Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 286 of 425
Found at i:88607283 original size:20 final size:20
Alignment explanation
Indices: 88607258--88607297 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88607248 CCAGACGTGA
88607258 TCTTACACGTAATCACATAT
1 TCTTACACGTAATCACATAT
88607278 TCTTACACGTAATCACATAT
1 TCTTACACGTAATCACATAT
88607298 CGATGCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (20 bp):
TCTTACACGTAATCACATAT
Found at i:88607314 original size:63 final size:63
Alignment explanation
Indices: 88607215--88607340 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
88607205 CCAGGCGTGG
*
88607215 TCTTACACATAATCACATATCGATGCCAGCATCCCAGACGTGATCTTACACGTAATCACATAT
1 TCTTACACATAATCACATATCGATGCCAACATCCCAGACGTGATCTTACACGTAATCACATAT
* * * *
88607278 TCTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTTTTACACGTAATCACATAT
1 TCTTACACATAATCACATATCGATGCCAACATCCCAGACGTGATCTTACACGTAATCACATAT
88607341 CGATGCCAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (63 bp):
TCTTACACATAATCACATATCGATGCCAACATCCCAGACGTGATCTTACACGTAATCACATAT
Found at i:88607368 original size:41 final size:42
Alignment explanation
Indices: 88607278--88607382 Score: 176
Period size: 41 Copynumber: 2.5 Consensus size: 42
88607268 AATCACATAT
*
88607278 TCTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGG
1 TCTTACACGTAATCACATATCGATGCCAAC-TCCCAGACATGG
*
88607321 TTTTACACGTAATCACATATCGATGCCAA-TCCCAGACATGG
1 TCTTACACGTAATCACATATCGATGCCAACTCCCAGACATGG
88607362 TCTTACACGTAATCACATATC
1 TCTTACACGTAATCACATATC
88607383 AAAATCCTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 31 0.53
43 28 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (42 bp):
TCTTACACGTAATCACATATCGATGCCAACTCCCAGACATGG
Found at i:88617994 original size:61 final size:59
Alignment explanation
Indices: 88617919--88618032 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 59
88617909 CTATTCAAAA
* *
88617919 ATCAGAGTTAACTGGGCCTTAGCCCATACCAATATTAATTTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTGGGCC-TAGCCCATACCAATATCAATCTGGGCCATA-CCCCTTACAGT
* * *
88617980 ATCAGAG-TATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTACCCCT
1 ATCAGAGTTA-ACTGGGCCTAGCCCATACCAATATCAATCTGGGCCATACCCCT
88618033 ATTACAAGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 5 0.11
60 27 0.57
61 15 0.32
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (59 bp):
ATCAGAGTTAACTGGGCCTAGCCCATACCAATATCAATCTGGGCCATACCCCTTACAGT
Found at i:88618038 original size:61 final size:58
Alignment explanation
Indices: 88617918--88618067 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 58
88617908 CCTATTCAAA
* * *
88617918 AATCAGAGT-TAACTGGGCCTTAGCCCATACCAATATTAATTTGGGCCATAGCCCCTTAC
1 AATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTAC
* *
88617977 AGTATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTA-CCCCTATTAC
1 A--ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCC--TTAC
* *
88618038 AAGTC-GAGATATATTGGGCCTTGCCCATAT
1 AA-TCAGAG-TATACTGGGCCTAGCCCATAT
88618068 TAACACAGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
59 9 0.12
60 46 0.60
61 21 0.27
62 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (58 bp):
AATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTAC
Found at i:88618103 original size:19 final size:20
Alignment explanation
Indices: 88618060--88618105 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
88618050 ATTGGGCCTT
88618060 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
88618080 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
88618099 GCCCATA
1 GCCCATA
88618106 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:88627273 original size:51 final size:49
Alignment explanation
Indices: 88627155--88627300 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 49
88627145 TCTATTGTGA
* * * * * *
88627155 GGTCATGTGTGTAGTACTAAGTGCACGTTACTATGTGTACTAGATTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * *
88627204 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
88627254 GGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GG-TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
88627301 GCATTGGCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 37 0.46
50 4 0.05
51 40 0.49
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:88627330 original size:51 final size:51
Alignment explanation
Indices: 88627211--88627338 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 51
88627201 ATTGGTCGCA
* * * *
88627211 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGATAACTTGGATCACG
1 TGTGTAGAAATATGTGCAGGCTACTATGCGTACCAGATAACTTGGATCAAG
* * * * *
88627262 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCATTGGCTACAAG
1 TGTGTAGAAATATGTGCAGGCTACTATGCGTACCAGATAAC-TTGGAT-CAAG
*
88627315 TGTG-A-AAATATGTGCAGGCAACTA
1 TGTGTAGAAATATGTGCAGGCTACTA
88627339 AGTATCAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 53 0.80
52 6 0.09
53 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (51 bp):
TGTGTAGAAATATGTGCAGGCTACTATGCGTACCAGATAACTTGGATCAAG
Found at i:88630447 original size:101 final size:98
Alignment explanation
Indices: 88630263--88630488 Score: 231
Period size: 100 Copynumber: 2.3 Consensus size: 98
88630253 GTGAGGTCAT
* * * * * * *
88630263 GTGTGTAGTACTAAGTGCACGCCACTACGTGTACGGGATTATTGGTCGCATGTGTAGTATTATGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACGAGATGATTGGTCACATGTGTAGTATAATGT
**
88630328 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAGGCTACTACACGTACCCGATAA-TT-GATCAC
* *
88630363 GTGTGTAGTACTAAGTGCAGGCTACTACGTATATC-AGATGGTTAGGTCACGTGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATA-CGAGATGATT-GGTCACATGTGTAGTA-TAA
* * * *
88630427 T-TGCAGGCTACTACATGTACCGGATAATTGGTCGC
63 TGTGCAGGCTACTACACGTACCCGATAATTGATCAC
* * *
88630462 ATGTGTAGTGCTAAGTGTAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
88630489 TGCGACCAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
99 28 0.27
100 37 0.35
101 37 0.35
102 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTATACGAGATGATTGGTCACATGTGTAGTATAATGT
GCAGGCTACTACACGTACCCGATAATTGATCAC
Found at i:88630484 original size:49 final size:50
Alignment explanation
Indices: 88630264--88630488 Score: 211
Period size: 49 Copynumber: 4.5 Consensus size: 50
88630254 TGAGGTCATG
* * * * *
88630264 TGTGTAGTACTAAGTGCACGCCACTACGTGTACGGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* * * * * * * *
88630313 TGTGTAGTATTATGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCACA
* * * ** *
88630364 TGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* * *
88630414 TGTGTAGTACTAATTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* *
88630463 TGTGTAGTGCTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
88630489 TGCGACCAGA
Statistics
Matches: 139, Mismatches: 35, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
49 59 0.42
50 45 0.32
51 35 0.25
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
Found at i:88632405 original size:17 final size:19
Alignment explanation
Indices: 88632373--88632407 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
88632363 ACATTTGGGC
88632373 ACTAAATTTAGTAAAAAGG
1 ACTAAATTTAGTAAAAAGG
88632392 ACTAAA-TT-GTAAAAAG
1 ACTAAATTTAGTAAAAAG
88632408 TGCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
ACTAAATTTAGTAAAAAGG
Found at i:88633517 original size:49 final size:50
Alignment explanation
Indices: 88633451--88633689 Score: 232
Period size: 49 Copynumber: 4.8 Consensus size: 50
88633441 TGAGGTCATG
* * * * *
88633451 TGTGTAGTACTAAGTGCACGCTAGTACGTGTACCAGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAATTAGGTCACA
* * * * * * *
88633500 TGTGTAGTGCTATGTGCAGGCTACTATGAGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAA-TTAGGTCACA
* ** ** *
88633551 TGTGTAGTACTAAGTGCAAGCTACTACGTA-TATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACG-AGTACCAGATAATTAGGTCACA
* * *
88633601 TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCGGATAA-TCGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAATTAGGTCACA
* *
88633650 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAA
88633690 CTTTGGCTAC
Statistics
Matches: 152, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 76 0.50
50 42 0.28
51 33 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATAATTAGGTCACA
Found at i:88633632 original size:101 final size:98
Alignment explanation
Indices: 88633450--88633675 Score: 272
Period size: 101 Copynumber: 2.3 Consensus size: 98
88633440 GTGAGGTCAT
* * * * * * *
88633450 GTGTGTAGTACTAAGTGCACGCTAGTACGTGTACCAGATTATTGGTCGCATGTGTAGTGCTATGT
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATGATTGGTCACATGTGTAGTACTAAGT
*
88633515 GCAGGCTACTATGAGTACCCGATAACTTCGATCAC
66 GCAGGCTACTACGAGTACCCGATAA--TCGATCAC
** * *
88633550 GTGTGTAGTACTAAGTGCAAGCTACTACGTATATTAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATGATT-GGTCACATGTGTAGTACTAAG
* * *
88633615 TGCAGGCTACTACGAGTACCGGATAATCGGTCGC
65 TGCAGGCTACTACGAGTACCCGATAATCGATCAC
* *
88633649 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAAGCTACTA
88633676 TGCGTACCAG
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
99 31 0.29
100 36 0.33
101 41 0.38
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATGATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGAGTACCCGATAATCGATCAC
Found at i:88636778 original size:50 final size:50
Alignment explanation
Indices: 88636595--88636891 Score: 276
Period size: 50 Copynumber: 6.0 Consensus size: 50
88636585 ATCTATTGTG
* * * * *
88636595 AGGTCATGTGTGTAATACTAAGTGCAAGCTACTACGTGTACCGGATTGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
88636645 -GGTCACATGTGTAGTACTATGTGCAGGCTACTATG-GATACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGAT-AGTT
* * * * * *
88636695 CGATCACGTGTGTAATACTAACTGCAGGGTACTACGTGTATCAGATAGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
88636745 AGGTCATGTGTGTAGTACTCAGTGGAGGCTACTACGTGTATCAGATAGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * ** *
88636795 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACTGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * * *
88636845 -GGTCGCTTTTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
88636892 CTTTGGCTAC
Statistics
Matches: 197, Mismatches: 46, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
48 1 0.01
49 73 0.37
50 88 0.45
51 34 0.17
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:88643688 original size:50 final size:49
Alignment explanation
Indices: 88643518--88643751 Score: 240
Period size: 49 Copynumber: 4.7 Consensus size: 49
88643508 ATCTATTGTG
* * * * *
88643518 AGGTGACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCGAATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCACCG-ATAATT
* * * * *
88643568 -GGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCA-CCGATAA-TT
* * **
88643618 CA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAGATGGTT
1 -AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCA-CCGATAATT
* *
88643668 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCACTGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCAC-CGATAATT
*
88643718 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAT
88643752 ACGTACCAGA
Statistics
Matches: 153, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 69 0.45
50 48 0.31
51 36 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCACCGATAATT
Found at i:88643762 original size:99 final size:100
Alignment explanation
Indices: 88643526--88643762 Score: 264
Period size: 101 Copynumber: 2.4 Consensus size: 100
88643516 TGAGGTGACG
* * * * *
88643526 TGTGTAGTACTAAGTGCAGGATACTACGTGTACC-GAATTATTGGTCGCATGTGTAGTATTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATGATTGGTCACATGTGTAGTACTAAGT
* * *
88643590 GCAGGCTACTATGCGTACCCGATAACTTCAATCACG
65 GCAGGCTACTACGCGCACCCGATAACTTCAATCACA
* * * *
88643626 TGTGTAGTACTAAGTGCAGGCTACTATGTGCATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGT
* ** **
88643691 GCAGGCTACTACGTGCACTGGATAA-TT-GGTCACA
65 GCAGGCTACTACGCGCACCCGATAACTTCAATCACA
**
88643725 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
88643763 AGCTTTGGCT
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
99 38 0.33
100 36 0.32
101 40 0.35
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGCACCCGATAACTTCAATCACA
Found at i:88648278 original size:29 final size:29
Alignment explanation
Indices: 88648245--88648321 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
88648235 TGAATATGAC
* *
88648245 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
88648274 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
88648303 TGGGCGTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
88648322 GAATATGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:88668012 original size:8 final size:9
Alignment explanation
Indices: 88667983--88668015 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
88667973 TAATAAGTTA
88667983 ATGAAATAT
1 ATGAAATAT
88667992 ATGAAATAT
1 ATGAAATAT
88668001 ATGAAA-AT
1 ATGAAATAT
88668009 ATGAAAT
1 ATGAAAT
88668016 TGGGACATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (9 bp):
ATGAAATAT
Found at i:88674149 original size:26 final size:24
Alignment explanation
Indices: 88674094--88674151 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
88674084 TATATATATA
88674094 ATTTAT-TTATTTTAAAAAACTAT
1 ATTTATATTATTTTAAAAAACTAT
**
88674117 ACATATATTATTATTAAAAATACTAT
1 ATTTATATTATT-TTAAAAA-ACTAT
*
88674143 TTTTATATT
1 ATTTATATT
88674152 TATATAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.15
24 5 0.19
25 7 0.26
26 11 0.41
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTATATTATTTTAAAAAACTAT
Found at i:88674214 original size:25 final size:25
Alignment explanation
Indices: 88674186--88674331 Score: 79
Period size: 25 Copynumber: 5.6 Consensus size: 25
88674176 ATTATTTTCC
88674186 TATATATATTTATATTATATTTTAT
1 TATATATATTTATATTATATTTTAT
*
88674211 TATATA-ACATT-TATTATATTTTTAT
1 TATATATA-TTTATATTATA-TTTTAT
* *
88674236 TATATAT-TACT-TATTATTGTTTTAT
1 TATATATAT-TTATATTA-TATTTTAT
* *
88674261 TATATGTTATGTATATCGTATATTATCTAT
1 TATAT-ATATTTATAT--TATATT-T-TAT
*
88674291 TATAT-TATTTATGTTTTATATTATTCAT
1 TATATATATTTA--TATTATATT-TT-AT
88674319 TATAT-TATTTATA
1 TATATATATTTATA
88674332 ATTTTAAAAT
Statistics
Matches: 96, Mismatches: 10, Indels: 29
0.71 0.07 0.21
Matches are distributed among these distances:
24 8 0.08
25 37 0.39
26 4 0.04
27 5 0.05
28 29 0.30
29 3 0.03
30 10 0.10
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (25 bp):
TATATATATTTATATTATATTTTAT
Found at i:88678432 original size:14 final size:16
Alignment explanation
Indices: 88678413--88678449 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
88678403 CGATACCCTT
88678413 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
88678427 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
88678443 TTT-CATC
1 TTTGCATC
88678450 GCATCCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:88678449 original size:15 final size:15
Alignment explanation
Indices: 88678413--88678462 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
88678403 CGATACCCTT
88678413 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
88678427 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
88678443 TTT-CATCGCAT-CC
1 TTTGCATCTCATGCA
88678456 TTTGCAT
1 TTTGCAT
88678463 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:88679886 original size:13 final size:13
Alignment explanation
Indices: 88679858--88679897 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
88679848 CACTTGAAAC
*
88679858 CAAATGGTATAATG
1 CAAATGCTA-AATG
88679872 CAAATGCTAAATG
1 CAAATGCTAAATG
88679885 CAAATGC-AAATG
1 CAAATGCTAAATG
88679897 C
1 C
88679898 CTAGCCCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.24
13 11 0.44
14 8 0.32
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (13 bp):
CAAATGCTAAATG
Found at i:88679889 original size:6 final size:6
Alignment explanation
Indices: 88679868--88679897 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
88679858 CAAATGGTAT
88679868 AATGCA AATGCTA AATGCA AATGCA AATGC
1 AATGCA AATGC-A AATGCA AATGCA AATGC
88679898 CTAGCCCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (6 bp):
AATGCA
Found at i:88684278 original size:40 final size:40
Alignment explanation
Indices: 88684233--88684400 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
88684223 CGGAATATAA
88684233 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88684273 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
88684313 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
88684353 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
88684393 CCGGATAT
1 CCGGATAT
88684401 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88693487 original size:23 final size:23
Alignment explanation
Indices: 88693457--88693502 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
88693447 AATTATAAGT
88693457 CATAGTTTATATGTCTAGATTTC
1 CATAGTTTATATGTCTAGATTTC
88693480 CATAGTTTATATGTCTAGATTTC
1 CATAGTTTATATGTCTAGATTTC
88693503 TTAGTGAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (23 bp):
CATAGTTTATATGTCTAGATTTC
Found at i:88696647 original size:40 final size:40
Alignment explanation
Indices: 88696570--88696790 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
88696560 ACCCAAGTAT
* *
88696570 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
88696609 CTTTGGGTCTTAGCCCGAATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
88696649 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
88696689 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
88696729 CTTCGGATCTTAGTCCGGATATACTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
88696769 CTTCGGGAATTAGCCCGAATAT
1 CTTCGGGTCTTAGCCCGGATAT
88696791 CATTCAAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 138 0.91
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:88699672 original size:34 final size:33
Alignment explanation
Indices: 88699627--88699718 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 33
88699617 GTTTCAGTTA
* * *
88699627 GGGCCTTAGCCCATTTCAGAATCAGAA-ATAGTG
1 GGGCCTGAGCCCATTACAGAATCAGAATA-AGAG
* *
88699660 TGGGCCTGAGCCCATTCCAGTAAT-AGTATAAGAG
1 -GGGCCTGAGCCCATTACAG-AATCAGAATAAGAG
*
88699694 GGGCCTGAGGCCATTACAGAATCAG
1 GGGCCTGAGCCCATTACAGAATCAG
88699719 TGCAGTATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 3 0.06
33 19 0.39
34 23 0.47
35 4 0.08
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (33 bp):
GGGCCTGAGCCCATTACAGAATCAGAATAAGAG
Found at i:88705234 original size:27 final size:28
Alignment explanation
Indices: 88705172--88705238 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 28
88705162 TTTGTACAGT
88705172 ACTAAGTGTGCGAGTTGGATCATATAAC
1 ACTAAGTGTGCGAGTTGGATCATATAAC
* *
88705200 ACTAAGTGTGCGAGTT-GATTATATAGC
1 ACTAAGTGTGCGAGTTGGATCATATAAC
*
88705227 ACTGAGTGTGCG
1 ACTAAGTGTGCG
88705239 GACTCACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTGGATCATATAAC
Found at i:88708587 original size:40 final size:40
Alignment explanation
Indices: 88708527--88708750 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
88708517 TATTCGGATG
88708527 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
88708567 ATATTCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
88708610 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
88708650 ATATCCGGGCTAAGTCCCTAAGGCATTCATGCGAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
88708690 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
88708730 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
88708751 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 109 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:88708673 original size:83 final size:80
Alignment explanation
Indices: 88708531--88708750 Score: 266
Period size: 83 Copynumber: 2.7 Consensus size: 80
88708521 CGGATGATAT
* *
88708531 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCACTT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TTC
* *
88708595 GTGCGAGTAGTTGCTATAC
65 ATGCGAGT-G--ACTATAC
* *
88708614 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCTAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
88708679 TGCGAGTGACTATAT
66 TGCGAGTGACTATAC
* * * * *
88708694 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCTGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
88708751 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 12 0.10
80 41 0.34
81 2 0.02
82 3 0.02
83 64 0.52
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCGAGTGACTATAC
Found at i:88717527 original size:49 final size:49
Alignment explanation
Indices: 88717402--88717568 Score: 307
Period size: 49 Copynumber: 3.4 Consensus size: 49
88717392 ATGTATGAGA
88717402 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
88717451 TATGTATATATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TA--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
88717502 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
88717551 TATATATATGTGATAAGG
1 TATATATATGTGATAAGG
88717569 ATGTGTATAT
Statistics
Matches: 114, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
49 66 0.58
51 48 0.42
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:88717635 original size:48 final size:48
Alignment explanation
Indices: 88717563--88717701 Score: 206
Period size: 48 Copynumber: 2.9 Consensus size: 48
88717553 TATATATGTG
* *
88717563 ATAAGGATGTGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATAT
1 ATAA-GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATAT
* *
88717612 ATAAGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATAT
1 ATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATAT
* **
88717660 GTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
88717702 TGTTGTAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 78 0.95
49 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.29
Consensus pattern (48 bp):
ATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATAT
Found at i:88717795 original size:37 final size:37
Alignment explanation
Indices: 88717741--88717831 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
88717731 AACTTGGAAA
* *
88717741 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACATGTGGAGAT
88717779 TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
*
88717816 TATGTTCGGGTAAGAC
1 TATGTCCGGGTAAGAC
88717832 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
Found at i:88720654 original size:40 final size:40
Alignment explanation
Indices: 88720599--88720822 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
88720589 TATTCGGATG
88720599 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
88720639 ATATCCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
** * * *
88720682 ATGCCCGGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
88720722 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
88720762 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
88720802 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
88720823 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.07
40 110 0.71
41 1 0.01
43 34 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:88726809 original size:27 final size:27
Alignment explanation
Indices: 88726763--88726827 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
88726753 GTACAAATCT
*
88726763 GTCATTTTACCTTACAGGGGTATTATA
1 GTCATTTTACCCTACAGGGGTATTATA
** * *
88726790 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGTATTATA
88726817 GTCATTTTACC
1 GTCATTTTACC
88726828 TTATAAGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATA
Found at i:88738987 original size:40 final size:40
Alignment explanation
Indices: 88738901--88739124 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
88738891 TATTCGGATG
*
88738901 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * *
88738942 ATATCCGGGTTAAGTCCCGAAAGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88738982 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * * *
88739023 ATATCCCGGCTAAGTCCTGAAGGAATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
88739063 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
88739103 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
88739125 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
39 14 0.09
40 87 0.55
41 57 0.36
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88739037 original size:81 final size:80
Alignment explanation
Indices: 88738900--88739094 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 80
88738890 TTATTCGGAT
* *
88738900 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAAG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCCGGCTAAGTCCCGAAAG
* *
88738965 CATTTGCGCTAGTGAC
65 AATTTGCGCGAGTGAC
* *
88738981 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCCGGCTAAGTCCTGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCCGGCTAAGTCCCGAAAG
* *
88739046 AATTTGTGCGAGTTAC
65 AATTTGCGCGAGTGAC
* * *
88739062 TATATCCAGGCTAAGTCCCGAAGGCATTTGTGC
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGC
88739095 GATTTGCTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 7 0.07
81 95 0.93
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCCGGCTAAGTCCCGAAAGA
ATTTGCGCGAGTGAC
Found at i:88746376 original size:13 final size:13
Alignment explanation
Indices: 88746358--88746382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88746348 AACAATGCCA
88746358 GACACGGCCGTGC
1 GACACGGCCGTGC
88746371 GACACGGCCGTG
1 GACACGGCCGTG
88746383 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:88751886 original size:13 final size:13
Alignment explanation
Indices: 88751868--88751894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88751858 AATGAAGTAG
88751868 GACACAGTCGTGT
1 GACACAGTCGTGT
88751881 GACACAGTCGTGT
1 GACACAGTCGTGT
88751894 G
1 G
88751895 CACCAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACAGTCGTGT
Found at i:88754528 original size:28 final size:27
Alignment explanation
Indices: 88754465--88754534 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
88754455 ATAGTGAGTC
88754465 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
88754492 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
88754520 CGCAGACTTAGTGCT
1 CGCACACTTAGTGCT
88754535 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:88757581 original size:25 final size:25
Alignment explanation
Indices: 88757547--88757597 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
88757537 GTTAACCCAT
88757547 AACCCATTATTGTTGAAATCCCCTA
1 AACCCATTATTGTTGAAATCCCCTA
88757572 AACCCATTATTGTTGAAATCCCCTA
1 AACCCATTATTGTTGAAATCCCCTA
88757597 A
1 A
88757598 TTTGATCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.31
Consensus pattern (25 bp):
AACCCATTATTGTTGAAATCCCCTA
Found at i:88767388 original size:20 final size:20
Alignment explanation
Indices: 88767365--88767406 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
88767355 ATGCCCGAAC
*
88767365 TCGTTGAGTTGAGTCCGAGT
1 TCGTTAAGTTGAGTCCGAGT
88767385 TCGTTAAGTTGAGTCCGAGT
1 TCGTTAAGTTGAGTCCGAGT
88767405 TC
1 TC
88767407 ACTTATGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.36
Consensus pattern (20 bp):
TCGTTAAGTTGAGTCCGAGT
Found at i:88767425 original size:66 final size:66
Alignment explanation
Indices: 88767319--88767452 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
88767309 GCATCCAAGC
88767319 TCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAG
1 TCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAG
88767384 T
66 T
88767385 TCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAG
1 TCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAG
88767450 T
66 T
88767451 TC
1 TC
88767453 ATGAGATGTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (66 bp):
TCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAG
T
Found at i:88775065 original size:7 final size:7
Alignment explanation
Indices: 88775053--88775077 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88775043 CCATTCCTAA
88775053 TCATCCC
1 TCATCCC
88775060 TCATCCC
1 TCATCCC
88775067 TCATCCC
1 TCATCCC
88775074 TCAT
1 TCAT
88775078 GATTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:88781901 original size:524 final size:524
Alignment explanation
Indices: 88780913--88781962 Score: 2073
Period size: 524 Copynumber: 2.0 Consensus size: 524
88780903 AGATTTGGCC
88780913 TAAGCATGGTGTGTGCAAAATTTTGCATGTTTTGTGTTTTGTGCAATTTGGACTAAATTGTAAAA
1 TAAGCATGGTGTGTGCAAAATTTTGCATGTTTTGTGTTTTGTGCAATTTGGACTAAATTGTAAAA
88780978 AGTGTAAAATGTCAGAGTAAAATGGTATTTGCCCATTTATGTGTTCTTGGACTAAATTGAATGAA
66 AGTGTAAAATGTCAGAGTAAAATGGTATTTGCCCATTTATGTGTTCTTGGACTAAATTGAATGAA
88781043 ATTATATTTGAATAAGTTTAATTGGAATATGTTTAGATCAAGAACTAAAGAAATCAGATCTGGAT
131 ATTATATTTGAATAAGTTTAATTGGAATATGTTTAGATCAAGAACTAAAGAAATCAGATCTGGAT
88781108 TGGGGGAAAACCAAAGTTGTCGAATAGTCATCCCGTTCCGATTACTGTTGTCCAAGGTAAGTTTA
196 TGGGGGAAAACCAAAGTTGTCGAATAGTCATCCCGTTCCGATTACTGTTGTCCAAGGTAAGTTTA
88781173 TAGGCAAATAGATGTTGTAAATTTCAATATATGTATATTATAAATGCTAAATTGAATTGTTATAA
261 TAGGCAAATAGATGTTGTAAATTTCAATATATGTATATTATAAATGCTAAATTGAATTGTTATAA
88781238 TTTCTTGAGAATGTACCGAAATGATATAAGTTTGAGAGCAATGGTTACGAGTTCGATTCTATCAA
326 TTTCTTGAGAATGTACCGAAATGATATAAGTTTGAGAGCAATGGTTACGAGTTCGATTCTATCAA
88781303 GTTACCACATTCGAAAGCCCCGTATGAGGCATAGGAATAGATAGGATATATATGTCATGACATAG
391 GTTACCACATTCGAAAGCCCCGTATGAGGCATAGGAATAGATAGGATATATATGTCATGACATAG
88781368 GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCAATATATGTGTGCAAGTAAGACCATGT
456 GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCAATATATGTGTGCAAGTAAGACCATGT
88781433 TTAA
521 TTAA
88781437 TAAGCATGGTGTGTGCAAAATTTTGCATGTTTTGTGTTTTGTGCAATTTGGACTAAATTGTAAAA
1 TAAGCATGGTGTGTGCAAAATTTTGCATGTTTTGTGTTTTGTGCAATTTGGACTAAATTGTAAAA
88781502 AGTGTAAAATGTCAGAGTAAAATGGTATTTGCCCATTTATGTGTTCTTGGACTAAATTGAATGAA
66 AGTGTAAAATGTCAGAGTAAAATGGTATTTGCCCATTTATGTGTTCTTGGACTAAATTGAATGAA
*
88781567 ATTATATTTGAATAAGTTTAATTGGAATATGTTTAGATCAAGAACTAAAGAAATCGGATCTGGAT
131 ATTATATTTGAATAAGTTTAATTGGAATATGTTTAGATCAAGAACTAAAGAAATCAGATCTGGAT
*
88781632 TGGGGGAAAACCAAAGTTGTCGAATAGTCATCCTGTTCCGATTACTGTTGTCCAAGGTAAGTTTA
196 TGGGGGAAAACCAAAGTTGTCGAATAGTCATCCCGTTCCGATTACTGTTGTCCAAGGTAAGTTTA
88781697 TAGGCAAATAGATGTTGTAAATTTCAATATATGTATATTATAAATGCTAAATTGAATTGTTATAA
261 TAGGCAAATAGATGTTGTAAATTTCAATATATGTATATTATAAATGCTAAATTGAATTGTTATAA
88781762 TTTCTTGAGAATGTACCGAAATGATATAAGTTTGAGAGCAATGGTTACGAGTTCGATTCTATCAA
326 TTTCTTGAGAATGTACCGAAATGATATAAGTTTGAGAGCAATGGTTACGAGTTCGATTCTATCAA
*
88781827 GTTACCATATTCGAAAGCCCCGTATGAGGCATAGGAATAGATAGGATATATATGTCATGACATAG
391 GTTACCACATTCGAAAGCCCCGTATGAGGCATAGGAATAGATAGGATATATATGTCATGACATAG
88781892 GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCAATATATGTGTGCAAGTAAGACCATGT
456 GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCAATATATGTGTGCAAGTAAGACCATGT
88781957 TTAA
521 TTAA
88781961 TA
1 TA
88781963 CGTTGGCATC
Statistics
Matches: 523, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
524 523 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (524 bp):
TAAGCATGGTGTGTGCAAAATTTTGCATGTTTTGTGTTTTGTGCAATTTGGACTAAATTGTAAAA
AGTGTAAAATGTCAGAGTAAAATGGTATTTGCCCATTTATGTGTTCTTGGACTAAATTGAATGAA
ATTATATTTGAATAAGTTTAATTGGAATATGTTTAGATCAAGAACTAAAGAAATCAGATCTGGAT
TGGGGGAAAACCAAAGTTGTCGAATAGTCATCCCGTTCCGATTACTGTTGTCCAAGGTAAGTTTA
TAGGCAAATAGATGTTGTAAATTTCAATATATGTATATTATAAATGCTAAATTGAATTGTTATAA
TTTCTTGAGAATGTACCGAAATGATATAAGTTTGAGAGCAATGGTTACGAGTTCGATTCTATCAA
GTTACCACATTCGAAAGCCCCGTATGAGGCATAGGAATAGATAGGATATATATGTCATGACATAG
GATTCCGATATGTGATGTGCGAGTAAGACCATGGCATCAATATATGTGTGCAAGTAAGACCATGT
TTAA
Found at i:88781994 original size:56 final size:56
Alignment explanation
Indices: 88781931--88782126 Score: 259
Period size: 56 Copynumber: 3.5 Consensus size: 56
88781921 CATGGCATCA
* *
88781931 ATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTAATTCCG
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
* *
88781987 ATATATGTGTG-AGAGTAAGACCACGTTTAATACGTTGTCATCGATATGTGATTCCT
1 ATATATGTGTGCA-AGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
* * * * *
88782043 ATATATGTGTACGAGTAATACCACATTTAATACGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
* *
88782099 ATATATGTGATTACATGTAAGACCACGT
1 ATATATGTG--TGCAAGTAAGACCACGT
88782127 CTGGGACGTT
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 107 0.88
58 13 0.11
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
Found at i:88783491 original size:27 final size:27
Alignment explanation
Indices: 88783403--88783511 Score: 101
Period size: 27 Copynumber: 4.0 Consensus size: 27
88783393 AAACATACAT
* * *
88783403 CACATAGGGCAAAACAGTCATCTTAGCA
1 CACA-AGGGCAAAATAGTCATTTTACCA
* * * *
88783431 CATAACGGTAAAATAGTCAATTTACCA
1 CACAAGGGCAAAATAGTCATTTTACCA
* *
88783458 CATAAGGGTAAAATAGTCATTTTACCA
1 CACAAGGGCAAAATAGTCATTTTACCA
* * *
88783485 CACAAGGACAATATATTCATTTTACCA
1 CACAAGGGCAAAATAGTCATTTTACCA
88783512 TAAAGAGGGT
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 64 0.96
28 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (27 bp):
CACAAGGGCAAAATAGTCATTTTACCA
Found at i:88785366 original size:46 final size:46
Alignment explanation
Indices: 88785299--88785473 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
88785289 TGTAACCTGC
*
88785299 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGAGTTCACAT
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGGGAGTTCACAT
** *
88785345 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCG---G--GAGTTCACAT
* * * * *
88785395 -C-TCA-CGAACTCAAACTCAACTCAACGAGCTC-AGATATTCGCAT
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGGGA-GTTCACAT
* *
88785438 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGG
1 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGG
88785474 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.56
47 24 0.23
48 2 0.02
49 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGGGAGTTCACAT
Found at i:88785416 original size:93 final size:93
Alignment explanation
Indices: 88785307--88785478 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
88785297 GCCCATAAGT
* * * *
88785307 GAACTCGAACTCAACTCAACGAGCTCGGGA-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAAACTCAACTCAACGAGCTC-AGATATTCACATCCATAAGTGAACTCAGACTCAACTCA
88785371 ACGAGCTCGAATGCCTAGTTACATCTCAC
65 ACGAGCTCGAATGCCTAGTTACATCTCAC
*
88785400 GAACTCAAACTCAACTCAACGAGCTCAGATATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAAACTCAACTCAACGAGCTCAGATATTCACATCCATAAGTGAACTCAGACTCAACTCAA
* *
88785465 TGAGCTCGGATGCC
66 CGAGCTCGAATGCC
88785479 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (93 bp):
GAACTCAAACTCAACTCAACGAGCTCAGATATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:88793880 original size:36 final size:36
Alignment explanation
Indices: 88793836--88793908 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
88793826 TGGATGTTTG
88793836 ATGATGGAATTGTGAGTAAATGGCATAATAACAACT
1 ATGATGGAATTGTGAGTAAATGGCATAATAACAACT
88793872 ATGATGGAATTGTGAGTAAATGGCATAATAACAACT
1 ATGATGGAATTGTGAGTAAATGGCATAATAACAACT
88793908 A
1 A
88793909 AGGCATGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.27
Consensus pattern (36 bp):
ATGATGGAATTGTGAGTAAATGGCATAATAACAACT
Found at i:88798535 original size:40 final size:40
Alignment explanation
Indices: 88798475--88798692 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
88798465 TGGATGATAA
* * *
88798475 CCGGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
88798515 CCGGGCTAAGCCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88798555 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88798595 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88798635 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
88798675 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88798693 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 142 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88805646 original size:40 final size:40
Alignment explanation
Indices: 88805586--88805803 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
88805576 CGGATGATAA
* * *
88805586 CCGGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T
* * *
88805626 CCGGGCTAAGCCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
88805666 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
** *
88805706 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
88805746 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
* *
88805786 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
88805804 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.09
40 142 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:88805725 original size:80 final size:80
Alignment explanation
Indices: 88805582--88805803 Score: 306
Period size: 80 Copynumber: 2.8 Consensus size: 80
88805572 TATTCGGATG
* * * *
88805582 ATAACCGGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCAAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCAAAGGC
88805646 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
88805662 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
*
88805727 TTTGTGTGAGTTACT
66 TTTGTGCGAGTTACT
* * * *
88805742 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCAAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCAAAGG
88805804 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 16 0.13
80 110 0.87
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
TTTGTGCGAGTTACT
Found at i:88809680 original size:43 final size:43
Alignment explanation
Indices: 88809583--88809746 Score: 197
Period size: 43 Copynumber: 3.9 Consensus size: 43
88809573 TCTAAATTCA
* * *
88809583 TTCACCGGCATT-TCGCCTGCTAGGCTCGACGCTTGATA-TAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
** * * *
88809624 TTCACTAGCATTATAGCCTGCTAGGGTCGATGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
* * * *
88809667 TTCACCGGCATTATAGCCTACCAGGCTCAAAGCCTGATATTTT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
*
88809710 TTCACCGGCATTATAGGCTGCTAGGCTCGAAGCCTGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGA
88809747 ATTCATCATA
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 10 0.10
42 21 0.21
43 70 0.69
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
Found at i:88818090 original size:40 final size:40
Alignment explanation
Indices: 88817982--88818091 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88817972 ATTGAATGAT
* * * * *
88817982 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88818022 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88818062 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88818092 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88818106 original size:40 final size:39
Alignment explanation
Indices: 88817982--88818130 Score: 131
Period size: 40 Copynumber: 3.7 Consensus size: 39
88817972 ATTGAATGAT
* * * * * * *
88817982 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
88818022 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
88818062 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
88818102 ATCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 ATCCGGGTTAAGACCCGAAGGCATTTGTG
88818131 GGTTACCATA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 85 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88826201 original size:39 final size:40
Alignment explanation
Indices: 88826110--88826218 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 40
88826100 ATTGAATGAT
* * * * *
88826110 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* *
88826150 ATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88826189 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88826219 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.57
40 26 0.43
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88826233 original size:40 final size:38
Alignment explanation
Indices: 88826110--88826257 Score: 124
Period size: 39 Copynumber: 3.8 Consensus size: 38
88826100 ATTGAATGAT
* * * * * *
88826110 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
88826150 ATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACTAC
1 ATCCGGG-TAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
*
88826189 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGG-TAAGACCCGAAGGCATTTGTGC---TAGTGACAC
88826229 ATCCGGGTAAGTACCCGAAGGC-TTTGTGC
1 ATCCGGGTAAG-ACCCGAAGGCATTTGTGC
88826258 GGGTTCCATA
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
39 44 0.47
40 43 0.46
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
ATCCGGGTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88829278 original size:40 final size:40
Alignment explanation
Indices: 88829221--88829325 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
88829211 ATTGAATGAT
* * * *
88829221 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
* * * *
88829261 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
88829301 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
88829326 GTGCAATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
Found at i:88829355 original size:37 final size:39
Alignment explanation
Indices: 88829261--88829365 Score: 124
Period size: 37 Copynumber: 2.7 Consensus size: 39
88829251 TGGTAATTAC
* *
88829261 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGC-ATTGTGCTAATGACTAA
* **
88829301 ATCCGGGCTAAGACCCGAAGGCATTGTGC-AAT-TTTAA
1 ATCCGGGTTAAGACCCGAAGGCATTGTGCTAATGACTAA
* *
88829338 ATCCGGGTTAAGTCCCGAAGGCCTTGTG
1 ATCCGGGTTAAGACCCGAAGGCATTGTG
88829366 TGGGTTACCA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 27 0.47
38 2 0.04
39 7 0.12
40 21 0.37
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTGTGCTAATGACTAA
Found at i:88837341 original size:40 final size:40
Alignment explanation
Indices: 88837233--88837342 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
88837223 ATTGAATGAT
* * * * *
88837233 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88837273 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
88837313 ATCCGGGCTAAGGCCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88837343 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88840694 original size:41 final size:40
Alignment explanation
Indices: 88840593--88840746 Score: 236
Period size: 41 Copynumber: 3.8 Consensus size: 40
88840583 ATAGCAAATC
* *
88840593 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
**
88840633 GCACAAATGCCTTCGGGACTTAGCCCGTTTATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
88840673 GCACAAAATGCCTTCGGGACTTAACCCGGATATAGTCACTA
1 GCAC-AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
88840714 GCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAA-TGCCTTCGGGACTTAGCCCGGATAT
88840747 CATCCGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
40 43 0.42
41 60 0.58
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:88840701 original size:81 final size:81
Alignment explanation
Indices: 88840593--88840741 Score: 246
Period size: 81 Copynumber: 1.8 Consensus size: 81
88840583 ATAGCAAATC
* *
88840593 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA-TGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAGC
88840657 CCGTTTATAGTCACTA
66 CCGTTTATAGTCACTA
* *
88840673 GCACAAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAG
1 GCAC-AAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAG
88840738 CCCG
65 CCCG
88840742 GATATCATCC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 4 0.06
81 40 0.63
82 19 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAGC
CCGTTTATAGTCACTA
Found at i:88847918 original size:41 final size:40
Alignment explanation
Indices: 88847817--88847970 Score: 236
Period size: 41 Copynumber: 3.8 Consensus size: 40
88847807 ATAGCAAATC
* *
88847817 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
**
88847857 GCACAAATGCCTTCGGGACTTAGCCCGTTTATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
88847897 GCACAAAATGCCTTCGGGACTTAACCCGGATATAGTCACTA
1 GCAC-AAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
88847938 GCACAAAGTGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAA-TGCCTTCGGGACTTAGCCCGGATAT
88847971 CATCCGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
40 43 0.42
41 60 0.58
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:88847925 original size:81 final size:81
Alignment explanation
Indices: 88847817--88847965 Score: 246
Period size: 81 Copynumber: 1.8 Consensus size: 81
88847807 ATAGCAAATC
* *
88847817 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA-TGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAGC
88847881 CCGTTTATAGTCACTA
66 CCGTTTATAGTCACTA
* *
88847897 GCACAAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAG
1 GCAC-AAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAG
88847962 CCCG
65 CCCG
88847966 GATATCATCC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 4 0.06
81 40 0.63
82 19 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGTGCCTTCGGGACTTAGC
CCGTTTATAGTCACTA
Found at i:88861067 original size:24 final size:23
Alignment explanation
Indices: 88861015--88861071 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
88861005 GCTGATGGAT
88861015 AGTAAGCTCTATGGAGCTAAAAC
1 AGTAAGCTCTATGGAGCTAAAAC
* *
88861038 AATAAGCTCTAAT-GAGCTGAGAAC
1 AGTAAGCTCT-ATGGAGCT-AAAAC
88861062 AGTAAGCTCT
1 AGTAAGCTCT
88861072 TGTAACATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTATGGAGCTAAAAC
Found at i:88862404 original size:21 final size:21
Alignment explanation
Indices: 88862380--88862449 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
88862370 TGATTTGAAC
88862380 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * * *
88862401 TCA-TGATATATGTGACATCCGAGC
1 TCATTGA-GT-TGTG--GTCTGAGT
*
88862425 TCATTAAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
88862446 TCAT
1 TCAT
88862450 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 4 0.11
23 4 0.11
24 9 0.26
25 2 0.06
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:88864684 original size:28 final size:28
Alignment explanation
Indices: 88864643--88864722 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
88864633 CATACATGCC
* *
88864643 TATGGTCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
88864671 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
*
88864700 TATGGCCCACTAGGCCTAATCAC
1 TATGGCCCACTAGGCCCAATCAC
88864723 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 21 0.47
29 23 0.51
30 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:88864703 original size:29 final size:28
Alignment explanation
Indices: 88864643--88864722 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
88864633 CATACATGCC
* *
88864643 TATGGTCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
*
88864671 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
*
88864700 TATGGCCCACTAGGCCTAATCAC
1 TATGGCCCACTAGGCCCAATCAC
88864723 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:88871807 original size:40 final size:40
Alignment explanation
Indices: 88871752--88872015 Score: 368
Period size: 40 Copynumber: 6.5 Consensus size: 40
88871742 TATTCGGATG
88871752 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
88871792 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
88871832 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
88871875 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
88871915 ATATCTGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
88871955 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
88871995 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
88872016 ATACTTGGGT
Statistics
Matches: 201, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.06
40 151 0.75
41 1 0.00
43 36 0.18
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:88871978 original size:123 final size:120
Alignment explanation
Indices: 88871756--88872015 Score: 387
Period size: 123 Copynumber: 2.1 Consensus size: 120
88871746 CGGATGATAT
* **
88871756 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
* *
88871821 TGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTGCTATAC
66 TGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCATTTGTGC--G-AGTTGCTATAC
* *
88871879 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
* * *
88871944 TGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
66 TGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAC
*
88871999 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88872016 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 14 0.11
120 12 0.10
121 1 0.01
123 99 0.79
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAC
Found at i:88877120 original size:20 final size:21
Alignment explanation
Indices: 88877094--88877160 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
88877084 ATTTTGTTAT
88877094 ACATGAT-TGATATGATATGC
1 ACATGATATGATATGATATGC
*
88877114 TCATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
88877134 ACATGATATGA-ATGATATGC
1 ACATGATATGATATGATATGC
*
88877154 ATATGAT
1 ACATGAT
88877161 GTATTCATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:88877159 original size:11 final size:11
Alignment explanation
Indices: 88877103--88877160 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
88877093 TACATGATTG
88877103 ATATGATATGC
1 ATATGATATGC
88877114 -TCATGATATG-
1 AT-ATGATATGC
88877124 -TATGATATGC
1 ATATGATATGC
*
88877134 ACATGATATG-
1 ATATGATATGC
88877144 A-ATGATATGC
1 ATATGATATGC
88877154 ATATGAT
1 ATATGAT
88877161 GTATTCATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
9 16 0.39
10 4 0.10
11 21 0.51
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (11 bp):
ATATGATATGC
Found at i:88877310 original size:25 final size:26
Alignment explanation
Indices: 88877210--88877336 Score: 188
Period size: 26 Copynumber: 5.0 Consensus size: 26
88877200 GAGGAAGTGC
*
88877210 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
88877236 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
88877263 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
88877289 AAAAGGGCTT-TGCCCCATTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
88877314 AAAAGGGCTT-TGCCCCA-TTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
88877337 AAAGAGGCTA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.04
25 29 0.31
26 36 0.38
27 25 0.27
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:88878107 original size:15 final size:15
Alignment explanation
Indices: 88878087--88878119 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
88878077 GATCCATTCG
88878087 AAGAGCTTGGTACTT
1 AAGAGCTTGGTACTT
88878102 AAGAGCTTGGTACTT
1 AAGAGCTTGGTACTT
88878117 AAG
1 AAG
88878120 CAGCCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (15 bp):
AAGAGCTTGGTACTT
Found at i:88879996 original size:71 final size:71
Alignment explanation
Indices: 88879912--88880075 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
88879902 CGATTTGTCT
88879912 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88879977 CTTTCA
66 CTTTCA
* *
88879983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88880048 CTTTCA
66 CTTTCA
88880054 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88880076 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:88880113 original size:71 final size:70
Alignment explanation
Indices: 88879912--88880109 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
88879902 CGATTTGTCT
* * * * *
88879912 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88879977 CTTTCA
65 CTTTCA
* * * *
88879983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88880048 CTTTCA
65 CTTTCA
* *
88880054 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88880110 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88887507 original size:71 final size:71
Alignment explanation
Indices: 88887424--88887587 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
88887414 CGATTTGTCT
88887424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88887489 CTTTCA
66 CTTTCA
*
88887495 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88887560 CTTTCA
66 CTTTCA
88887566 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88887588 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:88887625 original size:71 final size:70
Alignment explanation
Indices: 88887424--88887621 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
88887414 CGATTTGTCT
* * * * *
88887424 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88887489 CTTTCA
65 CTTTCA
* * * *
88887495 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88887560 CTTTCA
65 CTTTCA
* *
88887566 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88887622 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88894201 original size:71 final size:71
Alignment explanation
Indices: 88894118--88894281 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
88894108 CGATTTGTCT
88894118 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88894183 CTTTCA
66 CTTTCA
* *
88894189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
88894254 CTTTCA
66 CTTTCA
88894260 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88894282 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:88894319 original size:71 final size:70
Alignment explanation
Indices: 88894118--88894315 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
88894108 CGATTTGTCT
* * * * *
88894118 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88894183 CTTTCA
65 CTTTCA
* * * *
88894189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
88894254 CTTTCA
65 CTTTCA
* *
88894260 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
88894316 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88901338 original size:28 final size:28
Alignment explanation
Indices: 88901293--88901363 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 28
88901283 CCAGATTGTG
* * *
88901293 AAATTACCAAAATACCCCCGATAGGGTA
1 AAATGACCATAATGCCCCCGATAGGGTA
*
88901321 AAATGACCATAATG-CCCCTATAGGGTA
1 AAATGACCATAATGCCCCCGATAGGGTA
* * *
88901348 AACTGACGATTATGCC
1 AAATGACCATAATGCC
88901364 ATTGTGTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (28 bp):
AAATGACCATAATGCCCCCGATAGGGTA
Found at i:88901346 original size:27 final size:27
Alignment explanation
Indices: 88901308--88901363 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
88901298 ACCAAAATAC
88901308 CCCCGATAGGGTAAAATGACCATAATG
1 CCCCGATAGGGTAAAATGACCATAATG
* * * *
88901335 CCCCTATAGGGTAAACTGACGATTATG
1 CCCCGATAGGGTAAAATGACCATAATG
88901362 CC
1 CC
88901364 ATTGTGTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (27 bp):
CCCCGATAGGGTAAAATGACCATAATG
Found at i:88901782 original size:33 final size:33
Alignment explanation
Indices: 88901717--88901792 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
88901707 CCCACACTAC
** * *
88901717 TACTGTATAGGGCTAAGGCCCAGACTGCACTGA
1 TACTGTATAGCACTAAGGCCCAAACTACACTGA
* *
88901750 TTCTGTATAGCACTAAGGCCCAAACTATACTGA
1 TACTGTATAGCACTAAGGCCCAAACTACACTGA
*
88901783 TACTGAATAG
1 TACTGTATAG
88901793 GGCTCGAGCC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (33 bp):
TACTGTATAGCACTAAGGCCCAAACTACACTGA
Found at i:88902201 original size:17 final size:18
Alignment explanation
Indices: 88902169--88902215 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
88902159 CAAACAAATG
*
88902169 TTTTAAAGGTAATAACA-A
1 TTTTAAATG-AATAACAGA
88902187 TTTTAAATGAATAACAGA
1 TTTTAAATGAATAACAGA
88902205 TTTTAGAATGA
1 TTTTA-AATGA
88902216 TCAAGTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 5 0.19
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (18 bp):
TTTTAAATGAATAACAGA
Found at i:88907185 original size:7 final size:7
Alignment explanation
Indices: 88907173--88907199 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
88907163 AGCATGAATG
88907173 TTTTTTA
1 TTTTTTA
88907180 TTTTTTA
1 TTTTTTA
88907187 TTTTTTA
1 TTTTTTA
88907194 TTTTTT
1 TTTTTT
88907200 TTTAAGAGCA
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:88911075 original size:40 final size:40
Alignment explanation
Indices: 88911026--88911193 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
88911016 TCTTCGGAAT
* * *
88911026 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
88911065 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
88911105 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
88911145 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
88911185 TTAGCCCGG
1 TTAGCCCGG
88911194 GTATCATCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 104 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:88918875 original size:25 final size:24
Alignment explanation
Indices: 88918834--88918896 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
88918824 GATTATGTAG
88918834 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
88918859 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
88918884 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
88918897 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:88920095 original size:29 final size:29
Alignment explanation
Indices: 88920062--88920126 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
88920052 GTGACGAGAT
*
88920062 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
88920091 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
88920120 CGGCACT
1 TGGCACT
88920127 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:88926771 original size:25 final size:24
Alignment explanation
Indices: 88926730--88926792 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
88926720 GATTATGTAG
88926730 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
88926755 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
88926780 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
88926793 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:88927992 original size:29 final size:29
Alignment explanation
Indices: 88927959--88928023 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
88927949 GTGACGAGAT
*
88927959 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
88927988 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
88928017 CGGCACT
1 TGGCACT
88928024 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:88930098 original size:40 final size:39
Alignment explanation
Indices: 88930038--88930201 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
88930028 CGGAATTTAG
* ** *
88930038 CCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAACAACTTGCACAA-TGCCTTCGGGTCTTAAC
* *** *
88930078 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAAC
*
88930118 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAAC
* * * * *
88930158 CTGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTTGCA-CAATGCCTTCGGGTCTTAAC
88930198 CCGG
1 CCGG
88930202 GTATCGATCA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTTGCACAATGCCTTCGGGTCTTAAC
Found at i:88942678 original size:40 final size:40
Alignment explanation
Indices: 88942601--88942818 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
88942591 AAACCAAGTA
* *
88942601 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
88942640 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
88942680 CCTTCGGGACCTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88942720 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
88942760 CCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
88942800 CCTTCGGGACTTAACCCGG
1 CCTTCGGGACTTAGCCCGG
88942819 TTATCATTCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88947716 original size:5 final size:5
Alignment explanation
Indices: 88947706--88947751 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
88947696 AGAGAAAGAA
88947706 AAATT AAATT -AA-T AAATAGT AAAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAAT--T -AAATT AAATT AAATT AAATT AAATT
88947752 GCAAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 25 0.69
6 1 0.03
7 1 0.03
8 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:88961078 original size:23 final size:23
Alignment explanation
Indices: 88961034--88961146 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
88961024 AAGCTCCTCC
88961034 TGAGCTGATGAACAGTAAGCTCAAT
1 TGAGCTGA--AACAGTAAGCTCAAT
* *
88961059 TGAGCTGAAACGGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCAAT
* * *
88961082 CGAGCT--AACAGTAAGCTTATAC
1 TGAGCTGAAACAGTAAGCTCA-AT
**
88961104 T-AGCTGAAATGGTAAGCTCCAA-
1 TGAGCTGAAACAGTAAGCT-CAAT
88961126 TGAGCTGAAAACAGTAAGCTC
1 TGAGCTG-AAACAGTAAGCTC
88961147 TTTTGGGCTG
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
21 14 0.20
22 2 0.03
23 34 0.49
24 11 0.16
25 8 0.12
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCAAT
Found at i:88961131 original size:44 final size:45
Alignment explanation
Indices: 88961044--88961146 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
88961034 TGAGCTGATG
* *
88961044 AACAGTAAGCTCAATTGAGCTGAAACGGTAAGCTCTATCGAGCT-
1 AACAGTAAGCTCAACTGAGCTGAAACGGTAAGCTCAATCGAGCTA
* *
88961088 AACAGTAAGCTTATACT-AGCTGAAATGGTAAGCTCCAAT-GAGCTGAA
1 AACAGTAAGCTCA-ACTGAGCTGAAACGGTAAGCT-CAATCGAGCT--A
88961135 AACAGTAAGCTC
1 AACAGTAAGCTC
88961147 TTTTGGGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
44 33 0.67
45 5 0.10
47 11 0.22
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (45 bp):
AACAGTAAGCTCAACTGAGCTGAAACGGTAAGCTCAATCGAGCTA
Found at i:88963235 original size:17 final size:17
Alignment explanation
Indices: 88963166--88963236 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 17
88963156 TAATAGATTT
*
88963166 AAAATATAATATATAATA
1 AAAATATAAAATAT-ATA
*
88963184 ATAAAAATAAAATATTTATA
1 A-AAATATAAAATA--TATA
* *
88963204 AGAATA-ATAATTATATA
1 AAAATATA-AAATATATA
88963221 AAAATATAAAATATAT
1 AAAATATAAAATATAT
88963237 TGGTTTAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
17 16 0.39
18 3 0.07
19 17 0.41
20 4 0.10
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAATATAAAATATATA
Found at i:88963526 original size:19 final size:18
Alignment explanation
Indices: 88963502--88963559 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
88963492 ATATATAGAT
**
88963502 AAAAATATATAATGGTATA
1 AAAAAT-TATAATAATATA
88963521 AAAAATGTCATAATAATATA
1 AAAAAT-T-ATAATAATATA
88963541 AAATAATTATAAT-ATATA
1 AAA-AATTATAATAATATA
88963559 A
1 A
88963560 TATGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 6 0.18
19 12 0.35
20 13 0.38
21 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAATTATAATAATATA
Found at i:88963557 original size:18 final size:19
Alignment explanation
Indices: 88963502--88963676 Score: 67
Period size: 19 Copynumber: 8.7 Consensus size: 19
88963492 ATATATAGAT
**
88963502 AAAAATATATAATGGTATA
1 AAAAATATATAATAATATA
*
88963521 AAAAATGTCATAATAATATA
1 AAAAATAT-ATAATAATATA
88963541 AAATAATTATAATATATAATATGA
1 AAA-AA-TAT-ATA-ATAATAT-A
*
88963565 AAAAATATATGTAAAAATAATA
1 AAAAATATA--TAATAAT-ATA
* *
88963587 CATAATATATATATAA-ATA
1 AAAAATATATA-ATAATATA
88963606 ATCAATAA-ATATAATACA-AGT-
1 A--AA-AATATATAATA-ATA-TA
*
88963627 AAAAATATAACAATAATAT-
1 AAAAATAT-ATAATAATATA
* *
88963646 ATAAATA-ATAATAATGTA
1 AAAAATATATAATAATATA
88963664 AAATAATA-ATAAT
1 AAA-AATATATAAT
88963677 TTGTGAAAAA
Statistics
Matches: 121, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.07
18 4 0.03
19 31 0.26
20 23 0.19
21 15 0.12
22 23 0.19
23 13 0.11
24 4 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATATATAATAATATA
Found at i:88963601 original size:45 final size:47
Alignment explanation
Indices: 88963543--88963750 Score: 137
Period size: 50 Copynumber: 4.3 Consensus size: 47
88963533 ATAATATAAA
88963543 ATAAT-TATAATATATAAT-ATGAAAA-AATATATGTAAAAATAATAC
1 ATAATATATAATA-ATAATAATGAAAATAATATATGTAAAAATAATAC
* *
88963588 ATAATATATATATAAATAATCAAT-AAATATAATACAAGTAAAAAT-ATAAC
1 ATAATATATA-AT-AATAAT-AATGAAA-ATAATATATGTAAAAATAAT-AC
*
88963638 AATAATATATAAATAATAATAATGTAAAATAATAATAATTTGTGAAAAATAATAT
1 -ATAATATAT-AATAATAATAATG-AAAATAAT-AT-A--TGT-AAAAATAATAC
* * * * *
88963693 ATAATAAATAATGATAAT-ATG--AATAGTATAT-AATAAAATAATTAT
1 ATAATATATAATAATAATAATGAAAATAATATATGTA-AAAATAA-TAC
88963738 ATAATATATAATA
1 ATAATATATAATA
88963751 TAAAAATAAG
Statistics
Matches: 132, Mismatches: 11, Indels: 40
0.72 0.06 0.22
Matches are distributed among these distances:
43 1 0.01
44 7 0.05
45 20 0.15
46 4 0.03
47 8 0.06
48 6 0.05
49 13 0.10
50 26 0.20
51 15 0.11
52 5 0.04
53 8 0.06
54 10 0.08
55 7 0.05
56 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (47 bp):
ATAATATATAATAATAATAATGAAAATAATATATGTAAAAATAATAC
Found at i:88963619 original size:17 final size:16
Alignment explanation
Indices: 88963597--88963659 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 16
88963587 CATAATATAT
88963597 ATATAAATAATCAATAA
1 ATATAAATAA-CAATAA
88963614 ATAT-AAT-ACAAGTAA
1 ATATAAATAACAA-TAA
*
88963629 A-A-ATATAACAATAA
1 ATATAAATAACAATAA
*
88963643 TATATAAATAATAATAA
1 -ATATAAATAACAATAA
88963660 TGTAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.24
15 10 0.27
16 4 0.11
17 14 0.38
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (16 bp):
ATATAAATAACAATAA
Found at i:88965805 original size:205 final size:206
Alignment explanation
Indices: 88965334--88965884 Score: 874
Period size: 205 Copynumber: 2.7 Consensus size: 206
88965324 CTGCTTCTTT
* **
88965334 GATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATATGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGA
* *
88965399 AAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
** * *
88965464 CTTGCTTCAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTACTCCCCGTTAAAGTGGAGA
131 CTTGCTTCAGTGAAAACATCTGAAGGTGAGATCTGCTATGTATCTACTACCCGTCAAAGTGGAGA
88965529 TGCCAGACTTC
196 TGCCAGACTTC
88965540 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGA
* * *
88965605 AAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAGGCACAAGGATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* * *
88965670 -ATGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTACCCGTCGAAGTGGAG
131 CTTGCTTCAGTGA-AAACATCTGAAGGTGAGATCTGCTATGTATCTACTACCCGTCAAAGTGGAG
*
88965733 ATGCTAGACTTC
195 ATGCCAGACTTC
* * * *
88965745 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTGAACGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGA
*
88965810 AAGCCAAATCAGCTATGTCTTC-AGTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGA
66 AAGCCAAATCAGCTATGTCTTCGA-TTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGA
88965874 TCTTGCTTCAG
130 TCTTGCTTCAG
88965885 CCAGATCTGC
Statistics
Matches: 317, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
204 2 0.01
205 185 0.58
206 130 0.41
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (206 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
CTTGCTTCAGTGAAAACATCTGAAGGTGAGATCTGCTATGTATCTACTACCCGTCAAAGTGGAGA
TGCCAGACTTC
Found at i:88977942 original size:3 final size:3
Alignment explanation
Indices: 88977928--88977962 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
88977918 AGAAATATAC
*
88977928 AAT AAT ATAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
88977963 TGAAAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:88979567 original size:109 final size:108
Alignment explanation
Indices: 88979375--88979588 Score: 322
Period size: 109 Copynumber: 2.0 Consensus size: 108
88979365 TCCACTATAT
* * *
88979375 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAGCTTCGATCTTCTCTAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
**
88979440 TGTAACTTCACTTGTATGAGATTTTGGGGCTTCGATCTGCTTCA
66 TGTAACTTCACAGGTATGAGA-TTTGGGGCTTCGATCTGCTTCA
* *
88979484 CTTGTAGCTTTGGTTCAATCCACTGTATCTTCTGACATATGCCTTGTAACTTCAATCTACTCTAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
* *
88979549 TGTAACTTC-CAGGATATGAGATTTGTGTCTTCGATCTGCT
66 TGTAACTTCACAGG-TATGAGATTTGGGGCTTCGATCTGCT
88979589 CTTTTATCAC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 19 0.20
109 76 0.80
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (108 bp):
CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
TGTAACTTCACAGGTATGAGATTTGGGGCTTCGATCTGCTTCA
Found at i:88980239 original size:72 final size:71
Alignment explanation
Indices: 88980003--88980256 Score: 251
Period size: 72 Copynumber: 3.5 Consensus size: 71
88979993 CGAAAATTAA
* * * *
88980003 AGGCTCAACTCACCTCTCGCAATATGAATTGA-CTTTTGAAGATAGAATTTGAAAATACCTTAGC
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAACATA-AA-TTGAAATTACCTCAGC
* *
88980067 GTGCCGCA
64 GTGCCCCG
* * * *
88980075 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTATAGATTT-AATAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATT-T---TTTGAACATAAATTGAAATTACCTCA
88980139 GCGTGCCCCG
62 GCGTGCCCCG
* * * * *
88980149 AGGTTCAACTCACTTCTCGCGATATGAATTGATTTTTTGAAACATAAATTGAAATTACCTCAACA
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTG-AACATAAATTGAAATTACCTCAGCG
* **
88980214 TGTCTTG
65 TGCCCCG
**
88980221 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
88980257 CTTGGAAAAC
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
70 3 0.02
72 86 0.57
73 1 0.01
74 52 0.34
75 2 0.01
76 4 0.03
77 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAACATAAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:88980533 original size:71 final size:71
Alignment explanation
Indices: 88980283--88980703 Score: 614
Period size: 72 Copynumber: 5.9 Consensus size: 71
88980273 TAAAAAGCAG
* * *
88980283 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT
88980348 GAAACAT
65 GAAACAT
*
88980355 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
*
88980419 ACAAACAG
66 --AAACAT
* * * *
88980427 AAGTTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
88980492 AAACAT
66 AAACAT
*
88980498 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
*
88980562 ACAAACAG
66 --AAACAT
* * * *
88980570 AAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTA
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
88980635 AAACAT
66 AAACAT
* *
88980641 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
88980704 CTTGGAAAGC
Statistics
Matches: 314, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
70 11 0.04
71 120 0.38
72 174 0.55
73 9 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:88980546 original size:143 final size:143
Alignment explanation
Indices: 88980280--88980703 Score: 758
Period size: 143 Copynumber: 3.0 Consensus size: 143
88980270 AATTAAAAAG
* * * *
88980280 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
1 CAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGA-TT
88980345 TTTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TTTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
88980410 TTGATTTTGACAAA
130 TTGATTTTGACAAA
*
88980424 CAGAAGTTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTT
1 CAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTT
88980489 TTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 TTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
88980554 TGATTTTGACAAA
131 TGATTTTGACAAA
88980567 CAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTT
1 CAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTT
* * * *
88980632 TTAAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGC
66 TTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
88980697 TGATTTT
131 TGATTTT
88980704 CTTGGAAAGC
Statistics
Matches: 270, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 213 0.79
144 57 0.21
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (143 bp):
CAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTT
TTGAAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTGACAAA
Found at i:88993386 original size:24 final size:25
Alignment explanation
Indices: 88993359--88993410 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
88993349 AGCAAGCATT
88993359 TAAATATTAAAATAAA-AGCTGAAG
1 TAAATATTAAAATAAAGAGCTGAAG
88993383 TAAATATTAAAATAAAGTAGCTGAAG
1 TAAATATTAAAATAAAG-AGCTGAAG
88993409 TA
1 TA
88993411 CTAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 16 0.62
26 10 0.38
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (25 bp):
TAAATATTAAAATAAAGAGCTGAAG
Found at i:88993470 original size:3 final size:3
Alignment explanation
Indices: 88993456--88993490 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
88993446 AGAAATATAC
*
88993456 AAT AAT ATAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
88993491 TGAAAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:88996289 original size:18 final size:20
Alignment explanation
Indices: 88996218--88996482 Score: 79
Period size: 20 Copynumber: 12.8 Consensus size: 20
88996208 ACTTTTAATG
88996218 ATAATAATATATAAATAAAAATAT
1 ATAATAATATA-AAAT---AATAT
** *
88996242 ATAATGGTATAAAA-AATGT
1 ATAATAATATAAAATAATAT
88996261 CATAATAATATAAAATAAT-T
1 -ATAATAATATAAAATAATAT
* *
88996281 ATAAT-ATATAATATGAAAAT
1 ATAATAATATAAAAT-AATAT
* *
88996301 AT-AT-ATGTAAAAATAATAC
1 ATAATAATAT-AAAATAATAT
* *
88996320 ATAAT-ATAT-ATAT-ATAA
1 ATAATAATATAAAATAATAT
* * *
88996337 ATAATCAATA-AATATTATACA
1 ATAAT-AATATAAAATAATA-T
*
88996358 AGTAAAAATATAACAATAATAT
1 A-TAATAATATAA-AATAATAT
*
88996380 AAATAATAATGTAAAATAATA-
1 --ATAATAATATAAAATAATAT
* *
88996401 ATAAT-TTGTGAAAAATAATAT
1 ATAATAATAT--AAAATAATAT
*
88996422 ATAATAA-ATAATGATAATAT
1 ATAATAATATAA-AATAATAT
*
88996442 GAATAGTATATAATAAAATAATTAT
1 --ATAATA-AT-ATAAAATAA-TAT
*
88996467 ATAAT-ATATAATATAA
1 ATAATAATATAAAATAA
88996483 AAATAAGGTT
Statistics
Matches: 186, Mismatches: 28, Indels: 58
0.68 0.10 0.21
Matches are distributed among these distances:
17 8 0.04
18 14 0.08
19 35 0.19
20 52 0.28
21 17 0.09
22 17 0.09
23 22 0.12
24 14 0.08
25 7 0.04
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
ATAATAATATAAAATAATAT
Found at i:88996302 original size:13 final size:12
Alignment explanation
Indices: 88996265--88996339 Score: 55
Period size: 13 Copynumber: 6.1 Consensus size: 12
88996255 AAATGTCATA
88996265 ATAATATAAAAT
1 ATAATATAAAAT
* *
88996277 A-ATTATAATAT
1 ATAATATAAAAT
88996288 ATAATATGAAAAT
1 ATAATAT-AAAAT
*
88996301 ATATATGTAAAA-
1 ATA-ATATAAAAT
* *
88996313 ATAATACATAAT
1 ATAATATAAAAT
88996325 ATATATATATAAAT
1 ATA-ATATA-AAAT
88996339 A
1 A
88996340 ATCAATAAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
11 14 0.30
12 11 0.23
13 15 0.32
14 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:88996335 original size:45 final size:47
Alignment explanation
Indices: 88996264--88996482 Score: 136
Period size: 48 Copynumber: 4.5 Consensus size: 47
88996254 AAAATGTCAT
*
88996264 AATAATATAAAATAATTATAATATATAAT-ATGAAAATATAT-ATGTAAA
1 AATAATATATAAT-A-TAT-ATATATAATAATGAAAATATATAATGTAAA
* * *
88996312 AATAATACATAATATATATATATAAATAATCAATAAATATTATACAAGTAAA
1 AATAATATATAATATATATATAT-AATAAT-GA-AAATA-TATA-ATGTAAA
* *
88996364 AAT-ATA-ACAATA-ATATAAATAATAATGTAAAATAATAATAATTTGTGAAA
1 AATAATATATAATATATATATATAATAATG-AAAAT-AT-ATAA--TGT-AAA
* *
88996414 AATAATATATAATAAATA-ATGATAAT-ATGAATAGTATATAA--T-AA
1 AATAATATATAATATATATAT-ATAATAATGAA-AATATATAATGTAAA
88996458 AATAATTATATAATATATA-ATATAA
1 AATAA-TATATAATATATATATATAA
88996483 AAATAAGGTT
Statistics
Matches: 140, Mismatches: 12, Indels: 42
0.72 0.06 0.22
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 7 0.05
47 9 0.06
48 23 0.16
49 14 0.10
50 18 0.13
51 10 0.07
52 20 0.14
53 8 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (47 bp):
AATAATATATAATATATATATATAATAATGAAAATATATAATGTAAA
Found at i:88996346 original size:28 final size:26
Alignment explanation
Indices: 88996299--88996355 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
88996289 TAATATGAAA
* *
88996299 ATATATATGTAAAAATAATACATAAT
1 ATATATATATAAAAATAATAAATAAT
*
88996325 ATATATATATAAATAATCAATAAATATT
1 ATATATATATAAA-AAT-AATAAATAAT
88996353 ATA
1 ATA
88996356 CAAGTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.46
27 3 0.12
28 11 0.42
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
ATATATATATAAAAATAATAAATAAT
Found at i:88996467 original size:16 final size:15
Alignment explanation
Indices: 88996264--88996481 Score: 75
Period size: 16 Copynumber: 14.6 Consensus size: 15
88996254 AAAATGTCAT
*
88996264 AATAATATAAAATAA
1 AATAATATATAATAA
* *
88996279 TTATAATATATAATATG
1 -AATAATATATAATA-A
*
88996296 AA-AATATATATGTAAA
1 AATAATATATA-AT-AA
*
88996312 AATAATACATAAT-A
1 AATAATATATAATAA
*
88996326 TAT-ATATATAAATAA
1 AATAATATAT-AATAA
*
88996341 TCAATAA-ATATTATACA
1 --AATAATATATAATA-A
* *
88996358 AGTAA-AAAT-ATAA
1 AATAATATATAATAA
88996371 CAATAATATA-AAT--
1 -AATAATATATAATAA
* *
88996384 AATAATGTAAAATAA
1 AATAATATATAATAA
* * *
88996399 TAATAATTTGTGA-AA
1 -AATAATATATAATAA
88996414 AATAATATATAAT-A
1 AATAATATATAATAA
* *
88996428 AATAAT-GATAATATG
1 AATAATATATAATA-A
*
88996443 AATAGTATATAATAA
1 AATAATATATAATAA
88996458 AATAATTATATAAT-A
1 AATAA-TATATAATAA
*
88996473 TATAATATA
1 AATAATATA
88996482 AAAATAAGGT
Statistics
Matches: 149, Mismatches: 31, Indels: 46
0.66 0.14 0.20
Matches are distributed among these distances:
12 8 0.05
13 14 0.09
14 33 0.22
15 36 0.24
16 42 0.28
17 15 0.10
18 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
AATAATATATAATAA
Found at i:88997845 original size:4 final size:4
Alignment explanation
Indices: 88997836--88997876 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
88997826 GACTATTAAA
*
88997836 TATT TATT TATT TATT TATT TCTT T-TT T-TT TATTT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TA
88997877 AGCCCTGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
3 6 0.18
4 24 0.71
5 4 0.12
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:88999782 original size:40 final size:39
Alignment explanation
Indices: 88999681--88999783 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 39
88999671 TTGTACATTA
* *
88999681 CACACTAACTGCAGTATATAGCCAAAGCTATCTTAAATCG
1 CACACTAAGTGCA-TATATAGCCAAAGCTATCTCAAATCG
* * *
88999721 CGCACTAAGTGTCGTACATAGCCAAAGCTATCTCAAATCG
1 CACACTAAGTG-CATATATAGCCAAAGCTATCTCAAATCG
88999761 CACACTAAGTGCCATATATAGCC
1 CACACTAAGTG-CATATATAGCC
88999784 GATTTGTCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 52 0.98
41 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (39 bp):
CACACTAAGTGCATATATAGCCAAAGCTATCTCAAATCG
Found at i:89000044 original size:16 final size:17
Alignment explanation
Indices: 89000023--89000054 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
89000013 AATTTAGCCT
89000023 AAAATTTACA-ATTTGG
1 AAAATTTACACATTTGG
89000039 AAAATTTACACATTTG
1 AAAATTTACACATTTG
89000055 CCCTTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (17 bp):
AAAATTTACACATTTGG
Found at i:89001908 original size:25 final size:26
Alignment explanation
Indices: 89001880--89001939 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
89001870 CTGGAGGCCT
89001880 AGCCTCTTTT-AATAA-CTGGGGCAAA
1 AGCC-CTTTTCAATAAGCTGGGGCAAA
** *
89001905 AGCCCTTTTCCGTAAGCTGGGGCATA
1 AGCCCTTTTCAATAAGCTGGGGCAAA
89001931 AGCCCTTTT
1 AGCCCTTTT
89001940 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 7 0.23
26 18 0.60
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAGCTGGGGCAAA
Found at i:89002014 original size:20 final size:20
Alignment explanation
Indices: 89001989--89002055 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
89001979 TTATGAATAC
89001989 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89002009 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
89002029 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
89002049 ATCATGT
1 ATCATGT
89002056 ATATCAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.