Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 26 of 221
Found at i:7335153 original size:15 final size:17
Alignment explanation
Indices: 7335115--7335148 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7335105 TTTATTAACA
7335115 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
7335132 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
7335149 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:7335162 original size:16 final size:15
Alignment explanation
Indices: 7335115--7335162 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
7335105 TTTATTAACA
*
7335115 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
7335132 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
7335147 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
7335163 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:7335340 original size:39 final size:43
Alignment explanation
Indices: 7335295--7335402 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 43
7335285 TTTCCTTATG
* *
7335295 CTATTACACCTCTATTCCATT-C-AACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
7335335 C-ATTACGCCTCTATTCCATTACATTTAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTAC---TAACCAAACAAAAGAATTAC
7335380 CTATTACGCCTCTATTCCATTAC
1 CTATTACGCCTCTATTCCATTAC
7335403 AGCGAACCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
44 14 0.24
45 4 0.07
46 21 0.36
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.30
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
Found at i:7335396 original size:46 final size:44
Alignment explanation
Indices: 7335312--7335403 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
7335302 ACCTCTATTC
*
7335312 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
*
7335356 CATTTAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAA-TACC-ATTACGCCTCTATTCCATTA
7335402 CA
1 CA
7335404 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.41
45 4 0.09
46 22 0.50
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
Found at i:7338177 original size:23 final size:26
Alignment explanation
Indices: 7338118--7338170 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
7338108 TAATTAAAAG
*
7338118 ATTAAATAATAAATCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
7338144 ATTAAATAATAAACCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
7338170 A
1 A
7338171 AATAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTAAATAATAAACCTAATATATATT
Found at i:7340630 original size:43 final size:43
Alignment explanation
Indices: 7340553--7340672 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
7340543 CGTACAATGT
* ***
7340553 CAACGTCCCAGACGTGGTCTTACATGTGCTCACAAATCGACGC
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
* *
7340596 C-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCGATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCGACGC
* * **
7340639 CAACGTCCCAGATGTGGTCCTACACAAAAACACA
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACA
7340673 TATAAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 3 0.05
43 57 0.90
44 3 0.05
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
Found at i:7363579 original size:16 final size:16
Alignment explanation
Indices: 7363554--7363585 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7363544 GATTTGGGAG
*
7363554 ATTTTCTTTTTATTTT
1 ATTTTATTTTTATTTT
7363570 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
7363586 TTTCTGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:7365942 original size:17 final size:18
Alignment explanation
Indices: 7365917--7365954 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7365907 AATTCATTAA
7365917 TAAACAAAT-AATAAAAG
1 TAAACAAATAAATAAAAG
* *
7365934 TAAATAAATAAATAAGAG
1 TAAACAAATAAATAAAAG
7365952 TAA
1 TAA
7365955 TAATAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
TAAACAAATAAATAAAAG
Found at i:7365962 original size:9 final size:9
Alignment explanation
Indices: 7365944--7366061 Score: 64
Period size: 9 Copynumber: 13.2 Consensus size: 9
7365934 TAAATAAATA
*
7365944 AATAAGAGT
1 AATAATAGT
7365953 AATAATAGT
1 AATAATAGT
7365962 AATAATAATGGT
1 AATAAT-A--GT
* * *
7365974 AGTAAAAAT
1 AATAATAGT
*
7365983 AA-AATA-A
1 AATAATAGT
* *
7365990 AAAAATAAT
1 AATAATAGT
*
7365999 AGTAATAGT
1 AATAATAGT
*
7366008 AATAACAGT
1 AATAATAGT
7366017 AATAATAGT
1 AATAATAGT
* *
7366026 AACAA-AAT
1 AATAATAGT
*
7366034 AATAATAAT
1 AATAATAGT
*
7366043 AATAATAGG
1 AATAATAGT
7366052 AATAA-AGT
1 AATAATAGT
7366060 AA
1 AA
7366062 AATGCAAAGA
Statistics
Matches: 83, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
7 2 0.02
8 17 0.20
9 56 0.67
10 1 0.01
11 1 0.01
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (9 bp):
AATAATAGT
Found at i:7365967 original size:3 final size:3
Alignment explanation
Indices: 7365952--7366049 Score: 67
Period size: 3 Copynumber: 33.7 Consensus size: 3
7365942 TAAATAAGAG
* ** * * *
7365952 TAA TAA TAG TAA TAA TAA TGG TAG TAA AAA TAA -AA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
7365998 TAG TAA TAG TAA TAA CAG TAA TAA TAG TAA CAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7366045 TAA TA
1 TAA TA
7366050 GGAATAAAGT
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
2 6 0.08
3 66 0.92
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:7370349 original size:3 final size:3
Alignment explanation
Indices: 7370341--7370371 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7370331 TATAATGATA
7370341 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7370372 TTATAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7370740 original size:31 final size:29
Alignment explanation
Indices: 7370673--7370740 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7370663 TATTATTTGC
* *
7370673 CTAATTTTTCTGATTTTAAATATATTTTT
1 CTAATTTTTCTAATTTTAAAAATATTTTT
*
7370702 CTTATTTTT-TAATTATTAAAAATTATATTTT
1 CTAATTTTTCTAATT-TTAAAAA-TAT-TTTT
7370733 CTAATTTT
1 CTAATTTT
7370741 GAACTGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 14 0.44
30 3 0.09
31 11 0.34
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (29 bp):
CTAATTTTTCTAATTTTAAAAATATTTTT
Found at i:7380539 original size:8 final size:8
Alignment explanation
Indices: 7380528--7380552 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7380518 TGATGATAGA
7380528 TTATATGT
1 TTATATGT
7380536 TTATATGT
1 TTATATGT
7380544 TTATATGT
1 TTATATGT
7380552 T
1 T
7380553 CACTGAATGT
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TTATATGT
Found at i:7383695 original size:15 final size:15
Alignment explanation
Indices: 7383675--7383706 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7383665 AATTTCACTG
*
7383675 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
7383690 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
7383705 TT
1 TT
7383707 TGCATACATA
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:7388101 original size:17 final size:17
Alignment explanation
Indices: 7388066--7388101 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7388056 ATTATTTTAA
*
7388066 TAGTTTAATATTAAATT
1 TAGTTTAATACTAAATT
*
7388083 TAGTTTAATACTAATTT
1 TAGTTTAATACTAAATT
7388100 TA
1 TA
7388102 ATAGTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TAGTTTAATACTAAATT
Found at i:7388127 original size:25 final size:26
Alignment explanation
Indices: 7388094--7388147 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
7388084 AGTTTAATAC
* *
7388094 TAATTTTAATAGT-ATTTTATTAAT-T
1 TAATATTAA-AGTGATTATATTAATGT
7388119 TAATATTAAAGTGATTATATTAATGT
1 TAATATTAAAGTGATTATATTAATGT
7388145 TAA
1 TAA
7388148 ATTTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (26 bp):
TAATATTAAAGTGATTATATTAATGT
Found at i:7388135 original size:20 final size:18
Alignment explanation
Indices: 7388053--7388159 Score: 51
Period size: 20 Copynumber: 5.8 Consensus size: 18
7388043 TTCTAAAAAT
* *
7388053 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
*
7388072 AATATTAAATTTAGT-TT-
1 AATATT-AATTTAATATTA
* *
7388089 AATACTAATTTTAATAGTA
1 AATATTAA-TTTAATATTA
**
7388108 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
7388127 AAGTGATT-ATATTAATGTTA
1 AA-T-ATTAAT-TTAATATTA
7388147 AAT-TTAATTTAAT
1 AATATTAATTTAAT
7388160 GTTTATCATG
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.03
17 17 0.25
18 5 0.07
19 19 0.28
20 24 0.36
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:7388209 original size:61 final size:59
Alignment explanation
Indices: 7388138--7388253 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
7388128 AGTGATTATA
* * * * *
7388138 TTAATGTTAAATTTAATTTAATGTTTATCATGTGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TGATAAACATTATATTAATTTAATAAGAT
*
7388199 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
7388254 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 26 0.53
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:7391893 original size:20 final size:20
Alignment explanation
Indices: 7391870--7391917 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7391860 TGTACTTCGG
*
7391870 TGCCCCTGAATGCAAATTTA
1 TGCCCCTGAACGCAAATTTA
* * *
7391890 TGCCCCTAAACGCACATTTG
1 TGCCCCTGAACGCAAATTTA
7391910 TGCCCCTG
1 TGCCCCTG
7391918 TTCACACTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (20 bp):
TGCCCCTGAACGCAAATTTA
Found at i:7391932 original size:20 final size:20
Alignment explanation
Indices: 7391909--7391951 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7391899 ACGCACATTT
7391909 GTGCCCCTGT-TCACACTTCG
1 GTGCCCCTGTAT-ACACTTCG
*
7391929 GTGCCCTTGTATACACTTCG
1 GTGCCCCTGTATACACTTCG
7391949 GTG
1 GTG
7391952 TCCTTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGCCCCTGTATACACTTCG
Found at i:7391956 original size:20 final size:20
Alignment explanation
Indices: 7391921--7391958 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7391911 GCCCCTGTTC
7391921 ACACTTCGGTGCCCTTGTAT
1 ACACTTCGGTGCCCTTGTAT
*
7391941 ACACTTCGGTGTCCTTGT
1 ACACTTCGGTGCCCTTGT
7391959 TTGCACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.37
Consensus pattern (20 bp):
ACACTTCGGTGCCCTTGTAT
Found at i:7392706 original size:20 final size:20
Alignment explanation
Indices: 7392676--7392733 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
7392666 AAAGTATATT
*
7392676 TTGTAAAAAGTATAGATA-C
1 TTGTGAAAAGTATAGATACC
7392695 TTGGTGAAAAGTATAGATACC
1 TT-GTGAAAAGTATAGATACC
*
7392716 TTGTGTAAAGTATAGATA
1 TTGTGAAAAGTATAGATA
7392734 TCAAATTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGTGAAAAGTATAGATACC
Found at i:7399189 original size:29 final size:28
Alignment explanation
Indices: 7399155--7399230 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
7399145 AAGTTGTGGG
* *
7399155 TTTAGTCCCTATACTTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTAATTTGGTCA-A
*
7399184 TTTAGTCCCTGTACTTTTTAATTTGGTCAA
1 TTTAGTCCCTATAC--TTTAATTTGGTCAA
*
7399214 TTTAATCCCTATACTTT
1 TTTAGTCCCTATACTTT
7399231 TTAAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 13 0.32
30 12 0.30
31 12 0.30
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (28 bp):
TTTAGTCCCTATACTTTAATTTGGTCAA
Found at i:7399229 original size:30 final size:31
Alignment explanation
Indices: 7399155--7399234 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 31
7399145 AAGTTGTGGG
* *
7399155 TTTAGTCCCTATAC--TTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
7399184 TTTAGTCCCTGTACTTTTTAATTTGGTCA-A
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
7399214 TTTAATCCCTATACTTTTTAA
1 TTTAGTCCCTATACTTTTTAA
7399235 ATTTAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 13 0.30
30 19 0.43
31 12 0.27
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTTAATTTGGTCACA
Found at i:7399997 original size:23 final size:23
Alignment explanation
Indices: 7399953--7399998 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7399943 AGGACAAAAG
**
7399953 AAAACTCAAGTACCAATTTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
* *
7399976 AAAACTTAGGTACCAAGGTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
7399999 CTTGAAGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAACTCAAGTACCAAGGTGAAA
Found at i:7403060 original size:13 final size:13
Alignment explanation
Indices: 7403042--7403069 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7403032 ATTCTAAACA
7403042 AAATTTAGTATTT
1 AAATTTAGTATTT
7403055 AAATTTAGTATTT
1 AAATTTAGTATTT
7403068 AA
1 AA
7403070 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTTAGTATTT
Found at i:7404100 original size:23 final size:25
Alignment explanation
Indices: 7404063--7404112 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
7404053 TTATGAAAAT
*
7404063 TAAATCAAATCAAAATTTTA-TTTA
1 TAAATCAAATCAAAATTATAGTTTA
*
7404087 TAAATTAAA-CAAAATTATAGTTTA
1 TAAATCAAATCAAAATTATAGTTTA
7404111 TA
1 TA
7404113 TATAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCAAATCAAAATTATAGTTTA
Found at i:7409070 original size:68 final size:66
Alignment explanation
Indices: 7408961--7409154 Score: 227
Period size: 68 Copynumber: 2.9 Consensus size: 66
7408951 CGGAATCGAA
*
7408961 AGTCCTCCAGGACAATAAACATAAGATCATATTGTGTAAGACCATAACTGGGCTATGGCAACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAA-TGGGCTATGGCAACATA
7409026 TGG
64 TGG
* *
7409029 AGTCCGCTAGGACAATAAACATGAGATCATATTGTGTAAGACCAT-A--GGCTAT-GAAGACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAATGGGCTATGGCA-ACATA
7409090 TGG
64 TGG
* * * * *
7409093 AGTCTGCCAAGA-GATAAACATAGGATCACATTGTGTAAGACCATAGATGAGCTATGGCAACA
1 AGTCCGCCAGGACAATAAACATA-GATCATATTGTGTAAGACCATA-ATGGGCTATGGCAACA
7409155 AATGAAGTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 30 0.28
64 23 0.21
65 1 0.01
67 9 0.08
68 44 0.41
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (66 bp):
AGTCCGCCAGGACAATAAACATAGATCATATTGTGTAAGACCATAATGGGCTATGGCAACATATG
G
Found at i:7409482 original size:30 final size:30
Alignment explanation
Indices: 7409448--7409512 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
7409438 ACTTATTTTA
* *
7409448 TTGTTAATTTTGTTATTATTTTCA-AGGCAT
1 TTGTTAACTTTGTTATTATTTT-AGAGACAT
7409478 TTGTTAACTTTGTTATTATTTTAGAGACAT
1 TTGTTAACTTTGTTATTATTTTAGAGACAT
7409508 TTGTT
1 TTGTT
7409513 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAGACAT
Found at i:7410513 original size:25 final size:23
Alignment explanation
Indices: 7410485--7410541 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
7410475 ATCAAAAATA
7410485 CTAAAAATATCAAAATAAATATTT
1 CTAAAAATATCAAAATAAA-ATTT
*
7410509 CCTAACAAAT-TGAAAATAAAATTT
1 -CTAA-AAATATCAAAATAAAATTT
7410533 -TAAAAATAT
1 CTAAAAATAT
7410542 GGATACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
24 4 0.14
25 13 0.45
26 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
CTAAAAATATCAAAATAAAATTT
Found at i:7410618 original size:30 final size:30
Alignment explanation
Indices: 7410582--7410644 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
7410572 ACTTAACAAG
7410582 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
7410612 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
7410642 CAA
1 CAA
7410645 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:7411296 original size:69 final size:69
Alignment explanation
Indices: 7411217--7411354 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
7411207 AACTATCAAA
*
7411217 GAAAATTATTGTCTTTATTAGTTGTCTAGAAATCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
7411282 CACG
66 CACG
7411286 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
7411351 CACG
66 CACG
7411355 CTAAGCTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (69 bp):
GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
CACG
Found at i:7413378 original size:7 final size:7
Alignment explanation
Indices: 7413366--7413390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7413356 TGCTGCAAAT
7413366 TTTATTA
1 TTTATTA
7413373 TTTATTA
1 TTTATTA
7413380 TTTATTA
1 TTTATTA
7413387 TTTA
1 TTTA
7413391 CGATCTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:7415817 original size:5 final size:5
Alignment explanation
Indices: 7415807--7415832 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7415797 ATTTAGCATC
7415807 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
7415833 TTCATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:7420227 original size:227 final size:227
Alignment explanation
Indices: 7419832--7420289 Score: 907
Period size: 227 Copynumber: 2.0 Consensus size: 227
7419822 CCTCAAAAGT
7419832 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
*
7419897 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
7419962 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
7420027 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
7420059 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
7420124 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
7420189 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
7420254 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
7420286 GTTT
1 GTTT
7420290 GGTTAAATTT
Statistics
Matches: 230, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 230 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (227 bp):
GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
TACAGAAAGAGAAAACCAATCTATTAAGAGAA
Found at i:7424818 original size:14 final size:14
Alignment explanation
Indices: 7424799--7424839 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
7424789 TGAGAAGAGG
7424799 TTTTTTCTTTTTCTTT
1 TTTTTTC-TTTT-TTT
7424815 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
*
7424829 TTTTCTCTTTT
1 TTTTTTCTTTT
7424840 GCTTCCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.54
15 4 0.17
16 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:7424820 original size:16 final size:15
Alignment explanation
Indices: 7424799--7424832 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
7424789 TGAGAAGAGG
7424799 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTT-TTT
7424815 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
7424830 TTT
1 TTT
7424833 CTCTTTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTCTTTTTTTT
Found at i:7424825 original size:9 final size:10
Alignment explanation
Indices: 7424801--7424830 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
7424791 AGAAGAGGTT
7424801 TTTTCTTTTTC
1 TTTT-TTTTTC
7424812 TTTTTTTTTC
1 TTTTTTTTTC
7424822 TTTTTTTTT
1 TTTTTTTTT
7424831 TTCTCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:7424827 original size:12 final size:12
Alignment explanation
Indices: 7424799--7424839 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
7424789 TGAGAAGAGG
7424799 TTTTTTCTTTTTC
1 TTTTTT-TTTTTC
7424812 --TTTTTTTTTC
1 TTTTTTTTTTTC
7424822 TTTTTTTTTTTC
1 TTTTTTTTTTTC
7424834 TCTTTT
1 T-TTTT
7424840 GCTTCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 11 0.44
13 4 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:7424848 original size:24 final size:23
Alignment explanation
Indices: 7424799--7424849 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7424789 TGAGAAGAGG
* *
7424799 TTTTTTCTTTTTCTTTTTTTTTC
1 TTTTTTCTTTTTCTTTTTCTTCC
7424822 TTTTTT-TTTTTCTCTTTTGCTTCC
1 TTTTTTCTTTTTCT-TTTT-CTTCC
7424846 TTTT
1 TTTT
7424850 GACTGTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 10 0.42
24 7 0.29
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTCTTCC
Found at i:7425823 original size:21 final size:21
Alignment explanation
Indices: 7425794--7425833 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7425784 TTATTTGAAC
7425794 ACCTCCAAACACATCCTACTT
1 ACCTCCAAACACATCCTACTT
* * *
7425815 ACCTTCAAACTCCTCCTAC
1 ACCTCCAAACACATCCTAC
7425834 CCGTATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
ACCTCCAAACACATCCTACTT
Found at i:7434206 original size:21 final size:21
Alignment explanation
Indices: 7434180--7434219 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7434170 ACGATTGTTT
7434180 GTCGGGTTGACTCTTTTGCTC
1 GTCGGGTTGACTCTTTTGCTC
7434201 GTCGGGTTGACTCTTTTGC
1 GTCGGGTTGACTCTTTTGC
7434220 GTGTCCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.23, G:0.30, T:0.42
Consensus pattern (21 bp):
GTCGGGTTGACTCTTTTGCTC
Found at i:7438074 original size:15 final size:15
Alignment explanation
Indices: 7438049--7438083 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7438039 GACTCTATTT
*
7438049 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
7438063 TAATTAATATTAAGA
1 TAATTAATATTAAGA
7438078 TAATTA
1 TAATTA
7438084 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:7440610 original size:20 final size:18
Alignment explanation
Indices: 7440565--7440602 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7440555 ACTTAATGTT
7440565 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
7440583 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
7440601 AT
1 AT
7440603 TGTCATGTAT
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:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
ATATATGTGAATTATATA
Found at i:7440979 original size:25 final size:26
Alignment explanation
Indices: 7440888--7440980 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 26
7440878 GTCCCGTTAT
**
7440888 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
** * *
7440914 AAAGCTATTTGTGAGCTTCATGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
* *
7440940 ATGGCTC-AC-TAGAGCTTCTTGATTA
1 ATGGCTCTTCGT-GAGCTTCATGATTA
7440965 ATGGCTCTTCG-GAGCT
1 ATGGCTCTTCGTGAGCT
7440981 ACCCGTTATT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.49
26 25 0.49
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCATGATTA
Found at i:7442671 original size:16 final size:16
Alignment explanation
Indices: 7442649--7442717 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
7442639 TTTGGTTCGC
7442649 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7442665 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7442681 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
7442698 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7442714 TGTA
1 TGTA
7442718 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7442695 original size:33 final size:32
Alignment explanation
Indices: 7442649--7442717 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
7442639 TTTGGTTCGC
7442649 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
7442681 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
7442714 TGTA
1 TGTA
7442718 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:7442782 original size:44 final size:45
Alignment explanation
Indices: 7442698--7442788 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7442688 GGATTAGAGG
* * *
7442698 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
7442743 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
7442787 TG
1 TG
7442789 GAATAGAGGT
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:7443149 original size:120 final size:120
Alignment explanation
Indices: 7442936--7443403 Score: 902
Period size: 120 Copynumber: 3.9 Consensus size: 120
7442926 ATCATATTTA
*
7442936 AACATAATTATTATTAAATATATTTTAATTACAA-TATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTA-AACTATATAATTTAAAAAAATTCTTAATAATTA
7443000 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7443056 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
7443121 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7443176 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
7443241 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7443296 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
7443361 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
7443404 TGATGCTAGT
Statistics
Matches: 345, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 343 0.99
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:7450929 original size:20 final size:20
Alignment explanation
Indices: 7450878--7450929 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
7450868 TTCAATTATG
7450878 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
7450899 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAATCACTTTAAT
7450919 ATTAAATTAAT
1 ATTAAATTAAT
7450930 AAAATACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 5 0.18
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:7453740 original size:21 final size:21
Alignment explanation
Indices: 7453674--7453751 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
7453664 CTTGGGGCAA
* *
7453674 CTTCTTGGTGAGTTGATGTAG
1 CTTCTTGATGAGTTGAAGTAG
* * * *
7453695 CTTGTTGATGAGTTG-GGACAA
1 CTTCTTGATGAGTTGAAG-TAG
*
7453716 CTTCTTGGTGAGTTGAAGTAG
1 CTTCTTGATGAGTTGAAGTAG
*
7453737 CTTCTTAATGAGTTG
1 CTTCTTGATGAGTTG
7453752 GGGCAACCAC
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (21 bp):
CTTCTTGATGAGTTGAAGTAG
Found at i:7453766 original size:42 final size:42
Alignment explanation
Indices: 7453665--7453758 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
7453655 AGTTTTTCTC
* * *
7453665 TTGGGGCAACTTCTTGGTGAGTTGATGTAGCTTGTTGATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
*
7453707 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
7453749 TTGGGGCAAC
1 TTGGGGCAAC
7453759 CACTTGGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (42 bp):
TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
Found at i:7455868 original size:15 final size:15
Alignment explanation
Indices: 7455850--7455879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7455840 CTCTCAGAAT
7455850 TATCACTATCAGACA
1 TATCACTATCAGACA
*
7455865 TATCACTATTAGACA
1 TATCACTATCAGACA
7455880 CATTAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (15 bp):
TATCACTATCAGACA
Found at i:7456087 original size:44 final size:44
Alignment explanation
Indices: 7456034--7456235 Score: 176
Period size: 44 Copynumber: 4.8 Consensus size: 44
7456024 ACAAAAACAA
7456034 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * *
7456078 TTTAATACAAAGAAATCCA---TT-TC-TGC-TATG-TATA-A-
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * *
7456113 --TAA-CCAAACAAATTCGTTTATGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * * * * *
7456154 TTTAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAACAA
1 TTTAATACAAACAAATTCATTTTTGTCATGCAC-AT-GCCATACAC
7456200 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
7456236 GTAGACAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
32 9 0.08
33 3 0.03
35 1 0.01
36 3 0.03
37 6 0.05
38 6 0.05
39 6 0.05
40 3 0.03
41 2 0.02
43 3 0.03
44 39 0.32
45 4 0.03
46 35 0.29
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (44 bp):
TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
Found at i:7456137 original size:76 final size:76
Alignment explanation
Indices: 7456041--7456199 Score: 266
Period size: 76 Copynumber: 2.1 Consensus size: 76
7456031 CAATTTAATA
* *
7456041 CAAACAAATTCATTTTTGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTCTG-CT
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTC-
*
7456105 ATGTATAATAAC
65 ATGTACAATAAC
*
7456117 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
7456182 TGTACAATAAC
66 TGTACAATAAC
7456193 CAAACAA
1 CAAACAA
7456200 TTTAATACAA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 77 0.99
77 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (76 bp):
CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
TGTACAATAAC
Found at i:7456221 original size:46 final size:44
Alignment explanation
Indices: 7456117--7456234 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
7456107 GTATAATAAC
* * * *
7456117 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATA
1 CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
* * *
7456161 CAAAGAAATCCATTTATGTCATGTACAATAACCAAACAATTTAATA
1 CAAACAAATTCATTTATGTCATGCAC-AT-ACCAAACAATTTAATA
*
7456207 CAAACAAATTCATTTTTGTCATGCACAT
1 CAAACAAATTCATTTATGTCATGCACAT
7456235 GGTAGACAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 22 0.36
45 4 0.07
46 35 0.57
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (44 bp):
CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
Found at i:7456640 original size:11 final size:11
Alignment explanation
Indices: 7456624--7456659 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
7456614 CATACACAAT
7456624 TTTGAATCATA
1 TTTGAATCATA
7456635 TTTGAATCATA
1 TTTGAATCATA
7456646 TGTTTGAATCATA
1 --TTTGAATCATA
7456659 T
1 T
7456660 GTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (11 bp):
TTTGAATCATA
Found at i:7456653 original size:13 final size:13
Alignment explanation
Indices: 7456624--7456661 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
7456614 CATACACAAT
7456624 TTTGAATCATA--
1 TTTGAATCATATG
7456635 TTTGAATCATATG
1 TTTGAATCATATG
7456648 TTTGAATCATATG
1 TTTGAATCATATG
7456661 T
1 T
7456662 AACCTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (13 bp):
TTTGAATCATATG
Found at i:7459474 original size:18 final size:18
Alignment explanation
Indices: 7459443--7459487 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7459433 ATTCCCACTC
7459443 ATAATAATAATAATACTA
1 ATAATAATAATAATACTA
* *
7459461 ATAATTATATTAATACTA
1 ATAATAATAATAATACTA
*
7459479 ATATTAATA
1 ATAATAATA
7459488 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAATACTA
Found at i:7459489 original size:12 final size:12
Alignment explanation
Indices: 7459447--7459487 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
7459437 CCACTCATAA
*
7459447 TAATAATAATAC
1 TAATAATAATAT
*
7459459 TAATAATTATAT
1 TAATAATAATAT
*
7459471 TAATACTAATAT
1 TAATAATAATAT
7459483 TAATA
1 TAATA
7459488 CTTACTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:7460254 original size:19 final size:19
Alignment explanation
Indices: 7460209--7460248 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7460199 TTTGTTTTGT
*
7460209 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTA
7460227 TTTTATTTACTTTACTTTA
1 TTTTATTTACTTTACTTTA
7460246 TTT
1 TTT
7460249 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTA
Found at i:7460408 original size:5 final size:5
Alignment explanation
Indices: 7460400--7460454 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
7460390 TATTTAATTT
* *
7460400 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
7460449 ATATA A
1 ATATA A
7460455 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:7460429 original size:27 final size:25
Alignment explanation
Indices: 7460398--7460450 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
7460388 TCTATTTAAT
7460398 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
7460425 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
7460450 T
1 T
7460451 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:7461875 original size:38 final size:36
Alignment explanation
Indices: 7461779--7461880 Score: 96
Period size: 39 Copynumber: 2.7 Consensus size: 36
7461769 GCCCCGACCC
** *
7461779 CAATTATATATTAAATATATATATTTTTATTTTTAAT
1 CAATTATATATTAAATATATAT-TTTAGACTTTTAAT
* * *
7461816 CAAATATACTTTTTATTATATATATTTTAGACTTTTAATT
1 CAATTATA--TATTA-AATATATATTTTAGACTTTTAA-T
7461856 CGAATTATATATTAAATATATATTT
1 C-AATTATATATTAAATATATATTT
7461881 ATTTTTAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
37 7 0.14
38 10 0.20
39 18 0.35
40 10 0.20
41 6 0.12
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (36 bp):
CAATTATATATTAAATATATATTTTAGACTTTTAAT
Found at i:7475518 original size:26 final size:25
Alignment explanation
Indices: 7475486--7475538 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
7475476 AATATGATTT
*
7475486 AATAAATTGTATATTTATTGTATAAA
1 AATAAATTGTATATTTATT-CATAAA
*
7475512 AATAAATTTTATATTTATTCATAAA
1 AATAAATTGTATATTTATTCATAAA
7475537 AA
1 AA
7475539 ATATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AATAAATTGTATATTTATTCATAAA
Found at i:7475920 original size:3 final size:3
Alignment explanation
Indices: 7475912--7475949 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7475902 TAGTTTACCC
7475912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7475950 CACACTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7476145 original size:22 final size:22
Alignment explanation
Indices: 7476120--7476166 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7476110 TTTTTCTTCC
*
7476120 GTGCGATGCATGGGTTTATCGT
1 GTGCGATGCATGAGTTTATCGT
7476142 GTGCGATGCATGAGTTTATCGT
1 GTGCGATGCATGAGTTTATCGT
7476164 GTG
1 GTG
7476167 TATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.36
Consensus pattern (22 bp):
GTGCGATGCATGAGTTTATCGT
Found at i:7479914 original size:26 final size:27
Alignment explanation
Indices: 7479866--7479917 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7479856 CGTTTTGAGC
7479866 ACTTTTTTTTGTTTTTATGTTCTTTAA
1 ACTTTTTTTTGTTTTTATGTTCTTTAA
*
7479893 ACTTTCTTTTT-TTTTTCT-TTCTTTA
1 ACTTT-TTTTTGTTTTTATGTTCTTTA
7479918 TTTTCCGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 11 0.48
28 5 0.22
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (27 bp):
ACTTTTTTTTGTTTTTATGTTCTTTAA
Found at i:7488290 original size:9 final size:9
Alignment explanation
Indices: 7488276--7488360 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
7488266 TTTGGTTAAA
*
7488276 AATTAACTG
1 AATTAACCG
7488285 AATTAACCG
1 AATTAACCG
*
7488294 AATTACCCG
1 AATTAACCG
7488303 AATTAACCG
1 AATTAACCG
7488312 AATTAACCG
1 AATTAACCG
* *
7488321 GATT-ACCTT
1 AATTAACC-G
7488330 AATTAACCG
1 AATTAACCG
*
7488339 AATTACCCG
1 AATTAACCG
7488348 AATTAACCG
1 AATTAACCG
7488357 AATT
1 AATT
7488361 GAATCACTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
8 3 0.05
9 59 0.91
10 3 0.05
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:7488411 original size:6 final size:6
Alignment explanation
Indices: 7488400--7488428 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7488390 ACTTTTAGAC
7488400 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
7488429 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:7488452 original size:20 final size:20
Alignment explanation
Indices: 7488384--7488441 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
7488374 ATTAAATTAT
* *
7488384 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
7488405 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
7488423 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
7488442 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 10 0.30
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:7492631 original size:18 final size:18
Alignment explanation
Indices: 7492605--7492639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7492595 ACATAAGAAT
*
7492605 ATATGTATGTATATGAAA
1 ATATATATGTATATGAAA
*
7492623 ATATATATGTATGTGAA
1 ATATATATGTATATGAA
7492640 TTATAAAATA
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:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
ATATATATGTATATGAAA
Found at i:7492694 original size:23 final size:22
Alignment explanation
Indices: 7492668--7492710 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7492658 CAAAATAAAA
*
7492668 TAATATAGATAATATACATATTT
1 TAATATAGATAA-AAACATATTT
*
7492691 TAATATATATAAAAACATAT
1 TAATATAGATAAAAACATAT
7492711 ATAGATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATATAGATAAAAACATATTT
Found at i:7492871 original size:3 final size:3
Alignment explanation
Indices: 7492837--7492918 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
7492827 TTATAAAAAC
* ** * * * *
7492837 ATA ACA ATA ATA ACC ATA ATA TTA AAA ATA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
7492885 A-A GATA ATA ATA ATA ATA ATA AAA GATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
7492919 CATTAAGATA
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:7495283 original size:25 final size:24
Alignment explanation
Indices: 7495255--7495302 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
7495245 ATCTGGGCAA
7495255 TATAACGAGAAGCTCACAAAGAGCC
1 TATAACGAGAAGCTC-CAAAGAGCC
*
7495280 TATAACGAGTAGCTCCAAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
7495303 AATTAACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCC
Found at i:7495309 original size:24 final size:26
Alignment explanation
Indices: 7495251--7495316 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 26
7495241 GCTTATCTGG
*
7495251 GCAATATAACGAGAAGCTCACAAAGA
1 GCAATATAACGAGTAGCTCACAAAGA
*
7495277 GC-CTATAACGAGTAGCTC-CAAAGA
1 GCAATATAACGAGTAGCTCACAAAGA
*
7495301 GCAAT-TAACGGGTAGC
1 GCAATATAACGAGTAGC
7495317 ACCGGATAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 18 0.51
25 15 0.43
26 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAATATAACGAGTAGCTCACAAAGA
Found at i:7500271 original size:16 final size:16
Alignment explanation
Indices: 7500250--7500280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7500240 GGTATTTTGA
*
7500250 TTTTTTGTTTTTGTTT
1 TTTTTTGTTGTTGTTT
7500266 TTTTTTGTTGTTGTT
1 TTTTTTGTTGTTGTT
7500281 GGAAGCCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTGTTGTTGTTT
Found at i:7500401 original size:3 final size:3
Alignment explanation
Indices: 7500388--7500417 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7500378 CCTCATGCAA
7500388 CAT CA- CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
7500418 TGCAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:7506633 original size:31 final size:30
Alignment explanation
Indices: 7506571--7506642 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
7506561 TTAGACATCT
*
7506571 TTTAGATAATAATATTTAATTTAAATTTAAA
1 TTTAAATAATAATATTTAA-TTAAATTTAAA
7506602 TTTAAATAATAATATTTAGA-TAAATTATAAA
1 TTTAAATAATAATATTTA-ATTAAATT-TAAA
*
7506633 TAATAAATAA
1 T-TTAAATAA
7506643 GTTGTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 6 0.17
31 22 0.61
32 8 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAAATAATAATATTTAATTAAATTTAAA
Found at i:7507228 original size:18 final size:18
Alignment explanation
Indices: 7507205--7507239 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7507195 TTACATATAA
7507205 AAATAATAATGACATTTG
1 AAATAATAATGACATTTG
* *
7507223 AAATAATTATTACATTT
1 AAATAATAATGACATTT
7507240 TATAATTTTA
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:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAATAATGACATTTG
Found at i:7508231 original size:5 final size:5
Alignment explanation
Indices: 7508223--7508252 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
7508213 TAAATTATAT
7508223 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
7508253 AGCCTCTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:7508325 original size:46 final size:47
Alignment explanation
Indices: 7508260--7508355 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 47
7508250 AAAAGCCTCT
* * *
7508260 ACCACCCCGTACCCATCCCTCTCCTCCTCC-CCACTGGAGCTCCCCC
1 ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
* *
7508306 ACCACCCTGT-CCCTATCCCTCTCCCCCTCCTCCACCGGACCTCCCGC
1 ACCACCCCGTACCC-ATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
7508353 ACC
1 ACC
7508356 TCCGTCCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 3 0.07
46 24 0.56
47 16 0.37
ACGTcount: A:0.12, C:0.61, G:0.08, T:0.18
Consensus pattern (47 bp):
ACCACCCCGTACCCATCCCTCTCCCCCTCCTCCACCGGACCTCCCCC
Found at i:7519740 original size:17 final size:19
Alignment explanation
Indices: 7519705--7519746 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
7519695 GTAATAATAA
7519705 TATTTA-ATATCAAATTTT
1 TATTTATATATCAAATTTT
7519723 TATTTATATAT-AAATTTT
1 TATTTATATATCAAATTTT
7519741 T-TTTAT
1 TATTTAT
7519747 TATTCTGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 14 0.61
19 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATATCAAATTTT
Found at i:7521184 original size:56 final size:55
Alignment explanation
Indices: 7521098--7521207 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 55
7521088 GTATCCATTG
*
7521098 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
7521154 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
7521208 TTTTATAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 8 0.15
56 45 0.85
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:7527106 original size:3 final size:3
Alignment explanation
Indices: 7527098--7527142 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
7527088 TCACATTTTA
* * * *
7527098 TAT TAT TAT TAC TAT TAT TAT TAT TGT TAG TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7527143 ATATCAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7528697 original size:56 final size:55
Alignment explanation
Indices: 7528630--7528737 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
7528620 GTATCCATTG
* * *
7528630 GATGATAAATCATCACTTTTAATTTGAACAGTGTTTATGAATAATTAAATTTGTAA
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATT-AATTTGTAA
*
7528686 GATGATAAATCACCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTG
7528738 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCACCACTTTTAATTTGAACAGTGCTCATGAATAATTAATTTGTAA
Found at i:7532517 original size:124 final size:124
Alignment explanation
Indices: 7532216--7532518 Score: 409
Period size: 124 Copynumber: 2.5 Consensus size: 124
7532206 TTTGAAGTGT
* * *
7532216 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATACA---AAAAAAAGGGGTGA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
* * * *
7532278 TATGTAAGTAAAGGATTAAAGTAAATAATGTAAATTTTGTTTTGAAGTGTTTCAAAAAA
66 AATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
* ** * ** *
7532337 TTGGAAAACTGTGATAGAATCTTTTGGTACAATCATTTAACAAATGTAGGGGAAAAAAGGGCTAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
* *
7532402 AATGTAAGTAAATGG-CTAAAGTAAACT-GTGTAAATTTTGTTTTGAAATATTTGAAAAAA
66 AATGTAAGTAAA-GGACTAAAGTAAA-TAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
7532461 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAA
1 TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAA
7532519 TTGAGTATGA
Statistics
Matches: 155, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
121 42 0.27
124 110 0.71
125 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (124 bp):
TTGAAAAACTACGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGGAAAAAAAGGGCTAA
AATGTAAGTAAAGGACTAAAGTAAATAATGTAAATTTTGTTTTGAAATATTTCAAAAAA
Found at i:7533428 original size:19 final size:17
Alignment explanation
Indices: 7533389--7533428 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
7533379 TGTGAAGCAA
7533389 AGGAGGAAAGAAAAATT
1 AGGAGGAAAGAAAAATT
7533406 -GGAGGAAAGAATAAGATT
1 AGGAGGAAAGAA-AA-ATT
7533424 AGGAG
1 AGGAG
7533429 ATCATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 3 0.15
19 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (17 bp):
AGGAGGAAAGAAAAATT
Found at i:7538740 original size:24 final size:23
Alignment explanation
Indices: 7538678--7538746 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
7538668 AAAGAGTGTC
* *
7538678 CCGTTATTAGCTCTCATGAGCTT
1 CCGTTAATAGCTCTTATGAGCTT
* * *
7538701 CCGTTATATGGTTCTTGTGAGCTT
1 CCGTTA-ATAGCTCTTATGAGCTT
*
7538725 CCTGTTAATAGCTCTTTTGAGC
1 CC-GTTAATAGCTCTTATGAGC
7538747 ATCCCGATTG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 6 0.17
24 26 0.72
25 4 0.11
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (23 bp):
CCGTTAATAGCTCTTATGAGCTT
Found at i:7542631 original size:36 final size:37
Alignment explanation
Indices: 7542581--7542672 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
7542571 GTCTCCAAAT
* * *
7542581 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCGATTCAATTTCACTTTTCCACTTTCAAG
* *
7542617 TCACAATTCGATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCGATTC-AATTTCACTTTTCCACTTTCAAG
*
7542655 TCA-ATAATCGATTCAATT
1 TCACA-ATTCGATTCAATT
7542673 CCACACATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
36 12 0.26
37 23 0.50
38 11 0.24
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (37 bp):
TCACAATTCGATTCAATTTCACTTTTCCACTTTCAAG
Found at i:7543568 original size:25 final size:25
Alignment explanation
Indices: 7543534--7543583 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7543524 CATTTGTTAC
*
7543534 AATTCAATTTATTTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
*
7543559 AATTTAATTTAATTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
7543584 TTTTAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTCAATTTAATTTATAATATAAT
Found at i:7548611 original size:24 final size:24
Alignment explanation
Indices: 7548530--7548612 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
7548520 CAGCTTGAAA
* *
7548530 GAGCATCCCGTTATTAGCTCTCAT-
1 GAGCATCCCGTTAATAGCTCT-TTG
* * *
7548554 GAGCTTCCCGTTATATGGTTC-TTG
1 GAGCATCCCGTTA-ATAGCTCTTTG
* *
7548578 TAAGCTTCCCGTTAATAGCTCTTTG
1 -GAGCATCCCGTTAATAGCTCTTTG
7548603 GAGCATCCCG
1 GAGCATCCCG
7548613 ATTGGTTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 25 0.56
25 19 0.42
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTAATAGCTCTTTG
Found at i:7548703 original size:25 final size:27
Alignment explanation
Indices: 7548675--7548725 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7548665 CCCGATATAT
7548675 GGCTC-TTCA-GAGCTTC-CTGATTAAA
1 GGCTCTTTCATGAGCTTCTC-GATTAAA
7548700 GGCTCTTTCATGAGCTTCTCGATTAA
1 GGCTCTTTCATGAGCTTCTCGATTAA
7548726 TTGGCTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 13 0.57
28 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
GGCTCTTTCATGAGCTTCTCGATTAAA
Found at i:7548756 original size:24 final size:24
Alignment explanation
Indices: 7548711--7548816 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
7548701 GCTCTTTCAT
7548711 GAGCTTCTCGATTAATTGGCTCTCTG
1 GAGCTTCTCGA-T-ATTGGCTCTCTG
* *
7548737 GAGCTTCTTGATATTGGCTCACTTG
1 GAGCTTCTCGATATTGGCTCTC-TG
* * * *
7548762 AACCTTCCCGATATTGGCTCGTAT-
1 GAGCTTCTCGATATTGGCTC-TCTG
* *
7548786 GAGCTTCTCGTTAATGGCTCTCTG
1 GAGCTTCTCGATATTGGCTCTCTG
*
7548810 GAACTTC
1 GAGCTTC
7548817 CCGTTACATG
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.03
24 30 0.48
25 20 0.32
26 10 0.16
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCTCTG
Found at i:7548821 original size:24 final size:24
Alignment explanation
Indices: 7548722--7548830 Score: 67
Period size: 24 Copynumber: 4.4 Consensus size: 24
7548712 AGCTTCTCGA
* **
7548722 TTAATTGGCTCTCTGGAGCTTCTTG
1 TTAA-TGGCTCTCTGGAACTTCCCG
* * * *
7548747 ATATTGGCTCACTTGAACCTTCCCG
1 TTAATGGCTCTCTGGAA-CTTCCCG
* * * * *
7548772 ATATTGGCTCGTAT-GAGCTTCTCG
1 TTAATGGCTC-TCTGGAACTTCCCG
7548796 TTAATGGCTCTCTGGAACTTCCCG
1 TTAATGGCTCTCTGGAACTTCCCG
7548820 TTACATGGCTC
1 TTA-ATGGCTC
7548831 ACATGAGCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.03
24 35 0.55
25 26 0.41
26 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.37
Consensus pattern (24 bp):
TTAATGGCTCTCTGGAACTTCCCG
Found at i:7548841 original size:25 final size:24
Alignment explanation
Indices: 7548751--7548870 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 24
7548741 TTCTTGATAT
* * * *
7548751 TGGCTCACTTGAACCTTCCCGATAT
1 TGGCTCACATG-AGCTTCCCGTTAA
** *
7548776 TGGCTCGTATGAGCTTCTCGTTAA
1 TGGCTCACATGAGCTTCCCGTTAA
* *
7548800 TGGCTCTC-TGGAACTTCCCGTTACA
1 TGGCTCACAT-GAGCTTCCCGTTA-A
*
7548825 TGGCTCACATGAGCTTCCTGTTTATA
1 TGGCTCACATGAGCTTCCCG-TTA-A
7548851 T-GCTCACATGAGCATTCCCG
1 TGGCTCACATGAGC-TTCCCG
7548871 AATATGAATT
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.01
24 26 0.35
25 36 0.49
26 11 0.15
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.33
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:7552850 original size:3 final size:3
Alignment explanation
Indices: 7552842--7552870 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7552832 CTTATATGAA
7552842 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7552871 ATCAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7562595 original size:16 final size:16
Alignment explanation
Indices: 7562574--7562608 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7562564 CCCTATTTTT
7562574 CCCTATATTATAATCA
1 CCCTATATTATAATCA
7562590 CCCTATATTATAATCA
1 CCCTATATTATAATCA
7562606 CCC
1 CCC
7562609 CATTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (16 bp):
CCCTATATTATAATCA
Found at i:7564715 original size:42 final size:42
Alignment explanation
Indices: 7564647--7564790 Score: 152
Period size: 42 Copynumber: 3.4 Consensus size: 42
7564637 AGCTCTCACA
*
7564647 AGCTTCTGTTTAA-C-TCATGTGAGTTTCCGTTCAGCTCTATTG
1 AGCTTCTGTTTAACCTTTATG-G-GTTTCCGTTCAGCTCTATTG
* *
7564689 AGCTTCTGTTTAACCTTTATGGGTTTCCATTCAGCTCT-TACG
1 AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCTAT-TG
* * * *
7564731 AGCTTCTATTCAACCTTTATGGGTTTCTGTTTAGCTCTCA-TG
1 AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCT-ATTG
*
7564773 AGCTTCTGTTTACCCTTT
1 AGCTTCTGTTTAACCTTT
7564791 GGGCTTCTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 78 0.92
43 2 0.02
44 4 0.05
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
AGCTTCTGTTTAACCTTTATGGGTTTCCGTTCAGCTCTATTG
Found at i:7564758 original size:21 final size:21
Alignment explanation
Indices: 7564700--7564758 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
7564690 GCTTCTGTTT
*
7564700 AACCTTTATGGGTTTCCATTC
1 AACCTTTATGGGTTTCTATTC
* * * *
7564721 -AGCTCTTACGAGCTTCTATTC
1 AACCT-TTATGGGTTTCTATTC
7564742 AACCTTTATGGGTTTCT
1 AACCTTTATGGGTTTCT
7564759 GTTTAGCTCT
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (21 bp):
AACCTTTATGGGTTTCTATTC
Found at i:7572823 original size:13 final size:14
Alignment explanation
Indices: 7572804--7572841 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7572794 CAATGGCATA
7572804 GAAATAATATAAAC
1 GAAATAATATAAAC
7572818 -AAATAA-ATAAAC
1 GAAATAATATAAAC
7572830 GAAATGAATATA
1 GAAAT-AATATA
7572842 TATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:7574749 original size:19 final size:19
Alignment explanation
Indices: 7574725--7574762 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7574715 TTTTCTTATT
7574725 AAGGGCCGGGTAAAATTTA
1 AAGGGCCGGGTAAAATTTA
*
7574744 AAGGGCCGGGTTAAATTTA
1 AAGGGCCGGGTAAAATTTA
7574763 GGTATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.24
Consensus pattern (19 bp):
AAGGGCCGGGTAAAATTTA
Found at i:7577373 original size:19 final size:20
Alignment explanation
Indices: 7577338--7577376 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7577328 CTATCTTTCA
7577338 AATTTTATAATTTTGCTCAG
1 AATTTTATAATTTTGCTCAG
*
7577358 AATTTTATGA-TTTGCTCAG
1 AATTTTATAATTTTGCTCAG
7577377 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTATAATTTTGCTCAG
Found at i:7577470 original size:80 final size:80
Alignment explanation
Indices: 7577383--7577542 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
7577373 TCAGTTTAGT
*
7577383 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCTGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
7577448 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
*
7577463 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
1 CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
7577528 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
7577543 ATGATCTGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (80 bp):
CCCTAAATGATTCTTAAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
ATAATGTTATAAGTC
Found at i:7582067 original size:32 final size:33
Alignment explanation
Indices: 7582031--7582098 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
7582021 TGAACATTAC
* *
7582031 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
* *
7582063 AA-TTTGAGGTTGATCTTATTTTTGCATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
7582095 AATT
1 AATT
7582099 CGGGTCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.83
33 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:7585866 original size:47 final size:47
Alignment explanation
Indices: 7585797--7585894 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
7585787 GAATCAGTTT
7585797 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
7585844 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
1 TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
7585891 TGGA
1 TGGA
7585895 GCCAATGCAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (47 bp):
TGGAAAAGAATGAAAAAATTTTAGAGTATTGATATCTCTCACATACA
Found at i:7592397 original size:12 final size:12
Alignment explanation
Indices: 7592380--7592404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7592370 TCCCCCACGC
7592380 TTCTTCTTCTTG
1 TTCTTCTTCTTG
7592392 TTCTTCTTCTTG
1 TTCTTCTTCTTG
7592404 T
1 T
7592405 CTTTTGCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (12 bp):
TTCTTCTTCTTG
Found at i:7593074 original size:29 final size:30
Alignment explanation
Indices: 7593033--7593095 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
7593023 AATTGAACCT
7593033 AATTTTTAAAATAAAAAAATATAA-GCACTA
1 AATTTTTAAAATAAAAAAATA-AATGCACTA
* * *
7593063 AATTTTT-GAATATAAAAATAAATGGACTA
1 AATTTTTAAAATAAAAAAATAAATGCACTA
7593092 AATT
1 AATT
7593096 CTAAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (30 bp):
AATTTTTAAAATAAAAAAATAAATGCACTA
Found at i:7593981 original size:15 final size:15
Alignment explanation
Indices: 7593972--7594004 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7593962 CAAATGCTAT
7593972 AATAATAAATACAAC
1 AATAATAAATACAAC
*
7593987 AATAATAAATACATC
1 AATAATAAATACAAC
7594002 AAT
1 AAT
7594005 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:7596229 original size:44 final size:43
Alignment explanation
Indices: 7596132--7596759 Score: 394
Period size: 44 Copynumber: 14.7 Consensus size: 43
7596122 CTAGGGTCTA
* * ***
7596132 CTCCACTGCAACTTCAGGGAGATAAGACT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * *
7596173 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * * * *
7596216 CTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * ***
7596260 CTCCACTGCAACTTCAGGGAGATGAGATT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * * ** * *
7596301 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * **
7596344 CTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * * *
7596388 TTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAG--GT-TTTAATCTG
* *
7596433 C-CTCACTGCAACTTCA-GGAGGATAAGACTT--GCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAAGGTT--TTAATCTG
* * * **
7596477 CTCCACTGCAACTTTAGGGAGATAAGACT-A-GATGCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * * * **
7596518 CT-CTCTGCAACTTCAGAGAGATAAGATCT--GATTTTAGTCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* *
7596559 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* * ***
7596603 TTCCACTGCAACTTCAGGGAGATAAGATT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
* * ** * *
7596644 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTAATCTG
* * *
7596687 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTAATCTG
* *
7596731 CTCCACTGTAACTTTAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
7596760 TGCCATCTTC
Statistics
Matches: 450, Mismatches: 105, Indels: 61
0.73 0.17 0.10
Matches are distributed among these distances:
40 86 0.19
41 36 0.08
42 26 0.06
43 29 0.06
44 238 0.53
45 33 0.07
46 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTAATCTG
Found at i:7596309 original size:84 final size:84
Alignment explanation
Indices: 7596211--7596716 Score: 411
Period size: 84 Copynumber: 5.9 Consensus size: 84
7596201 CAAGGTTTTA
* *
7596211 ATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAT-GGCTTTAATCTGCTCCACTGCAACTTCA
*
7596276 GGGAGATGAGATTAGATGCG
65 GGGAGATAAGATTAGATGCG
* * * * ** *
7596296 ATCTGCT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TATGGCTTTAATCTGCTCCACTGCAACTTCA
* ***
7596360 GGGAGATAGGATTATCGACTTTA
65 GGGAGATAAGATTA--GA-TGCG
* * *
7596383 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAATCTGC-CTCACTGCAACT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATGGC-T-TT-AATCTGCTC-CACTGCAACT
* * *
7596446 TCA-GGAGGATAAGACTT-GCTTACTT
62 TCAGGGA-GATAAGA-TTAG-ATGC-G
* * * * ** *
7596471 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTA--GATGCAATCTGCT-CTCTGCAACTTCA
1 A-TCTGCTCCACTGCAACTTCAGAGAGATAAGATTATGGCTTTAATCTGCTCCACTGCAACTTCA
* ***
7596533 GAGAGATAAGATCT-GATTTT
65 GGGAGATAAGAT-TAGATGCG
** * *
7596553 AGTCCACTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGTTCCACTGCAACTTC
1 A-TCTGCTCCACTGCAACTTCAGAGAGATAAGATTAT-GGCTTTAATCTGCTCCACTGCAACTTC
7596618 AGGGAGATAAGATTAGATGCG
64 AGGGAGATAAGATTAGATGCG
* * ** *
7596639 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TATGGCTTTAATCTGCTCCACTGCAACTTCA
*
7596703 GGGAGATAGGATTA
65 GGGAGATAAGATTA
7596717 TCGGCTTTAA
Statistics
Matches: 337, Mismatches: 60, Indels: 49
0.76 0.13 0.11
Matches are distributed among these distances:
82 33 0.10
83 2 0.01
84 140 0.42
85 34 0.10
86 31 0.09
87 12 0.04
88 28 0.08
89 55 0.16
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATGGCTTTAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATTAGATGCG
Found at i:7596360 original size:128 final size:128
Alignment explanation
Indices: 7596132--7596416 Score: 444
Period size: 128 Copynumber: 2.2 Consensus size: 128
7596122 CTAGGGTCTA
* *
7596132 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
* * * *
7596197 GATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
* *
7596260 CTCCACTGCAACTTCAGGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTAGAGAAATAA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
*** * *
7596325 GATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTG
66 GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
*
7596388 TTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
7596417 TGCCATCTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 142 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAATAA
GATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGATTATCGACTTTAATCTG
Found at i:7596571 original size:82 final size:86
Alignment explanation
Indices: 7596389--7596850 Score: 245
Period size: 89 Copynumber: 5.3 Consensus size: 86
7596379 TTTAATCTGT
* * *
7596389 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-CA-CTGCAATCTGCCTCACTGCAACTTCAGGAGG
* **
7596454 ATAAGACTTGCTTACTTAGTCTGC
64 ATAAGACTTGATTA-TTAGTCCAC
* *
7596478 TCCACTGCAACTTTAGGGAGATAAGACTAG-A-TGCAATCTG-CTCTCTGCAACTTCA-GAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGCACTGCAATCTGCCTCACTGCAACTTCAGGAG-GA
7596539 TAAGA-TCTGATT-TTAGTCCAC
65 TAAGACT-TGATTATTAGTCCAC
* * * ** *
7596560 TCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG-TTCCACTGCAACTTCAGG-GA
1 TCCACTGCAACTTCAGGGAGATAAGACTAGC-ACTGCAATCTGCCT-CACTGCAACTTCAGGAG-
* ** **
7596623 GATAAGA-TT-A-GATGCGATCTGC
63 GATAAGACTTGATTATTAG-TCCAC
* * *** ** *
7596645 T-CTCTGCAACTTCAGAGAGATAAGATCT-GTGTTTTTAATCCG-CTCCACTGCAACTTCAGG-G
1 TCCACTGCAACTTCAGGGAGATAAGA-CTAG-CACTGCAATCTGCCT-CACTGCAACTTCAGGAG
* * ** * **
7596706 AGATAGGATTATCGGCT-TTAATCTGC
63 -GATAAGACT-T-GATTATTAGTCCAC
* * * * * * *
7596732 TCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCATGAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-CA-CTGCAATCTGCCTCACTGCAACTTCAGGAGG
* * **
7596797 ATAAAACTTGCTTACTTAGTCTGC
64 ATAAGACTTGATTA-TTAGTCCAC
7596821 TCCACTGCAACTTCAGGGAGATAAGACTAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAG
7596851 ATGCGATCTT
Statistics
Matches: 291, Mismatches: 59, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
82 34 0.12
83 4 0.01
84 83 0.29
85 23 0.08
86 23 0.08
87 11 0.04
88 23 0.08
89 87 0.30
90 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGCACTGCAATCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGATTATTAGTCCAC
Found at i:7596608 original size:126 final size:127
Alignment explanation
Indices: 7596335--7596846 Score: 511
Period size: 126 Copynumber: 3.9 Consensus size: 127
7596325 GATCTGTGAT
* * * ** * *
7596335 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTGTTCCACTGCAAC
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA--GA-TGCAATCTGCT-CTCTGCAAC
* * * * *
7596400 TTCAGGGAGATAAGAT-TTGCCATCTTCAATCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT
62 TTCAGAGAGATAAGATCTTG--AT-TTTAGTCCGCTC-CACTGCAACTTCAGGGA-GATAAGATT
7596462 -T--GC
122 ATCGGC
* *
7596465 TTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACT
1 -T--TTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCAATCTGCTCTCTGCAACT
*
7596530 TCAGAGAGATAAGATC-TGATTTTAGTCCACTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
63 TCAGAGAGATAAGATCTTGATTTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * *
7596594 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCA
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCAATCTGCTCTCTGCAACTTCA
* * *
7596659 GAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
66 GAGAGATAAGATCT-TGATTTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * * * *
7596722 TTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAG--A--TGCAATCTG-CTCTCTGCAA
* * *
7596787 CTTCATGAG-GATAA-AACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
61 CTTCA-GAGAGATAAGATCTTGATT--TTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGA
7596847 CTAGATGCGA
Statistics
Matches: 326, Mismatches: 37, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
126 99 0.30
127 7 0.02
128 81 0.25
129 27 0.08
130 9 0.03
131 7 0.02
132 9 0.03
133 84 0.26
134 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (127 bp):
TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATGCAATCTGCTCTCTGCAACTTCA
GAGAGATAAGATCTTGATTTTAGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
Found at i:7596635 original size:343 final size:345
Alignment explanation
Indices: 7596127--7596859 Score: 1245
Period size: 343 Copynumber: 2.1 Consensus size: 345
7596117 TATTTCTAGG
*
7596127 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
* ** *
7596192 GATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGAGAAATATGATTATCGGCTTTAAT
66 GATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCGGCTTTAAT
* *
7596257 CTGCTCCACTGCAACTTCAGGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTAGAGAAA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAA
7596322 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCT
196 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCT
*
7596387 GTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGA
261 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGA
*
7596452 GGATAAGACTTGCTTACTTA
326 GGATAAAACTTGCTTACTTA
* *
7596472 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
* * * *
7596537 GATAAGAT-C-TGATTTTAGTCCACTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAAT
66 GATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCGGCTTTAAT
* *
7596600 CTGTTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAA
* *
7596665 TAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCT
196 TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCT
* * * *
7596730 GCTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCATGA
261 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGA
7596795 GGATAAAACTTGCTTACTTA
326 GGATAAAACTTGCTTACTTA
7596815 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
7596860 TCAATCTGCT
Statistics
Matches: 363, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
343 292 0.80
344 1 0.00
345 70 0.19
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (345 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCCAAGATTTTAATCCACTCCACTGCAACTTCAGAGAAATAAGATTATCGGCTTTAAT
CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAAA
TAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCT
GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGA
GGATAAAACTTGCTTACTTA
Found at i:7596844 original size:44 final size:44
Alignment explanation
Indices: 7596132--7596848 Score: 343
Period size: 44 Copynumber: 16.7 Consensus size: 44
7596122 CTAGGGTCTA
* * * *
7596132 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * ** *
7596173 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAATCTG
* * * *
7596216 CTCCACTGCAACTTCAGAGAAATATGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
7596260 CTCCACTGCAACTTCAGGGAGATGAGA-TTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAATCTG
* * * * * *
7596301 CT-CTCTGCAACTTTAGAGAAATAAGATCTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* * *
7596344 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCGACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TAC-TTAATCTG
* * *
7596388 TTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
*
7596433 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
* * * *
7596477 CTCCACTGCAACTTTAGGGAGATAAGACTAG-ATGC--AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
* * * * **
7596518 CT-CTCTGCAACTTCAGAGAGATAAGA-TCTGATT--TTAGTCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTACTTAATCTG
*
7596559 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * *
7596603 TTCCACTGCAACTTCAGGGAGATAAGA-TTAG-ATGC--GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAATCTG
* * * *
7596644 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTG-TT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAATCTG
* *
7596687 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAATCTG
* * * * *
7596731 CTCCACTGTAACTTTAGGGAGATAAGATTTGC-CATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AATCTG
* * *
7596776 C-CTCACTGCAACTTCA-TGAGGATAAAACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAATCTG
7596820 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
7596849 AGATGCGATC
Statistics
Matches: 525, Mismatches: 90, Indels: 119
0.72 0.12 0.16
Matches are distributed among these distances:
39 1 0.00
40 87 0.17
41 35 0.07
42 33 0.06
43 32 0.06
44 258 0.49
45 77 0.15
46 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAATCTG
Found at i:7613314 original size:15 final size:15
Alignment explanation
Indices: 7613305--7613337 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7613295 CAAATGCTAT
7613305 AATAATAAATACAAC
1 AATAATAAATACAAC
*
7613320 AATAATAAATACATC
1 AATAATAAATACAAC
7613335 AAT
1 AAT
7613338 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:7613714 original size:40 final size:43
Alignment explanation
Indices: 7613653--7613732 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 43
7613643 GAGCTTTTTT
* *
7613653 TTAAAGAATAAATATCCATATG-GATATAAATAA-AATATTTG
1 TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
*
7613694 TTAAA-AATATATATACATATGTACATATAAATAATAATA
1 TTAAAGAATAAATATACATATG-ACATATAAATAATAATA
7613733 ATAATTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.42
41 5 0.15
42 10 0.30
43 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
TTAAAGAATAAATATACATATGACATATAAATAATAATATTTG
Found at i:7617339 original size:4 final size:4
Alignment explanation
Indices: 7617325--7617370 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
7617315 GATGATGTGT
*
7617325 TAAA AAAA TAAA TAAA TATAA TAAA TAAA T-AA -AAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAA
7617371 TATAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 4 0.11
4 29 0.78
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:7617352 original size:17 final size:18
Alignment explanation
Indices: 7617325--7617383 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
7617315 GATGATGTGT
* *
7617325 TAAAAAAATAAATAAATA
1 TAAATAAATAAATAAAAA
7617343 T-AATAAATAAATAAAAA
1 TAAATAAATAAATAAAAA
7617360 TAAATAAATAATATAGAAAA
1 TAAATAAATAA-ATA-AAAA
7617380 -AAAT
1 TAAAT
7617384 TGAAATCGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 15 0.42
18 10 0.28
19 7 0.19
20 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAATAAATAAATAAAAA
Done.