Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 166 of 335
Found at i:48935062 original size:24 final size:24
Alignment explanation
Indices: 48935028--48935077 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
48935018 AATTTTATGA
*
48935028 TAGATTTACAATAATTACCCTTTT
1 TAGATTGACAATAATTACCCTTTT
*
48935052 TAGATTGACAATAATTATCCTTTT
1 TAGATTGACAATAATTACCCTTTT
48935076 TA
1 TA
48935078 TAATAGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (24 bp):
TAGATTGACAATAATTACCCTTTT
Found at i:48935805 original size:71 final size:71
Alignment explanation
Indices: 48935728--48935867 Score: 262
Period size: 71 Copynumber: 2.0 Consensus size: 71
48935718 AAAAACAACT
* *
48935728 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTACACTAAACTTTTCTTTAATTATATATTGCTT
1 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
48935793 ATTGAC
66 ATTGAC
48935799 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
1 TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
48935864 ATTG
66 ATTG
48935868 GATTGTCTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (71 bp):
TTTTTTCACTCTTTTCTTTGATTTGTAAAACCTAAACCAAACTTTTCTTTAATTATATATTGCTT
ATTGAC
Found at i:48936574 original size:17 final size:17
Alignment explanation
Indices: 48936552--48936588 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
48936542 TAAGAAAGAA
48936552 TAATTAAAAATTTTAAT
1 TAATTAAAAATTTTAAT
*
48936569 TAATTAAAATTTTTAAT
1 TAATTAAAAATTTTAAT
48936586 TAA
1 TAA
48936589 AAATCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTAAAAATTTTAAT
Found at i:48938970 original size:22 final size:22
Alignment explanation
Indices: 48938945--48938992 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
48938935 TGGCGGAAAT
48938945 AAAAAATTTAATTTAAACCAAG
1 AAAAAATTTAATTTAAACCAAG
48938967 AAAAAATTTAATTTAAACCAAG
1 AAAAAATTTAATTTAAACCAAG
48938989 AAAA
1 AAAA
48938993 CCTTTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAAATTTAATTTAAACCAAG
Found at i:48942690 original size:22 final size:22
Alignment explanation
Indices: 48942645--48942706 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
48942635 TTGTACGGGA
* *
48942645 TTGCGCTTTGGTGCCTC--TAT
1 TTGCACTTCGGTGCCTCTGTAT
48942665 TTGCACTTCGGTGCCTCTGTAT
1 TTGCACTTCGGTGCCTCTGTAT
* *
48942687 TTGCACTACAGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
48942707 TAGCATTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 15 0.42
22 21 0.58
ACGTcount: A:0.10, C:0.27, G:0.23, T:0.40
Consensus pattern (22 bp):
TTGCACTTCGGTGCCTCTGTAT
Found at i:48945911 original size:29 final size:28
Alignment explanation
Indices: 48945879--48945950 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
48945869 TTTAAGCCCA
*
48945879 CACACATAGTGCCATATAGTTCAAACTCG
1 CACAC-TAGTGCCATACAGTTCAAACTCG
* *
48945908 CACACTTAGTGCCATACATTTCAAGCTCG
1 CACAC-TAGTGCCATACAGTTCAAACTCG
48945937 CACACTCAGTGCCA
1 CACACT-AGTGCCA
48945951 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
CACACTAGTGCCATACAGTTCAAACTCG
Found at i:48953916 original size:29 final size:27
Alignment explanation
Indices: 48953882--48953984 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
48953872 TACTCGATCA
*
48953882 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* * *
48953911 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
48953940 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
48953969 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
48953985 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:48970147 original size:19 final size:20
Alignment explanation
Indices: 48970108--48970147 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48970098 CTAAACCGAT
* *
48970108 AACTTAGGAATTTTTTACAA
1 AACTTAGAAAATTTTTACAA
48970128 AACTTAGAAAATTTTT-CAA
1 AACTTAGAAAATTTTTACAA
48970147 A
1 A
48970148 CTACAGGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
AACTTAGAAAATTTTTACAA
Found at i:48983904 original size:2 final size:2
Alignment explanation
Indices: 48983897--48983927 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48983887 AATATGTTAA
48983897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48983928 CATCATAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48984024 original size:13 final size:12
Alignment explanation
Indices: 48984004--48984037 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
48983994 GACAAGATAT
48984004 TCTTTAAATTAC
1 TCTTTAAATTAC
*
48984016 TCTTTTAAATTAT
1 TC-TTTAAATTAC
48984029 TCTTTAAAT
1 TCTTTAAAT
48984038 AACATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTTTAAATTAC
Found at i:48984034 original size:12 final size:12
Alignment explanation
Indices: 48984001--48984037 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
48983991 TGAGACAAGA
48984001 TATTCTTTAAAT
1 TATTCTTTAAAT
*
48984013 TACTCTTTTAAAT
1 TATTC-TTTAAAT
48984026 TATTCTTTAAAT
1 TATTCTTTAAAT
48984038 AACATAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:48984507 original size:16 final size:16
Alignment explanation
Indices: 48984486--48984557 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
48984476 AATTAAATTG
*
48984486 CTATTATAGTTCTATT
1 CTATTACAGTTCTATT
**
48984502 CTATTACAACTCTATT
1 CTATTACAGTTCTATT
*
48984518 CCATTACAGTTCTATT
1 CTATTACAGTTCTATT
**
48984534 CTATTACAGCCCTATT
1 CTATTACAGTTCTATT
*
48984550 CCATTACA
1 CTATTACA
48984558 TTGAACCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:48984534 original size:32 final size:32
Alignment explanation
Indices: 48984488--48984557 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
48984478 TTAAATTGCT
* *
48984488 ATTATAGTTCTATTCTATTACAACTCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
*
48984520 ATTACAGTTCTATTCTATTACAGCCCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
48984552 ATTACA
1 ATTACA
48984558 TTGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTACAGTTCTATTCTATTACAACCCTATTCC
Found at i:48988310 original size:42 final size:41
Alignment explanation
Indices: 48988230--48988374 Score: 132
Period size: 44 Copynumber: 3.4 Consensus size: 41
48988220 CCCAGACGTA
* * * *
48988230 GTCTTACATGTAATCAGATATCGATGCCACTATCCCAGACAGG
1 GTCTTACACGAAATCAAATA-CGATGCCA-TGTCCCAGACAGG
* * *
48988273 GTCTTTCATGAAATCAAATACGATGCCGATGTCCCAGACATG
1 GTCTTACACGAAATCAAATACGATGCC-ATGTCCCAGACAGG
*
48988315 GTCTTATACGTAAACCTCAAAT-CGATGCCAATGTCCCAGAC-GTG
1 GTCTTACACG-AAA--TCAAATACGATGCC-ATGTCCCAGACAG-G
48988359 GTCTTACACGAAATCA
1 GTCTTACACGAAATCA
48988375 CATATCGAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.03
42 25 0.29
43 24 0.28
44 28 0.33
45 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
GTCTTACACGAAATCAAATACGATGCCATGTCCCAGACAGG
Found at i:48988352 original size:44 final size:42
Alignment explanation
Indices: 48988218--48988374 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
48988208 CAACGCTAAC
* * * *
48988218 GTCCCAGACGTAGTCTTA-CATGTAATCAGATATCGATGCCACT
1 GTCCCAGACATGGTCTTATCATGAAATCA-A-ATCGATGCCAAT
* * *
48988261 ATCCCAGACAGGGTCTT-TCATGAAATCAAATACGATGCCGAT
1 GTCCCAGACATGGTCTTATCATGAAATCAAAT-CGATGCCAAT
*
48988303 GTCCCAGACATGGTCTTAT-ACGTAAACCTCAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTATCATG-AAA--TCAAATCGATGCCAAT
* *
48988347 GTCCCAGACGTGGTCTTA-CACGAAATCA
1 GTCCCAGACATGGTCTTATCATGAAATCA
48988375 CATATCGAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
41 5 0.05
42 26 0.27
43 29 0.31
44 29 0.31
45 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTATCATGAAATCAAATCGATGCCAAT
Found at i:48997374 original size:14 final size:14
Alignment explanation
Indices: 48997351--48997377 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48997341 AATGACTTCC
48997351 GGAAAATGATTTAT
1 GGAAAATGATTTAT
48997365 GGAAAATGATTTA
1 GGAAAATGATTTA
48997378 ATTTTCTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (14 bp):
GGAAAATGATTTAT
Found at i:48998092 original size:22 final size:22
Alignment explanation
Indices: 48998067--48998108 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
48998057 TATTAAATAA
48998067 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
48998089 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
48998109 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:48999252 original size:21 final size:21
Alignment explanation
Indices: 48999205--48999254 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
48999195 TTGACATGCA
48999205 TATCGATA-TTGAAGCCTAGG
1 TATCGATACTTGAAGCCTAGG
* *
48999225 TACCGATACTT-AGGCCTAAGG
1 TATCGATACTTGAAGCCT-AGG
48999246 TATCGATAC
1 TATCGATAC
48999255 CTTCATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (21 bp):
TATCGATACTTGAAGCCTAGG
Found at i:49000536 original size:29 final size:30
Alignment explanation
Indices: 49000489--49000545 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
49000479 CCCACGCCGT
*
49000489 TTTTCTTTTTGCTCTAATC-CT-GTCTCTA
1 TTTTCTTTTTGCTCCAATCTCTAGTCTCTA
*
49000517 TTTTCTTTTTGTTACCAATCTCTAGTCTC
1 TTTTCTTTTTGCT-CCAATCTCTAGTCTC
49000546 CACTGTCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 5 0.21
30 2 0.08
31 5 0.21
ACGTcount: A:0.12, C:0.25, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTTCTTTTTGCTCCAATCTCTAGTCTCTA
Found at i:49002876 original size:26 final size:26
Alignment explanation
Indices: 49002847--49002954 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49002837 TGGTACAAAT
49002847 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
49002873 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49002899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49002925 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49002951 TGAT
1 TGAT
49002955 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49015327 original size:23 final size:23
Alignment explanation
Indices: 49015294--49015339 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49015284 AAACAGACCC
* *
49015294 TTATCCGCTTCGGCGGTGTTCAG
1 TTATCCACTTCGGCAGTGTTCAG
*
49015317 TTATCCACTTCGGTAGTGTTCAG
1 TTATCCACTTCGGCAGTGTTCAG
49015340 ATATATGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (23 bp):
TTATCCACTTCGGCAGTGTTCAG
Found at i:49020681 original size:43 final size:43
Alignment explanation
Indices: 49020633--49020790 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
49020623 GTTACTAAGA
* *
49020633 TGTGATTACATGTAAGACCATTTCTGGGACATTGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGTATCGTAT
* *
49020676 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGTATCG-TAT
* * ** * * *
49020720 T-TGATTTCGTGTAAGACCCCGTCTGGGACAATAGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGTATCGTAT
* *
49020761 ATGTGATAACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATGTCTGGGA
49020791 TATGGCATTG
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 90 0.95
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGTATCGTAT
Found at i:49022846 original size:20 final size:20
Alignment explanation
Indices: 49022794--49022847 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
49022784 AATAACTAGC
* *
49022794 CAAAGTATAGATACTTTTAG
1 CAAACTATAGATACTTTGAG
*
49022814 CAAAGTATAGATACTTTGAG
1 CAAACTATAGATACTTTGAG
* *
49022834 TAAACTATCGATAC
1 CAAACTATAGATAC
49022848 CTTGGATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
CAAACTATAGATACTTTGAG
Found at i:49025374 original size:40 final size:40
Alignment explanation
Indices: 49025300--49025465 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
49025290 AACCCAAGTA
* * *
49025300 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
49025339 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49025379 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
49025419 CCTTCGCGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49025459 CCTTCGG
1 CCTTCGG
49025466 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 12 0.10
40 104 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49026864 original size:13 final size:13
Alignment explanation
Indices: 49026846--49026871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49026836 ATTTTTATTT
49026846 TTAACATAAAATA
1 TTAACATAAAATA
49026859 TTAACATAAAATA
1 TTAACATAAAATA
49026872 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:49028440 original size:32 final size:33
Alignment explanation
Indices: 49028404--49028467 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
49028394 ACACAATCTT
*
49028404 TTTTATTTATT-AAGG-CT-TAATATTTTGATTTA
1 TTTTA-TTATTCAAGGACTGTAATACTTT-ATTTA
49028436 TTTTATTATTCAAGGACTGTAATACTTTATTT
1 TTTTATTATTCAAGGACTGTAATACTTTATTT
49028468 TTAAACTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.18
32 9 0.32
33 6 0.21
34 8 0.29
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (33 bp):
TTTTATTATTCAAGGACTGTAATACTTTATTTA
Found at i:49037920 original size:3 final size:3
Alignment explanation
Indices: 49037914--49037945 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49037904 AATACATCTT
49037914 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49037946 TGAGATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49038529 original size:31 final size:31
Alignment explanation
Indices: 49038488--49038551 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
49038478 TAAATTAGTT
* *
49038488 TTGAATTATTCAAAAATTTTTATTTAAATCA
1 TTGAACTATTCAAAAAATTTTATTTAAATCA
49038519 TTGAACTATTCAAAAAATTTTATTTAAATCA
1 TTGAACTATTCAAAAAATTTTATTTAAATCA
49038550 TT
1 TT
49038552 AGGTTGTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (31 bp):
TTGAACTATTCAAAAAATTTTATTTAAATCA
Found at i:49044940 original size:48 final size:48
Alignment explanation
Indices: 49044869--49045729 Score: 1395
Period size: 48 Copynumber: 18.0 Consensus size: 48
49044859 AGATAAATAT
*
49044869 ATATATGTGTGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49044917 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * * *
49044965 ATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAATATGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045013 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
49045061 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* **
49045109 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49045157 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045205 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045253 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
49045301 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49045349 ATATA--TATGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49045395 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045443 ATATATATGAGATATGTA-ATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045490 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
49045538 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49045586 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49045634 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49045682 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49045730 TGTTGTAACA
Statistics
Matches: 749, Mismatches: 61, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
46 43 0.06
47 45 0.06
48 661 0.88
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:49045824 original size:37 final size:38
Alignment explanation
Indices: 49045769--49045864 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 38
49045759 AACTTGGAAA
*
49045769 TATATTCCGGGTGAGACCCGATGACTAC-GTGTGGAGAT
1 TATA-TCCGGGTAAGACCCGATGACTACGGTGTGGAGAT
*
49045807 TATGTCCGGGTAAGACCCGATGACTACATGTGGTGTGGAGAT
1 TATATCCGGGTAAGACCCGATGACTAC----GGTGTGGAGAT
49045849 TATATCCGGGTAAGAC
1 TATATCCGGGTAAGAC
49045865 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 22 0.44
38 3 0.06
42 25 0.50
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (38 bp):
TATATCCGGGTAAGACCCGATGACTACGGTGTGGAGAT
Found at i:49047122 original size:40 final size:40
Alignment explanation
Indices: 49047043--49047259 Score: 292
Period size: 40 Copynumber: 5.3 Consensus size: 40
49047033 GAGAATTGAG
* * * *
49047043 AGTGATATATCCGGGCTAAATTCC-AAGAGCATTCGTGCT
1 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
49047082 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
49047122 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
* * *
49047162 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
* *
49047202 AGTGATGTATCCGGACTAAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTAT-C---C--AGACTAAGTTCCAAAGAGCATTCGTGCT
49047248 AGTGATGTATCC
1 AGTGATGTATCC
49047260 GGGCTAGGTC
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
39 20 0.12
40 102 0.63
41 1 0.01
42 1 0.01
44 1 0.01
45 1 0.01
46 35 0.22
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
AGTGATGTATCCAGACTAAGTTCCAAAGAGCATTCGTGCT
Found at i:49047496 original size:25 final size:25
Alignment explanation
Indices: 49047455--49047506 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
49047445 TGTGTAATAA
49047455 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
*
49047480 TGAATGATTAA-AGGCACTATGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
49047505 TG
1 TG
49047507 CGAATTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:49050829 original size:48 final size:48
Alignment explanation
Indices: 49050758--49051332 Score: 954
Period size: 48 Copynumber: 12.0 Consensus size: 48
49050748 ATAAATATAT
* *
49050758 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
49050806 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49050854 ATATGTATGAGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
49050902 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49050950 ATATGTATGAGATA-GTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49050997 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49051045 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49051093 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
49051141 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49051189 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49051237 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
49051285 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49051333 TGTTGTAACA
Statistics
Matches: 492, Mismatches: 34, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
47 43 0.09
48 449 0.91
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:49051432 original size:37 final size:37
Alignment explanation
Indices: 49051377--49051499 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
49051367 GGAAATATAT
* *
49051377 TCCGGGTGAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49051414 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49051451 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49051488 TCCGGGTAAGAC
1 TCCGGGTAAGAC
49051500 TTCGTAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49057098 original size:19 final size:19
Alignment explanation
Indices: 49057074--49057116 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
49057064 AGAAGTTTTT
49057074 AAAACCA-TTATATTTGAAG
1 AAAACCATTTATATTT-AAG
*
49057093 AAAACCATTTGTATTTAAG
1 AAAACCATTTATATTTAAG
49057112 AAAAC
1 AAAAC
49057117 GTTGTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (19 bp):
AAAACCATTTATATTTAAG
Found at i:49058072 original size:17 final size:18
Alignment explanation
Indices: 49058035--49058074 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
49058025 CTAGAATCCC
49058035 ACACGCCCGTGTGGACCT
1 ACACGCCCGTGTGGACCT
*
49058053 ACACGCCTGTGTGG-CCT
1 ACACGCCCGTGTGGACCT
49058070 ACACG
1 ACACG
49058075 GCCCAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (18 bp):
ACACGCCCGTGTGGACCT
Found at i:49058841 original size:33 final size:32
Alignment explanation
Indices: 49058795--49058879 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
49058785 ATTGAGGCTT
*
49058795 AAACTAATTCAATGTCATCCCTACCTCATAGCG
1 AAACTAA-TCAATGTCATCCCTACCGCATAGCG
*
49058828 AAACTAATACAATGTCATCCCTACCGCATATCG
1 AAACTAAT-CAATGTCATCCCTACCGCATAGCG
49058861 AAACTAACTCAATGTCATC
1 AAACTAA-TCAATGTCATC
49058880 TTTGGGCGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.02
33 46 0.96
34 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.26
Consensus pattern (32 bp):
AAACTAATCAATGTCATCCCTACCGCATAGCG
Found at i:49059740 original size:28 final size:28
Alignment explanation
Indices: 49059700--49059759 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
49059690 AACGGTGTTT
49059700 ACTAATGAAAACTTAGTTGAAAATCCAA
1 ACTAATGAAAACTTAGTTGAAAATCCAA
*
49059728 ACTATTGAAAACTTAGTTGAAAATCCAA
1 ACTAATGAAAACTTAGTTGAAAATCCAA
49059756 ACTA
1 ACTA
49059760 CTTTCTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (28 bp):
ACTAATGAAAACTTAGTTGAAAATCCAA
Found at i:49061753 original size:30 final size:30
Alignment explanation
Indices: 49061717--49061817 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49061707 GACAAGATTG
* * *
49061717 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49061747 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49061775 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49061804 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49061818 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49061829 original size:29 final size:28
Alignment explanation
Indices: 49061746--49061821 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49061736 AAAATTGTAC
* *
49061746 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49061774 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49061803 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49061822 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49068883 original size:30 final size:30
Alignment explanation
Indices: 49068847--49068947 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49068837 GACAAGATTG
* * *
49068847 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49068877 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49068905 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49068934 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49068948 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49068959 original size:29 final size:28
Alignment explanation
Indices: 49068876--49068951 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49068866 AAAATTGTAC
* *
49068876 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49068904 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49068933 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49068952 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49071225 original size:39 final size:39
Alignment explanation
Indices: 49071171--49071333 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
49071161 TGTGTATGAA
* *
49071171 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
49071210 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
49071249 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
49071288 TGTGCGAGTTGTGATATCCGAGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
49071328 TGTGCG
1 TGTGCG
49071334 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:49081912 original size:28 final size:28
Alignment explanation
Indices: 49081872--49081928 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
49081862 AATGGAAAAG
49081872 TTTGAATGATATTATGCATATCAACTAC
1 TTTGAATGATATTATGCATATCAACTAC
*
49081900 TTTGAATGATATTATGCATATGAACTAC
1 TTTGAATGATATTATGCATATCAACTAC
49081928 T
1 T
49081929 AAGTGTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (28 bp):
TTTGAATGATATTATGCATATCAACTAC
Found at i:49083030 original size:12 final size:12
Alignment explanation
Indices: 49083015--49083047 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
49083005 TACAAGTATT
49083015 ATTATAATAAAG
1 ATTATAATAAAG
49083027 ATTATAATAAAAG
1 ATTATAAT-AAAG
49083040 A-TATAATA
1 ATTATAATA
49083048 TTAAATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 14 0.70
13 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (12 bp):
ATTATAATAAAG
Found at i:49083875 original size:24 final size:24
Alignment explanation
Indices: 49083847--49083901 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
49083837 CATTCAAAAT
49083847 TTTCCAAAACCTAAAATCAGGGAA
1 TTTCCAAAACCTAAAATCAGGGAA
49083871 TTTCCAAAACCTAAAATCAGGGAA
1 TTTCCAAAACCTAAAATCAGGGAA
49083895 TTTCCAA
1 TTTCCAA
49083902 GATCAAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.24
Consensus pattern (24 bp):
TTTCCAAAACCTAAAATCAGGGAA
Found at i:49084117 original size:20 final size:20
Alignment explanation
Indices: 49084089--49084128 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49084079 GTTAAATAAA
*
49084089 GAGTTTTGTTAATTTAAAAC
1 GAGTATTGTTAATTTAAAAC
49084109 GAGTATTGTTAATTTAAAAC
1 GAGTATTGTTAATTTAAAAC
49084129 TAGTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
GAGTATTGTTAATTTAAAAC
Found at i:49085251 original size:36 final size:36
Alignment explanation
Indices: 49085168--49085274 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 36
49085158 CAAGATAAAC
49085168 ATTAAATATAAT-T-AAA-TATTAAGATAATCACTTTAAT
1 ATTAAAT-TAATATAAAACTATTAAGATAAT-A--TTAAT
49085205 ATTAAATTAATA-AAATACTATTAAGATAATATTAA-
1 ATTAAATTAATATAAA-ACTATTAAGATAATATTAAT
* * *
49085240 ATTAAATTTAATATTAAACTTTTAAAATAATATTA
1 ATTAAA-TTAATATAAAACTATTAAGATAATATTA
49085275 TTTTTTAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
35 6 0.10
36 30 0.49
37 11 0.18
38 2 0.03
39 12 0.20
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (36 bp):
ATTAAATTAATATAAAACTATTAAGATAATATTAAT
Found at i:49089718 original size:8 final size:8
Alignment explanation
Indices: 49089705--49089729 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49089695 CTAGATCGGC
49089705 AAAAGCCG
1 AAAAGCCG
49089713 AAAAGCCG
1 AAAAGCCG
49089721 AAAAGCCG
1 AAAAGCCG
49089729 A
1 A
49089730 CATTTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:49098151 original size:15 final size:15
Alignment explanation
Indices: 49098127--49098158 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49098117 TATGCATGCA
*
49098127 AAATATAAAAGACAT
1 AAATACAAAAGACAT
49098142 AAATACAAAAGACAT
1 AAATACAAAAGACAT
49098157 AA
1 AA
49098159 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:49102052 original size:27 final size:27
Alignment explanation
Indices: 49101990--49102058 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
49101980 CCCCTAATTG
* *
49101990 GTGGTAAAATGATTATTTTGCCCCTAT
1 GTGGTAAAATGACTGTTTTGCCCCTAT
* * **
49102017 ATGGAAAAATGACTGTTTTGCCTTTAT
1 GTGGTAAAATGACTGTTTTGCCCCTAT
49102044 GTGGTAAAATGACTG
1 GTGGTAAAATGACTG
49102059 AAATGCCCCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGTAAAATGACTGTTTTGCCCCTAT
Found at i:49102444 original size:18 final size:18
Alignment explanation
Indices: 49102421--49102457 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
49102411 TACATAGTGA
*
49102421 TTACTGTTACTGCACTAT
1 TTACTGTTACTGCAATAT
49102439 TTACTGTTACTGCAATAT
1 TTACTGTTACTGCAATAT
49102457 T
1 T
49102458 CCAAGGCTCG
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:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (18 bp):
TTACTGTTACTGCAATAT
Found at i:49105021 original size:49 final size:51
Alignment explanation
Indices: 49104952--49105197 Score: 268
Period size: 49 Copynumber: 4.9 Consensus size: 51
49104942 ATCTATTGTG
* * *
49104952 AGGTCACGTCTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTA-TT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAACTT
* * **
49105002 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAACTT
* * * * * * *
49105052 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAACTT
* **
49105102 AGGTCACATGTGTAGTACTAAGTGCAGGCTCCTACATGTACCGGATAA-TT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAACTT
* * * *
49105152 A-GTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
49105198 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 78 0.48
50 47 0.29
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAACTT
Found at i:49112603 original size:50 final size:49
Alignment explanation
Indices: 49112485--49112710 Score: 183
Period size: 50 Copynumber: 4.6 Consensus size: 49
49112475 TATTGTGAGG
* * * ** *
49112485 TCACATGTGTAGTACTAAGTGCAGACTACTGCGTGTACTGGATTA-TT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGA-TACTTAGA
* * * *
49112534 TCACATGTGTAGTACTAAGTGTAGGCTACTA-TGCTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACTG-TACCAGAT-ACTTAGA
* ** *
49112584 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATACTTAGA
* * * *
49112634 TCACGTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCAGATAATTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGATACTTAGA
*
49112684 TGCA--TTTGTAGTACTAAGTGCAGGCTA
1 T-CACGTGTGTAGTACTAAGTGCAGGCTA
49112711 TTATGCATAC
Statistics
Matches: 148, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
47 3 0.02
48 6 0.04
49 51 0.34
50 78 0.53
51 8 0.05
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACTGTACCAGATACTTAGA
Found at i:49112694 original size:99 final size:98
Alignment explanation
Indices: 49112485--49112710 Score: 262
Period size: 99 Copynumber: 2.3 Consensus size: 98
49112475 TATTGTGAGG
* * * *
49112485 TCACATGTGTAGTACTAAGTGCAGACTACTGCGTGTACTGGATTATTGGTCACATGTGTAGTACT
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATTGGTCACATGTGTAGTACT
* *
49112550 AAGTGTAGGCTACTATGCTACCCGATAACTTCGA
65 AAGTGGAGGCTACTATGCTACCAGATAACTTCGA
* *
49112584 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTA
1 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGATT-GGTCACATGTGTAGTA
* *
49112648 CTAAGTGGAGGCTACTACGTG-TACCAGATAA-TTGGT
63 CTAAGTGGAGGCTACTA--TGCTACCAGATAACTTCGA
*
49112684 TGCA-TTTGTAGTACTAAGTGCAGGCTA
1 T-CACTGTGTAGTACTAAGTGCAGGCTA
49112711 TTATGCATAC
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
98 1 0.01
99 61 0.55
100 35 0.32
101 11 0.10
102 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGATTGGTCACATGTGTAGTACTA
AGTGGAGGCTACTATGCTACCAGATAACTTCGA
Found at i:49133212 original size:25 final size:25
Alignment explanation
Indices: 49133146--49133212 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
49133136 TCTTTGTGAA
* ** *
49133146 CTTCCTGATT-ATGACTCTTATGAG
1 CTTCCTGATTAATGGCTCGGATAAG
*
49133170 CTTCCTG-TTATATAGCTCGGATAAG
1 CTTCCTGATTA-ATGGCTCGGATAAG
49133195 CTTCCTGATTAATGGCTC
1 CTTCCTGATTAATGGCTC
49133213 TTTGTGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 7 0.21
25 22 0.65
26 3 0.09
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTCGGATAAG
Found at i:49140134 original size:40 final size:40
Alignment explanation
Indices: 49140075--49140216 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
49140065 AAATTGAATG
* * *
49140075 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
49140115 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49140155 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49140195 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49140217 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49140240 original size:40 final size:40
Alignment explanation
Indices: 49140113--49140242 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
49140103 ATGCTGGAAA
* * *
49140113 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
49140153 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
49140193 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
49140233 TTATATCCGG
1 TTATATCCGG
49140243 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:49153521 original size:53 final size:53
Alignment explanation
Indices: 49153341--49153540 Score: 202
Period size: 53 Copynumber: 3.7 Consensus size: 53
49153331 ATTAGGGTTT
* * * * * * *
49153341 AAGGATACCAAGTAAGACCATGCTAAGGCATGGCATTGGTAAGTTGTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTGAGTT-CATAAGGC
* * * * * * *
49153395 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAGACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-GAGTTC-ATAAGGC
* * *
49153450 AAAGATCCCATGTAAGACCATGCCAAGTCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTGAGTTCATAAGGC
* *
49153503 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATG
49153541 ATAATTTTAA
Statistics
Matches: 117, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 40 0.34
54 37 0.32
55 40 0.34
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTGAGTTCATAAGGC
Found at i:49160401 original size:54 final size:55
Alignment explanation
Indices: 49160317--49160449 Score: 160
Period size: 55 Copynumber: 2.4 Consensus size: 55
49160307 TAGGGTTTAC
* * ** * * *
49160317 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGAT-AAGTTCTACAAGACAA
1 GGATACCATGTAAGACCATGTCAAAACATGGCAGTGATAAACTACTACAAGACAA
* *
49160371 GGATATCATGTAAGACCATGTCAAAACATGGCAGTGATAAACTACTATAAGACAA
1 GGATACCATGTAAGACCATGTCAAAACATGGCAGTGATAAACTACTACAAGACAA
* *
49160426 AGATCCCATGTAAGACCATGTCAA
1 GGATACCATGTAAGACCATGTCAA
49160450 GTCATAGCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 32 0.48
55 34 0.52
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (55 bp):
GGATACCATGTAAGACCATGTCAAAACATGGCAGTGATAAACTACTACAAGACAA
Found at i:49165164 original size:43 final size:42
Alignment explanation
Indices: 49165117--49165369 Score: 233
Period size: 43 Copynumber: 5.9 Consensus size: 42
49165107 TGATGAACTT
* *
49165117 TGTGTGCCAATATAGATTCTTCAGTTTATCTGATGATGCAGTG
1 TGTGTGCCAGTATAGATGCTTCAGTTTATCTGATGATGCA-TG
* **
49165160 TGTGTGCCAGTA-ACTATGCTTTGGTTTAATC-GATGATGCAATG
1 TGTGTGCCAGTATA-GATGCTTCAGTTT-ATCTGATGATGC-ATG
* * * *
49165203 TGTGTGCCAGTATAGTTGCTT-TGATTTATCAGATGATACATAG
1 TGTGTGCCAGTATAGATGCTTCAG-TTTATCTGATGATGCAT-G
* * * * *
49165246 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATGCACTA
1 TGTGTGCCAGTATAGATGCTTCAGTTTATCTGATGATGCA-TG
* *
49165289 TGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGCATTA
1 TGTGTGCCAGTATAGATGCTTCAGTTTATCTGATGATGCA-TG
* * * *
49165332 TGTGTTCCAGTATATATGATTCAGTTTATCCGATGATG
1 TGTGTGCCAGTATAGATGCTTCAGTTTATCTGATGATG
49165370 AATTGTATAT
Statistics
Matches: 172, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
42 7 0.04
43 159 0.92
44 6 0.03
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (42 bp):
TGTGTGCCAGTATAGATGCTTCAGTTTATCTGATGATGCATG
Found at i:49165336 original size:86 final size:84
Alignment explanation
Indices: 49165092--49165369 Score: 261
Period size: 86 Copynumber: 3.2 Consensus size: 84
49165082 GTAGGTTATA
* * * * * * *
49165092 CTTCGATTTATCCAATGATGAACTTTGTGTGCCAATATAGATTCTTCAGTTTATCTGATGATGCA
1 CTTCAATTTATCCGATGATGCACTATGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGCA
* *
49165157 GTGTGTGTGCCAGTAACTATG
66 -TATGTGTACCAGTAA-TATG
*** * * * * * * *
49165178 CTTTGGTTTAAT-CGATGATGCAATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATAC
1 CTTCAATTT-ATCCGATGATGCACTATGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGC
* *
49165242 ATAGTGTGTACCAATACAGATG
65 ATA-TGTGTACCAGTA-ATATG
*
49165264 CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGCA
1 CTTCAATTTATCCGATGATGCACTATGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGCA
*
49165329 TTATGTGTTCCAGTATATATG
66 -TATGTGTACCAGTA-ATATG
* *
49165350 ATTCAGTTTATCCGATGATG
1 CTTCAATTTATCCGATGATG
49165370 AATTGTATAT
Statistics
Matches: 151, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
85 3 0.02
86 143 0.95
87 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (84 bp):
CTTCAATTTATCCGATGATGCACTATGTGTGCCAGTATAGATGCTTCGGTTTATCTGATGATGCA
TATGTGTACCAGTAATATG
Found at i:49165360 original size:129 final size:129
Alignment explanation
Indices: 49165117--49165368 Score: 314
Period size: 129 Copynumber: 2.0 Consensus size: 129
49165107 TGATGAACTT
* * * * * * * *
49165117 TGTGTGCCAATATAGATTCTTCAGTTTATCTGATGATGCAGTGTGTGTGCCAGTAACTATGCTTT
1 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATGCACTATGTGTGCCAGTAACGATGCTTC
* * *
49165182 GGTTTAATCGATGATGCAATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATACATAG
66 GGTTTAATCGATGATGCAATATGTGTGCCAGTATAGTTGATTAGATTTATCAGATGATACATAG
49165246 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATA-GATGCTT
1 TGTGTACCAATACAGATGCTTCAATTTATCTGATGATGCACTATGTGTGCCAGTA-ACGATGCTT
* * *
49165310 CGGTTT-ATCTGATGATGCATTATGTGTTCCAGTATA-TATGATTCAG-TTTATCCGATGAT
65 CGGTTTAATC-GATGATGCAATATGTGTGCCAGTATAGT-TGATT-AGATTTATCAGATGAT
49165369 GAATTGTATA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
128 4 0.04
129 99 0.94
130 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (129 bp):
TGTGTACCAATACAGATGCTTCAATTTATCTGATGATGCACTATGTGTGCCAGTAACGATGCTTC
GGTTTAATCGATGATGCAATATGTGTGCCAGTATAGTTGATTAGATTTATCAGATGATACATAG
Found at i:49165385 original size:43 final size:43
Alignment explanation
Indices: 49165259--49165386 Score: 112
Period size: 43 Copynumber: 3.0 Consensus size: 43
49165249 GTACCAATAC
* * * * * * *
49165259 AGATGCTTCAATTTATCTGATGATGCACTATGTGTGCCAGTAT
1 AGATGATTCAGTTTATCCGATGATGAATTATATATGCCAGTAT
* * * * * * *
49165302 AGATGCTTCGGTTTATCTGATGATGCATTATGTGTTCCAGTAT
1 AGATGATTCAGTTTATCCGATGATGAATTATATATGCCAGTAT
* *
49165345 ATATGATTCAGTTTATCCGATGATGAATTGTATATGCCAGTA
1 AGATGATTCAGTTTATCCGATGATGAATTATATATGCCAGTA
49165387 AAATTGCTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (43 bp):
AGATGATTCAGTTTATCCGATGATGAATTATATATGCCAGTAT
Found at i:49165395 original size:129 final size:130
Alignment explanation
Indices: 49165135--49165431 Score: 284
Period size: 129 Copynumber: 2.3 Consensus size: 130
49165125 AATATAGATT
* * * * *
49165135 CTTCAGTTTATCTGATGATGCAGTGTGTGTGCCAGTA-ACTATGCTTTGGTTTAATCGATGATGC
1 CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATACGATGCTTCGGTTTAATCGATGATGC
* * * * * *
49165199 AATGTGTGTGCCAGTATAGTTGCTTTGATTTATCAGATGATACATAGTGTGTACCAATACAGATG
66 AATATGTGTGCCAGTATAGTTGATTAGATTTATCAGATGATACATAGTATATACCAATACAAATG
49165264 CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATA-GATGCTTCGGTTT-ATCTGATGATG
1 CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATACGATGCTTCGGTTTAATC-GATGATG
* * * * * *
49165327 CATTATGTGTTCCAGTATA-TATGATTCAG-TTTATCCGATGATGA-ATTGTATATGCCAGTA-A
65 CAATATGTGTGCCAGTATAGT-TGATT-AGATTTATCAGATGAT-ACATAGTATATACCAATACA
49165388 AATTG
127 AA-TG
* * * * ** *
49165393 CTTCGATTAATTTGGTGATGCACTACATGTGCTAGTATA
1 CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATA
49165432 TTTCCTTCCG
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
128 6 0.04
129 129 0.93
130 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (130 bp):
CTTCAATTTATCTGATGATGCACTATGTGTGCCAGTATACGATGCTTCGGTTTAATCGATGATGC
AATATGTGTGCCAGTATAGTTGATTAGATTTATCAGATGATACATAGTATATACCAATACAAATG
Found at i:49165499 original size:43 final size:43
Alignment explanation
Indices: 49165402--49165503 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 43
49165392 GCTTCGATTA
* * * ***
49165402 ATTTGGTGATGCACTACATGTGCTAGTATATTTCCTTCCGTTT
1 ATTTGGTGATGCACTACATGTACCAGTATATTTCCTACAAATT
*****
49165445 ATCCAACGATGCACTACATGTACCAGTATATTTCCTACAAATT
1 ATTTGGTGATGCACTACATGTACCAGTATATTTCCTACAAATT
49165488 ATTTGGTGATGCACTA
1 ATTTGGTGATGCACTA
49165504 AGTGGGCCAG
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (43 bp):
ATTTGGTGATGCACTACATGTACCAGTATATTTCCTACAAATT
Found at i:49175566 original size:26 final size:26
Alignment explanation
Indices: 49175531--49175587 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
49175521 ATTCATGCCA
49175531 ACATG-CATAGTATAATTTCCCTATC
1 ACATGTCATAGTATAATTTCCCTATC
49175556 ACATGTCATAGTATAATTTCCCTATC
1 ACATGTCATAGTATAATTTCCCTATC
49175582 ACATGT
1 ACATGT
49175588 ACTCAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (26 bp):
ACATGTCATAGTATAATTTCCCTATC
Found at i:49175906 original size:59 final size:59
Alignment explanation
Indices: 49175836--49175969 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
49175826 GTCAGGATTA
*
49175836 CCAGTCCAGGCTAAATCTCTTTCAACGACAATTGCTATCATAAACTTGGATCTGAATTG
1 CCAGTCCAGGCTAAATCTCTTTCAACAACAATTGCTATCATAAACTTGGATCTGAATTG
* *
49175895 CTAGTCCAGGCTAAATCTCTTTCAACAACAATTGCTTTCATAAACTTGGATCTGAATTG
1 CCAGTCCAGGCTAAATCTCTTTCAACAACAATTGCTATCATAAACTTGGATCTGAATTG
* *
49175954 CCAGTCTAAGCTAAAT
1 CCAGTCCAGGCTAAAT
49175970 TTAGTCCTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (59 bp):
CCAGTCCAGGCTAAATCTCTTTCAACAACAATTGCTATCATAAACTTGGATCTGAATTG
Found at i:49177607 original size:41 final size:41
Alignment explanation
Indices: 49177481--49177597 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 41
49177471 CGTTAGTAGT
* * * *
49177481 GTTTTTGCATAAACACTGCAAAAGGTTAAAACGATAGCGGT
1 GTTTTTGCATAAACGCTGCAAAAGGTTAAAACAATAGCAGC
* * * * *
49177522 GTTTTTCCCATAAACGCTTCTAAAGG-TAAAGCAAAAGCAGC
1 GTTTTT-GCATAAACGCTGCAAAAGGTTAAAACAATAGCAGC
*
49177563 GTTTTTGCATAAACGCCGCAAAAGGTTAAAACAAT
1 GTTTTTGCATAAACGCTGCAAAAGGTTAAAACAAT
49177598 TGTTGCGTTT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
40 15 0.25
41 29 0.49
42 15 0.25
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (41 bp):
GTTTTTGCATAAACGCTGCAAAAGGTTAAAACAATAGCAGC
Found at i:49180629 original size:12 final size:12
Alignment explanation
Indices: 49180612--49180638 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49180602 AACCAGTTCT
49180612 AAACTAGTATTA
1 AAACTAGTATTA
49180624 AAACTAGTATTA
1 AAACTAGTATTA
49180636 AAA
1 AAA
49180639 TCGAAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACTAGTATTA
Found at i:49180694 original size:4 final size:4
Alignment explanation
Indices: 49180687--49180754 Score: 52
Period size: 4 Copynumber: 17.2 Consensus size: 4
49180677 TAATATTTTA
* * * *
49180687 AATT AATT AATT AATT AATT -TTT GATT AATT AAAT AAAT AATT ATATTT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT A-A-TT
*
49180736 CA-T AA-T AATT AATT AATT A
1 AATT AATT AATT AATT AATT A
49180755 TTTTTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
3 7 0.13
4 42 0.79
5 2 0.04
6 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:49180705 original size:28 final size:28
Alignment explanation
Indices: 49180663--49180735 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 28
49180653 TGGTGAATAA
49180663 AATTAAATAAATAATAATATTTTAAATT
1 AATTAAATAAATAATAATATTTTAAATT
* *
49180691 AATT-AATTAAT--TAAT-TTTT-GATT
1 AATTAAATAAATAATAATATTTTAAATT
*
49180714 AATTAAATAAATAATTATATTT
1 AATTAAATAAATAATAATATTT
49180736 CATAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 7 0.19
24 10 0.27
25 4 0.11
26 3 0.08
27 9 0.24
28 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
AATTAAATAAATAATAATATTTTAAATT
Found at i:49180718 original size:51 final size:51
Alignment explanation
Indices: 49180663--49180795 Score: 187
Period size: 51 Copynumber: 2.6 Consensus size: 51
49180653 TGGTGAATAA
*
49180663 AATTAAATAAATAATAATATTTTA-AATTAATTAATTAATTAATTTTTGATT
1 AATTAAATAAATAATAATATTTCATAA-TAATTAATTAATTAATTTTTGATT
* * *
49180714 AATTAAATAAATAATTATATTTCATAATAATTAATTAATTATTTTTTTATT
1 AATTAAATAAATAATAATATTTCATAATAATTAATTAATTAATTTTTGATT
* * *
49180765 ATTTAATTAAATAATCATATTTCATAATAAT
1 AATTAAATAAATAATAATATTTCATAATAAT
49180796 CATAAAATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 72 0.97
52 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (51 bp):
AATTAAATAAATAATAATATTTCATAATAATTAATTAATTAATTTTTGATT
Found at i:49185386 original size:16 final size:15
Alignment explanation
Indices: 49185348--49185386 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
49185338 CGTTTTCTCC
*
49185348 TTTTTCTTGTTTTCA
1 TTTTTTTTGTTTTCA
*
49185363 TTTCTTTTGTTCTTCA
1 TTTTTTTTGTT-TTCA
49185379 TTTTTTTT
1 TTTTTTTT
49185387 AATCTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTTTTTTGTTTTCA
Found at i:49187931 original size:41 final size:41
Alignment explanation
Indices: 49187874--49187971 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
49187864 AATGGGTCCA
* *
49187874 CTAACACAAGCTGATGGTCATGATGAATCTACACGGCACTG
1 CTAACACAAGCTGATGGTCATGACGAAACTACACGGCACTG
* **
49187915 CTAACACAAGCTGATGGTTATGACGAAACTACACGGTGCTG
1 CTAACACAAGCTGATGGTCATGACGAAACTACACGGCACTG
*
49187956 CTCACACAAGCTGATG
1 CTAACACAAGCTGATG
49187972 AGTATCATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
CTAACACAAGCTGATGGTCATGACGAAACTACACGGCACTG
Found at i:49208074 original size:20 final size:20
Alignment explanation
Indices: 49208049--49208086 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49208039 GTTTATTCGC
*
49208049 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
49208069 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
49208087 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:49209742 original size:28 final size:28
Alignment explanation
Indices: 49209710--49209778 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49209700 GCGTAGATCA
49209710 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49209738 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49209766 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49209779 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49217737 original size:28 final size:28
Alignment explanation
Indices: 49217705--49217759 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
49217695 GCGTAGATCA
*
49217705 CGAAATTACCCCTAAAGAGCAGAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAT
49217733 CGAAATTACCCCTAAAGAGCAAAATTA
1 CGAAATTACCCCTAAAGAGCAAAATTA
49217760 CCGATATACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.13, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAT
Found at i:49226748 original size:40 final size:40
Alignment explanation
Indices: 49226640--49226849 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
49226630 CGGGATTTAA
* * * * *
49226640 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
49226680 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49226720 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49226760 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49226800 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49226840 CCGGATATAT
1 CCGGATATAT
49226850 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:49234867 original size:40 final size:40
Alignment explanation
Indices: 49234759--49234928 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
49234749 CGGGATTTAA
* * * * *
49234759 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
49234799 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49234839 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49234879 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
49234919 CCGGATATAT
1 CCGGATATAT
49234929 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:49236768 original size:40 final size:40
Alignment explanation
Indices: 49236719--49236819 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
49236709 CTTGGTCTAA
* * *
49236719 CACACTAAGTGCCATATATATCTAAATCTATTC-CGGATCG
1 CACACTAAGTGCCATATATATCCAAAGCT-TTCTCGAATCG
* * * *
49236759 CACAATAAGTGTCATATATAGCCAAAGCTTTCTTGAATCG
1 CACACTAAGTGCCATATATATCCAAAGCTTTCTCGAATCG
49236799 CACACTAAGTGCCATATATAT
1 CACACTAAGTGCCATATATAT
49236820 TATATATATA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 3 0.06
40 47 0.94
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (40 bp):
CACACTAAGTGCCATATATATCCAAAGCTTTCTCGAATCG
Found at i:49236819 original size:2 final size:2
Alignment explanation
Indices: 49236812--49236854 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
49236802 ACTAAGTGCC
*
49236812 AT AT AT AT -T AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49236853 AT
1 AT
49236855 CTGAATTGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:49241636 original size:42 final size:41
Alignment explanation
Indices: 49241522--49241763 Score: 146
Period size: 43 Copynumber: 5.7 Consensus size: 41
49241512 TGCTAATATA
* * * * *
49241522 AATGCTTCATTTTATCCGATGTTGCACTGTGTGTGCCATTGTAT
1 AATGCTTCAATTTATCCAATGATGTACTATGTGTG-CA--GTAT
* * * *
49241566 -ATGCTTCATTTTATCCAACGATGCACTATGTGTGCCGTAT
1 AATGCTTCAATTTATCCAATGATGTACTATGTGTGCAGTAT
* *
49241606 AATTGCTTCAATTTATCCCATAATGTACTATGTGTGTCAGTAT
1 AA-TGCTTCAATTTATCCAATGATGTACTATGTGTG-CAGTAT
* * *
49241649 AAATACTTCAGA-TTATCCGATGATATACTATGTGTGCGAGTAT
1 -AATGCTTCA-ATTTATCCAATGATGTACTATGTGTGC-AGTAT
* *** ** *
49241692 AGATGCTTCAGTTTATTTGATGATACACTATGTGTGAGAGTAT
1 A-ATGCTTCAATTTATCCAATGATGTACTATGTGTG-CAGTAT
* * **
49241735 AGATGCTTTAGTTTATCTGATGATGTACT
1 A-ATGCTTCAATTTATCCAATGATGTACT
49241764 TTATGTGCCA
Statistics
Matches: 164, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
40 4 0.02
41 1 0.01
42 31 0.19
43 125 0.76
44 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
AATGCTTCAATTTATCCAATGATGTACTATGTGTGCAGTAT
Found at i:49241714 original size:43 final size:43
Alignment explanation
Indices: 49241590--49241763 Score: 174
Period size: 43 Copynumber: 4.1 Consensus size: 43
49241580 CCAACGATGC
* * ** * *
49241590 ACTATGTGTGC-CGTATA-ATTGCTTCAATTTATCCCATAATGT
1 ACTATGTGTGCGAGTATAGA-TGCTTCAGTTTATCTGATGATAT
* * * *
49241632 ACTATGTGTGTC-AGTATAAATACTTCAGATTATCCGATGATAT
1 ACTATGTGTG-CGAGTATAGATGCTTCAGTTTATCTGATGATAT
* *
49241675 ACTATGTGTGCGAGTATAGATGCTTCAGTTTATTTGATGATAC
1 ACTATGTGTGCGAGTATAGATGCTTCAGTTTATCTGATGATAT
* * *
49241718 ACTATGTGTGAGAGTATAGATGCTTTAGTTTATCTGATGATGT
1 ACTATGTGTGCGAGTATAGATGCTTCAGTTTATCTGATGATAT
49241761 ACT
1 ACT
49241764 TTATGTGCCA
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 11 0.10
43 99 0.89
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (43 bp):
ACTATGTGTGCGAGTATAGATGCTTCAGTTTATCTGATGATAT
Found at i:49243439 original size:40 final size:40
Alignment explanation
Indices: 49243278--49243548 Score: 287
Period size: 40 Copynumber: 6.8 Consensus size: 40
49243268 TACTCGAATT
* * *
49243278 ATCGCACACTAAGTGCCAAAAAATAGCCGAAGCTAT-TTTA
1 ATCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGA
* * * *
49243318 ACCTTGCACACGAAGTGCCATACATAGCCAAAGCTATCCTGA
1 A--TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* * * * *
49243360 ATCGCACGCTAGGTGTCATA-ATAGCCGAAACTATTTTGAA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTG-A
*
49243400 AT-GCACACTAAGTTCCATACATAGCCGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* * * *
49243439 ATCACACACTAAGTTCCATATATAGCTGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* * *
49243479 ACCACACACTAAGTGCCATATATAGCCGAAGCTATCTTGA
1 ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
* *
49243519 ATCGCACACTAAGTGCCTTACTTAGCCGAA
1 ATCGCACACTAAGTGCCATACATAGCCGAA
49243549 TTGTCAACAA
Statistics
Matches: 192, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
39 30 0.16
40 130 0.68
41 15 0.08
42 17 0.09
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTGA
Found at i:49244789 original size:43 final size:43
Alignment explanation
Indices: 49244742--49244834 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
49244732 ATTAATACAG
** *
49244742 TGATGCACTACATGTGTCAGTAAATTTCCCTCAGT-TTATCCAA
1 TGATGCACTACATGTACCAGTAAATCTCCCTCA-TATTATCCAA
* * *
49244785 TGATGCACTACGTGTACCAGTATATCTCCTTCATATTATCCAA
1 TGATGCACTACATGTACCAGTAAATCTCCCTCATATTATCCAA
49244828 TGATGCA
1 TGATGCA
49244835 TTGACTGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (43 bp):
TGATGCACTACATGTACCAGTAAATCTCCCTCATATTATCCAA
Found at i:49244870 original size:17 final size:17
Alignment explanation
Indices: 49244848--49244884 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
49244838 ACTGTGTTAA
49244848 AGTAATTACATTAGTTT
1 AGTAATTACATTAGTTT
*
49244865 AGTAATTACTTTAGTTT
1 AGTAATTACATTAGTTT
49244882 AGT
1 AGT
49244885 CAATAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (17 bp):
AGTAATTACATTAGTTT
Found at i:49246172 original size:31 final size:32
Alignment explanation
Indices: 49246131--49246194 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
49246121 CCCGTTATGA
* * *
49246131 GATTTTGAT-AAAAATAGATAGTTGAGGGTTT
1 GATTTCGATAAAAAATAAATAGTAGAGGGTTT
49246162 GATTTCGATAAAAAATAAATAGTAGAGGGTTT
1 GATTTCGATAAAAAATAAATAGTAGAGGGTTT
49246194 G
1 G
49246195 TAGAGGATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (32 bp):
GATTTCGATAAAAAATAAATAGTAGAGGGTTT
Found at i:49247529 original size:38 final size:38
Alignment explanation
Indices: 49247484--49247590 Score: 169
Period size: 38 Copynumber: 2.8 Consensus size: 38
49247474 ATCGGCACAA
49247484 AGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACTG
1 AGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACTG
* * *
49247522 AGTCTACTAAGCGCTAAGCCTGAATAACACTGGCACTG
1 AGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACTG
* *
49247560 GGCCTACTAGGCACTAAGCCTGAATAACACC
1 AGCCTACTAGGCGCTAAGCCTGAATAACACC
49247591 CAATTTGAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (38 bp):
AGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACTG
Found at i:49256686 original size:12 final size:12
Alignment explanation
Indices: 49256669--49256696 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49256659 CACACGGCCG
49256669 TGTGGTAGGCTA
1 TGTGGTAGGCTA
49256681 TGTGGTAGGCTA
1 TGTGGTAGGCTA
49256693 TGTG
1 TGTG
49256697 CCCTAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.43, T:0.36
Consensus pattern (12 bp):
TGTGGTAGGCTA
Found at i:49266754 original size:50 final size:49
Alignment explanation
Indices: 49266648--49266873 Score: 233
Period size: 50 Copynumber: 4.5 Consensus size: 49
49266638 CTTATACGCA
* * *
49266648 TAGTAGCCTACACTTAGTACTACACATGCGA-TCAAAAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTC-AACATCTGATACACG
* *
49266697 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACATCTGATACACG
* * * * *
49266747 TAGTAGCCTACACTTAGTACTACACACGTGA-TCGAAGCTAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTC-AA-C-ATCTGA-TACACG
* * * * *
49266798 TAGTAGCCAGCACTTAGTACTACACATGCGAGTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACA-TCTGATACACG
49266848 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
49266874 CGTGTATTCA
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.01
49 31 0.21
50 76 0.51
51 39 0.26
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACATCTGATACACG
Found at i:49266824 original size:101 final size:99
Alignment explanation
Indices: 49266648--49266877 Score: 284
Period size: 101 Copynumber: 2.3 Consensus size: 99
49266638 CTTATACGCA
* * * *
49266648 TAGTAGCCTACACTTAGTACTACACATGCGATCAAAAATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGTGATCAAAAATCTGGTACACATAGTAGCCAGCACTTA
* * *
49266713 GTACTACACATGTGACCTCACCA-TCTGATACACG
66 GTACTACACATGCGA-CTCAACAGTATGATACACG
** *
49266747 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGCTAT-TGAGTACGCATAGTAGCCAGCAC
1 TAGTAGCCTACACTTAGTACTACACACGTGATC-AA-AAATCTG-GTACACATAGTAGCCAGCAC
* * *
49266811 TTAGTACTACACATGCGAGTTAACAGTATGGTACACG
63 TTAGTACTACACATGCGACTCAACAGTATGATACACG
*
49266848 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTACACTTAGTACTACACACGTG
49266878 TATTCACAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
99 31 0.27
100 8 0.07
101 74 0.65
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGTGATCAAAAATCTGGTACACATAGTAGCCAGCACTTA
GTACTACACATGCGACTCAACAGTATGATACACG
Found at i:49273755 original size:50 final size:48
Alignment explanation
Indices: 49273693--49273872 Score: 189
Period size: 50 Copynumber: 3.6 Consensus size: 48
49273683 TGATACGCAC
* *
49273693 AGTAGCCTGCACTTAGTACTACACATGTGACCTCACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGTGA-CTAAACAT-TGATACACGT
* * * * *
49273743 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACATGTGA-CTAA-ACATTGA-TACACGT
* * * *
49273794 AGTAGCCTGCACTTAGTACTACACATGCGAGTTAACAGTATGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACATGTGACTAAACA-T-TGATACACGT
*
49273844 AGTAGCCTGCACTTAGTATTACACATGTG
1 AGTAGCCTGCACTTAGTACTACACATGTG
49273873 TATTCTCAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 68 0.63
51 38 0.35
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
AGTAGCCTGCACTTAGTACTACACATGTGACTAAACATTGATACACGT
Found at i:49273861 original size:101 final size:101
Alignment explanation
Indices: 49273686--49273868 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 101
49273676 AGCTATCTGA
* * *
49273686 TACGCACAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCATCTGATACACGTAGTAGCCT
1 TACGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTCAACATATGATACACGTAGTAGCCT
49273751 GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * * *
49273787 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-GTTAACAGTATGGTACACGTAGTAGCC
1 TACGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTCAACA-TATGATACACGTAGTAGCC
*
49273851 TGCACTTAGTATTACACA
65 TGCACTTAGTACTACACA
49273869 TGTGTATTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 4 0.05
101 69 0.95
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
TACGCACAGTAGCCTGCACTTAGTACTACACATGCGACCTCAACATATGATACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:49276039 original size:6 final size:6
Alignment explanation
Indices: 49276028--49276078 Score: 57
Period size: 6 Copynumber: 7.8 Consensus size: 6
49276018 AAAAAAGTCT
*
49276028 ATAAAA ATAAAA ATAAACAAA ATAAAA ATAAAA ACTAATA ATAAAA ATAAA
1 ATAAAA ATAAAA AT--A-AAA ATAAAA ATAAAA A-TAAAA ATAAAA ATAAA
49276079 TGGACTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 27 0.69
7 6 0.15
8 1 0.03
9 5 0.13
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:49284368 original size:12 final size:12
Alignment explanation
Indices: 49284351--49284376 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49284341 CTGTGAAATG
49284351 TGAATTTATAAC
1 TGAATTTATAAC
49284363 TGAATTTATAAC
1 TGAATTTATAAC
49284375 TG
1 TG
49284377 CGAAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (12 bp):
TGAATTTATAAC
Found at i:49287331 original size:18 final size:18
Alignment explanation
Indices: 49287288--49287322 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49287278 ATAGAGCAGG
*
49287288 AATAATAATAGGAATAAA
1 AATAATAATAAGAATAAA
49287306 AATAATAATAAGAATAA
1 AATAATAATAAGAATAA
49287323 TGATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAATAATAAGAATAAA
Found at i:49291214 original size:13 final size:13
Alignment explanation
Indices: 49291196--49291231 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
49291186 GCCGAATAAA
49291196 TTGAAGAAAATAT
1 TTGAAGAAAATAT
49291209 TTGAAGAAAATAT
1 TTGAAGAAAATAT
49291222 TTGAAGAAAA
1 TTGAAGAAAA
49291232 CCGATGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (13 bp):
TTGAAGAAAATAT
Found at i:49293714 original size:50 final size:50
Alignment explanation
Indices: 49293641--49293887 Score: 316
Period size: 50 Copynumber: 4.9 Consensus size: 50
49293631 TAAGACAGTT
* *
49293641 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
49293691 TTAGGTCGCATATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
49293741 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATTG
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
49293791 ATT-GGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTC
1 -TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
49293841 ATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
1 TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
49293888 GAGCTTCGGC
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 169 0.98
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:49293765 original size:100 final size:100
Alignment explanation
Indices: 49293641--49293887 Score: 352
Period size: 100 Copynumber: 2.5 Consensus size: 100
49293631 TAAGACAGTT
*
49293641 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCGCATATG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATT-GGTCACATATG
* * *
49293705 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAG
65 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAC
* * *
49293741 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATTGATTGGTCACATATGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTGGTCACATATGT
*
49293806 AGTACTAAGTGCAGGCTACTACATGTACCAGATTC
66 AGTACTAAGTGCAGGCTACTACATGTACCAGATAC
* * * * * *
49293841 ATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
49293888 GAGCTTCGGC
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
100 127 0.98
101 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATTGGTCACATATGT
AGTACTAAGTGCAGGCTACTACATGTACCAGATAC
Found at i:49294123 original size:16 final size:17
Alignment explanation
Indices: 49294090--49294190 Score: 170
Period size: 17 Copynumber: 6.0 Consensus size: 17
49294080 ATGGAGTAAG
*
49294090 TGAAATTATGTAAAAAA
1 TGAAATTTTGTAAAAAA
49294107 TGAAATTTTGT-AAAAA
1 TGAAATTTTGTAAAAAA
49294123 TGAAATTTTGT-AAAAA
1 TGAAATTTTGTAAAAAA
49294139 TGAAATTTTGTAAAAAA
1 TGAAATTTTGTAAAAAA
49294156 TGAAATTTTGTAAAAAA
1 TGAAATTTTGTAAAAAA
49294173 TGAAATTTTGTAATAAAA
1 TGAAATTTTGTAA-AAAA
49294191 CAATTTTGGA
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
16 32 0.40
17 45 0.56
18 4 0.05
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
TGAAATTTTGTAAAAAA
Found at i:49294127 original size:33 final size:33
Alignment explanation
Indices: 49294090--49294185 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
49294080 ATGGAGTAAG
*
49294090 TGAAATTATGTAAAAAATGAAATTTTGTAAAAA
1 TGAAATTTTGTAAAAAATGAAATTTTGTAAAAA
49294123 TGAAATTTTGT-AAAAATGAAATTTTGTAAAAAA
1 TGAAATTTTGTAAAAAATGAAATTTTGT-AAAAA
49294156 TGAAATTTTGTAAAAAATGAAATTTTGTAA
1 TGAAATTTTGTAAAAAATGAAATTTTGTAA
49294186 TAAAACAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
32 16 0.27
33 28 0.47
34 16 0.27
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.36
Consensus pattern (33 bp):
TGAAATTTTGTAAAAAATGAAATTTTGTAAAAA
Found at i:49294196 original size:33 final size:31
Alignment explanation
Indices: 49294092--49294198 Score: 135
Period size: 33 Copynumber: 3.3 Consensus size: 31
49294082 GGAGTAAGTG
*
49294092 AAATTATGTAAAAAATGAAATTTTGTAAAAA
1 AAATTTTGTAAAAAATGAAATTTTGTAAAAA
49294123 TGAAATTTTGT-AAAAATGAAATTTTGTAAAAAA
1 --AAATTTTGTAAAAAATGAAATTTTGT-AAAAA
49294156 TGAAATTTTGTAAAAAATGAAATTTTGTAATAAA
1 --AAATTTTGTAAAAAATGAAATTTTGTAA-AAA
49294190 ACAATTTTG
1 A-AATTTTG
49294199 GACAGCAGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
32 17 0.25
33 33 0.48
34 19 0.28
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.36
Consensus pattern (31 bp):
AAATTTTGTAAAAAATGAAATTTTGTAAAAA
Found at i:49294824 original size:180 final size:180
Alignment explanation
Indices: 49294513--49294841 Score: 489
Period size: 180 Copynumber: 1.8 Consensus size: 180
49294503 CCGATATCTG
* * * *
49294513 TACCATGAGATAAATAAATTTTAGTGAAGAAAGATTAGAACTGTTAGACAGTGAAATAGGGGTAT
1 TACCATGAGATAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAGGAGTAA
* * * * *
49294578 CTTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAATAATAT
66 CTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATCGTAAGAATAT
49294643 ATGTGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCTA
131 ATGTGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCTA
* ** * * *
49294693 TACCATGA-ATTAAATAATTTTTAGTGAAGAGCGGTCGGAACTGTTAGATAGTGAAACAGGAGTA
1 TACCATGAGA-TAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAGGAGTA
*
49294757 ACTTTAATGAATAAACTATACTAATTGGCTAAACCAGAAATTCTAAAAATTTTATCGTAAGAATA
65 ACTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATCGTAAGAATA
*
49294822 TATGTGAGTCTAGTTTCTGG
130 TATGTGAATCTAGTTTCTGG
49294842 GATTAACGGA
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
179 1 0.01
180 130 0.99
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (180 bp):
TACCATGAGATAAATAAATTTTAGTGAAGAAAGATCAGAACTGTTAGACAGTGAAACAGGAGTAA
CTTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATCGTAAGAATAT
ATGTGAATCTAGTTTCTGGAAAAATTAGCGGTTCTTAATTTTGAGTCCTA
Found at i:49300214 original size:29 final size:29
Alignment explanation
Indices: 49300181--49300340 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
49300171 GTGACGAGAT
49300181 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49300210 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49300239 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
49300268 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
49300297 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
49300326 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49300341 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49307276 original size:16 final size:15
Alignment explanation
Indices: 49307243--49307288 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
49307233 ACAAAATTGG
49307243 AAAGATGAAAAAAAT
1 AAAGATGAAAAAAAT
*
49307258 AAAGATGATAAATAAT
1 AAAGATGA-AAAAAAT
49307274 AAA-AT-AAAGAAAAT
1 AAAGATGAAA-AAAAT
49307288 A
1 A
49307289 TTATCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.07
14 6 0.22
15 10 0.37
16 9 0.33
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (15 bp):
AAAGATGAAAAAAAT
Found at i:49313816 original size:25 final size:25
Alignment explanation
Indices: 49313767--49313830 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
49313757 TCTTATGCGT
* *
49313767 TTCCTGTTACATGGCTCACATGAGC
1 TTCCCGTTACATGGCTCACAAGAGC
* *
49313792 TTCCCGTTATATGGCTCAGAAGAGC
1 TTCCCGTTACATGGCTCACAAGAGC
49313817 -TCCCGGTTTACATG
1 TTCCC-G-TTACATG
49313831 CTCGTATGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 4 0.12
25 22 0.69
26 6 0.19
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (25 bp):
TTCCCGTTACATGGCTCACAAGAGC
Found at i:49322944 original size:124 final size:122
Alignment explanation
Indices: 49322724--49322945 Score: 277
Period size: 124 Copynumber: 1.8 Consensus size: 122
49322714 GAATTATGTG
* * * *
49322724 GAATGAAATATGGATGTATTGATTATTGACTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGACTTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
49322789 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
49322846 GAATGAAATATGTATGTCCAATGATTATTGA-TGTATGTGTGCATGAGAAATT-GAATGATATCC
1 GAATGAAATATGGATGT--AATGATTATTGACT-TATGTGTGCATGAG-AATTCGAATAATACCC
*
49322909 GGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
62 GGGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
49322946 TCCGGTTTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
122 16 0.19
123 1 0.01
124 63 0.76
125 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGACTTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:49323068 original size:40 final size:40
Alignment explanation
Indices: 49322941--49323070 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
49322931 ATGCTGGAAA
** * *
49322941 TTATATCCGGTTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
49322981 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
49323021 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
49323061 TTATATCCGG
1 TTATATCCGG
49323071 TTATATTCCG
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:49323069 original size:80 final size:80
Alignment explanation
Indices: 49322903--49323070 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
49322893 AAATTGAATG
* **
49322903 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGTTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
49322968 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
49322983 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
49323046 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
49323063 ATATCCGG
1 ATATCCGG
49323071 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:49328116 original size:24 final size:23
Alignment explanation
Indices: 49328083--49328168 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
49328073 TCCAGGCTAT
49328083 ATAACAGGAAGCTCATAAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
**
49328106 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* **
49328130 AATAACAGGTAGCTCCGAAGAGCC
1 -ATAACAGGAAGCTCATAAGAGCC
*
49328154 ATTAACGGGAAGCTC
1 A-TAACAGGAAGCTC
49328169 CGGATAACCA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.10
24 42 0.82
25 4 0.08
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.15
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:49328268 original size:26 final size:26
Alignment explanation
Indices: 49328208--49328279 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
49328198 GAGCCATATT
49328208 AGGAAGCTC-CAAAGAGCCATTAATC
1 AGGAAGCTCACAAAGAGCCATTAATC
** * *
49328233 AAAAAACTCACAAAGAGCCTTTAATC
1 AGGAAGCTCACAAAGAGCCATTAATC
* *
49328259 AGGAAGCTCACGAAGAACCAT
1 AGGAAGCTCACAAAGAGCCAT
49328280 ATATTGGGAC
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 6 0.17
26 30 0.83
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCATTAATC
Found at i:49336169 original size:25 final size:25
Alignment explanation
Indices: 49336141--49336329 Score: 113
Period size: 25 Copynumber: 7.6 Consensus size: 25
49336131 CTTATGACCA
49336141 TCCCGATATATGGCTCTCTTGAGCT
1 TCCCGATATATGGCTCTCTTGAGCT
* *
49336166 TCCC-ATTATTTGGCTCT-TACGAGCT
1 TCCCGA-TATATGGCTCTCT-TGAGCT
* *
49336191 TCCAGATA-ATTGGCTCTCATGAGCT
1 TCCCGATATA-TGGCTCTCTTGAGCT
* * *
49336216 TCTCGAT-TAATGGCTCTATAGAGCT
1 TCCCGATAT-ATGGCTCTCTTGAGCT
* * *
49336241 TCTCGATAT-TGGCTCGCATGAGCT
1 TCCCGATATATGGCTCTCTTGAGCT
* *
49336265 TCCCGAT-TACGGCTCT-TATAAGCT
1 TCCCGATATATGGCTCTCT-TGAGCT
* * * * * *
49336289 TCCTGTTACATGGCTCACATGAGCG
1 TCCCGATATATGGCTCTCTTGAGCT
*
49336314 TCCCGTTATATGGCTC
1 TCCCGATATATGGCTC
49336330 GGAAGAGCTT
Statistics
Matches: 122, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
23 1 0.01
24 34 0.28
25 84 0.69
26 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCTTGAGCT
Found at i:49336208 original size:50 final size:48
Alignment explanation
Indices: 49336144--49336290 Score: 149
Period size: 50 Copynumber: 3.0 Consensus size: 48
49336134 ATGACCATCC
* *
49336144 CGATATATGGCTCTCTTGAGCTTCCCATTATTTGGCTCT-TACGAGCTTC-
1 CGATAT-TGGCTCTCATGAGCTTCCCATTA-ATGGCTCTATA-GAGCTTCT
*
49336193 CAGATAATTGGCTCTCATGAGCTTCTCGATTAATGGCTCTATAGAGCTTCT
1 C-GAT-ATTGGCTCTCATGAGCTTC-CCATTAATGGCTCTATAGAGCTTCT
* *
49336244 CGATATTGGCTCGCATGAGCTTCCCGATT-ACGGCTCTTATA-AGCTTC
1 CGATATTGGCTCTCATGAGCTTCCC-ATTAATGGCTC-TATAGAGCTTC
49336291 CTGTTACATG
Statistics
Matches: 85, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
48 13 0.15
49 26 0.31
50 36 0.42
51 10 0.12
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (48 bp):
CGATATTGGCTCTCATGAGCTTCCCATTAATGGCTCTATAGAGCTTCT
Found at i:49336272 original size:49 final size:50
Alignment explanation
Indices: 49336145--49336329 Score: 170
Period size: 49 Copynumber: 3.7 Consensus size: 50
49336135 TGACCATCCC
* *
49336145 GATATATGGCTCTCTTGAGCTTCCC-ATTATTTGGCTCT-TACGAGCTTCCA
1 GATAT-TGGCTCTCATGAGCTTCCCGATTATATGGCTCTATA-GAGCTTCCA
*
49336195 GATAATTGGCTCTCATGAGCTTCTCGATTA-ATGGCTCTATAGAGCTTCTC-
1 GAT-ATTGGCTCTCATGAGCTTCCCGATTATATGGCTCTATAGAGCTTC-CA
* * *
49336245 GATATTGGCTCGCATGAGCTTCCCGA-T-TACGGCTCTTATA-AGCTTCCT
1 GATATTGGCTCTCATGAGCTTCCCGATTATATGGCTC-TATAGAGCTTCCA
* * * *
49336293 GTTACATGGCTCACATGAGCGTCCCG-TTATATGGCTC
1 GATA-TTGGCTCTCATGAGCTTCCCGATTATATGGCTC
49336330 GGAAGAGCTT
Statistics
Matches: 114, Mismatches: 11, Indels: 20
0.79 0.08 0.14
Matches are distributed among these distances:
47 1 0.01
48 16 0.14
49 44 0.39
50 44 0.39
51 9 0.08
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (50 bp):
GATATTGGCTCTCATGAGCTTCCCGATTATATGGCTCTATAGAGCTTCCA
Found at i:49336337 original size:98 final size:99
Alignment explanation
Indices: 49336144--49336340 Score: 215
Period size: 98 Copynumber: 2.0 Consensus size: 99
49336134 ATGACCATCC
* * * * *
49336144 CGATATATGGCTCTCTTGAGCTTCCCATTATTTGGCTCTTACGAGCTTCCAGATAATTGGCTCTC
1 CGATATATGGCTCGCATGAGCTTCCCATTA-TCGGCTCTTACAAGCTTCCAGATAATTGGCTCAC
* * *
49336209 ATGAGCTTCTCGATTAATGGCTCTATAGAGCTTCT
65 ATGAGCGTCCCGATTAATGGCTCGATAGAGCTTCT
* * *
49336244 CGATAT-TGGCTCGCATGAGCTTCCCGATTA-CGGCTCTTATAAGCTTCCTGTTACA-TGGCTCA
1 CGATATATGGCTCGCATGAGCTTCCC-ATTATCGGCTCTTACAAGCTTCCAGATA-ATTGGCTCA
49336306 CATGAGCGTCCCG-TTATATGGCTCGGA-AGAGCTTC
64 CATGAGCGTCCCGATTA-ATGGCTC-GATAGAGCTTC
49336341 CCATTTACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
97 3 0.04
98 50 0.61
99 19 0.23
100 10 0.12
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (99 bp):
CGATATATGGCTCGCATGAGCTTCCCATTATCGGCTCTTACAAGCTTCCAGATAATTGGCTCACA
TGAGCGTCCCGATTAATGGCTCGATAGAGCTTCT
Found at i:49338354 original size:29 final size:29
Alignment explanation
Indices: 49338264--49338423 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
49338254 ACTCGATTTC
* * **
49338264 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
49338293 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
49338321 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
49338351 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
49338380 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
49338409 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
49338424 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:49344558 original size:14 final size:12
Alignment explanation
Indices: 49344513--49344559 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
49344503 TTTGCTATTA
49344513 TTAATTATTT-T
1 TTAATTATTTAT
* *
49344524 TAAATTATATAT
1 TTAATTATTTAT
49344536 TTAATTATTTAT
1 TTAATTATTTAT
49344548 TGTATATTATTT
1 T-TA-ATTATTT
49344560 TTAAACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 8 0.28
12 12 0.41
13 2 0.07
14 7 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
TTAATTATTTAT
Found at i:49344574 original size:21 final size:20
Alignment explanation
Indices: 49344545--49344591 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
49344535 TTTAATTATT
49344545 TATTGTATATTATTTTTAAACA
1 TATTGTATA-T-TTTTTAAACA
*
49344567 TATT-TATATTTTTTAAATA
1 TATTGTATATTTTTTAAACA
49344586 TATTGT
1 TATTGT
49344592 TTCAACACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 4 0.17
22 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTGTATATTTTTTAAACA
Found at i:49345284 original size:16 final size:17
Alignment explanation
Indices: 49345253--49345296 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
49345243 AATGAGATTA
49345253 TTTAAAAATTAAATATT
1 TTTAAAAATTAAATATT
*
49345270 TTTAAAAA-TAGATATT
1 TTTAAAAATTAAATATT
49345286 TTTAAAGAATT
1 TTTAAA-AATT
49345297 CTTGATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 13 0.54
17 10 0.42
18 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TTTAAAAATTAAATATT
Done.