Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 196 of 378
Found at i:57739102 original size:40 final size:40
Alignment explanation
Indices: 57739036--57739187 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
57739026 AAATTGAATG
* * ** *
57739036 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* ***
57739075 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
*
57739115 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* *
57739155 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
57739188 CATGGTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:57739200 original size:40 final size:40
Alignment explanation
Indices: 57739073--57739202 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
57739063 ATGCTGGAAA
* *
57739073 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
* * **
57739113 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
*
57739153 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-AGTGG
57739193 TTATATCCGG
1 TTATATCCGG
57739203 TTATATTCCG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 76 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
Found at i:57740636 original size:48 final size:48
Alignment explanation
Indices: 57740565--57740730 Score: 314
Period size: 48 Copynumber: 3.5 Consensus size: 48
57740555 GGGTGTTACA
57740565 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
57740613 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
57740661 GCTTTACCACTTATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
*
57740709 GCTTTACCACGTATACATATCT
1 GCTTTACCACATATACATATCT
57740731 TATGCATCAA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
Found at i:57743201 original size:46 final size:47
Alignment explanation
Indices: 57743107--57743285 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 47
57743097 GTAACCCGCC
* * * *
57743107 CATAAGCGAACTCGGACTCAACTTAACGA-TCTCGG--GCGTTCGCATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGATGC-CTAGCATA
* * *
57743153 CATAAGTGAACTCAGACTCAACTTAACGAGTTCGGATGCCTAG-TTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
* * * * * *
57743199 CATTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGATG-TTCGCATC
1 CA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
*
57743246 CATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
57743286 CAAATATCCG
Statistics
Matches: 106, Mismatches: 19, Indels: 15
0.76 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 66 0.62
47 34 0.32
48 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (47 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATA
Found at i:57743277 original size:93 final size:93
Alignment explanation
Indices: 57743113--57743285 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
57743103 CGCCCATAAG
* * *
57743113 CGAACTCGGACTCAACTTAACGATCTCGGGCGTTCGCATACATAAGTGAACTCAGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGATCTCGGACGTTCGCATACATAAGTGAACTCAGACTCAACTCA
57743178 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
57743206 CGAACTTGGACTCAACTCAACGAGT-TCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGA-TCTCGGACGTTCGCATACATAAGTGAACTCAGACTCAACTC
*
57743270 AATGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
57743286 CAAATATCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGATCTCGGACGTTCGCATACATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:57749068 original size:13 final size:13
Alignment explanation
Indices: 57749050--57749074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57749040 TATAACACTC
57749050 ATATTATCAATAG
1 ATATTATCAATAG
57749063 ATATTATCAATA
1 ATATTATCAATA
57749075 AAAATTTCAC
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATATTATCAATAG
Found at i:57750834 original size:46 final size:46
Alignment explanation
Indices: 57750778--57750949 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
57750768 ACATCTCGTA
57750778 GCCGATGCATG-CCTCAGACATGTCTTACACT-G-ACTTACGTCTCAAG
1 GCCGATGCATGTCC-CAGACATGTCTTACACTAGCAC-T-CGTCTCAAG
*
57750824 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
* * * * * **
57750870 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCAAG
57750918 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
57750950 ACCCAAAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 53 0.48
47 30 0.27
48 25 0.23
49 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:57751099 original size:34 final size:34
Alignment explanation
Indices: 57751061--57751128 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
57751051 ACAATCAAGC
57751061 AATTCATGCTATATTAAGTTCAAGTACAATTCAA
1 AATTCATGCTATATTAAGTTCAAGTACAATTCAA
57751095 AATTCATGCTATATTAAGTTCAAGTACAATTCAA
1 AATTCATGCTATATTAAGTTCAAGTACAATTCAA
57751129 CACATACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (34 bp):
AATTCATGCTATATTAAGTTCAAGTACAATTCAA
Found at i:57755357 original size:15 final size:15
Alignment explanation
Indices: 57755337--57755367 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57755327 AAACATAAAA
57755337 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
57755352 GATATGTTTTGTATT
1 GATATGTTTTGGATT
57755367 G
1 G
57755368 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:57757305 original size:13 final size:13
Alignment explanation
Indices: 57757287--57757311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57757277 GTGAAATTTT
57757287 TATTGATAATATC
1 TATTGATAATATC
57757300 TATTGATAATAT
1 TATTGATAATAT
57757312 AAGTGTTATA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TATTGATAATATC
Found at i:57761200 original size:21 final size:19
Alignment explanation
Indices: 57761165--57761232 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
57761155 TTTTTTAACC
*
57761165 TTATTTTTA-TATTATATA
1 TTATTTATATTATTATATA
*
57761183 TTATAATTATTTTATTATATA
1 TTAT--TTATATTATTATATA
57761204 TTATTTATATTATTAT-TA
1 TTATTTATATTATTATATA
57761222 TCTATTGTATA
1 T-TATT-TATA
57761233 ATGTTTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.17
19 15 0.36
20 7 0.17
21 13 0.31
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (19 bp):
TTATTTATATTATTATATA
Found at i:57761203 original size:16 final size:16
Alignment explanation
Indices: 57761174--57761222 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
57761164 CTTATTTTTA
57761174 TATTATATATTATA-AT
1 TATT-TATATTATATAT
57761190 TATTT-TATTATATAT
1 TATTTATATTATATAT
57761205 TATTTATATTAT-TAT
1 TATTTATATTATATAT
57761220 TAT
1 TAT
57761223 CTATTGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.23
15 14 0.45
16 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTATATTATATAT
Found at i:57761227 original size:19 final size:18
Alignment explanation
Indices: 57761165--57761337 Score: 69
Period size: 17 Copynumber: 9.5 Consensus size: 18
57761155 TTTTTTAACC
57761165 TTATT-TTTATATTATATA
1 TTATTATTTATATTAT-TA
* *
57761183 TTA-TAATTATTTTATTA
1 TTATTATTTATATTATTA
57761200 TATATTATTTATATTATTA
1 T-TATTATTTATATTATTA
* * *
57761219 TTATCTATTGTATAATGTTT
1 TTAT-TATT-TATATTATTA
** *
57761239 TTCACAAATTATTATT-TTACA
1 TT-ATTATTTA-TATTATT--A
*
57761260 TTATTACTTATA-TATTA
1 TTATTATTTATATTATTA
57761277 TTATTATGTT-T-TTACTT-
1 TTATTAT-TTATATTA-TTA
* *
57761294 GTATTATATAT-TTATTA
1 TTATTATTTATATTATTA
57761311 --ATTATTTATATATATTA
1 TTATTATTTATAT-TATTA
57761328 TGTATTATTT
1 T-TATTATTT
57761338 TTTTTGCATA
Statistics
Matches: 116, Mismatches: 19, Indels: 38
0.67 0.11 0.22
Matches are distributed among these distances:
15 8 0.07
16 4 0.03
17 29 0.25
18 21 0.18
19 25 0.22
20 26 0.22
21 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:57761593 original size:21 final size:23
Alignment explanation
Indices: 57761568--57761621 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
57761558 ATCATTAATT
*
57761568 ACTTATTTTAAAT-TATTCTA-A
1 ACTTATTTTAAATATATTATATA
*
57761589 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTAAATATATTATATA
57761613 A-TTATTTTA
1 ACTTATTTTA
57761622 TTATTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 10 0.36
23 10 0.36
24 2 0.07
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (23 bp):
ACTTATTTTAAATATATTATATA
Found at i:57761640 original size:20 final size:22
Alignment explanation
Indices: 57761570--57761641 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
57761560 CATTAATTAC
* *
57761570 TTATTTTAAAT-TATTCTA-AA
1 TTATTTTATATATATTATATAA
57761590 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATATAA
*
57761614 TTATTTTAT-TATTTTATA-AA
1 TTATTTTATATATATTATATAA
*
57761634 TTCTTTTA
1 TTATTTTA
57761642 CTTACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.20
21 12 0.27
22 11 0.25
23 10 0.23
24 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:57766605 original size:51 final size:49
Alignment explanation
Indices: 57766416--57766661 Score: 251
Period size: 49 Copynumber: 5.0 Consensus size: 49
57766406 GTAGCCAAAG
* * * * * **
57766416 CTATCTGGTACGCATAGTAGTCTGCACTTAGTACTACACATGAAACCAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
57766465 CTATCCAGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAC
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* * * *
57766515 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * * *
57766565 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
57766615 -TAATCCAGTACACGTAGTAGCCTGAACTTAGTACTACACACGTGACC
1 CT-ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
57766662 TCACAATAGA
Statistics
Matches: 160, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 76 0.47
50 45 0.28
51 38 0.24
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:57766649 original size:100 final size:101
Alignment explanation
Indices: 57766479--57766659 Score: 276
Period size: 100 Copynumber: 1.8 Consensus size: 101
57766469 CCAGTACATG
* * * * *
57766479 TAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGTAGCCTGAACTT
57766544 AGTACTACACACGTGATCAAAGTTATCGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCA
* *
57766580 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCAG-TACACGTAGTAGCCTGAACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT-CAGATACACGTAGTAGCCTGAACT
57766643 TAGTACTACACACGTGA
65 TAGTACTACACACGTGA
57766660 CCTCACAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
100 39 0.54
101 33 0.46
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGATACACGTAGTAGCCTGAACTT
AGTACTACACACGTGATCAAAGTTATCGGGTACGCA
Found at i:57768490 original size:43 final size:43
Alignment explanation
Indices: 57768443--57768527 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
57768433 AAACCATGTA
* *
57768443 CAATTCGAAATAGGGTGACACGGCCATGTCATC-AGACCGTGTG
1 CAATTCAAAATAGGGTGACACAGCCATGTC-TCTAGACCGTGTG
* *
57768486 CAATTCAAAATAGGGTTACACAGCCGTGTCTCTAGACCGTGT
1 CAATTCAAAATAGGGTGACACAGCCATGTCTCTAGACCGTGT
57768528 AACAACCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (43 bp):
CAATTCAAAATAGGGTGACACAGCCATGTCTCTAGACCGTGTG
Found at i:57770064 original size:38 final size:38
Alignment explanation
Indices: 57770013--57770089 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
57770003 TTTCAAATTA
57770013 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
57770051 ACATGTTTAACCGTGGTATATCCACTTATCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
57770089 A
1 A
57770090 ATGAATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:57772712 original size:45 final size:45
Alignment explanation
Indices: 57772661--57772754 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
57772651 TTAGTAAGCC
57772661 ATATACAAATAAAGTCATCATATGAATATTTGCATATCAATTCAA
1 ATATACAAATAAAGTCATCATATGAATATTTGCATATCAATTCAA
57772706 ATATACAAATAAAGTCATCATATGAATATTTGCATATCAATTCAA
1 ATATACAAATAAAGTCATCATATGAATATTTGCATATCAATTCAA
57772751 ATAT
1 ATAT
57772755 GCTAACCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (45 bp):
ATATACAAATAAAGTCATCATATGAATATTTGCATATCAATTCAA
Found at i:57773139 original size:43 final size:42
Alignment explanation
Indices: 57772974--57773142 Score: 128
Period size: 43 Copynumber: 4.0 Consensus size: 42
57772964 ATAAAGCTCG
* * *
57772974 TACAATGCCATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCATTTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * * *
57773015 TATCGATG-CACTGTCCTAGATAGGGTCTTACACGGAATCA-AA
1 TA-CAATGCCA-TTTCCCAGACATGGTCTTACATGTAATCACAA
* * * **
57773057 TAATAATGCCAATGTCCCAAACATGGTCTTACAAATAATCACAA
1 T-ACAATGCC-ATTTCCCAGACATGGTCTTACATGTAATCACAA
*
57773101 TACAATGCCAATTTTCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCC-ATTTCCCAGACATGGTCTTACATGTAATCACA
57773143 TCTCATTAAC
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 4 0.04
42 32 0.32
43 59 0.60
44 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
TACAATGCCATTTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:57782233 original size:68 final size:70
Alignment explanation
Indices: 57782161--57782358 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
57782151 ACACCCTGTA
* * * *
57782161 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
57782223 ATAAAT
65 ATAAAT
*
57782229 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
57782294 ATAAAT
65 ATAAAT
*
57782300 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
57782359 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:57782272 original size:41 final size:41
Alignment explanation
Indices: 57782227--57782344 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57782217 TGAAAGATAA
57782227 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57782268 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57782298 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57782339 ATGTAG
1 ATGTAG
57782345 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57782284 original size:71 final size:71
Alignment explanation
Indices: 57782195--57782358 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57782185 GAGATGTATC
57782195 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57782260 AGGACA
66 AGGACA
57782266 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57782331 AGGACA
66 AGGACA
57782337 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57782359 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57789330 original size:68 final size:70
Alignment explanation
Indices: 57789258--57789455 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
57789248 ACACCCTGTA
* * * *
57789258 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
57789320 ATAAAT
65 ATAAAT
*
57789326 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
57789391 ATAAAT
65 ATAAAT
*
57789397 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
57789456 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:57789369 original size:41 final size:41
Alignment explanation
Indices: 57789324--57789441 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
57789314 TGAAAGATAA
57789324 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
57789365 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57789395 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
57789436 ATGTAG
1 ATGTAG
57789442 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:57789381 original size:71 final size:71
Alignment explanation
Indices: 57789292--57789455 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57789282 GAGATGTATC
57789292 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57789357 AGGACA
66 AGGACA
57789363 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57789428 AGGACA
66 AGGACA
57789434 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57789456 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57796379 original size:40 final size:40
Alignment explanation
Indices: 57796326--57796549 Score: 371
Period size: 40 Copynumber: 5.6 Consensus size: 40
57796316 ACTACTTGCT
*
57796326 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57796366 CAACTGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
57796406 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
57796446 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
57796486 CAAATGCCTTC-GGAGCTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
57796525 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
57796550 TTATCATCTG
Statistics
Matches: 173, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
39 33 0.19
40 140 0.81
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57804482 original size:40 final size:40
Alignment explanation
Indices: 57804426--57804650 Score: 310
Period size: 40 Copynumber: 5.6 Consensus size: 40
57804416 ACTACTTGCT
* * *
57804426 CAAATGCCTTTGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57804466 CAACTACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
57804506 CAAATGCCTTCGGGACTTAGCCCGGATATACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
57804546 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
57804586 CAAATGCCTTC-GGAGCTTAGCCC-AAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCGCA
*
57804626 CAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
57804651 TTATCATTTG
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 5 0.03
40 157 0.96
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57804627 original size:120 final size:120
Alignment explanation
Indices: 57804394--57804650 Score: 324
Period size: 120 Copynumber: 2.1 Consensus size: 120
57804384 ACCCAAGCAT
* * * * * * *
57804394 CTTCGGGATTTAG-CCGAATATAACTACTTGCTCAAATGCCTTTGGGACTTAGCCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* * ** *
57804458 AACTCGCACAACTACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
66 AACTCACACAAATACCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGC
57804513 CTTCGGGACTTAGCCCGGATAT-ACTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAACT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
57804577 TAACTCACACAAATGCCTTC-GGAGCTTAGCCCAAA-ATTAGTCACTAGCACAAATGC
65 TAACTCACACAAATACCTTCGGGA-CTTAGCCCAAATA-TAGTAACTAGCACAAATGC
*
57804633 CTTCGAGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
57804651 TTATCATTTG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
119 19 0.16
120 100 0.84
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCACACAAATACCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGC
Found at i:57811942 original size:43 final size:43
Alignment explanation
Indices: 57811767--57812065 Score: 248
Period size: 43 Copynumber: 7.0 Consensus size: 43
57811757 ACATATCGTA
* * * * * * *
57811767 CAATGTCAACATCCTAGACATGGTCTTACATGTAGTCACAAAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* * *
57811810 CAATGCC-ACTGTCCCA-A--AGGTCTTACACATTATCACATAT
1 CAATGCCAAC-GTCCCAGACGTGGTCTTACACGTAATCACATAT
* * * * * *
57811850 CGATGCCAACGTCCCAAATGTGGTATTAAACATAAT-ACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
** * * * *
57811892 TGATGCCAATGTCTCAGACGTGGTCTTACACGTAGTCATATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
** * * *
57811935 CAATGCCAACGTTTCAGATGTGGTCTTACACCTAATCATATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* * **
57811978 CGATGCCAACGTCCCAAACGTGGTCTTACACAAAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* * *
57812021 CGATGCTAACGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
57812064 CA
1 CA
57812066 TTTTAACCAT
Statistics
Matches: 205, Mismatches: 45, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
40 29 0.14
41 3 0.01
42 36 0.18
43 137 0.67
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:57823870 original size:47 final size:49
Alignment explanation
Indices: 57823803--57824066 Score: 250
Period size: 47 Copynumber: 5.6 Consensus size: 49
57823793 AGTAAGTTGT
*
57823803 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * * *
57823850 CGATGCCATATCCCATACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * * * *
57823898 TGATG-CATGTCCCAGACAT-GTTTTACACTGGCTTA-CGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* * * * *
57823944 CGATG-CATGTCCCAGACAT-GTCTTAGACTAGCAC-TCGTCTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
* *
57823990 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-G-TGTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAAG-C
*
57824038 TGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
57824067 AGCACTCAAT
Statistics
Matches: 183, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
46 75 0.41
47 80 0.44
48 27 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGC
Found at i:57829808 original size:40 final size:39
Alignment explanation
Indices: 57829716--57829865 Score: 135
Period size: 39 Copynumber: 3.8 Consensus size: 39
57829706 AATTGAATGA
* * * ** ** *
57829716 TATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTA
1 TATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTCATTC
*
57829755 TATCCGGGTTAAGACCGAAGGCAATTGTGCAAGTGGC-TTAC
1 TATCCGGGCTAAGACCGAAGGCAATTGTGCAAGT--CATT-C
*
57829796 -ATCCGGGCTAAGACCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCGAAGGCAATT-GTGCAAGTCATTC
*
57829834 TATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATCCGGGCTAAGA-CCGAAGGCAATTGTGCA
57829866 CATGGTTATA
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.02
39 45 0.50
40 41 0.46
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTCATTC
Found at i:57829878 original size:40 final size:38
Alignment explanation
Indices: 57829752--57829880 Score: 141
Period size: 40 Copynumber: 3.3 Consensus size: 38
57829742 ATGCTGGAAA
* *
57829752 TTATATCCGGGTTAAGACCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCGAAGGCATTTGTGCAA-TGG
* * * **
57829791 CTTACATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTCA
1 -TTATATCCGGGCTAAGACCGAAGGCATTTGTGC-AATGG
*
57829831 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGA-CCGAAGGCATTTGTGCA-ATGG
57829871 TTATATCCGG
1 TTATATCCGG
57829881 TTATATTCCG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.22
40 55 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCGAAGGCATTTGTGCAATGG
Found at i:57835181 original size:33 final size:33
Alignment explanation
Indices: 57835139--57835206 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
57835129 CTTCCATCAC
57835139 TCGTTATTTACCTCGAGGAGTTCTATCTGAAGT
1 TCGTTATTTACCTCGAGGAGTTCTATCTGAAGT
57835172 TCGTTATTTACCTCGAGGAGTTCTATCTGAAGT
1 TCGTTATTTACCTCGAGGAGTTCTATCTGAAGT
57835205 TC
1 TC
57835207 ACGTGCAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (33 bp):
TCGTTATTTACCTCGAGGAGTTCTATCTGAAGT
Found at i:57838634 original size:25 final size:25
Alignment explanation
Indices: 57838596--57838656 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
57838586 TTAAGAGGAA
57838596 AATAAT-AG-ATAAAAATAATA-AA-
1 AATAATAAGAATAAAAATAA-ACAAG
*
57838618 AATGATAAGAATAAAAATAAACAAG
1 AATAATAAGAATAAAAATAAACAAG
57838643 AATAATAAGAATAA
1 AATAATAAGAATAA
57838657 GTAAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 12 0.36
25 13 0.39
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (25 bp):
AATAATAAGAATAAAAATAAACAAG
Found at i:57838935 original size:2 final size:2
Alignment explanation
Indices: 57838930--57838975 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
57838920 TATATACCTA
57838930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57838971 AT AT A
1 AT AT A
57838976 ATGATAACGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57839132 original size:3 final size:3
Alignment explanation
Indices: 57839042--57839113 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
57839032 AAAATGGTGG
57839042 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57839090 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
57839114 AGATGCAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57839147 original size:21 final size:22
Alignment explanation
Indices: 57839104--57839155 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
57839094 AATAATAATA
57839104 ATAATAATAAAGATGCAAAATG
1 ATAATAATAAAGATGCAAAATG
57839126 ATAATAAGT-AAGATGC-AAATG
1 ATAATAA-TAAAGATGCAAAATG
*
57839147 AAAATAATA
1 ATAATAATA
57839156 TATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 14 0.52
23 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAGATGCAAAATG
Found at i:57841494 original size:27 final size:27
Alignment explanation
Indices: 57841446--57841550 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
57841436 GCGAGGCTGC
* *
57841446 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
57841473 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
57841499 CAGATTTATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
57841526 TAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
57841551 GACACTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 7 0.10
27 58 0.87
28 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:57842884 original size:26 final size:26
Alignment explanation
Indices: 57842853--57842960 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
57842843 TGAAATGCCC
57842853 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
57842879 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
57842905 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
57842931 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
57842957 ATCA
1 ATCA
57842961 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:57844576 original size:12 final size:12
Alignment explanation
Indices: 57844559--57844586 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57844549 ACTCGGGGAA
57844559 GAGGCCGTGGTC
1 GAGGCCGTGGTC
57844571 GAGGCCGTGGTC
1 GAGGCCGTGGTC
57844583 GAGG
1 GAGG
57844587 TCGAGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.54, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:57849492 original size:26 final size:26
Alignment explanation
Indices: 57849463--57849518 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
57849453 TGATAAAAAT
57849463 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57849489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57849515 TGAT
1 TGAT
57849519 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57856622 original size:3 final size:3
Alignment explanation
Indices: 57856614--57856663 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
57856604 AATACCATAT
57856614 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57856662 TA
1 TA
57856664 CTTACCATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:57857397 original size:2 final size:2
Alignment explanation
Indices: 57857390--57857452 Score: 83
Period size: 2 Copynumber: 32.0 Consensus size: 2
57857380 CCTTTTACTT
* *
57857390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
57857432 TA TA TA CA CA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
57857453 ATAACTTAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:57857754 original size:9 final size:9
Alignment explanation
Indices: 57857742--57857766 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57857732 AATTTGTAAT
57857742 ATAATAACA
1 ATAATAACA
57857751 ATAATAACA
1 ATAATAACA
57857760 ATAATAA
1 ATAATAA
57857767 TATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:57860058 original size:18 final size:18
Alignment explanation
Indices: 57860035--57860071 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57860025 TATCGTTAGT
*
57860035 TGAATTCGCGTATAACAA
1 TGAATTCGCATATAACAA
57860053 TGAATTCGCATATAACAA
1 TGAATTCGCATATAACAA
57860071 T
1 T
57860072 AGTTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TGAATTCGCATATAACAA
Found at i:57863431 original size:20 final size:20
Alignment explanation
Indices: 57863406--57863443 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57863396 GTCCCCTGTA
57863406 TTTTGTAAAAATTTTCTAGG
1 TTTTGTAAAAATTTTCTAGG
*
57863426 TTTTGTAAAATTTTTCTA
1 TTTTGTAAAAATTTTCTA
57863444 AGTTATCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTGTAAAAATTTTCTAGG
Found at i:57869379 original size:40 final size:39
Alignment explanation
Indices: 57869181--57869384 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 39
57869171 CGGATGATAA
* *
57869181 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
*
57869221 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-T
57869261 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
57869301 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAT
* *
57869341 CCGGGCTAAGTGCCGAAGGCATTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
57869381 CCGG
1 CCGG
57869385 TTAAATCCTG
Statistics
Matches: 152, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
39 3 0.02
40 145 0.95
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:57871387 original size:11 final size:11
Alignment explanation
Indices: 57871371--57871395 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57871361 AGAATACTAT
57871371 TAATGCTATGG
1 TAATGCTATGG
57871382 TAATGCTATGG
1 TAATGCTATGG
57871393 TAA
1 TAA
57871396 GGATGCAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
TAATGCTATGG
Found at i:57872599 original size:21 final size:21
Alignment explanation
Indices: 57872575--57872615 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57872565 CAAACCACCA
57872575 AACACAGCCCTACCAGATGCT
1 AACACAGCCCTACCAGATGCT
*
57872596 AACACAGTCCTACCAGATGC
1 AACACAGCCCTACCAGATGC
57872616 AATTAAAAGT
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:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AACACAGCCCTACCAGATGCT
Found at i:57874820 original size:30 final size:30
Alignment explanation
Indices: 57874777--57874842 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
57874767 TCTCAGATGA
* * *
57874777 CACACAGTAGTGTCGCTAGGCTGTGTGCCC
1 CACACAATAGTGTCACCAGGCTGTGTGCCC
* *
57874807 CACACAATCGTGTCACCAGGTTGTGTGCCC
1 CACACAATAGTGTCACCAGGCTGTGTGCCC
57874837 CACACA
1 CACACA
57874843 GTTGAGTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (30 bp):
CACACAATAGTGTCACCAGGCTGTGTGCCC
Found at i:57876612 original size:29 final size:29
Alignment explanation
Indices: 57876570--57876628 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57876560 ATCATTCAAG
57876570 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
57876599 AACATTCATGGCATAACCCTCACCCTTTA
1 AACATTCATGGCATAACCCTCACCCTTTA
57876628 A
1 A
57876629 CAATTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.34, G:0.07, T:0.27
Consensus pattern (29 bp):
AACATTCATGGCATAACCCTCACCCTTTA
Found at i:57876839 original size:37 final size:37
Alignment explanation
Indices: 57876789--57876863 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
57876779 TTAATTTTTC
57876789 TGTGGTGGGTGAAAAATGAGAAACATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAACATAAAGTGAATCT
*
57876826 TGTGGTGGGTGAAAAATGAGAAAGATAAAGTGAATCT
1 TGTGGTGGGTGAAAAATGAGAAACATAAAGTGAATCT
57876863 T
1 T
57876864 TTTCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.04, G:0.31, T:0.25
Consensus pattern (37 bp):
TGTGGTGGGTGAAAAATGAGAAACATAAAGTGAATCT
Found at i:57878551 original size:43 final size:43
Alignment explanation
Indices: 57878495--57878650 Score: 195
Period size: 43 Copynumber: 3.6 Consensus size: 43
57878485 TGCCATATCG
* * * *
57878495 CAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCC
1 CAGACATGGTCTTACATGTAATCACATAACGATGCCAATGTCC
* * *
57878538 CAGACAGGGTCTTACATGAAATCATATAACGATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCACATAACGATGCCAATGTCC
* * * *
57878581 CAGACATGGTCTTACACGTAATCACAAAACAATGCCAATGTCT
1 CAGACATGGTCTTACATGTAATCACATAACGATGCCAATGTCC
* *
57878624 CAGACATGGTCTTTCATATAATCACAT
1 CAGACATGGTCTTACATGTAATCACAT
57878651 CTCGATAACC
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACATAACGATGCCAATGTCC
Found at i:57884147 original size:43 final size:43
Alignment explanation
Indices: 57884099--57884183 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
57884089 GAGGTAAATC
* * *
57884099 CAACAACCCATGTTTATCTTCTCTTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
*
57884142 CAACAATCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTT
57884184 CTAGGATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:57885579 original size:7 final size:7
Alignment explanation
Indices: 57885567--57885614 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
57885557 AGATTCGTAT
57885567 TCATTTA
1 TCATTTA
57885574 TCATTTA
1 TCATTTA
57885581 TCATTTA
1 TCATTTA
*
57885588 TAATTTA
1 TCATTTA
57885595 TCATTTA
1 TCATTTA
57885602 TCATTTA
1 TCATTTA
57885609 TCATTT
1 TCATTT
57885615 CCCATTTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.58
Consensus pattern (7 bp):
TCATTTA
Found at i:57885620 original size:21 final size:21
Alignment explanation
Indices: 57885569--57885622 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
57885559 ATTCGTATTC
*
57885569 ATTTATCATTTATCATTTATA
1 ATTTACCATTTATCATTTATA
* *
57885590 ATTTATCATTTATCATTTATC
1 ATTTACCATTTATCATTTATA
*
57885611 ATTTCCCATTTA
1 ATTTACCATTTA
57885623 CTACTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTACCATTTATCATTTATA
Found at i:57891735 original size:16 final size:18
Alignment explanation
Indices: 57891712--57891753 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
57891702 ATTTAAATAG
57891712 ATATAAATTAATAT-TTA
1 ATATAAATTAATATATTA
*
57891729 A-ATAAATTATTATATTA
1 ATATAAATTAATATATTA
57891746 ATATAAAT
1 ATATAAAT
57891754 CATATCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAAATTAATATATTA
Found at i:57897580 original size:26 final size:26
Alignment explanation
Indices: 57897551--57897603 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
57897541 TTTTGAAGAG
*
57897551 AAAGGAAAACGTGTCTTATAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
57897577 AAAGGAAAACGTGTCTTACAAGATGC
1 AAAGGAAAACGTGTCTTACAAGATGC
57897603 A
1 A
57897604 TTTTCACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (26 bp):
AAAGGAAAACGTGTCTTACAAGATGC
Found at i:57898783 original size:35 final size:35
Alignment explanation
Indices: 57898717--57898792 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
57898707 TATATACAAT
*
57898717 AAATATTTTTAAATTATATTCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATTCATAATAAAATAAT-A
* *
57898752 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATTCATAATAAAATAATA
57898787 AAATAT
1 AAATAT
57898793 AAATTAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATATTTTCAAATTATATTCATAATAAAATAATA
Found at i:57900485 original size:93 final size:93
Alignment explanation
Indices: 57900373--57900544 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57900363 GCCCATAAGT
* *
57900373 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57900438 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57900466 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57900531 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57900545 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57900540 original size:46 final size:46
Alignment explanation
Indices: 57900365--57900540 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57900355 TGTAACCCGC
* * *
57900365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
57900411 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
57900461 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
57900504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57900541 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:57902970 original size:30 final size:30
Alignment explanation
Indices: 57902926--57903014 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
57902916 CAAAGATAAC
57902926 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
57902955 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
57902985 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
57903015 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:57902974 original size:15 final size:15
Alignment explanation
Indices: 57902926--57903005 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
57902916 CAAAGATAAC
*
57902926 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
57902940 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
57902955 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
57902970 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
57902985 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
57903000 AAGAAA
1 AAGAAA
57903006 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:57903014 original size:15 final size:15
Alignment explanation
Indices: 57902937--57903014 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
57902927 AGAAAACCGA
57902937 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
57902952 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
57902966 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
57902981 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
57902997 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
57903012 ATA
1 ATA
57903015 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:57906039 original size:93 final size:93
Alignment explanation
Indices: 57905927--57906098 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57905917 GCCCATAAGT
* *
57905927 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57905992 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57906020 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57906085 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57906099 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57906094 original size:46 final size:46
Alignment explanation
Indices: 57905919--57906094 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57905909 TGTAACCCGC
* * *
57905919 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
57905965 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
57906015 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
57906058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57906095 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:57911711 original size:2 final size:2
Alignment explanation
Indices: 57911704--57911751 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
57911694 ACTAATCTTT
57911704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57911745 TA -A TA TA
1 TA TA TA TA
57911752 AATGAAAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:57912848 original size:22 final size:22
Alignment explanation
Indices: 57912823--57912865 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57912813 TATCCAAACA
57912823 ATAATAACAAAATAATAGTAAT
1 ATAATAACAAAATAATAGTAAT
* * *
57912845 ATAATAGCGAAATGATAGTAA
1 ATAATAACAAAATAATAGTAA
57912866 AACAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (22 bp):
ATAATAACAAAATAATAGTAAT
Found at i:57913169 original size:20 final size:20
Alignment explanation
Indices: 57913129--57913169 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
57913119 ATTATTTCAC
*
57913129 ATATATTTTCTAGATTATTT
1 ATATATTTTCTAAATTATTT
57913149 ATATATTTTTCTAAATT-TTT
1 ATATA-TTTTCTAAATTATTT
57913169 A
1 A
57913170 ACAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATATTTTCTAAATTATTT
Found at i:57915174 original size:19 final size:19
Alignment explanation
Indices: 57915152--57915192 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57915142 TTTTAACTGT
*
57915152 AAAAA-TACATTTGAATAAC
1 AAAAACTACATTT-AAGAAC
57915171 AAAAACTACATTTAAGAAC
1 AAAAACTACATTTAAGAAC
57915190 AAA
1 AAA
57915193 GTTAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAACTACATTTAAGAAC
Found at i:57916246 original size:11 final size:11
Alignment explanation
Indices: 57916230--57916263 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57916220 TATTGCTTAA
57916230 GGGAGTAAAAG
1 GGGAGTAAAAG
57916241 GGGAGTAAAAG
1 GGGAGTAAAAG
* *
57916252 GGAAGAAAAAG
1 GGGAGTAAAAG
57916263 G
1 G
57916264 ATCCCTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (11 bp):
GGGAGTAAAAG
Found at i:57920375 original size:20 final size:20
Alignment explanation
Indices: 57920350--57920393 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
57920340 ATTACACAAA
57920350 TAAAAA-CAAAGAAAAAATAT
1 TAAAAAGCAAA-AAAAAATAT
* *
57920370 TAAAAAGCGAATAAAAATAT
1 TAAAAAGCAAAAAAAAATAT
57920390 TAAA
1 TAAA
57920394 TGAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (20 bp):
TAAAAAGCAAAAAAAAATAT
Found at i:57922105 original size:15 final size:15
Alignment explanation
Indices: 57922076--57922121 Score: 69
Period size: 14 Copynumber: 3.2 Consensus size: 15
57922066 TGTTTTTCGA
57922076 AAAATAATTTC-TGG
1 AAAATAATTTCTTGG
57922090 AAAATAATTTCTTGG
1 AAAATAATTTCTTGG
*
57922105 AAAATGATTT-TTGG
1 AAAATAATTTCTTGG
57922119 AAA
1 AAA
57922122 TTGATTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (15 bp):
AAAATAATTTCTTGG
Found at i:57922126 original size:14 final size:14
Alignment explanation
Indices: 57922062--57922128 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
57922052 ATTTGCAGGT
*
57922062 AAAATG-TTTTTCGA
1 AAAATGATTTTT-GG
* *
57922076 AAAATAATTTCTGG
1 AAAATGATTTTTGG
*
57922090 AAAATAATTTCTTGG
1 AAAATGATTT-TTGG
57922105 AAAATGATTTTTGG
1 AAAATGATTTTTGG
*
57922119 AAATTGATTT
1 AAAATGATTT
57922129 ACTTTTCTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 29 0.64
15 16 0.36
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:57922612 original size:22 final size:22
Alignment explanation
Indices: 57922587--57922635 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
57922577 ATCCGAGTGC
*
57922587 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
57922609 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
57922631 ATAAC
1 ATAAC
57922636 AACAATATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:57923672 original size:32 final size:32
Alignment explanation
Indices: 57923626--57923686 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
57923616 TGTCAATCAT
57923626 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
57923658 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
57923687 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:57923693 original size:27 final size:30
Alignment explanation
Indices: 57923626--57923699 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
57923616 TGTCAATCAT
*
57923626 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
57923658 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
57923686 -TCAATATCTAACAA
1 TTCAATATCTAACAA
57923700 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:57926806 original size:2 final size:2
Alignment explanation
Indices: 57926799--57926826 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57926789 CATCAATTGA
57926799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57926827 TAAACGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57928971 original size:5 final size:5
Alignment explanation
Indices: 57928961--57928986 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57928951 AATGAAGGTA
57928961 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
57928987 GGTTGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:57930397 original size:55 final size:54
Alignment explanation
Indices: 57930313--57930417 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 54
57930303 AACTGACCCT
*
57930313 AACAGAGCAGATTAAGAGTTCTTTTTTTTTAAAAAAAAAAGAGAAAAAAGGGGAG
1 AACAGAGCAGATTAAGAGTTCTTCTTTTTTAAAAAAAAAAGA-AAAAAAGGGGAG
* * **
57930368 AACAGAGCATATTAAGGGTTCTTCTTTTTTTTAAAAAAAAGAAAAAAAGG
1 AACAGAGCAGATTAAGAGTTCTTCTTTTTTAAAAAAAAAAGAAAAAAAGG
57930418 AGCTTAAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 8 0.18
55 37 0.82
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.27
Consensus pattern (54 bp):
AACAGAGCAGATTAAGAGTTCTTCTTTTTTAAAAAAAAAAGAAAAAAAGGGGAG
Found at i:57932652 original size:135 final size:130
Alignment explanation
Indices: 57932336--57932849 Score: 482
Period size: 131 Copynumber: 3.9 Consensus size: 130
57932326 TTTAAAAATT
* * * *
57932336 CTTTAAAACGAAGACGAGAT-TT-GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
1 CTTTAAAACAAAGAC-A-ATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGG
* * * * *
57932399 TTACAATTTCTCGTTTGCTCAAAATAATC-AAATATCCCTTCGAAATTTCACTCAGGTCTTCTAA
63 TTGCAATTTCTCGTTTGTTCAAAATAATCGAAAT-TCCTTTAG-AATTTCACTCAGGTTTTCTAA
*
57932463 AAATC
126 AAACC
* * * * * *
57932468 CTTTAAAACAAAGGCAATATTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGAGTTG
1 CTTTAAAACAAAGACAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** ** *
57932533 TGATTTCTCGTTTGTTCAAAATAATCGAACATTCCTTTAGGTTTTCACTCATGGTTTTTTCAAGA
66 CAATTTCTCGTTTGTTCAAAATAATCGAA-ATTCCTTTAGAATTTCACTCA-GG--TTTTCTA-A
57932598 AAACC
126 AAACC
* * *
57932603 CTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTG
1 CTTTAAAACAAAGACAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * *** * * * *
57932668 CGCTTTTTCATTTGTTCAAAACGGTCGAAGATCCCTTCAGAATTTCAGTCACGTTTTCTAAAAAC
66 CAATTTCTCGTTTGTTCAAAATAATCGAA-ATTCCTTTAGAATTTCACTCAGGTTTTCTAAAAAC
*
57932733 T
130 C
*
57932734 CTTTAAAACAGAA-AAAATGTTCGATGTTTGGCAATTCGGGAATAC-TGCCCTATCGTGCTGGGT
1 CTTTAAAACA-AAGACAATGTTCGATGTTTGGCAATTCGGGAAT-CGTGCCCTATCGTGCTGGGT
* * *
57932797 TGCAATCTCCCGTTTGTTCAAAATAATCG-AATATCTCTTTCGGAATTTCACTC
64 TGCAATTTCTCGTTTGTTCAAAATAATCGAAAT-TC-CTTT-AGAATTTCACTC
57932850 GTATTTTCTA
Statistics
Matches: 309, Mismatches: 60, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
129 2 0.01
130 4 0.01
131 139 0.45
132 55 0.18
133 2 0.01
134 6 0.02
135 101 0.33
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (130 bp):
CTTTAAAACAAAGACAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTG
CAATTTCTCGTTTGTTCAAAATAATCGAAATTCCTTTAGAATTTCACTCAGGTTTTCTAAAAACC
Found at i:57939728 original size:28 final size:28
Alignment explanation
Indices: 57939684--57939751 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
57939674 TATAAGATTG
*
57939684 GCACTAAGTGTGCGAGTTTAA-T-TGTATA
1 GCACTAAGTGTGAGAGTTTAACTAT-TA-A
57939712 GCACTAAGTGTGAGAGTTTAACTATTAA
1 GCACTAAGTGTGAGAGTTTAACTATTAA
57939740 GCACTAAGTGTG
1 GCACTAAGTGTG
57939752 CGAACTTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGAGAGTTTAACTATTAA
Found at i:57944663 original size:46 final size:45
Alignment explanation
Indices: 57944596--57944770 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
57944586 TGTAACCCGC
57944596 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
57944642 CCATAAGTGAACTCGGACTCAACTCAACTAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** *
57944688 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
57944735 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
57944771 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:57944716 original size:93 final size:93
Alignment explanation
Indices: 57944604--57944774 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57944594 GCCCATAAGT
*
57944604 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57944669 CTAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
57944697 GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57944762 CGAGTTCGGATGC
66 CGAGCTCGGATGC
57944775 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:57944790 original size:46 final size:46
Alignment explanation
Indices: 57944601--57944790 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
57944591 CCCGCCCATA
** * *
57944601 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
57944646 AAGTGAACTCGGACTCAACTCAACTAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
57944696 --CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGCTCAACCATCCT
*
57944740 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
57944786 AGTGA
1 AGTGA
57944791 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 62 0.54
47 27 0.24
48 2 0.02
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:57947535 original size:88 final size:87
Alignment explanation
Indices: 57947307--57947535 Score: 235
Period size: 88 Copynumber: 2.6 Consensus size: 87
57947297 AAGTGTTCTG
* * * *
57947307 CAGGTGACCCAGGGTGAAACATATGTCCAACGAGCCTAAAGCCTGCTTAGAATGCCAGTTCCAGG
1 CAGGTGACCCAGGGTGAAACATGTGCCCAACGAGCCTAAAGCCTGC-TAGAATGCCAGTCCCAAG
*
57947372 TATAGAGAGGACCATAAACACTA
65 TATAGAGAGGACCACAAACACTA
* * ** ** * *
57947395 CAGGCGACCTAGGGAAAAACATGTGCCCAGTGGGCCTAAAGCCCGCTCAGAATGTCC-GTCCCAA
1 CAGGTGACCCAGGGTGAAACATGTGCCCAACGAGCCTAAAGCCTGCT-AGAATG-CCAGTCCCAA
* *
57947459 GTATAGAGAGGACTACATACACTA
64 GTATAGAGAGGACCACAAACACTA
* * * **
57947483 TAGGTGACCCAGGGTGAAACACGTGCCCAACAAGCCTGGAGCCTGCATAGAAT
1 CAGGTGACCCAGGGTGAAACATGTGCCCAACGAGCCTAAAGCCTGC-TAGAAT
57947536 ATCAATTCTA
Statistics
Matches: 110, Mismatches: 28, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
87 1 0.01
88 106 0.96
89 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (87 bp):
CAGGTGACCCAGGGTGAAACATGTGCCCAACGAGCCTAAAGCCTGCTAGAATGCCAGTCCCAAGT
ATAGAGAGGACCACAAACACTA
Found at i:57952582 original size:47 final size:47
Alignment explanation
Indices: 57952510--57952636 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 47
57952500 GGGGTAAGGT
* *
57952510 GTCGATGCCTTGTCCCAGACATGGTCTTACACTGACT-TACATCTCAA
1 GTCGAAGCCATGTCCCAGACATGGTCTTACACTGACTAT-CATCTCAA
* * *
57952557 GTCGAAGCCATGTCCTAGACGTGGTCTTACACTGACTATCATCTCGTA
1 GTCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-AA
*
57952605 G-CCAA-CGCATGTCCCAGACAT-GTCTTACACTG
1 GTCGAAGC-CATGTCCCAGACATGGTCTTACACTG
57952637 GCTTACGTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 12 0.17
47 54 0.78
48 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GTCGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAA
Found at i:57960030 original size:43 final size:43
Alignment explanation
Indices: 57959967--57960055 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
57959957 ACGGTTTGCC
*
57959967 CTTAAAACTCATACTATGGTAAAATGACTATTTTG-CACTTAAA
1 CTTAAAACTCATACTATGGTAAAATGACCATTTTGTC-CTTAAA
* * *
57960010 CTTAAGACTCATACTTTGGTAAAATGACCGTTTTGTCCTTAAA
1 CTTAAAACTCATACTATGGTAAAATGACCATTTTGTCCTTAAA
57960053 CTT
1 CTT
57960056 TACAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (43 bp):
CTTAAAACTCATACTATGGTAAAATGACCATTTTGTCCTTAAA
Found at i:57965915 original size:21 final size:20
Alignment explanation
Indices: 57965886--57965925 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
57965876 CTTTGAAATA
57965886 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
57965906 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
57965926 ACTTGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.30, G:0.40, T:0.12
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:57967702 original size:29 final size:29
Alignment explanation
Indices: 57967667--57967740 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
57967657 GTTGTGAGAT
* *
57967667 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
57967696 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
57967725 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57967741 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:57969693 original size:42 final size:42
Alignment explanation
Indices: 57969614--57969695 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
57969604 CGTGCAGGGG
**
57969614 ACACACGGCCGAACAACACGCCCATGGGGCTGGCCGTGTGTT
1 ACACACGGCCGAACAACACGCCCATGGGGCTACCCGTGTGTT
* * *
57969656 ACACACGGCCTAGAC-ACACGCCCATGTGTCTACCCGTGTG
1 ACACACGGCCGA-ACAACACGCCCATGGGGCTACCCGTGTG
57969696 GACAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (42 bp):
ACACACGGCCGAACAACACGCCCATGGGGCTACCCGTGTGTT
Found at i:57974073 original size:23 final size:23
Alignment explanation
Indices: 57974038--57974084 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
57974028 ACATACTAAA
* *
57974038 TATATATATATTTTATTTTTAAT
1 TATATATACATTTTATTTTCAAT
*
57974061 TATATTTACATTTTATTTTCAAT
1 TATATATACATTTTATTTTCAAT
57974084 T
1 T
57974085 TTAATATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATATACATTTTATTTTCAAT
Found at i:57974200 original size:25 final size:24
Alignment explanation
Indices: 57974172--57974231 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
57974162 CTTATTTTAG
*
57974172 TATTTTATTT-TTATGTTTTTAAATA
1 TATTTTATTTATTAT-ATTTTAAA-A
*
57974197 TATTTAATTTATTATATTTTAAAA
1 TATTTTATTTATTATATTTTAAAA
*
57974221 TTTTTTATTTA
1 TATTTTATTTA
57974232 ATGAAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTTATTTATTATATTTTAAAA
Found at i:57974202 original size:24 final size:24
Alignment explanation
Indices: 57974175--57974231 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
57974165 ATTTTAGTAT
* *
57974175 TTTATTT-TTATGTTTTTAAATATA
1 TTTATTTATTATATTTTAAAAT-TA
*
57974199 TTTAATTTATTATATTTTAAAATTT
1 TTT-ATTTATTATATTTTAAAATTA
57974224 TTTATTTA
1 TTTATTTA
57974232 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 8 0.29
26 12 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATTTATTATATTTTAAAATTA
Found at i:57974221 original size:26 final size:25
Alignment explanation
Indices: 57974172--57974221 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
57974162 CTTATTTTAG
* * *
57974172 TATTTTATTTTTATGTTTTTAAATA
1 TATTTAATTTTTATATTTTAAAATA
57974197 TATTTAATTTATTATATTTTAAAAT
1 TATTTAATTT-TTATATTTTAAAAT
57974222 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTAATTTTTATATTTTAAAATA
Found at i:57978060 original size:40 final size:40
Alignment explanation
Indices: 57978001--57978152 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
57977991 CATTGGAATG
* * * *
57978001 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
57978041 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
57978081 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * *
57978121 AAATCTGGGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
57978153 GAATCACTAT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 90 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:57978103 original size:80 final size:80
Alignment explanation
Indices: 57978001--57978154 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
57977991 CATTGGAATG
* * ** *
57978001 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
57978066 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * * *
57978081 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCTGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
57978146 ATCGTGCGA
66 ATCGTGCGA
57978155 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:57978170 original size:80 final size:80
Alignment explanation
Indices: 57978001--57978187 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 80
57977991 CATTGGAATG
* ** *
57978001 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
* * ***
57978066 TTCGTGCGAGTTGTT
66 ATCGTGCGAATCACT
* * * * * *
57978081 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCTGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
57978146 ATCGTGCGAATCACT
66 ATCGTGCGAATCACT
* *
57978161 ATAAT-CGGGCTAGGTCCCGAAGACAAT
1 AT-ATCCGGGCTAAGTCCCGAAGGCAAT
57978188 CGAGCGAGTC
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
80 85 0.98
81 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAATCACT
Found at i:57981395 original size:68 final size:68
Alignment explanation
Indices: 57981248--57981403 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
57981238 AGCCGATTTG
* * * * *
57981248 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
57981313 TATC
65 TATA
* *
57981317 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
57981379 ATATAGTA
62 ATATA-TA
57981387 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
57981404 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:58004027 original size:27 final size:27
Alignment explanation
Indices: 58003970--58004027 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
58003960 AAATTTGTCT
* *
58003970 CTAAACTAGACACATTAAATTGATGTC
1 CTAAACTAGACACATTAAACTGATGTA
*
58003997 CTAAACTAGACACATTTAAGCT-ATGTA
1 CTAAACTAGACACA-TTAAACTGATGTA
58004024 CTAA
1 CTAA
58004028 TATAAGACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
CTAAACTAGACACATTAAACTGATGTA
Found at i:58010134 original size:22 final size:20
Alignment explanation
Indices: 58010095--58010134 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
58010085 GCTGGAACCA
58010095 TCCTTGAAGATTCTTGAACG
1 TCCTTGAAGATTCTTGAACG
*
58010115 TCCTTGGAAGCTTCCTTGAA
1 TCCTT-GAAGATT-CTTGAA
58010135 GTTTTCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCCTTGAAGATTCTTGAACG
Found at i:58010747 original size:27 final size:27
Alignment explanation
Indices: 58010690--58010747 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
58010680 AAATTTGTCT
* *
58010690 CTAAACTAGACACATTAAATTGATGTC
1 CTAAACTAGACACATTAAACTGATGTA
*
58010717 CTAAACTAGACACATTTAAGCT-ATGTA
1 CTAAACTAGACACA-TTAAACTGATGTA
58010744 CTAA
1 CTAA
58010748 TATAAGACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
CTAAACTAGACACATTAAACTGATGTA
Found at i:58018081 original size:19 final size:20
Alignment explanation
Indices: 58018057--58018094 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58018047 GGTACCACCA
58018057 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58018076 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58018095 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58018435 original size:93 final size:93
Alignment explanation
Indices: 58018324--58018494 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58018314 GCCCCTAAGT
* * * *
58018324 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
58018389 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
58018417 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
58018482 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58018495 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58018484 original size:46 final size:46
Alignment explanation
Indices: 58018319--58018491 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
58018309 AACCCGCCCC
* * * * *
58018319 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58018365 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
58018413 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
58018458 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58018492 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58018510 original size:46 final size:45
Alignment explanation
Indices: 58018369--58018510 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
58018359 CATCCATAAA
58018369 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
58018416 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
58018462 TGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
58018508 TGA
1 TGA
58018511 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:58022623 original size:23 final size:23
Alignment explanation
Indices: 58022569--58022629 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
58022559 GACACATAAA
58022569 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
58022590 GTGCCTG--ATACAACACACGAG
1 GTGCCTGAAATACGACACACGAG
58022611 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
58022630 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.71
23 9 0.26
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:58022637 original size:23 final size:23
Alignment explanation
Indices: 58022556--58022641 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
58022546 CTGATCAGAG
*
58022556 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
58022578 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* * *
58022598 TACAACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
58022621 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
58022642 TCGATAAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.63
23 18 0.35
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:58023037 original size:15 final size:15
Alignment explanation
Indices: 58023012--58023065 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
58023002 TCATATATAT
58023012 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
58023028 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
58023043 AAT-AATT---TCAA
1 TATAAATTCAATCAA
58023054 TATAAATTCAAT
1 TATAAATTCAAT
58023066 AAATTCATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 6 0.19
12 4 0.12
14 4 0.12
15 14 0.44
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:58024383 original size:8 final size:8
Alignment explanation
Indices: 58024370--58024398 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
58024360 ATATTTTATT
58024370 ATATAATA
1 ATATAATA
58024378 ATATAATA
1 ATATAATA
58024386 ATATAATA
1 ATATAATA
58024394 ATATA
1 ATATA
58024399 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:58025165 original size:22 final size:21
Alignment explanation
Indices: 58025140--58025181 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58025130 CAATTTTTAA
58025140 TTAAGAATGTTTTACAAAATTT
1 TTAAGAAT-TTTTACAAAATTT
*
58025162 TTAAGAATTTTTATAAAATT
1 TTAAGAATTTTTACAAAATT
58025182 AGGTTTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
TTAAGAATTTTTACAAAATTT
Found at i:58025725 original size:29 final size:29
Alignment explanation
Indices: 58025693--58025757 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
58025683 GGACAATATT
58025693 AAAATAAATAAATCATACATGTAATTAAA
1 AAAATAAATAAATCATACATGTAATTAAA
58025722 AAAATAAATAAATCATACATGTAATTAAA
1 AAAATAAATAAATCATACATGTAATTAAA
58025751 AAAATAA
1 AAAATAA
58025758 TTATTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (29 bp):
AAAATAAATAAATCATACATGTAATTAAA
Found at i:58030892 original size:63 final size:63
Alignment explanation
Indices: 58030776--58030904 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 63
58030766 GATATCTCTC
* *
58030776 ACACGGCTTGGACACACGCCCGTGTCTCTAGCCTATGTGACCCTATTTCCAAAACGGTGAGTT
1 ACACGGCTTGGACACACGCCCGTGTCTCTAGCCCATGTGACCCTATTTCCAAAACAGTGAGTT
* * *
58030839 ACACGGCTTGGACACACGCTCGTGTCTCTAGCCCATTTG-CCTCTAATTT-CAAAATAGTGAGTT
1 ACACGGCTTGGACACACGCCCGTGTCTCTAGCCCATGTGACC-CT-ATTTCCAAAACAGTGAGTT
58030902 ACA
1 ACA
58030905 AGGACTAACA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
62 2 0.03
63 53 0.90
64 4 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (63 bp):
ACACGGCTTGGACACACGCCCGTGTCTCTAGCCCATGTGACCCTATTTCCAAAACAGTGAGTT
Found at i:58039738 original size:29 final size:29
Alignment explanation
Indices: 58039676--58039743 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
58039666 ATTTGGTGCC
58039676 TATTTATTT-TTGCATTTTCTATTTTAGT
1 TATTTATTTATTGCATTTTCTATTTTAGT
** * *
58039704 CCTTTATTTATTTCATCTTT-TATTTTATT
1 TATTTATTTATTGCAT-TTTCTATTTTAGT
58039733 TATTTATTTAT
1 TATTTATTTAT
58039744 CTATCATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.22
29 22 0.69
30 3 0.09
ACGTcount: A:0.19, C:0.09, G:0.03, T:0.69
Consensus pattern (29 bp):
TATTTATTTATTGCATTTTCTATTTTAGT
Found at i:58043968 original size:23 final size:23
Alignment explanation
Indices: 58043942--58043987 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58043932 AGTGCTACAT
**
58043942 GTATTAACAGGACAAAAAAAAAA
1 GTATTAACAAAACAAAAAAAAAA
**
58043965 GTATTGGCAAAACAAAAAAAAAA
1 GTATTAACAAAACAAAAAAAAAA
58043988 TGAAAAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.65, C:0.09, G:0.13, T:0.13
Consensus pattern (23 bp):
GTATTAACAAAACAAAAAAAAAA
Found at i:58044091 original size:18 final size:18
Alignment explanation
Indices: 58044068--58044109 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58044058 AAATAAATTA
58044068 AATTTAATATATTAAAAT
1 AATTTAATATATTAAAAT
* * *
58044086 AATTTAATTTATTTAATT
1 AATTTAATATATTAAAAT
58044104 AATTTA
1 AATTTA
58044110 TTCAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTTAATATATTAAAAT
Found at i:58047343 original size:20 final size:20
Alignment explanation
Indices: 58047308--58047502 Score: 91
Period size: 20 Copynumber: 9.8 Consensus size: 20
58047298 ATTGCATAAT
* *
58047308 AGGGGCACCAAAGTGCAATC
1 AGGGGCACGAATGTGCAATC
* * *
58047328 AGGAGCACGAATGTGCGATT
1 AGGGGCACGAATGTGCAATC
*
58047348 AGGGGCACCGAA-GTGCAAAC
1 AGGGGCA-CGAATGTGCAATC
* * * * *
58047368 AAGGGCACAAATGTACATTT
1 AGGGGCACGAATGTGCAATC
* *
58047388 AGGGGCACCAAAGTGCAATC
1 AGGGGCACGAATGTGCAATC
*
58047408 AGGGGCAC-AGATGTGCATTC
1 AGGGGCACGA-ATGTGCAATC
* * *
58047428 A-GGGTACTGAA-GTACAAAC
1 AGGGGCAC-GAATGTGCAATC
* *
58047447 AAGGGCAC-AGATGTGCATTC
1 AGGGGCACGA-ATGTGCAATC
* *
58047467 AGGGGTATCGAA-GTACAAAT-
1 AGGGGCA-CGAATGTGC-AATC
58047487 AGGGGCACG-ATGTGCA
1 AGGGGCACGAATGTGCA
58047503 TTCAAGAGTA
Statistics
Matches: 126, Mismatches: 37, Indels: 26
0.67 0.20 0.14
Matches are distributed among these distances:
18 3 0.02
19 21 0.17
20 92 0.73
21 9 0.07
22 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (20 bp):
AGGGGCACGAATGTGCAATC
Found at i:58047351 original size:40 final size:37
Alignment explanation
Indices: 58047307--58047471 Score: 143
Period size: 40 Copynumber: 4.2 Consensus size: 37
58047297 AATTGCATAA
58047307 TAGGGGCACCAAAGTGCAATCAGGAGCACGAATGTGCGAT
1 TAGGGGCACCAAAGTGCAATCAGG-GCAC-AATGTGC-AT
* * *
58047347 TAGGGGCACCGAAGTGCAAACAAGGGCACAAATGTACATT
1 TAGGGGCACCAAAGTGCAATC-AGGGCAC-AATGTGCA-T
58047387 TAGGGGCACCAAAGTGCAATCAGGGGCACAGATGTGCAT
1 TAGGGGCACCAAAGTGCAATCA-GGGCACA-ATGTGCAT
* ** * *
58047426 TCA-GGGTACTGAAGTACAAACAAGGGCACAGATGTGCAT
1 T-AGGGGCACCAAAGTGCAATC-AGGGCACA-ATGTGCAT
58047465 TCAGGGG
1 T-AGGGG
58047472 TATCGAAGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 37 0.35
40 66 0.62
41 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.32, T:0.16
Consensus pattern (37 bp):
TAGGGGCACCAAAGTGCAATCAGGGCACAATGTGCAT
Done.