Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 82 of 290
Found at i:24975090 original size:40 final size:39
Alignment explanation
Indices: 24975035--24975128 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
24975025 CATCAGACAG
*
24975035 AAGCTCATAAGAGCTGATCCAACCAAAATACGCCAAACAA
1 AAGCTCATAAGAGCTGATCCAACCAAAACACGCC-AACAA
* * * * * *
24975075 AAGCTTATAAGAGCTGCTCCACCCGAAACATGCCAACAG
1 AAGCTCATAAGAGCTGATCCAACCAAAACACGCCAACAA
24975114 AAGCTCATAAGAGCT
1 AAGCTCATAAGAGCT
24975129 AAGCAGAAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 18 0.39
40 28 0.61
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.15
Consensus pattern (39 bp):
AAGCTCATAAGAGCTGATCCAACCAAAACACGCCAACAA
Found at i:25006515 original size:20 final size:21
Alignment explanation
Indices: 25006481--25006536 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
25006471 TGATGATATT
*
25006481 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
25006502 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
25006522 TTTTATTATTTTAAT
1 TTATATTATTTTAAT
25006537 ATTATTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 14 0.45
21 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:25006527 original size:18 final size:20
Alignment explanation
Indices: 25006486--25006536 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
25006476 ATATTTTATG
*
25006486 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
25006505 ATTATTTTAATGAGATATTTT
1 ATTATTTTAATGAGATA-TAT
25006526 ATTATTTTAAT
1 ATTATTTTAAT
25006537 ATTATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:25006541 original size:11 final size:11
Alignment explanation
Indices: 25006524--25006562 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
25006514 ATGAGATATT
25006524 TTATTATTTTA
1 TTATTATTTTA
* *
25006535 ATATTATTTCA
1 TTATTATTTTA
25006546 TTATTATTTTA
1 TTATTATTTTA
25006557 TTATTA
1 TTATTA
25006563 ATTATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:25008751 original size:46 final size:46
Alignment explanation
Indices: 25008698--25008835 Score: 222
Period size: 46 Copynumber: 3.0 Consensus size: 46
25008688 AGTGTGCTCT
* *
25008698 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25008744 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
25008790 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25008836 ATGACAGAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25008856 original size:46 final size:46
Alignment explanation
Indices: 25008699--25008859 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 46
25008689 GTGTGCTCTC
** * * *
25008699 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATAGCAACC
1 TGATATGAAATAAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
25008745 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATAAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
25008791 TGATATGAAATGAA-CAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAAT-AAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
25008837 TGACA-GAAAATAAGTAAGACCAT
1 TGATATG-AAATAAGTAAGACCAT
25008860 AGTTAACAGA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
45 3 0.03
46 100 0.97
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
TGATATGAAATAAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:25008878 original size:46 final size:45
Alignment explanation
Indices: 25008759--25008901 Score: 126
Period size: 46 Copynumber: 3.1 Consensus size: 45
25008749 ATGAAATGTG
* * * * * *
25008759 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGACA-AAAATAAA
* * * *
25008805 CAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAAG
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGACA-AAAATAAA
* * * *
25008851 TAAGACCATAGTT-AACAGACACTATGGCATCATGTCAAAGATAAA
1 TAAGACCATAGTTGAA-AGACACCATGGCAACATGACAAAAATAAA
25008896 TAAGAC
1 TAAGAC
25008902 TGTGGATGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 14 0.17
46 67 0.83
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACATGACAAAAATAAA
Found at i:25008878 original size:92 final size:92
Alignment explanation
Indices: 25008699--25008879 Score: 222
Period size: 92 Copynumber: 2.0 Consensus size: 92
25008689 GTGTGCTCTC
*** * * * **
25008699 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATAGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACATGAAATAAGTAAGA
* *
25008764 CCATGGTTGAAAGATACCATGGCAACG
66 CCATAGTTGAAAGACACCATGGCAACG
*
25008791 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATAAGTAAG
1 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACATG-AAATAAGTAAG
*
25008855 ACCATAGTT-AACAGACACTATGGCA
65 ACCATAGTTGAA-AGACACCATGGCA
25008880 TCATGTCAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
91 3 0.04
92 72 0.96
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (92 bp):
TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACATGAAATAAGTAAGA
CCATAGTTGAAAGACACCATGGCAACG
Found at i:25017488 original size:23 final size:23
Alignment explanation
Indices: 25017468--25017522 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
25017458 CACCAACCTT
25017468 GCACACCATCTCCGTCCAACCCA
1 GCACACCATCTCCGTCCAACCCA
25017491 GCACACCATCTCCGTCCAACCCA
1 GCACACCATCTCCGTCCAACCCA
25017514 GCACACCAT
1 GCACACCAT
25017523 GTAGGGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.51, G:0.09, T:0.13
Consensus pattern (23 bp):
GCACACCATCTCCGTCCAACCCA
Found at i:25017602 original size:40 final size:40
Alignment explanation
Indices: 25017526--25017602 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
25017516 ACACCATGTA
* * * *
25017526 GGGATAAAATTAACCCACCCAGCCCTACACACCAAGTATG
1 GGGATAAAATCAACCCAACCAACCCTACACAACAAGTATG
* *
25017566 GGGATAGAATCAACCCAACCAACCCTACATAACAAGT
1 GGGATAAAATCAACCCAACCAACCCTACACAACAAGT
25017603 GGTACCGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.40, C:0.31, G:0.14, T:0.14
Consensus pattern (40 bp):
GGGATAAAATCAACCCAACCAACCCTACACAACAAGTATG
Found at i:25043478 original size:27 final size:27
Alignment explanation
Indices: 25043440--25043493 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25043430 ACTAGGTGTT
*
25043440 AATTAGAAAGAGATTTTAATTAATCAA
1 AATTAGAAAGAGATTTCAATTAATCAA
25043467 AATTAGAAAGAGATTTCAATTAATCAA
1 AATTAGAAAGAGATTTCAATTAATCAA
25043494 CCTAGGGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTAGAAAGAGATTTCAATTAATCAA
Found at i:25048964 original size:6 final size:6
Alignment explanation
Indices: 25048943--25048982 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
25048933 GTTTAAAAAC
* *
25048943 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
25048983 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:25053322 original size:50 final size:50
Alignment explanation
Indices: 25053198--25053334 Score: 165
Period size: 50 Copynumber: 2.8 Consensus size: 50
25053188 AATCAATAAG
* * *
25053198 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA--ACT-TATCCCTGAG
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGAA
* * *
25053245 TACCTATACTATGGCTCGTAGCCAAATCAAGGTATTACTCT-TTACTGACA
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGA-A
* *
25053295 TACTTATACCATGGCACGTAGCTAAATCAAGGTATTACTC
1 TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTC
25053335 ACACCCGAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 32 0.42
49 8 0.10
50 37 0.48
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (50 bp):
TACCTATACCATGGCACGTAGCCAAATCAAGGTATTACTCTATCACTGAA
Found at i:25056590 original size:27 final size:27
Alignment explanation
Indices: 25056514--25056595 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
25056504 ATATCTATTT
* ** *
25056514 TGGTGCCTCTG-CTACAATATCTACATA
1 TGGTGACTCTGTC-ACAATATCTGTATC
* *
25056541 TGGTGACTCTCTCATAATATCTGTATC
1 TGGTGACTCTGTCACAATATCTGTATC
25056568 TGGTGACTCTGTCACAATATCTGT-TC
1 TGGTGACTCTGTCACAATATCTGTATC
25056594 TG
1 TG
25056596 TTAGCCATGC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.09
27 41 0.89
28 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
TGGTGACTCTGTCACAATATCTGTATC
Found at i:25059014 original size:30 final size:30
Alignment explanation
Indices: 25058980--25059041 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
25058970 AGGACCCAGG
* **
25058980 TTCGAGTTGCTATGCACGTGAAGGACTCTC
1 TTCGAGCTGCTATGCACGCAAAGGACTCTC
* *
25059010 TTCGAGCTGCTGTGCGCGCAAAGGACTCTC
1 TTCGAGCTGCTATGCACGCAAAGGACTCTC
25059040 TT
1 TT
25059042 TTTGCTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (30 bp):
TTCGAGCTGCTATGCACGCAAAGGACTCTC
Found at i:25060704 original size:27 final size:28
Alignment explanation
Indices: 25060674--25060750 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 28
25060664 ATATCTATTT
*
25060674 TGGTGCCTCTGCT-ACAATATCTGCATA
1 TGGTGACTCTGCTCACAATATCTGCATA
* * *
25060701 TGGTGACTCT-CTCATAATATCTGTATC
1 TGGTGACTCTGCTCACAATATCTGCATA
25060728 TGGTGACTCTG-TCACAATATCTG
1 TGGTGACTCTGCTCACAATATCTG
25060751 TTCTGTTAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (28 bp):
TGGTGACTCTGCTCACAATATCTGCATA
Found at i:25079909 original size:23 final size:23
Alignment explanation
Indices: 25079879--25079925 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
25079869 AGGTTTAAAA
*
25079879 AAAGAGGGTAGTCGATTTTTTTT
1 AAAGAGGGTAATCGATTTTTTTT
*
25079902 AAAGAGGGTAATCTATTTTTTTT
1 AAAGAGGGTAATCGATTTTTTTT
25079925 A
1 A
25079926 CTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
AAAGAGGGTAATCGATTTTTTTT
Found at i:25082464 original size:13 final size:13
Alignment explanation
Indices: 25082446--25082479 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25082436 GCCACATAGT
25082446 CGTGTGGCCACAC
1 CGTGTGGCCACAC
*
25082459 CGTGTGGCCAGAC
1 CGTGTGGCCACAC
*
25082472 CATGTGGC
1 CGTGTGGC
25082480 ACCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (13 bp):
CGTGTGGCCACAC
Found at i:25091303 original size:25 final size:25
Alignment explanation
Indices: 25091269--25091352 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
25091259 TGTCTAGCAA
* *
25091269 GCTTTATGCCGATGTATATTATCAG
1 GCTTTGTGCCGATGTAAATTATCAG
*
25091294 GCTTTGTGCCGGTGTAAATTAGT-AG
1 GCTTTGTGCCGATGTAAATTA-TCAG
* *
25091319 GCTTTGT-CCCAGGGTAAATTATCAG
1 GCTTTGTGCCGA-TGTAAATTATCAG
25091344 GCTTTGTGC
1 GCTTTGTGC
25091353 TTAACAGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 3 0.06
25 44 0.90
26 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (25 bp):
GCTTTGTGCCGATGTAAATTATCAG
Found at i:25094325 original size:14 final size:14
Alignment explanation
Indices: 25094299--25094336 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25094289 TCACATGACC
25094299 AATTAATTT-AATTT
1 AATT-ATTTAAATTT
*
25094313 AATTTTTTAAATTT
1 AATTATTTAAATTT
25094327 AATTATTTAA
1 AATTATTTAA
25094337 TTAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATTTAAATTT
Found at i:25097994 original size:11 final size:11
Alignment explanation
Indices: 25097944--25097994 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
25097934 ACTTTTATAA
25097944 TTTTTCAAAAT
1 TTTTTCAAAAT
*
25097955 ATTTTT-AAAAC
1 -TTTTTCAAAAT
*
25097966 TTTTTAAATAACT
1 TTTTTCAA-AA-T
25097979 TTTTTCAAAAT
1 TTTTTCAAAAT
25097990 TTTTT
1 TTTTT
25097995 GAAATTATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 5 0.15
11 12 0.36
12 9 0.27
13 7 0.21
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTCAAAAT
Found at i:25098867 original size:13 final size:13
Alignment explanation
Indices: 25098851--25098876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25098841 GTTTATTTTT
25098851 CTTCTGGAATTCA
1 CTTCTGGAATTCA
25098864 CTTCTGGAATTCA
1 CTTCTGGAATTCA
25098877 ATTATGGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTCTGGAATTCA
Found at i:25102375 original size:20 final size:20
Alignment explanation
Indices: 25102328--25102382 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
25102318 ATTCTTTTTA
*
25102328 ATTATAATATTTTTAAAATT
1 ATTATAAAATTTTTAAAATT
*
25102348 ATCA-AAAATTCTTTAAAATT
1 ATTATAAAATT-TTTAAAATT
25102368 -TTATAAAATTATTTA
1 ATTATAAAATT-TTTA
25102383 TTTATTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATAAAATTTTTAAAATT
Found at i:25103242 original size:20 final size:21
Alignment explanation
Indices: 25103215--25103263 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
25103205 TACCCTAATT
*
25103215 AATTTTTTGA-ATTTTT-A-A
1 AATTTTTTTATATTTTTGATA
25103233 AGATTTTTTTATATTTTTGATA
1 A-ATTTTTTTATATTTTTGATA
25103255 AATTTTTTT
1 AATTTTTTT
25103264 CAACATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 6 0.23
21 9 0.35
22 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
AATTTTTTTATATTTTTGATA
Found at i:25104724 original size:93 final size:93
Alignment explanation
Indices: 25104612--25104782 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25104602 GCCCATAAGT
* *
25104612 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
25104676 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
25104705 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25104770 CGAGCTCGGATGC
66 CGAGCTCGGATGC
25104783 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25104779 original size:46 final size:46
Alignment explanation
Indices: 25104604--25104779 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25104594 TGTAACCCGC
* * *
25104604 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
25104650 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
25104696 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
25104743 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
25104780 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:25112719 original size:3 final size:3
Alignment explanation
Indices: 25112711--25112762 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
25112701 TAATGGAAGG
* * * *
25112711 AAT AAT AAT AAT AGT AAT AAT AGT AAT AAT ACAG AGAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT
25112758 AAT AA
1 AAT AA
25112763 AGAAACATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 35 0.90
4 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:25119870 original size:16 final size:17
Alignment explanation
Indices: 25119849--25119886 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25119839 TTATATCAAC
25119849 AAAATAAA-AAATTTTA
1 AAAATAAACAAATTTTA
**
25119865 AAAATAAACTTATTTTA
1 AAAATAAACAAATTTTA
25119882 AAAAT
1 AAAAT
25119887 TTAAATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAACAAATTTTA
Found at i:25119999 original size:11 final size:11
Alignment explanation
Indices: 25119969--25120012 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
25119959 TTATTAAAAC
*
25119969 TTATAAAACCA
1 TTATAAAATCA
25119980 TTATAAAATCA
1 TTATAAAATCA
25119991 TTAT-AAA--A
1 TTATAAAATCA
25119999 TTATAAAATCA
1 TTATAAAATCA
25120010 TTA
1 TTA
25120013 GAAGTTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 3 0.10
11 18 0.62
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (11 bp):
TTATAAAATCA
Found at i:25120003 original size:19 final size:18
Alignment explanation
Indices: 25119979--25120043 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 18
25119969 TTATAAAACC
25119979 ATTATAAAATCATTATAAA
1 ATTATAAAATCATTA-AAA
*
25119998 ATTATAAAATCATTAGAA
1 ATTATAAAATCATTAAAA
*
25120016 GTTATAGAAAATCA-TAAAA
1 ATTAT--AAAATCATTAAAA
25120035 ATTATAAAA
1 ATTATAAAA
25120044 ACCATAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 23 0.57
20 7 0.17
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTATAAAATCATTAAAA
Found at i:25124144 original size:25 final size:25
Alignment explanation
Indices: 25124078--25124160 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 25
25124068 ATAGTGACAA
* *
25124078 TGGCACTTCGATGCAAATCAATGATGG
1 TGGCACTTCGATGCAAATC-A-GTTAG
* *
25124105 TGGTACTTCGGTGCAAATCAGTTAG
1 TGGCACTTCGATGCAAATCAGTTAG
* *
25124130 TGGCACCTCGATGCAATTCAGTGATAG
1 TGGCACTTCGATGCAAATCAGT--TAG
25124157 TGGC
1 TGGC
25124161 TCATTGGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 21 0.46
26 1 0.02
27 24 0.52
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (25 bp):
TGGCACTTCGATGCAAATCAGTTAG
Found at i:25131585 original size:37 final size:37
Alignment explanation
Indices: 25131502--25131587 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
25131492 GATAAGATAA
**
25131502 TCTGCTGGACTTATCCGTATGTTTCAAGCTAAAACAG
1 TCTGCTGGACTTATCCGTACATTTCAAGCTAAAACAG
* * *
25131539 TCCGCTGGACTTATCCTTACATTTCAAGCTAAGATC-G
1 TCTGCTGGACTTATCCGTACATTTCAAGCTAA-AACAG
*
25131576 TCTGTTGGACTT
1 TCTGCTGGACTT
25131588 GTCTCTAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 39 0.95
38 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (37 bp):
TCTGCTGGACTTATCCGTACATTTCAAGCTAAAACAG
Found at i:25131727 original size:28 final size:28
Alignment explanation
Indices: 25131704--25131818 Score: 117
Period size: 28 Copynumber: 4.1 Consensus size: 28
25131694 TGTACATATA
25131704 AATCTGCATATATGATTTCGTA-CATATG
1 AATCTGCATATATGATTTCGTATC-TATG
*
25131732 AAT-TAGCATATAAGATTTCGTATCTATG
1 AATCT-GCATATATGATTTCGTATCTATG
* * *
25131760 AATCTGCCTATGTGATTTTGTATCTATG
1 AATCTGCATATATGATTTCGTATCTATG
* * ** *
25131788 AATCTGCCTATGTGATCACGTTTCTATG
1 AATCTGCATATATGATTTCGTATCTATG
25131816 AAT
1 AAT
25131819 TTCACCTATG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 72 0.96
29 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (28 bp):
AATCTGCATATATGATTTCGTATCTATG
Found at i:25138243 original size:24 final size:24
Alignment explanation
Indices: 25138216--25138265 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25138206 GGTTATGAAG
25138216 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
25138240 TTCAACTCCACTTACTTATTTTAT
1 TTCAACTCCACTTACTTATTTTAT
25138264 TT
1 TT
25138266 TCGATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (24 bp):
TTCAACTCCACTTACTTATTTTAT
Found at i:25145306 original size:27 final size:27
Alignment explanation
Indices: 25145287--25145432 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
25145277 ATTACCAAAG
* *
25145287 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
25145314 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
25145341 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
25145368 TATCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
25145395 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
25145422 TACCCTCGATT
1 TACCCTCGATT
25145433 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:25145453 original size:27 final size:26
Alignment explanation
Indices: 25145422--25145588 Score: 106
Period size: 27 Copynumber: 6.2 Consensus size: 26
25145412 ATTACCGTTT
* *
25145422 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCTAGATTGTGAAATTACCGAAA
* ** *
25145448 TAACCCTATAGGGT-AGAATTACCAAAA
1 T-ACCCTAGATTGTGA-AATTACCGAAA
* *
25145475 TACCCCTAGTTTGTAAAATTACCGAAA
1 TA-CCCTAGATTGTGAAATTACCGAAA
* *
25145502 TACCACTAGTTTGTGAAATTACTGAAA
1 TACC-CTAGATTGTGAAATTACCGAAA
* *
25145529 TACCCTCA-ATTTGTAAAATTACCAAAA
1 TACCCT-AGA-TTGTGAAATTACCGAAA
* * *
25145556 TACCCCT-GATTTATAAAATTACAGAAA
1 TA-CCCTAGA-TTGTGAAATTACCGAAA
25145583 TACCCT
1 TACCCT
25145589 TGACTTTCTA
Statistics
Matches: 112, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.10
27 96 0.86
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
TACCCTAGATTGTGAAATTACCGAAA
Found at i:25145454 original size:54 final size:54
Alignment explanation
Indices: 25145287--25145432 Score: 213
Period size: 54 Copynumber: 2.7 Consensus size: 54
25145277 ATTACCAAAG
* *
25145287 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACT-ATTT
* * * *
25145341 TACCCTTGATTTATAGAATTACCGTTTTATCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
*
25145395 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
25145433 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 79 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:25145549 original size:81 final size:81
Alignment explanation
Indices: 25145431--25145586 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
25145421 TTACCCTCGA
* *
25145431 TTGTGAAATTACTGAAATAACCCTATAGGGTAGAATTACCAAAATACCCCT-AGTTTGTAAAATT
1 TTGTGAAATTACTGAAATAACCCTATAGGGTAAAATTACCAAAATACCCCTGA-TTTATAAAATT
*
25145495 ACCGAAATACCACTAGT
65 ACAGAAATACCACTAGT
**
25145512 TTGTGAAATTACTGAAAT-ACCCTCA-ATTTGTAAAATTACCAAAATACCCCTGATTTATAAAAT
1 TTGTGAAATTACTGAAATAACCCT-ATA-GGGTAAAATTACCAAAATACCCCTGATTTATAAAAT
25145575 TACAGAAATACC
64 TACAGAAATACC
25145587 CTTGACTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 6 0.09
81 60 0.90
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATAACCCTATAGGGTAAAATTACCAAAATACCCCTGATTTATAAAATTA
CAGAAATACCACTAGT
Found at i:25145575 original size:54 final size:54
Alignment explanation
Indices: 25145484--25145644 Score: 164
Period size: 54 Copynumber: 2.9 Consensus size: 54
25145474 ATACCCCTAG
* * *
25145484 TTTGTAAAATTACCGAAATACCACT-AGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGA-TTTATAAAATTACTGAAATACCCTCAA
* * * *
25145538 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTACTGAAATACCC-TCAA
* * * * *
25145593 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTGATTTATAAAATTACTGAAATACCCT
25145645 TGGTTTGTAG
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 43 0.48
55 9 0.10
56 37 0.42
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTACTGAAATACCCTCAA
Found at i:25145610 original size:29 final size:27
Alignment explanation
Indices: 25145464--25145643 Score: 118
Period size: 27 Copynumber: 6.6 Consensus size: 27
25145454 TATAGGGTAG
*
25145464 AATTACCA-AAATACCCCT-AGTTTGTAA
1 AATTA-CAGAAATACCCCTGA-TTTATAA
* * * *
25145491 AATTACCGAAATACCACT-AGTTTGTGA
1 AATTACAGAAATACCCCTGA-TTTATAA
* * *
25145518 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACAGAAATACCCCT-GATTTATAA
25145545 AATTACCA-AAATACCCCTGATTTATAA
1 AATTA-CAGAAATACCCCTGATTTATAA
* *
25145572 AATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACAGAAATACCCCTGA-TTTAT-AA
* ** * *
25145601 AATTATAGAAATACCATTGGTTTACAA
1 AATTACAGAAATACCCCTGATTTATAA
*
25145628 AATTACTGAAATACCC
1 AATTACAGAAATACCC
25145644 TTGGTTTGTA
Statistics
Matches: 126, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.05
27 88 0.70
28 13 0.10
29 19 0.15
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGATTTATAA
Found at i:25145638 original size:27 final size:27
Alignment explanation
Indices: 25145599--25145650 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
25145589 TGACTTTCTA
25145599 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
25145626 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
25145651 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:25146538 original size:16 final size:16
Alignment explanation
Indices: 25146517--25146547 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25146507 CAAATATGGG
*
25146517 CATGACATTCTGCATA
1 CATGACATGCTGCATA
25146533 CATGACATGCTGCAT
1 CATGACATGCTGCAT
25146548 GGGTTGGGTT
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:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:25146612 original size:25 final size:25
Alignment explanation
Indices: 25146578--25146647 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
25146568 AGGAAGTGCT
25146578 AAAAGGGCTTTGCCCCAGTTTACCG-
1 AAAAGGGCTTTGCCCCAGTTTA-CGA
*
25146603 AAAAGGGCTTTGCCCCAGTTTATGA
1 AAAAGGGCTTTGCCCCAGTTTACGA
25146628 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25146648 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACGA
Found at i:25146660 original size:24 final size:24
Alignment explanation
Indices: 25146578--25146678 Score: 114
Period size: 25 Copynumber: 4.0 Consensus size: 24
25146568 AGGAAGTGCT
*
25146578 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
25146603 AAAAGGGCTTTGCCCCAGTTTATG
1 AAAAGGGCTTTGCCCCAGTTTATG
*
25146627 AAAAAGGGCTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTGCCCCAGTTTATG
**
25146651 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
25146678 A
1 A
25146679 TAAATCAGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.08
24 12 0.18
25 44 0.67
26 1 0.02
27 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:25146671 original size:50 final size:51
Alignment explanation
Indices: 25146578--25146678 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 51
25146568 AGGAAGTGCT
**
25146578 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT-TATGA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTATATGA
**
25146628 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTTATATGA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTTATATGA
25146679 TAAATCAGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
48 5 0.11
49 10 0.23
50 24 0.55
51 5 0.11
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTATATGA
Found at i:25146856 original size:42 final size:42
Alignment explanation
Indices: 25146795--25146886 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
25146785 TAGTCTCCCC
*
25146795 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
* *
25146837 AAATGGGCTTGCATGCATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
25146879 AAATGGGC
1 AAATGGGC
25146887 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:25148928 original size:27 final size:27
Alignment explanation
Indices: 25148898--25149043 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
25148888 ATTACCAAAG
*
25148898 TACCCTCGATTTATAGAATTACCCTTT
1 TACCCTCGATTTATAGAATTACCATTT
25148925 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
25148952 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * ***
25148979 TATCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
25149006 TACCCTTGATTTACACAATTAGCATTT
1 TACCCTCGATTTATAGAATTACCATTT
25149033 TACCCTCGATT
1 TACCCTCGATT
25149044 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:25149065 original size:27 final size:26
Alignment explanation
Indices: 25149035--25149173 Score: 91
Period size: 27 Copynumber: 5.2 Consensus size: 26
25149025 TAGCATTTTA
*
25149035 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * *
25149062 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCGAAATAC
* * *
25149089 CCCTAGTTTGTAAAACTACCGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * *
25149116 CACTGGTTTGTGAAATTATCGAAATAC
1 CCCT-GATTGTGAAATTACCGAAATAC
* * * *
25149143 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCGAAATAC
25149170 CCCT
1 CCCT
25149174 AATTTACAAA
Statistics
Matches: 84, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
25 4 0.05
26 1 0.01
27 76 0.90
28 1 0.01
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCGAAATAC
Found at i:25149141 original size:81 final size:81
Alignment explanation
Indices: 25149042--25149197 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
25149032 TTACCCTCGA
* * **
25149042 TTGTGAAATTACTGAAATACCCCT-ATAGGGTAGAATTACCAAAATACCCCTAGTTTGTAAAACT
1 TTGTGAAATTACTGAAATACCCCTAAT-GGGTAAAATTACCAAAATACCCCTAATTTACAAAACT
*
25149106 ACCGAAATACCACTGGT
65 ACAGAAATACCACTGGT
* ** *
25149123 TTGTGAAATTA-TCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATT
1 TTGTGAAATTACT-GAAATACCCCTAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAACT
25149187 ACAGAAATACC
65 ACAGAAATACC
25149198 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 61 0.95
82 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACTGAAATACCCCTAATGGGTAAAATTACCAAAATACCCCTAATTTACAAAACTA
CAGAAATACCACTGGT
Found at i:25149176 original size:27 final size:27
Alignment explanation
Indices: 25149075--25149198 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
25149065 TATAGGGTAG
*
25149075 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * ** *
25149102 AACTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
25149129 AATTATCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
25149156 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
25149183 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
25149199 TTGACTTTCT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.03
27 77 0.97
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:25149186 original size:54 final size:54
Alignment explanation
Indices: 25149083--25149276 Score: 176
Period size: 54 Copynumber: 3.6 Consensus size: 54
25149073 AGAATTACCA
* * * ***
25149083 AAATACCCCTAGTTTGTAAAACTACCGAAATACCACTGGTTTGTGAAATTATCG
1 AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTATCG
* * **
25149137 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CAG
1 AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTATC-G
* * * * *
25149191 AAATACCCTTGACTTTCTAAAAGTTA-TAGAAATACCATTGGTTTACAAAATTATTG
1 AAATACCCTT-AGTTTGTAAAA-TTACCA-AAATACCACTGGTTTACAAAATTATCG
* * *
25149247 AAATACCCTTGGTTTGTAGATTTACCAAAA
1 AAATACCCTTAGTTTGTAAAATTACCAAAA
25149277 CACCCTTGTA
Statistics
Matches: 110, Mismatches: 24, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 58 0.53
55 17 0.15
56 34 0.31
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTATCG
Found at i:25149250 original size:27 final size:27
Alignment explanation
Indices: 25149176--25149261 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
25149166 ATACCCCTAA
* *
25149176 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
25149204 TTT-CTAAAAGTTATAGAAATACCATTGG
1 TTTAC-AAAA-TTATAGAAATACCCTTGG
*
25149232 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
25149259 TTT
1 TTT
25149262 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 20 0.40
28 14 0.28
29 16 0.32
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:25149345 original size:27 final size:27
Alignment explanation
Indices: 25149302--25149375 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
25149292 AAATGACTAA
*
25149302 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
25149329 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
25149356 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
25149376 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:25150294 original size:42 final size:42
Alignment explanation
Indices: 25150235--25150326 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
25150225 TAGTCTCCCC
* **
25150235 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGA-TATTG
1 AAATGGGCTGGCATACATTCATTGAAATTTCATGT-ATTATTG
25150277 AAATGGGCTGGCATACATTCATTGAAATTTCATGTATTATTG
1 AAATGGGCTGGCATACATTCATTGAAATTTCATGTATTATTG
25150319 AAATGGGC
1 AAATGGGC
25150327 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTGGCATACATTCATTGAAATTTCATGTATTATTG
Found at i:25152335 original size:27 final size:27
Alignment explanation
Indices: 25152305--25152450 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
25152295 ATTACCAAAG
25152305 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
25152332 TACCCTCGATTTATC-AAATTACCATTT
1 TACCCTCGATTTA-CAAAATTACCGTTT
* * *
25152359 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
25152386 TATCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
25152413 TGCCCTTGATATACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
25152440 TACCCTCGATT
1 TACCCTCGATT
25152451 GTGAAAATAC
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 98 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:25152512 original size:27 final size:26
Alignment explanation
Indices: 25152482--25152605 Score: 97
Period size: 27 Copynumber: 4.6 Consensus size: 26
25152472 TATAGGATAG
*
25152482 AATTACCAATATACCCCTAGTTTGTAA
1 AATTACCAA-ATACCCCTAATTTGTAA
* * ** *
25152509 AATTATCTAAATACCACTGGTTTGTGA
1 AATTA-CCAAATACCCCTAATTTGTAA
25152536 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACC-AAATACCCCT-AATTTGTAA
* **
25152563 AATTAGCAAAATACCCCTAATTTACAA
1 AATTA-CCAAATACCCCTAATTTGTAA
*
25152590 AATTACAAAAATACCC
1 AATTAC-CAAATACCC
25152606 TTGACTTTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
26 5 0.06
27 66 0.84
28 8 0.10
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACCAAATACCCCTAATTTGTAA
Found at i:25152659 original size:27 final size:28
Alignment explanation
Indices: 25152583--25152660 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
25152573 ATACCCCTAA
** *
25152583 TTTACAAAATTACAAAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTGAC
*
25152611 TTT-CTAAAAGTTA-TAGAAATACCATT-AG
1 TTTAC-AAAA-TTACT-GAAATACCATTGAC
25152639 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACTGAAATACC
25152661 CTTGGTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
27 12 0.29
28 16 0.39
29 13 0.32
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (28 bp):
TTTACAAAATTACTGAAATACCATTGAC
Found at i:25152668 original size:27 final size:27
Alignment explanation
Indices: 25152583--25152668 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
25152573 ATACCCCTAA
** *
25152583 TTTACAAAATTACAAAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
* *
25152611 TTT-CTAAAAGTTA-TAGAAATACCATTAG
1 TTTAC-AAAA-TTACT-GAAATACCCTTGG
25152639 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
25152666 TTT
1 TTT
25152669 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
27 18 0.39
28 15 0.33
29 13 0.28
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:25153656 original size:24 final size:25
Alignment explanation
Indices: 25153596--25153689 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
25153586 AGGAAGTGCT
*
25153596 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
25153621 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
25153646 -AAAGGGCTTTGCCCCAGTTTA-TG
1 AAAAGGGCTTTGCCCCAGTTTACCG
25153669 AAAAAGGGCTTTGCCCCAGTT
1 -AAAAGGGCTTTGCCCCAGTT
25153690 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
23 1 0.02
24 20 0.32
25 42 0.67
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:25153702 original size:24 final size:24
Alignment explanation
Indices: 25153596--25153716 Score: 81
Period size: 25 Copynumber: 5.0 Consensus size: 24
25153586 AGGAAGTGCT
* *
25153596 AAAAG-GGCTTTGCCCTAGTTTACCG
1 AAAAGAGGCTTTGCCCCAG-TTA-TG
* *
25153621 AAAAG-GGTTTTGCCCCAGTTTACCG
1 AAAAGAGGCTTTGCCCCAG-TTA-TG
25153646 -AAAG-GGCTTTGCCCCAGTTTATG
1 AAAAGAGGCTTTGCCCCAG-TTATG
*
25153669 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATG
**
25153693 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
25153717 ATGATAAAGT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.01
24 38 0.45
25 45 0.54
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATG
Found at i:25153896 original size:42 final size:42
Alignment explanation
Indices: 25153837--25153928 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
25153827 TAGTCTCCCC
**
25153837 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
*
25153879 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
25153921 AAATGGGC
1 AAATGGGC
25153929 CTATAGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
Found at i:25158067 original size:19 final size:19
Alignment explanation
Indices: 25158029--25158066 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25158019 TGCAAATGGA
*
25158029 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
25158048 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
25158066 T
1 T
25158067 TTATAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:25159687 original size:48 final size:48
Alignment explanation
Indices: 25159626--25159809 Score: 235
Period size: 48 Copynumber: 3.8 Consensus size: 48
25159616 CATTACGGTT
* *
25159626 ATATAAGATCCCATGTAAGACCATGTCTGAGACATGGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGAGACATGGCATTAGCATCG
*
25159674 ATATGAGATCCCATGTAAGACCATGTTT-AGGACATCGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGA-GACATGGCATTAGCATCG
* * * *
25159722 ATATGAGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGAGACATGGCATTAGCATCG
* ** * * *
25159770 ATATGTGATTTCGTGTAAGACAATGTTTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTTTGAGACATGGCAT
25159810 CGATATGAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 118 0.99
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTTTGAGACATGGCATTAGCATCG
Found at i:25162925 original size:27 final size:27
Alignment explanation
Indices: 25162895--25163161 Score: 124
Period size: 27 Copynumber: 9.9 Consensus size: 27
25162885 ATGGTTCCGA
25162895 CGGACTTCCCACATAAGATAGTCCTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
*
25162922 CGGACTTCCCACATTAGATAGTCCTGATG
1 CGGACTTCCCACATAAGATAGTCCT--TG
* * * *
25162951 -GAATTTTCC-CATTAGATAGTCCTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
* * *
25162976 TGGAC-TCCCATA-ATAGATGGTCCTTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
* * **
25163002 CGGA-TTTCCATA-ATAGATAGTTTTTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
** ** *
25163028 TAGA-TTTTCACA-ATAGATAGTCCCTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
* * *
25163054 GGGACTTCCCACATAATAAACGATCCTTG
1 CGGACTTCCCACATAAGATA-G-TCCTTG
* * *
25163083 TGGACTTCCCACATAATATAGT-GTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
* *
25163109 ACAGACTTTCCTTA-AT-AGATAGTCCTTG
1 -CGGAC-TTCC-CACATAAGATAGTCCTTG
* *
25163137 CGGACTTCCTATATAAGATAGTCCT
1 CGGACTTCCCACATAAGATAGTCCT
25163162 GACGAACTTT
Statistics
Matches: 186, Mismatches: 38, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
25 7 0.04
26 64 0.34
27 71 0.38
28 18 0.10
29 26 0.14
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
CGGACTTCCCACATAAGATAGTCCTTG
Found at i:25162999 original size:26 final size:26
Alignment explanation
Indices: 25162910--25163022 Score: 88
Period size: 26 Copynumber: 4.3 Consensus size: 26
25162900 TTCCCACATA
* *
25162910 AGATAGTCCTTGCGGACTTCCCACATT
1 AGATAGTCCTTGCGGAC-TCCCATAAT
* *
25162937 AGATAGTCCTGATG-GAATTTTCCCAT--T
1 AGATAGTCCT--TGCGGA--CTCCCATAAT
*
25162964 AGATAGTCCTTGTGGACTCCCATAAT
1 AGATAGTCCTTGCGGACTCCCATAAT
* * *
25162990 AGATGGTCCTTGCGGATTTCCATAAT
1 AGATAGTCCTTGCGGACTCCCATAAT
25163016 AGATAGT
1 AGATAGT
25163023 TTTTGTAGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
24 6 0.09
25 2 0.03
26 31 0.45
27 21 0.30
28 2 0.03
29 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (26 bp):
AGATAGTCCTTGCGGACTCCCATAAT
Found at i:25165150 original size:11 final size:11
Alignment explanation
Indices: 25165136--25165161 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25165126 TTGATTTTGA
25165136 AAAAATATTTT
1 AAAAATATTTT
25165147 AAAAATATTTT
1 AAAAATATTTT
25165158 AAAA
1 AAAA
25165162 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25165151 original size:13 final size:12
Alignment explanation
Indices: 25165129--25165161 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25165119 TTTAGTCTTG
25165129 ATTTTGAAAAAAT
1 ATTTT-AAAAAAT
25165142 ATTTT-AAAAAT
1 ATTTTAAAAAAT
25165153 ATTTTAAAA
1 ATTTTAAAA
25165162 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 3 0.16
13 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
ATTTTAAAAAAT
Found at i:25170720 original size:13 final size:15
Alignment explanation
Indices: 25170702--25170733 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25170692 AACACTCCTA
25170702 TGTGTC-CA-GGTCG
1 TGTGTCGCACGGTCG
25170715 TGTGTCGCACGGTCG
1 TGTGTCGCACGGTCG
25170730 TGTG
1 TGTG
25170734 GCTCGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (15 bp):
TGTGTCGCACGGTCG
Found at i:25173024 original size:12 final size:13
Alignment explanation
Indices: 25172988--25173025 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
25172978 AAATATTTGA
25172988 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
25173001 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
25173015 CTTG-TCTTAAT
1 CTTGTTCTTAAT
25173026 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:25176927 original size:23 final size:23
Alignment explanation
Indices: 25176901--25176948 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25176891 TAAACACCTA
*
25176901 TTATTTATT-TTTACATTTTTATT
1 TTATTT-TTATTTACATTTATATT
*
25176924 TTATTTTTATTTATATTTATATT
1 TTATTTTTATTTACATTTATATT
25176947 TT
1 TT
25176949 GAAATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTATTTTTATTTACATTTATATT
Found at i:25176960 original size:29 final size:30
Alignment explanation
Indices: 25176901--25176965 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
25176891 TAAACACCTA
* * **
25176901 TTATTTATTTTTACATTTTTATTTTA-TTT
1 TTATTTATATTTACATTTTGAAATTACTTT
*
25176930 TTATTTATATTTATATTTTGAAATTACTTT
1 TTATTTATATTTACATTTTGAAATTACTTT
25176960 TTATTT
1 TTATTT
25176966 CCCTTTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (30 bp):
TTATTTATATTTACATTTTGAAATTACTTT
Found at i:25186456 original size:18 final size:18
Alignment explanation
Indices: 25186408--25186459 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
25186398 AAAATGTGAG
*
25186408 AAATGATGTTCAAATTTC
1 AAATGATGTTCACATTTC
25186426 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
25186444 AAATTATGTTCACATT
1 AAATGATGTTCACATT
25186460 GATGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:25186974 original size:72 final size:72
Alignment explanation
Indices: 25186879--25187143 Score: 390
Period size: 72 Copynumber: 3.7 Consensus size: 72
25186869 CAATGCTAAA
*
25186879 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGATATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
25186944 GTGTAAT
66 GTGTAAT
* * *
25186951 CTAGTTTTATCAATGGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGATATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
25187016 GTGTAAT
66 GTGTAAT
* * *
25187023 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGATATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
25187088 GCT-TAGAG
66 G-TGTA-AT
* * *
25187096 CTAGTTTTATCAATA-ATTTTTTATGTTTGATTTTTGGATATTAAATTT
1 CTAGTTTTATCAATAGA-TATTTATGTTTGGTTTTTGGATATTGAATTT
25187144 GTAACATCCC
Statistics
Matches: 175, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
72 130 0.74
73 45 0.26
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGATATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:25191376 original size:3 final size:3
Alignment explanation
Indices: 25191368--25191403 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
25191358 GTCAAGAAAG
* *
25191368 TGA TGA TGA TGA TGA CGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
25191404 CGGTGAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:25199661 original size:19 final size:18
Alignment explanation
Indices: 25199632--25199670 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
25199622 AAAATTAAAT
25199632 AATTTTAAAATATTTATC
1 AATTTTAAAATATTTATC
25199650 AATTTATAAAATATTTATC
1 AATTT-TAAAATATTTATC
25199669 AA
1 AA
25199671 AAATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTAAAATATTTATC
Found at i:25199744 original size:26 final size:25
Alignment explanation
Indices: 25199708--25199758 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
25199698 AAAAAATCTA
25199708 AAATAAAAAAATTTAT-CACATACATT
1 AAATAAAAAAA-TTATCCA-ATACATT
*
25199734 AAATAATAAAATTATCCAATACATT
1 AAATAAAAAAATTATCCAATACATT
25199759 TAAAGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATAAAAAAATTATCCAATACATT
Found at i:25199762 original size:26 final size:26
Alignment explanation
Indices: 25199708--25199758 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
25199698 AAAAAATCTA
25199708 AAATAAAAAAATTTATCACATACATT
1 AAATAAAAAAATTTATCACATACATT
*
25199734 AAATAATAAAA-TTATC-CAATACATT
1 AAATAAAAAAATTTATCAC-ATACATT
25199759 TAAAGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 12 0.52
26 10 0.43
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATAAAAAAATTTATCACATACATT
Found at i:25203796 original size:28 final size:28
Alignment explanation
Indices: 25203760--25203834 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
25203750 TCAAATATAG
* *
25203760 CACTCAGTGTACGAAATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
* *
25203788 CACTTAGTGTGTGAGATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
*
25203816 AACTTAGTGTGCGAAATAT
1 CACTTAGTGTGCGAAATAT
25203835 CGAATGATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGA
Found at i:25204276 original size:21 final size:22
Alignment explanation
Indices: 25204245--25204285 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25204235 GAATGTATTG
*
25204245 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
25204267 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
25204286 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:25208147 original size:24 final size:25
Alignment explanation
Indices: 25208106--25208152 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
25208096 GCTTTATGCT
25208106 GGTGTTATTTATCAGGCTTTGTGTA
1 GGTGTTATTTATCAGGCTTTGTGTA
**
25208131 GGTG-TATTTATTGGGCTTTGTG
1 GGTGTTATTTATCAGGCTTTGTG
25208153 CCTAGCAAGC
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:0.13, C:0.06, G:0.32, T:0.49
Consensus pattern (25 bp):
GGTGTTATTTATCAGGCTTTGTGTA
Found at i:25208165 original size:40 final size:39
Alignment explanation
Indices: 25208121--25208215 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
25208111 TATTTATCAG
* * *
25208121 GCTTTGTGTAGGTGTATTTATTGGGCTTTGTGCCTAGCAA
1 GCTTTGTGTA-ATGTATTTATCGAGCTTTGTGCCTAGCAA
* *
25208161 GCTTTGTGCTAATGTGTTTATCGAGCTTTGTGCCTAGCAT
1 GCTTTGTG-TAATGTATTTATCGAGCTTTGTGCCTAGCAA
*
25208201 GCCTTGTGTCAATGT
1 GCTTTGTGT-AATGT
25208216 TTTCTATCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 44 0.94
41 2 0.04
ACGTcount: A:0.15, C:0.16, G:0.27, T:0.42
Consensus pattern (39 bp):
GCTTTGTGTAATGTATTTATCGAGCTTTGTGCCTAGCAA
Found at i:25209321 original size:128 final size:129
Alignment explanation
Indices: 25209138--25209385 Score: 392
Period size: 128 Copynumber: 1.9 Consensus size: 129
25209128 CTCGCTTTAG
*
25209138 AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGAAACCCAG
1 AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCAG
* *
25209203 CACGATAGGGCACTATTCCCCAAATTTCCAGACATAGGATATTGCC-TTGTTTTAGCGTTTGGA
66 CACGATAGGGCACTATTCCCCAAATTTCCAAACATAGAATATTGCCTTTGTTTTAGCGTTTGGA
* * *
25209266 AAAACACGAGT-AAGATTCTAAAGTAATATTCGATTATTTTGAACAAACGGGAAATCAAAACCCA
1 AAAACACGAGTGAA-ATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCA
* * *
25209330 GCACGATAGGGCACTATTTCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTA
65 GCACGATAGGGCACTATTCCCCAAATTTCCAAACATAGAATATTGCCTTTGTTTTA
25209386 ATGAATTTTC
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
127 2 0.02
128 99 0.91
129 8 0.07
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (129 bp):
AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCAG
CACGATAGGGCACTATTCCCCAAATTTCCAAACATAGAATATTGCCTTTGTTTTAGCGTTTGGA
Found at i:25210494 original size:11 final size:11
Alignment explanation
Indices: 25210478--25210503 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25210468 ATACAAATAG
25210478 AAAACTGAATT
1 AAAACTGAATT
25210489 AAAACTGAATT
1 AAAACTGAATT
25210500 AAAA
1 AAAA
25210504 TAAGAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAACTGAATT
Found at i:25212383 original size:175 final size:173
Alignment explanation
Indices: 25211975--25212451 Score: 485
Period size: 175 Copynumber: 2.7 Consensus size: 173
25211965 AGGATTGTGA
* * * * * *
25211975 CTTCGATTTGCTCTATTGCAACTTCAGGGAGATAAGATCT-ACAATTTAGCCTATTACCCTACTA
1 CTTCGATCTGCTCCACT-CAACTTCAGGGAGATAAGATCTGA-AATTCAGCATGTTACCCTACTA
* * * * * * * * ** * * **
25212039 TTTAGGAGGTTAAGGCTTATCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTAT
64 CTTAGGGGGTTAAGGCCT-GCTTCTTCGATTTGCTCCACTAT-TGTTTAAGGAGACAAGATCTGC
* * * * *
25212104 GATCTTTAGCCTGTTACCCTACCACTTAGGGGGTTAAGGCTTGCTTT
127 AATCATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGCTTT
* **
25212151 CTTTGATCTTTTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCAGCATGTTACCCTACTAC
1 CTTCGATCTGCTCCACT-CAACTTCAGGGAGATAAGATCTGAAATTCAGCATGTTACCCTACTAC
*
25212216 TTAGGGGGTTAAGGCCTGCTTTTTCGATTTGCTCCACTACTAT-TTTAAGGAGACAAGATCTGCA
65 TTAGGGGGTTAAGGCCTGCTTCTTCGATTTGCTCCACTA-T-TGTTTAAGGAGACAAGATCTGCA
*
25212280 ATCATCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCCTGC-TT
128 ATCATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGCTTT
** * * * *
25212325 CTTCGATCTGCTCCACT-ATTTTTTAGGGAGATAAGATTTGCAATCTCCAGCCTGTTACCCTACT
1 CTTCGATCTGCTCCACTCA-ACTTCAGGGAGATAAGATCTGAAAT-T-CAGCATGTTACCCTACT
* * *
25212389 ACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGGTCCACTATTGTTTAGGGAGACAAGATCTG
63 ACTTAGGGGGTTAAGGCCTGCTTCTTCGATTTGCTCCACTATTGTTTAAGGAGACAAGATCTG
25212452 TGAATTCACT
Statistics
Matches: 253, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
172 1 0.00
173 21 0.08
174 36 0.14
175 124 0.49
176 70 0.28
177 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (173 bp):
CTTCGATCTGCTCCACTCAACTTCAGGGAGATAAGATCTGAAATTCAGCATGTTACCCTACTACT
TAGGGGGTTAAGGCCTGCTTCTTCGATTTGCTCCACTATTGTTTAAGGAGACAAGATCTGCAATC
ATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGCTTT
Found at i:25212429 original size:87 final size:86
Alignment explanation
Indices: 25211995--25212451 Score: 454
Period size: 87 Copynumber: 5.2 Consensus size: 86
25211985 CTCTATTGCA
* * * * * * * *
25211995 ACTTCAGGGAGATAAGATCTACAAT-TTAGCCTATTACCCTACTATTTAGGAGGTTAAGGCTTAT
1 ACTTTAGGGAGACAAGATCTGCAATCTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT-G
* * * *
25212059 CGTCTTCGATCTGTTCCACTGT
65 CTTCTTCGATTTGCTCCACTAT
* *** * *
25212081 AACTTCAGGGAGACAAGATCTATGATCTTTAGCCTGTTACCCTACCACTTAGGGGGTTAAGGCTT
1 -ACTTTAGGGAGACAAGATCTGCAATC-TCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT
* *
25212146 GCTTTCTTTGATCTT-TTCCACTGCA-
64 GC-TTCTTCGAT-TTGCTCCACT--AT
* * * * *
25212171 ACTTCAGGGAGATAAGATCTGAAAT-TCAGCATGTTACCCTACTACTTAGGGGGTTAAGGCCTGC
1 ACTTTAGGGAGACAAGATCTGCAATCTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGC
*
25212235 TTTTTCGATTTGCTCCACTACT
66 TTCTTCGATTTGCTCCACTA-T
* * * *
25212257 ATTTTAAGGAGACAAGATCTGCAATCATCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCCTG
1 ACTTTAGGGAGACAAGATCTGCAATC-TCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
*
25212322 CTTCTTCGATCTGCTCCACTAT
65 CTTCTTCGATTTGCTCCACTAT
** * *
25212344 TTTTTAGGGAGATAAGATTTGCAATCTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
1 ACTTTAGGGAGACAAGATCTGCAATCT-CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
*
25212409 CTTCTTCGATTTGGTCCACTAT
65 CTTCTTCGATTTGCTCCACTAT
**
25212431 TGTTTAGGGAGACAAGATCTG
1 ACTTTAGGGAGACAAGATCTG
25212452 TGAATTCACT
Statistics
Matches: 315, Mismatches: 43, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
84 1 0.00
85 2 0.01
86 34 0.11
87 153 0.49
88 56 0.18
89 68 0.22
90 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (86 bp):
ACTTTAGGGAGACAAGATCTGCAATCTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGC
TTCTTCGATTTGCTCCACTAT
Found at i:25224093 original size:120 final size:123
Alignment explanation
Indices: 25223921--25224223 Score: 333
Period size: 128 Copynumber: 2.4 Consensus size: 123
25223911 CGAAAACCCG
* * * ** * *
25223921 AAACCCAGCACGGTAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCCTC-GC-TTTAG
1 AAACCCAGCACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTCAGCGTTTAG
* * * **
25223984 -AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAGCGGGAAATTG
66 AAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCA
* * * * * *
25224041 AAACCTAGCACGATAGGGCATTATTCCCTGAATTTCCAGACATCGGATATTGCCTTGTTTCAGCG
1 AAACCCAGCACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCC-----TCAGCG
* * *
25224106 TTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTCAATTGTTTTGAACAAACGGGAAATCA
61 TTTAGAAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCA
* *
25224169 AAACCCAGCATGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCT
1 AAACCCAGCACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCT
25224224 TTGTTTTAAT
Statistics
Matches: 148, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
120 43 0.29
123 1 0.01
125 2 0.01
126 2 0.01
127 4 0.03
128 96 0.65
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (123 bp):
AAACCCAGCACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTCAGCGTTTAG
AAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCA
Found at i:25224153 original size:128 final size:129
Alignment explanation
Indices: 25223984--25224229 Score: 350
Period size: 128 Copynumber: 1.9 Consensus size: 129
25223974 CTCGCTTTAG
* * * ** *
25223984 AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAGCGGGAAATTGAAACCTAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCAAAACCCAG
* * * * **
25224049 CACGATAGGGCATTATTCCCTGAATTTCCAGACATCGGATATTGCC-TTGTTTCAGCGTTTGGA
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTTCAGCGTTTGGA
* *
25224112 AAAACACGAGTAAAATTCTAAAGGAATATTCAATTGTTTTGAACAAACGGGAAATCAAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCAAAACCCAG
*
25224177 CATGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTT
66 CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTT
25224230 TAATGAATCT
Statistics
Matches: 102, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
128 96 0.94
129 6 0.06
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (129 bp):
AAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAATCAAAACCCAG
CACGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTTTGTTTCAGCGTTTGGA
Found at i:25233974 original size:6 final size:6
Alignment explanation
Indices: 25233960--25234005 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
25233950 TTGAGTCCGA
* *
25233960 TTATCT TTATTT TTATTT TTATTT TTATTT TGTATTT ATATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT TTATTT TTA
25234006 ACTCTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:25233986 original size:18 final size:19
Alignment explanation
Indices: 25233960--25234005 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
25233950 TTGAGTCCGA
*
25233960 TTATCTTTATTTT-TATTT
1 TTATTTTTATTTTGTATTT
25233978 TTATTTTTATTTTGTATTT
1 TTATTTTTATTTTGTATTT
*
25233997 ATATTTTTA
1 TTATTTTTA
25234006 ACTCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTATTTTGTATTT
Found at i:25234013 original size:25 final size:25
Alignment explanation
Indices: 25233967--25234015 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
25233957 CGATTATCTT
* ** *
25233967 TATTTTTATTTTTATTTTTATTTTG
1 TATTTATATTTTTAACTCTATTTTG
25233992 TATTTATATTTTTAACTCTATTTT
1 TATTTATATTTTTAACTCTATTTT
25234016 AATTATTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTATATTTTTAACTCTATTTTG
Found at i:25235790 original size:30 final size:30
Alignment explanation
Indices: 25235756--25235814 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25235746 AAGACCATTT
*
25235756 CCACACGGGCTGAG-CACATGCCCATGTGGG
1 CCACACGGGCTG-GCCACACGCCCATGTGGG
*
25235786 CCACACGGGTTGGCCACACGCCCATGTGG
1 CCACACGGGCTGGCCACACGCCCATGTGG
25235815 CAGCCTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.19, C:0.36, G:0.32, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGGG
Found at i:25238830 original size:13 final size:14
Alignment explanation
Indices: 25238792--25238833 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25238782 TATGTGAAGA
25238792 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
25238807 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
25238822 -TATTATTAAAAT
1 ATATTATTAAAAT
25238834 AAAATTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:25249107 original size:116 final size:116
Alignment explanation
Indices: 25248965--25249200 Score: 409
Period size: 116 Copynumber: 2.0 Consensus size: 116
25248955 AATGTGGTAT
*
25248965 TTGATGAACAATGATTTCTGTCTCTGTTGTCTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAACGATTTCTGTCTCTGTTGTCTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
* *
25249030 ATAACAACTTGTGTTCCTCTAATTCAAGCAGTTTCTTCTCGATCTACAGAC
66 ATAACAACTTGTGTTACTCTAATTCAAGCAGTTTCTTCTCAATCTACAGAC
*
25249081 TTGATGAACAACGATTTCTGTCTCTGTTGTTTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAACGATTTCTGTCTCTGTTGTCTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
* * *
25249146 ATACCAACTTGTGTTACTCTAGTTCAAGCAGTTTCTTCTCAATCTACGGAC
66 ATAACAACTTGTGTTACTCTAATTCAAGCAGTTTCTTCTCAATCTACAGAC
25249197 TTGA
1 TTGA
25249201 CACATGTTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (116 bp):
TTGATGAACAACGATTTCTGTCTCTGTTGTCTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
ATAACAACTTGTGTTACTCTAATTCAAGCAGTTTCTTCTCAATCTACAGAC
Found at i:25262898 original size:13 final size:14
Alignment explanation
Indices: 25262874--25262902 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25262864 TTGGAAAGTC
25262874 AAAATAAAAATTTG
1 AAAATAAAAATTTG
25262888 AAAAT-AAAATTTG
1 AAAATAAAAATTTG
25262901 AA
1 AA
25262903 GCTTCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTTG
Found at i:25265299 original size:11 final size:12
Alignment explanation
Indices: 25265275--25265299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25265265 AAAAAAAGAA
25265275 TTTTATAAATTT
1 TTTTATAAATTT
25265287 TTTTATAAATTT
1 TTTTATAAATTT
25265299 T
1 T
25265300 ATTGATTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATAAATTT
Found at i:25289401 original size:45 final size:45
Alignment explanation
Indices: 25289339--25289429 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
25289329 ATGGTGTATA
25289339 TATATGTTGATAGTGCTATTTCGAAGACTATATGAAATATACATG
1 TATATGTTGATAGTGCTATTTCGAAGACTATATGAAATATACATG
*
25289384 TATATGTTGATAGTGCTATTTCGAAGGCTATATGAAATATACATG
1 TATATGTTGATAGTGCTATTTCGAAGACTATATGAAATATACATG
25289429 T
1 T
25289430 TATACTCACC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (45 bp):
TATATGTTGATAGTGCTATTTCGAAGACTATATGAAATATACATG
Found at i:25292689 original size:22 final size:21
Alignment explanation
Indices: 25292664--25292714 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
25292654 TATTTATTTA
25292664 TAAAATAAACATTAAATTAAAT
1 TAAAATAAACATTAAA-TAAAT
* * *
25292686 TAAATTAAATATTAAATATAT
1 TAAAATAAACATTAAATAAAT
25292707 TAAAATAA
1 TAAAATAA
25292715 TATTATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAAACATTAAATAAAT
Found at i:25305774 original size:10 final size:10
Alignment explanation
Indices: 25305759--25305802 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
25305749 GCGATTAATC
25305759 CATACCAAAA
1 CATACCAAAA
25305769 CATACCAAAA
1 CATACCAAAA
*
25305779 CATAAGCCAAAGT
1 CAT-A-CCAAA-A
25305792 CATACCAAAA
1 CATACCAAAA
25305802 C
1 C
25305803 CTAAGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 14 0.48
11 6 0.21
12 6 0.21
13 3 0.10
ACGTcount: A:0.55, C:0.30, G:0.05, T:0.11
Consensus pattern (10 bp):
CATACCAAAA
Found at i:25305996 original size:23 final size:22
Alignment explanation
Indices: 25305956--25306001 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
25305946 ACATAATTTA
* **
25305956 AACCAAAACTCATTCATAATCAC
1 AACCAAAACTAAGCCAT-ATCAC
25305979 AACCAAAACTAAGCCATATCAC
1 AACCAAAACTAAGCCATATCAC
25306001 A
1 A
25306002 TGGCTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCAAAACTAAGCCATATCAC
Found at i:25306605 original size:43 final size:42
Alignment explanation
Indices: 25306556--25306653 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
25306546 CCCAGACGTT
** *
25306556 GTCTTACACGTAATCAAATATCAATGCCTCTGTCCCAGACAGG
1 GTCTTACACGTAATCAAATA-CAATGCCGATATCCCAGACAGG
* * * *
25306599 GTCTTACACGAAATCAAATACGATGTCGATATCCCAGACATG
1 GTCTTACACGTAATCAAATACAATGCCGATATCCCAGACAGG
25306641 GTCTTACACGTAA
1 GTCTTACACGTAA
25306654 ATATCAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
GTCTTACACGTAATCAAATACAATGCCGATATCCCAGACAGG
Found at i:25306681 original size:44 final size:42
Alignment explanation
Indices: 25306588--25306697 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
25306578 AATGCCTCTG
* * *
25306588 TCCCAGACAGGGTCTTACACGAAATCAAATACGATGTCGATA
1 TCCCAGACATGGTCTTACACGAAATCAAATACGATGTCCAAA
25306630 TCCCAGACATGGTCTTACACGTAAATATCAAAT-CGATG-CCAAA
1 TCCCAGACATGGTCTTACACG--AA-ATCAAATACGATGTCCAAA
* *
25306673 GTTCCAGACTTGGTCTTACACGAAA
1 -TCCCAGACATGGTCTTACACGAAA
25306698 ACACATATTG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.02
42 22 0.37
43 3 0.05
44 26 0.44
45 7 0.12
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATACGATGTCCAAA
Found at i:25313946 original size:2 final size:2
Alignment explanation
Indices: 25313939--25313968 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25313929 GATCATGATT
25313939 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
25313969 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25314015 original size:16 final size:18
Alignment explanation
Indices: 25313977--25314020 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
25313967 CATATATATA
*
25313977 TATATCATATCTCATTCT
1 TATATCATATCTCATACT
*
25313995 CATATCA-A-CTCATACT
1 TATATCATATCTCATACT
25314011 TATATCATAT
1 TATATCATAT
25314021 GTTCACAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATCATATCTCATACT
Found at i:25314284 original size:42 final size:43
Alignment explanation
Indices: 25314214--25314295 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
25314204 TCTTACATAT
*
25314214 AATCAAATATCGATGCCTCTGTCCCAGACAGGGTCTTACAAGA
1 AATCAAATATCGATGCCTATGTCCCAGACAGGGTCTTACAAGA
*
25314257 AATCAAATAT-GATG-CTGATGTCCCAGACATGGTCTTACA
1 AATCAAATATCGATGCCT-ATGTCCCAGACAGGGTCTTACA
25314296 CGTAAATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 2 0.06
42 24 0.67
43 10 0.28
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCTATGTCCCAGACAGGGTCTTACAAGA
Found at i:25314303 original size:43 final size:42
Alignment explanation
Indices: 25314191--25314341 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 42
25314181 TATTGCCAGC
* * *
25314191 GTCCCAAACGTGGTCTTACA--TATAATCAAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTA-AATCAAATAT-GATG-CTAT
* *
25314234 GTCCCAGACAGGGTCTTACAAG-AAATCAAATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCT-AT
* *
25314276 GTCCCAGACATGGTCTTACACGTAAATCTCAAGT-TGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAA--TCAAATATGATG-CTAT
* *
25314320 GTCACAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
25314342 AAAACACATA
Statistics
Matches: 91, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 25 0.27
43 30 0.33
44 28 0.31
45 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCTAT
Found at i:25319504 original size:17 final size:17
Alignment explanation
Indices: 25319464--25319504 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25319454 CCCTAAAAAT
25319464 ATAGAAAAAATACTCTA
1 ATAGAAAAAATACTCTA
*
25319481 ATTGAAAAAATACT-TAA
1 ATAGAAAAAATACTCT-A
25319498 ATAGAAA
1 ATAGAAA
25319505 TTAAGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (17 bp):
ATAGAAAAAATACTCTA
Found at i:25326332 original size:41 final size:41
Alignment explanation
Indices: 25326273--25326509 Score: 379
Period size: 41 Copynumber: 5.8 Consensus size: 41
25326263 CTAAAAACAG
** *
25326273 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
25326314 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
*
25326355 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAAACAGAGCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
25326396 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
**
25326437 TTAGCGGCGCTTTC-AATAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGC-TTCGGGTAAAACGCCGCTAAAAACCAGAGCA
*
25326478 TTAGCAGCGCTTTC-GGTAAAACGCCGCTAAAA
1 TTAGCGGCGC-TTCGGGTAAAACGCCGCTAAAA
25326510 GTCATAGAAC
Statistics
Matches: 185, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 182 0.98
42 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (41 bp):
TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
Found at i:25326758 original size:36 final size:39
Alignment explanation
Indices: 25326688--25326763 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
25326678 ATAGTTTAAG
* * *
25326688 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
25326727 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
25326763 A
1 A
25326764 GTAATTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:25326823 original size:21 final size:22
Alignment explanation
Indices: 25326781--25326824 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
25326771 AAGGTTTATG
**
25326781 ATGAATTATGGGTTTAGGGATT
1 ATGAATTATGGGTTTAAAGATT
*
25326803 ATGATTTA-GGGTTTAAAGATT
1 ATGAATTATGGGTTTAAAGATT
25326824 A
1 A
25326825 GGGTTGAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (22 bp):
ATGAATTATGGGTTTAAAGATT
Found at i:25330747 original size:133 final size:133
Alignment explanation
Indices: 25330504--25330888 Score: 743
Period size: 133 Copynumber: 2.9 Consensus size: 133
25330494 TGGTGATTTC
25330504 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
25330569 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
25330634 TAT
131 TAT
25330637 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
25330702 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGTTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
25330767 TAT
131 TAT
25330770 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
25330835 TAGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGCTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
25330889 TGTTGAATTC
Statistics
Matches: 248, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 248 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:25332865 original size:21 final size:21
Alignment explanation
Indices: 25332836--25332875 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25332826 GTTTTTATAT
*
25332836 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
25332857 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
25332876 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:25338114 original size:14 final size:15
Alignment explanation
Indices: 25338095--25338127 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25338085 GAGAGACAAT
25338095 AAAAGAAT-TTTGAA
1 AAAAGAATATTTGAA
*
25338109 AAAAGAATATTTTAA
1 AAAAGAATATTTGAA
25338124 AAAA
1 AAAA
25338128 CCCATAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGAATATTTGAA
Found at i:25339546 original size:43 final size:43
Alignment explanation
Indices: 25339344--25339616 Score: 176
Period size: 43 Copynumber: 6.3 Consensus size: 43
25339334 ACTGGGCAAA
* * * * *
25339344 TTAGCGGCGTTTTTTTTAAAAAGCGCCGCTAAAGTTCTTGGTCT
1 TTAGCGGCG-CTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCT
* * * * ** *
25339388 ATAGCGGCGCTTTTGTAAAAAACGCCGCCAAA-GACCAAGACT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCT
* * * * * *
25339430 TGTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTGT
1 T-TAGCGGCGCTTTTATA-AAAAACGCCGCTAAAGGTCCTGGTCT
* * * * *
25339475 ATAGCGGTG-TTTTTTATAAAAGCACCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGCTTTTATA-AAAAACGCCGCTAAAGGTCCTGGTCT
* * * * * ** *
25339518 TTAGCTGCGCTTTTATAAAAAATGCCGCTATA-GACCAAGAACA
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCC-TGGTCT
*
25339561 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCT
*
25339604 TTAGAGGC-CTTTT
1 TTAGCGGCGCTTTT
25339617 TTTCTAAAAA
Statistics
Matches: 171, Mismatches: 52, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
42 12 0.07
43 120 0.70
44 36 0.21
45 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCT
Found at i:25339618 original size:130 final size:129
Alignment explanation
Indices: 25339354--25339625 Score: 325
Period size: 130 Copynumber: 2.1 Consensus size: 129
25339344 TTAGCGGCGT
* * * *
25339354 TTTTTTTA-AAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGCTTTTGTAAAAAACGCCGCCA
1 TTTTTTTATAAAAGCACCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAAAACGCCGCCA
* * * * * * *
25339418 AAGACCAAGACTTGTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTGTATAGCGG
66 AAGACCAAGACATGTAGCGGCGCTTTTATATAAAAACGCCGCTAAAGGTCTTGGTCTATAGAGG
* * * *
25339482 TGTTTTTTATAAAAGCACCGCTAAAGGTCCTGGTCTTTAGCTGCGCTTTTATAAAAAATGCCGCT
1 T-TTTTTTATAAAAGCACCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAAAACGCCGCC
* *
25339547 ATAGACCAAGAACAT-TAGCGGCGCTTTTATA-AAAAACGCCGCTAAAGGTCTTGGTCTTTAGAG
65 AAAGACCAAG-ACATGTAGCGGCGCTTTTATATAAAAACGCCGCTAAAGGTCTTGGTCTATAGAG
25339610 G
129 G
*
25339611 CCTTTTTTTCTAAAA
1 --TTTTTTTATAAAA
25339626 AACGCCGTCA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
128 1 0.01
129 35 0.29
130 81 0.67
131 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (129 bp):
TTTTTTTATAAAAGCACCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAAAACGCCGCCA
AAGACCAAGACATGTAGCGGCGCTTTTATATAAAAACGCCGCTAAAGGTCTTGGTCTATAGAGG
Found at i:25342851 original size:44 final size:42
Alignment explanation
Indices: 25342796--25342942 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 42
25342786 ATATGTGTTA
* * *
25342796 TCGTGTAAGACCACATCTAGGACATTGGCATCGATTTGTGATT
1 TCGTATAAGACCACATCTAGGACATTGGCATCG-TATATGATT
* ** *
25342839 TATGTATAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 T-CGTATAAGACCACATCTAGGACATTGGCATCGTATATGATT
*** * *
25342882 TCGTATAAGACCTTGTCT-GGAACAGTGGCATCGATATTTGATT
1 TCGTATAAGACCACATCTAGG-ACATTGGCATCG-TATATGATT
* * *
25342925 ACATGTAAGACCACATCT
1 TCGTATAAGACCACATCT
25342943 GAGTTGTTGG
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 26 0.31
43 29 0.35
44 27 0.32
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TCGTATAAGACCACATCTAGGACATTGGCATCGTATATGATT
Found at i:25342899 original size:42 final size:44
Alignment explanation
Indices: 25342801--25342937 Score: 145
Period size: 42 Copynumber: 3.2 Consensus size: 44
25342791 TGTTATCGTG
** * * * *
25342801 TAAGACCACATCTAGGACATTGGCATCGATTTGTGATTTATGTA
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
25342845 TAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-CGTA
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
* * * * * *
25342887 TAAGACCTTGTCTGGAACAGTGGCATCGATATTTGA-TTACATG
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
25342930 TAAGACCA
1 TAAGACCA
25342938 CATCTGAGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 30 0.38
43 23 0.29
44 25 0.32
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
Found at i:25343338 original size:18 final size:18
Alignment explanation
Indices: 25343315--25343351 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25343305 TGAGTTTTCA
25343315 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
25343333 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
25343351 A
1 A
25343352 TCAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:25355822 original size:25 final size:27
Alignment explanation
Indices: 25355794--25355861 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 27
25355784 AAAATTGGTA
25355794 AGACATTTTCCATTCT-TCTCT-A-AGC
1 AGACATTTTCCATTCTCT-TCTAACAGC
**
25355819 AGACATTTTCTGTTCTCTTCTAAGCAGC
1 AGACATTTTCCATTCTCTTCTAA-CAGC
25355847 AGACATTTTCCATTC
1 AGACATTTTCCATTC
25355862 CTCAAAGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 17 0.49
26 2 0.06
28 16 0.46
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (27 bp):
AGACATTTTCCATTCTCTTCTAACAGC
Found at i:25358270 original size:15 final size:15
Alignment explanation
Indices: 25358245--25358292 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
25358235 ATTTTTGAAC
25358245 TTTCAATGCTTTCATT
1 TTTC-ATGCTTTCATT
*
25358261 TTTCATGCTTTCGTT
1 TTTCATGCTTTCATT
25358276 TTTCATGCTTTCATT
1 TTTCATGCTTTCATT
25358291 TT
1 TT
25358293 AAGTGGTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.12, C:0.19, G:0.08, T:0.60
Consensus pattern (15 bp):
TTTCATGCTTTCATT
Found at i:25359870 original size:35 final size:36
Alignment explanation
Indices: 25359822--25359890 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
25359812 ATTTGTTAGA
25359822 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
25359858 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAA
25359891 ATGGTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
Done.