size:6 final size:6
Alignment explanation
Indices: 6092363--6092414 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
6092353 AACAGTTAGT
* *
6092363 AAAATA AAAAT- -AAATA GAAATA AAAATAA ATAAATA AAAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A A-AAATA AAAATA AAAATA
6092411 AAAA
1 AAAA
6092415 AATTGCAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 4 0.10
6 27 0.69
7 4 0.10
8 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:6092383 original size:10 final size:10
Alignment explanation
Indices: 6092364--6092405 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
6092354 ACAGTTAGTA
6092364 AAATAAAAAT
1 AAATAAAAAT
*
6092374 AAATAGAAAT
1 AAATAAAAAT
6092384 AAA-AATAAAT
1 AAATAA-AAAT
6092394 AAATAAAAAT
1 AAATAAAAAT
6092404 AA
1 AA
6092406 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.89
11 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:6092395 original size:20 final size:20
Alignment explanation
Indices: 6092370--6092417 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6092360 AGTAAAATAA
*
6092370 AAATAAATAGAAATAAAAAT
1 AAATAAATAAAAATAAAAAT
*
6092390 AAATAAATAAAAATAATAAT
1 AAATAAATAAAAATAAAAAT
*
6092410 AAAAAAAT
1 AAATAAAT
6092418 TGCAAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAAATAAAAAT
Found at i:6092415 original size:13 final size:14
Alignment explanation
Indices: 6092364--6092414 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 14
6092354 ACAGTTAGTA
6092364 AAATAAAAATAAAT
1 AAATAAAAATAAAT
6092378 AGAAATAAAAATAAAT
1 --AAATAAAAATAAAT
6092394 AAATAAAAAT-AAT
1 AAATAAAAATAAAT
6092407 -AATAAAAA
1 AAATAAAAA
6092415 AATTGCAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
14 10 0.29
16 14 0.40
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:6093510 original size:9 final size:9
Alignment explanation
Indices: 6093486--6093558 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
6093476 AAGACAATGG
*
6093486 AATAAGATA
1 AATAAAATA
6093495 AAT-AAATA
1 AATAAAATA
6093503 AATAAAATA
1 AATAAAATA
*
6093512 GAA-AAAATG
1 -AATAAAATA
6093521 AATCAATGAATA
1 AAT-AA--AATA
*
6093533 AAGAAAATAAA
1 AATAAAAT--A
6093544 AATAAAATA
1 AATAAAATA
6093553 AATAAA
1 AATAAA
6093559 CAAAACGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 9 0.18
9 23 0.45
10 4 0.08
11 10 0.20
12 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.19
Consensus pattern (9 bp):
AATAAAATA
Found at i:6094597 original size:78 final size:78
Alignment explanation
Indices: 6094465--6094612 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 78
6094455 GAAACTGCAA
* * * ** * *
6094465 TGGTCTTTTTCTGCTAATATATGTCTGATTAAACATTCTAGGTTGTTTGGCATTTAACGCAAATG
1 TGGTCTTGTTCTACAAATATATGTCTGACAAAACATTCTAGGTTGTTTGACATTTAACACAAATG
6094530 TGATTCAATTCAG
66 TGATTCAATTCAG
*
6094543 TGGTCTTGTTCTACAAATATCTGTCTGACAAAACA-TCTTAGGTT-TTTAGACATTTAACACAAA
1 TGGTCTTGTTCTACAAATATATGTCTGACAAAACATTC-TAGGTTGTTT-GACATTTAACACAAA
6094606 TGTGATT
64 TGTGATT
6094613 AAAATGGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 5 0.08
78 55 0.92
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (78 bp):
TGGTCTTGTTCTACAAATATATGTCTGACAAAACATTCTAGGTTGTTTGACATTTAACACAAATG
TGATTCAATTCAG
Found at i:6096771 original size:168 final size:167
Alignment explanation
Indices: 6096473--6097221 Score: 812
Period size: 168 Copynumber: 4.5 Consensus size: 167
6096463 CTATTCCAGT
* **
6096473 ATTGGAAATGTTCTTTTTTTAATAGTCTAAGG-TGATTACAATACAGTATCTATTCAGAATCTTT
1 ATTGGAAAT-TTTTTTTTTTAATAGTCT-AGGATGATTACAATGTAGTATCTATTCAGAATCTTT
* *
6096537 CTTAGTTATTGACAGCACATACACATTCGTCAACTACTTGAATCCAGAAA-CTCTAGGAAAAATG
64 CTTAGTCATTGACAGCACATACACATTCGTCAACTACTTGAATCCA-AAACCTCTAGGGAAAATG
* * *
6096601 ACACTCCCTTTAATCATTGAGGCCACATGATGGGTTCAAC
128 ACACTCCCTTTAATCACTGAGGCCACTTGATGAGTTCAAC
* * * *
6096641 ATTGGAAAGTTTGTTTTTTTTAATAATCTAGGATGGTTACAATGTAGTATC-GTTCAGAATTTTT
1 ATTGGAAA-TTT-TTTTTTTTAATAGTCTAGGATGATTACAATGTAGTATCTATTCAGAATCTTT
* * * *
6096705 CTTCGTCATTGACAGCACATACACATTCGTCAGCTACTTGAATCCAAAACCTATAGGGAGAATGA
64 CTTAGTCATTGACAGCACATACACATTCGTCAACTACTTGAATCCAAAACCTCTAGGGAAAATGA
* * * *
6096770 CAATCCTTTTAATCAGTGAAGCCACTTGATGAGTTCAAC
129 CACTCCCTTTAATCACTGAGGCCACTTGATGAGTTCAAC
* * * * *
6096809 ATTAGAAA-TATTTTTTTTAATAGTCTAGGATGATTATAATGTTGTATCTATTCAGAATCTTTAT
1 ATTGGAAATTTTTTTTTTTAATAGTCTAGGATGATTACAATGTAGTATCTATTCAGAATCTTTCT
* * *
6096873 TAGTCATTGACAATGCAC--ACACATTCGTCAACTTCTTGTATCCAATACCTCTAGGGAAAATGA
66 TAGTCATTGAC-A-GCACATACACATTCGTCAACTACTTGAATCCAAAACCTCTAGGGAAAATGA
* *** * * *
6096936 CATTTATTTTAATCACTGAGGTCACTTGATGGGTTAAAC
129 CACTCCCTTTAATCACTGAGGCCACTTGATGAGTTCAAC
* * * *
6096975 ATTGGAAATGTTTATTTTTTTAATAGTCTAGGGTGATTACAATATAGTATATGTTCAGAATCTTT
1 ATTGGAAAT-TTT-TTTTTTTAATAGTCTAGGATGATTACAATGTAGTATCTATTCAGAATCTTT
* * * ** ** * * *
6097040 CTTAGTCATTGAAAGCACATACACATTCGTTAGCTGTTTGAATCCATGACCTTTAGGGAGAATAA
64 CTTAGTCATTGACAGCACATACACATTCGTCAACTACTTGAATCCAAAACCTCTAGGGAAAATGA
* * * * *
6097105 TACTCTCTTTAACCACTGAGGTCACTTGATGAGTTCAAT
129 CACTCCCTTTAATCACTGAGGCCACTTGATGAGTTCAAC
* * *
6097144 ATTTGAAATGTTTTTTTTTCAATAGTCT-TGAGTGATTACAATGT-GTTATCTATTCAGAATCTT
1 ATTGGAAAT-TTTTTTTTTTAATAGTCTAGGA-TGATTACAATGTAG-TATCTATTCAGAATCTT
*
6097207 TCTTTGTCATTGACA
63 TCTTAGTCATTGACA
6097222 ATGTATACAC
Statistics
Matches: 486, Mismatches: 81, Indels: 28
0.82 0.14 0.05
Matches are distributed among these distances:
165 34 0.07
166 100 0.21
167 10 0.02
168 179 0.37
169 163 0.34
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (167 bp):
ATTGGAAATTTTTTTTTTTAATAGTCTAGGATGATTACAATGTAGTATCTATTCAGAATCTTTCT
TAGTCATTGACAGCACATACACATTCGTCAACTACTTGAATCCAAAACCTCTAGGGAAAATGACA
CTCCCTTTAATCACTGAGGCCACTTGATGAGTTCAAC
Found at i:6097160 original size:334 final size:334
Alignment explanation
Indices: 6096486--6097243 Score: 922
Period size: 334 Copynumber: 2.3 Consensus size: 334
6096476 GGAAATGTTC
** *
6096486 TTTTTTTAATAGTCTAAGG-TGATTACAATACAGTATCTATTCAGAATCTTTCTTAGTTATTGAC
1 TTTTTTTAATAGTCT-AGGATGATTACAAT-GTGTATCTATTCAGAATCTTTCTTAGTCATTGAC
*
6096550 -A-GCACATACACATTCGTCAACTACTTGAATCCAGAAACTCTAGGAAAAATGACACTCCCTTTA
64 AATGCAC--ACACATTCGTCAACTACTTGAATCCAGAAACTCTAGGAAAAATGACACTCACTTTA
* * * *
6096613 ATCATTGAGGCCACATGATGGGTTCAACATTGGAAAGTTTGTTTTTTTTAATAATCTAGGATGGT
127 ATCACTGAGGCCACATGATGGGTTAAACATTGGAAAGTTTGATTTTTTTAATAATCTAGGATGAT
* * * *
6096678 TACAATGTAGTATCGTTCAGAATTTTTCTTCGTCATTGACAGCACATACACATTCGTCAGCTACT
192 TACAATATAGTATCGTTCAGAATCTTTCTTAGTCATTGAAAGCACATACACATTCGTCAGCTACT
* * *
6096743 TGAATCCAAAACCTATAGGGAGAATGACAATCCTTTTAATCAGTGAAGCCACTTGATGAGTTCAA
257 TGAATCCAAAACCTATAGGGAGAATAACAATCCTTTTAACCACTGAAGCCACTTGATGAGTTCAA
6096808 CATTAGAAATA-T
322 CATTAGAAATAGT
* *
6096820 TTTTTTTAATAGTCTAGGATGATTATAATGTTGTATCTATTCAGAATCTTTATTAGTCATTGACA
1 TTTTTTTAATAGTCTAGGATGATTACAATG-TGTATCTATTCAGAATCTTTCTTAGTCATTGACA
* * * * * * *
6096885 ATGCACACACATTCGTCAACTTCTTGTATCCA-ATACCTCTAGGGAAAATGACATTTATTTTAAT
65 ATGCACACACATTCGTCAACTACTTGAATCCAGA-AACTCTAGGAAAAATGACACTCACTTTAAT
* * * *
6096949 CACTGAGGTCACTTGATGGGTTAAACATTGGAAATGTTT-ATTTTTTTAATAGTCTAGGGTGATT
129 CACTGAGGCCACATGATGGGTTAAACATTGGAAA-GTTTGATTTTTTTAATAATCTAGGATGATT
* * **
6097013 ACAATATAGTATATGTTCAGAATCTTTCTTAGTCATTGAAAGCACATACACATTCGTTAGCTGTT
193 ACAATATAGTAT-CGTTCAGAATCTTTCTTAGTCATTGAAAGCACATACACATTCGTCAGCTACT
** * * * * *
6097078 TGAATCCATGACCTTTAGGGAGAATAATACT-CTCTTTAACCACTGAGGTCACTTGATGAGTTCA
257 TGAATCCAAAACCTATAGGGAGAATAACAATCCT-TTTAACCACTGAAGCCACTTGATGAGTTCA
* *
6097142 ATATTTGAAAT-GTT
321 ACATTAGAAATAG-T
* *
6097156 TTTTTTTCAATAGTCT-TGAGTGATTACAATGTGTTATCTATTCAGAATCTTTCTTTGTCATTGA
1 TTTTTTT-AATAGTCTAGGA-TGATTACAATGTG-TATCTATTCAGAATCTTTCTTAGTCATTGA
* * *
6097220 CAATGTATACACATTTGTCAACTA
63 CAATGCACACACATTCGTCAACTA
6097244 TTTAAACTTA
Statistics
Matches: 362, Mismatches: 49, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
333 4 0.01
334 166 0.46
335 110 0.30
336 16 0.04
337 66 0.18
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (334 bp):
TTTTTTTAATAGTCTAGGATGATTACAATGTGTATCTATTCAGAATCTTTCTTAGTCATTGACAA
TGCACACACATTCGTCAACTACTTGAATCCAGAAACTCTAGGAAAAATGACACTCACTTTAATCA
CTGAGGCCACATGATGGGTTAAACATTGGAAAGTTTGATTTTTTTAATAATCTAGGATGATTACA
ATATAGTATCGTTCAGAATCTTTCTTAGTCATTGAAAGCACATACACATTCGTCAGCTACTTGAA
TCCAAAACCTATAGGGAGAATAACAATCCTTTTAACCACTGAAGCCACTTGATGAGTTCAACATT
AGAAATAGT
Found at i:6098728 original size:18 final size:19
Alignment explanation
Indices: 6098705--6098741 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6098695 ATTGAAATAA
6098705 AGATTTTTCAAAG-TTTTG
1 AGATTTTTCAAAGATTTTG
*
6098723 AGATTTTTTAAAGATTTTG
1 AGATTTTTCAAAGATTTTG
6098742 GAAATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (19 bp):
AGATTTTTCAAAGATTTTG
Found at i:6098750 original size:29 final size:29
Alignment explanation
Indices: 6098702--6098765 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
6098692 GGGATTGAAA
*
6098702 TAAAGATTTTTCAAAGTTTTGAGATTTTT
1 TAAAGATTTTGCAAAGTTTTGAGATTTTT
* * * *
6098731 TAAAGATTTTGGAAATTTTTGGGGTTTTT
1 TAAAGATTTTGCAAAGTTTTGAGATTTTT
*
6098760 AAAAGA
1 TAAAGA
6098766 AATTGTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (29 bp):
TAAAGATTTTGCAAAGTTTTGAGATTTTT
Found at i:6099672 original size:20 final size:20
Alignment explanation
Indices: 6099614--6099672 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
6099604 TGAGAAAACC
*
6099614 GAAATGTAAAATATAATTTTT
1 GAAATTTAAAATA-AATTTTT
** *
6099635 GAAATTATATGATTAATTTTT
1 GAAATT-TAAAATAAATTTTT
6099656 GAAATTTAAAATAAATT
1 GAAATTTAAAATAAATT
6099673 GTTAGTTATG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.27
21 18 0.60
22 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
GAAATTTAAAATAAATTTTT
Found at i:6099731 original size:20 final size:21
Alignment explanation
Indices: 6099706--6099745 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6099696 TAAATTTTCT
*
6099706 TTCTA-TATTAATTATAATTC
1 TTCTATTATAAATTATAATTC
*
6099726 TTCTATTATAAATTTTAATT
1 TTCTATTATAAATTATAATT
6099746 ATAATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTCTATTATAAATTATAATTC
Found at i:6100122 original size:2 final size:2
Alignment explanation
Indices: 6100107--6100140 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
6100097 TAATATAAAC
6100107 TA TA TA T- TA GTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
6100141 CCACTTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6100473 original size:2 final size:2
Alignment explanation
Indices: 6100461--6100509 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
6100451 CCTTGCCACT
6100461 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6100504 TA TA TA
1 TA TA TA
6100510 ATGAATGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6102109 original size:20 final size:20
Alignment explanation
Indices: 6102080--6102123 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6102070 CGACAACGGC
* *
6102080 TGACCTAAAAATATAAAGTT
1 TGACCCAAAAATATAAAGGT
*
6102100 TGACCCAAAAATCTAAAGGT
1 TGACCCAAAAATATAAAGGT
6102120 TGAC
1 TGAC
6102124 TCGAATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (20 bp):
TGACCCAAAAATATAAAGGT
Found at i:6102292 original size:88 final size:88
Alignment explanation
Indices: 6102143--6102316 Score: 251
Period size: 88 Copynumber: 2.0 Consensus size: 88
6102133 AACTAACCTG
*
6102143 AAAATCTAAAGGTTGACCCGAGCCGCAACAAATCGATCCGATATTGACCTGACCCTAAGCCAACT
1 AAAATCTAAAGGTTGACCCGAGCCGAAACAAATCGATCCGATATTGACCTGACCCTAAGCCAACT
** *
6102208 GATTTGATATTAACCTGACCTAA
66 GATCCGATATTAACCCGACCTAA
* ** * *
6102231 AAAATCTAAGGGTTGACTTGAGTCGAAACAAATCGATCCGATATTGA-CTCGACCCTAAGCCAAT
1 AAAATCTAAAGGTTGACCCGAGCCGAAACAAATCGATCCGATATTGACCT-GACCCTAAGCCAAC
6102295 TGATCCGATATTAACCCGACCT
65 TGATCCGATATTAACCCGACCT
6102317 GAAACTAACC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
87 2 0.03
88 74 0.97
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (88 bp):
AAAATCTAAAGGTTGACCCGAGCCGAAACAAATCGATCCGATATTGACCTGACCCTAAGCCAACT
GATCCGATATTAACCCGACCTAA
Found at i:6103376 original size:3 final size:3
Alignment explanation
Indices: 6103368--6103393 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6103358 AAAGTTCTCT
6103368 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
6103394 TCCCCGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:6104270 original size:20 final size:19
Alignment explanation
Indices: 6104226--6104273 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
6104216 TTGTAGAAAG
*
6104226 GTTAATAATAAGTACTTTT
1 GTTAATAATAAGTACTATT
6104245 GATTAATAATAAGTTA-TAATT
1 G-TTAATAATAAG-TACT-ATT
6104266 GTTAATAA
1 GTTAATAA
6104274 ATACACGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 5 0.20
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
GTTAATAATAAGTACTATT
Found at i:6104565 original size:59 final size:59
Alignment explanation
Indices: 6104502--6105031 Score: 735
Period size: 59 Copynumber: 9.0 Consensus size: 59
6104492 GATTACTAAA
* * ** *
6104502 AGGGCACTTCATGTGCTAAAATGTCAAGAAATTCATACTAAGTGTATAAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* *
6104561 AGGGCACTTTGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCTATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* * *
6104620 AGGGCACTTCGTGTACTAACATGAGAA-AAATTCATATTAAGTGTATAAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
*
6104678 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* * *
6104737 GGGGCACTTCGTTTGCTAACATGAGAAGAAATTCATACTAAGTGCATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* *
6104796 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGCATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* * * * *
6104855 AGGGCACTTCATGTGCTAACATCAGATGGAATTCATACTAAGTGTATGAATTTCCGTAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* * * *
6104914 AGGGCGA-TTCATGTGCTAAAATGATAAGAAATTCATACTAAGTGAATGAATTTCCATAT
1 AGGGC-ACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
* ** * *
6104973 AGGGTGA-TTTATGTGCTAGA-ATGATAAGAAATTCATACTAAGTGAATGAATTTCCATAT
1 AGGG-CACTTCGTGTGCTA-ACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
6105032 GGGAAATAAT
Statistics
Matches: 430, Mismatches: 37, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
58 54 0.13
59 374 0.87
60 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (59 bp):
AGGGCACTTCGTGTGCTAACATGAGAAGAAATTCATACTAAGTGTATGAATTTCCATAT
Found at i:6108377 original size:220 final size:215
Alignment explanation
Indices: 6107932--6108517 Score: 678
Period size: 220 Copynumber: 2.7 Consensus size: 215
6107922 CTTATTCATA
*
6107932 TATTGAATAAAAAT-ATTTTTTATTATTTCGGGTTGGGTC--G-GG-TTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTT-GGTCGGGTGGATTTCTAATTCATATATTC
* * * *
6107992 AGGTCGGGCTGGGTCGGGTGAAACTTTATTTTGGTCT-GGTCGGATCGGGTTTTTTAAAGTGTGA
65 AGGT----C-GGGTCGGATGAAACTTTATTTT-GTTTGGGTCGGGTTGGGTTTTTT-AAGTGTGA
*
6108056 TA-TTCG-G-GTCGGGTTCGGGTTTAGGATGAAAAAACCGGACCGACCCGAAAATATATATAATT
123 TATTTGGTGAGTCGGG-TCGGGTTTAGGATGAAAAAACCGGACCGACCCGAAAATATATATAATT
* * *
6108118 CAGGTCAGGTCGGATTAGGTCACTGTTTT
187 CAGGTCAGGTCAGATTAAGTCACTATTTT
6108147 TATTAAATAAAAATAATTTTTTATTATTTCGGGTCTGGTCGGGTTGGATTTCTAATTCATATATT
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGT-TGGTCGGG-TGGATTTCTAATTCATATATT
*
6108212 CAGGTCGGGTCGGATGAAACTTTAATTTGTTTGGGTCGGGTTGGGTTTTTTAAGTGTGATATTTA
64 CAGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTTGGGTTTTTTAAGTGTGATATTT-
* * *
6108277 GGTTGAGTCGGGTCGGGTTTAGGGTGAAAAAAACCGGACCGCCCCGAAAATATATATAATTCGGG
128 GG-TGAGTCGGGTCGGGTTTAGGATG-AAAAAACCGGACCGACCCGAAAATATATATAATTCAGG
*
6108342 TCGGGTCAGATTAAGTCACTATTTT
191 TCAGGTCAGATTAAGTCACTATTTT
6108367 TATTAAATAAAAATAATTTTTTATTATTTC--G--GGTCGGGTCGGATTTCTAATTCATATATTC
1 TATTAAATAAAAATAATTTTTTATTATTTCGGGTTGGTCGGGT-GGATTTCTAATTCATATA-T-
* *
6108428 GGGTCAGGTCCGATCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGG-TCGGTTTTTTAAGTG
63 ---TCA-G---G-TCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTTGGGTTTTTTAAGTG
*
6108492 TGATATTCGGGTCGAGTCGGGTCGGG
120 TGATATT-TGGT-GAGTCGGGTCGGG
6108518 GTTTTTTAAG
Statistics
Matches: 326, Mismatches: 18, Indels: 45
0.84 0.05 0.12
Matches are distributed among these distances:
214 1 0.00
215 51 0.16
216 62 0.19
217 3 0.01
218 2 0.01
219 14 0.04
220 98 0.30
221 23 0.07
223 1 0.00
224 37 0.11
225 34 0.10
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (215 bp):
TATTAAATAAAAATAATTTTTTATTATTTCGGGTTGGTCGGGTGGATTTCTAATTCATATATTCA
GGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTCGGGTTGGGTTTTTTAAGTGTGATATTTGGT
GAGTCGGGTCGGGTTTAGGATGAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCAGG
TCAGATTAAGTCACTATTTT
Found at i:6108559 original size:38 final size:36
Alignment explanation
Indices: 6108467--6108551 Score: 143
Period size: 38 Copynumber: 2.3 Consensus size: 36
6108457 TTTATTTTGT
6108467 TCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGG
*
6108503 TCGAGTCGGGTCGGGGTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTC--GGTTTTTTAAGTGTGATATTCGGG
6108541 TCGGGTCGGGT
1 TCGGGTCGGGT
6108552 TCAGGTTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 11 0.24
38 34 0.76
ACGTcount: A:0.11, C:0.12, G:0.41, T:0.36
Consensus pattern (36 bp):
TCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGG
Found at i:6109898 original size:16 final size:18
Alignment explanation
Indices: 6109877--6109915 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 18
6109867 TGGGCATTCA
6109877 AAAAATATT-TTTTAA-T
1 AAAAATATTATTTTAATT
6109893 AAAAATATTAATTTTAATT
1 AAAAATATT-ATTTTAATT
6109912 AAAA
1 AAAA
6109916 CAAAAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATTATTTTAATT
Found at i:6110499 original size:131 final size:131
Alignment explanation
Indices: 6110265--6110615 Score: 549
Period size: 131 Copynumber: 2.7 Consensus size: 131
6110255 ATTTCATGAA
** * *
6110265 AGAAAACGATAATATCTAATTATTTGTAATCGAGAATAAATTACCTCTCATGTCTTAAAGCAGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
* * * ** *
6110330 ATTTATTATTCCGATCGAAATGAAGAGATATCATTATTTTGTCTTTAAATTCAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTCGA
6110395 G
131 G
* * *
6110396 AGAAAATGGTAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTAATGCCTTAAAGCAGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
*
6110461 ATTTATTACTCCAATCGAAATGAAGTGATATCACTATTTCATCTTAAAATTCAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTCGA
6110526 G
131 G
* *
6110527 AGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATGACATCTCATGCCTTAAAGCAGTC
1 AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
*
6110592 ATTTATTACTCCAACCGAAATGAA
66 ATTTATTACTCCAATCGAAATGAA
6110616 AAGGTTTACT
Statistics
Matches: 200, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 200 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (131 bp):
AGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTC
ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTCGA
G
Found at i:6112746 original size:3 final size:3
Alignment explanation
Indices: 6112740--6112795 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
6112730 GTAGTAGTAG
* *
6112740 TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA T-A TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6112786 TAA TAA TAA T
1 TAA TAA TAA T
6112796 GATGATGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6112751 original size:6 final size:6
Alignment explanation
Indices: 6112742--6112816 Score: 53
Period size: 6 Copynumber: 12.3 Consensus size: 6
6112732 AGTAGTAGTA
* * * * *
6112742 ATAATG ATAATG ATAATA ATAATA ATAAT- ATAAAATA ATAATA ATAATA
1 ATAATG ATAATG ATAATG ATAATG ATAATG AT--AATG ATAATG ATAATG
* * *
6112791 ATAATG ATGATG ATGATG ATGATG AT
1 ATAATG ATAATG ATAATG ATAATG AT
6112817 GTCGGGATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
5 2 0.03
6 56 0.89
7 3 0.05
8 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (6 bp):
ATAATG
Found at i:6113255 original size:133 final size:133
Alignment explanation
Indices: 6113047--6113355 Score: 429
Period size: 133 Copynumber: 2.3 Consensus size: 133
6113037 AAATCGAGAA
* * * * * *
6113047 ACGTTGATTCATTCCATTGTTCTTTATGGAAGATTGAATCAAGGTAGACTTGTTCTAGTACTACT
1 ACGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTACTACT
* * * *
6113112 CAGGGAAGATCAAATCTGGAAAAAGGGGATATGTTCCGCTGCTTCTTCTGGGAAAATCAGATCTA
66 CAGGGAAGATCAAATATGGAAAAAGGGGATATGTTCCACTGCTTCTTCAGGGAAAATCAGATATA
6113177 AAG
131 AAG
* *
6113180 ACGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCTGCT
1 ACGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTACTACT
* * * * *
6113245 CAGGGAAGATCAAATATGGAAAGAGGGGATCTGTTCCATTTCTTCTTCAGGGAAAATCAGATATG
66 CAGGGAAGATCAAATATGGAAAAAGGGGATATGTTCCACTGCTTCTTCAGGGAAAATCAGATATA
6113310 AAG
131 AAG
* * * *
6113313 ACATTGATTCATTCCACCGTTCTTCAGGGAATATTGAATCGAG
1 ACGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCGAG
6113356 TTCGATTTGC
Statistics
Matches: 155, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 155 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (133 bp):
ACGTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATCGAGGCAGACTTGTTCCACTACTACT
CAGGGAAGATCAAATATGGAAAAAGGGGATATGTTCCACTGCTTCTTCAGGGAAAATCAGATATA
AAG
Found at i:6114350 original size:21 final size:21
Alignment explanation
Indices: 6114325--6114386 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
6114315 GGTCGTTACG
* *
6114325 TACTAATGTGACAATCAACAT
1 TACTAACGTGACAATCCACAT
*
6114346 TACTAACGTAACAATCCACAT
1 TACTAACGTGACAATCCACAT
6114367 TACTAACGTGACAATCCACA
1 TACTAACGTGACAATCCACA
6114387 GTAGCTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (21 bp):
TACTAACGTGACAATCCACAT
Found at i:6115509 original size:42 final size:42
Alignment explanation
Indices: 6115462--6115724 Score: 429
Period size: 42 Copynumber: 6.3 Consensus size: 42
6115452 CATATTCGCA
* *
6115462 TTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTTG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
6115504 TTGCGATAGTCTAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
6115546 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
6115588 TTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* **
6115630 TTGTGATAGTCCCAGTTCGCGTTGCGATTTATTCCAAGA-TCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAA-ATTCG
*
6115672 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
6115714 TTGCGATAGTC
1 TTGCGATAGTC
6115725 CAAAATCGCA
Statistics
Matches: 207, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
41 1 0.00
42 205 0.99
43 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:6116458 original size:5 final size:5
Alignment explanation
Indices: 6116448--6116485 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6116438 GCTGCCGCCG
6116448 TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCG
1 TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCGTC TCG
6116486 GGTCGTGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.39, G:0.21, T:0.39
Consensus pattern (5 bp):
TCGTC
Found at i:6116658 original size:42 final size:42
Alignment explanation
Indices: 6116606--6116906 Score: 494
Period size: 42 Copynumber: 7.1 Consensus size: 42
6116596 CTATCGCAAT
6116606 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
6116648 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
* * * *
6116690 TTGGAATAAATCGCAATGCGAACTTGGACTATTGCAACGAAT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
* * *
6116732 TTGGAATAAATCACAACGAGAACTTCAACTATCGCAACGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
6116774 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
6116816 TTGGAATAAATCGCAACGCGAACTTCTACTATCGCAACGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
6116858 TTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAAC
6116902 TTGGA
1 TTGGA
6116907 CTATTGCAAC
Statistics
Matches: 238, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 228 0.96
44 10 0.04
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:6116854 original size:105 final size:103
Alignment explanation
Indices: 6116606--6116999 Score: 362
Period size: 105 Copynumber: 3.8 Consensus size: 103
6116596 CTATCGCAAT
6116606 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAAC-GAACTTGGAA-TAAATCGCAACGCGA
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAGAACTT-GAACT--ATCGCAAC-CGA
* * * * *
6116669 ACTTCGACTATCGCAA--CAAACTTGGAATAAATCGCAATGCGAAC
62 ACTTGGAATATCGCAACGCGAACTTCGACT--ATCGCAA--CGAAC
* * * * * * *
6116713 TTGGACT--ATTGCAA--CGAATTTGGAATAAATCACAACGAGAACTTCAACTATCGCAA-CGAA
1 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAAC-AGAACTTGAACTATCGCAACCGAA
6116773 CTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
63 CTTGGAAT--ATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
6116816 TTGGAATAAATCGCAACGCGAACTTCTACTATCGCAAC-GAACTTGGAA-TAAATCGCAACGCGA
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAGAACTT-GAACT--ATCGCAAC-CGA
* * * * *
6116879 ACTTTGACTATCGCAACGCGAACTTGGACTATTGCAACGAAT
62 ACTTGGAATATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
6116921 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACA-AACTTGGACTATCGCAACGCGAACT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAGAACTTGAACTATCGCAAC-CGAACT
*
6116985 TGGACTATCGCAACG
65 TGGAATATCGCAACG
6117000 AATTTGGAAA
Statistics
Matches: 239, Mismatches: 28, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
103 66 0.28
104 4 0.02
105 127 0.53
106 2 0.01
107 40 0.17
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (103 bp):
TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAGAACTTGAACTATCGCAACCGAACTT
GGAATATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:6116934 original size:84 final size:81
Alignment explanation
Indices: 6116606--6117015 Score: 411
Period size: 84 Copynumber: 4.9 Consensus size: 81
6116596 CTATCGCAAT
6116606 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAA--CGAAC
* *
6116671 TTCGACTATCGCAACAAAC
63 TTCGAATATCGCAACGAAC
* * * * *
6116690 TTGGAATAAATCGCAATGCGAACTTGGACTATTGCAACGAATTTGGAATAAATCACAACGAGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAAC--GAAC
6116755 TTC-AACTATCGCAACGAAC
63 TTCGAA-TATCGCAACGAAC
6116774 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAA--CGAAC
* *
6116839 TTCTACTATCGCAACGAAC
63 TTCGAATATCGCAACGAAC
* * * *
6116858 TTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTGGACT-ATTGCAACGAATT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAATCGCAACGAACT
*
6116922 TGGAATAAATCGCAACGCGAAC
64 TCGAAT--ATCGCAA--CGAAC
* * * * * *
6116944 TTCGACT--ATCGCAA--CAAACTTGGACTATCGCAACGCGAACTTGGACT-ATCGCAACGAATT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAATCGCAACGAACT
* *
6117004 TGGAAAATCGCA
64 TCGAATATCGCA
6117016 TTGCGATAGT
Statistics
Matches: 288, Mismatches: 26, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
80 6 0.02
82 57 0.20
83 1 0.00
84 201 0.70
85 1 0.00
86 22 0.08
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (81 bp):
TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAATCGCAACGAACTTC
GAATATCGCAACGAAC
Found at i:6116955 original size:126 final size:122
Alignment explanation
Indices: 6116606--6116988 Score: 441
Period size: 126 Copynumber: 3.0 Consensus size: 122
6116596 CTATCGCAAT
6116606 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAAC-CGAAC
* * *
6116671 TTCGACTATCGCAACAAACTTGGAATAAATCGCAATGCGAACTTGGACTATTGCAACGAAT
64 TTCGACTATCGCAACGAACTTGGAAT-AATCGCAA-GCGAACTTGGACTATCGCAACGAAC
* * *
6116732 TTGGAATAAATCACAACGAGAACTTCAACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAAC-CGAAC
**
6116797 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCTACTATCGCAACGAAC
64 TTCGACTATCGCAACGAACTTGGAAT-AATCGCAA-GCGAACTTGGACTATCGCAACGAAC
* * * *
6116858 TTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTGGACT-ATTGCAA-CGAAT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAATCGCAACCGAAC
* * * * *
6116921 TTGGAATAAATCGCAACGCGAACTTCGACT-ATCGCAA-CAAACTTGGACTATCGCAACGCGAAC
64 TTCGACT--ATCGCAA--CGAACTTGGAATAATCGCAAGCGAACTTGGACTATCGCAA--CGAAC
6116984 TTGGA
1 TTGGA
6116989 CTATCGCAAC
Statistics
Matches: 226, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
124 25 0.11
126 180 0.80
128 21 0.09
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (122 bp):
TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAATCGCAACCGAACTT
CGACTATCGCAACGAACTTGGAATAATCGCAAGCGAACTTGGACTATCGCAACGAAC
Found at i:6117014 original size:40 final size:40
Alignment explanation
Indices: 6116888--6117015 Score: 184
Period size: 40 Copynumber: 3.1 Consensus size: 40
6116878 AACTTTGACT
*
6116888 ATCGCAACGCGAACTTGGACTATTGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGG-A-AA
* * * **
6116930 ATCGCAACGCGAACTTCGACTATCGCAACAAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
6116970 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
6117010 ATCGCA
1 ATCGCA
6117016 TTGCGATAGT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 41 0.55
41 1 0.01
42 33 0.44
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
Found at i:6117015 original size:19 final size:19
Alignment explanation
Indices: 6116624--6117007 Score: 264
Period size: 21 Copynumber: 18.5 Consensus size: 19
6116614 AATCGCAACG
*
6116624 CGAACTTCGACTATCGCAA
1 CGAACTTGGACTATCGCAA
*
6116643 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
6116664 CGCGAACTTCGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
* *
6116685 CAAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
6116706 TGCGAACTTGGACTATTGCAA
1 --CGAACTTGGACTATCGCAA
* * *
6116727 CGAATTTGGAATAAATCACAA
1 CGAACTTGGACT--ATCGCAA
**
6116748 CGAGAACTTCAACTATCGCAA
1 C--GAACTTGGACTATCGCAA
*
6116769 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
6116790 CGCGAACTTCGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
6116811 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
**
6116832 CGCGAACTTCTACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
6116853 CGAACTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
6116874 CGCGAACTTTGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
6116895 CGCGAACTTGGACTATTGCAA
1 --CGAACTTGGACTATCGCAA
* *
6116916 CGAATTTGGAATAAATCGCAA
1 CGAACTTGGACT--ATCGCAA
*
6116937 CGCGAACTTCGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
6116958 CAAACTTGGACTATCGCAA
1 CGAACTTGGACTATCGCAA
6116977 CGCGAACTTGGACTATCGCAA
1 --CGAACTTGGACTATCGCAA
*
6116998 CGAATTTGGA
1 CGAACTTGGA
6117008 AAATCGCATT
Statistics
Matches: 289, Mismatches: 46, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
19 92 0.32
21 132 0.46
23 65 0.22
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (19 bp):
CGAACTTGGACTATCGCAA
Found at i:6117040 original size:21 final size:21
Alignment explanation
Indices: 6117011--6117063 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
6117001 ATTTGGAAAA
*
6117011 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
6117032 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
6117053 TCGCGTTGCGA
1 TCGCGTTGCGA
6117064 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:6117513 original size:25 final size:26
Alignment explanation
Indices: 6117485--6117540 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
6117475 TTCATTACTA
*
6117485 TTCATATACATGCCTTG-TTATTT-TT
1 TTCATATACAT-CCATGTTTATTTATT
* *
6117510 TTCATTTTCATCCATGTTTATTTATT
1 TTCATATACATCCATGTTTATTTATT
6117536 TTCAT
1 TTCAT
6117541 TTATTTGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
26 7 0.27
ACGTcount: A:0.20, C:0.16, G:0.05, T:0.59
Consensus pattern (26 bp):
TTCATATACATCCATGTTTATTTATT
Found at i:6117956 original size:6 final size:6
Alignment explanation
Indices: 6117948--6118036 Score: 142
Period size: 6 Copynumber: 14.8 Consensus size: 6
6117938 TGTATCTTAT
* * * *
6117948 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAC ATCTAC ATCTAC ATCTAC
1 ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC
6117996 ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTA
1 ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTAC ATCTA
6118037 TATATGTATT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (6 bp):
ATCTAC
Found at i:6119947 original size:29 final size:29
Alignment explanation
Indices: 6119912--6120090 Score: 154
Period size: 29 Copynumber: 6.3 Consensus size: 29
6119902 ACCGTTGATC
6119912 GGGTGATATTTTAGTAATTATTTTGAAAA
1 GGGTGATATTTTAGTAATTATTTTGAAAA
* *
6119941 TGGTGATATTTTGGTAATTATTTTGAAAA
1 GGGTGATATTTTAGTAATTATTTTGAAAA
* * * * *
6119970 TGGTG-CATTTTCGTAATTTTTTTAAAAA
1 GGGTGATATTTTAGTAATTATTTTGAAAA
** * *
6119998 AAGTGATAATTTCGTTAATT-TTTT-ATAAA
1 GGGTGATATTTTAG-TAATTATTTTGA-AAA
6120027 ---TGATATTTTAGTAATTATTTTGAAAA
1 GGGTGATATTTTAGTAATTATTTTGAAAA
* * * *
6120053 GGGTCATATTTTTGTAAATTTTTTTAAAAA
1 GGGTGATATTTTAGT-AATTATTTTGAAAA
6120083 GGGTGATA
1 GGGTGATA
6120091 AATGTGTAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
25 5 0.04
26 16 0.13
27 1 0.01
28 23 0.19
29 55 0.44
30 24 0.19
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (29 bp):
GGGTGATATTTTAGTAATTATTTTGAAAA
Found at i:6120028 original size:57 final size:57
Alignment explanation
Indices: 6119919--6120052 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
6119909 ATCGGGTGAT
* ** *
6119919 ATTTTAGTAATTATTTTGAAAATGGTGATATTTTGGTAATTATTTTGAAAATGGTGC
1 ATTTTAGTAATTATTTTAAAAAAAGTGATATTTCGGTAATTATTTTGAAAATGGTGC
* * * *
6119976 ATTTTCGTAATTTTTTTAAAAAAAGTGATAATTTCGTTAATT-TTTT-ATAAATGAT--
1 ATTTTAGTAATTATTTTAAAAAAAGTGAT-ATTTCGGTAATTATTTTGA-AAATGGTGC
*
6120031 ATTTTAGTAATTATTTTGAAAA
1 ATTTTAGTAATTATTTTAAAAA
6120053 GGGTCATATT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
55 19 0.30
56 1 0.02
57 34 0.53
58 10 0.16
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.49
Consensus pattern (57 bp):
ATTTTAGTAATTATTTTAAAAAAAGTGATATTTCGGTAATTATTTTGAAAATGGTGC
Found at i:6127220 original size:29 final size:29
Alignment explanation
Indices: 6127186--6127362 Score: 136
Period size: 29 Copynumber: 6.2 Consensus size: 29
6127176 CCGTTGATCA
6127186 GGTGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
*
6127215 GGTGATATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * * * *
6127244 GGTG-CATTTTCGTAATTTTTTTTAAAAAA
1 GGTGATATTTTAGTAA-TTATTTTGAAAAT
* * * *
6127273 AGTGATAATTTCGTAA--ATTTT-AAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAAT
** *
6127299 AATGATA--TTAGTAATTATTTTGAAAAG
1 GGTGATATTTTAGTAATTATTTTGAAAAT
*
6127326 GGTGATATTTTTGTAAAATT-TTTT-AAAAT
1 GGTGATATTTTAGT--AATTATTTTGAAAAT
6127355 GGGTGATA
1 -GGTGATA
6127363 AATTTGTAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
24 6 0.05
26 16 0.13
27 13 0.11
28 9 0.07
29 53 0.44
30 20 0.17
31 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:6127319 original size:26 final size:27
Alignment explanation
Indices: 6127263--6127312 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6127253 TCGTAATTTT
*
6127263 TTTTAAAAAAAGTGATAATTTCGTAAA
1 TTTTAAAAAAAGTGATAATTTAGTAAA
6127290 TTTTAAAAAAA-TGAT-A-TTAGTAA
1 TTTTAAAAAAAGTGATAATTTAGTAA
6127313 TTATTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
26 4 0.18
27 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (27 bp):
TTTTAAAAAAAGTGATAATTTAGTAAA
Found at i:6127373 original size:29 final size:31
Alignment explanation
Indices: 6127311--6127372 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
6127301 TGATATTAGT
**
6127311 AATTATTTTGAAAAGGGTGATATTTTTGTAA
1 AATTATTTTGAAAAGGGTGATAAATTTGTAA
6127342 AATT-TTTT-AAAATGGGTGATAAATTTGTAA
1 AATTATTTTGAAAA-GGGTGATAAATTTGTAA
6127372 A
1 A
6127373 TGGTTAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 20 0.71
31 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.44
Consensus pattern (31 bp):
AATTATTTTGAAAAGGGTGATAAATTTGTAA
Found at i:6129243 original size:60 final size:60
Alignment explanation
Indices: 6129135--6129289 Score: 134
Period size: 60 Copynumber: 2.6 Consensus size: 60
6129125 ATAACTCGCT
* * * * * ** * *
6129135 TTCTAAATTGATCCTTAAACTATTGAGCATTTTAATTTTATCCCCAAACTACGACTCTTA
1 TTCTAAATTGGTCCATAAACTTTTTAACATTCCAAATTTATCCCCAAACTACGACCCTTA
* *
6129195 TTCTAAATTGGTCCATAAACTTTTTAACATTCCAAATTTA-CCCACAAACTATGACCCTTG
1 TTCTAAATTGGTCCATAAACTTTTTAACATTCCAAATTTATCCC-CAAACTACGACCCTTA
* * * **
6129255 CTCTATATTAGTCCCCAAACTTTTGT-ACATTCCAA
1 TTCTAAATTGGTCCATAAACTTTT-TAACATTCCAA
6129290 TAATACCCCC
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
59 3 0.04
60 73 0.95
61 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (60 bp):
TTCTAAATTGGTCCATAAACTTTTTAACATTCCAAATTTATCCCCAAACTACGACCCTTA
Found at i:6132201 original size:64 final size:66
Alignment explanation
Indices: 6132128--6132265 Score: 244
Period size: 64 Copynumber: 2.1 Consensus size: 66
6132118 AATCATTTAC
6132128 TTATATTTTCATGAATATAGTTTTTTTTAAAAAAATAATTTAATTATTAATATTA-TA-TTTATT
1 TTATATTTTCATGAATATAGTTTTTTTTAAAAAAATAATTTAATTATTAATATTATTATTTTATT
6132191 A
66 A
*
6132192 TTATATTTTCATGAATATAGTTTTTTTTTAAAAAATAATTTAATTATTAATATTATTATTTTATT
1 TTATATTTTCATGAATATAGTTTTTTTTAAAAAAATAATTTAATTATTAATATTATTATTTTATT
6132257 A
66 A
*
6132258 TTAAATTT
1 TTATATTT
6132266 CTTGATGTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
64 54 0.77
65 2 0.03
66 14 0.20
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (66 bp):
TTATATTTTCATGAATATAGTTTTTTTTAAAAAAATAATTTAATTATTAATATTATTATTTTATT
A
Done.