Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 202 of 259
Found at i:64282159 original size:40 final size:37
Alignment explanation
Indices: 64282056--64282190 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
64282046 TTTTCCTCAT
* *
64282056 TGAAATACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* * **
64282092 -GAAATGCCATACTTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
*
64282128 TTTGATAATACCATACCTACATTTCACAACTCAGTAAGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
64282168 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
64282191 CTTTTCCATG
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 50 0.60
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:64283834 original size:27 final size:27
Alignment explanation
Indices: 64283804--64283892 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
64283794 GATCACTGAA
* * *
64283804 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTTTAT
64283831 CACTTTGCCATGATTGAG-ACACTTTAT
1 CACTTTGCCATGATTG-GCACACTTTAT
*
64283858 CACTTTGCCATGATTGACACACTTTAT
1 CACTTTGCCATGATTGGCACACTTTAT
64283885 CACTTTGC
1 CACTTTGC
64283893 TATAGTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTTTAT
Found at i:64284030 original size:31 final size:31
Alignment explanation
Indices: 64283958--64284128 Score: 206
Period size: 31 Copynumber: 5.5 Consensus size: 31
64283948 AAGTGTAGCT
* * *
64283958 AAGCTACCACTTATCACTTG-TCACTTGTAGTCG
1 AAGCTACCACTTTTCAC-TGATCA--GGTAGCCG
* *
64283991 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
64284022 GAGCTACCACTTTTCACTAATCAAGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
64284053 AAGCTACTACTTTTCACTGATCAGGTAG-C-
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
64284082 -AGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
64284112 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
64284129 ATTATACATA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.22
29 1 0.01
30 1 0.01
31 71 0.60
32 2 0.02
33 18 0.15
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:64284113 original size:59 final size:60
Alignment explanation
Indices: 64283984--64284128 Score: 220
Period size: 59 Copynumber: 2.4 Consensus size: 60
64283974 CTTGTCACTT
* *
64283984 GTAGTCGAAGCTACCACTATTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGC--GAGCTACCACTTTTCACTAATCAA
* * *
64284046 GTAGCCGAAGCTACTACTTTTCACTGATCAGGTAGC-AGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCGAGCTACCACTTTTCACTAATCAA
64284105 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
64284129 ATTATACATA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
59 44 0.57
62 33 0.43
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (60 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCGAGCTACCACTTTTCACTAATCAA
Found at i:64284205 original size:33 final size:33
Alignment explanation
Indices: 64284133--64284233 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
64284123 TTTCACATTA
* *
64284133 TACATACAAGGTGTACATTTCCTTTTCAAG-TG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTTG
* *
64284165 TACACACAAAGTGTACGTTTCCTTTTTAAGTTG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTTG
*
64284198 TACACACACAA-TGTACATTTCCTTTTCCAGTTG
1 TACACACA-AAGTGTACATTTCCTTTTCAAGTTG
64284231 TAC
1 TAC
64284234 CTTTTAGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
32 26 0.43
33 32 0.53
34 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (33 bp):
TACACACAAAGTGTACATTTCCTTTTCAAGTTG
Found at i:64284379 original size:91 final size:91
Alignment explanation
Indices: 64284219--64284402 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
64284209 TGTACATTTC
*
64284219 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTT
1 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
64284284 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
64284310 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
1 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
64284375 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
64284401 CT
1 CT
64284403 CCCTTCGGAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (91 bp):
CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
CTTTTTATAATGAGATCATAAGATTA
Found at i:64290324 original size:16 final size:14
Alignment explanation
Indices: 64290288--64290315 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64290278 TTGGGCCTTT
64290288 GTAATTTTGGACTG
1 GTAATTTTGGACTG
64290302 GTAATTTTGGACTG
1 GTAATTTTGGACTG
64290316 TTTTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTAATTTTGGACTG
Found at i:64291494 original size:99 final size:99
Alignment explanation
Indices: 64291322--64291517 Score: 374
Period size: 99 Copynumber: 2.0 Consensus size: 99
64291312 CATCAGGAAC
64291322 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
*
64291387 CCTCCTTTTGTGACGTCCACTCTTCTGGATTTCG
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
*
64291421 AATGAACAGTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
64291486 CCTACTTTTGTGACGTCCACTCTTCTGGATTT
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTT
64291518 TGACTTTCAT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (99 bp):
AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
Found at i:64301143 original size:8 final size:8
Alignment explanation
Indices: 64301101--64301125 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
64301091 ATATAGACTA
64301101 AATAAAAT
1 AATAAAAT
64301109 AATAAAAT
1 AATAAAAT
64301117 AATAAAAT
1 AATAAAAT
64301125 A
1 A
64301126 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:64301149 original size:29 final size:31
Alignment explanation
Indices: 64301098--64301166 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
64301088 TATATATAGA
*
64301098 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
64301127 CTTATTAAAATATTAAACA-AATAATAATTAT
1 CTAATTAAAATAATAAA-ATAATAATAATTAT
64301158 CTAATTAAA
1 CTAATTAAA
64301167 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:64307188 original size:10 final size:10
Alignment explanation
Indices: 64307173--64307197 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
64307163 TATGGTTGAT
64307173 ATTATGAGAA
1 ATTATGAGAA
64307183 ATTATGAGAA
1 ATTATGAGAA
64307193 ATTAT
1 ATTAT
64307198 TAACATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (10 bp):
ATTATGAGAA
Found at i:64308822 original size:48 final size:47
Alignment explanation
Indices: 64308692--64308867 Score: 244
Period size: 47 Copynumber: 3.7 Consensus size: 47
64308682 AAGCCATAGT
* ** * * *
64308692 CCAGCTATGATCTTATATGGAAGCACATATCACATAGATGCCGTAGC
1 CCAGCTATGGTCTTATATGGAAGCACATATCACACCGATACCATATC
* *
64308739 CCAACTATGGTCTTATACGGAAGCACATATCACACCGATACCATATC
1 CCAGCTATGGTCTTATATGGAAGCACATATCACACCGATACCATATC
* *
64308786 CCAGCTATGGTCTTATATAGAAATCACATATCACACCGATACCATATC
1 CCAGCTATGGTCTTATAT-GGAAGCACATATCACACCGATACCATATC
*
64308834 CCAGATATGGTCTTATATGGAAGCACATATCACA
1 CCAGCTATGGTCTTATATGGAAGCACATATCACA
64308868 TATTGCCATG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
47 69 0.61
48 44 0.39
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (47 bp):
CCAGCTATGGTCTTATATGGAAGCACATATCACACCGATACCATATC
Found at i:64308849 original size:95 final size:94
Alignment explanation
Indices: 64308692--64308867 Score: 246
Period size: 95 Copynumber: 1.9 Consensus size: 94
64308682 AAGCCATAGT
* * * *
64308692 CCAGCTATGATCTTATATGGAAGCACATATCACATAGATGCCGTAGCCCAACTATGGTCTTATAC
1 CCAGCTATGATCTTATATGAAAGCACATATCACACAGATACCATAGCCCAACTATGGTCTTATAC
64308757 GGAAGCACATATCACACCGATACCATATC
66 GGAAGCACATATCACACCGATACCATATC
* * * *
64308786 CCAGCTATGGTCTTATATAGAAATCACATATCACACCGATACCATATCCCAGA-TATGGTCTTAT
1 CCAGCTATGATCTTATAT-GAAAGCACATATCACACAGATACCATAGCCCA-ACTATGGTCTTAT
*
64308850 ATGGAAGCACATATCACA
64 ACGGAAGCACATATCACA
64308868 TATTGCCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
94 17 0.24
95 53 0.75
96 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (94 bp):
CCAGCTATGATCTTATATGAAAGCACATATCACACAGATACCATAGCCCAACTATGGTCTTATAC
GGAAGCACATATCACACCGATACCATATC
Found at i:64313918 original size:31 final size:30
Alignment explanation
Indices: 64313847--64313926 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
64313837 TAAAATATTT
*
64313847 AAAAAATAAAATTTATTAATTATATTTTTA
1 AAAAAATAAAATTTATAAATTATATTTTTA
* *
64313877 AAATATTAAAATCATTA-AAATTAT-TTTTTAA
1 AAAAAATAAAAT--TTATAAATTATATTTTT-A
*
64313908 AAAAAATAAAATTTTTAAA
1 AAAAAATAAAATTTATAAA
64313927 AACAAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 2 0.05
30 18 0.45
31 17 0.43
32 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAAATAAAATTTATAAATTATATTTTTA
Found at i:64313927 original size:31 final size:31
Alignment explanation
Indices: 64313847--64313927 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
64313837 TAAAATATTT
64313847 AAAAAATAAAATTTATT--AATTATATTTTTA
1 AAAAAATAAAATTT-TTAAAATTATATTTTTA
* * **
64313877 AAATATTAAAATCATTAAAATTAT-TTTTTAA
1 AAAAAATAAAATTTTTAAAATTATATTTTT-A
64313908 AAAAAATAAAATTTTTAAAA
1 AAAAAATAAAATTTTTAAAA
64313928 ACAAAATGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
29 2 0.05
30 15 0.38
31 23 0.57
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAAAATAAAATTTTTAAAATTATATTTTTA
Found at i:64316061 original size:12 final size:12
Alignment explanation
Indices: 64316044--64316069 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64316034 TTTAAAACAG
64316044 TAATAATAATAT
1 TAATAATAATAT
64316056 TAATAATAATAT
1 TAATAATAATAT
64316068 TA
1 TA
64316070 GAAATCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:64316857 original size:30 final size:33
Alignment explanation
Indices: 64316823--64316901 Score: 83
Period size: 37 Copynumber: 2.3 Consensus size: 33
64316813 GTTTGATTTC
64316823 GATTTA-CCC-CT-TTTTCTTATTTTCGTTCAT
1 GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
*
64316853 GATTTTATCCCAAATCTCTTTTCTTGTTTTCGTTCAT
1 GA-TTTATCCC--A-CTCTTTTCTTATTTTCGTTCAT
64316890 GATTTTATCCCA
1 GA-TTTATCCCA
64316902 AATCTCTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.05
31 4 0.10
32 3 0.07
35 1 0.02
36 2 0.05
37 29 0.71
ACGTcount: A:0.16, C:0.23, G:0.08, T:0.53
Consensus pattern (33 bp):
GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
Found at i:64316876 original size:37 final size:37
Alignment explanation
Indices: 64316834--64316908 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
64316824 ATTTACCCCT
64316834 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
*
64316871 TTTTCTTGTTTTCGTTCATGATTTTATCCCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
64316908 T
1 T
64316909 AATTGAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.55
Consensus pattern (37 bp):
TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
Found at i:64317100 original size:18 final size:18
Alignment explanation
Indices: 64317077--64317116 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64317067 TTACCTTCGT
*
64317077 TATTATTATTTTATTATC
1 TATTATTATTCTATTATC
* *
64317095 TATTATTGTTCTATTATT
1 TATTATTATTCTATTATC
64317113 TATT
1 TATT
64317117 CATTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCTATTATC
Found at i:64317664 original size:25 final size:25
Alignment explanation
Indices: 64317636--64317694 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
64317626 TTTTCATATC
* *
64317636 ATTTATTCTAAAT-GTTTTATACATT
1 ATTTATT-TAAATAATTTCATACATT
*
64317661 ATTTATGTTAAATAATTTCATATATT
1 ATTTAT-TTAAATAATTTCATACATT
64317687 ATTTATTT
1 ATTTATTT
64317695 TAAGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (25 bp):
ATTTATTTAAATAATTTCATACATT
Found at i:64318730 original size:27 final size:27
Alignment explanation
Indices: 64318700--64318755 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
64318690 AGGAATCGGG
*
64318700 TTACTAAGGTCTTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
64318727 TTACTAAGGTATTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
64318754 TT
1 TT
64318756 TTCTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (27 bp):
TTACTAAGGTATTTTATTTTCTTTATT
Found at i:64319573 original size:11 final size:11
Alignment explanation
Indices: 64319557--64319686 Score: 63
Period size: 11 Copynumber: 11.7 Consensus size: 11
64319547 TCTCTAATAA
64319557 GTATATATTAT
1 GTATATATTAT
*
64319568 GTATATATTTT
1 GTATATATTAT
* *
64319579 AATACTATATTGT
1 -GTA-TATATTAT
*
64319592 GTATATATTTT
1 GTATATATTAT
*
64319603 ATATATATTATAT
1 GTATATA-T-TAT
*
64319616 GTAT-TTTTA-
1 GTATATATTAT
*
64319625 ATATTATATT-T
1 GTA-TATATTAT
* *
64319636 TTATATCTTA-
1 GTATATATTAT
*
64319646 ATACTATATTAT
1 GTA-TATATTAT
64319658 GTATATATT-T
1 GTATATATTAT
*
64319668 ATATATATTAT
1 GTATATATTAT
*
64319679 GTACATAT
1 GTATATAT
64319687 ATTTTCTAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
9 2 0.02
10 19 0.21
11 48 0.54
12 8 0.09
13 12 0.13
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (11 bp):
GTATATATTAT
Found at i:64319588 original size:24 final size:23
Alignment explanation
Indices: 64319558--64319713 Score: 139
Period size: 21 Copynumber: 6.8 Consensus size: 23
64319548 CTCTAATAAG
64319558 TATATATTATGTATATATTTTAA
1 TATATATTATGTATATATTTTAA
*
64319581 TACTATATTGTGTATATATTTT-A
1 TA-TATATTATGTATATATTTTAA
* *
64319604 TATATATTATATGTAT-TTTTAA
1 TATATATTATGTATATATTTTAA
*
64319626 TATTATATT-T-T-TATATCTTAA
1 TA-TATATTATGTATATATTTTAA
64319647 TACTATATTATGTATATA-TTT-A
1 TA-TATATTATGTATATATTTTAA
64319669 TATATATTATGTACATATATTTTCTAA
1 TATATATTATGT--ATATA-TTT-TAA
* *
64319696 TAT-TATTTTTTATATATT
1 TATATATTATGTATATATT
64319714 ATCATGTATA
Statistics
Matches: 111, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.03
21 28 0.25
22 19 0.17
23 21 0.19
24 27 0.24
25 2 0.02
26 7 0.06
27 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:64319610 original size:46 final size:44
Alignment explanation
Indices: 64319558--64319780 Score: 155
Period size: 44 Copynumber: 5.1 Consensus size: 44
64319548 CTCTAATAAG
*
64319558 TATATATTATGTATATATTTTAATACTATATTGTGTATATAT-TTTA
1 TATATATTATGTATAT-TTTT-ATA-TATATTATGTATATATATTTA
* * * *
64319604 TATATATTATATGTATTTTTAATATTATATT-T-T-TATATCTTAA
1 TATATATTATGTATATTTTT-ATA-TATATTATGTATATATATTTA
* *
64319647 TACTATATTATGTATATATTTATATATATTATGTACATATATTT-
1 TA-TATATTATGTATATTTTTATATATATTATGTATATATATTTA
* *
64319691 TCTA-A-TAT-TAT-TTTTTATATATTATCATGTATATAT-TTTA
1 TATATATTATGTATATTTTTATATA-TATTATGTATATATATTTA
* *
64319731 -ATATTATTA-GTTATATTTTTTTATACTATTTCGTGTATATATATTTA
1 TATA-TATTATG-TATATTTTTATATA-TA-TT-ATGTATATATATTTA
64319778 TAT
1 TAT
64319781 TATCCTTATT
Statistics
Matches: 141, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
39 14 0.10
40 15 0.11
41 4 0.03
42 14 0.10
43 15 0.11
44 29 0.21
45 21 0.15
46 23 0.16
47 4 0.03
48 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (44 bp):
TATATATTATGTATATTTTTATATATATTATGTATATATATTTA
Found at i:64319620 original size:20 final size:18
Alignment explanation
Indices: 64319597--64319633 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
64319587 ATTGTGTATA
64319597 TATTTTATATATATTATATG
1 TATTTT-TA-ATATTATATG
64319617 TATTTTTAATATTATAT
1 TATTTTTAATATTATAT
64319634 TTTTATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTTTTAATATTATATG
Found at i:64319698 original size:23 final size:21
Alignment explanation
Indices: 64319558--64319737 Score: 124
Period size: 22 Copynumber: 8.5 Consensus size: 21
64319548 CTCTAATAAG
64319558 TATATATTATGTATATATTTTAA
1 TATATATTATGTATATA-TTT-A
*
64319581 TACTATATTGTGTATATATTTTA
1 TA-TATATTATGTATATA-TTTA
* * *
64319604 TATATATTATATGTATTTTTAA
1 TATATATTATGTATATATTT-A
* * *
64319626 TATTATATT-TTTATATCTTAA
1 TA-TATATTATGTATATATTTA
64319647 TACTATATTATGTATATATTTA
1 TA-TATATTATGTATATATTTA
64319669 TATATATTATGTACATATATTT-
1 TATATATTATGT--ATATATTTA
* *
64319691 TCTA-A-TAT-TAT-TTTTTA
1 TATATATTATGTATATATTTA
*
64319708 TATATTATCATGTATATATTT-
1 TATA-TATTATGTATATATTTA
64319729 TA-ATATTAT
1 TATATATTAT
64319738 TAGTTATATT
Statistics
Matches: 126, Mismatches: 19, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.03
17 5 0.04
19 7 0.06
20 6 0.05
21 28 0.22
22 39 0.31
23 19 0.15
24 18 0.14
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATATTATGTATATATTTA
Found at i:64319735 original size:69 final size:66
Alignment explanation
Indices: 64319571--64319714 Score: 200
Period size: 66 Copynumber: 2.1 Consensus size: 66
64319561 ATATTATGTA
* * * *
64319571 TATATTTTAATACTATATTGTGTATATATTTTATATATATTATATGTATTTTTAATATTATATTT
1 TATATATTAATACTATATTATGTATATATTTTATATATATTACATATATTTTTAATATTATATTT
64319636 T
66 T
*
64319637 TATATCTTAATACTATATTATGTATATATTTATATATATTATGTACATATATTTTCTAATATTAT
1 TATATATTAATACTATATTATGTATATATTT-TATATA-TAT-TACATATATTTT-TAATATTAT
64319702 -TTTT
62 ATTTT
64319706 TATATATTA
1 TATATATTA
64319715 TCATGTATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
66 29 0.42
67 6 0.09
68 3 0.04
69 22 0.32
70 9 0.13
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (66 bp):
TATATATTAATACTATATTATGTATATATTTTATATATATTACATATATTTTTAATATTATATTT
T
Found at i:64319745 original size:22 final size:23
Alignment explanation
Indices: 64319703--64319783 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 23
64319693 TAATATTATT
*
64319703 TTTTATATATTATCA-TGTATATA
1 TTTTA-ATATTATTAGTGTATATA
*
64319726 TTTTAATATTATTAGT-TATATT
1 TTTTAATATTATTAGTGTATATA
* * *
64319748 TTTTTATACTATTTCGTGTATATA
1 TTTTAATATTA-TTAGTGTATATA
64319772 TATTT-ATATTAT
1 T-TTTAATATTAT
64319784 CCTTATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 22 0.47
23 11 0.23
24 11 0.23
25 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAGTGTATATA
Found at i:64319745 original size:36 final size:38
Alignment explanation
Indices: 64319666--64319746 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 38
64319656 ATGTATATAT
* **
64319666 TTATATATATTATGTACATATATTTTCTAATATTATTTT
1 TTATATATATCATGTA-ATATATTTTCTAATATTATTAG
64319705 TTATATATTATCATGT-ATATA-TTT-TAATATTATTAG
1 TTATATA-TATCATGTAATATATTTTCTAATATTATTAG
64319741 TTATAT
1 TTATAT
64319747 TTTTTTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 16 0.42
37 3 0.08
38 5 0.13
39 7 0.18
40 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (38 bp):
TTATATATATCATGTAATATATTTTCTAATATTATTAG
Found at i:64322927 original size:20 final size:20
Alignment explanation
Indices: 64322892--64322941 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
64322882 AATAAAATAG
64322892 ATTATAAAAATCTATTAAAAA
1 ATTAT-AAAATCTATTAAAAA
* * *
64322913 ATTGTAAAATTTATTAAAAG
1 ATTATAAAATCTATTAAAAA
64322933 ATTATAAAA
1 ATTATAAAA
64322942 ATTAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
ATTATAAAATCTATTAAAAA
Found at i:64325963 original size:18 final size:18
Alignment explanation
Indices: 64325940--64326026 Score: 104
Period size: 18 Copynumber: 4.8 Consensus size: 18
64325930 CGTTTACAGT
64325940 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
*
64325958 ACTATTCACGTATAC-AGT
1 ACTATTCACGTATACGA-C
* *
64325976 ACTATTCACGTATATGGC
1 ACTATTCACGTATACGAC
**
64325994 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
64326012 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
64326027 AGTAGTTGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
17 1 0.02
18 59 0.98
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:64325981 original size:36 final size:36
Alignment explanation
Indices: 64325934--64326026 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
64325924 TACGACCGTT
64325934 TACAGTACTATTCACGTATACGACACTATTCACGTA
1 TACAGTACTATTCACGTATACGACACTATTCACGTA
* *
64325970 TACAGTACTATTCACGTATATGGCACTATTCACGTA
1 TACAGTACTATTCACGTATACGACACTATTCACGTA
* *
64326006 TACGGTACTGTTCACGTATAC
1 TACAGTACTATTCACGTATAC
64326027 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (36 bp):
TACAGTACTATTCACGTATACGACACTATTCACGTA
Found at i:64339121 original size:15 final size:16
Alignment explanation
Indices: 64339097--64339135 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
64339087 ATAAGAAAAT
**
64339097 ATTATTAATTTTTTTA
1 ATTATTAATTAATTTA
64339113 ATT-TTAATTAATTTA
1 ATTATTAATTAATTTA
64339128 ATTATTAA
1 ATTATTAA
64339136 GTTGTTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTAATTAATTTA
Found at i:64342095 original size:27 final size:28
Alignment explanation
Indices: 64342065--64342117 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
64342055 TATTTTATTT
64342065 ATATTAGGA-TAATTAATATTAAGATAA
1 ATATTAGGATTAATTAATATTAAGATAA
* *
64342092 ATATTAGGATTATTTAATTTTAAGAT
1 ATATTAGGATTAATTAATATTAAGAT
64342118 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTAGGATTAATTAATATTAAGATAA
Found at i:64342123 original size:27 final size:26
Alignment explanation
Indices: 64342061--64342123 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
64342051 ATTTTATTTT
64342061 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
** * *
64342088 ATAAATATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
64342116 ATTTTATT
1 ATTTTATT
64342124 TTAATTATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:64342138 original size:10 final size:10
Alignment explanation
Indices: 64342119--64342150 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
64342109 TTTTAAGATT
64342119 TTAT-TTTAA
1 TTATCTTTAA
64342128 TTATCTTTAA
1 TTATCTTTAA
64342138 TTATCTTTAA
1 TTATCTTTAA
64342148 TTA
1 TTA
64342151 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:64345054 original size:38 final size:38
Alignment explanation
Indices: 64344961--64345076 Score: 124
Period size: 38 Copynumber: 3.0 Consensus size: 38
64344951 CGAACCTAAC
* * * * *
64344961 ACCAGCACGAAGCCTACGGGACTTTAAACTTAGAGATAAT
1 ACCAACACGAAGCCTGCGGGA-TTTAACCCT-GATATAAT
* * *
64345001 ACCAGCACTAGGCCTGCGGGATTTAACCCTGATATAAT
1 ACCAACACGAAGCCTGCGGGATTTAACCCTGATATAAT
* *
64345039 GCCAACACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAACACGAAGCCTGCGGGATTTAACCCTGATATAAT
64345077 TCTAGCATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 40 0.62
39 7 0.11
40 18 0.28
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAACACGAAGCCTGCGGGATTTAACCCTGATATAAT
Found at i:64348349 original size:31 final size:31
Alignment explanation
Indices: 64348309--64348377 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
64348299 TTTGGGTTAG
*
64348309 GACTGAAATTTCA-AAATTCAAAAAGTACAAA
1 GACT-AAAATTCACAAATTCAAAAAGTACAAA
* * * *
64348340 GACTAAAATTGACTAGTTCAAAAAGTACAAG
1 GACTAAAATTCACAAATTCAAAAAGTACAAA
64348371 GACTAAA
1 GACTAAA
64348378 TTTGTTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (31 bp):
GACTAAAATTCACAAATTCAAAAAGTACAAA
Found at i:64350370 original size:5 final size:5
Alignment explanation
Indices: 64350360--64350386 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
64350350 AAGAAATTTG
64350360 TGTTT TGTTT TGTTT TGTTT TGTTT TG
1 TGTTT TGTTT TGTTT TGTTT TGTTT TG
64350387 ATGAGGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (5 bp):
TGTTT
Found at i:64355101 original size:7 final size:7
Alignment explanation
Indices: 64355092--64355135 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
64355082 TTTTTTATTT
*
64355092 TTTAAAT
1 TTTAAAC
64355099 TTTAAA-
1 TTTAAAC
*
64355105 TTTGAAC
1 TTTAAAC
64355112 TTTAAAC
1 TTTAAAC
64355119 TTTAAAC
1 TTTAAAC
*
64355126 TTTATAC
1 TTTAAAC
64355133 TTT
1 TTT
64355136 TAAGGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (7 bp):
TTTAAAC
Found at i:64356805 original size:87 final size:87
Alignment explanation
Indices: 64356685--64356859 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
64356675 CTGAGAGAGA
64356685 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
1 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
64356750 AGAATGAGCATCTCATGTACCT
66 AGAATGAGCATCTCATGTACCT
*
64356772 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTTCCTTCA
1 TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
*
64356837 AGAATGGGCATCTCATGTACCT
66 AGAATGAGCATCTCATGTACCT
64356859 T
1 T
64356860 TTCCTTTGAT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (87 bp):
TGTAAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCA
AGAATGAGCATCTCATGTACCT
Found at i:64358711 original size:7 final size:7
Alignment explanation
Indices: 64358701--64358734 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
64358691 AAATTTTTAA
64358701 ATTTTTT
1 ATTTTTT
64358708 ATTTTTT
1 ATTTTTT
64358715 ATTTTTT
1 ATTTTTT
64358722 ATTTTTT
1 ATTTTTT
64358729 ATTTTT
1 ATTTTT
64358735 CTTTTGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:64359502 original size:7 final size:7
Alignment explanation
Indices: 64359490--64359546 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
64359480 ACTAACTAAT
64359490 CTAAACC
1 CTAAACC
64359497 CTAAACTC
1 CTAAAC-C
* *
64359505 TTAATCC
1 CTAAACC
64359512 CTAAACC
1 CTAAACC
*
64359519 TTAAACC
1 CTAAACC
*
64359526 CTAAAAC
1 CTAAACC
*
64359533 ATAAACC
1 CTAAACC
*
64359540 CTGAACC
1 CTAAACC
64359547 ATGAACCCCT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:64359527 original size:14 final size:14
Alignment explanation
Indices: 64359491--64359610 Score: 71
Period size: 14 Copynumber: 8.4 Consensus size: 14
64359481 CTAACTAATC
64359491 TAAACCCTAAACTCT
1 TAAACCCTAAAC-CT
*
64359506 TAATCCCTAAACCT
1 TAAACCCTAAACCT
* *
64359520 TAAACCCTAAAACA
1 TAAACCCTAAACCT
*
64359534 TAAACCCTGAACCAT
1 TAAACCCTAAACC-T
* * * *
64359549 GAACCCCTCACCCT
1 TAAACCCTAAACCT
* * * *
64359563 TAACCCCGAACCCC
1 TAAACCCTAAACCT
*
64359577 T-AACACCTAAACAT
1 TAAAC-CCTAAACCT
* *
64359591 TAAACCCCAACCCT
1 TAAACCCTAAACCT
64359605 TAAACC
1 TAAACC
64359611 ACATTTAAAC
Statistics
Matches: 79, Mismatches: 23, Indels: 7
0.72 0.21 0.06
Matches are distributed among these distances:
13 2 0.03
14 54 0.68
15 23 0.29
ACGTcount: A:0.39, C:0.40, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:64359561 original size:21 final size:21
Alignment explanation
Indices: 64359537--64359577 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64359527 TAAAACATAA
*
64359537 ACCCTGAACCATGAACCCCTC
1 ACCCTGAACCACGAACCCCTC
* *
64359558 ACCCTTAACCCCGAACCCCT
1 ACCCTGAACCACGAACCCCT
64359578 AACACCTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.51, G:0.07, T:0.15
Consensus pattern (21 bp):
ACCCTGAACCACGAACCCCTC
Found at i:64359951 original size:96 final size:94
Alignment explanation
Indices: 64359846--64360050 Score: 360
Period size: 96 Copynumber: 2.2 Consensus size: 94
64359836 TTCATTTCTT
64359846 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCATTTTTTAA
1 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCATTTTTTAA
*
64359911 AAAGCGCCTCTAAAGGTGTATTTATAGCGG
66 AAAGCGCCTCTAAAGGTGTACTTATAGC-G
*
64359941 CGTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTA
1 -GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCATTTTTTA
64360006 AAAAGCGCCTCTAAAGGTGTACTTATAGCG
65 AAAAGCGCCTCTAAAGGTGTACTTATAGCG
64360036 GT-G-TTTTTTTAAAAA
1 GTGGCTTTTTTTAAAAA
64360051 AGCCGTTAAT
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
92 12 0.11
93 1 0.01
94 2 0.02
95 1 0.01
96 91 0.85
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCATTTTTTAA
AAAGCGCCTCTAAAGGTGTACTTATAGCG
Found at i:64360150 original size:148 final size:147
Alignment explanation
Indices: 64360041--64360369 Score: 403
Period size: 156 Copynumber: 2.2 Consensus size: 147
64360031 TAGCGGTGTT
*
64360041 TTTTTAAAAAA-GCCGTTAATACTCAATATTTA-AAGGCGTTTATAAAAAAGCGCCGCTAAAGCC
1 TTTTTAAAAAACGCCGCTAATACTCAATATTTAGAA-GCGTTTATAAAAAAGCGCCGCTAAAGCC
64360104 ACTAAAAGCTCAAGAGGTTGTTTTGAAAAATTCTTTTGCGGCGTTTTTTGAAAAACGACACTAAA
65 ACTAAAAGCTCAAGAGGTTGTTTTGAAAAATTCTTTTGCGGCGTTTTTTGAAAAACGACACTAAA
64360169 GATCAAGCATTAGCGGCG
130 GATCAAGCATTAGCGGCG
* * * * ** *
64360187 TTTTTAAAAAAGCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTGAAAATCGCCGCTAAAGCC
1 TTTTTAAAAAA-CGCCGCTAATACTCAATATTTAGAAGCGTTTATAAAAAAGCGCCGCTAAAGCC
* * * *
64360252 ACTAAAAGCTCAATACAAAACGATGTCACTTTGCAAAATTCTTTTGCGGCGTTTTTTGAAAAACG
65 ACTAAAAG--C--T-CAAGAGGTTGT---TTTGAAAAATTCTTTTGCGGCGTTTTTTGAAAAACG
* * *
64360317 TCACTAAATATCAAACATTAG-GGCG
122 ACACTAAAGATCAAGCATTAGCGGCG
*
64360342 TTTTTAAAAAGCGCCGCTAATACTCAAT
1 TTTTTAAAAAACGCCGCTAATACTCAAT
64360370 TTTTGAAAAG
Statistics
Matches: 155, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
146 11 0.07
148 50 0.32
149 1 0.01
150 1 0.01
152 1 0.01
153 8 0.05
154 16 0.10
155 14 0.09
156 53 0.34
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (147 bp):
TTTTTAAAAAACGCCGCTAATACTCAATATTTAGAAGCGTTTATAAAAAAGCGCCGCTAAAGCCA
CTAAAAGCTCAAGAGGTTGTTTTGAAAAATTCTTTTGCGGCGTTTTTTGAAAAACGACACTAAAG
ATCAAGCATTAGCGGCG
Found at i:64360372 original size:27 final size:27
Alignment explanation
Indices: 64360342--64360394 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
64360332 CATTAGGGCG
*
64360342 TTTTTAAAAAGCGCCGCTAATACTCAA
1 TTTTTAAAAAGCGCCACTAATACTCAA
* *
64360369 TTTTTGAAAAGCGCCACTAATGCTCA
1 TTTTTAAAAAGCGCCACTAATACTCA
64360395 TTCTTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (27 bp):
TTTTTAAAAAGCGCCACTAATACTCAA
Found at i:64366532 original size:8 final size:8
Alignment explanation
Indices: 64366519--64366544 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
64366509 ATACTCTTTT
64366519 CTTATTTG
1 CTTATTTG
64366527 CTTATTTG
1 CTTATTTG
64366535 CTTATTTG
1 CTTATTTG
64366543 CT
1 CT
64366545 AGTATGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (8 bp):
CTTATTTG
Found at i:64369133 original size:33 final size:32
Alignment explanation
Indices: 64369089--64369150 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
64369079 TAAAAAAATA
64369089 TTTAACAATAAAAAATTAAAAATAATTATCAT
1 TTTAACAATAAAAAATTAAAAATAATTATCAT
* * *
64369121 TTTAACTAATAAATAATTTAAATTAATTAT
1 TTTAAC-AATAAAAAATTAAAAATAATTAT
64369151 ATAATTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 6 0.23
33 20 0.77
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTAACAATAAAAAATTAAAAATAATTATCAT
Found at i:64370539 original size:13 final size:13
Alignment explanation
Indices: 64370521--64370545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64370511 TTCATAACAA
64370521 AATAATAATAAAT
1 AATAATAATAAAT
64370534 AATAATAATAAA
1 AATAATAATAAA
64370546 CCAAATATTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:64373120 original size:29 final size:29
Alignment explanation
Indices: 64373086--64373145 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
64373076 ATGATGAGAG
64373086 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
64373115 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
64373144 TA
1 TA
64373146 CTTAGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (29 bp):
TATACCCAAAATAATTTCAGACTCATGGA
Found at i:64389724 original size:46 final size:45
Alignment explanation
Indices: 64389620--64389837 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 45
64389610 AGATTTGTGT
* **
64389620 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGA-GAAGAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAGATG-AG-A
* *
64389667 GGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGA
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGA
* * **
64389714 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGA
* * * * *
64389760 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GA
* *
64389804 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
64389838 ACGGTTACAT
Statistics
Matches: 144, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 33 0.23
46 75 0.52
47 20 0.14
48 14 0.10
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:64389773 original size:92 final size:90
Alignment explanation
Indices: 64389620--64389831 Score: 239
Period size: 92 Copynumber: 2.3 Consensus size: 90
64389610 AGATTTGTGT
* *
64389620 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAAGAAGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGAAGAAGGCCAGTGTAAGACATGT
64389685 CTAGGACATGCATCAGCCAC-AGTATGAGA
64 CTAGGACATGCATCAGCCACGAG-AT--GA
* * * * *
64389714 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA-GCCAGTGTCAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAG-AAGGCCAGTGTAAGACATGTC
* * * * *
64389778 TGGGACATGCGTCGGCTACGAGATGT
65 TAGGACATGCATCAGCCACGAGATGA
*
64389804 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
64389832 GTCAGCACGG
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
90 28 0.27
92 46 0.45
93 17 0.17
94 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAAGGCCAGTGTAAGACATGTCT
AGGACATGCATCAGCCACGAGATGA
Found at i:64389868 original size:46 final size:44
Alignment explanation
Indices: 64389668--64389874 Score: 134
Period size: 46 Copynumber: 4.6 Consensus size: 44
64389658 TGAGAAGAAG
* * * * * *
64389668 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-AGTATGAGA
1 GCTAGTATAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GT
* * * * *
64389714 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTT
1 GCTAGTATAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T
* * * * *
64389759 AGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
1 -GCTAGTATAAGACATGTCTGGGACATGCGTCAGCTACGACATGT
*
64389804 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGT
1 GCTAGTATAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGT
*
64389850 G-TCAGTATAAGACCTGTCTGGGACA
1 GCT-AGTATAAGACATGTCTGGGACA
64389875 CGGCATCGAC
Statistics
Matches: 138, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
43 2 0.01
44 33 0.24
45 4 0.03
46 97 0.70
47 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (44 bp):
GCTAGTATAAGACATGTCTGGGACATGCGTCAGCTACGACATGT
Found at i:64394977 original size:18 final size:18
Alignment explanation
Indices: 64394954--64394991 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
64394944 TGTGACAAAA
64394954 TGGCTTAGAAAATAGCCT
1 TGGCTTAGAAAATAGCCT
64394972 TGGCTTAGAAAATAGCCT
1 TGGCTTAGAAAATAGCCT
64394990 TG
1 TG
64394992 TATTTGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (18 bp):
TGGCTTAGAAAATAGCCT
Found at i:64395348 original size:23 final size:23
Alignment explanation
Indices: 64395318--64395364 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
64395308 TTACATTCGC
64395318 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
64395341 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
64395364 A
1 A
64395365 GTCTTATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (23 bp):
AATTAGTAAAGGAGAAAAAGATA
Found at i:64408618 original size:89 final size:89
Alignment explanation
Indices: 64408467--64408644 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
64408457 ATCACTCAAA
64408467 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
64408532 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
*
64408556 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
64408621 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
64408645 CTTTTGTGAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (89 bp):
ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
TCAGTTCTTGAAGTGATAGTTTTT
Found at i:64412128 original size:24 final size:24
Alignment explanation
Indices: 64412101--64412148 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
64412091 TATGAAACCA
64412101 TAAATGTAATCATTTGAATTGAGG
1 TAAATGTAATCATTTGAATTGAGG
64412125 TAAATGTAATCATTTGAATTGAGG
1 TAAATGTAATCATTTGAATTGAGG
64412149 CTTATTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
TAAATGTAATCATTTGAATTGAGG
Found at i:64414529 original size:18 final size:18
Alignment explanation
Indices: 64414493--64414527 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64414483 CGTCGAATGC
64414493 AGAGAGAGAGAAAGAGGG
1 AGAGAGAGAGAAAGAGGG
64414511 AGAGAGAGAG-AAGAGGG
1 AGAGAGAGAGAAAGAGGG
64414528 GAAGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
AGAGAGAGAGAAAGAGGG
Found at i:64415562 original size:18 final size:18
Alignment explanation
Indices: 64415528--64415562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64415518 AATAAACCAT
**
64415528 GATTTTTTTTAGTTTTTA
1 GATTTTTTTTACATTTTA
64415546 GATTTTTTTTACATTTT
1 GATTTTTTTTACATTTT
64415563 TTGGGTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (18 bp):
GATTTTTTTTACATTTTA
Found at i:64415962 original size:27 final size:27
Alignment explanation
Indices: 64415932--64416018 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
64415922 CATTCTCAAC
*
64415932 AAAA-ATTCAAAATAAATTTTAAAATTT
1 AAAATATTCAAAA-AAATTCTAAAATTT
* *
64415959 AAAATATTTATAAAAATTCTAAAATTT
1 AAAATATTCAAAAAAATTCTAAAATTT
* * * * *
64415986 ATAATTTTTAAAAGAATTATAAGAATTTT
1 AAAATATTCAAAAAAATTCTAA-AA-TTT
64416015 AAAA
1 AAAA
64416019 AAATATTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
27 34 0.71
28 8 0.17
29 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
AAAATATTCAAAAAAATTCTAAAATTT
Found at i:64416679 original size:63 final size:63
Alignment explanation
Indices: 64416610--64416748 Score: 253
Period size: 63 Copynumber: 2.2 Consensus size: 63
64416600 GAATTATAGT
*
64416610 TAAAAATATTA-ATTTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAATA
1 TAAAAATATCAGA-TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAATA
64416673 TAAAAATATCAGATTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAATA
1 TAAAAATATCAGATTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAATA
64416736 TAAAAATATCAGA
1 TAAAAATATCAGA
64416749 ATTAAAAAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 73 0.99
64 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (63 bp):
TAAAAATATCAGATTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAATA
Found at i:64422882 original size:85 final size:86
Alignment explanation
Indices: 64422480--64423013 Score: 653
Period size: 85 Copynumber: 6.2 Consensus size: 86
64422470 CAGGGAGATC
* * * * * * * *
64422480 AGATCTGCAATTCTTCAACCAGCTCCACTACAACCGA-GAGAGGTAAGGTTTGTCTTCGACCCGC
1 AGATCTGCTA-TCTTCAACCAGCTCCACTGCAACCAATGA-AGGCAAGGCTTGTTTTCGATCTGC
* * **
64422544 TTCACTGTCAACGCAGGAAGATA
64 TTCGCTGTTAACGCAGGAAGGCA
* * * * * ** * * *
64422567 AAATCAGTTGTCTTCAACCAACTCTTCTACACCCGA-GAGAGGCAAGGCTTTGTTTTCGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGA-AGGCAAGGC-TTGTTTTCGATCTGC
*
64422631 TTCGCTGTTAACGTAGGAAGGCA
64 TTCGCTGTTAACGCAGGAAGGCA
* * *
64422654 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTCGATCTAC
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGC-TTG-TTTTCGATCTGC
*
64422719 TTCGCTGTTAATGCAGGAAGGCA
64 TTCGCTGTTAACGCAGGAAGGCA
* *
64422742 AGATCTGCTATCTTCAACCAGCTCCACTGTAACCAATGAAGGCAAAGCTTGTTTTCGATCTGCTT
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
64422807 CGCTGTTAACGCAGGAAGGCA
66 CGCTGTTAACGCAGGAAGGCA
* * *
64422828 AGATCTACT-TCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTACTT
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
64422892 CGCTGTTAACGCAGGAAGGCA
66 CGCTGTTAACGCAGGAAGGCA
* * *
64422913 AGATCTGCT-TCTTTAACCAGCTCCACTGTAACCAATGAAGGCAATGCTTGTTTTCGATCTGCTT
1 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
*
64422977 CACTGTTAACGCAGGAAGGCA
66 CGCTGTTAACGCAGGAAGGCA
*
64422998 AGATCTGCTGTCTTCA
1 AGATCTGCTATCTTCA
64423014 CTGATCTGTT
Statistics
Matches: 394, Mismatches: 49, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
85 161 0.41
86 78 0.20
87 78 0.20
88 77 0.20
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (86 bp):
AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
CGCTGTTAACGCAGGAAGGCA
Found at i:64424087 original size:21 final size:21
Alignment explanation
Indices: 64424061--64424107 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
64424051 GGTATAGCAG
64424061 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
64424082 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
64424103 GATCA
1 GATCA
64424108 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:64425133 original size:7 final size:8
Alignment explanation
Indices: 64425108--64425137 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
64425098 CTATTTTGAC
64425108 TTTGATTTT
1 TTTGA-TTT
64425117 TTTGATTT
1 TTTGATTT
64425125 TTTGATTT
1 TTTGATTT
64425133 TTTGA
1 TTTGA
64425138 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:64427734 original size:19 final size:20
Alignment explanation
Indices: 64427705--64427753 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
64427695 CACTTCGTGA
* *
64427705 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
64427724 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
64427744 AAATG-AATGC
1 AAATGTAATGC
64427754 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:64430305 original size:2 final size:2
Alignment explanation
Indices: 64430258--64430287 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
64430248 AAAAATATGG
64430258 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64430288 ACATGTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64432446 original size:12 final size:13
Alignment explanation
Indices: 64432414--64432453 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 13
64432404 CATTTAAAGG
64432414 AGAAGAGAGAAAA
1 AGAAGAGAGAAAA
64432427 AGAAAGAGAGAAAA
1 AG-AAGAGAGAAAA
64432441 AG-AGAGAGAAAA
1 AGAAGAGAGAAAA
64432453 A
1 A
64432454 AAAGGGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AGAAGAGAGAAAA
Found at i:64434994 original size:22 final size:23
Alignment explanation
Indices: 64434966--64435016 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
64434956 ACTGCTTTTT
* *
64434966 TATTTCAGCGTTTTC-CATTATC
1 TATTTCACCCTTTTCTCATTATC
64434988 TATTTCACCCTTTTCTCATTATC
1 TATTTCACCCTTTTCTCATTATC
64435011 TATTTC
1 TATTTC
64435017 TTTCCCCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTCACCCTTTTCTCATTATC
Found at i:64439227 original size:15 final size:15
Alignment explanation
Indices: 64439209--64439266 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
64439199 TTTTATTATT
64439209 AATATTTTAATAATA
1 AATATTTTAATAATA
*
64439224 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
64439243 AATATATTAATAATA
1 AATATTTTAATAATA
*
64439258 AATGTTTTA
1 AATATTTTA
64439267 TCGTATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:64440645 original size:10 final size:10
Alignment explanation
Indices: 64440626--64440685 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
64440616 TTAAATTCTA
64440626 AAAGATAAAT
1 AAAGATAAAT
64440636 ACAA-ATAAAT
1 A-AAGATAAAT
*
64440646 AAAGATAATT
1 AAAGATAAAT
*
64440656 AAAGATAATT
1 AAAGATAAAT
64440666 AAAGATAAAT
1 AAAGATAAAT
*
64440676 AAAAATAAAT
1 AAAGATAAAT
64440686 CCTAAATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:64441501 original size:96 final size:97
Alignment explanation
Indices: 64441333--64441514 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 97
64441323 ATTTTATTTA
* * *
64441333 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
*
64441398 CCTCGGTTACTCAGCCTAACACACTCCTAATT
66 CCTCGGTTACTCAGCCCAACACACTCCTAATT
* * *
64441430 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGA-CAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCA-CCAAGCACCCC
*
64441493 ACGC-CGGTTATTCAGCCCAACA
65 AC-CTCGGTTACTCAGCCCAACA
64441515 TATTCTTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 63 0.84
97 10 0.13
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
CCTCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:64442677 original size:15 final size:15
Alignment explanation
Indices: 64442659--64442736 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
64442649 ATATCCAAAG
64442659 ATAAAATAATAAATA
1 ATAAAATAATAAATA
64442674 ATAAAAT-A-AAATAA
1 ATAAAATAATAAAT-A
64442688 GATAAAATAA-AAATA
1 -ATAAAATAATAAATA
* *
64442703 CTAATAA-AAT-GA-A
1 ATAA-AATAATAAATA
64442716 ATAAAATAATAAATA
1 ATAAAATAATAAATA
64442731 ATAAAA
1 ATAAAA
64442737 ATTAAGAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
12 2 0.04
13 11 0.22
14 9 0.18
15 24 0.47
16 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (15 bp):
ATAAAATAATAAATA
Found at i:64442681 original size:5 final size:5
Alignment explanation
Indices: 64442659--64442724 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
64442649 ATATCCAAAG
* * *
64442659 ATAAA ATAATA A-ATA ATAAA ATAAA ATAAG ATAAA ATAAAA ATACTA
1 ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATA-AA
*
64442706 ATAAA ATGAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAA
64442725 TAAATAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 2 0.04
5 36 0.73
6 11 0.22
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:64442756 original size:10 final size:10
Alignment explanation
Indices: 64442661--64442761 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 10
64442651 ATCCAAAGAT
*
64442661 AAAATAATAA
1 AAAATAAAAA
* *
64442671 ATAATAAAAT
1 AAAATAAAAA
* *
64442681 AAAATAAGAT
1 AAAATAAAAA
64442691 AAAATAAAAA
1 AAAATAAAAA
* *
64442701 TACTAATAAAAT
1 -A-AAATAAAAA
*
64442713 GAAATAAAATA
1 AAAATAAAA-A
*
64442724 ATAAAT-AATA
1 A-AAATAAAAA
* *
64442734 AAAATTAAGA
1 AAAATAAAAA
*
64442744 AAAGTAAAAA
1 AAAATAAAAA
64442754 AAAATAAA
1 AAAATAAA
64442762 GGTTGGGTTG
Statistics
Matches: 67, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
9 4 0.06
10 49 0.73
11 3 0.04
12 11 0.16
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:64448155 original size:43 final size:43
Alignment explanation
Indices: 64448094--64448183 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
64448084 GGATTAACAA
* ** *
64448094 GATTATGTATGAGACCATGTCTGGGACATTGGCATCATTATAT
1 GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
* * *
64448137 GATTATGTGTAAGACCATGTCAAGGACATTGACATCGTTATTT
1 GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
64448180 GATT
1 GATT
64448184 TCGAGTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (43 bp):
GATTATGTATAAGACCATGTCAAGGACATTGACATCATTATAT
Found at i:64448197 original size:43 final size:43
Alignment explanation
Indices: 64448107--64448197 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
64448097 TATGTATGAG
** * * *
64448107 ACCATGTCTGGGACATTGGCATCATTATATGATTATGTGTAAG
1 ACCATGTCAAGGACATTGACATCATTATATGATTATGAGTAAA
* *
64448150 ACCATGTCAAGGACATTGACATCGTTATTTGATT-TCGAGTAAA
1 ACCATGTCAAGGACATTGACATCATTATATGATTAT-GAGTAAA
64448193 ACCAT
1 ACCAT
64448198 AGCTGGGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.03
43 39 0.98
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (43 bp):
ACCATGTCAAGGACATTGACATCATTATATGATTATGAGTAAA
Found at i:64450842 original size:6 final size:6
Alignment explanation
Indices: 64450831--64450878 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
64450821 GTCTTTATCC
* *
64450831 AAAATG AAAATG AAAATG AAAATA AAAATG AGAATGG AGAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAAA
64450879 CATTTGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 29 0.81
7 4 0.11
8 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:64450916 original size:57 final size:57
Alignment explanation
Indices: 64450849--64450978 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
64450839 AATGAAAATG
* * *
64450849 AAAATAAAAATGAGAATGGAGAAAT-GAAAACATTTGAAAATG-ATCATGGTTTTCTCC
1 AAAATGAAAATGAAAATGGAGAAATGGAAAA-ATTTGAAAATGAAT-ATGGTTTTCTAC
* *
64450906 AAAATGAAAATGAAAATGGAGAAATGGAATAATTTGGAAATGAATATGGTTTTCTAC
1 AAAATGAAAATGAAAATGGAGAAATGGAAAAATTTGAAAATGAATATGGTTTTCTAC
64450963 AAAATGAAAATGAAAA
1 AAAATGAAAATGAAAA
64450979 ATAAATTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 60 0.91
58 6 0.09
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.25
Consensus pattern (57 bp):
AAAATGAAAATGAAAATGGAGAAATGGAAAAATTTGAAAATGAATATGGTTTTCTAC
Found at i:64470579 original size:16 final size:16
Alignment explanation
Indices: 64470558--64470595 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
64470548 CGTTTGGTTC
64470558 GGTGTATTGGATTAGA
1 GGTGTATTGGATTAGA
64470574 GGTGTATTGGATTAGA
1 GGTGTATTGGATTAGA
64470590 GGTGTA
1 GGTGTA
64470596 ATAGCTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (16 bp):
GGTGTATTGGATTAGA
Found at i:64470660 original size:44 final size:45
Alignment explanation
Indices: 64470576--64470666 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
64470566 GGATTAGAGG
* * *
64470576 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
64470621 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
64470665 TG
1 TG
64470667 GAATAAATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:64470848 original size:16 final size:16
Alignment explanation
Indices: 64470811--64470865 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
64470801 TTAATCATAT
*
64470811 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
64470827 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
64470842 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
64470860 -TAAAAT
1 TTAAAAT
64470866 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:64470858 original size:18 final size:18
Alignment explanation
Indices: 64470817--64470865 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
64470807 ATATTTAAAC
64470817 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
64470835 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
64470851 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
64470866 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:64470961 original size:117 final size:118
Alignment explanation
Indices: 64470824--64471103 Score: 465
Period size: 117 Copynumber: 2.4 Consensus size: 118
64470814 AACATAATTA
64470824 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
*
64470889 TGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATTAACATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAA-ATAAT
* *
64470942 T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
1 TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
* *
64471006 TGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTTAAATAAT
66 TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
*
64471059 TAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 T--AATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
64471104 TAAAATAATT
Statistics
Matches: 151, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
117 107 0.71
118 5 0.03
120 39 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (118 bp):
TAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATA
TGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATATTAAATAAT
Found at i:64471087 original size:16 final size:17
Alignment explanation
Indices: 64471062--64471102 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
64471052 AAATAATTAA
64471062 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
64471077 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
64471095 AA-TAAAAT
1 AATTAAAAT
64471103 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:64477009 original size:17 final size:17
Alignment explanation
Indices: 64476983--64477047 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
64476973 TTGATTTTAT
*
64476983 TAAAAATATATAAAAGA
1 TAAAAGTATATAAAAGA
64477000 TAAAAGTATATTCATAATA-A
1 TAAAAGTATA-T-A-AA-AGA
*
64477020 TATAAA-TATAAAAAAGA
1 TA-AAAGTATATAAAAGA
64477037 TAAAAGTATAT
1 TAAAAGTATAT
64477048 TCATAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
16 4 0.11
17 18 0.47
18 2 0.05
19 1 0.03
20 9 0.24
21 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAAGTATATAAAAGA
Found at i:64477028 original size:37 final size:37
Alignment explanation
Indices: 64476986--64477061 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
64476976 ATTTTATTAA
*
64476986 AAATATATAAAAGATAAAAGTATATTCATAATAATAT
1 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
64477023 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
1 AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
64477060 AA
1 AA
64477062 CTTATTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (37 bp):
AAATATAAAAAAGATAAAAGTATATTCATAATAATAT
Found at i:64478060 original size:10 final size:10
Alignment explanation
Indices: 64478045--64478077 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
64478035 CTTTCTTTAT
*
64478045 TTTATTTTCC
1 TTTATTTTTC
64478055 TTTATTTTTC
1 TTTATTTTTC
64478065 TTTATTTTTC
1 TTTATTTTTC
64478075 TTT
1 TTT
64478078 CTTCGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:64478176 original size:21 final size:22
Alignment explanation
Indices: 64478129--64478181 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
64478119 TTTTTTTTCA
* *
64478129 TTTTCATTTTATTTTACCTTTT
1 TTTTCCTTTTATTTTACATTTT
*
64478151 GTTTCCTTTTATTTTA-ATTTT
1 TTTTCCTTTTATTTTACATTTT
64478172 TTTTCCTTTT
1 TTTTCCTTTT
64478182 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCCTTTTATTTTACATTTT
Found at i:64478192 original size:21 final size:20
Alignment explanation
Indices: 64478130--64478190 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
64478120 TTTTTTTCAT
*
64478130 TTTCATTTTATTTTACCTTTTG
1 TTTCCTTTTATTTTA--TTTTG
*
64478152 TTTCCTTTTATTTTAATTTTT
1 TTTCCTTTTATTTT-ATTTTG
*
64478173 TTTCCTTTT-TATTATTTT
1 TTTCCTTTTATTTTATTTT
64478191 TTCTTCTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.14
20 3 0.09
21 13 0.37
22 13 0.37
23 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCCTTTTATTTTATTTTG
Found at i:64481109 original size:3 final size:3
Alignment explanation
Indices: 64481101--64481143 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
64481091 GAGATTTTAA
64481101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
64481144 TACAAAACAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:64483227 original size:228 final size:226
Alignment explanation
Indices: 64482816--64483347 Score: 684
Period size: 228 Copynumber: 2.3 Consensus size: 226
64482806 ACTTCGCTGG
* * *
64482816 AACTTCAAAGAGATAAGACTTGGTAATTTCAAC--CT-CACTGCATCTTCAGGGAGATGAGGTTT
1 AACTTCAAGGAGAAAAGACTTGGTAATTTCAACTGCTCCACTGCATCTTCAGGGAGATAAGGTTT
* * *
64482878 GCGACTTCAATCTACTCCACTGCAACTTCAAGGAGTTAAGATTCACCATGGTAACTTGATCCGAC
66 GCGACTTCAATCTACTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTAACTTGATCCGAC
* * *
64482943 CTACTGCAACTTCAGAGGTATAGGATTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
131 CCACTGCAACTTCAGAGGTATAGAACTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
64483008 AAGATTTGCTATCTTCAGTCTATTCCACT-C
196 AAGATTTGCTATCTTCAGTCTATTCCACTAC
* * *
64483038 TAACTTCAAGGAGAAAAGGCTTGGTAATTTCGAACTGCTCCACTGTATCTTCAGGGAGATAATGT
1 -AACTTCAAGGAGAAAAGACTTGGTAATTTC-AACTGCTCCACTGCATCTTCAGGGAGATAAGGT
* * * ** *
64483103 TAATG-G-CTTTAATCTGCTATACTGCAACTTCAAAGAGATAAGATTTGCCATGGTAGATTTGAT
64 T--TGCGACTTCAATCTACTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTA-ACTTGAT
* * *
64483166 CTGACCCACTGTAACTTCAGAGGTATAGAACTTATAGCCTTAATCTGCTCTACTGCAACTTCAGA
126 CCGACCCACTGCAACTTCAGAGGTATAGAACTTATAGCCTTAATCTGCTCTACTACAACTTCAGA
64483231 GAGATAAGATTTGCTATCTTCAGTCTATTCCACTAC
191 GAGATAAGATTTGCTATCTTCAGTCTATTCCACTAC
* * * * *
64483267 AACTTCAGGGA-AATAAGACTT-GTATTTTTAACCTGCTCCACCGCAACTTCAGGGAGATAAGGT
1 AACTTCAAGGAGAA-AAGACTTGGTAATTTCAA-CTGCTCCACTGCATCTTCAGGGAGATAAGGT
*
64483330 TTGCTATTCTTCAATCTA
64 TTGCGA--CTTCAATCTA
64483348 TTTCGCTGCC
Statistics
Matches: 263, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
223 27 0.10
224 3 0.01
225 2 0.01
226 4 0.02
227 100 0.38
228 116 0.44
229 11 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (226 bp):
AACTTCAAGGAGAAAAGACTTGGTAATTTCAACTGCTCCACTGCATCTTCAGGGAGATAAGGTTT
GCGACTTCAATCTACTACACTGCAACTTCAAAGAGATAAGATTCACCATGGTAACTTGATCCGAC
CCACTGCAACTTCAGAGGTATAGAACTTATAGCCTTAATCTGCTCTACTACAACTTCAGAGAGAT
AAGATTTGCTATCTTCAGTCTATTCCACTAC
Found at i:64491704 original size:14 final size:14
Alignment explanation
Indices: 64491685--64491714 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64491675 ACTCTAATTC
*
64491685 AATTTCATTAGAAG
1 AATTTCACTAGAAG
64491699 AATTTCACTAGAAG
1 AATTTCACTAGAAG
64491713 AA
1 AA
64491715 AAATTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (14 bp):
AATTTCACTAGAAG
Found at i:64497544 original size:11 final size:11
Alignment explanation
Indices: 64497528--64497553 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64497518 TTGTAAACAA
64497528 AAATCAAAAAG
1 AAATCAAAAAG
64497539 AAATCAAAAAG
1 AAATCAAAAAG
64497550 AAAT
1 AAAT
64497554 TAAAGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.12
Consensus pattern (11 bp):
AAATCAAAAAG
Found at i:64499332 original size:19 final size:19
Alignment explanation
Indices: 64499305--64499360 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 19
64499295 ATATTGATAT
64499305 ATAATTTAATAAATATAAAA
1 ATAATTTAA-AAATATAAAA
*
64499325 AT-ATTTAAAGA-AT-AAA
1 ATAATTTAAAAATATAAAA
64499341 ATAATTT-AAAATATAAAA
1 ATAATTTAAAAATATAAAA
64499359 AT
1 AT
64499361 TCATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 7 0.23
19 6 0.19
20 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAATTTAAAAATATAAAA
Found at i:64499341 original size:17 final size:18
Alignment explanation
Indices: 64499305--64499360 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 18
64499295 ATATTGATAT
64499305 ATAATTTAATAAATATAAAA
1 ATAATTT-A-AAATATAAAA
64499325 AT-ATTTAAAGA-AT-AAA
1 ATAATTTAAA-ATATAAAA
64499341 ATAATTTAAAATATAAAA
1 ATAATTTAAAATATAAAA
64499359 AT
1 AT
64499361 TCATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 6 0.19
17 13 0.41
18 7 0.22
19 4 0.12
20 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAATTTAAAATATAAAA
Found at i:64499384 original size:17 final size:16
Alignment explanation
Indices: 64499315--64499385 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
64499305 ATAATTTAAT
64499315 AAATATAAAAATATTTA
1 AAATATAAAAAT-TTTA
*
64499332 AAGA-ATAAAATAATTTA
1 AA-ATATAAAA-ATTTTA
*
64499349 AAATATAAAAATTCATA
1 AAATATAAAAATT-TTA
*
64499366 AAATTTATAAAATTTTA
1 AAATATA-AAAATTTTA
64499383 AAA
1 AAA
64499386 ATTAATATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.07
17 33 0.75
18 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (16 bp):
AAATATAAAAATTTTA
Found at i:64502673 original size:77 final size:75
Alignment explanation
Indices: 64502548--64502701 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 75
64502538 TATTAATAAA
64502548 TATAAAGCTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAATTA
1 TATAAAGCTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAATTA
64502613 CTCTTAAGCC
66 CTCTTAAGCC
64502623 TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
1 TATAAAGC--TTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
64502688 TACTCTTAAGCC
64 TACTCTTAAGCC
64502700 TA
1 TA
64502702 ATTTTCTTTC
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
75 8 0.10
77 69 0.90
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (75 bp):
TATAAAGCTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAATTA
CTCTTAAGCC
Found at i:64508458 original size:16 final size:15
Alignment explanation
Indices: 64508422--64508457 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64508412 CAAAATCAAG
*
64508422 ATTTTTACAACATTT
1 ATTTTTACAACATTC
*
64508437 ATTTTTACAATATTC
1 ATTTTTACAACATTC
64508452 ATTTTT
1 ATTTTT
64508458 TTTTCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:64510326 original size:81 final size:81
Alignment explanation
Indices: 64510238--64510401 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
64510228 CTATTACTAT
64510238 CCTCCTCCTCTCATGCCTAACCCTAAGCTCATACCTAAAACTACCACAAATACAATTTAATTATT
1 CCTCCTCCTCTCATGCCTAACCCTAAGCTCATACCTAAAACTACCACAAATACAATTTAATTATT
64510303 TGCCAAATAAGTCAAA
66 TGCCAAATAAGTCAAA
64510319 CCTCCTCCTCTCATGCCTAACCCTAAGCTCATACCTAAAACTACCACAAATACAATTTAATTATT
1 CCTCCTCCTCTCATGCCTAACCCTAAGCTCATACCTAAAACTACCACAAATACAATTTAATTATT
*
64510384 TTCCAAATAAGTCAAA
66 TGCCAAATAAGTCAAA
64510400 CC
1 CC
64510402 CTTTTTTGTC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.37, C:0.32, G:0.04, T:0.27
Consensus pattern (81 bp):
CCTCCTCCTCTCATGCCTAACCCTAAGCTCATACCTAAAACTACCACAAATACAATTTAATTATT
TGCCAAATAAGTCAAA
Found at i:64514585 original size:95 final size:95
Alignment explanation
Indices: 64514446--64514771 Score: 447
Period size: 95 Copynumber: 3.4 Consensus size: 95
64514436 GCTTCGAAAT
* *
64514446 ATGAGAGC-CGTGTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
* * * * * *
64514510 ATGTTTGGAATATGACATTGGCAGCGATAA
66 ATGTCTGGGATATGACATCGACACCGATAG
* * * *
64514540 ATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
64514605 ATGTCTGGGATATGACATCGACACCGATAG
66 ATGTCTGGGATATGACATCGACACCGATAG
* * * * *
64514635 ATGAGAACTAGCGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTTAGCGTAAAACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
* *
64514700 ATGTCTGGGACATGGCATCGACACCGATAG
66 ATGTCTGGGATATGACATCGACACCGATAG
* * *
64514730 ATGAGAGCTAGTGTAAGACAATGTTTGGGACATGGCATCGGC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
64514772 CTCGACATAC
Statistics
Matches: 203, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
94 8 0.04
95 195 0.96
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (95 bp):
ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
ATGTCTGGGATATGACATCGACACCGATAG
Found at i:64514605 original size:45 final size:45
Alignment explanation
Indices: 64514407--64514721 Score: 209
Period size: 45 Copynumber: 6.7 Consensus size: 45
64514397 TGAGAGCTAA
* * * *
64514407 TGTAAGACCATGTCTGGGACATGGCAAC-AGCTTCGAAATATGAGAGCCG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CTT-G--ATATGTG-TCAG
* * *
64514456 TGTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* * * * * * ** * *
64514501 TGTAAGACCATGTTTGGAATATGACATTGGCAGCGATAAATGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT--ATGTG-TC-AG
* *
64514551 TGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* * ** * *
64514596 TGTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT--ATGTG-TC-AG
* * * *
64514646 CGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* *
64514691 CGTAAAACCATGTCTGGGACATGGCATCGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGAC
64514722 ACCGATAGAT
Statistics
Matches: 208, Mismatches: 47, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
45 87 0.42
46 13 0.06
47 8 0.04
48 9 0.04
49 36 0.17
50 55 0.26
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
Found at i:64514674 original size:50 final size:49
Alignment explanation
Indices: 64514502--64514769 Score: 201
Period size: 50 Copynumber: 5.6 Consensus size: 49
64514492 ATGTGTCAGT
* * * * * * * * *
64514502 GTAAGACCATGTTTGGAATATGACATTGGCAGCGATAAATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGA-CTAGC
* * ** * * *
64514552 GAAAGACCATGTCTGGGATATGGCATCGAC-TTGAT--ATGTGTC-AGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
* *
64514597 GTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAGC
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAG-ACTAGC
* * ** * *
64514647 GTAAGACCATGTCTAGGACATGGCATCGGC-TTGAT--ATGTG-TTAGC
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
* *
64514692 GTAAAACCATGTCTGGGACATGGCATCGACACCGATAGATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGA-CTAGC
* *
64514742 GTAAGACAATGTTTGGGACATGGCATCG
1 GTAAGACCATGTCTGGGACATGGCATCG
64514770 GCCTCGACAT
Statistics
Matches: 172, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
45 62 0.36
46 7 0.04
47 8 0.05
48 8 0.05
49 7 0.04
50 80 0.47
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATGAGACTAGC
Found at i:64514786 original size:50 final size:50
Alignment explanation
Indices: 64514700--64514821 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
64514690 GCGTAAAACC
* * * *
64514700 ATGTCTGGGACATGGCATCGACACCGATAGATGAGAG-CTAGTGTAAGACA
1 ATGTTTGGGACATGGCATCGACACCGACAGACGAGAGTC-AATGTAAGACA
* * *
64514750 ATGTTTGGGACATGGCATCGGC-CTCGACATACGAGAGTCAATGTAAGACC
1 ATGTTTGGGACATGGCATCGACAC-CGACAGACGAGAGTCAATGTAAGACA
*
64514800 ATGTTTGGGACATCGCATCGAC
1 ATGTTTGGGACATGGCATCGAC
64514822 TTTGATGGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 59 0.97
51 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGTTTGGGACATGGCATCGACACCGACAGACGAGAGTCAATGTAAGACA
Found at i:64514814 original size:190 final size:187
Alignment explanation
Indices: 64514457--64514809 Score: 436
Period size: 190 Copynumber: 1.8 Consensus size: 187
64514447 TGAGAGCCGT
* * * * *
64514457 GTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACCATGTTTGGAATA
1 GTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
* * * * * *
64514522 TGACATTGGCAGCGATAAATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGACTTGAT
66 TGACATCGACACCGATAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATCGACTCGAT
* * *
64514587 ATGTGTCAGTGTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAGC
131 AAGAGTCAATGTAAGACCATGTCTGGG--A-GACATCGACACCGATAGATGAGAACTAGC
* *
64514647 GTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTTAGCGTAAAACCATGTCTGGGACA
1 GTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
* * * * *
64514712 TGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACAATGTTTGGGACATGGCATCGGCCTCGA
66 TGACATCGACACCGATAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATC-GACTCG-
*
64514777 CATACGAGAGTCAATGTAAGACCATGTTTGGGA
129 -ATA--AGAGTCAATGTAAGACCATGTCTGGGA
64514810 CATCGCATCG
Statistics
Matches: 136, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
190 106 0.78
191 4 0.03
193 4 0.03
195 22 0.16
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (187 bp):
GTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
TGACATCGACACCGATAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATCGACTCGAT
AAGAGTCAATGTAAGACCATGTCTGGGAGACATCGACACCGATAGATGAGAACTAGC
Found at i:64519759 original size:39 final size:39
Alignment explanation
Indices: 64519703--64519976 Score: 485
Period size: 39 Copynumber: 7.0 Consensus size: 39
64519693 CAAGACACTA
64519703 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
64519742 GGAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
64519781 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
64519820 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGGTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
64519859 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
64519898 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
64519937 GAAATGTATTCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
64519976 G
1 G
64519977 TAATATAATT
Statistics
Matches: 226, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 226 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:64535613 original size:39 final size:39
Alignment explanation
Indices: 64535557--64535674 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
64535547 CAAGACACTA
*
64535557 GAAATGTATCCGGGCTAAAGTCCCGCAGGTTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
64535596 GGAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
64535635 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
64535674 G
1 G
64535675 TAATATAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:64548675 original size:32 final size:32
Alignment explanation
Indices: 64548629--64548690 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
64548619 CTTTGTTATT
*
64548629 TTTATAATTATATATACTGAATTTTTGAATGC
1 TTTAGAATTATATATACTGAATTTTTGAATGC
*
64548661 TTTAGAATTATATATATTGAATTTTTGAAT
1 TTTAGAATTATATATACTGAATTTTTGAAT
64548691 AATGCTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTAGAATTATATATACTGAATTTTTGAATGC
Found at i:64549012 original size:6 final size:6
Alignment explanation
Indices: 64548923--64549011 Score: 151
Period size: 6 Copynumber: 14.8 Consensus size: 6
64548913 TAAAATAAAT
* *
64548923 CTAATT CTAACA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA
1 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA
*
64548971 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATT CTAAT
1 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAAT
64549012 TATTGGATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (6 bp):
CTAATA
Found at i:64552553 original size:11 final size:11
Alignment explanation
Indices: 64552537--64552561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64552527 ATATCTAGAA
64552537 TTCTCTTCATT
1 TTCTCTTCATT
64552548 TTCTCTTCATT
1 TTCTCTTCATT
64552559 TTC
1 TTC
64552562 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:64553842 original size:25 final size:25
Alignment explanation
Indices: 64553813--64553864 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
64553803 AAGAATAATT
**
64553813 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
64553838 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
64553863 TG
1 TG
64553865 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:64556355 original size:76 final size:76
Alignment explanation
Indices: 64556265--64556427 Score: 299
Period size: 76 Copynumber: 2.1 Consensus size: 76
64556255 CCCCTTTGGT
* *
64556265 CTTGCACACATTTTACCATGGCTTTGTCATGATCACACACTTTATCATATTGCCATAGCTTAGCT
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
64556330 ATGGTCTTACA
66 ATGGTCTTACA
*
64556341 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTCTCACATTGCCATAGCTTAGCT
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
64556406 ATGGTCTTACA
66 ATGGTCTTACA
64556417 CTTGCACACAT
1 CTTGCACACAT
64556428 ATATAACTGT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 84 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (76 bp):
CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTAGCT
ATGGTCTTACA
Found at i:64556427 original size:37 final size:37
Alignment explanation
Indices: 64556313--64556427 Score: 131
Period size: 37 Copynumber: 3.1 Consensus size: 37
64556303 ACTTTATCAT
64556313 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
1 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
* * * * * ** * *
64556350 ATTTTACCATGGCTTTGCCATGATCACACACTTTCTCAC
1 A--TTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
64556389 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
1 ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
64556426 AT
1 AT
64556428 ATATAACTGT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
37 30 0.52
39 28 0.48
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (37 bp):
ATTGCCATAGCTTAGCTATGGTCTTACACTTGCACAC
Found at i:64558457 original size:16 final size:17
Alignment explanation
Indices: 64558412--64558458 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
64558402 AATTTATCCA
*
64558412 ATTATATTATATAATTTT
1 ATTAGATTA-ATAATTTT
*
64558430 A-TAGATTTATAATTTT
1 ATTAGATTAATAATTTT
64558446 ATTA-ATTAATAAT
1 ATTAGATTAATAAT
64558459 ATATTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 17 0.68
17 7 0.28
18 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTAGATTAATAATTTT
Found at i:64559178 original size:59 final size:60
Alignment explanation
Indices: 64559057--64559181 Score: 146
Period size: 59 Copynumber: 2.1 Consensus size: 60
64559047 ATTGAACATT
* * * * ***
64559057 AAAAAACTTTAGGTACCAAATTAAGAAAAAGTGTCAAATTTAAGTACTAAATTGGGCCAA
1 AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACTAAATTAAACCAA
* *
64559117 AAAAAAC-TAAGGTACCAAAGTAAGAAAAAGTCTCAAGTTTAAGCA-TCAAATTAAACTAA
1 AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACT-AAATTAAACCAA
64559176 AAAAAA
1 AAAAAA
64559182 GTTTAAACAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 47 0.85
60 7 0.13
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.22
Consensus pattern (60 bp):
AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACTAAATTAAACCAA
Found at i:64559707 original size:20 final size:20
Alignment explanation
Indices: 64559682--64559724 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
64559672 ATTAATATCG
64559682 TTAACTTTTAGATTAAAATA
1 TTAACTTTTAGATTAAAATA
*
64559702 TTAACTTTTCGATTAAAATA
1 TTAACTTTTAGATTAAAATA
64559722 TTA
1 TTA
64559725 TGTGATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAACTTTTAGATTAAAATA
Found at i:64571119 original size:12 final size:12
Alignment explanation
Indices: 64571102--64571132 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
64571092 AACATAAGGG
64571102 AAAAAGAAAGAA
1 AAAAAGAAAGAA
64571114 AAAAAGAAAGAA
1 AAAAAGAAAGAA
64571126 AGAAAAG
1 A-AAAAG
64571133 TTAAAAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:64574723 original size:23 final size:22
Alignment explanation
Indices: 64574691--64574733 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
64574681 TGCGTAGGAA
64574691 GTTTTCTGAAAAATCTGCATTTT
1 GTTTTCTGAAAAAT-TGCATTTT
* *
64574714 GTTTTTTGAAATATTGCATT
1 GTTTTCTGAAAAATTGCATT
64574734 GGCATAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (22 bp):
GTTTTCTGAAAAATTGCATTTT
Found at i:64577091 original size:4 final size:4
Alignment explanation
Indices: 64577082--64577118 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
64577072 CCTCCTTCGA
64577082 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
64577119 TTTTCTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Done.