Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 298 of 335
Found at i:88870725 original size:21 final size:21
Alignment explanation
Indices: 88870684--88870725 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
88870674 AGTTTTATAA
* *
88870684 TATTTTAGATATTATTTAATT
1 TATTTTAAATATTATTAAATT
88870705 TATTTTATAATATT-TTAAATT
1 TATTTTA-AATATTATTAAATT
88870726 ATGAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTAAATATTATTAAATT
Found at i:88870745 original size:29 final size:29
Alignment explanation
Indices: 88870682--88870753 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
88870672 TTAGTTTTAT
* * *
88870682 AATATTTTAGATATTATTTAATTTATTTTAT
1 AATATTTTA-A-ATTATTGAATTTATTTAAA
88870713 AATATTTTAAATTA-TGAATTTATTTAAAA
1 AATATTTTAAATTATTGAATTTATTT-AAA
*
88870742 AATAATTTAAAT
1 AATATTTTAAAT
88870754 ATCTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.28
29 16 0.44
30 1 0.03
31 9 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
AATATTTTAAATTATTGAATTTATTTAAA
Found at i:88876996 original size:3 final size:3
Alignment explanation
Indices: 88876767--88876985 Score: 234
Period size: 3 Copynumber: 74.3 Consensus size: 3
88876757 TAATTTAATG
* *
88876767 TAT TAT TAT TAT TAC TCT TAT T-T TCAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* *
88876812 TA- TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
88876859 TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * **
88876905 TAT TAT CAT TGT TAT TAT TTT TAT TTT TGT TGC TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
88876952 TAA TAT TAC TAT TGT TA- TATT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
88876986 GCTTTTATTA
Statistics
Matches: 180, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
2 12 0.07
3 164 0.91
4 4 0.02
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88877266 original size:3 final size:3
Alignment explanation
Indices: 88877245--88877285 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
88877235 TACATAATAC
* * *
88877245 TTA TTT TTA TTA TTT TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
88877286 TTCTTCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:88878553 original size:2 final size:2
Alignment explanation
Indices: 88878546--88878581 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88878536 ACCATTTAAT
88878546 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
88878582 ACAACATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88879735 original size:24 final size:25
Alignment explanation
Indices: 88879701--88879804 Score: 74
Period size: 25 Copynumber: 4.2 Consensus size: 25
88879691 ATACATGTAT
*
88879701 GCTCATGCGAGC-G-ATAAACGGTAA
1 GCTCATCCGAGCTGAAT-AACGGTAA
*
88879725 GCTCATCCGAGCTGAATATCGGTAA
1 GCTCATCCGAGCTGAATAACGGTAA
** * *
88879750 GCTCATATGAGCTGAGTATC-GTAA
1 GCTCATCCGAGCTGAATAACGGTAA
* *
88879774 GCTC-TCACGAGATGCAA-ACCGGTAA
1 GCTCATC-CGAGCTG-AATAACGGTAA
88879799 GCTCAT
1 GCTCAT
88879805 AAGAGCTGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 26 0.41
25 34 0.53
26 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTCATCCGAGCTGAATAACGGTAA
Found at i:88879753 original size:25 final size:25
Alignment explanation
Indices: 88879719--88879804 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
88879709 GAGCGATAAA
88879719 CGGTAAGCTCATCCGAGCTGAATAT
1 CGGTAAGCTCATCCGAGCTGAATAT
** *
88879744 CGGTAAGCTCATATGAGCTGAGTAT
1 CGGTAAGCTCATCCGAGCTGAATAT
* *
88879769 C-GTAAGCTC-TCACGAGATGCAA-AC
1 CGGTAAGCTCATC-CGAGCTG-AATAT
88879793 CGGTAAGCTCAT
1 CGGTAAGCTCAT
88879805 AAGAGCTGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
23 1 0.02
24 15 0.31
25 32 0.65
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCATCCGAGCTGAATAT
Found at i:88881306 original size:2 final size:2
Alignment explanation
Indices: 88881301--88881335 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
88881291 TAGATATATA
*
88881301 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
88881336 TTAATGAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:88884832 original size:2 final size:2
Alignment explanation
Indices: 88884825--88884854 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88884815 TAGAAGTCCC
88884825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88884855 CTCTTCGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88890975 original size:105 final size:105
Alignment explanation
Indices: 88890792--88890996 Score: 261
Period size: 105 Copynumber: 2.0 Consensus size: 105
88890782 TATTGTCACA
* * *
88890792 TATAATATATTGATTGATGCACTTTGCAAGGAAGGAACGATTTCTAAAGCTGTAGAGACTGTTGA
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGACTGTTGA
88890857 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
66 CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
* * * * * *
88890897 TATAATAAATTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTG-AG-GATATCGTT
1 TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGA-CT-GTT
* * * *
88890960 GACGCAATGATAAAGCGAGGCATTGAGCCTAATGTTG
64 GACACAATGAGAAAGCAAGGCATTGAACCTAATGTTG
88890997 TTACCCATAA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
103 2 0.02
104 3 0.04
105 80 0.94
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (105 bp):
TATAATAAATTGATTGATGCACATTGCAAGGAAGGAACGATCTCTAAAGCTGTAGAGACTGTTGA
CACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACG
Found at i:88891536 original size:378 final size:378
Alignment explanation
Indices: 88890841--88891590 Score: 1313
Period size: 378 Copynumber: 2.0 Consensus size: 378
88890831 ATTTCTAAAG
*
88890841 CTGTAGAGACTGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
88890906 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
88890971 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* *
88891036 ACGAAATGGATAAAGCTGGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
* * *
88891101 GTTACTTACAGCACCATGATCAATGGATATTACAAAGCGAAGAGGTTAGACGAAGCAATGGAACT
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
88891166 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAGCA
326 CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAGCA
* * *
88891219 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGTCACGTATAGTACA
1 CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
* *
88891284 TTGGTTGATGCGCATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGTCGCAATGAT
66 TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
*
88891349 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCTTAATGCATTAATCAACGGCCATTGCTTGCAGA
131 AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
* * *
88891414 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTTTGCACGTGATATA
196 ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
*
88891479 GTTACTTACAACACCATGATAAATGGATATTGCAAAG-GTAAAAGGTTAGACGAAGCAATGGAAC
261 GTTACTTACAACACCATGATAAATGGATATTACAAAGCG-AAAAGGTTAGACGAAGCAATGGAAC
* * *
88891543 TCTTTCATGAAATATCTCGAAAGGGACCAATCCTGGATACTGTCACAT
325 TCTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACAT
88891591 GCAACACTCT
Statistics
Matches: 352, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
377 1 0.00
378 351 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (378 bp):
CTGTAGAGACCGTTGACACAATGAGAAAGCAAGGCATTGAACCTAATGTTGCCACGTATAATAAA
TTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGAGGATATCGTTGACGCAATGAT
AAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATTGCTTGCAGA
ACAAAATGGATAAAGCTAGAAGACTTTTCAACTTGATGATTGAGAAGGGTTGTGCACCTAATATA
GTTACTTACAACACCATGATAAATGGATATTACAAAGCGAAAAGGTTAGACGAAGCAATGGAACT
CTTTCATGAAATATCTCAAAAGGGACCAATCCCGAATACTGTCACATACAGCA
Found at i:88894259 original size:21 final size:22
Alignment explanation
Indices: 88894227--88894284 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
88894217 GAAAACCAAA
88894227 TGTT-AATT-CATATATAACAT
1 TGTTCAATTACATATATAACAT
*
88894247 T-TTCAATTACATACAT-ACAT
1 TGTTCAATTACATATATAACAT
*
88894267 TGTTGAATTATCA-ATATA
1 TGTTCAATTA-CATATATA
88894285 GGCTTATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 16 0.53
22 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TGTTCAATTACATATATAACAT
Found at i:88896129 original size:16 final size:19
Alignment explanation
Indices: 88896108--88896153 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
88896098 TGAGCATGGA
88896108 ACAATAATAC-A-TGAAT-
1 ACAATAATACAAGTGAATG
88896124 ACAATATTATACAAGTGAATG
1 ACAATA--ATACAAGTGAATG
88896145 ACAATAATA
1 ACAATAATA
88896154 AGAAAATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.24
18 4 0.16
19 4 0.16
20 5 0.20
21 6 0.24
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (19 bp):
ACAATAATACAAGTGAATG
Found at i:88896345 original size:26 final size:25
Alignment explanation
Indices: 88896245--88896402 Score: 110
Period size: 26 Copynumber: 6.3 Consensus size: 25
88896235 CAAAAGAATG
* * *
88896245 AAATAAATAACAT-CAAACAATTTA
1 AAATAAATAATATAAAAATAATTTA
* *
88896269 AAATAAATAATGA-GACAAT--TTTA
1 AAATAAATAAT-ATAAAAATAATTTA
*
88896292 AAATAATTAATACATAAAAATAAGTTTA
1 AAATAAATAAT--ATAAAAATAA-TTTA
* *
88896320 AAATAAATATTATAAAAAGCAATTTA
1 AAATAAATAATATAAAAA-TAATTTA
* * * *
88896346 GAGTGAATAGTAT-AAAATAATTTA
1 AAATAAATAATATAAAAATAATTTA
*
88896370 AAATAATTAATATACAAAATAATTTA
1 AAATAAATAATATA-AAAATAATTTA
88896396 AAATAAA
1 AAATAAA
88896403 ATAACACAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
23 14 0.14
24 25 0.25
25 11 0.11
26 37 0.36
27 2 0.02
28 13 0.13
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
AAATAAATAATATAAAAATAATTTA
Found at i:88896423 original size:24 final size:24
Alignment explanation
Indices: 88896396--88896445 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
88896386 AAATAATTTA
88896396 AAATAA-A-ATAACACAACTTAAAAT
1 AAATAATATATAACA-AA-TTAAAAT
88896420 AAATAATATATAACAAATTAAAAT
1 AAATAATATATAACAAATTAAAAT
88896444 AA
1 AA
88896446 CATATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 15 0.62
25 3 0.12
26 6 0.25
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATAATATATAACAAATTAAAAT
Found at i:88896427 original size:46 final size:44
Alignment explanation
Indices: 88896367--88896471 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 44
88896357 ATAAAATAAT
*
88896367 TTAAAATAATTAATATACAAAATAATTTAAAATAAAATA-ACACAAC
1 TTAAAATAAATAATATACAAAA-AA-TTAAAATAAAATATACA-AAC
* * * * *
88896413 TTAAAATAAATAATATATAACAAATTAAAATAACATATAGAAAG
1 TTAAAATAAATAATATACAAAAAATTAAAATAAAATATACAAAC
88896457 TCTAAAATAAATAAT
1 T-TAAAATAAATAAT
88896472 CTGTAAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 15 0.29
45 17 0.33
46 19 0.37
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.29
Consensus pattern (44 bp):
TTAAAATAAATAATATACAAAAAATTAAAATAAAATATACAAAC
Found at i:88896547 original size:23 final size:23
Alignment explanation
Indices: 88896504--88896548 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
88896494 AATAATATAC
*
88896504 ATAAAATAAAAATAGTTTAAAAA
1 ATAAAATAAAAATAGTATAAAAA
88896527 ATAAAATAAATAAT-GTATAAAA
1 ATAAAATAAA-AATAGTATAAAA
88896549 GAGTTTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
ATAAAATAAAAATAGTATAAAAA
Found at i:88896801 original size:26 final size:26
Alignment explanation
Indices: 88896744--88896801 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
88896734 GTATCAGAAC
*
88896744 AGTTTAAAATGAATACTATATAAAGA
1 AGTTTAAAACGAATACTATATAAAGA
*
88896770 AATTTAAAACGAATAAC-ATATAAA-A
1 AGTTTAAAACGAAT-ACTATATAAAGA
88896795 TAGTTTA
1 -AGTTTA
88896802 TAAAAGCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 24 0.89
27 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (26 bp):
AGTTTAAAACGAATACTATATAAAGA
Found at i:88897169 original size:30 final size:29
Alignment explanation
Indices: 88897127--88897183 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
88897117 TCATGTTTAT
* * * *
88897127 AATTGCATTAAATTAAAGTTTGTGTATCA
1 AATTGCAATAAATCAAAATTTATGTATCA
88897156 AATTGCACATAAATCAAAATTTATGTAT
1 AATTGCA-ATAAATCAAAATTTATGTAT
88897184 AATTTTGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 7 0.30
30 16 0.70
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (29 bp):
AATTGCAATAAATCAAAATTTATGTATCA
Found at i:88897745 original size:32 final size:31
Alignment explanation
Indices: 88897705--88897769 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
88897695 TTATTATTTT
88897705 TTTAAAATTTAAAACATAAAAATA-T-AAAATA
1 TTTAAAATTTAAAA-A-AAAAATATTAAAAATA
*
88897736 TTTATAAATTTATAAAAAAAATATTAAAAATA
1 TTTA-AAATTTAAAAAAAAAATATTAAAAATA
88897768 TT
1 TT
88897770 ATTTGACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 6 0.20
32 17 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTAAAATTTAAAAAAAAAATATTAAAAATA
Found at i:88903013 original size:26 final size:26
Alignment explanation
Indices: 88902972--88903021 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
88902962 TTCAATCACT
**
88902972 TGTTGAAACCTGAAAACCTGAAAACC
1 TGTTGAAACCCAAAAACCTGAAAACC
88902998 TGTTGAAACCCAAAAACCTGAAAA
1 TGTTGAAACCCAAAAACCTGAAAA
88903022 ATTACAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (26 bp):
TGTTGAAACCCAAAAACCTGAAAACC
Found at i:88906767 original size:15 final size:15
Alignment explanation
Indices: 88906747--88906775 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88906737 GTATTGTTGT
88906747 TTGATAACATGGTGA
1 TTGATAACATGGTGA
88906762 TTGATAACATGGTG
1 TTGATAACATGGTG
88906776 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:88910113 original size:25 final size:27
Alignment explanation
Indices: 88910076--88910128 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
88910066 TCAAACATGC
88910076 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
88910102 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
88910128 A
1 A
88910129 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:88911644 original size:26 final size:26
Alignment explanation
Indices: 88911613--88911720 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
88911603 TGAAATGCCC
*
88911613 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88911639 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
88911665 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
88911691 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88911717 ATCA
1 ATCA
88911721 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88913359 original size:2 final size:2
Alignment explanation
Indices: 88913352--88913378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88913342 AAATTATAAA
88913352 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 A
88913379 AAAAACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88914986 original size:15 final size:16
Alignment explanation
Indices: 88914966--88914998 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
88914956 ATATATTTTT
88914966 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
88914981 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
88914998 T
1 T
88914999 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:88915070 original size:20 final size:21
Alignment explanation
Indices: 88915045--88915091 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
88915035 GTTTTAAAAA
*
88915045 TTGTTTTAGTA-TTATTTTAT
1 TTGTTTTAATATTTATTTTAT
88915065 TTGTTTTAATATTTATTTT-T
1 TTGTTTTAATATTTATTTTAT
*
88915085 ATGTTTT
1 TTGTTTT
88915092 TAAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (21 bp):
TTGTTTTAATATTTATTTTAT
Found at i:88915100 original size:24 final size:25
Alignment explanation
Indices: 88915073--88915132 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
88915063 ATTTGTTTTA
*
88915073 ATATTTATTT-TTATGTTTTTAAAT
1 ATATTTATTTATTATATTTTTAAAT
88915097 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTTATTATATTTTTAAAT
*
88915123 -TTTTTATTTA
1 ATATTTATTTA
88915133 ATGAAATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.34
25 8 0.25
26 13 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATATTTATTTATTATATTTTTAAAT
Found at i:88917308 original size:26 final size:26
Alignment explanation
Indices: 88917279--88917330 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
88917269 TCAATCTTGC
88917279 TCTGAAATGTTTCACAAATTGTGTAA
1 TCTGAAATGTTTCACAAATTGTGTAA
88917305 TCTGAAATGTTTCACAAATTGTGTAA
1 TCTGAAATGTTTCACAAATTGTGTAA
88917331 AGATCATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (26 bp):
TCTGAAATGTTTCACAAATTGTGTAA
Found at i:88919516 original size:36 final size:36
Alignment explanation
Indices: 88919469--88919542 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
88919459 CTTCTCTTGA
*
88919469 TGAAATCGCCACCAAAAGAATACCTCATTAGATAAT
1 TGAAATCGCCACCAAAAGAATACCTCATTAAATAAT
88919505 TGAAATCGCCACCAAAAGAATACCTCATTAAATAAT
1 TGAAATCGCCACCAAAAGAATACCTCATTAAATAAT
88919541 TG
1 TG
88919543 TTCTTTCCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.23
Consensus pattern (36 bp):
TGAAATCGCCACCAAAAGAATACCTCATTAAATAAT
Found at i:88923425 original size:28 final size:28
Alignment explanation
Indices: 88923296--88923432 Score: 150
Period size: 28 Copynumber: 4.9 Consensus size: 28
88923286 AAAAATCCAT
* * *
88923296 ATGGACTATCTTTCAAGTAGAAGTTCGT
1 ATGGACTATCTTTCAAGTAAAAGTCCGC
* *
88923324 ATGAACTATCTTTCAAGTAAGAGTCCGTC
1 ATGGACTATCTTTCAAGTAAAAGTCCG-C
** *
88923353 -TGGACTATCTTTCAAGTACGAGTCCAC
1 ATGGACTATCTTTCAAGTAAAAGTCCGC
* **
88923380 ATGGACTATCTTTCAAGCAAAAGTTTGC
1 ATGGACTATCTTTCAAGTAAAAGTCCGC
*
88923408 ATGGACTATCTTTCAAGCAAAAGTC
1 ATGGACTATCTTTCAAGTAAAAGTC
88923433 TGTAGGAACC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 91 0.99
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (28 bp):
ATGGACTATCTTTCAAGTAAAAGTCCGC
Found at i:88923546 original size:14 final size:14
Alignment explanation
Indices: 88923529--88923607 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
88923519 TCGCATGCAC
*
88923529 GAATTTGCATCTAT
1 GAATCTGCATCTAT
*
88923543 GAATCTGCATGTAT
1 GAATCTGCATCTAT
***
88923557 GAATCCATATCTAT
1 GAATCTGCATCTAT
* ** *
88923571 GATTCCACATGTAT
1 GAATCTGCATCTAT
* *
88923585 GAATTTGTATCTAT
1 GAATCTGCATCTAT
*
88923599 AAATCTGCA
1 GAATCTGCA
88923608 CGTATGAAAT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (14 bp):
GAATCTGCATCTAT
Found at i:88923560 original size:28 final size:28
Alignment explanation
Indices: 88923529--88923620 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 28
88923519 TCGCATGCAC
*
88923529 GAATTTGCATCTATGAATCTGCATGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
*** * **
88923557 GAATCCATATCTATGATTCCACATGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
* *
88923585 GAATTTGTATCTATAAATCTGCACGTAT
1 GAATTTGTATCTATGAATCTGCATGTAT
*
88923613 GAAATTGT
1 GAATTTGT
88923621 GAAAAAATAA
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (28 bp):
GAATTTGTATCTATGAATCTGCATGTAT
Found at i:88925404 original size:2 final size:2
Alignment explanation
Indices: 88925326--88925394 Score: 51
Period size: 2 Copynumber: 36.0 Consensus size: 2
88925316 ACACCTTCTA
* *
88925326 AT AT AT AT AT AT AT AT AT AT AT GAT AT AT GAT -T GAT -T TT TT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT -AT AT AT AT
88925367 AT AT AT AT -T A- AT AT AT -T AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88925395 TTTAATATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
1 6 0.11
2 46 0.81
3 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (2 bp):
AT
Found at i:88926676 original size:23 final size:23
Alignment explanation
Indices: 88926648--88926698 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
88926638 ACAGGTCAAG
* *
88926648 TTTTAAATATTATTATAACACTA
1 TTTTAAATATTATTATAAAAATA
88926671 TTTTAAATATTATTATAAAAATA
1 TTTTAAATATTATTATAAAAATA
88926694 TTTTA
1 TTTTA
88926699 TTATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAATATTATTATAAAAATA
Found at i:88929345 original size:28 final size:28
Alignment explanation
Indices: 88929304--88929438 Score: 164
Period size: 28 Copynumber: 4.8 Consensus size: 28
88929294 TGAAGCAAAT
88929304 GTCCACATCG-ACTATCTTTCAAGTAGGA
1 GTCCACAT-GAACTATCTTTCAAGTAGGA
88929332 GTCCACATGAACTATCTTTCAAGTAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
*
88929360 GTCCATATGAACTATCTTTCAAGTAGGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
* * * * * *
88929388 GTTCGCTTGGACTATCTTTCAAGCAAGA
1 GTCCACATGAACTATCTTTCAAGTAGGA
** *
88929416 GTCTGCATGGACTATCTTTCAAG
1 GTCCACATGAACTATCTTTCAAG
88929439 CAAAAGTCTG
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 1 0.01
28 94 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (28 bp):
GTCCACATGAACTATCTTTCAAGTAGGA
Found at i:88929446 original size:28 final size:28
Alignment explanation
Indices: 88929395--88929448 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
88929385 GGAGTTCGCT
*
88929395 TGGACTATCTTTCAAGCAAGAGTCTGCA
1 TGGACTATCTTTCAAGCAAAAGTCTGCA
88929423 TGGACTATCTTTCAAGCAAAAGTCTG
1 TGGACTATCTTTCAAGCAAAAGTCTG
88929449 TAGGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (28 bp):
TGGACTATCTTTCAAGCAAAAGTCTGCA
Found at i:88929608 original size:28 final size:28
Alignment explanation
Indices: 88929534--88929629 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
88929524 AGAATGAGTT
* * * * *
88929534 CACATGCACGAATTCGCATATATAAATC
1 CACATGTATGAATTCGTATCTATGAATC
*
88929562 CACATGTATGAATTCGTATCTATGATTC
1 CACATGTATGAATTCGTATCTATGAATC
*
88929590 CACATGTATGAATTTGTATCTATGAATC
1 CACATGTATGAATTCGTATCTATGAATC
**
88929618 TGCATGTATGAA
1 CACATGTATGAA
88929630 ATCAATGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (28 bp):
CACATGTATGAATTCGTATCTATGAATC
Found at i:88930863 original size:2 final size:2
Alignment explanation
Indices: 88930808--88930848 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
88930798 ATATCTCCTA
88930808 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT
88930849 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 31 0.86
3 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:88930939 original size:34 final size:34
Alignment explanation
Indices: 88930891--88930958 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
88930881 AAGTCAGAAC
*
88930891 AATCTTTTTGAGGGGCCGAATGAAATTTTAATTT
1 AATCTTTTTAAGGGGCCGAATGAAATTTTAATTT
88930925 AATCTTTTTAAGGGGCCGAATGAAATTTTAATTT
1 AATCTTTTTAAGGGGCCGAATGAAATTTTAATTT
88930959 TTTATAGTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (34 bp):
AATCTTTTTAAGGGGCCGAATGAAATTTTAATTT
Found at i:88931901 original size:29 final size:29
Alignment explanation
Indices: 88931855--88931911 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
88931845 TAATAATTCA
* * *
88931855 ACTCTTTTTGAAATATTGATGGTCAAATG
1 ACTCTTTTTCAAAAATTGAGGGTCAAATG
88931884 ACTCTTTTTCAAAAATTGAGGGTCAAAT
1 ACTCTTTTTCAAAAATTGAGGGTCAAAT
88931912 TTAGCTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (29 bp):
ACTCTTTTTCAAAAATTGAGGGTCAAATG
Found at i:88932265 original size:24 final size:26
Alignment explanation
Indices: 88932238--88932285 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
88932228 CCTATTTCAT
*
88932238 TAAAT-AAA-AAATTTTAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
*
88932262 TAAATCAAATACATTTAAAAATAT
1 TAAATCAAATAAATTTAAAAATAT
88932286 TAAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAATCAAATAAATTTAAAAATATAA
Found at i:88932289 original size:24 final size:25
Alignment explanation
Indices: 88932250--88932296 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
88932240 AATAAAAAAT
*
88932250 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAATAAAACAAATACA
*
88932275 TTTAAAA-ATATTAAAACAAATA
1 TTTAAAATATAATAAAACAAATA
88932297 TTAAAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAATATAATAAAACAAATACA
Found at i:88932295 original size:12 final size:12
Alignment explanation
Indices: 88932280--88932305 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88932270 ATACATTTAA
88932280 AAATATTAAAAC
1 AAATATTAAAAC
88932292 AAATATTAAAAC
1 AAATATTAAAAC
88932304 AA
1 AA
88932306 GAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:88938623 original size:5 final size:6
Alignment explanation
Indices: 88938608--88938640 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
88938598 AAAGCTTTGA
*
88938608 AAAAAT AAAAAT AAAAAC AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
88938641 TCCATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:88946241 original size:46 final size:46
Alignment explanation
Indices: 88946174--88946265 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
88946164 CCCAAGTTTG
* *
88946174 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTTCGATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
88946220 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
1 TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
88946266 CTTTTATCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (46 bp):
TTATTGAATGCTCAAATACTTAGAAATAGAGAGTGCAATAGTGTAC
Found at i:88948034 original size:16 final size:16
Alignment explanation
Indices: 88948013--88948059 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
88948003 GAGAGGAAAT
88948013 AAAATTAGAAAGATGA
1 AAAATTAGAAAGATGA
*
88948029 AAAATTA-AAGAGGTGGA
1 AAAATTAGAA-AGAT-GA
88948046 AAAA-TAGAAAGATG
1 AAAATTAGAAAGATG
88948060 GAAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAAGATGA
Found at i:88966564 original size:18 final size:18
Alignment explanation
Indices: 88966541--88966577 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88966531 TATAATTTGG
* *
88966541 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
88966559 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
88966577 T
1 T
88966578 CAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:88972210 original size:16 final size:16
Alignment explanation
Indices: 88972181--88972221 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
88972171 AGATTCAATT
* *
88972181 ATATTAATATTATTTA
1 ATATTAAAAATATTTA
*
88972197 ATTTTAAAAATATTTA
1 ATATTAAAAATATTTA
88972213 ATATTAAAA
1 ATATTAAAA
88972222 TAACACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAAAATATTTA
Found at i:88974209 original size:2 final size:2
Alignment explanation
Indices: 88974202--88974235 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
88974192 AATTGACATC
88974202 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
88974236 AAGAGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88974695 original size:2 final size:2
Alignment explanation
Indices: 88974684--88974714 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
88974674 CCTACGATCT
88974684 TA TA -A 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
88974715 AATAAAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:88976105 original size:35 final size:35
Alignment explanation
Indices: 88976039--88976105 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
88976029 TCCTAATTTC
* *
88976039 AAAAGTTTTAATTTTATCTTAAAAAATAAATATAA
1 AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
88976074 AAAAGTATTAAATTTAAT-TTAATAAAA-AAATA
1 AAAAGT-TTAAATTTAATCTTAA-AAAATAAATA
88976106 CATTTCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (35 bp):
AAAAGTTTAAATTTAATCTTAAAAAATAAATATAA
Found at i:88981613 original size:22 final size:23
Alignment explanation
Indices: 88981583--88981626 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
88981573 ATATTAAATA
88981583 ATAATTAAAATTATATATTTATG
1 ATAATTAAAATTATATATTTATG
*
88981606 ATAA-TAAATTTATATATTTAT
1 ATAATTAAAATTATATATTTAT
88981627 TAAATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAATTAAAATTATATATTTATG
Found at i:88985214 original size:276 final size:276
Alignment explanation
Indices: 88984722--88985274 Score: 973
Period size: 276 Copynumber: 2.0 Consensus size: 276
88984712 CCATTAGACA
*
88984722 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAATGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
*
88984787 GCAACCACCTTATGAGGCGGTATCTAGCAGATTTGGGGTTTGATCTCAGCATATGCAGCTTTCGT
66 GCAACCACCTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCGT
* * *
88984852 TATAACAAAAGGAAGATTTAATCAGAACTTGCCTGCGCTGCTTACTCGGGCGACTTTATTGCACT
131 TATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGCTGCTTACTCGGGCGACTTTATTGCACT
* *
88984917 GTGCATTATACCTTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGGAACAGAAGTGCAGAAAAG
196 GTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAAG
88984982 GC-AAAAATCAGAAAT
261 GCAAAAAATCAGAAAT
* * * *
88984997 CTTCATGGAACATTATGAATATTGAAGCATCTAATCCGAGCCCACGGCTTAGCCCGCTGGTTCTT
1 CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
88985062 GCAACCACCTTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
66 GCAACCACC-TTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCG
* *
88985127 TTATAACAAAAGAAAGATTTAACCAGAACTTGTCTGAGTTGCTTACTCGGGCGACTTTATTGCAC
130 TTATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGCTGCTTACTCGGGCGACTTTATTGCAC
88985192 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
195 TGTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAA
88985257 GGCAAAAAATCAGAAAT
260 GGCAAAAAATCAGAAAT
88985274 C
1 C
88985275 GAGTCTTTTC
Statistics
Matches: 263, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
275 69 0.26
276 180 0.68
277 14 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (276 bp):
CTTCATGGAACATTATAAATATTGAACCATCTAATCCGAACCCAAGGCTTAGCCCGCTGGTTCTT
GCAACCACCTTATGAGGCGGTATCTAGCAGATTTGGGATTTGATCTCAGCATATGCAGCTTTCGT
TATAACAAAAGAAAGATTTAACCAGAACTTGCCTGAGCTGCTTACTCGGGCGACTTTATTGCACT
GTGCATTATACCCTTGAAGTAACAGAAGATGTAAAGGCACAGAAAGAAACAGAAGTGCAGAAAAG
GCAAAAAATCAGAAAT
Found at i:88987472 original size:45 final size:45
Alignment explanation
Indices: 88987408--88987499 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
88987398 TCCAAGTAAC
* *
88987408 AATTCAACGATTGGTACGATGAATCATTACCAATTGACGAATAAA
1 AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
* * *
88987453 AATTCAACGATTGCTACGATGGACCATTACCTATTGACGAGTAAA
1 AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
88987498 AA
1 AA
88987500 AACATATCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (45 bp):
AATTCAACGATTGCTACGATGAACCATTACCAATTGACGAATAAA
Found at i:88988473 original size:20 final size:20
Alignment explanation
Indices: 88988436--88988473 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88988426 TTAATCAAAT
* *
88988436 TTAAACTTCATATCAAAAGA
1 TTAAAATTCATATAAAAAGA
88988456 TTAAAATTCATATAAAAA
1 TTAAAATTCATATAAAAA
88988474 CCCTTCCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
TTAAAATTCATATAAAAAGA
Found at i:88989777 original size:29 final size:29
Alignment explanation
Indices: 88989743--88989828 Score: 154
Period size: 29 Copynumber: 3.0 Consensus size: 29
88989733 GAAAAGAAAG
88989743 GAGGTGATGTATTACGATGTTGAAAGCAC
1 GAGGTGATGTATTACGATGTTGAAAGCAC
*
88989772 GAGGTGATGTATTACGATGTTGAAAGCAG
1 GAGGTGATGTATTACGATGTTGAAAGCAC
*
88989801 GAGGTGATGTATTACAATGTTGAAAGCA
1 GAGGTGATGTATTACGATGTTGAAAGCA
88989829 ATACCTATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (29 bp):
GAGGTGATGTATTACGATGTTGAAAGCAC
Found at i:88996159 original size:15 final size:14
Alignment explanation
Indices: 88996141--88996188 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
88996131 TATATAATCA
88996141 TTTACTTATTTTAAC
1 TTTACTTATTTT-AC
*
88996156 TTTACTTTTGTTTAC
1 TTTACTTAT-TTTAC
*
88996171 TTTTATTTATTTTAC
1 -TTTACTTATTTTAC
88996186 TTT
1 TTT
88996189 CAATCAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.11
15 15 0.54
16 10 0.36
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTACTTATTTTAC
Found at i:88996295 original size:75 final size:75
Alignment explanation
Indices: 88996215--88996366 Score: 259
Period size: 75 Copynumber: 2.0 Consensus size: 75
88996205 AGTAATGATA
*
88996215 TTAGAGTTACTTTTGTTGATTTTGTATTCTTCCTAATAATTTTTCACTTTTAAAGTATGAGATTT
1 TTAGAGTTACTTTTGTTGATTTTGTATTCTTCCAAATAATTTTTCACTTTTAAAGTATGAGATTT
*
88996280 ATGATTAATG
66 ATGATCAATG
* * *
88996290 TTAGAGTTGCTTTTGTTGATTTTGTGTTCTTCCAAATAATTTTTCATTTTTAAAGTATGAGATTT
1 TTAGAGTTACTTTTGTTGATTTTGTATTCTTCCAAATAATTTTTCACTTTTAAAGTATGAGATTT
88996355 ATGATCAATG
66 ATGATCAATG
88996365 TT
1 TT
88996367 TACCTTACTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (75 bp):
TTAGAGTTACTTTTGTTGATTTTGTATTCTTCCAAATAATTTTTCACTTTTAAAGTATGAGATTT
ATGATCAATG
Found at i:88999438 original size:14 final size:15
Alignment explanation
Indices: 88999419--88999450 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
88999409 TTAATTTTTT
88999419 TATATAAAAAA-TAA
1 TATATAAAAAATTAA
88999433 TATATAAAAAATTAA
1 TATATAAAAAATTAA
88999448 TAT
1 TAT
88999451 GAGTGGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TATATAAAAAATTAA
Found at i:89006052 original size:21 final size:22
Alignment explanation
Indices: 89006015--89006057 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
89006005 AAATAGGAAG
89006015 AAAACAATAATAAAATAACATT
1 AAAACAATAATAAAATAACATT
*
89006037 AAAATAATAA-AAAATAACATT
1 AAAACAATAATAAAATAACATT
89006058 TCTTTTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAACAATAATAAAATAACATT
Found at i:89007569 original size:105 final size:105
Alignment explanation
Indices: 89007372--89007573 Score: 262
Period size: 105 Copynumber: 1.9 Consensus size: 105
89007362 TCACTTGATA
* * *
89007372 TTGTCACGTATACTATATTGATTGATGCACTTTGCACAGAAGGAATGATTTCTAAAGCTGTAGAG
1 TTGTCACGTATACTACATTGATTGATGCACATTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
* *
89007437 ATCGTTGACACGATAAGAAAGCAAGGCATTGAACCCAATG
66 ATCGTTGACACAATAAGAAAACAAGGCATTGAACCCAATG
* * * *
89007477 TTGTCACGTATACTACGTTGGTTGATGCACATTGCAAAGAAGGGATGGTTTCTAAAGCTG-AGGA
1 TTGTCACGTATACTACATTGATTGATGCACATTGCAAAGAAGGAATGATTTCTAAAGCTGTA-GA
* * * * *
89007541 TATTGTTGACACAATGATAAAACGAGGCATTGA
65 GATCGTTGACACAATAAGAAAACAAGGCATTGA
89007574 GCCTGATGTT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 81 0.99
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (105 bp):
TTGTCACGTATACTACATTGATTGATGCACATTGCAAAGAAGGAATGATTTCTAAAGCTGTAGAG
ATCGTTGACACAATAAGAAAACAAGGCATTGAACCCAATG
Found at i:89010206 original size:32 final size:32
Alignment explanation
Indices: 89010165--89010229 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
89010155 CCATAATGTT
89010165 TATTCTATGAGAATCTTGACTAATTGCTTTTG
1 TATTCTATGAGAATCTTGACTAATTGCTTTTG
* *
89010197 TATTCTATGAGCATCTTGATTAATTGCTTTTG
1 TATTCTATGAGAATCTTGACTAATTGCTTTTG
89010229 T
1 T
89010230 CAACTAGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.49
Consensus pattern (32 bp):
TATTCTATGAGAATCTTGACTAATTGCTTTTG
Found at i:89010864 original size:46 final size:46
Alignment explanation
Indices: 89010798--89010897 Score: 184
Period size: 46 Copynumber: 2.2 Consensus size: 46
89010788 CATGATGATA
*
89010798 AAGG-AGGACATTGAGCTTGATGTTGTCACGTATAATACACATTGT
1 AAGGAAGGGCATTGAGCTTGATGTTGTCACGTATAATACACATTGT
89010843 AAGGAAGGGCATTGAGCTTGATGTTGTCACGTATAATACACATTGT
1 AAGGAAGGGCATTGAGCTTGATGTTGTCACGTATAATACACATTGT
89010889 AAGGAAGGG
1 AAGGAAGGG
89010898 ATGGTTTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.08
46 49 0.92
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (46 bp):
AAGGAAGGGCATTGAGCTTGATGTTGTCACGTATAATACACATTGT
Found at i:89013329 original size:7 final size:7
Alignment explanation
Indices: 89013317--89013343 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
89013307 CTAGCGAGGG
89013317 GGCTATT
1 GGCTATT
89013324 GGCTATT
1 GGCTATT
89013331 GGCTATT
1 GGCTATT
89013338 GGCTAT
1 GGCTAT
89013344 AGCACCCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (7 bp):
GGCTATT
Found at i:89015671 original size:21 final size:21
Alignment explanation
Indices: 89015631--89015671 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
89015621 ATTATTTATA
**
89015631 TTTTAATTAATCATGTTTTAG
1 TTTTAATTAATCATAATTTAG
*
89015652 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
89015672 CTTAATTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:89027238 original size:20 final size:21
Alignment explanation
Indices: 89027215--89027264 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
89027205 TTATGTTTAT
89027215 TTTTTTTAAATTAA-GAATTA
1 TTTTTTTAAATTAATGAATTA
* * *
89027235 TTTTTTGAATTTAATGTATTA
1 TTTTTTTAAATTAATGAATTA
89027256 TTTATTTTA
1 TTT-TTTTA
89027265 TTATTTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.50
21 8 0.33
22 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTTTTAAATTAATGAATTA
Found at i:89028307 original size:19 final size:18
Alignment explanation
Indices: 89028257--89028309 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
89028247 TGCTTCTAAT
89028257 TTTTTATTACTTTTTTTTAA
1 TTTTT-TTA-TTTTTTTTAA
* * *
89028277 CTTTTGTCTTTTTCTTTAA
1 TTTTTTTATTTTT-TTTAA
89028296 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
89028310 AAGTTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 6 0.23
19 16 0.62
20 4 0.15
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTTATTTTTTTTAA
Found at i:89028396 original size:23 final size:22
Alignment explanation
Indices: 89028370--89028440 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
89028360 TTTGTTATTA
*
89028370 ATTTTAAAAATTTTGAAATGTAT
1 ATTTTAAAAATTTT-AAATATAT
* *
89028393 ATTTGAAATATTTTATAATATAT
1 ATTTTAAAAATTTTA-AATATAT
89028416 ATTTT-AAAATTTTAAATAT-T
1 ATTTTAAAAATTTTAAATATAT
89028436 ATTTT
1 ATTTT
89028441 TAAATTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.14
21 5 0.12
22 9 0.21
23 22 0.52
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:89028401 original size:21 final size:21
Alignment explanation
Indices: 89028370--89028485 Score: 87
Period size: 20 Copynumber: 5.4 Consensus size: 21
89028360 TTTGTTATTA
*
89028370 ATTTTAAAAATTTTGAAATGTAT
1 ATTTT-AAAATTTT-AAATATAT
*
89028393 ATTTGAAATATTTTATAATATAT
1 ATTTTAAA-ATTTTA-AATATAT
89028416 ATTTTAAAATTTTAAATAT-T
1 ATTTTAAAATTTTAAATATAT
* * * *
89028436 ATTTTTAAATTATT--TTTTAA
1 ATTTTAAAATT-TTAAATATAT
*
89028456 ACTTTTAAAATATTAAATATAT
1 A-TTTTAAAATTTTAAATATAT
89028478 -TTTTAAAA
1 ATTTTAAAA
89028486 AATATTTAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 17
0.72 0.12 0.17
Matches are distributed among these distances:
19 2 0.03
20 22 0.30
21 15 0.20
22 13 0.18
23 22 0.30
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTAAAATTTTAAATATAT
Found at i:89028462 original size:33 final size:36
Alignment explanation
Indices: 89028403--89028470 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 36
89028393 ATTTGAAATA
89028403 TTTTATAATATATATTTTAAAATTTT-AAATATTAT
1 TTTTATAATATATATTTTAAAATTTTAAAATATTAT
* *
89028438 TTTTA-AAT-TATTTTTTAAACTTTTAAAATATTA
1 TTTTATAATATATATTTTAAAATTTTAAAATATTA
89028471 AATATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 14 0.47
34 11 0.37
35 5 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
TTTTATAATATATATTTTAAAATTTTAAAATATTAT
Found at i:89028528 original size:11 final size:11
Alignment explanation
Indices: 89028500--89028562 Score: 83
Period size: 11 Copynumber: 5.5 Consensus size: 11
89028490 TTTAAACATT
89028500 TAAAATTTTTAAA
1 TAAAATTTTT--A
89028513 TAAAATTTTTA
1 TAAAATTTTTA
89028524 TAAAATTTTTAAA
1 TAAAATTTTT--A
89028537 TAAAATTTTTA
1 TAAAATTTTTA
89028548 TAAAATTTTT-
1 TAAAATTTTTA
89028558 TAAAA
1 TAAAA
89028563 AGGTTTAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.10
11 22 0.46
13 21 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATTTTTA
Found at i:89028528 original size:24 final size:24
Alignment explanation
Indices: 89028500--89028557 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
89028490 TTTAAACATT
89028500 TAAAATTTTTAAATAAAATTTTTA
1 TAAAATTTTTAAATAAAATTTTTA
89028524 TAAAATTTTTAAATAAAATTTTTA
1 TAAAATTTTTAAATAAAATTTTTA
89028548 TAAAATTTTT
1 TAAAATTTTT
89028558 TAAAAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAATTTTTAAATAAAATTTTTA
Found at i:89028563 original size:11 final size:11
Alignment explanation
Indices: 89028501--89028563 Score: 54
Period size: 12 Copynumber: 5.4 Consensus size: 11
89028491 TTAAACATTT
*
89028501 AAAATTTTTAA
1 AAAATTTTTTA
*
89028512 ATAAAATTTTTA
1 A-AAATTTTTTA
*
89028524 TAAAATTTTTAA
1 -AAAATTTTTTA
*
89028536 ATAAAATTTTTA
1 A-AAATTTTTTA
89028548 TAAAATTTTTTA
1 -AAAATTTTTTA
89028560 AAAA
1 AAAA
89028564 GGTTTAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
11 6 0.15
12 33 0.80
13 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTTTTTA
Found at i:89028764 original size:20 final size:19
Alignment explanation
Indices: 89028711--89028764 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
89028701 TGCTTCTGAT
89028711 TTTTTTTAATTTTTTTTTAA
1 TTTTTTT-ATTTTTTTTTAA
*** *
89028731 AAATTTTACTTTTTCTTTAA
1 TTTTTTTA-TTTTTTTTTAA
89028751 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
89028765 AAGTTTTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTTTTTTAA
Found at i:89028771 original size:16 final size:16
Alignment explanation
Indices: 89028746--89028780 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89028736 TTACTTTTTC
* *
89028746 TTTAATTTTTTTATTT
1 TTTAAGTTTTATATTT
89028762 TTTAAGTTTTATATTT
1 TTTAAGTTTTATATTT
89028778 TTT
1 TTT
89028781 CTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTAAGTTTTATATTT
Found at i:89028813 original size:21 final size:19
Alignment explanation
Indices: 89028787--89028834 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
89028777 TTTTCTTATT
89028787 TTATTTTGTTTATTTATCTAA
1 TTATTTT-TTTATTTAT-TAA
*
89028808 TTATTTATTTTATTTATTAT
1 TTATTT-TTTTATTTATTAA
89028828 TTATTTT
1 TTATTTT
89028835 AATAAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 15 0.60
22 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTTTTTATTTATTAA
Found at i:89028834 original size:16 final size:16
Alignment explanation
Indices: 89028782--89028835 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
89028772 ATATTTTTTC
*
89028782 TTATTTTA-TT-TTGT
1 TTATTTTATTTATTAT
*
89028796 TTA-TTTATCTAATTAT
1 TTATTTTAT-TTATTAT
89028812 TTATTTTATTTATTAT
1 TTATTTTATTTATTAT
89028828 TTATTTTA
1 TTATTTTA
89028836 ATAAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 1 0.03
16 20 0.61
17 5 0.15
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (16 bp):
TTATTTTATTTATTAT
Found at i:89028903 original size:36 final size:33
Alignment explanation
Indices: 89028875--89028969 Score: 133
Period size: 30 Copynumber: 2.9 Consensus size: 33
89028865 TTATAATATA
89028875 TATTTTTTAAAATTTTAAATATTA-TTTT-AAT
1 TATTTTTTAAAATTTTAAATATTATTTTTAAAT
*
89028906 T-TTTTTAAAAATTTTAAATATATATATATTTAAAT
1 TATTTTTTAAAATTTTAAATAT-TAT-T-TTTAAAT
89028941 TATTTTTTAAAATTTTAAATATTATTTTT
1 TATTTTTTAAAATTTTAAATATTATTTTT
89028970 TAAAAATAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
30 19 0.34
31 3 0.05
33 4 0.07
34 4 0.07
35 7 0.12
36 19 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TATTTTTTAAAATTTTAAATATTATTTTTAAAT
Found at i:89028917 original size:30 final size:30
Alignment explanation
Indices: 89028877--89028968 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 30
89028867 ATAATATATA
89028877 TTTTTTAAAATTTTAAATATTATTTT-AAT
1 TTTTTTAAAATTTTAAATATTATTTTAAAT
89028906 TTTTTTAAAAATTTTAAATATATATATATTTAAATT
1 TTTTTT-AAAATTTT-AA-ATAT-TAT-TTTAAA-T
89028942 ATTTTTTAAAATTTTAAATATTATTTT
1 -TTTTTTAAAATTTTAAATATTATTTT
89028969 TTAAAAATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
29 6 0.11
30 8 0.15
31 2 0.04
32 7 0.13
33 6 0.11
34 7 0.13
35 4 0.07
36 9 0.16
37 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTTAAAATTTTAAATATTATTTTAAAT
Found at i:89028979 original size:20 final size:19
Alignment explanation
Indices: 89028937--89028997 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
89028927 ATATATATTT
*
89028937 AAATTATTTTTTAAAATTTTA
1 AAATTATTTTTTAAAA--ATA
89028958 AATATTATTTTTTAAAAATA
1 AA-ATTATTTTTTAAAAATA
* *
89028978 AAATACATTTTTTAATAATA
1 AAAT-TATTTTTTAAAAATA
89028998 TGAAACATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
21 2 0.06
22 14 0.40
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTATTTTTTAAAAATA
Found at i:89034912 original size:14 final size:15
Alignment explanation
Indices: 89034893--89034921 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89034883 TATCTTTAAA
89034893 AATAA-TTAAAAAAT
1 AATAATTTAAAAAAT
89034907 AATAATTTAAAAAAT
1 AATAATTTAAAAAAT
89034922 TTTATGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATTTAAAAAAT
Found at i:89035031 original size:21 final size:21
Alignment explanation
Indices: 89035006--89035102 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 21
89034996 TTAATGTTTA
*
89035006 AATATTATTAAAA-ATATATTT
1 AATATT-TAAAAATATATATTT
89035027 AATATTTAAAAATATATATTT
1 AATATTTAAAAATATATATTT
* * *
89035048 AAAATTT-ATAAGA-A-A--T
1 AATATTTAAAAATATATATTT
*
89035064 AAT-TTCAAAAATATATATTT
1 AATATTTAAAAATATATATTT
*
89035084 AAAATTTAAAAA-ATA-ATTT
1 AATATTTAAAAATATATATTT
89035103 TAAAATAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
15 2 0.03
16 7 0.12
17 1 0.02
18 2 0.03
19 5 0.08
20 15 0.25
21 27 0.46
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
AATATTTAAAAATATATATTT
Found at i:89035047 original size:14 final size:14
Alignment explanation
Indices: 89035028--89035087 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
89035018 AATATATTTA
89035028 ATATTTAAAAATAT
1 ATATTTAAAAATAT
89035042 ATATTT-AAAAT-T
1 ATATTTAAAAATAT
89035054 -TA--TAAGAAATA-
1 ATATTTAA-AAATAT
*
89035065 AT-TTCAAAAATAT
1 ATATTTAAAAATAT
89035078 ATATTTAAAA
1 ATATTTAAAA
89035088 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
9 1 0.03
10 1 0.03
11 6 0.17
12 7 0.19
13 9 0.25
14 12 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATATTTAAAAATAT
Found at i:89035075 original size:36 final size:34
Alignment explanation
Indices: 89035030--89035129 Score: 150
Period size: 36 Copynumber: 2.9 Consensus size: 34
89035020 TATATTTAAT
89035030 ATTTAAAAATATATATTTAAAATTTATAAGAAATA
1 ATTTAAAAATATATATTTAAAATTTATAA-AAATA
89035065 ATTTCAAAAATATATATTTAAAATTTA-AAAAATA
1 ATTT-AAAAATATATATTTAAAATTTATAAAAATA
* *
89035099 ATTTTAAAATA-ATATTTAAAATTTTTAAAAA
1 ATTTAAAAATATATATTTAAAATTTATAAAAA
89035130 ATTATATTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.21
33 11 0.18
34 9 0.15
35 6 0.10
36 22 0.36
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTATAAAAATA
Found at i:89035098 original size:34 final size:33
Alignment explanation
Indices: 89035030--89035146 Score: 146
Period size: 36 Copynumber: 3.4 Consensus size: 33
89035020 TATATTTAAT
89035030 ATTTAAAAATATATATTTAAAATTTATAAGAAATA
1 ATTTAAAAATATATATTTAAAATTTA-AA-AAATA
89035065 ATTTCAAAAATATATATTTAAAATTTAAAAAATA
1 ATTT-AAAAATATATATTTAAAATTTAAAAAATA
* *
89035099 ATTTTAAAATA-ATATTTAAAATTTTTAAAAAATT
1 ATTTAAAAATATATATTTAAAA--TTTAAAAAATA
89035133 ATATTATAAAATAT
1 AT-TTA-AAAATAT
89035147 TTCAAATATA
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.14
33 6 0.08
34 21 0.29
35 8 0.11
36 28 0.38
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
ATTTAAAAATATATATTTAAAATTTAAAAAATA
Found at i:89035104 original size:20 final size:22
Alignment explanation
Indices: 89035064--89035108 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
89035054 TATAAGAAAT
*
89035064 AATTTCAAAAATATATATTTAA
1 AATTTAAAAAATATATATTTAA
89035086 AATTTAAAAAATA-AT-TTTAA
1 AATTTAAAAAATATATATTTAA
89035106 AAT
1 AAT
89035109 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTAAAAAATATATATTTAA
Found at i:89035109 original size:11 final size:11
Alignment explanation
Indices: 89035093--89035132 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
89035083 TAAAATTTAA
89035093 AAAATAATTTT
1 AAAATAATTTT
89035104 AAAATAATATTT
1 AAAATAAT-TTT
89035116 AAAAT--TTTT
1 AAAATAATTTT
89035125 AAAA-AATT
1 AAAATAATT
89035133 ATATTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 7 0.27
10 3 0.12
11 8 0.31
12 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:89035136 original size:57 final size:57
Alignment explanation
Indices: 89035015--89035144 Score: 137
Period size: 56 Copynumber: 2.3 Consensus size: 57
89035005 AAATATTATT
* * *
89035015 AAAA-ATATATTTAATATTTAAAAATATATATTTAAAATTTATAAGAAATAATTTCA
1 AAAATATATATTTAAAATTTAAAAATATATATTTAAAATATATAAGAAATAATTTAA
* *
89035071 AAAATATATATTTAAAATTTAAAAA-ATA-ATTTTAAAATAATATTTA-AAAT-TTTTAA
1 AAAATATATATTTAAAATTTAAAAATATATA-TTTAAAAT-ATA-TAAGAAATAATTTAA
89035127 AAAAT-TATATTATAAAAT
1 AAAATATATATT-TAAAAT
89035145 ATTTCAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
55 7 0.11
56 30 0.47
57 25 0.39
58 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (57 bp):
AAAATATATATTTAAAATTTAAAAATATATATTTAAAATATATAAGAAATAATTTAA
Found at i:89035146 original size:33 final size:33
Alignment explanation
Indices: 89035026--89035153 Score: 118
Period size: 34 Copynumber: 3.7 Consensus size: 33
89035016 AAAATATATT
*
89035026 TAATATTTAAAAATATATATTTAAAATTTATAAGAAA
1 TAATA-TT-AAAATA-ATATTTAAAATTT-TAAAAAA
89035063 TAAT-TTCAAAAATATATATTTAAAA-TTTAAAAAA
1 TAATATT--AAAATA-ATATTTAAAATTTTAAAAAA
*
89035097 TAATTTTAAAATAATATTTAAAATTTTTAAAAAA
1 TAATATTAAAATAATATTTAAAA-TTTTAAAAAA
* * *
89035131 TTATATTATAA-AATATTTCAAAT
1 TAATATTAAAATAATATTTAAAAT
89035154 ATACATTACA
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
32 11 0.13
33 16 0.20
34 27 0.33
35 6 0.07
36 18 0.22
37 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
TAATATTAAAATAATATTTAAAATTTTAAAAAA
Found at i:89035176 original size:23 final size:23
Alignment explanation
Indices: 89035100--89035176 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
89035090 TAAAAAATAA
89035100 TTTTAAAATA-ATATT-TAAAAT
1 TTTTAAAATATATATTATAAAAT
*
89035121 TTTTAAAAAATTATATTATAAAAT
1 TTTTAAAATA-TATATTATAAAAT
* * * *
89035145 ATTTCAAATATACATTACAAAAT
1 TTTTAAAATATATATTATAAAAT
89035168 TTTTAAAAT
1 TTTTAAAAT
89035177 TAATAAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.20
23 23 0.51
24 13 0.29
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAATATATATTATAAAAT
Found at i:89035183 original size:9 final size:9
Alignment explanation
Indices: 89035183--89035216 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
89035173 AAATTAATAA
89035183 AAAATAAAT
1 AAAATAAAT
89035192 AAAATAAAT
1 AAAATAAAT
89035201 AAACA-AAAT
1 AAA-ATAAAT
89035210 AAAATAA
1 AAAATAA
89035217 GAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:89035934 original size:15 final size:15
Alignment explanation
Indices: 89035914--89035943 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89035904 TTTAATCCTT
*
89035914 TATAAATTATAAAAA
1 TATAAACTATAAAAA
89035929 TATAAACTATAAAAA
1 TATAAACTATAAAAA
89035944 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:89036390 original size:8 final size:9
Alignment explanation
Indices: 89036378--89036415 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
89036368 ACTTCTTTTT
*
89036378 TTTTTTTAC
1 TTTTTTGAC
89036387 TTTTTTGAC
1 TTTTTTGAC
*
89036396 TTTTTT-AT
1 TTTTTTGAC
89036404 TTTTTTGAC
1 TTTTTTGAC
89036413 TTT
1 TTT
89036416 CGTTTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (9 bp):
TTTTTTGAC
Found at i:89036399 original size:17 final size:17
Alignment explanation
Indices: 89036379--89036415 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
89036369 CTTCTTTTTT
89036379 TTTTTTACTTTTTTGAC
1 TTTTTTACTTTTTTGAC
*
89036396 TTTTTTATTTTTTTGAC
1 TTTTTTACTTTTTTGAC
89036413 TTT
1 TTT
89036416 CGTTTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTACTTTTTTGAC
Found at i:89036458 original size:14 final size:13
Alignment explanation
Indices: 89036441--89036482 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
89036431 GGTTTTTTCT
89036441 TTTATGTTTATTTA
1 TTTAT-TTTATTTA
89036455 TTTATTTTATTTTA
1 TTTATTTTA-TTTA
*
89036469 TTTATCTTATTTA
1 TTTATTTTATTTA
89036482 T
1 T
89036483 GATTAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:89036465 original size:9 final size:9
Alignment explanation
Indices: 89036441--89036482 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
89036431 GGTTTTTTCT
89036441 TTTATGTTTA
1 TTTAT-TTTA
89036451 TTTA-TTTA
1 TTTATTTTA
89036459 TTTTATTTTA
1 -TTTATTTTA
*
89036469 TTTATCTTA
1 TTTATTTTA
89036478 TTTAT
1 TTTAT
89036483 GATTAAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:89036521 original size:9 final size:9
Alignment explanation
Indices: 89036509--89036551 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
89036499 CATAAAATGT
*
89036509 ATATTTGAA
1 ATATTTTAA
89036518 ATATTTTATAA
1 ATA-TTT-TAA
89036529 TATATTTTAA
1 -ATATTTTAA
89036539 ATATTTTAA
1 ATATTTTAA
89036548 ATAT
1 ATAT
89036552 ATATTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.53
10 6 0.20
11 5 0.17
12 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
ATATTTTAA
Found at i:89036533 original size:21 final size:20
Alignment explanation
Indices: 89036508--89036553 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
89036498 ACATAAAATG
89036508 TATATTTGAAATATTTTATAA
1 TATATTTGAAATATTTTA-AA
*
89036529 TATATTTTAAATATTTTAAA
1 TATATTTGAAATATTTTAAA
89036549 TATAT
1 TATAT
89036554 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTTGAAATATTTTAAA
Found at i:89036569 original size:34 final size:34
Alignment explanation
Indices: 89036518--89036593 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
89036508 TATATTTGAA
*
89036518 ATATTTTATAATATA-TTTTAAATATTTTAAATAT
1 ATATTTTTTAATATATTTTTAAA-ATTTTAAATAT
*
89036552 ATATTTTTTAA-AGTATTTTTTTAAATTTTAAATAT
1 ATATTTTTTAATA-TA-TTTTTAAAATTTTAAATAT
89036587 -TATTTTT
1 ATATTTTT
89036594 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 1 0.03
34 19 0.51
35 11 0.30
36 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
ATATTTTTTAATATATTTTTAAAATTTTAAATAT
Found at i:89036582 original size:20 final size:20
Alignment explanation
Indices: 89036557--89036611 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
89036547 AATATATATT
89036557 TTTTAAAGTATT-TTTTTAAA
1 TTTTAAA-TATTATTTTTAAA
89036577 TTTTAAATATTATTTTTAAA
1 TTTTAAATATTATTTTTAAA
**
89036597 AATTAAATATTATTT
1 TTTTAAATATTATTT
89036612 AAAAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTAAATATTATTTTTAAA
Found at i:89036617 original size:13 final size:13
Alignment explanation
Indices: 89036601--89036649 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
89036591 TTTAAAAATT
*
89036601 AAATATTATTTAA
1 AAATAATATTTAA
89036614 AAATAATATTT-A
1 AAATAATATTTAA
89036626 AAAT-ATATTTAA
1 AAATAATATTTAA
89036638 AAATAATATTTA
1 AAATAATATTTA
89036650 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
11 6 0.18
12 10 0.30
13 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATAATATTTAA
Found at i:89036630 original size:12 final size:12
Alignment explanation
Indices: 89036601--89036668 Score: 67
Period size: 12 Copynumber: 6.0 Consensus size: 12
89036591 TTTAAAAATT
*
89036601 AAATATTATTTAA
1 AAATAATATTT-A
89036614 AAATAATATTTA
1 AAATAATATTTA
89036626 AAAT-ATATTTAA
1 AAATAATATTT-A
89036638 AAATAATATTT-
1 AAATAATATTTA
89036649 --AT--TATTTA
1 AAATAATATTTA
89036657 AAATAATATTTA
1 AAATAATATTTA
89036669 TTATTTAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
7 5 0.11
9 2 0.04
10 2 0.04
11 6 0.13
12 16 0.34
13 16 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATAATATTTA
Found at i:89036661 original size:19 final size:20
Alignment explanation
Indices: 89036604--89036708 Score: 151
Period size: 19 Copynumber: 5.1 Consensus size: 20
89036594 AAAAATTAAA
89036604 TATTATTTAAAAATAATATT
1 TATTATTTAAAAATAATATT
89036624 TAAAATATATTTAAAAATAATATT
1 T---AT-TATTTAAAAATAATATT
89036648 TATTATTT-AAAATAATATT
1 TATTATTTAAAAATAATATT
89036667 TATTATTTAAAAAT-ATATT
1 TATTATTTAAAAATAATATT
89036686 TATTATTTAAAAAGTAATATT
1 TATTATTTAAAAA-TAATATT
89036707 TA
1 TA
89036709 AAATTTAGAA
Statistics
Matches: 78, Mismatches: 0, Indels: 13
0.86 0.00 0.14
Matches are distributed among these distances:
19 37 0.47
20 12 0.15
21 9 0.12
23 2 0.03
24 18 0.23
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTATTTAAAAATAATATT
Found at i:89036715 original size:59 final size:62
Alignment explanation
Indices: 89036604--89036728 Score: 161
Period size: 59 Copynumber: 2.0 Consensus size: 62
89036594 AAAAATTAAA
**
89036604 TATTATTTAAAAATAATATTTAAAATATATTTAAAAATAATATTTATTATTTA-AAATAAT-ATT
1 TATTATTTAAAAATAATATTT--AATATATTTAAAAATAATATTTAAAATTTAGAAA-AATAATT
89036667 TATTATTTAAAAAT-ATATTT-AT-TATTTAAAAAGTAATATTTAAAATTTAGAAAAATAATT
1 TATTATTTAAAAATAATATTTAATATATTTAAAAA-TAATATTTAAAATTTAGAAAAATAATT
89036727 TA
1 TA
89036729 AAAAATAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
58 10 0.18
59 19 0.33
60 8 0.14
62 6 0.11
63 14 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (62 bp):
TATTATTTAAAAATAATATTTAATATATTTAAAAATAATATTTAAAATTTAGAAAAATAATT
Found at i:89036732 original size:21 final size:21
Alignment explanation
Indices: 89036608--89036732 Score: 64
Period size: 19 Copynumber: 6.0 Consensus size: 21
89036598 ATTAAATATT
89036608 ATTT-AAAAATAATATTTAAAA
1 ATTTAAAAAATAATA-TTAAAA
* * **
89036629 TATATTTAAAAATAATATTTATT
1 -AT-TTAAAAAATAATATTAAAA
* **
89036652 ATTT--AAAATAATATTTATT
1 ATTTAAAAAATAATATTAAAA
* **
89036671 ATTT-AAAAAT-ATATTTATT
1 ATTTAAAAAATAATATTAAAA
* *
89036690 ATTTAAAAAGTAATATTTAAA
1 ATTTAAAAAATAATATTAAAA
89036711 ATTTAGAAAAATAAT-TTAAAA
1 ATTTA-AAAAATAATATTAAAA
89036732 A
1 A
89036733 ATAGATATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
19 32 0.36
20 10 0.11
21 20 0.22
22 12 0.13
23 5 0.06
24 10 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTAAAAAATAATATTAAAA
Found at i:89036741 original size:35 final size:35
Alignment explanation
Indices: 89036601--89036772 Score: 120
Period size: 40 Copynumber: 4.6 Consensus size: 35
89036591 TTTAAAAATT
89036601 AAATAT-TATTT-AAAAATAATATTTAAAATATATTTAA
1 AAATATATATTTAAAAAATAATATTT--AA-A-ATTTAA
**
89036638 AAATA-ATATTTATTATTTAAAATAATATTTATTATTTAAA
1 AAATATATATTTA--A---AAAATAATATTTAAAATTT-AA
*
89036678 AATATATTTATTATTTAAAAAGTAATATTTAAAATTTAGA
1 AA-ATA--TA-TATTTAAAAAATAATATTTAAAATTTA-A
89036718 AAA-ATA-ATTTAAAAAATAGATATTTAAAATTTAA
1 AAATATATATTTAAAAAATA-ATATTTAAAATTTAA
*
89036752 AAATATATATATTATAAAATA
1 AAATATATAT-TTAAAAAATA
89036773 TTTCAAATAT
Statistics
Matches: 110, Mismatches: 7, Indels: 36
0.72 0.05 0.24
Matches are distributed among these distances:
34 15 0.14
35 17 0.15
36 4 0.04
37 19 0.17
38 1 0.01
39 6 0.05
40 24 0.22
41 4 0.04
43 13 0.12
44 1 0.01
45 6 0.05
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (35 bp):
AAATATATATTTAAAAAATAATATTTAAAATTTAA
Found at i:89036748 original size:22 final size:24
Alignment explanation
Indices: 89036723--89036771 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
89036713 TTAGAAAAAT
89036723 AATTTAAAAA-ATAGATATT-TAA
1 AATTTAAAAATATAGATATTATAA
*
89036745 AATTTAAAAATATATATATTATAA
1 AATTTAAAAATATAGATATTATAA
89036769 AAT
1 AAT
89036772 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTTAAAAATATAGATATTATAA
Found at i:89036875 original size:15 final size:15
Alignment explanation
Indices: 89036857--89036889 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
89036847 AACGAAAGTA
*
89036857 AAAAAAGTAAAAAAG
1 AAAAAAGAAAAAAAG
89036872 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
89036887 AAA
1 AAA
89036890 GTAACAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:89036887 original size:8 final size:8
Alignment explanation
Indices: 89036851--89036889 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
89036841 AAAAAAAACG
89036851 AAAGTAAAA
1 AAAG-AAAA
*
89036860 AAAGTAAA
1 AAAGAAAA
89036868 AAAG-AAA
1 AAAGAAAA
89036875 AAAGAAAA
1 AAAGAAAA
89036883 AAAGAAA
1 AAAGAAA
89036890 GTAACAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.25
8 17 0.61
9 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (8 bp):
AAAGAAAA
Found at i:89037059 original size:21 final size:22
Alignment explanation
Indices: 89037034--89037081 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
89037024 ACCCAAAAAC
89037034 CCCAAAA-CCCAAT-CACAGAAG
1 CCCAAAACCCCAATACACA-AAG
*
89037055 CCCAAAACCCCAATACCCAAAG
1 CCCAAAACCCCAATACACAAAG
89037077 CCCAA
1 CCCAA
89037082 TATCCCTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.46, C:0.44, G:0.06, T:0.04
Consensus pattern (22 bp):
CCCAAAACCCCAATACACAAAG
Found at i:89039242 original size:26 final size:28
Alignment explanation
Indices: 89039180--89039240 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
89039170 ATTGTATATG
*
89039180 TATTTTTATGTTATATTAGTGGTATATA
1 TATTTTTATGTTATATTAGTGGTACATA
*
89039208 TATTTTTATGTTATCTTA-T-GTACATA
1 TATTTTTATGTTATATTAGTGGTACATA
89039234 TTATTTT
1 -TATTTT
89039241 ATATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.20
27 7 0.23
28 17 0.57
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (28 bp):
TATTTTTATGTTATATTAGTGGTACATA
Found at i:89040311 original size:22 final size:22
Alignment explanation
Indices: 89040263--89040305 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
89040253 TATTTAATTT
*
89040263 AAAAAATTTAATAATTATATTG
1 AAAAAATTTAATAATTATAGTG
89040285 AAAAAA-TTAATAATTA-AGTG
1 AAAAAATTTAATAATTATAGTG
89040305 A
1 A
89040306 CTAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAAAATTTAATAATTATAGTG
Found at i:89043268 original size:39 final size:39
Alignment explanation
Indices: 89043224--89043302 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
89043214 ACTTTGATGA
*
89043224 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTTAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
89043263 GCTTTAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
1 GCTTTAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
89043302 G
1 G
89043303 ATTCAACTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (39 bp):
GCTTTAGTTAGCCTTCGGACTTCCGTTTAGCACTTATGT
Found at i:89043318 original size:39 final size:39
Alignment explanation
Indices: 89043236--89043324 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
89043226 TTTAGTTAGC
* * ** *
89043236 CTTCGGGCTTCCGTTTAGCACTTATGTGCTTTAGTTAGC
1 CTTCGGGCTTCCGTTTAGCACTTATGTGATTCAACTAGA
*
89043275 CTTCGGACTTCCGTTTAGCACTTATGTGATTCAACTAGA
1 CTTCGGGCTTCCGTTTAGCACTTATGTGATTCAACTAGA
89043314 CTTCGGGCTTC
1 CTTCGGGCTTC
89043325 AGATCACGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (39 bp):
CTTCGGGCTTCCGTTTAGCACTTATGTGATTCAACTAGA
Found at i:89043971 original size:5 final size:5
Alignment explanation
Indices: 89043961--89043996 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
89043951 AACAAAATCG
* *
89043961 AACAA AACAA AACAA AACAG AACAA AACAA ATCAA A
1 AACAA AACAA AACAA AACAA AACAA AACAA AACAA A
89043997 TAGAGCAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.75, C:0.19, G:0.03, T:0.03
Consensus pattern (5 bp):
AACAA
Found at i:89043976 original size:20 final size:20
Alignment explanation
Indices: 89043951--89043996 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
89043941 ATGGTAGTGC
89043951 AACAAAATC-GAACAAAACAA
1 AACAAAA-CAGAACAAAACAA
89043971 AACAAAACAGAACAAAACAA
1 AACAAAACAGAACAAAACAA
*
89043991 ATCAAA
1 AACAAA
89043997 TAGAGCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.72, C:0.20, G:0.04, T:0.04
Consensus pattern (20 bp):
AACAAAACAGAACAAAACAA
Found at i:89045437 original size:260 final size:260
Alignment explanation
Indices: 89044954--89045437 Score: 695
Period size: 260 Copynumber: 1.9 Consensus size: 260
89044944 AATGGATAAT
* * * *
89044954 AAGATTCTCTTGTCTCGAAGAAATACAATATTACATCCAACATGTAGGACACGATATTTCAACCT
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
* **
89045019 TCGATACTAAAATCGTCTCATAATTTCCAAAATTTATGTATTGAAATTTTAAGAAGGATATCCGA
66 TCGATACTAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
* **
89045084 TTGTTCGGTCAAACGATAAATCGAAACCCAGTACGTAGGGCACAATTTCTCAAAAATTCCAAACA
131 TCGTTCGGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATTTCTCAAAAATTCCAAACA
* * *
89045149 ACGGAACATTGCCTCTTTTTTTAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
196 ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
* *
89045214 AAGATTCTCTTGTTTTGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAAACC
1 AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTC-AACC
* * **
89045279 TTCGATA-TCAAAATCGTCTCATAATTTCC-AAATTTATGCATTGAAGCCTTAAGAATGATATTT
65 TTCGATACT-AAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCC
* * * *
89045342 GGTCGTTCGGTCAATCGATAAATCGAAACCCAACACGTAGGGCACAATTTCCTCGAAATTTCCAA
129 GATCGTTCGGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATTT-CTCAAAAATTCCAA
* *
89045407 ACAACGGAATATTTCCT-TTATGTAAAAAAAA
193 ACAACGGAACATTGCCTCTTATGTAAAAAAAA
89045438 ATCTCTTTTT
Statistics
Matches: 196, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
260 138 0.70
261 58 0.30
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (260 bp):
AAGATTCTCTTGTCTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAATATTTCAACCT
TCGATACTAAAATCGTCTCATAATTTCCAAAATTTATGCATTGAAACCTTAAGAAGGATATCCGA
TCGTTCGGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATTTCTCAAAAATTCCAAACA
ACGGAACATTGCCTCTTATGTAAAAAAAAGGGCCTTGAGCAAACATGCAATAATATGAAACGATC
Found at i:89045762 original size:23 final size:23
Alignment explanation
Indices: 89045717--89045768 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
89045707 AAATGGTGAG
* * *
89045717 AATAATAATGATAATAACCATAT
1 AATAAGAATGACAATAACAATAT
*
89045740 AATAAGAATGACAATAATAATAT
1 AATAAGAATGACAATAACAATAT
*
89045763 TATAAG
1 AATAAG
89045769 TGAAAACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATAAGAATGACAATAACAATAT
Found at i:89045848 original size:3 final size:3
Alignment explanation
Indices: 89045840--89045913 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
89045830 GACTTCATAG
89045840 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
89045888 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
89045914 GTAAATATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.