Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 300 of 318
Found at i:95438148 original size:24 final size:22
Alignment explanation
Indices: 95438121--95438173 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
95438111 TAAAAATATG
95438121 TACATAATATAGTGTTAAAATACA
1 TACATAATATA--GTTAAAATACA
* *
95438145 TACATAATATAGTTAAGATATA
1 TACATAATATAGTTAAAATACA
95438167 TACATAA
1 TACATAA
95438174 GATAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 16 0.59
24 11 0.41
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
TACATAATATAGTTAAAATACA
Found at i:95438169 original size:22 final size:23
Alignment explanation
Indices: 95438113--95438173 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
95438103 GATAATATTA
*
95438113 AAAATATGTACATAATATAGTGTT
1 AAAATATATACATAATATAG-GTT
*
95438137 AAAATACATACATAATATA-GTT
1 AAAATATATACATAATATAGGTT
*
95438159 AAGATATATACATAA
1 AAAATATATACATAA
95438174 GATAACATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 16 0.48
24 17 0.52
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATAGGTT
Found at i:95438201 original size:28 final size:27
Alignment explanation
Indices: 95438162--95438223 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
95438152 TATAGTTAAG
*
95438162 ATATATACATAAGATAACATGTAAAAAA
1 ATATATAAATAAGATAACAT-TAAAAAA
* * * *
95438190 ATATATAAATAATATAATATTAAAGAT
1 ATATATAAATAAGATAACATTAAAAAA
95438217 ATATATA
1 ATATATA
95438224 TAAAATAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (27 bp):
ATATATAAATAAGATAACATTAAAAAA
Found at i:95438206 original size:9 final size:8
Alignment explanation
Indices: 95438188--95438271 Score: 54
Period size: 7 Copynumber: 10.9 Consensus size: 8
95438178 ACATGTAAAA
95438188 AAATATAT
1 AAATATAT
95438196 AAATA-AT
1 AAATATAT
95438203 ATAATAT-T
1 A-AATATAT
*
95438211 AAAGATAT
1 AAATATAT
*
95438219 ATATATA-
1 AAATATAT
95438226 AAATAGTAT
1 AAATA-TAT
95438235 AAA-ATAT
1 AAATATAT
* *
95438242 ATATATACG
1 AAATATA-T
95438251 AAATATA-
1 AAATATAT
*
95438258 AAATTTA-
1 AAATATAT
95438265 AAATATA
1 AAATATA
95438272 CCTAATATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
7 28 0.47
8 23 0.38
9 9 0.15
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (8 bp):
AAATATAT
Found at i:95438335 original size:24 final size:25
Alignment explanation
Indices: 95438274--95438335 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
95438264 AAAATATACC
*
95438274 TAATATATTAAAAG-AATATATATAA
1 TAATA-ATAAAAAGAAATATATATAA
**
95438299 T-ATAATATTAAGAAATATA-ATAA
1 TAATAATAAAAAGAAATATATATAA
95438322 TAATAATAAAAAGA
1 TAATAATAAAAAGA
95438336 GGGAGAGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 10 0.33
24 19 0.63
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
TAATAATAAAAAGAAATATATATAA
Found at i:95438881 original size:30 final size:30
Alignment explanation
Indices: 95438847--95438937 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
95438837 AATGGAGCAA
*
95438847 GTGTGGCTAGTGGATTTGGTGGTGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
*
95438877 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
*
95438907 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGT-GAAAAAG
95438938 CTAAGATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
30 50 0.89
31 6 0.11
ACGTcount: A:0.23, C:0.03, G:0.47, T:0.26
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGAAAAAG
Found at i:95444340 original size:6 final size:6
Alignment explanation
Indices: 95444329--95444357 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
95444319 AATCGCCTTC
95444329 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
95444358 ACATTTCCTC
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:95444747 original size:10 final size:10
Alignment explanation
Indices: 95444732--95444756 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95444722 TTTTATAATT
95444732 AATAATGTAA
1 AATAATGTAA
95444742 AATAATGTAA
1 AATAATGTAA
95444752 AATAA
1 AATAA
95444757 AAAATGTAAA
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (10 bp):
AATAATGTAA
Found at i:95444768 original size:15 final size:15
Alignment explanation
Indices: 95444739--95444767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95444729 ATTAATAATG
95444739 TAAAATAATGTAAAA
1 TAAAATAATGTAAAA
95444754 TAAAA-AATGTAAAA
1 TAAAATAATGTAAAA
95444768 AAGCAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
TAAAATAATGTAAAA
Found at i:95445286 original size:12 final size:12
Alignment explanation
Indices: 95445256--95445289 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
95445246 TATATATTTT
95445256 AAAATT-ATATA
1 AAAATTAATATA
95445267 AAAA-TAATATA
1 AAAATTAATATA
95445278 AAAATTAATATA
1 AAAATTAATATA
95445290 GGCAGGTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:95447203 original size:31 final size:32
Alignment explanation
Indices: 95447165--95447231 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
95447155 ACTAAGAGAT
95447165 AGCGAAAAAATGTAAAATGTAAAAAAGTTTA-
1 AGCGAAAAAATGTAAAATGTAAAAAAGTTTAG
95447196 AGCGAAAAAATGTAAAATGTAAAAAAGTTTAG
1 AGCGAAAAAATGTAAAATGTAAAAAAGTTTAG
95447228 AGCG
1 AGCG
95447232 GTCAGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.21
Consensus pattern (32 bp):
AGCGAAAAAATGTAAAATGTAAAAAAGTTTAG
Found at i:95448532 original size:16 final size:16
Alignment explanation
Indices: 95448511--95448552 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
95448501 TTAGTATTGA
*
95448511 AATTAATTTATCAAGT
1 AATTAATTTATCAAAT
*
95448527 AATTAATTTATTAAAT
1 AATTAATTTATCAAAT
95448543 AATATAATTT
1 AAT-TAATTT
95448553 TTTGGTCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTAATTTATCAAAT
Found at i:95453631 original size:7 final size:7
Alignment explanation
Indices: 95453619--95453690 Score: 54
Period size: 7 Copynumber: 9.3 Consensus size: 7
95453609 AAACAATACT
95453619 AAAAATA
1 AAAAATA
95453626 AAAAATA
1 AAAAATA
95453633 CAAAAATA
1 -AAAAATA
*
95453641 AATAAACA
1 AA-AAATA
*
95453649 AAATATA
1 AAAAATA
95453656 AAAATATA
1 AAAA-ATA
*
95453664 AAATATCAGTC
1 AAA-A--A-TA
95453675 AAAAATA
1 AAAAATA
95453682 AAAAATA
1 AAAAATA
95453689 AA
1 AA
95453691 GATATTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 25 0.48
8 20 0.38
9 1 0.02
10 2 0.04
11 4 0.08
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:95453639 original size:15 final size:15
Alignment explanation
Indices: 95453607--95453659 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
95453597 TTTAACCTAC
95453607 TAAAACAATACTAAAAA
1 TAAAA-AATAC-AAAAA
95453624 TAAAAAATACAAAAA
1 TAAAAAATACAAAAA
*
95453639 TAAATAA-ACAAAATA
1 TAAAAAATACAAAA-A
95453654 TAAAAA
1 TAAAAA
95453660 TATAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 6 0.18
15 17 0.52
16 5 0.15
17 5 0.15
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAATACAAAAA
Found at i:95453666 original size:15 final size:15
Alignment explanation
Indices: 95453620--95453669 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
95453610 AACAATACTA
95453620 AAAATA-AAAAATAC
1 AAAATATAAAAATAC
95453634 AAAA-ATAAATAA-AC
1 AAAATATAAA-AATAC
*
95453648 AAAATATAAAAATAT
1 AAAATATAAAAATAC
95453663 AAAATAT
1 AAAATAT
95453670 CAGTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 1 0.03
14 15 0.48
15 15 0.48
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATATAAAAATAC
Found at i:95454031 original size:21 final size:20
Alignment explanation
Indices: 95454006--95454066 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
95453996 TAATAAAATT
95454006 TATAAACAAAATATATAATAA
1 TATAAACAAAATATATAAT-A
*
95454027 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
* *
95454050 TATAAATAATATATATA
1 TATAAACAAAATATATA
95454067 CTATTTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 6 0.18
21 9 0.27
22 1 0.03
23 9 0.27
24 8 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:95466660 original size:20 final size:20
Alignment explanation
Indices: 95466624--95466661 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95466614 AACATCATAA
*
95466624 TTAAAATCTAAATTTAAAAC
1 TTAAAATCTAAAATTAAAAC
95466644 TTAAAAT-TAAAAATTAAA
1 TTAAAATCT-AAAATTAAA
95466662 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAAATCTAAAATTAAAAC
Found at i:95467908 original size:30 final size:30
Alignment explanation
Indices: 95467872--95467934 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
95467862 ATATATAGTT
95467872 TAATATATTAAAATTT-ACTACT-ATTTGATA
1 TAATATATTAAAATTTGA-TA-TGATTTGATA
*
95467902 TAATATATTATAATTTGATATGATTTGATA
1 TAATATATTAAAATTTGATATGATTTGATA
95467932 TAA
1 TAA
95467935 GTAATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 1 0.03
30 28 0.93
31 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
TAATATATTAAAATTTGATATGATTTGATA
Found at i:95468645 original size:19 final size:19
Alignment explanation
Indices: 95468621--95468659 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95468611 ATAGATTTTA
95468621 AATTAACATAT-ATAAAATT
1 AATTAA-ATATGATAAAATT
*
95468640 AATTAAATATGATATAATT
1 AATTAAATATGATAAAATT
95468659 A
1 A
95468660 TATAAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAATATGATAAAATT
Found at i:95469683 original size:42 final size:42
Alignment explanation
Indices: 95469632--95469732 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
95469622 TACCATAGTT
*
95469632 CAACTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCC
1 CAACTATGGTCTTACACATATTCACAT-ATCGATGCCATAGCC
*
95469674 CAACTATGGTCTTACACATATTCATATATCGATGCCATAGCC
1 CAACTATGGTCTTACACATATTCACATATCGATGCCATAGCC
*
95469716 CAGCTATGGTCTTACAC
1 CAACTATGGTCTTACAC
95469733 GAATCAAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 2 0.04
42 53 0.96
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (42 bp):
CAACTATGGTCTTACACATATTCACATATCGATGCCATAGCC
Found at i:95469806 original size:47 final size:46
Alignment explanation
Indices: 95469703--95469826 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
95469693 ATTCATATAT
* * * * *
95469703 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCAAATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCAAATATCACAC
* * *
95469749 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCAAATATCACAC
95469796 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
95469827 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCAAATATCACAC
Found at i:95469879 original size:31 final size:31
Alignment explanation
Indices: 95469844--95469992 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
95469834 CTTGTCACTT
* * *
95469844 GTAGCCAAAACTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
95469875 GTAGCCGGAA-CTACCATTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
95469906 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
95469937 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
95469968 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
95469993 TGTAATTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 103 0.96
32 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:95470067 original size:50 final size:51
Alignment explanation
Indices: 95469968--95470096 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
95469958 CACTAATCAG
* * * *
95469968 GTAGCCGAAGCTACCACTTTTCACTTGTAATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCCTTAATCAGATAAGT
** *
95470019 GTAGTTGAAGCTATCACTTATCACTT-TCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCCTTAATCAGATAAGT
95470069 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
95470097 TGCCATAGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 45 0.66
51 23 0.34
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCCTTAATCAGATAAGT
Found at i:95472200 original size:25 final size:25
Alignment explanation
Indices: 95472172--95472220 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
95472162 ATCAAATTTT
*
95472172 AATATATTATA-TAAAATAATATTAA
1 AATATAATATATTAAAAT-ATATTAA
95472197 AATATAATATATTAAAATATATTA
1 AATATAATATATTAAAATATATTA
95472221 CTCTTCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATATAATATATTAAAATATATTAA
Found at i:95472713 original size:59 final size:59
Alignment explanation
Indices: 95472621--95472780 Score: 259
Period size: 59 Copynumber: 2.7 Consensus size: 59
95472611 CTTAGTGTCC
* ** *
95472621 AATTAAATTGTCAATATGGGTCCACCCAGAATAGACCGTAA-ATTAAGAATTACAAAAAT
1 AATTAAATTGTCAATATGGGTCCGCCCAGAATAGACCACAACA-TAACAATTACAAAAAT
*
95472680 AATTAAATTGTCAATATGGTTCCGCCCAGAATAGACCACAACATAACAATTACAAAAAT
1 AATTAAATTGTCAATATGGGTCCGCCCAGAATAGACCACAACATAACAATTACAAAAAT
95472739 AATTAAATTGTCAATATGGGTCCGCCCAGAATAGACCACAAC
1 AATTAAATTGTCAATATGGGTCCGCCCAGAATAGACCACAAC
95472781 GGCCCACTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 93 0.99
60 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (59 bp):
AATTAAATTGTCAATATGGGTCCGCCCAGAATAGACCACAACATAACAATTACAAAAAT
Found at i:95473196 original size:18 final size:17
Alignment explanation
Indices: 95473151--95473203 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
95473141 TAATAAATAA
95473151 AAAAAATATAAAATTATT
1 AAAAAATA-AAAATTATT
* * *
95473169 AAATATTAAAATATTTTT
1 AAAAAATAAAA-ATTATT
95473187 AAAAAATAAAAAATTAT
1 AAAAAAT-AAAAATTAT
95473204 ATAGATCTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAATAAAAATTATT
Found at i:95473224 original size:36 final size:36
Alignment explanation
Indices: 95473142--95473225 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
95473132 AAAAAAATTT
** * *
95473142 AATAAATAAAAAAAATATAAAATTATTAAATATTAA
1 AATAAATTTAAAAAATAAAAAATTATTAAATACTAA
** *
95473178 AATATTTTTAAAAAATAAAAAATTATATAGAT-CTAA
1 AATAAATTTAAAAAATAAAAAATTAT-TAAATACTAA
95473214 AATAAATTTAAA
1 AATAAATTTAAA
95473226 TTAGTATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (36 bp):
AATAAATTTAAAAAATAAAAAATTATTAAATACTAA
Found at i:95473459 original size:27 final size:27
Alignment explanation
Indices: 95473428--95473590 Score: 200
Period size: 27 Copynumber: 6.0 Consensus size: 27
95473418 CGGCAAACTA
*
95473428 ATTGCAAAGGTTAATATGGGAACTTTG
1 ATTGCAAAGGTTAATATGGCAACTTTG
* * *
95473455 ATTGCAAAGTTTAATATGTCAACTTGG
1 ATTGCAAAGGTTAATATGGCAACTTTG
* *
95473482 ATTGGAAAGGTTAATATGGGAACTTTG
1 ATTGCAAAGGTTAATATGGCAACTTTG
* **
95473509 ATTGCAAAGTTTAATATCTCAACTTTG
1 ATTGCAAAGGTTAATATGGCAACTTTG
*
95473536 ATTGCAAAGGTTAATATATTGCAACTTTG
1 ATTGCAAAGGTT-A-ATATGGCAACTTTG
* *
95473565 ATTGCAAAGGTTAATGTGGGAACTTT
1 ATTGCAAAGGTTAATATGGCAACTTT
95473591 TTATTTATTT
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 88 0.77
28 2 0.02
29 24 0.21
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTGCAAAGGTTAATATGGCAACTTTG
Found at i:95473515 original size:54 final size:54
Alignment explanation
Indices: 95473428--95473579 Score: 232
Period size: 54 Copynumber: 2.8 Consensus size: 54
95473418 CGGCAAACTA
*
95473428 ATTGCAAAGGTTAATATGGGAACTTTGATTGCAAAGTTTAATATGTCAACTTGG
1 ATTGCAAAGGTTAATATGGGAACTTTGATTGCAAAGTTTAATATCTCAACTTGG
* *
95473482 ATTGGAAAGGTTAATATGGGAACTTTGATTGCAAAGTTTAATATCTCAACTTTG
1 ATTGCAAAGGTTAATATGGGAACTTTGATTGCAAAGTTTAATATCTCAACTTGG
* * *
95473536 ATTGCAAAGGTTAATATATTGCAACTTTGATTGCAAAGGTTAAT
1 ATTGCAAAGGTT-A-ATATGGGAACTTTGATTGCAAAGTTTAAT
95473580 GTGGGAACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 62 0.70
55 1 0.01
56 26 0.29
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (54 bp):
ATTGCAAAGGTTAATATGGGAACTTTGATTGCAAAGTTTAATATCTCAACTTGG
Found at i:95486984 original size:45 final size:45
Alignment explanation
Indices: 95486933--95487020 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
95486923 AAAGTTAGTT
95486933 TCCTTTCTTCTTTTTTTCCTTTACAAATCTGTTTATATATATATA
1 TCCTTTCTTCTTTTTTTCCTTTACAAATCTGTTTATATATATATA
95486978 TCCTTTCTTCTTTTTTTCCTTTACAAATCTGTTTATATATATA
1 TCCTTTCTTCTTTTTTTCCTTTACAAATCTGTTTATATATATA
95487021 AAAATTATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.58
Consensus pattern (45 bp):
TCCTTTCTTCTTTTTTTCCTTTACAAATCTGTTTATATATATATA
Found at i:95487670 original size:3 final size:3
Alignment explanation
Indices: 95487657--95487835 Score: 82
Period size: 3 Copynumber: 58.3 Consensus size: 3
95487647 TTTCAAATTA
*
95487657 ATT ATTT ATT ATT A-T ATTT ATT ATT ATT A-T ATCT ATT ATT ATT TTT
1 ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * *
95487703 ATT ATT ATT ACT ATT ACT CTT ATT AATGT ATT ATT ACT ACT ACTT -TCT
1 ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT A-TT AT-T
* * * * *
95487751 ATCA ATT ATT ATT A-T CTT ATT -TAA AAT ATT AGT ATT ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * *
95487796 TTT CATG ATT ATT ATT AGT AAT A-T ATT ATT ATT CTT ATT A
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
95487836 ATACATTACT
Statistics
Matches: 133, Mismatches: 28, Indels: 30
0.70 0.15 0.16
Matches are distributed among these distances:
2 9 0.07
3 105 0.79
4 18 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:95487739 original size:26 final size:26
Alignment explanation
Indices: 95487703--95487764 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
95487693 TATTATTTTT
* *
95487703 ATTATTATTACTATTACTCT-TATTA
1 ATTATTATTACTACTACTCTCTATCA
*
95487728 ATGTATTATTACTACTACTTTCTATCA
1 AT-TATTATTACTACTACTCTCTATCA
95487755 ATTATTATTA
1 ATTATTATTA
95487765 TCTTATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 24 0.75
27 6 0.19
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTATTATTACTACTACTCTCTATCA
Found at i:95487828 original size:20 final size:20
Alignment explanation
Indices: 95487803--95487843 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95487793 ATTTTTCATG
*
95487803 ATTATTATTAGTAATATATT
1 ATTATTATTAGTAATACATT
* *
95487823 ATTATTCTTATTAATACATT
1 ATTATTATTAGTAATACATT
95487843 A
1 A
95487844 CTATCATCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATTATTAGTAATACATT
Found at i:95488003 original size:3 final size:3
Alignment explanation
Indices: 95487997--95488073 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
95487987 CATCATCATC
* * *
95487997 ATT ATT ATT ATT ATT ATT -TAT ATT AAT A-T ATT ATT ACT CTT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
95488041 AATGT ATT GTT ATT TTT ATT -TT A-T ATT ATT ATT
1 -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
95488074 GTTTCATCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
2 7 0.12
3 45 0.78
4 5 0.09
5 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:95488030 original size:20 final size:19
Alignment explanation
Indices: 95488005--95488073 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
95487995 TCATTATTAT
95488005 TATTATTATTTATATTAATA
1 TATTATTATTT-TATTAATA
* *
95488025 TATTATTACTCTTATTAATG
1 TATTATTA-TTTTATTAATA
* *
95488045 TATTGTTATTTTTATT-TTA
1 TATTATTA-TTTTATTAATA
95488064 TATTATTATT
1 TATTATTATT
95488074 GTTTCATCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 28 0.70
21 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TATTATTATTTTATTAATA
Found at i:95491303 original size:40 final size:40
Alignment explanation
Indices: 95491238--95491374 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
95491228 TCGAGAATAT
* *
95491238 AAAGTGGATAGGATTCGTTCATGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* * * *
95491278 AAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAATTT
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* * * * ** *
95491318 AAAATGAATAGGATTTATTCATGATTCACTTTGGTAACTT
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* *
95491358 AAGGCGGATAGGATTTG
1 AAAGTGGATAGGATTTG
95491375 ACCTGAAAAG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
Found at i:95491447 original size:78 final size:78
Alignment explanation
Indices: 95491365--95491569 Score: 311
Period size: 79 Copynumber: 2.6 Consensus size: 78
95491355 CTTAAGGCGG
95491365 ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
1 ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
95491430 TAACCTAAGATGA
66 TAACCTAAGATGA
* ** *
95491443 ATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACTGTTACACAATATATGATTCTTTATG
1 ATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATG
* * *
95491508 ATAACTTAAGGTGG
65 ATAACCTAAGATGA
* * *
95491522 GTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACATTTACATGA
1 ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGA
95491570 GATGTGACTC
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 43 0.38
79 70 0.62
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (78 bp):
ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
TAACCTAAGATGA
Found at i:95500700 original size:63 final size:63
Alignment explanation
Indices: 95500628--95500746 Score: 193
Period size: 63 Copynumber: 1.9 Consensus size: 63
95500618 TCACATGGGT
* * *
95500628 GTGTGTCTAGGCCGTATAACTCACTGTTTGTGGTACAAAGACCACACGGCCAGGGATACGGGC
1 GTGTGTCTAGACCATATAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGATACGGGC
* *
95500691 GTGTGTCTAGACCATGTAACTCACTGTTTGTGGTACAAAAACCATACGGCCAGGGA
1 GTGTGTCTAGACCATATAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGA
95500747 CACGAGCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (63 bp):
GTGTGTCTAGACCATATAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGATACGGGC
Found at i:95500772 original size:63 final size:63
Alignment explanation
Indices: 95500644--95500777 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
95500634 CTAGGCCGTA
* * * * ** *
95500644 TAACTCACTGTTTGTGGTACAAAGACCACACGGCCAGGGATACGGGCGTGTGTCTAGACCATG
1 TAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGAGCATGTACCCAGACCATG
* * *
95500707 TAACTCACTGTTTGTGGTACAAAAACCATACGGCCAGGGACACGAGCATGTACCCAGGCCTTG
1 TAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGAGCATGTACCCAGACCATG
*
95500770 TAAGTCAC
1 TAACTCAC
95500778 ACAGGTAGGG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (63 bp):
TAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGAGCATGTACCCAGACCATG
Found at i:95503827 original size:34 final size:34
Alignment explanation
Indices: 95503719--95503824 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
95503709 TAATTATTCA
* *
95503719 CAAATCTATGGGAGACTTGGAGTGACAACACTCT
1 CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
* * *
95503753 CAAATTTACGGAAGACTTGGAGTGGGAACACTCT
1 CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
*
95503787 CAAATTTATGGGATGACTTGGAGTGGCAAAACTCT
1 CAAATTTATGGGA-GACTTGGAGTGGCAACACTCT
95503822 CAA
1 CAA
95503825 TTTCATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 40 0.65
35 22 0.35
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (34 bp):
CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
Found at i:95507353 original size:21 final size:21
Alignment explanation
Indices: 95507329--95507368 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
95507319 AATGTACATA
95507329 AAAAAAAGTATGTGATTTAAT
1 AAAAAAAGTATGTGATTTAAT
95507350 AAAAAAAGTATGTGATTTA
1 AAAAAAAGTATGTGATTTA
95507369 CTTTTTAAGT
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:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAAAAGTATGTGATTTAAT
Found at i:95507404 original size:9 final size:9
Alignment explanation
Indices: 95507387--95507421 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
95507377 GTCATATTTA
95507387 GTAAATATT
1 GTAAATATT
*
95507396 GTCAATATT
1 GTAAATATT
95507405 GTAAAATATT
1 GT-AAATATT
95507415 GTAAATA
1 GTAAATA
95507422 GCTAACTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (9 bp):
GTAAATATT
Found at i:95510022 original size:30 final size:28
Alignment explanation
Indices: 95509969--95510053 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
95509959 TTAGGGGTTT
* *
95509969 GAAAAAATAA-TTTGTACAAGATAAATTCT
1 GAAAAAATAATTTTG-A-GAGATAAATTCA
*
95509998 GAAAAAAATAATTTTGAGAGGATAAGTTCA
1 G-AAAAAATAATTTTGAGA-GATAAATTCA
*
95510028 GAAGAAATAATTTTGACGAGATAAAT
1 GAAAAAATAATTTTGA-GAGATAAAT
95510054 AAAATTTCGT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
29 22 0.47
30 21 0.45
31 4 0.09
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (28 bp):
GAAAAAATAATTTTGAGAGATAAATTCA
Found at i:95511732 original size:18 final size:19
Alignment explanation
Indices: 95511702--95511742 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
95511692 ATTGCTTTCA
95511702 TATTATATAATTTTTATT-T
1 TATTATATAA-TTTTATTAT
95511721 TATTAT-TAATTTTATTAT
1 TATTATATAATTTTATTAT
95511739 TATT
1 TATT
95511743 TTAGAGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATATAATTTTATTAT
Found at i:95511734 original size:12 final size:11
Alignment explanation
Indices: 95511715--95511745 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
95511705 TATATAATTT
95511715 TTATTTTATTA
1 TTATTTTATTA
95511726 TTAATTTTATTA
1 TT-ATTTTATTA
95511738 TTATTTTA
1 TTATTTTA
95511746 GAGACATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:95515238 original size:14 final size:14
Alignment explanation
Indices: 95515219--95515256 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
95515209 TTCGTTCTAC
*
95515219 TGCTCTTTTTTTTT
1 TGCTCTTTTTGTTT
95515233 TGCTCTTTTTGTTT
1 TGCTCTTTTTGTTT
95515247 TG-T-TTTTTGT
1 TGCTCTTTTTGT
95515257 GTAATTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.30
13 1 0.04
14 15 0.65
ACGTcount: A:0.00, C:0.11, G:0.13, T:0.76
Consensus pattern (14 bp):
TGCTCTTTTTGTTT
Found at i:95517068 original size:19 final size:21
Alignment explanation
Indices: 95517046--95517085 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
95517036 ACTTCACATT
*
95517046 AATATTTTAA-TCA-TAATAA
1 AATATTTAAACTCACTAATAA
95517065 AATATTTAAACTCACTAATAA
1 AATATTTAAACTCACTAATAA
95517086 TACTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATTTAAACTCACTAATAA
Found at i:95519938 original size:7 final size:6
Alignment explanation
Indices: 95519900--95519941 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
95519890 TTTTATAATT
*
95519900 AATTTA AATTTA AATTTA AATTTA ATTCTTA AATTTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AAT-TTA AA-TTTA AATT
95519942 ATTTAGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.69
7 9 0.28
8 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:95521143 original size:16 final size:16
Alignment explanation
Indices: 95521122--95521155 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
95521112 TATAGACCTT
95521122 ATTAGGTTAAGAAGAA
1 ATTAGGTTAAGAAGAA
95521138 ATTAGGTTAAGAAGAA
1 ATTAGGTTAAGAAGAA
95521154 AT
1 AT
95521156 AATATGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (16 bp):
ATTAGGTTAAGAAGAA
Found at i:95521456 original size:19 final size:21
Alignment explanation
Indices: 95521420--95521459 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
95521410 TTTTATAATA
*
95521420 TTATTAGTGAGTTTAAATATT
1 TTATTAGTGAGTTGAAATATT
95521441 TTATTA-TGA-TTGAAATATT
1 TTATTAGTGAGTTGAAATATT
95521460 AATGTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (21 bp):
TTATTAGTGAGTTGAAATATT
Found at i:95522135 original size:50 final size:50
Alignment explanation
Indices: 95522055--95522149 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
95522045 TGGTTAAAGT
*
95522055 CTGTGGACCCCATCTAAGAGACAAAGAATCTATTCGGATAAGTTCTTTGA
1 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTCTTTGA
*
95522105 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGTTAAGTTC
1 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTC
95522150 ATTATGATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTCTTTGA
Found at i:95524591 original size:11 final size:11
Alignment explanation
Indices: 95524575--95524666 Score: 54
Period size: 11 Copynumber: 8.6 Consensus size: 11
95524565 AAAAATAAAT
95524575 ATATATACATA
1 ATATATACATA
*
95524586 ATATATACGTA
1 ATATATACATA
95524597 ATATAGTAC-TA
1 ATATA-TACATA
*
95524608 AGA-AT--AT-
1 ATATATACATA
95524615 ATATATACAATA
1 ATATATAC-ATA
* *
95524627 TAGTATTTA-AAA
1 -A-TATATACATA
95524639 ATATATACATA
1 ATATATACATA
*
95524650 ATATTTACAT-
1 ATATATACATA
95524660 ATATATA
1 ATATATA
95524667 AAATAAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 21
0.67 0.10 0.23
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
9 1 0.02
10 12 0.19
11 33 0.53
12 5 0.08
13 1 0.02
14 5 0.08
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (11 bp):
ATATATACATA
Found at i:95524626 original size:27 final size:29
Alignment explanation
Indices: 95524586--95524645 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
95524576 TATATACATA
*
95524586 ATATATACGTAATATAGTA-CTAAGAATAT
1 ATATATACG-AATATAGTATCTAAAAATAT
*
95524615 ATATATAC-AATATAGTATTTAAAAATAT
1 ATATATACGAATATAGTATCTAAAAATAT
95524643 ATA
1 ATA
95524646 CATAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 11 0.39
29 8 0.29
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (29 bp):
ATATATACGAATATAGTATCTAAAAATAT
Found at i:95525284 original size:26 final size:25
Alignment explanation
Indices: 95525239--95525291 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
95525229 AAGTGTACAC
* *
95525239 ATGGCATTAAAAATATATACATAAT
1 ATGGCATGAAAAATACATACATAAT
*
95525264 ATGGCGATGAAAAATACATACGTAAT
1 ATGGC-ATGAAAAATACATACATAAT
95525290 AT
1 AT
95525292 AGTATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.28
Consensus pattern (25 bp):
ATGGCATGAAAAATACATACATAAT
Found at i:95525378 original size:3 final size:3
Alignment explanation
Indices: 95525370--95525419 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
95525360 TTATACAAAT
* **
95525370 ATA ATA ATAA ATA ATA ATA ATA ATA ATA ACA ATA ATA GCA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95525416 ATA A
1 ATA A
95525420 AGATACAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:95525482 original size:9 final size:9
Alignment explanation
Indices: 95525465--95525496 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
95525455 AGGAAAGTAA
95525465 AATATAATAT
1 AATA-AATAT
95525475 AATAAATAT
1 AATAAATAT
95525484 AATAAATAT
1 AATAAATAT
95525493 AATA
1 AATA
95525497 GTAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAAATAT
Found at i:95531578 original size:18 final size:18
Alignment explanation
Indices: 95531537--95531577 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
95531527 CTAGATGTTT
* *
95531537 TAAAAATATTAATTACTA
1 TAAAAATATCAATTACGA
95531555 TAAAAATATCAA-TACGA
1 TAAAAATATCAATTACGA
95531572 TAAAAA
1 TAAAAA
95531578 AAATTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATATCAATTACGA
Found at i:95532606 original size:31 final size:31
Alignment explanation
Indices: 95532569--95532632 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95532559 GTAAGACTCA
*
95532569 ATAATTACAATGGTTATCCACACAAGCAATT
1 ATAATTACAATGGTTACCCACACAAGCAATT
95532600 ATAATTACAATGGTTACCCACACAAGCAATT
1 ATAATTACAATGGTTACCCACACAAGCAATT
95532631 AT
1 AT
95532633 TGTATAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (31 bp):
ATAATTACAATGGTTACCCACACAAGCAATT
Found at i:95539078 original size:13 final size:13
Alignment explanation
Indices: 95539062--95539100 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
95539052 AAATTTATTA
95539062 AATTAATTAATTT
1 AATTAATTAATTT
95539075 AATTTAA-TAATTT
1 AA-TTAATTAATTT
95539088 ATATTAATTAATT
1 A-ATTAATTAATT
95539101 GAACTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:95539081 original size:14 final size:14
Alignment explanation
Indices: 95539059--95539100 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
95539049 CATAAATTTA
*
95539059 TTAAATTAATTAAT
1 TTAATTTAATTAAT
95539073 TTAATTTAA-TAAT
1 TTAATTTAATTAAT
95539086 TT-ATATTAATTAAT
1 TTAAT-TTAATTAAT
95539100 T
1 T
95539101 GAACTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 10 0.40
14 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTAATTAAT
Found at i:95549139 original size:21 final size:21
Alignment explanation
Indices: 95549113--95549153 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95549103 ATCTGCTCAA
* *
95549113 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
95549134 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
95549154 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:95552684 original size:21 final size:20
Alignment explanation
Indices: 95552660--95552698 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
95552650 TTACTGTTTA
*
95552660 ATAATATTAATTCATTTTTTT
1 ATAAAATTAATT-ATTTTTTT
*
95552681 ATAAAATTTATTATTTTT
1 ATAAAATTAATTATTTTT
95552699 CAATATCCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATAAAATTAATTATTTTTTT
Found at i:95555675 original size:41 final size:41
Alignment explanation
Indices: 95555618--95555699 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
95555608 GAAAAAACGA
*
95555618 GATGAGAAAAGCAAAAAAGGAAATGGAGTACTCGTAAACCT
1 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
95555659 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
1 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
95555700 AAAAGCATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.13, G:0.23, T:0.15
Consensus pattern (41 bp):
GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
Found at i:95556121 original size:39 final size:39
Alignment explanation
Indices: 95556067--95556142 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
95556057 AAGAAACCGT
* * *
95556067 GCCACTGTGGCTCCAAATCATCTTGCTACTATCCCTGCG
1 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTGCG
95556106 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTG
1 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTG
95556143 TGGTGGCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (39 bp):
GCCACTGTCGCTCCAAATCATCTTGATACTATACCTGCG
Found at i:95562460 original size:22 final size:22
Alignment explanation
Indices: 95562417--95562461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95562407 TCTTTGGGTA
* **
95562417 AAGGTGTAAACAAGAATTTCGC
1 AAGGCGTAAACAAGAACCTCGC
95562439 AAGGCGTAAACAAGAACCTCGC
1 AAGGCGTAAACAAGAACCTCGC
95562461 A
1 A
95562462 TTGCTCTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (22 bp):
AAGGCGTAAACAAGAACCTCGC
Found at i:95564220 original size:79 final size:79
Alignment explanation
Indices: 95564084--95564229 Score: 186
Period size: 79 Copynumber: 1.8 Consensus size: 79
95564074 TCACGGTTGC
* * * ***
95564084 AAATCAGAATCAGTAACAATCAGTCTAACATTTATAGATATTGTATATTCCTAATCAACAAAGTA
1 AAATCAGAATCAGTAACAATCAATCTAACATTAATAAATATCACATATTCCTAATCAACAAAGTA
95564149 ACATAAAGGGTTAT
66 ACATAAAGGGTTAT
* * * *
95564163 AAATCAGAATCAGTAACAATCAATCTAACA-TAATCAAATGTCACATATTCTTTATCAACAGAGT
1 AAATCAGAATCAGTAACAATCAATCTAACATTAAT-AAATATCACATATTCCTAATCAACAAAGT
95564227 AAC
65 AAC
95564230 CCAGAGGCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.05
79 53 0.95
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (79 bp):
AAATCAGAATCAGTAACAATCAATCTAACATTAATAAATATCACATATTCCTAATCAACAAAGTA
ACATAAAGGGTTAT
Found at i:95564957 original size:18 final size:18
Alignment explanation
Indices: 95564934--95564970 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95564924 TAACTAGCAA
* *
95564934 AAAGAAAGATAACAAAAC
1 AAAGAAAAATAAAAAAAC
95564952 AAAGAAAAATAAAAAAAC
1 AAAGAAAAATAAAAAAAC
95564970 A
1 A
95564971 GAGGAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAGAAAAATAAAAAAAC
Found at i:95566416 original size:21 final size:21
Alignment explanation
Indices: 95566392--95566432 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95566382 TTTTTTTAAA
*
95566392 CTTGTAATAAAAAGTTTAGAG
1 CTTGAAATAAAAAGTTTAGAG
*
95566413 CTTGAAATAAAAATTTTAGA
1 CTTGAAATAAAAAGTTTAGA
95566433 TTATTACATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (21 bp):
CTTGAAATAAAAAGTTTAGAG
Found at i:95566478 original size:19 final size:20
Alignment explanation
Indices: 95566450--95566488 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
95566440 ATCTATTTTC
*
95566450 TTTAAATTAA-GAGTTATTT
1 TTTAAATTAATGAATTATTT
*
95566469 TTTAACTTAATGAATTATTT
1 TTTAAATTAATGAATTATTT
95566489 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTAAATTAATGAATTATTT
Found at i:95570281 original size:15 final size:15
Alignment explanation
Indices: 95570261--95570291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95570251 GTAGGGAAGA
*
95570261 ACCATTTTCAAAATT
1 ACCATTTCCAAAATT
95570276 ACCATTTCCAAAATT
1 ACCATTTCCAAAATT
95570291 A
1 A
95570292 TGGCCTGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
ACCATTTCCAAAATT
Found at i:95572117 original size:23 final size:23
Alignment explanation
Indices: 95572087--95572139 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
95572077 TTCTCCAGAT
*
95572087 AGCTTCTCCCG-ATAATCATGGTG
1 AGCTTCT-CCGAATAATCATAGTG
95572110 AGCTTCTCCGAATAATCATAGTG
1 AGCTTCTCCGAATAATCATAGTG
95572133 AGCTTCT
1 AGCTTCT
95572140 AAGAATACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (23 bp):
AGCTTCTCCGAATAATCATAGTG
Found at i:95572145 original size:23 final size:23
Alignment explanation
Indices: 95572098--95572146 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
95572088 GCTTCTCCCG
* **
95572098 ATAATCATGGTGAGCTTCTCCGA
1 ATAATCATAGTGAGCTTCTAAGA
95572121 ATAATCATAGTGAGCTTCTAAGA
1 ATAATCATAGTGAGCTTCTAAGA
95572144 ATA
1 ATA
95572147 CATTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (23 bp):
ATAATCATAGTGAGCTTCTAAGA
Found at i:95583608 original size:26 final size:24
Alignment explanation
Indices: 95583578--95583625 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
95583568 ATAAAAAAAA
*
95583578 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
95583604 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
95583626 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:95583637 original size:22 final size:21
Alignment explanation
Indices: 95583566--95583654 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
95583556 TTATTTTATT
* *
95583566 AAATAAAAAAAAT-TAAAAAT
1 AAATAAAAAAAATATTAAAAC
*
95583586 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
95583610 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
95583632 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
95583653 AA
1 AA
95583655 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 26 0.47
22 12 0.22
23 10 0.18
24 1 0.02
25 5 0.09
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:95586111 original size:21 final size:21
Alignment explanation
Indices: 95586087--95586139 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
95586077 AAATAATTTG
95586087 TATTAAAAATAGTTT-AAAAAA
1 TATTAAAAAT-GTTTAAAAAAA
*
95586108 TATTATATAAATTTTTAAAAAAA
1 TATTA-A-AAATGTTTAAAAAAA
95586131 TAATTAAAA
1 T-ATTAAAA
95586140 TATAATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 12 0.44
24 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATTAAAAATGTTTAAAAAAA
Found at i:95591584 original size:3 final size:3
Alignment explanation
Indices: 95591576--95591608 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
95591566 ATTCCTGTTT
95591576 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
95591609 AATGGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:95596046 original size:14 final size:14
Alignment explanation
Indices: 95596027--95596094 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
95596017 ACAAATCTTT
*
95596027 AAACCCTGAACCCC
1 AAACCCTAAACCCC
**
95596041 AAACCC-ATAACCAA
1 AAACCCTA-AACCCC
*
95596055 AAACCCTAAACCCT
1 AAACCCTAAACCCC
* *
95596069 AAACCTTAAAACCC
1 AAACCCTAAACCCC
*
95596083 AAACCTTAAACC
1 AAACCCTAAACC
95596095 TTGGGGTTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
14 42 0.98
15 1 0.02
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (14 bp):
AAACCCTAAACCCC
Found at i:95596073 original size:21 final size:21
Alignment explanation
Indices: 95596038--95596095 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
95596028 AACCCTGAAC
95596038 CCCAAACCC-ATAACC-AAAAA
1 CCCAAACCCTA-AACCTAAAAA
*
95596058 CCCTAAACCCTAAACCTTAAAA
1 CCC-AAACCCTAAACCTAAAAA
*
95596080 CCCAAACCTTAAACCT
1 CCCAAACCCTAAACCT
95596096 TGGGGTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 22 0.67
22 8 0.24
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (21 bp):
CCCAAACCCTAAACCTAAAAA
Found at i:95596096 original size:21 final size:22
Alignment explanation
Indices: 95596054--95596096 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
95596044 CCCATAACCA
95596054 AAAACCCTAAACCCTAAACCTT
1 AAAACCCTAAACCCTAAACCTT
*
95596076 AAAACCC-AAACCTTAAACCTT
1 AAAACCCTAAACCCTAAACCTT
95596097 GGGGTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAACCCTAAACCCTAAACCTT
Found at i:95603561 original size:60 final size:59
Alignment explanation
Indices: 95603458--95603581 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 59
95603448 TTTTACGAAA
* * * **
95603458 TTTATATTTCTTTACATTTTATATATTTTTCTTACGACGTTATAAAATTTTATAAATTTT
1 TTTATATTTCTATACATTTTATAAATTTTTCTTACAACGTTATAAAAAATTA-AAATTTT
* ** *
95603518 TTTATATTTCTATATATTTTATAAATTTTT-TTACAATTTTTATAAAAAATTACAATTTT
1 TTTATATTTCTATACATTTTATAAATTTTTCTTACAA-CGTTATAAAAAATTAAAATTTT
95603577 TTTAT
1 TTTAT
95603582 GTTTTTACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
59 16 0.30
60 38 0.70
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (59 bp):
TTTATATTTCTATACATTTTATAAATTTTTCTTACAACGTTATAAAAAATTAAAATTTT
Found at i:95603627 original size:24 final size:25
Alignment explanation
Indices: 95603583--95603634 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
95603573 TTTTTTTATG
* *
95603583 TTTTTACTATTTATATATATTATAA
1 TTTTTAATATTTATATATATTAAAA
95603608 TTTTTAATATTTGA-AT-TATTAAAA
1 TTTTTAATATTT-ATATATATTAAAA
95603632 TTT
1 TTT
95603635 AATAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 13 0.54
26 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTAATATTTATATATATTAAAA
Found at i:95603678 original size:11 final size:10
Alignment explanation
Indices: 95603659--95603690 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
95603649 CTTTTATTGA
95603659 TTTTAATTTT
1 TTTTAATTTT
95603669 TTTATAATTTT
1 TTT-TAATTTT
95603680 TTTTAATTTT
1 TTTTAATTTT
95603690 T
1 T
95603691 AATAAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:95608445 original size:18 final size:19
Alignment explanation
Indices: 95608394--95608449 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
95608384 TACAAAAAAG
*
95608394 AATTCAAAACATTTTTTAAA
1 AATTCAAAACA-TTTATAAA
*
95608414 AATTCAAAATATTTATAAA
1 AATTCAAAACATTTATAAA
*
95608433 AATTC-CAACATTTATAA
1 AATTCAAAACATTTATAA
95608450 TCTTTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 10 0.31
19 12 0.38
20 10 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAACATTTATAAA
Found at i:95616598 original size:30 final size:30
Alignment explanation
Indices: 95616562--95616621 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
95616552 CTTGAAAACT
95616562 GAACTATTAACTTGTTCAAAATCATTTAAC
1 GAACTATTAACTTGTTCAAAATCATTTAAC
95616592 GAACTATTAACTTGTTCAAAATCATTTAAC
1 GAACTATTAACTTGTTCAAAATCATTTAAC
95616622 TCGAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (30 bp):
GAACTATTAACTTGTTCAAAATCATTTAAC
Found at i:95616970 original size:27 final size:27
Alignment explanation
Indices: 95616922--95616976 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
95616912 AATGTATTTT
*
95616922 TGGGTTGGGTTTTTGGAATTTAAGTTA
1 TGGGTTGGGTTTTTGGAATTTAAATTA
*
95616949 TGGGTTGGGTTTTTAGG-GTTTAAATTA
1 TGGGTTGGGTTTTT-GGAATTTAAATTA
95616976 T
1 T
95616977 ATCATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (27 bp):
TGGGTTGGGTTTTTGGAATTTAAATTA
Found at i:95617553 original size:13 final size:12
Alignment explanation
Indices: 95617493--95617550 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
95617483 ATTTACACGT
95617493 TTAA-TTTTTAA
1 TTAATTTTTTAA
*
95617504 TTAATTTTGTAA
1 TTAATTTTTTAA
* *
95617516 ATAATATTTT--
1 TTAATTTTTTAA
*
95617526 TTAATTATTGTAA
1 TTAATT-TTTTAA
95617539 TTAATTTTTTAA
1 TTAATTTTTTAA
95617551 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
10 4 0.11
11 7 0.20
12 18 0.51
13 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TTAATTTTTTAA
Found at i:95626180 original size:21 final size:22
Alignment explanation
Indices: 95626155--95626204 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
95626145 GGGTGATTTA
*
95626155 ATAAATAATAT-AAAATTAATT
1 ATAAAAAATATCAAAATTAATT
95626176 ATAAAAAATATGCAAAATTAA--
1 ATAAAAAATAT-CAAAATTAATT
95626197 ATAAAAAA
1 ATAAAAAA
95626205 CTAAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
ATAAAAAATATCAAAATTAATT
Found at i:95627273 original size:6 final size:6
Alignment explanation
Indices: 95627262--95627336 Score: 105
Period size: 6 Copynumber: 12.5 Consensus size: 6
95627252 TCCAAAAGGT
* * * *
95627262 AGAGAG AGAGAG AGAGAG AGAGAG AGAGGG AGAGGG AGAGGG AGAGGG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG
*
95627310 AGAGGG AGAGGG AGAGGG AGAGAG AGA
1 AGAGGG AGAGGG AGAGGG AGAGGG AGA
95627337 TAACAAAAAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:95629506 original size:30 final size:30
Alignment explanation
Indices: 95629462--95629522 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
95629452 AAAGAATTGC
* * * * *
95629462 TGCTTTTTTTTTGTTTTTTTACTGTTTTGT
1 TGCTATTTTCTTGTTTTCTCACTATTTTGT
95629492 TGCTATTTTCTTGTTTTCTCACTATTTTGT
1 TGCTATTTTCTTGTTTTCTCACTATTTTGT
95629522 T
1 T
95629523 ATTATTTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.07, C:0.11, G:0.11, T:0.70
Consensus pattern (30 bp):
TGCTATTTTCTTGTTTTCTCACTATTTTGT
Found at i:95629529 original size:30 final size:30
Alignment explanation
Indices: 95629467--95629529 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
95629457 ATTGCTGCTT
* * * * *
95629467 TTTTTTTGTTTTTTTACTGTTTTGTTGCTA
1 TTTTCTTGTTTTCTCACTATTTTGTTACTA
*
95629497 TTTTCTTGTTTTCTCACTATTTTGTTATTA
1 TTTTCTTGTTTTCTCACTATTTTGTTACTA
95629527 TTT
1 TTT
95629530 CATTATTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (30 bp):
TTTTCTTGTTTTCTCACTATTTTGTTACTA
Found at i:95630502 original size:28 final size:26
Alignment explanation
Indices: 95630471--95630530 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
95630461 TTTTAAAAGA
*
95630471 TTAAATCAAAATTTTATTTTTTAGTAAT
1 TTAAAT-AAAATTTTA-CTTTTAGTAAT
* *
95630499 TTAAAATATAATTTTACTTTTATTAAT
1 TT-AAATAAAATTTTACTTTTAGTAAT
95630526 TTAAA
1 TTAAA
95630531 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 10 0.36
29 4 0.14
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAATAAAATTTTACTTTTAGTAAT
Found at i:95630527 original size:27 final size:28
Alignment explanation
Indices: 95630480--95630532 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
95630470 ATTAAATCAA
*
95630480 AATTTTATTTTTTAGTAATTTAAAATAT
1 AATTTTATCTTTTAGTAATTTAAAATAT
*
95630508 AATTTTA-CTTTTATTAATTTAAAAT
1 AATTTTATCTTTTAGTAATTTAAAAT
95630533 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTATCTTTTAGTAATTTAAAATAT
Found at i:95632873 original size:7 final size:7
Alignment explanation
Indices: 95632858--95632919 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
95632848 TTTTAAGTAA
*
95632858 TTAACAT
1 TTAAAAT
95632865 TTAAAAT
1 TTAAAAT
*
95632872 TTAAAGT
1 TTAAAAT
* *
95632879 TTAAGAG
1 TTAAAAT
**
95632886 TTAAGTT
1 TTAAAAT
95632893 TTAAAAT
1 TTAAAAT
95632900 TTAAAAT
1 TTAAAAT
* *
95632907 TGAAATT
1 TTAAAAT
95632914 TTAAAA
1 TTAAAA
95632920 GAAAAATGTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:95634817 original size:24 final size:25
Alignment explanation
Indices: 95634779--95634825 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
95634769 TAATTTAATT
*
95634779 TATTAAAAATTATAAAAATATAAAC
1 TATTAAAAATAATAAAAATATAAAC
*
95634804 TATT-AAAATAATAAAATTATAA
1 TATTAAAAATAATAAAAATATAA
95634826 TTTTATTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TATTAAAAATAATAAAAATATAAAC
Found at i:95637493 original size:14 final size:14
Alignment explanation
Indices: 95637474--95637504 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95637464 GACAAATTTT
95637474 AAATATAAACCATA
1 AAATATAAACCATA
*
95637488 AAATATAAATCATA
1 AAATATAAACCATA
95637502 AAA
1 AAA
95637505 CAGATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATATAAACCATA
Found at i:95648759 original size:19 final size:19
Alignment explanation
Indices: 95648735--95648790 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
95648725 TAAATCTTGA
95648735 AATTTTTATAAATATTTTG
1 AATTTTTATAAATATTTTG
* *
95648754 AATTTTGA-AAGTTATTTTG
1 AATTTTTATAA-ATATTTTG
* *
95648773 ATTTTTTTTAAAT-TTTTG
1 AATTTTTATAAATATTTTG
95648791 TGGAGAAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 7 0.24
19 20 0.69
20 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (19 bp):
AATTTTTATAAATATTTTG
Found at i:95649254 original size:15 final size:16
Alignment explanation
Indices: 95649234--95649264 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
95649224 CAAAATTTGA
95649234 ATTTAATAA-TAAATT
1 ATTTAATAAGTAAATT
95649249 ATTTAATAAGTAAATT
1 ATTTAATAAGTAAATT
95649265 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTAATAAGTAAATT
Found at i:95649845 original size:21 final size:21
Alignment explanation
Indices: 95649807--95649847 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
95649797 AGCTAATATG
* **
95649807 GGATTAATATTATTTTTTAAA
1 GGATTAAAATTAACTTTTAAA
95649828 GGATTAAAATTAACTTTTAA
1 GGATTAAAATTAACTTTTAA
95649848 TTAAGATACT
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:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (21 bp):
GGATTAAAATTAACTTTTAAA
Found at i:95650141 original size:74 final size:69
Alignment explanation
Indices: 95650046--95650240 Score: 169
Period size: 69 Copynumber: 2.8 Consensus size: 69
95650036 ATGAGAGTGC
** * *
95650046 TCTCTAGTCAATGTTGGATTAAAATTAACATTTTAATTTAATGAAAATAGTGAAGAAGTTAGCTA
1 TCTCTAGTCAATCATGGATTAAAAGTAA-A--TT--TTTAATGAAAATAGTGAAGAAGTGAGCTA
* *
95650111 TATGAGTAT
61 CAAGAGTAT
*
95650120 TCTCTAGTCAA-CATGGAATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAGGTGAGCTACAAG
1 TCTCTAGTCAATCATGG-ATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAAGTGAGCTACAAG
95650184 AGTAT
65 AGTAT
* * * * * * * **
95650189 TTTTTGGTTAAT-GTGAGATTAAAATTAACTTTTTAACAAAAATAGTGAAGAA
1 TCTCTAGTCAATCATG-GATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAA
95650241 ATTATCACTT
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
69 73 0.72
70 1 0.01
71 2 0.02
73 4 0.04
74 21 0.21
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (69 bp):
TCTCTAGTCAATCATGGATTAAAAGTAAATTTTTAATGAAAATAGTGAAGAAGTGAGCTACAAGA
GTAT
Found at i:95651932 original size:63 final size:63
Alignment explanation
Indices: 95651854--95651981 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
95651844 TATTCTAACG
95651854 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
1 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
95651917 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
1 TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
95651980 TA
1 TA
95651982 CGTGTGATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (63 bp):
TATACTAATTTAAAACAGGTTGGTGAGGTTTCAGGTAGGTTTTATGCATATGAATATGAATTT
Found at i:95653305 original size:4 final size:4
Alignment explanation
Indices: 95653298--95653323 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
95653288 TATATATGAG
95653298 ATGC ATGC ATGC ATGC ATGC ATGC AT
1 ATGC ATGC ATGC ATGC ATGC ATGC AT
95653324 AACTTGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGC
Found at i:95654482 original size:13 final size:12
Alignment explanation
Indices: 95654466--95654509 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
95654456 AATAAAAATT
*
95654466 AAAAAATCTAAA
1 AAAAAACCTAAA
95654478 AAAAAACCTAAA
1 AAAAAACCTAAA
95654490 ACAAAAACCCTAAA
1 A-AAAAA-CCTAAA
95654504 CAAAAA
1 -AAAAA
95654510 TCTTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.43
13 5 0.18
14 10 0.36
15 1 0.04
ACGTcount: A:0.73, C:0.18, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAAAACCTAAA
Found at i:95654516 original size:13 final size:13
Alignment explanation
Indices: 95654474--95654516 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
95654464 TTAAAAAATC
*
95654474 TAAAAAAAAACCT
1 TAAACAAAAACCT
* *
95654487 AAAACAAAAACCC
1 TAAACAAAAACCT
*
95654500 TAAACAAAAATCT
1 TAAACAAAAACCT
95654513 TAAA
1 TAAA
95654517 AATCCTAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.14
Consensus pattern (13 bp):
TAAACAAAAACCT
Found at i:95654937 original size:21 final size:23
Alignment explanation
Indices: 95654911--95654955 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
95654901 CATATTATTC
*
95654911 TTTAAATAA-TAAAAT-GAGTCA
1 TTTAAACAAGTAAAATCGAGTCA
*
95654932 TTTAAACAAGTTAAATCGAGTCA
1 TTTAAACAAGTAAAATCGAGTCA
95654955 T
1 T
95654956 GCTATAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TTTAAACAAGTAAAATCGAGTCA
Found at i:95658644 original size:29 final size:30
Alignment explanation
Indices: 95658596--95658654 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95658586 GAATTGGATC
* *
95658596 AAATCAAAATTTTATGTATAAAATTACATA
1 AAATCAAAAGTTTATATATAAAATTACATA
*
95658626 AAATC-AAAGTTTATATATATAATTACATA
1 AAATCAAAAGTTTATATATAAAATTACATA
95658655 TTAAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATCAAAAGTTTATATATAAAATTACATA
Found at i:95658665 original size:31 final size:29
Alignment explanation
Indices: 95658606--95658667 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
95658596 AAATCAAAAT
* *
95658606 TTTATGTATAAAATTACATAAAATCAAAG
1 TTTATATATAAAATTACATAAAACCAAAG
*
95658635 TTTATATATATAATTACATATTAAACCAAAG
1 TTTATATATAAAATTACATA--AAACCAAAG
95658666 TT
1 TT
95658668 CACGTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 18 0.64
31 10 0.36
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTATATATAAAATTACATAAAACCAAAG
Found at i:95664873 original size:16 final size:16
Alignment explanation
Indices: 95664852--95664903 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
95664842 TTTGGTTCGC
95664852 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
95664868 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
95664884 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
95664900 TGTA
1 TGTA
95664904 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:95664978 original size:44 final size:45
Alignment explanation
Indices: 95664884--95664978 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
95664874 GGATTAGAGG
* * *
95664884 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATACAGGCGTAATAGCAAAACAACTGTTTGGTTGAA
* *
95664929 TGTAATGGAATACAGGCGTAATAGTAAAAC-TCTGTTTGGTTGAA
1 TGTAATGGAATACAGGCGTAATAGCAAAACAACTGTTTGGTTGAA
95664973 TGTAAT
1 TGTAAT
95664979 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 19 0.42
45 26 0.58
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (45 bp):
TGTAATGGAATACAGGCGTAATAGCAAAACAACTGTTTGGTTGAA
Found at i:95665161 original size:18 final size:17
Alignment explanation
Indices: 95665140--95665174 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
95665130 TTATTATTTA
95665140 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
95665158 ATATATTTTAATAAAAT
1 ATATATTTTAATAAAAT
95665175 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:95665343 original size:47 final size:46
Alignment explanation
Indices: 95665277--95665443 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
95665267 TTAATTAAAA
*
95665277 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
95665324 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
95665369 TA-AT-AATAATATATAATTTCATAAA-ATTTTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAATTATAATAATAAATTATCT
*
95665415 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
95665444 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
43 3 0.03
44 11 0.12
45 18 0.20
46 17 0.18
47 36 0.39
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:95665365 original size:26 final size:28
Alignment explanation
Indices: 95665336--95665407 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
95665326 TATGAATTTG
*
95665336 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
95665362 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
95665390 TAAAATTTTTAATAATAA
1 TATAA--TTTAATAATAA
95665408 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
30 11 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:95665603 original size:22 final size:22
Alignment explanation
Indices: 95665575--95665619 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
95665565 ACTAAGCTTG
95665575 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
95665597 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
95665619 A
1 A
95665620 GTTAAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:95670460 original size:14 final size:15
Alignment explanation
Indices: 95670426--95670454 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95670416 AGGGTGTTAC
95670426 AGATACAAAAATATT
1 AGATACAAAAATATT
95670441 AGATACAAAAATAT
1 AGATACAAAAATAT
95670455 CGATACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AGATACAAAAATATT
Found at i:95681166 original size:20 final size:20
Alignment explanation
Indices: 95681141--95681190 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
95681131 TGGCTTAAAA
95681141 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
95681161 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
95681178 GTGGTAGTGGATT
1 TTGGTAGTGGATT
95681191 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:95685806 original size:20 final size:20
Alignment explanation
Indices: 95685781--95685830 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
95685771 TGGCTTAAAA
95685781 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
95685801 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
95685818 GTGGTAGTGGATT
1 TTGGTAGTGGATT
95685831 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:95687284 original size:57 final size:58
Alignment explanation
Indices: 95687183--95687296 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 58
95687173 GTGTAAATCA
*
95687183 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTTATTTTT
1 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTT
* *
95687241 ATTAATTGGAATATATGT-TTTTTTTTCTCTTGTCCCCTCCTCATGGAAGTAATTTT
1 ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTT
95687297 CATATTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 35 0.66
58 18 0.34
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (58 bp):
ATTAATTGGAATATATGTATTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTT
Found at i:95687318 original size:57 final size:57
Alignment explanation
Indices: 95687202--95687320 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 57
95687192 AATATATGTA
* * * * * *
95687202 TTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTTATTTTTATTAATTGGAATATATGT
1 TTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTCATTAATTAGAAGACAGGT
* * * *
95687259 TTTTTTTTCTCTTGTCCCCTCCTCATGGAAGTAATTTTCA-TATTTATAAGACACGGT
1 TTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTCATTAATTAGAAGACA-GGT
95687316 TTTTT
1 TTTTT
95687321 AATGGAACGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 8 0.16
57 43 0.84
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (57 bp):
TTTTTTTTCTCTGGTCCCCTCCTCATGAAAGTAATTTTCATTAATTAGAAGACAGGT
Found at i:95689066 original size:30 final size:31
Alignment explanation
Indices: 95689032--95689093 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
95689022 AGGGGAACAG
95689032 AGCAGATAGATGGGTAGTTGGCT-TTTTTAT
1 AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
*
95689062 AGCAGATAGATGGGTAGTTGGGTCTTTTTAT
1 AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
95689093 A
1 A
95689094 AAACTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.24, C:0.06, G:0.31, T:0.39
Consensus pattern (31 bp):
AGCAGATAGATGGGTAGTTGGCTCTTTTTAT
Found at i:95698473 original size:33 final size:33
Alignment explanation
Indices: 95698436--95698572 Score: 134
Period size: 33 Copynumber: 4.2 Consensus size: 33
95698426 ATGGTACAAG
* *
95698436 TTGAAAAGGTTAGGTATACTTTGTGTATACCAC
1 TTGAAAAGGTTAGGTACACTTTGTGTGTACCAC
** * *
95698469 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGTTAGGTACACTTTGTGTGTACCAC
* * ** *
95698501 TTGAAAAGGTTATGTGCACTTTGTGTGTATAAA
1 TTGAAAAGGTTAGGTACACTTTGTGTGTACCAC
* * *
95698534 TTGAAAAGGGTATGTACACTTCGTGTGTACCAC
1 TTGAAAAGGTTAGGTACACTTTGTGTGTACCAC
95698567 TT-AAAA
1 TTGAAAA
95698573 TGGGAGTGTA
Statistics
Matches: 83, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
32 30 0.36
33 53 0.64
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (33 bp):
TTGAAAAGGTTAGGTACACTTTGTGTGTACCAC
Found at i:95702768 original size:62 final size:62
Alignment explanation
Indices: 95702702--95702829 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
95702692 TCAAGAACCA
95702702 AAATTAATGCTGAGATCAATTTTTCACCATATTTGGAAAGATAAAAATAAAACAAGGTAATC
1 AAATTAATGCTGAGATCAATTTTTCACCATATTTGGAAAGATAAAAATAAAACAAGGTAATC
95702764 AAATTAATGCTGAGATCAATTTTTCACCATATTTGGAAAGATAAAAATAAAACAAGGTAATC
1 AAATTAATGCTGAGATCAATTTTTCACCATATTTGGAAAGATAAAAATAAAACAAGGTAATC
95702826 AAAT
1 AAAT
95702830 CAATTATAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (62 bp):
AAATTAATGCTGAGATCAATTTTTCACCATATTTGGAAAGATAAAAATAAAACAAGGTAATC
Done.