Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 48 of 145
Found at i:15514433 original size:17 final size:17
Alignment explanation
Indices: 15514400--15514435 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15514390 TTTATTTTCA
15514400 TTTTATTTTTGATTTTT
1 TTTTATTTTTGATTTTT
15514417 TTTTATTTTTGATTTTT
1 TTTTATTTTTGATTTTT
15514434 TT
1 TT
15514436 ATTAAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTTATTTTTGATTTTT
Found at i:15518995 original size:38 final size:36
Alignment explanation
Indices: 15518953--15519042 Score: 121
Period size: 38 Copynumber: 2.5 Consensus size: 36
15518943 TTCTATATGC
* *
15518953 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATGTGTATAAAAAATAGTTTAATACAAATTATAT
*
15518989 ATATATGTATAATAAAAATAGTTTAATACAAATTATAT
1 ATATGTGTAT-A-AAAAATAGTTTAATACAAATTATAT
15519027 ATA--TGTATAAAAAATA
1 ATATGTGTATAAAAAATA
15519043 TTATGTAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 14 0.29
37 1 0.02
38 26 0.53
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (36 bp):
ATATGTGTATAAAAAATAGTTTAATACAAATTATAT
Found at i:15518999 original size:36 final size:34
Alignment explanation
Indices: 15518953--15519042 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
15518943 TTCTATATGC
* *
15518953 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
15518989 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
15519025 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
15519043 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:15520774 original size:25 final size:25
Alignment explanation
Indices: 15520718--15520809 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
15520708 AGGGTTACCG
* * *
15520718 ATTCTAGCTCTTATGAGCTTACAGAT
1 ATTC-AGCTCGTATGAGCTTACCGTT
*
15520744 ACTCAGCTCGTATGAGCTTACCGTT
1 ATTCAGCTCGTATGAGCTTACCGTT
* * *
15520769 GTTCAGCTCGGAAGAGCTTACCGTT
1 ATTCAGCTCGTATGAGCTTACCGTT
* *
15520794 TTTC-TCTCGTATGAGC
1 ATTCAGCTCGTATGAGC
15520810 ATACAGGTAC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 9 0.17
25 42 0.78
26 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTACCGTT
Found at i:15526040 original size:10 final size:10
Alignment explanation
Indices: 15526025--15526052 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15526015 TTTCTCAAAA
15526025 AATGGAAATG
1 AATGGAAATG
15526035 AATGGAAATG
1 AATGGAAATG
15526045 AATGGAAA
1 AATGGAAA
15526053 CGTAAGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.18
Consensus pattern (10 bp):
AATGGAAATG
Found at i:15526087 original size:2 final size:2
Alignment explanation
Indices: 15526080--15526107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15526070 CTATTTGCAA
15526080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15526108 GAATTACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15528080 original size:144 final size:142
Alignment explanation
Indices: 15527803--15528093 Score: 431
Period size: 142 Copynumber: 2.0 Consensus size: 142
15527793 CGCGAAAGAG
* * * *
15527803 TTTGTGCCTAGTGCTAGTCGGATAAACCGATGAATGTGTGCTCAGCACTAGTCAGATAAACTGAC
1 TTTGTGCCCAGCGCTAGTCGGATAAACCGAAGAATGTGTGCTCAACACTAGTCAGATAAACTGAC
* * *
15527868 AGAAGTTGCGCCCAGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTGGAT
66 AGAAGTTGCACCCAGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGAT
15527933 AAACCAACAATA
131 AAACCAACAATA
* * * * *
15527945 TTTGTGCCCAGCGCTAGTTGTATAAACTGAAGAATGTGTGC-CTAACACTAGTTAGATAAATTGA
1 TTTGTGCCCAGCGCTAGTCGGATAAACCGAAGAATGTGTGCTC-AACACTAGTCAGATAAACTGA
15528009 CAGAAGTTGCACCCAGTGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTG
65 CAGAAGTTGCACCCA--GCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTG
*
15528074 GATAAACCAACGATA
128 GATAAACCAACAATA
15528089 TTTGT
1 TTTGT
15528094 AATTATTTAT
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
141 1 0.01
142 67 0.50
144 65 0.49
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (142 bp):
TTTGTGCCCAGCGCTAGTCGGATAAACCGAAGAATGTGTGCTCAACACTAGTCAGATAAACTGAC
AGAAGTTGCACCCAGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGAT
AAACCAACAATA
Found at i:15534330 original size:3 final size:3
Alignment explanation
Indices: 15534317--15534377 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
15534307 CAATCCAGCT
*
15534317 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
15534365 GAA GAA GAA GAA G
1 GAA GAA GAA GAA G
15534378 GAGGAGGAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15534518 original size:25 final size:25
Alignment explanation
Indices: 15534462--15534522 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
15534452 ATGGATTATC
*
15534462 TTGTTATTATGTTTTTTTTGTATAAT
1 TTGTTATTAT-TTTTTGTTGTATAAT
*
15534488 TT-TTATTATTTTTTGTTGT-TAGT
1 TTGTTATTATTTTTTGTTGTATAAT
15534511 TTAGTTATTATT
1 TT-GTTATTATT
15534523 GTTAGTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 9 0.29
25 15 0.48
26 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (25 bp):
TTGTTATTATTTTTTGTTGTATAAT
Found at i:15534808 original size:76 final size:77
Alignment explanation
Indices: 15534603--15534814 Score: 216
Period size: 76 Copynumber: 2.7 Consensus size: 77
15534593 GTTTAGTTAT
* *
15534603 TAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTAT
15534668 TAGGATTAGTAAAAACCC
60 TAGGATTAGTAAAAACCC
* * *** * * ***
15534686 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTATTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGA
15534749 TTAGT-AAAACCC
65 TTAGTAAAAACCC
15534761 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TAATTATTATTGTTAGTTAGTATTATTATT-AGTAAAAAACTATTATTATTGTTA
15534815 TTGTGTTAGT
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
75 25 0.23
76 43 0.40
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 17 0.16
83 13 0.12
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAACTATTATTATTGTTAGTTATTAGGAT
TAGTAAAAACCC
Found at i:15538993 original size:58 final size:58
Alignment explanation
Indices: 15538902--15539012 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
15538892 TGATAGCTAC
* *
15538902 ATTGAGTCTAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAATAGGAGCAAGCCCT
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
*
15538960 ATTGAGTCGAATTAAATCTAGAGTCGAGTTGGATAGGCCCTAAACAGGAGCAA
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAA
15539013 ACTCTCATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (58 bp):
ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
Found at i:15551050 original size:32 final size:32
Alignment explanation
Indices: 15550999--15551195 Score: 200
Period size: 32 Copynumber: 6.2 Consensus size: 32
15550989 GAATGGCTAC
* * ** *
15550999 AAGCCATAAGT-ACAGTAATATGATTAGCATA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* **
15551030 AAGCCATCAGTAGTAGTAATATGATCAACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
15551062 CAGCCATCAGTAATAGTAGTATGATCGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
15551094 AAGCCCTCAATAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
15551126 CAA-CCATCAGTAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
15551158 CAGCCATCAGTAATGGTAATATGATTGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
15551190 AAGCCA
1 AAGCCA
15551196 ACAATAGCAT
Statistics
Matches: 137, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
31 11 0.08
32 124 0.91
33 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:15551233 original size:26 final size:26
Alignment explanation
Indices: 15551204--15551257 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
15551194 CAACAATAGC
15551204 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
15551230 ATCGTAGCAAAGCTGCCAGTAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
15551256 AT
1 AT
15551258 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:15551276 original size:27 final size:26
Alignment explanation
Indices: 15551210--15551309 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 26
15551200 TAGCATCGCA
** * * *
15551210 GCAAAGCTGCCAGCAACAGTATCGTA
1 GCAAAGCCACCAGTAACAGTATTGTG
**
15551236 GCAAAGCTGCCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTAACAGTAT-TGTG
* *
15551263 GCCAAGCCATCAGTAACAGTGATTGTG
1 GCAAAGCCACCAGTAACAGT-ATTGTG
15551290 GCAAAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
15551310 CTTCCTCCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.02
26 26 0.41
27 34 0.54
28 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
GCAAAGCCACCAGTAACAGTATTGTG
Found at i:15551405 original size:24 final size:24
Alignment explanation
Indices: 15551373--15551506 Score: 151
Period size: 24 Copynumber: 5.6 Consensus size: 24
15551363 CTATGCACGG
**
15551373 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
15551397 AATCAGTCATTTAAATCACAGATA
1 AATCAGTCATTTAAATCACAGACA
*
15551421 AATAAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * * *
15551445 AATCAGTCATTTACATCTCGGAAA
1 AATCAGTCATTTAAATCACAGACA
* * * *
15551469 AATCATTCATTTACATTACAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
15551493 AATCAATCATTTAA
1 AATCAGTCATTTAA
15551507 CCTCGAGGGG
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:15551602 original size:26 final size:26
Alignment explanation
Indices: 15551524--15551749 Score: 281
Period size: 27 Copynumber: 8.5 Consensus size: 26
15551514 GGGTAAAATA
*
15551524 GTCATTTTACCCTACAAGGGCATTATG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
15551551 GTCATTTTACCTTATAGTGGCATTACG
1 GTCATTTTACCCTACAG-GGCATTACG
* *
15551578 ATAATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
15551604 GTCATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
*
15551630 GTCATTTTACCCTACAGGGGCGTTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* * **
15551657 GTCATTTTACCCTATAGGGGCGTTATT
1 GTCATTTTACCCTACA-GGGCATTACG
* *
15551684 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACA-GGGCATTACG
15551711 GTCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTACAG-GGCATTACG
*
15551738 ATCATTTTACCC
1 GTCATTTTACCC
15551750 GTCGAAGGTA
Statistics
Matches: 176, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 52 0.30
27 124 0.70
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:15551794 original size:26 final size:27
Alignment explanation
Indices: 15551741--15551800 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
15551731 CATTACGATC
*
15551741 ATTTTACCCGTCGAAGGTATTTCGGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
* *
15551768 ATTTTACCCTTCG-AGGTATTTTAGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
15551794 ATTTTAC
1 ATTTTAC
15551801 AACCTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCGTCGAAGGTATTTCAGTA
Found at i:15552246 original size:53 final size:53
Alignment explanation
Indices: 15552161--15552266 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
15552151 TGGTCCCAAA
* *
15552161 CGCCATATTTCGGCTTTTACCGTTCTACAGTTACATTGGGGAGTTTACACACC
1 CGCCATATTTCAGCTTTTACCGTTCTACAGTTACAGTGGGGAGTTTACACACC
* *
15552214 CGCCGTATTTCAGCTTTTGCCGTTCTACAGTTACAGTGGGGAGTTTACACACC
1 CGCCATATTTCAGCTTTTACCGTTCTACAGTTACAGTGGGGAGTTTACACACC
15552267 TGATGCAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (53 bp):
CGCCATATTTCAGCTTTTACCGTTCTACAGTTACAGTGGGGAGTTTACACACC
Found at i:15557025 original size:31 final size:31
Alignment explanation
Indices: 15556965--15557025 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
15556955 CCTGTCATCC
*
15556965 TAGATTTCCCAACAACGATGACCTGCCACCT
1 TAGATTTCCCAACAACGATGACCTACCACCT
* *
15556996 TAGATTTCCCGAA-AATGATGGCCTACCACC
1 TAGATTTCCC-AACAACGATGACCTACCACC
15557026 CCGAGTAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.23
Consensus pattern (31 bp):
TAGATTTCCCAACAACGATGACCTACCACCT
Found at i:15560596 original size:15 final size:15
Alignment explanation
Indices: 15560576--15560607 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15560566 CATTTCACTA
*
15560576 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
15560591 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
15560606 TT
1 TT
15560608 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:15567504 original size:29 final size:30
Alignment explanation
Indices: 15567448--15567504 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
15567438 ATTTTGAAAA
* * *
15567448 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACAACCAAATTTTAG
*
15567478 TATTTACAAAAGGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGACAACCAAATTTT
15567505 GAAAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACCAAATTTTAG
Found at i:15570624 original size:19 final size:19
Alignment explanation
Indices: 15570597--15570635 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15570587 CCCTGTTTTA
15570597 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
15570616 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
15570635 C
1 C
15570636 TTCCTTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:15573933 original size:16 final size:16
Alignment explanation
Indices: 15573912--15573944 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15573902 TTGATTTGCT
*
15573912 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
15573928 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
15573944 A
1 A
15573945 AAACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15589874 original size:21 final size:21
Alignment explanation
Indices: 15589824--15589876 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
15589814 TTTCTAAAAC
*
15589824 TTTTTATAGTTCTTAATAGTT
1 TTTTTATAATTCTTAATAGTT
** *
15589845 TTTAAATAATTCTTTAT-GTTT
1 TTTTTATAATTCTTAATAG-TT
15589866 TTTTTATAATT
1 TTTTTATAATT
15589877 TTTTGAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTATAATTCTTAATAGTT
Found at i:15589972 original size:13 final size:13
Alignment explanation
Indices: 15589954--15589978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15589944 GGTTTTTTTT
15589954 AAAAATATTTATG
1 AAAAATATTTATG
15589967 AAAAATATTTAT
1 AAAAATATTTAT
15589979 TTTTGATATT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAATATTTATG
Found at i:15593305 original size:54 final size:54
Alignment explanation
Indices: 15593238--15593434 Score: 369
Period size: 54 Copynumber: 3.6 Consensus size: 54
15593228 GAGTAATTGT
*
15593238 CATTGCAGGGGATTTAGCCTGGACTGGT-ATCCCGACAATTACTCTATGAGTTTA
1 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAA-TACTCTATGAGTTTA
15593292 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTA
1 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTA
15593346 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTA
1 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTA
15593400 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CATTACAGGGGATTTAGCCTGGACTGGTAATCCCG
15593435 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
54 131 0.93
55 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (54 bp):
CATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTA
Found at i:15604549 original size:31 final size:28
Alignment explanation
Indices: 15604483--15604549 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 28
15604473 TAAAAATTTG
*
15604483 AAATTTAATTTTTATTTTTTTATTTTTT
1 AAATTTAATTTTTATTTTTTTACTTTTT
**
15604511 ATTTTTAATATTTAATATTTTTTTACTTTTT
1 AAATTTAAT-TTT--TATTTTTTTACTTTTT
15604542 AAATTTAA
1 AAATTTAA
15604550 AAAAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.23
29 3 0.10
31 21 0.68
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (28 bp):
AAATTTAATTTTTATTTTTTTACTTTTT
Found at i:15606181 original size:13 final size:13
Alignment explanation
Indices: 15606140--15606205 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
15606130 AATTTTGAAT
15606140 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
15606153 TATCTA-T-A-AT
1 TATTTAGTGATAA
15606163 TATTTAGTGATAA
1 TATTTAGTGATAA
15606176 TATTTAG-GAT--
1 TATTTAGTGATAA
*
15606186 TATTTAGTGATAG
1 TATTTAGTGATAA
15606199 TATTTAG
1 TATTTAG
15606206 GAAAAATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:15606202 original size:23 final size:23
Alignment explanation
Indices: 15606138--15606207 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
15606128 TAAATTTTGA
* **
15606138 ATTATTTAGTGATAATATCTATA
1 ATTATTTAGTGATAATATTTAGG
15606161 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
*
15606184 ATTATTTAGTGATAGTATTTAGG
1 ATTATTTAGTGATAATATTTAGG
15606207 A
1 A
15606208 AAAATCTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:15610968 original size:2 final size:2
Alignment explanation
Indices: 15610961--15611012 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
15610951 AAAGAAATAT
* *
15610961 AC AC AC AC AC AA AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15611003 AC AC AC AC AC
1 AC AC AC AC AC
15611013 GTATGCATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.52, C:0.46, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15612370 original size:514 final size:515
Alignment explanation
Indices: 15611364--15612392 Score: 2042
Period size: 514 Copynumber: 2.0 Consensus size: 515
15611354 CAAACTGAAC
15611364 AAATAGCCCAAAATGACTGAACAAAAGCCTCTGGAACTGTTTTTTTTTTTTTTTTGGAAGGGCAC
1 AAATAGCCCAAAATGACTGAACAAAAGCCTCTGGAACTGTTTTTTTTTTTTTTTTGGAAGGGCAC
15611429 GTTAAGAATCATACTGTAAAAGGTTCATGCATTTTAGCAAGAGAAATTCCAATTCTAGAGCAGAC
66 GTTAAGAATCATACTGTAAAAGGTTCATGCATTTTAGCAAGAGAAATTCCAATTCTAGAGCAGAC
15611494 CCAAAATCATCCAACTGATTCGCAATAAATTTTTCAACTTTCAAATGAAAATAAAGAACATAACA
131 CCAAAATCATCCAACTGATTCGCAATAAATTTTTCAACTTTCAAATGAAAATAAAGAACATAACA
15611559 TTAAGATATGCTTTCAATTCTGCAGAGCATGATTTAGCCAGAGAAATTCCCCAATTCTGGTGCAA
196 TTAAGATATGCTTTCAATTCTGCAGAGCATGATTTAGCCAGAGAAATTCCCCAATTCTGGTGCAA
15611624 ACCCCAAATCACCCAACTGATCTCACAATAAAAAAAAAATTAAACTTTCAAATGAAAACAAGGTT
261 ACCCCAAATCACCCAACTGATCTCACAATAAAAAAAAAATTAAACTTTCAAATGAAAACAAGGTT
15611689 ATAATAAAAAGAGAAAAATGGGAGGGGGAAGGGGAAGGGGAGGCTCAGATTCGCCTTTTTTCAGA
326 ATAATAAAAAGAGAAAAATGGGAGGGGGAAGGGGAAGGGGAGGCTCAGATTCGCCTTTTTTCAGA
15611754 TAAGTAAAGAAATGAAGCCGGTGGCTGCAACAAAAACCAGAGTTGCCCCGCCAAGCTACGGCCTT
391 TAAGTAAAGAAATGAAGCCGGTGGCTGCAACAAAAACCAGAGTTGCCCCGCCAAGCTACGGCCTT
15611819 TTTTCTTCAAAAATCTGAATTTTAATAACCCCACAAAATTAAAAATCATCATTGCCTCGT
456 TTTTCTTCAAAAATCTGAATTTTAATAACCCCACAAAATTAAAAATCATCATTGCCTCGT
*
15611879 AAATAGCCCAAAATGACTGAACAAAAGCCTCTGG-ACTTTTTTTTTTTTTTTTTTGGAAGGGCAC
1 AAATAGCCCAAAATGACTGAACAAAAGCCTCTGGAACTGTTTTTTTTTTTTTTTTGGAAGGGCAC
15611943 GTTAAGAATCATACTGTAAAAGGTTCATGCATTTTAGCAAGAGAAATTCCAATTCTAGAGCAGAC
66 GTTAAGAATCATACTGTAAAAGGTTCATGCATTTTAGCAAGAGAAATTCCAATTCTAGAGCAGAC
15612008 CCAAAATCATCCAACTGATTCGCAATAAATTTTTCAACTTTCAAATGAAAATAAAGAACATAACA
131 CCAAAATCATCCAACTGATTCGCAATAAATTTTTCAACTTTCAAATGAAAATAAAGAACATAACA
15612073 TTAAGATATGCTTTCAATTCTGCAGAGCATGATTTAGCCAGAGAAATTCCCCAATTCTGGTGCAA
196 TTAAGATATGCTTTCAATTCTGCAGAGCATGATTTAGCCAGAGAAATTCCCCAATTCTGGTGCAA
15612138 ACCCCAAATCACCCAACTGATCTCACAATAAAAAAAAAATTAAACTTTCAAATGAAAACAAGGTT
261 ACCCCAAATCACCCAACTGATCTCACAATAAAAAAAAAATTAAACTTTCAAATGAAAACAAGGTT
15612203 ATAATAAAAAGAGAAAAATGGGAGGGGGAAGGGGAAGGGGAGGCTCAGATTCGCCTTTTTTCAGA
326 ATAATAAAAAGAGAAAAATGGGAGGGGGAAGGGGAAGGGGAGGCTCAGATTCGCCTTTTTTCAGA
15612268 TAAGTAAAGAAATGAAGCCGGTGGCTGCAACAAAAACCAGAGTTGCCCCGCCAAGCTACGGCCTT
391 TAAGTAAAGAAATGAAGCCGGTGGCTGCAACAAAAACCAGAGTTGCCCCGCCAAGCTACGGCCTT
15612333 TTTTCTTCAAAAATCTGAATTTTAATAACCCCACAAAATTAAAAATCATCATTGCCTCGT
456 TTTTCTTCAAAAATCTGAATTTTAATAACCCCACAAAATTAAAAATCATCATTGCCTCGT
15612393 TGAGATGAGG
Statistics
Matches: 513, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
514 479 0.93
515 34 0.07
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (515 bp):
AAATAGCCCAAAATGACTGAACAAAAGCCTCTGGAACTGTTTTTTTTTTTTTTTTGGAAGGGCAC
GTTAAGAATCATACTGTAAAAGGTTCATGCATTTTAGCAAGAGAAATTCCAATTCTAGAGCAGAC
CCAAAATCATCCAACTGATTCGCAATAAATTTTTCAACTTTCAAATGAAAATAAAGAACATAACA
TTAAGATATGCTTTCAATTCTGCAGAGCATGATTTAGCCAGAGAAATTCCCCAATTCTGGTGCAA
ACCCCAAATCACCCAACTGATCTCACAATAAAAAAAAAATTAAACTTTCAAATGAAAACAAGGTT
ATAATAAAAAGAGAAAAATGGGAGGGGGAAGGGGAAGGGGAGGCTCAGATTCGCCTTTTTTCAGA
TAAGTAAAGAAATGAAGCCGGTGGCTGCAACAAAAACCAGAGTTGCCCCGCCAAGCTACGGCCTT
TTTTCTTCAAAAATCTGAATTTTAATAACCCCACAAAATTAAAAATCATCATTGCCTCGT
Found at i:15613137 original size:18 final size:17
Alignment explanation
Indices: 15613108--15613162 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
15613098 TTTTAAAATT
*
15613108 AAAAATATAATTTTTAA
1 AAAAATAAAATTTTTAA
*
15613125 AAAAATTAAAATTATTGAA
1 AAAAA-TAAAATT-TTTAA
* *
15613144 AAACATAAAATTTATAA
1 AAAAATAAAATTTTTAA
15613161 AA
1 AA
15613163 TATATTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 10 0.32
18 13 0.42
19 8 0.26
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATAAAATTTTTAA
Found at i:15625863 original size:13 final size:13
Alignment explanation
Indices: 15625847--15625873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15625837 AAAAAAAAAG
15625847 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15625860 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15625873 A
1 A
15625874 AATGAAAAAG
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:15625876 original size:8 final size:7
Alignment explanation
Indices: 15625842--15625882 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
15625832 TTGCAAAAAA
15625842 AAAAGATG
1 AAAA-ATG
15625850 AAAAATG
1 AAAAATG
15625857 -AAAATG
1 AAAAATG
15625863 AAAAATG
1 AAAAATG
15625870 AAAAAATG
1 -AAAAATG
15625878 AAAAA
1 AAAAA
15625883 GTAAAAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:15625889 original size:15 final size:15
Alignment explanation
Indices: 15625841--15625882 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
15625831 ATTGCAAAAA
15625841 AAAAAGATGAAAAATG
1 AAAAA-ATGAAAAATG
15625857 --AAAATGAAAAATG
1 AAAAAATGAAAAATG
15625870 AAAAAATGAAAAA
1 AAAAAATGAAAAA
15625883 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:15627327 original size:44 final size:43
Alignment explanation
Indices: 15627260--15627557 Score: 201
Period size: 44 Copynumber: 6.8 Consensus size: 43
15627250 CGGAAATGGT
* *
15627260 GAATCTTATCTCCCTG-GTGTTACAATGGAGTAGATTGAAGCCA
1 GAATCTTATCTCCCTGAG-ATTACAGTGGAGTAGATTGAAGCCA
* * *
15627303 GTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATGGAAGCTA
1 G-AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCA
* * ** * ***
15627347 GTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAA
1 G-AATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-GAAGCCA
* * ** * *
15627392 GGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATTGCA-TCA
1 GAATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCCA
* * * * ** *
15627434 G-GTCTTATTTCCCTGAGGTTACAGTGGAATAGACCGAAGAATTTCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG----CCA
* *
15627480 G-ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCA
* *
15627522 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 GA-ATCTTATCTCCCTGAGATTACAGTGGAGTAGAT
15627558 CCAAGACACT
Statistics
Matches: 197, Mismatches: 46, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
41 26 0.13
42 5 0.03
43 3 0.02
44 122 0.62
45 5 0.03
46 36 0.18
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCA
Found at i:15642406 original size:44 final size:44
Alignment explanation
Indices: 15642340--15642746 Score: 225
Period size: 44 Copynumber: 8.8 Consensus size: 44
15642330 AGAAATGGTG
* *
15642340 AATCTTATCTTCCTGATG-TTACAGCGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGCGGAGCAGATTGAAGCTAGA
15642384 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA-A
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* ** * * **
15642427 TAATCTGATCTAACTGAGATTACAGTGGAGCATATT-AAAATA-A
1 -AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * *
15642470 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTGAAGCTAGA
* **
15642526 AATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * ** *
15642570 AATCCTATCTCCCTGAGATTATAGTGGAGCAGATT-AAAATAAA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * *
15642613 GAATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 -AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTGAAGCTAGA
* * *
15642668 AATCTTATCTCCCTAAGATTACATCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * *
15642712 AGTCCTATCTCCATGAGATTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
15642747 AAAATAAAGG
Statistics
Matches: 279, Mismatches: 52, Indels: 64
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.00
43 15 0.05
44 184 0.66
47 8 0.03
49 8 0.03
51 7 0.03
54 43 0.15
55 11 0.04
56 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
Found at i:15642625 original size:142 final size:142
Alignment explanation
Indices: 15642369--15642797 Score: 725
Period size: 142 Copynumber: 3.0 Consensus size: 142
15642359 TACAGCGGAG
15642369 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAAT-CT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCT
** *
15642433 GATCTAACTGAGATTACAGTGGAGCATATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
66 -ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
15642498 GAGTAGATCGCAT
130 GAGTAGATCGCAT
* *
15642511 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTACTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCT
* *
15642576 ATCTCCCTGAGATTATAGTGGAGCAGATTAAAATAAAGAATCTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
15642641 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
15642653 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACATCGGAGCAGATTGAAGCTAGTAGTCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCT
* *
15642718 ATCTCCATGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
15642783 AGTAGATCGCAT
131 AGTAGATCGCAT
15642795 CAG
1 CAG
15642798 GTCTTATCTC
Statistics
Matches: 270, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
142 268 0.99
143 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:15643018 original size:101 final size:102
Alignment explanation
Indices: 15642862--15643313 Score: 729
Period size: 101 Copynumber: 4.5 Consensus size: 102
15642852 TCCCAGGTGA
* *
15642862 TGCAGTGGAAC-AGATTAAAGCCACATTGGTGAATCTTGCTTTCCCGACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
*
15642926 TTAAAGCTACAACAGCGAATCTTACTTCCCTA-GCGG
66 TTAAAGCTACAACAACGAATCTTACTTCCCTAGGCGG
*
15642962 TGCAGTGGAACAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
* * * *
15643027 TTAAAGCTACAACAGCGAATCTTAC-TCCCCAAGAGG
66 TTAAAGCTACAACAACGAATCTTACTTCCCTAGGCGG
*
15643063 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
15643128 TTAAAGCTACAACAACGAATCTTAC-TCCCTAGGCGG
66 TTAAAGCTACAACAACGAATCTTACTTCCCTAGGCGG
* *
15643164 TGCAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAAAGA
1 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
*
15643228 TTAAAGCTACAACAACAAATCTTACTT-CCTAGGCGG
66 TTAAAGCTACAACAACGAATCTTACTTCCCTAGGCGG
* *
15643264 TGCAGTGGAAC-AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
15643314 CACAGTTAAG
Statistics
Matches: 331, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
100 147 0.44
101 184 0.56
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (102 bp):
TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGA
TTAAAGCTACAACAACGAATCTTACTTCCCTAGGCGG
Found at i:15643249 original size:50 final size:50
Alignment explanation
Indices: 15642862--15643313 Score: 352
Period size: 50 Copynumber: 9.0 Consensus size: 50
15642852 TCCCAGGTGA
* *** * *
15642862 TGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTTCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* ** * * * **
15642912 TGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTT-CCCTAGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGA-CAT
* *
15642962 TGCAGTGGAACAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAA-AAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* ** * * * * *
15643013 TGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAAGAGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACA-T
* * * *
15643063 TGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAT
1 TGCAGTGGAA-AAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* ** * * * * * **
15643114 TGTAGTTAAAAAGATTAAAGCTACAACAACGAATCTTAC-TCCCTAGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCC-CGACAT
* * *
15643164 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
** * * * * ** * **
15643214 TGCAGTTCAAAAGATTAAAGCTACAACAACAAATCTTACTTCCTAGGCGG
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
* *
15643264 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
15643314 CACAGTTAAG
Statistics
Matches: 296, Mismatches: 98, Indels: 16
0.72 0.24 0.04
Matches are distributed among these distances:
49 15 0.05
50 201 0.68
51 70 0.24
52 10 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACAT
Found at i:15644057 original size:22 final size:21
Alignment explanation
Indices: 15644024--15644066 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
15644014 TTTGAGTTTA
*
15644024 TATCGATTTTTTTTTCTTTTTC
1 TATCGATTTTTTCTT-TTTTTC
15644046 TATCG-TTATTTTCTTTTTTTC
1 TATCGATT-TTTTCTTTTTTTC
15644067 CTATTCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.72
Consensus pattern (21 bp):
TATCGATTTTTTCTTTTTTTC
Found at i:15650264 original size:38 final size:38
Alignment explanation
Indices: 15650213--15650286 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
15650203 TATCGTTGCC
15650213 AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGTGT
1 AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGTGT
*
15650251 AAGAAGTGTCATTGTCACCCCTATCATCTAGCTTGT
1 AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGT
15650287 ATTATTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (38 bp):
AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGTGT
Found at i:15654824 original size:251 final size:251
Alignment explanation
Indices: 15654376--15654858 Score: 727
Period size: 251 Copynumber: 1.9 Consensus size: 251
15654366 ACATTGGTAC
* * *
15654376 GAGGTATGTTGAGGCTCGAAGAATAAAGTTTATTAAAATGAAACAGGGTGATAGTATAGTGGTCG
1 GAGGAATGTTGAGGCTCGAAGAATAAAGTTTATTAAAATGAAACAAGGTGATAGTACAGTGGTCG
* * *
15654441 AGTATAAGGTTGAGTTTCTGAGGTTGAGCTATTATGCTTCGAATATGTTGTCTACTGAGTAGGAT
66 AGTATAAGGTTGAGTTTCTAAGGTTGAGCTATTATGCTTCGAATATGGTGTCTACTGAGCAGGAT
* * * *
15654506 AGGTGTGTACAACTCGAGGATGGGCTAAGGTATGATTTAATGGTTCAGGTTACACCACATTAGGA
131 AAGTGTGTACAACTCAAGGATGAGCTAAGGTATGATTTAAAGGTTCAGGTTACACCACATTAGGA
15654571 GAGGGTGTTTAAGATTCTAGTTGAGAAGGCCAAGATTATAGTTGAGATTCTAGTAT
196 GAGGGTGTTTAAGATTCTAGTTGAGAAGGCCAAGATTATAGTTGAGATTCTAGTAT
* * * **
15654627 GAGGAATGTTGAGGCTCGTAGAATAGAGTTTATTTAGCTGAAACAAGGTGATAAG-ACAGTGGTC
1 GAGGAATGTTGAGGCTCGAAGAATAAAGTTTATTAAAATGAAACAAGGTGAT-AGTACAGTGGTC
*
15654691 GAGTATAAGGTTGAGTTTCTAAGGTTGAG-TCGTTATGCTTCGAATATGGTGTCTACTGAGCAGG
65 GAGTATAAGGTTGAGTTTCTAAGGTTGAGCT-ATTATGCTTCGAATATGGTGTCTACTGAGCAGG
* * * * *
15654755 ATAAGTGTGTATAGCTCAAGGATGAGCTGAGGTATGATTTAAAGGTTCAGGTTGCACCATATTAG
129 ATAAGTGTGTACAACTCAAGGATGAGCTAAGGTATGATTTAAAGGTTCAGGTTACACCACATTAG
* *
15654820 GAGAGGGTGTTTGAGATTCTAGTTGAGAATGCCAAGATT
194 GAGAGGGTGTTTAAGATTCTAGTTGAGAAGGCCAAGATT
15654859 GTAGAGGAGG
Statistics
Matches: 207, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
250 1 0.00
251 204 0.99
252 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (251 bp):
GAGGAATGTTGAGGCTCGAAGAATAAAGTTTATTAAAATGAAACAAGGTGATAGTACAGTGGTCG
AGTATAAGGTTGAGTTTCTAAGGTTGAGCTATTATGCTTCGAATATGGTGTCTACTGAGCAGGAT
AAGTGTGTACAACTCAAGGATGAGCTAAGGTATGATTTAAAGGTTCAGGTTACACCACATTAGGA
GAGGGTGTTTAAGATTCTAGTTGAGAAGGCCAAGATTATAGTTGAGATTCTAGTAT
Found at i:15657035 original size:13 final size:14
Alignment explanation
Indices: 15657006--15657040 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
15656996 TGGACATATG
*
15657006 GAAATGGATGTTTT
1 GAAATGGATGTTAT
15657020 GAAATGG-TGTTAT
1 GAAATGGATGTTAT
15657033 GAAATGGA
1 GAAATGGA
15657041 CATTGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (14 bp):
GAAATGGATGTTAT
Found at i:15662300 original size:26 final size:26
Alignment explanation
Indices: 15662243--15662300 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
15662233 TTTGATACTC
* * *
15662243 TATTTTTAAGATATGTTTCCAAGTTT
1 TATTTTTAAGATATGTTTCAAAGATA
* * *
15662269 TGTTTTTAAGCTATGTTTTAAAGATA
1 TATTTTTAAGATATGTTTCAAAGATA
15662295 TATTTT
1 TATTTT
15662301 ACACGTGCTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (26 bp):
TATTTTTAAGATATGTTTCAAAGATA
Found at i:15665108 original size:38 final size:38
Alignment explanation
Indices: 15665057--15665134 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
15665047 ATTTACTCGC
*
15665057 GTAATTACTTTAATTCAC-TCTCTTAAGAATTGGGGAGA
1 GTAATTACTTTAATTCACAT-TCTTAAAAATTGGGGAGA
15665095 GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
1 GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
15665133 GT
1 GT
15665135 CCCTAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (38 bp):
GTAATTACTTTAATTCACATTCTTAAAAATTGGGGAGA
Found at i:15669885 original size:155 final size:155
Alignment explanation
Indices: 15669593--15669878 Score: 376
Period size: 155 Copynumber: 1.8 Consensus size: 155
15669583 TGTTAATTAT
*
15669593 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTATGCATCATTAATAT
1 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
* * * * * *
15669658 AAAAATGTACATTATAATATCATAATTGTGCATAGTGTTACATATCATTAATAATCTACCTTAAT
66 AAAAATGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAATCTACATTAAT
15669723 TGAATAATTGAATAATGCTACTTGC
131 TGAATAATTGAATAATGCTACTTGC
* * * *** * *
15669748 ATATATTATAATCTACCATAAAGTTAGTTCCACGTTTAGGGTTTAAGTTTACGTATCATTAATAT
1 ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
* * * * *
15669813 TAAAATGTAAATTACAATAACATAGTTGTATATAG-GAATACATATCATTGATAATCTATATTAA
66 AAAAATGTAAATTACAATAACATAATTGTACATAGTG-ATACATATCATTAATAATCTACATTAA
15669877 TT
130 TT
15669879 ATATAATGTT
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
154 1 0.01
155 109 0.99
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (155 bp):
ATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTACGCATCATTAATAT
AAAAATGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAATCTACATTAAT
TGAATAATTGAATAATGCTACTTGC
Found at i:15678382 original size:50 final size:50
Alignment explanation
Indices: 15678279--15678520 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
15678269 GGTGATGAGA
* * * * *
15678279 TCCCATGTAAGACCATGTTTGGAATATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TAAGAGAGG
* * *
15678335 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
** * * **
15678385 TCCCCCGTAAGACCATGTCTGGGACATGGTATGGGCACCGATAAGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
* * * * * **
15678435 TCCCATGTAAGACCATATTTGGGATATAGCATTGGCA--GTATAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATAAGAGAGG
* *
15678484 TCCCATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15678521 TGTTATTATC
Statistics
Matches: 153, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 78 0.51
51 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAAGAGAGG
Found at i:15680584 original size:39 final size:39
Alignment explanation
Indices: 15680525--15680608 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
15680515 TAAGGTTAAC
*
15680525 TTGATTTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
15680564 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
15680603 TTGAAT
1 TTGAAT
15680609 GACACATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (39 bp):
TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
Found at i:15682135 original size:29 final size:29
Alignment explanation
Indices: 15682103--15682182 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
15682093 ATTTTATCTC
15682103 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
15682132 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
15682161 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
15682183 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:15682364 original size:7 final size:7
Alignment explanation
Indices: 15682348--15682392 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
15682338 TTAAATTTAT
*
15682348 TTATTAA
1 TTATTCA
15682355 TTATTCA
1 TTATTCA
*
15682362 TTATTAA
1 TTATTCA
15682369 TTATTCA
1 TTATTCA
15682376 TTATTCA
1 TTATTCA
15682383 TTATTCA
1 TTATTCA
15682390 TTA
1 TTA
15682393 ATGTACATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATTCA
Found at i:15682367 original size:14 final size:14
Alignment explanation
Indices: 15682348--15682392 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
15682338 TTAAATTTAT
15682348 TTATTAATTATTCA
1 TTATTAATTATTCA
15682362 TTATTAATTATTCA
1 TTATTAATTATTCA
*
15682376 TTATTCATTATTCA
1 TTATTAATTATTCA
15682390 TTA
1 TTA
15682393 ATGTACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTAATTATTCA
Found at i:15687695 original size:17 final size:17
Alignment explanation
Indices: 15687657--15687867 Score: 201
Period size: 17 Copynumber: 12.5 Consensus size: 17
15687647 ACACAATTCA
* *
15687657 CATATAAA-ACGGCTCA
1 CATATAAACACAGCTCG
* *
15687673 CATATAAACACAACTTG
1 CATATAAACACAGCTCG
*
15687690 CATATAAACACAACTCG
1 CATATAAACACAGCTCG
* *
15687707 CATATAAACACATCTTG
1 CATATAAACACAGCTCG
* *
15687724 CATATAAACACATCTCA
1 CATATAAACACAGCTCG
*
15687741 CATATAAACATAGCTCG
1 CATATAAACACAGCTCG
* *
15687758 TATATAAACATAGCTCG
1 CATATAAACACAGCTCG
*
15687775 CATATAAACACAGTTCG
1 CATATAAACACAGCTCG
* * * *
15687792 AATATAAATACATCTGG
1 CATATAAACACAGCTCG
*
15687809 CATATAAACATAGC-CAG
1 CATATAAACACAGCTC-G
*
15687826 CATATAAACACAGCTCA
1 CATATAAACACAGCTCG
* * *
15687843 CATATAAACATAGTTAG
1 CATATAAACACAGCTCG
15687860 CATATAAA
1 CATATAAA
15687868 TATAACTCGT
Statistics
Matches: 160, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.05
17 151 0.94
18 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (17 bp):
CATATAAACACAGCTCG
Found at i:15689660 original size:89 final size:89
Alignment explanation
Indices: 15689505--15689677 Score: 301
Period size: 89 Copynumber: 1.9 Consensus size: 89
15689495 ATAAGTATGA
* *
15689505 CATCTCATATCAATTTATTTGAACATGGCCATGCATTTCTAGTCTCACTCAATCAAGTGGCCTAA
1 CATCTCATATCAACTTATTTGAACATGGCCATGCAATTCTAGTCTCACTCAATCAAGTGGCCTAA
*
15689570 GATATTACTCCTATTATGTTCAAT
66 GATATTACTCCCATTATGTTCAAT
* *
15689594 CATCTCATATCAACTTATTTGAGCATGGCCATGCAATTCTAGTCTCACTCAATCAAGTGGCTTAA
1 CATCTCATATCAACTTATTTGAACATGGCCATGCAATTCTAGTCTCACTCAATCAAGTGGCCTAA
15689659 GATATTACTCCCATTATGT
66 GATATTACTCCCATTATGT
15689678 AGGAGGGACT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (89 bp):
CATCTCATATCAACTTATTTGAACATGGCCATGCAATTCTAGTCTCACTCAATCAAGTGGCCTAA
GATATTACTCCCATTATGTTCAAT
Found at i:15691137 original size:74 final size:75
Alignment explanation
Indices: 15691035--15691176 Score: 196
Period size: 74 Copynumber: 1.9 Consensus size: 75
15691025 AGCACATAAA
* * * *
15691035 TAGGAAGCTCTTACGAGCCAATTATCGGGAAGCTCATACGAGCCATA-AACGGGAAGCTCAAGAG
1 TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
15691099 AGCTATTAAC
66 AGCTATTAAC
** * * *
15691109 TAGGAAGCTCATGGGAGCCAAATATCGGGAAGCTCGTAAGAGCCATATATCAGGAAGCTCCAGAG
1 TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
15691174 AGC
66 AGC
15691177 CATATATCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
74 41 0.71
75 17 0.29
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (75 bp):
TAGGAAGCTCATACGAGCCAAATATCGGGAAGCTCATAAGAGCCATATAACAGGAAGCTCAAGAG
AGCTATTAAC
Found at i:15691158 original size:25 final size:25
Alignment explanation
Indices: 15691010--15691184 Score: 119
Period size: 25 Copynumber: 7.0 Consensus size: 25
15691000 ATTCATATTT
*
15691010 GGGAATGCTCATAAGAGCACATAAAT-
1 GGGAA-GCTCATAAGAGC-CATATATC
* * *
15691036 AGGAAGCTCTTACGAGCCA-ATTATC
1 GGGAAGCTCATAAGAGCCATA-TATC
* *
15691061 GGGAAGCTCATACGAGCCATA-AAC
1 GGGAAGCTCATAAGAGCCATATATC
* *
15691085 GGGAAGCTCA-AGAGAGCTAT-TAAC
1 GGGAAGCTCATA-AGAGCCATATATC
* ** *
15691109 TAGGAAGCTCATGGGAGCCAAATATC
1 -GGGAAGCTCATAAGAGCCATATATC
*
15691135 GGGAAGCTCGTAAGAGCCATATATC
1 GGGAAGCTCATAAGAGCCATATATC
* *
15691160 AGGAAGCTCCA-GAGAGCCATATATC
1 GGGAAGCT-CATAAGAGCCATATATC
15691185 AATATGCTCA
Statistics
Matches: 117, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.02
24 25 0.21
25 81 0.69
26 9 0.08
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCCATATATC
Found at i:15691193 original size:25 final size:25
Alignment explanation
Indices: 15691112--15691201 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
15691102 TATTAACTAG
* * **
15691112 GAAGCTCATGGGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCATATATCAA
* * *
15691137 GAAGCTCGTAAGAGCCATATATCAG
1 GAAGCTCATGAGAGCCATATATCAA
15691162 GAAGCTCCA-GAGAGCCATATATCAA
1 GAAGCT-CATGAGAGCCATATATCAA
* *
15691187 TATGCTCATGAGAGC
1 GAAGCTCATGAGAGC
15691202 TAATAACAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.04
25 50 0.94
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATATATCAA
Found at i:15697415 original size:23 final size:23
Alignment explanation
Indices: 15697389--15697433 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15697379 TTTCTTACTA
*
15697389 TAGTAATTTTCGGGGTATTACAG
1 TAGTAATTTTCGGGATATTACAG
15697412 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
15697434 AATGTCAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:15697754 original size:76 final size:76
Alignment explanation
Indices: 15697628--15697779 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
15697618 TGGCACCGAG
15697628 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
1 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
15697693 GTAATGGAAAA
66 GTAATGGAAAA
15697704 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
1 CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
15697769 GTAATGGAAAA
66 GTAATGGAAAA
15697780 TGATTCTAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (76 bp):
CGTTTCCACCTCAAATCATGTAACATTTTGAAACACCTTGGTCTGATGTGTCCAGGTTTGTTACA
GTAATGGAAAA
Found at i:15698883 original size:4 final size:4
Alignment explanation
Indices: 15698874--15699844 Score: 1073
Period size: 4 Copynumber: 242.5 Consensus size: 4
15698864 GGAGTGCCAC
*
15698874 TATG TATG TATG TATG TATG TATG TATG TACG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
15698922 TACG TATG TATG TATG TATG TACG TATG TATG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
15698970 TATG TATG TATG TACG TATG TATG TATG TATG TACG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
15699018 TATG TACG TATG TATG TATG TATG TACG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
15699066 TATG TATG TATG TATG TACG TATG TATG TACG TACG TACG TACG GAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
15699114 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
15699162 TATG TATG TACG TACG TACG TACAG -AGG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TA-TG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
15699210 TACG TATG TACG TATG TACG TATA TATG TACG TACG TACG TACG GAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
15699258 TATG TATG TATG TATG TATG TACG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
15699306 TATG TATG TGTG TATG TATG TACG TATG TATG TACG TACG TACG TACAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG
* * * * * *
15699355 -AGG TATG TAGG TATG TATG TATG TACG TATG TACG TATG TACG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
15699402 TATG TACG TACG TACG TACG GAGG TATG TATG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * ** * * *
15699450 TATA TACG TATG TATG TACG TACG TACA TACG GAGG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
15699498 TATG TATG TATG TACG TATG TATG TACG TACG TACG TACG GAGG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
15699546 TATG TATG TATG TATG TACG TATG TACG TATG TATG TATG TACG GAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
15699594 TATG TATG TATG TATG TATG TACG TACG TATG TATG TACG TTACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG -TATG TATG
* * * * *
15699643 TATG TATG TATG AATG TACG TATG TATG TATG TACG TACG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
15699691 TATG TATG TATG TATG TATG TACG TATG TATG TACG TACG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
15699739 TATG TATG TATG AATG TACG TATG TATG TATG TACG TACG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
15699787 TAGG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15699835 TATG TATG TA
1 TATG TATG TA
15699845 ATACAAGTTT
Statistics
Matches: 842, Mismatches: 120, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
3 2 0.00
4 834 0.99
5 6 0.01
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (4 bp):
TATG
Found at i:15714168 original size:34 final size:34
Alignment explanation
Indices: 15714124--15714191 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
15714114 CCATAGTTGA
* *
15714124 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
15714159 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
15714192 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:15719276 original size:36 final size:35
Alignment explanation
Indices: 15719236--15719314 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
15719226 CATACGGCGC
*
15719236 CGTTTTGGGGCCACTGAAACATGCCCCAAACGACG
1 CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
** *
15719271 TCGTTTAAGGGCCACTGAAACAGGCCTCAAACGACG
1 -CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
15719307 CTGTTTTG
1 C-GTTTTG
15719315 CATCTTCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (35 bp):
CGTTTTGGGGCCACTGAAACAGGCCCCAAACGACG
Found at i:15720616 original size:127 final size:127
Alignment explanation
Indices: 15720477--15720897 Score: 456
Period size: 127 Copynumber: 3.3 Consensus size: 127
15720467 TGTGTTTTTG
*
15720477 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
* * *
15720542 GAGATAGGATTGGTTTTTTTCGTCTGCTCCATTACTGCTTAGGTAGATAAGACTTGATACGA
66 GAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * *
15720604 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTATCCGCTCTACTGTAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
* * * * ** * *
15720669 GAGATAGGATTGG-TTTCTTCTGACTGTTCCACTGCAACTTCAGGGAGGTAAGACTGGATGCGA
66 GAGATAGGATTGGTTTTTTTC-GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGA
* * * ** * * * * ** * * *
15720732 TTTGCTCTACTGCAACTTCAGAGAGATATGATCTG-CGTTTTTGTCTACTCCACTACTACTT-AG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAG
* ***
15720795 GGAGATAAGATCT-GTGGCTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
65 GGAGATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* *
15720857 TCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTTT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
15720898 GTCTGCTCCA
Statistics
Matches: 234, Mismatches: 54, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
124 13 0.06
125 37 0.16
126 20 0.09
127 100 0.43
128 50 0.21
129 14 0.06
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTATCCGCTCTACTGCAACTTCAGG
GAGATAGGATTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:15720618 original size:87 final size:83
Alignment explanation
Indices: 15720386--15720610 Score: 236
Period size: 86 Copynumber: 2.7 Consensus size: 83
15720376 GAGATTTTGG
* * ** * * *
15720386 GTTTTAGTCTGCTCCACTGCAACTTCAGGTAGGTAAGACTGGATGCGATCTGCTCTACTGCAACT
1 GTTTTTGTCTGCTCCACTACTGCTT-AGGTAGATAAGACTTGATACGATCTGCTCTACTGCAACT
*
15720451 TCAGAGAGATATGATCTGT
65 TCAGAGAGATAGGATCTGT
* * *** *
15720470 GTTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAA
1 GTTTTTGTCTGCTCCACTACTGCTTAGGTAGATAAGA-CT-T-GATACGATCTGCTCTACTGCAA
*
15720535 CTTCAGGGAGATAGGAT-TGGT
63 CTTCAGAGAGATAGGATCT-GT
* *
15720556 TTTTTTCGTCTGCTCCATTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTC
1 GTTTTT-GTCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTC
15720611 CACTACTGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
83 10 0.09
84 32 0.28
85 2 0.02
86 41 0.36
87 29 0.25
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (83 bp):
GTTTTTGTCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTCTACTGCAACTT
CAGAGAGATAGGATCTGT
Found at i:15720866 original size:40 final size:42
Alignment explanation
Indices: 15720774--15721105 Score: 270
Period size: 40 Copynumber: 7.9 Consensus size: 42
15720764 CTGCGTTTTT
* * * **
15720774 GTCTACTCCACTACTACTTAGGGAGATAAGATCTGTGGCTTT
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
15720816 GTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
* * * **
15720855 GATCTACTCCACTACTGCTTAGGGAGATAAGATATGTGGTTTT
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
15720898 GTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
* **
15720937 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTA
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG-ATGC
* * * * * * * * *** *
15720981 ATCCGCTCCACT-GTAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
1 GTCTGCTCCACTACT-GCTT-AGGGAGAT--AA--GATCTGTGGATGC
*
15721028 GTCTGCTCCACTACTGTTTAGGGAGATAAGA-CT-T-GATGC
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
15721067 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG
15721106 TTTTAATCCG
Statistics
Matches: 228, Mismatches: 42, Indels: 39
0.74 0.14 0.13
Matches are distributed among these distances:
39 9 0.04
40 91 0.40
41 9 0.04
42 63 0.28
43 18 0.08
44 10 0.04
46 9 0.04
47 14 0.06
48 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATGC
Found at i:15720976 original size:82 final size:82
Alignment explanation
Indices: 15720385--15720979 Score: 382
Period size: 82 Copynumber: 7.1 Consensus size: 82
15720375 TGAGATTTTG
* ** * * * * * *
15720385 GGTTTTAGTCTGCTCCACTGCAACTTCAGGTAGGTAAGACTGGATGCGATCTGCTCTACTGCAAC
1 GGTTTT-GTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTAC
* *
15720450 TTCAGAGAGATATGATCTGT
64 TT-AGGGAGATAAGATCTGT
* * *** * * * *
15720470 GTTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAA
1 GGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTA
*
15720535 CTTCAGGGAGATAGGAT-TGGT
63 CTT-AGGGAGATAAGATCT-GT
** * * * **
15720556 TTTTTTCGTCTGCTCCATTACTGCTTAGGTAGATAAGACTTGATACGATCTGCTCCACTACTGTT
1 GGTTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACT
15720621 TAGGGAGATAAGATCTGT
65 TAGGGAGATAAGATCTGT
* * * * * * * * * *
15720639 GTTTTTTATCCGCTCTACT-GTAACTTCAGGGAGATAGGA-TTGGTTTCTTCTGA-CTGTTCCAC
1 G-GTTTTGTCTGCTCCACTACT-GCTT-AGGGAGATAAGACTT-G---ATGC-GATCTGCTCCAC
* * *
15720701 TGCAACTTCAGGGAGGTAAGA-CTGGAT
58 TACTACTT-AGGGAGATAAGATCT-G-T
* * * * * * * * ** *
15720728 GCGATTTGCTCTACTGCA--ACT--TCAGAGAGATATGATCTGCGTTTTTG-TCTACTCCACTAC
1 G-GTTTTG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TG-ATGCGATCTGCTCCACTAC
15720788 TACTTAGGGAGATAAGATCTGT
61 TACTTAGGGAGATAAGATCTGT
* * *
15720810 GGCTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTT
1 GGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTT
*
15720875 AGGGAGATAAGATATGT
66 AGGGAGATAAGATCTGT
*
15720892 GGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTT
1 GGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTT
15720957 AGGGAGATAAGATCTGT
66 AGGGAGATAAGATCTGT
15720974 GGTTTT
1 GGTTTT
15720980 AATCCGCTCC
Statistics
Matches: 401, Mismatches: 80, Indels: 61
0.74 0.15 0.11
Matches are distributed among these distances:
80 7 0.02
81 7 0.02
82 125 0.31
83 51 0.13
84 77 0.19
85 20 0.05
86 42 0.10
87 47 0.12
88 14 0.03
89 6 0.01
90 5 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (82 bp):
GGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTT
AGGGAGATAAGATCTGT
Found at i:15721058 original size:130 final size:130
Alignment explanation
Indices: 15720898--15721145 Score: 460
Period size: 130 Copynumber: 1.9 Consensus size: 130
15720888 ATGTGGTTTT
15720898 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
15720963 ATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
66 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
*
15721028 GTCTGCTCCACTACTGTTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
* *
15721093 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG
66 ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTG
15721146 ATTTCTTTCA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 114 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (130 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGAATTGGTTTTTTTTTCC
Found at i:15721432 original size:100 final size:100
Alignment explanation
Indices: 15721163--15721925 Score: 951
Period size: 100 Copynumber: 7.7 Consensus size: 100
15721153 TCAAATTGAC
* * * * * *
15721163 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCTACTGCA-TCGCCAGGGA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACT-GCCAGGGA
***
15721226 AGTAAGATTCATTGTTGCGGCTTCAATCTTTT-AAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
15721261 TGCAATACCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
*
15721325 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAA
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
** * * * *
15721360 TGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATTTGCTCCACTGTACTGCCAAGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
15721425 GTGAGATTCGCTGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
15721460 TTCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
15721525 GTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * ** * *
15721560 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGCTCCATTGCACCACTATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
15721625 GTAAGATTCGCCGTTGCAGCTTCAATATTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * *
15721660 TACAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCTATTGCACCGCTATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
15721725 GTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
15721760 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCATGGAA
1 TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* *
15721825 GTAAGATTCGTCGCTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* *
15721860 TGCAATGTC-GAGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
1 TGCAATATCAG-GGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
15721924 AG
65 AG
15721926 GTAACTTCAT
Statistics
Matches: 593, Mismatches: 68, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
98 86 0.15
99 16 0.03
100 491 0.83
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:15721925 original size:50 final size:50
Alignment explanation
Indices: 15721163--15721925 Score: 438
Period size: 50 Copynumber: 15.3 Consensus size: 50
15721153 TCAAATTGAC
* * * * *
15721163 TGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCTAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* *** ** *
15721212 TGC-ATCGCCAGGGAAGTAAGATTCATTGTTGCGGCTTCAATCT-TTTAAT
1 TGCAAT-GCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * *
15721261 TGCAATACCGGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * ** * * *
15721310 TGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAA
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * * *
15721360 TGCAATATCAGGGAAGCAAGATTCGTCGTCGTAGCTTTAATTTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * ** * * * *
15721410 TGTACTGCCAAGGAAGTGAGATTCGCTGTTGTGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* ** * * * * * *
15721460 TTCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * ** * * * *
15721510 TGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * *
15721560 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATTTGCTCCAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
*** * * * * * * *
15721610 TGCACCACTATGGAAGTAAGATTCGCCGTTGCAGCTTCAATATTTTTAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * *
15721660 TACAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCTAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
** * * * * * * *
15721710 TGCACCGCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * * *
15721760 TGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * * ** * *
15721810 TGCACTGCCATGGAAGTAAGATTCGTCGCTGCGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
* * * * *
15721860 TGCAATGTC-GAGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAG-GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
*
15721910 TGCACTGCCAGGGAAG
1 TGCAATGCCAGGGAAG
15721926 GTAACTTCAT
Statistics
Matches: 500, Mismatches: 207, Indels: 13
0.69 0.29 0.02
Matches are distributed among these distances:
48 24 0.05
49 35 0.07
50 440 0.88
51 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCAAT
Found at i:15722255 original size:23 final size:24
Alignment explanation
Indices: 15722206--15722262 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
15722196 TGGATTGCCC
15722206 CCACTGTAATATTCAAAGTTCAAT
1 CCACTGTAATATTCAAAGTTCAAT
* *
15722230 CCACTGTAATCTTC-AAGTTCAGT
1 CCACTGTAATATTCAAAGTTCAAT
15722253 CCACTGTAAT
1 CCACTGTAAT
15722263 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (24 bp):
CCACTGTAATATTCAAAGTTCAAT
Found at i:15723177 original size:18 final size:18
Alignment explanation
Indices: 15723154--15723194 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15723144 CGTCTCCTTT
*
15723154 TTTTTCTTTCTTCTTTTC
1 TTTTTCTTTCTTCTTTCC
* *
15723172 TTTTTCTTTTTTGTTTCC
1 TTTTTCTTTCTTCTTTCC
15723190 TTTTT
1 TTTTT
15723195 TCAAATGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTCTTCTTTCC
Found at i:15732738 original size:43 final size:44
Alignment explanation
Indices: 15732593--15732793 Score: 254
Period size: 43 Copynumber: 4.7 Consensus size: 44
15732583 TAACCATTAC
***
15732593 ACGGTGGAATCAGCACTTAGCAACCACC--TCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTCACAATC-AAGGAT
* * * *
15732636 CCCGGTGGAATCAGCACTTGGCAACCACC-TT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTTCACAATCAAGGAT
*
15732679 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTCACAATCAAGGAT
*
15732721 ACGGTGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTCACAATCAAGGAT
15732764 ACGGTGGAATCAGCACTTAGCAACCACCTT
1 ACGGTGGAATCAGCACTTAGCAACCACCTT
15732794 ATNNNNNNNN
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 20 0.14
42 17 0.12
43 67 0.48
44 34 0.24
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (44 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTCACAATCAAGGAT
Found at i:15752299 original size:41 final size:40
Alignment explanation
Indices: 15752242--15752348 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 40
15752232 NNNNNNCGGT
15752242 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * * **
15752283 GGAATCAGCACATAGCAACCTCTTTTTGATCAATGATTTGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
*
15752324 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACTTAGCAACCCCTTA
15752349 CATTCAAAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:15752807 original size:95 final size:94
Alignment explanation
Indices: 15752644--15752828 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 94
15752634 TGGAAAAAAT
15752644 ACATTTTTGCCCCTAAAGTTTCACAAAATTACGATTTTGCCCCAAAGATCGTAAATTAAACTTCA
1 ACATTTTTGCCCCTAAAGTTTCACAAAATTACGATTTTGCCCCAAAGATCGTAAATTAAACTTCA
15752709 TCCCTTATTCTTATGTATTATGACATGTAA
66 TCCCTTATTCTTATG-ATTATGACATGTAA
15752739 ACATTTTTGCCCCTAAAGTTTCACAAAATTACGATTTTGCCCCAAAGATCGTAAATTAAACTTCA
1 ACATTTTTGCCCCTAAAGTTTCACAAAATTACGATTTTGCCCCAAAGATCGTAAATTAAACTTCA
15752804 TCCCTTATTCTTATGATTATGACAT
66 TCCCTTATTCTTATGATTATGACAT
15752829 TTTTACTCGT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 10 0.11
95 80 0.89
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (94 bp):
ACATTTTTGCCCCTAAAGTTTCACAAAATTACGATTTTGCCCCAAAGATCGTAAATTAAACTTCA
TCCCTTATTCTTATGATTATGACATGTAA
Found at i:15762241 original size:24 final size:24
Alignment explanation
Indices: 15762206--15762255 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
15762196 TTAAAGTAAT
*
15762206 TTGAGCTCAAGTTTTA-AAAAAAA
1 TTGAGCTCAAGTTTAATAAAAAAA
15762229 TTGAGCTCAAAGTTTAATAAAAAAA
1 TTGAGCTC-AAGTTTAATAAAAAAA
15762254 TT
1 TT
15762256 TAAGCTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (24 bp):
TTGAGCTCAAGTTTAATAAAAAAA
Found at i:15775453 original size:79 final size:79
Alignment explanation
Indices: 15775370--15775647 Score: 301
Period size: 79 Copynumber: 3.5 Consensus size: 79
15775360 AGAGAAATTG
* *
15775370 ATTGAACAATTCTGTTTCAGGATTTTATTCCTATCGTTCAACAAGATTTGTTCAATTTTCTGTTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
*
15775435 CCAAACATAAATCA
66 CCAAACAAAAATCA
* * * * * * *
15775449 ATTGAATAATTCTGTTTAAGGATTTTATTCTTGCCGTTCAACAAGATTTGGTT-GATTTTTTCTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTT-GTTCAATTTTCTATT
* * *
15775513 TCCGAATAGAAA-CAA
65 TCCAAACAAAAATC-A
* * * * * * *
15775528 ATTAAACAACTCTGTTTTAGGATTTTATCCCTGTCATTCAACAAGATTTCTTCAAATTTCTATTT
1 ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
15775593 CCAAACAAAAATCA
66 CCAAACAAAAATCA
* * *
15775607 ATTGAACAATTTTGTTTC-GAGATTCTATTCCTGTAGTTCAA
1 ATTGAACAATTCTGTTTCAG-GATTTTATTCCTGTCGTTCAA
15775648 TTGAATTTAT
Statistics
Matches: 159, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
78 4 0.03
79 151 0.95
80 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (79 bp):
ATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCAATTTTCTATTT
CCAAACAAAAATCA
Found at i:15776486 original size:38 final size:37
Alignment explanation
Indices: 15776430--15776524 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
15776420 TTATTGATTG
* * * * * *
15776430 CATGTTCAGCATGCCTACTATTATTGTTGAATCGAATA
1 CATGTTAAGCATGTCTACTACTACTATTG-AGCGAATA
* *
15776468 CATGTTAAGCATGTCTACTGCTACTATTGAGCTAATA
1 CATGTTAAGCATGTCTACTACTACTATTGAGCGAATA
*
15776505 CATGTTAAGAATGTCTACTA
1 CATGTTAAGCATGTCTACTA
15776525 GTTTTACATG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 24 0.51
38 23 0.49
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (37 bp):
CATGTTAAGCATGTCTACTACTACTATTGAGCGAATA
Found at i:15790376 original size:21 final size:19
Alignment explanation
Indices: 15790352--15790416 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
15790342 AAGGAGAACT
15790352 GAAAGAAGTAAAAAGACAAAA
1 GAAAGAAG-AAAAAGA-AAAA
*
15790373 GAAAG--GAAAAATAAAAA
1 GAAAGAAGAAAAAGAAAAA
* *
15790390 GAAAGAAAAGGAAAAGAAGAA
1 GAAAG--AAGAAAAAGAAAAA
15790411 GAAAGA
1 GAAAGA
15790417 GTACAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 9 0.25
18 6 0.17
19 2 0.06
21 19 0.53
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (19 bp):
GAAAGAAGAAAAAGAAAAA
Found at i:15790402 original size:22 final size:24
Alignment explanation
Indices: 15790360--15790404 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
15790350 CTGAAAGAAG
15790360 TAAAAAGACAAAAGAAAGGAAAAA
1 TAAAAAGACAAAAGAAAGGAAAAA
*
15790384 TAAAAAGA-AAGA-AAAGGAAAA
1 TAAAAAGACAAAAGAAAGGAAAA
15790405 GAAGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (24 bp):
TAAAAAGACAAAAGAAAGGAAAAA
Found at i:15794355 original size:3 final size:3
Alignment explanation
Indices: 15794347--15794373 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15794337 TTTTTAAAGC
15794347 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
15794374 TTTTAGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15794551 original size:18 final size:19
Alignment explanation
Indices: 15794530--15794583 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
15794520 ATTTTATAAT
* *
15794530 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTCAA
15794548 TTTTAAAAATTATTTTCAA
1 TTTTAAAAATTATTTTCAA
*
15794567 TTTTTGAAAATTATTTT
1 -TTTTAAAAATTATTTT
15794584 GATTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 15 0.48
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTCAA
Found at i:15794551 original size:19 final size:19
Alignment explanation
Indices: 15794527--15794585 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
15794517 CAAATTTTAT
15794527 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTG
* *
15794546 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTG
15794565 AATTTTTGAAAATTATTTTG
1 AATTTTT-AAAATTATTTTG
15794585 A
1 A
15794586 TTATTTTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.09
19 19 0.56
20 12 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTG
Found at i:15799890 original size:25 final size:24
Alignment explanation
Indices: 15799852--15799902 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
15799842 ATCATTTGAA
* *
15799852 AATTAAAAAATATAAATTAATAAT
1 AATTAAAAAATATAAATAAAAAAT
*
15799876 AATTAAAAATTTATAAATAAAAAAT
1 AATTAAAAA-ATATAAATAAAAAAT
15799901 AA
1 AA
15799903 AAAAAAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATTAAAAAATATAAATAAAAAAT
Found at i:15802558 original size:11 final size:11
Alignment explanation
Indices: 15802542--15802577 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
15802532 GAATTTCCAC
15802542 TTCATAAGATA
1 TTCATAAGATA
15802553 TTCATAAGATA
1 TTCATAAGATA
*
15802564 TTAATAAGATA
1 TTCATAAGATA
15802575 TTC
1 TTC
15802578 TTTTGAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (11 bp):
TTCATAAGATA
Found at i:15807872 original size:34 final size:35
Alignment explanation
Indices: 15807813--15807880 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
15807803 TCAAACACCA
15807813 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
*
15807848 TAAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAA
15807881 CATTTTACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
Found at i:15808722 original size:17 final size:18
Alignment explanation
Indices: 15808687--15808725 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
15808677 GCTTTAATAA
15808687 TTTAAAAAATTATAGAATT
1 TTTAAAAAATTATA-AATT
15808706 TTTAAAAAATTAT-AATT
1 TTTAAAAAATTATAAATT
15808723 TTT
1 TTT
15808726 CTCATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAAAAATTATAAATT
Found at i:15810439 original size:35 final size:35
Alignment explanation
Indices: 15810381--15810531 Score: 180
Period size: 35 Copynumber: 4.3 Consensus size: 35
15810371 AAAAAAAAGC
* * *
15810381 TAGGATAGACTCGTCTAAAGCAACCTTAAAGAGGT
1 TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
15810416 TAGGATAGACCCGTTTAAGGCAACCGTAAAAAGGT
1 TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
15810451 T-GAGATGGACCAGTCTAAGGCAACCTTAAAAAGGT
1 TAG-GATAGACCCGTCTAAGGCAACCTTAAAAAGGT
* *
15810486 TTGGATA-ATCCTGTCTAAGGCAACCTTAAAAAGGT
1 TAGGATAGA-CCCGTCTAAGGCAACCTTAAAAAGGT
*
15810521 TTGGATAGACC
1 TAGGATAGACC
15810532 TTGTTTGCAC
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
34 2 0.02
35 97 0.96
36 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (35 bp):
TAGGATAGACCCGTCTAAGGCAACCTTAAAAAGGT
Found at i:15817009 original size:37 final size:37
Alignment explanation
Indices: 15816959--15817032 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
15816949 GGTATAAGCC
*
15816959 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
1 CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
*
15816996 CTAAAGCAGGAGATCTGTCACTCTGTTAGATTGAATT
1 CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
15817033 TGACGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (37 bp):
CTAAAGCAGGAGATCTATCACTCTGTTAGATTGAATT
Found at i:15820204 original size:15 final size:15
Alignment explanation
Indices: 15820184--15820214 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15820174 AAAAGGTGAA
*
15820184 TCCAATGGTGCCATG
1 TCCAATGATGCCATG
15820199 TCCAATGATGCCATG
1 TCCAATGATGCCATG
15820214 T
1 T
15820215 GATGTGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (15 bp):
TCCAATGATGCCATG
Found at i:15820543 original size:38 final size:38
Alignment explanation
Indices: 15820468--15820543 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
15820458 GAGATGTTAG
*
15820468 CTAAATTTATGTCGGTGTTAGAAACTCGATTTAAAAAC
1 CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
*
15820506 CTAAATTTATGTCGGTGTTAGAAACTCGATTGCAAAAC
1 CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
15820544 ACTGAGACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (38 bp):
CTAAATTTATGTCGGTGTTAGAAACTCGATTGAAAAAC
Found at i:15824016 original size:16 final size:16
Alignment explanation
Indices: 15823997--15824033 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15823987 ACTTTTTGTT
15823997 TTATTTATTATTATTA
1 TTATTTATTATTATTA
* *
15824013 TTATTTATTCTTATTC
1 TTATTTATTATTATTA
15824029 TTATT
1 TTATT
15824034 AGTCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:15834025 original size:5 final size:5
Alignment explanation
Indices: 15834015--15834058 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
15834005 ATATTAAAAG
15834015 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
15834059 AAAGAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:15854421 original size:331 final size:331
Alignment explanation
Indices: 15853809--15854467 Score: 966
Period size: 331 Copynumber: 2.0 Consensus size: 331
15853799 TTTTCTTTCC
* * * *
15853809 TTCTCTTTCATTTCTCTATCGTTTCCTTCTATATTACTCCTCTTTTGCTTTTAATTTTTTCCCGT
1 TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
* * * * *
15853874 TAATCTTGCTACTACTCTATTGAAGGAGTTGCATATTTTGTTGTGTTCGATTGAAAAGTATCAAT
66 TAATCTT-CTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAAT
15853939 GTAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCAC
130 GTAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCAC
* *
15854004 TTGTTTGTTCTATATCTCTTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAAT
195 TTGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAAT
* * ** * *
15854069 AATGATTTCTCCAACGTTAGGAGTTCGTGAATTGCTGTAGTG-TGCTTGGTAAGTGTTTGAATTT
260 AACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCT-CGTGGAAAGTGTTTGAATTT
15854133 ATGAATTA
324 ATGAATTA
* *
15854141 TTCTCCTTCATTTCTCTATCATTTCTTTCTAGATTACTCCTCTTTTGCTTTT-ATTTTTTTCCAT
1 TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
* ** *
15854205 TAATC-T-TAATACTCTGTTGAAGGACTTATTTATTTTGTCGTGTTCGACTGAAAAGTATCAGTG
66 TAATCTTCTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAATG
* * * *
15854268 TAAGTTTTATGGTTGAAATTCTGTGAATGTTACTCTCGCTCGTTGTTGTCAATTTGGGTGTTTCC
131 TAAGTTTTATGGTTGAAATTCTGTAAATGTTACTC-C-CAC-TCGTTGTCAATTTGAGTGTTTCC
* *
15854333 GCTTGTTTGTTCTATATATATTTTTGAATGTTCAATTGGTTCTATTTTAGGCGAAGACCTTGAGA
193 ACTTGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGA
* *
15854398 ATAACGATTTCTCCAATGTTAGGAGTCCGTGAATTGTTGTAACGCTCGTGGAAAGTGTTTGAATT
258 ATAACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCTCGTGGAAAGTGTTTGAATT
15854463 TATGA
323 TATGA
15854468 GTTGAGTTTT
Statistics
Matches: 292, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
328 82 0.28
329 1 0.00
330 3 0.01
331 157 0.54
332 49 0.17
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (331 bp):
TTCTCCTTCATTTCTCTATCATTTCCTTCTAGATTACTCCTCTTTTGCTTTTAATTTTTTCCCAT
TAATCTTCTAATACTCTATTGAAGGACTTACATATTTTGTCGTGTTCGACTGAAAAGTATCAATG
TAAGTTTTATGGTTGAAATTCTGTAAATGTTACTCCCACTCGTTGTCAATTTGAGTGTTTCCACT
TGTTTGTTCTATATATATTTTTGAATGTTCAATTGATTCTATTTTAGGCGAAGACCTTGAGAATA
ACGATTTCTCCAACGTTAGGAGTCCGTGAATTGCTGTAACGCTCGTGGAAAGTGTTTGAATTTAT
GAATTA
Found at i:15854810 original size:15 final size:15
Alignment explanation
Indices: 15854786--15854817 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15854776 TATGCATGCA
*
15854786 AAATATAAAAGACAT
1 AAATACAAAAGACAT
15854801 AAATACAAAAGACAT
1 AAATACAAAAGACAT
15854816 AA
1 AA
15854818 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:15858382 original size:63 final size:63
Alignment explanation
Indices: 15858283--15858449 Score: 183
Period size: 63 Copynumber: 2.7 Consensus size: 63
15858273 AGGCCATGTA
* * * *
15858283 ACTCACTGTTTGTGAATTAGAGTCACATGGGTCAGGGACATGGGCATGTGTCCAAGCCGTGTG
1 ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
* * * * * ***
15858346 ACTCATTGTTTGTGAATTAGAGTCACACGTGCCAGGGACACGGGCGTGTGTACAAGTCATAAA
1 ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
* * *
15858409 ACTCACTGTTT-TAGAATTAAAGTCACATGAGCCAGGGACAC
1 ACTCACTGTTTGT-GAATTAGAGTCACACGGGCCAGGGACAC
15858450 AGGTGTGTGT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 1 0.01
63 86 0.99
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (63 bp):
ACTCACTGTTTGTGAATTAGAGTCACACGGGCCAGGGACACGGGCATGTGTACAAGCCGTGTG
Found at i:15862281 original size:14 final size:15
Alignment explanation
Indices: 15862253--15862294 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
15862243 TAAATAAGAA
15862253 TAAAAAATAT-T--T
1 TAAAAAATATATAAT
15862265 TAAAAAATATA-AAT
1 TAAAAAATATATAAT
15862279 TAAAAAATATATAAT
1 TAAAAAATATATAAT
15862294 T
1 T
15862295 TTCTTAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAAATATATAAT
Found at i:15863442 original size:3 final size:3
Alignment explanation
Indices: 15863434--15863470 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15863424 NNNNNNNNNN
15863434 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15863471 GGCTAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15863784 original size:12 final size:13
Alignment explanation
Indices: 15863756--15863790 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
15863746 TCACACTATT
*
15863756 TTCTTCATCTTTC
1 TTCTTCATCTGTC
15863769 TTCTTCA-CTGTC
1 TTCTTCATCTGTC
15863781 TTCTTCATCT
1 TTCTTCATCT
15863791 CCCATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.31, G:0.03, T:0.57
Consensus pattern (13 bp):
TTCTTCATCTGTC
Found at i:15866169 original size:56 final size:56
Alignment explanation
Indices: 15866083--15866195 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
15866073 GAATTATAAG
* * * *
15866083 TCAGAATGTGCTATAAATGTCTATATAATTTTTAGTTCTCACACCCTTAAACTTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
*
15866139 TCAGAATGTGTTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
15866195 T
1 T
15866196 TCATTGTTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (56 bp):
TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAAATTAA
Found at i:15869473 original size:13 final size:13
Alignment explanation
Indices: 15869457--15869487 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15869447 AATGATTACA
15869457 TGAAATGGTTATG
1 TGAAATGGTTATG
*
15869470 TGAATTGGTTATG
1 TGAAATGGTTATG
15869483 TGAAA
1 TGAAA
15869488 ATATATGCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (13 bp):
TGAAATGGTTATG
Found at i:15874146 original size:18 final size:18
Alignment explanation
Indices: 15874106--15874161 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
15874096 AAAGATTAGT
*
15874106 GTATTTGTGTTATT-TATA
1 GTATTTGTGATATTAT-TA
*
15874124 ATATTTGTGATATTATTA
1 GTATTTGTGATATTATTA
*
15874142 GTATTTTTGTAATATTATTA
1 GTA--TTTGTGATATTATTA
15874162 TTAATGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
GTATTTGTGATATTATTA
Found at i:15886747 original size:19 final size:18
Alignment explanation
Indices: 15886699--15886747 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15886689 TATTTCCTAT
*
15886699 AAAATATAAAAAATTTTCA
1 AAAATATAAAAAA-TTTAA
*
15886718 ATAATATAAAAAATTTAA
1 AAAATATAAAAAATTTAA
*
15886736 AAAATTTAAAAA
1 AAAATATAAAAA
15886748 TTTGTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAATTTAA
Found at i:15886750 original size:8 final size:9
Alignment explanation
Indices: 15886699--15886747 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
15886689 TATTTCCTAT
*
15886699 AAAATATAA
1 AAAATTTAA
*
15886708 AAAATTTTCA
1 AAAA-TTTAA
* *
15886718 ATAATATAA
1 AAAATTTAA
15886727 AAAATTTAA
1 AAAATTTAA
15886736 AAAATTTAA
1 AAAATTTAA
15886745 AAA
1 AAA
15886748 TTTGTTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTTAA
Found at i:15896091 original size:21 final size:22
Alignment explanation
Indices: 15896066--15896109 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15896056 CAAATATAAG
* *
15896066 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACAAAATCATT
15896087 TATTGAATATAACAAAATCATT
1 TATTGAATATAACAAAATCATT
15896109 T
1 T
15896110 TCATATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACAAAATCATT
Found at i:15896700 original size:13 final size:13
Alignment explanation
Indices: 15896682--15896714 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15896672 CAAATTTTTT
15896682 AAAAGCACTTCTA
1 AAAAGCACTTCTA
*
15896695 AAAAGCACTTCTC
1 AAAAGCACTTCTA
15896708 AAAAGCA
1 AAAAGCA
15896715 ATGAAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAGCACTTCTA
Found at i:15903262 original size:28 final size:28
Alignment explanation
Indices: 15903231--15903299 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
15903221 TAAAATATAA
* * *
15903231 AAATTAAAATAATTTTTATATTAATATT
1 AAATAAAAATAATTTTAATACTAATATT
*
15903259 AAATAAAAATAAATTTAATACTAATATT
1 AAATAAAAATAATTTTAATACTAATATT
15903287 AAATAAAAATAAT
1 AAATAAAAATAAT
15903300 GATTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATAAAAATAATTTTAATACTAATATT
Found at i:15905429 original size:20 final size:21
Alignment explanation
Indices: 15905390--15905430 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
15905380 AATTCATTTT
15905390 AATATTTTATTATATAAAATA
1 AATATTTTATTATATAAAATA
*
15905411 AATATTTTA-TATTTAAAATA
1 AATATTTTATTATATAAAATA
15905431 GTGTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATTATATAAAATA
Found at i:15906358 original size:56 final size:56
Alignment explanation
Indices: 15906287--15906400 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
15906277 AAGAACGAAG
*
15906287 TAAGAACGAAGTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
1 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
15906343 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
1 TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
15906399 TA
1 TA
15906401 TTACTGGCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.52, C:0.13, G:0.22, T:0.13
Consensus pattern (56 bp):
TAAGAACGAACTTTGAAAGATGAACAAAAGCCAAAGAAAAGCAAGAACAGGATCGT
Found at i:15907975 original size:31 final size:31
Alignment explanation
Indices: 15907934--15907997 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
15907924 TTTCCTATAG
*
15907934 TTAGGGTTTTTAATATTTTTAAATTTAGGGT
1 TTAGGATTTTTAATATTTTTAAATTTAGGGT
*
15907965 TTAGGATTTTTAATATTTTTAAGTTTAGGGT
1 TTAGGATTTTTAATATTTTTAAATTTAGGGT
15907996 TT
1 TT
15907998 TTTAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (31 bp):
TTAGGATTTTTAATATTTTTAAATTTAGGGT
Found at i:15909980 original size:20 final size:20
Alignment explanation
Indices: 15909955--15909995 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15909945 CCCCTATAAG
*
15909955 TATGACCTATTTGATGTGAA
1 TATGACCTATTTGATATGAA
15909975 TATGACCTATTTGATATGAA
1 TATGACCTATTTGATATGAA
15909995 T
1 T
15909996 GGCAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (20 bp):
TATGACCTATTTGATATGAA
Found at i:15910581 original size:18 final size:18
Alignment explanation
Indices: 15910539--15910588 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
15910529 AGGCGCAGAT
*
15910539 GAGGAAAAAGATGCGATC
1 GAGGAAGAAGATGCGATC
* *
15910557 GAGGAAGAAGATGTGGTC
1 GAGGAAGAAGATGCGATC
*
15910575 GAGGAAGAATATGC
1 GAGGAAGAAGATGC
15910589 AAGTGAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.38, T:0.14
Consensus pattern (18 bp):
GAGGAAGAAGATGCGATC
Found at i:15912932 original size:20 final size:20
Alignment explanation
Indices: 15912907--15912946 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15912897 TGAAGACAAA
15912907 TATAGTGTTGAAATGAAAAT
1 TATAGTGTTGAAATGAAAAT
15912927 TATAGTGTTGAAATGAAAAT
1 TATAGTGTTGAAATGAAAAT
15912947 ATATGGTTTA
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:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
TATAGTGTTGAAATGAAAAT
Found at i:15919989 original size:25 final size:25
Alignment explanation
Indices: 15919951--15920017 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
15919941 ACAAATAAAA
15919951 ACCCAAAA-TCAGCCCAACACCCCAC
1 ACCCAAAACT-AGCCCAACACCCCAC
*
15919976 ACCCAAAACTAGCCCAACACCTCAC
1 ACCCAAAACTAGCCCAACACCCCAC
*
15920001 ACCCAAAACAAGCCCAA
1 ACCCAAAACTAGCCCAA
15920018 GTTAACCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.43, C:0.48, G:0.04, T:0.04
Consensus pattern (25 bp):
ACCCAAAACTAGCCCAACACCCCAC
Found at i:15924611 original size:22 final size:23
Alignment explanation
Indices: 15924579--15924621 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15924569 AAGGCTAAGC
*
15924579 TTTAATATAA-TTAGTTCAATGA
1 TTTAATATAATTTAATTCAATGA
*
15924601 TTTAATTTAATTTAATTCAAT
1 TTTAATATAATTTAATTCAAT
15924622 TAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
TTTAATATAATTTAATTCAATGA
Found at i:15927802 original size:25 final size:24
Alignment explanation
Indices: 15927774--15927863 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 24
15927764 CTCGCTTGAA
15927774 CTTCCCGATATATGGCTATTCGGAG
1 CTTCCCGAT-TATGGCTATTCGGAG
** *
15927799 CTTCTTGATTAATGGCTCTTCGGAG
1 CTTCCCGATT-ATGGCTATTCGGAG
* * *
15927824 CTACCC-ATTATTGGCTCGTAC-GAG
1 CTTCCCGATTA-TGGCT-ATTCGGAG
15927848 CTTCCCGATTATGGCT
1 CTTCCCGATTATGGCT
15927864 CTTATAAGCT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.02
24 22 0.42
25 29 0.56
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
CTTCCCGATTATGGCTATTCGGAG
Found at i:15930502 original size:18 final size:18
Alignment explanation
Indices: 15930476--15930512 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15930466 TTAAAATTTG
*
15930476 AAAAGAAGTATAAGCATA
1 AAAAAAAGTATAAGCATA
*
15930494 AAAAAAAGTGTAAGCATA
1 AAAAAAAGTATAAGCATA
15930512 A
1 A
15930513 GATAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.16, T:0.16
Consensus pattern (18 bp):
AAAAAAAGTATAAGCATA
Found at i:15931223 original size:16 final size:16
Alignment explanation
Indices: 15931198--15931247 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15931188 ATATATATTA
*
15931198 ATTATGTTAATTAATT
1 ATTATTTTAATTAATT
*
15931214 ATTATTTTAAATAA-T
1 ATTATTTTAATTAATT
*
15931229 GTTATTTTACATTAATT
1 ATTATTTTA-ATTAATT
15931246 AT
1 AT
15931248 ATGAAACACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 9 0.33
16 16 0.59
17 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTATTTTAATTAATT
Found at i:15934113 original size:69 final size:69
Alignment explanation
Indices: 15934024--15934157 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
15934014 TTCTCTTCCT
* * *
15934024 GAGGATTCCATCACACAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTGATGGT
1 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
15934089 TGTG
66 TGTG
* * * *
15934093 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGACTCGGATGTGATTCTTGAAGATGTAATGGT
1 GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
15934158 CATGGAGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (69 bp):
GAGGATTCCAACACAAAGAAGGTCTGTTTCAAGGAATCGAACGTGAATCTTGAAGATGTAATGGT
TGTG
Found at i:15940481 original size:21 final size:20
Alignment explanation
Indices: 15940451--15940504 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
15940441 TTTAATTTTC
*
15940451 AAATTTTAAAAAAATTAAAA
1 AAATTATAAAAAAATTAAAA
* * *
15940471 AAGATTATAAAATTATTTTAAA
1 AA-ATTATAAAA-AAATTAAAA
15940493 AAATTATAAAAA
1 AAATTATAAAAA
15940505 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 17 0.63
22 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAAAATTAAAA
Found at i:15940511 original size:21 final size:21
Alignment explanation
Indices: 15940451--15940522 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
15940441 TTTAATTTTC
* * *
15940451 AAATTTTAAAAA-AATTAAAA
1 AAATTATAAAAATTATTTAAA
15940471 AAGATTAT-AAAATTATTTTAAA
1 AA-ATTATAAAAATTA-TTTAAA
15940493 AAATTATAAAAATTATTT-AA
1 AAATTATAAAAATTATTTAAA
15940513 AAA-TATAAAA
1 AAATTATAAAA
15940523 TTAAATGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.16
20 11 0.24
21 13 0.29
22 14 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (21 bp):
AAATTATAAAAATTATTTAAA
Done.