Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 411 of 425
Found at i:125194921 original size:26 final size:26
Alignment explanation
Indices: 125194892--125194998 Score: 171
Period size: 26 Copynumber: 4.1 Consensus size: 26
125194882 TGGTACAAAT
125194892 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
125194918 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
125194944 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
125194970 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
125194996 TGA
1 TGA
125194999 AGGGCATTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:125197554 original size:137 final size:137
Alignment explanation
Indices: 125197249--125197671 Score: 812
Period size: 137 Copynumber: 3.1 Consensus size: 137
125197239 CATTGGGCCT
**
125197249 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
125197314 AGCCCCTTATTCAGATAACAGTAT-GCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
125197378 CATATGC
131 CATATGC
125197385 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
125197450 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
125197515 CATATGC
131 CATATGC
125197522 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
125197587 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
125197652 CATATGC
131 CATATGC
125197659 AAGCCCATTTGGG
1 AAGCCCATTTGGG
125197672 GAGACTACTC
Statistics
Matches: 282, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
136 87 0.31
137 195 0.69
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:125199484 original size:26 final size:26
Alignment explanation
Indices: 125199448--125199583 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
125199438 CATGAAATTC
*
125199448 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
125199474 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
125199500 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
125199526 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
125199552 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
125199578 TTATCA
1 TTATCA
125199584 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:125199990 original size:27 final size:27
Alignment explanation
Indices: 125199950--125200090 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
125199940 AGGAAGCGTC
*
125199950 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
125199977 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
125200003 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
125200031 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
125200058 CTGGTGGCTCTGCCACAA-TATCTGTAC
1 CTGGTGGCTCTGCCACAATTATCTG-AT
125200085 CTGGTG
1 CTGGTG
125200091 ACTTCGTTAC
Statistics
Matches: 101, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.11
27 86 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:125200029 original size:54 final size:54
Alignment explanation
Indices: 125199947--125200090 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
125199937 TAGAGGAAGC
125199947 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
125200001 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
125200055 GTTCTGGTGGCTCTGCCACAA-TATCTGTACCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
125200091 ACTTCGTTAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:125205073 original size:35 final size:35
Alignment explanation
Indices: 125205027--125205131 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
125205017 CACTTGCCTC
125205027 TTCCCA-TCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
125205061 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
125205096 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
125205131 T
1 T
125205132 CACACACCCC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
34 6 0.09
35 59 0.91
ACGTcount: A:0.17, C:0.49, G:0.11, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:125205576 original size:33 final size:33
Alignment explanation
Indices: 125205534--125205607 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
125205524 AGAGGGGAAG
*
125205534 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
125205566 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
125205600 -AAAAAAAA
1 CAAAAAAAA
125205608 CCAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 21 0.57
34 8 0.22
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:125205894 original size:2 final size:2
Alignment explanation
Indices: 125205882--125205930 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
125205872 TCCCCTCCCT
125205882 TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
125205922 TC TT TC TC T
1 TC TC TC TC T
125205931 TTCCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:125205937 original size:5 final size:6
Alignment explanation
Indices: 125205881--125205937 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
125205871 TTCCCCTCCC
* * * *
125205881 TTCTCT CTTCTCT CTCTCT CTCTCT CTCTCT CTCTCT TCTCTCT TTCTCT
1 TTCTCT -TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT T-TCTCT TTCTCT
125205931 TTC-CT TT
1 TTCTCT TT
125205938 TTTTCTTTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
5 4 0.09
6 31 0.66
7 12 0.26
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (6 bp):
TTCTCT
Found at i:125206491 original size:17 final size:17
Alignment explanation
Indices: 125206457--125206509 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
125206447 TTCTAATATG
*
125206457 TATATATA-TATATATA
1 TATATATATTATGTATA
*
125206473 TATATATGTGTAT-TATA
1 TATATATAT-TATGTATA
125206490 TATATATATTATGTATA
1 TATATATATTATGTATA
125206507 TAT
1 TAT
125206510 GCCATTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.31
17 19 0.59
18 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATATATATTATGTATA
Found at i:125206523 original size:31 final size:30
Alignment explanation
Indices: 125206457--125206540 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
125206447 TTCTAATATG
* **
125206457 TATATATATATA-TATATATATATGTGTAT
1 TATATATATATATTATGTATATATGTCCAT
125206486 TATATATATATATTATGTATATATG-CCAT
1 TATATATATATATTATGTATATATGTCCAT
* *
125206515 TAGTTATATATTTCTTATGTATATAT
1 TA--TATATATATATTATGTATATAT
125206541 TCTTAAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 16 0.34
30 11 0.23
31 20 0.43
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (30 bp):
TATATATATATATTATGTATATATGTCCAT
Found at i:125206525 original size:2 final size:2
Alignment explanation
Indices: 125206452--125206509 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
125206442 ATCATTTCTA
* * *
125206452 AT AT GT AT AT AT AT AT AT AT AT AT AT AT GT GT AT -T 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
*
125206493 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
125206510 GCCATTAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:125218010 original size:39 final size:39
Alignment explanation
Indices: 125217953--125218028 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
125217943 TATTATGCCT
*
125217953 AAAAAAAATCAAGATGAAAACCCGAAAAGGGCATCTTAA
1 AAAAAAAATCAAGATGAAAACCCGAAAAAGGCATCTTAA
* *
125217992 AAAAAAAATCAAGGTGAAAACCCGAAAAAGGCGTCTT
1 AAAAAAAATCAAGATGAAAACCCGAAAAAGGCATCTT
125218029 GATTAACACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.54, C:0.16, G:0.17, T:0.13
Consensus pattern (39 bp):
AAAAAAAATCAAGATGAAAACCCGAAAAAGGCATCTTAA
Found at i:125218964 original size:26 final size:25
Alignment explanation
Indices: 125218923--125219028 Score: 169
Period size: 26 Copynumber: 4.2 Consensus size: 25
125218913 TGGTACAAAT
125218923 TGATAAT-GTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
125218947 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
125218973 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
125218999 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
125219025 TGAT
1 TGAT
125219029 GGCAATTTCA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
24 7 0.09
25 3 0.04
26 64 0.84
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:125220710 original size:27 final size:27
Alignment explanation
Indices: 125220603--125220740 Score: 160
Period size: 27 Copynumber: 5.2 Consensus size: 27
125220593 AGGAAGCGTC
* *
125220603 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
125220630 CTGGTGGCTCTG-CACATATATATGTC
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
125220656 CTGGTGGCTATGCCA-AT-TATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
125220681 CTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
125220708 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
125220735 CTGGTG
1 CTGGTG
125220741 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
25 18 0.19
26 32 0.34
27 44 0.47
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:125225167 original size:26 final size:26
Alignment explanation
Indices: 125225131--125225292 Score: 247
Period size: 26 Copynumber: 6.2 Consensus size: 26
125225121 CATGAAATTC
125225131 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
125225157 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
125225183 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
125225209 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
125225235 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
125225261 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
125225287 TTATCA
1 TTATCA
125225293 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
26 126 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:125225264 original size:78 final size:78
Alignment explanation
Indices: 125225131--125225292 Score: 281
Period size: 78 Copynumber: 2.1 Consensus size: 78
125225121 CATGAAATTC
*
125225131 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACTCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACTCATTATCATGGAACA
125225196 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
125225209 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAAC-CTATTATCATGGAAC
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACTC-ATTATCATGGAAC
125225273 ATTTACCTAACCTA
65 ATTTACCTAACCTA
125225287 TTATCA
1 TTATCA
125225293 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 1 0.01
78 79 0.99
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACTCATTATCATGGAACA
TTTACCTAACCTA
Found at i:125226878 original size:27 final size:27
Alignment explanation
Indices: 125226848--125227241 Score: 495
Period size: 27 Copynumber: 14.6 Consensus size: 27
125226838 TAGTTTACCG
125226848 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
125226875 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * * *
125226902 AATCACTAAAATATCACTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
**
125226929 AATTACCAAAATA-CCCTCGGTTTACAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
125226956 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
125226983 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
125227010 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* ***
125227037 AATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
125227064 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
125227091 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
125227118 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
125227145 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
125227172 AATTATCAAAATACCCCTAGTTT-TGAA
1 AATTACCAAAATACCCCTGGTTTGT-AA
* *
125227199 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
**
125227226 AATTACTGAAATACCC
1 AATTACCAAAATACCC
125227242 TCAACCTGTA
Statistics
Matches: 312, Mismatches: 51, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.01
27 303 0.97
28 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:125226914 original size:54 final size:54
Alignment explanation
Indices: 125226848--125227241 Score: 556
Period size: 54 Copynumber: 7.3 Consensus size: 54
125226838 TAGTTTACCG
* *
125226848 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * * * * * *
125226902 AATCACTAAAATATCACTGGTTTGTAAAATTACCAAAATACCCTCGGTTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* *
125226956 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* **
125227010 AATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
*
125227064 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* *
125227118 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* * * * *
125227172 AATTATCAAAATACCCCTAGTTT-TGAAAATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTAGTTTGT-AAAATTACCAAAATACCCTTGGTTTATAA
**
125227226 AATTACTGAAATACCC
1 AATTACCAAAATACCC
125227242 TCAACCTGTA
Statistics
Matches: 307, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.00
54 306 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
Found at i:125227296 original size:27 final size:26
Alignment explanation
Indices: 125226848--125227295 Score: 331
Period size: 27 Copynumber: 16.6 Consensus size: 26
125226838 TAGTTTACCG
*
125226848 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCC-GATTTGTAA
* * * *
125226875 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-CGATTTGTAA
* * * * *
125226902 AATCACTAAAATATCACTGGTTTGTAA
1 AATTACCAAAATA-CCCCGATTTGTAA
* **
125226929 AATTACCAAAATACCCTCGGTTTACAA
1 AATTACCAAAATACCC-CGATTTGTAA
*
125226956 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCC-GATTTGTAA
* * * *
125226983 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-CGATTTGTAA
* *
125227010 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCGA-TTTGTAA
* * ***
125227037 AATTACCAAAATACCCTTGGTTTACCA
1 AATTACCAAAATACCC-CGATTTGTAA
*
125227064 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCGA-TTTGTAA
* * * *
125227091 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-CGATTTGTAA
*
125227118 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCGA-TTTGTAA
*
125227145 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCC-GATTTGTAA
* *
125227172 AATTATCAAAATACCCCTAGTTT-TGAA
1 AATTACCAAAATACCCCGA-TTTGT-AA
*
125227199 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCC-GATTTGTAA
** * **
125227226 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCC-CGATTTGTAA
*** *
125227253 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCC-CGATTTGTAA
*
125227280 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
125227296 TTGATTTACA
Statistics
Matches: 338, Mismatches: 67, Indels: 32
0.77 0.15 0.07
Matches are distributed among these distances:
26 4 0.01
27 329 0.97
28 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCCGATTTGTAA
Found at i:125227310 original size:27 final size:26
Alignment explanation
Indices: 125226927--125227349 Score: 131
Period size: 27 Copynumber: 15.7 Consensus size: 26
125226917 ACTGGTTTGT
*
125226927 AAAATTACCAAAATACCCTCGGTTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
* **
125226954 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACC-AAATACCCTC-GATTTAC
* * * *
125226981 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTAC-CAAATACCCTCGATTTAC
* * **
125227008 AAAATCACCAAAATACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-TTTAC
* *
125227035 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
* * **
125227062 CAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-TTTAC
* * * *
125227089 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTAC-CAAATACCCTCGATTTAC
* **
125227116 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-TTTAC
* **
125227143 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACC-AAATACCCTC-GATTTAC
* * **
125227170 AAAATTATCAAAATACCC-CTAGTTTTG
1 AAAATTA-CCAAATACCCTCGA-TTTAC
**
125227197 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACC-AAATACCCTC-GATTTAC
* * * ** **
125227224 GAAATTACTGAAATACCCTCAACCTGT
1 AAAATTAC-CAAATACCCTCGATTTAC
** * **
125227251 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTCGATTTAC
*
125227278 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTCGATTTAC
* ***
125227305 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTCGATTTAC
125227332 AAAATTACCGAAATACCC
1 AAAATTACC-AAATACCC
125227350 CTGTAGGGTA
Statistics
Matches: 306, Mismatches: 69, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.02
27 298 0.97
28 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAC
Found at i:125227371 original size:27 final size:27
Alignment explanation
Indices: 125227341--125227543 Score: 224
Period size: 27 Copynumber: 7.8 Consensus size: 27
125227331 CAAAATTACC
125227341 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
125227368 GAAATACCCCTGTATGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACT
*
125227395 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* * * *
125227422 AAAATACCCCTGTAAGGTATAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACT
*
125227449 GAAATACCCTTGTA-GG--G---TA--
1 GAAATACCCCTGTAGGGTAGAAATACT
* * *
125227468 GAAATACCCTTGCAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACT
*
125227495 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACT
* *
125227522 GAAATACTCCTGTAAGGTAGAA
1 GAAATACCCCTGTAGGGTAGAA
125227544 TTACCGAGAT
Statistics
Matches: 150, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
19 13 0.09
20 2 0.01
21 2 0.01
22 1 0.01
25 2 0.01
26 2 0.01
27 128 0.85
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACT
Found at i:125227473 original size:19 final size:19
Alignment explanation
Indices: 125227449--125227494 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
125227439 TATAATTACT
*
125227449 GAAATACCCTTGTAGGGTA
1 GAAATACCCTTGCAGGGTA
125227468 GAAATACCCTTGCAGGGTA
1 GAAATACCCTTGCAGGGTA
125227487 GAAATACC
1 GAAATACC
125227495 GAAATACCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (19 bp):
GAAATACCCTTGCAGGGTA
Found at i:125227519 original size:73 final size:73
Alignment explanation
Indices: 125227395--125227548 Score: 211
Period size: 73 Copynumber: 2.1 Consensus size: 73
125227385 TAGAAATACC
* * * *
125227395 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTATAATTACTGAAATAC-CCT
1 GAAATACCCCTGCAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACTGAAATACTCC-
*
125227459 TGTAGGGTA
65 TGTAAGGTA
* * *
125227468 GAAATACCCTTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCT
1 GAAATACCCCTGCAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACTGAAATACTCCT
125227533 GTAAGGTA
66 GTAAGGTA
*
125227541 GAATTACC
1 GAAATACC
125227549 GAGATACCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 69 0.97
74 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (73 bp):
GAAATACCCCTGCAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACTGAAATACTCCT
GTAAGGTA
Found at i:125227546 original size:100 final size:100
Alignment explanation
Indices: 125227368--125227571 Score: 311
Period size: 100 Copynumber: 2.0 Consensus size: 100
125227358 TAGAAATACT
* *
125227368 GAAATACCCCTGTATGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT
1 GAAATACCCCTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT
* *
125227433 GTAAGGTATAATTACTGAAATACCCTTGTAGGGTA
66 GTAAGGTAGAATTACCGAAATACCCTTGTAGGGTA
* * *
125227468 GAAATACCCTTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCT
1 GAAATACCCCTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT
* * *
125227533 GTAAGGTAGAATTACCGAGATACCTTTGTGGGGTA
66 GTAAGGTAGAATTACCGAAATACCCTTGTAGGGTA
125227568 -AAAT
1 GAAAT
125227572 TACTATTTTA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
99 4 0.04
100 90 0.96
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (100 bp):
GAAATACCCCTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT
GTAAGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:125227864 original size:27 final size:26
Alignment explanation
Indices: 125227820--125227871 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
125227810 CTCGCTGCAA
*
125227820 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
125227847 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
125227872 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:125227911 original size:2 final size:2
Alignment explanation
Indices: 125227904--125227948 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
125227894 GCTTCGCCAC
125227904 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125227945 AT AT
1 AT AT
125227949 CTGTTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:125228115 original size:6 final size:6
Alignment explanation
Indices: 125228098--125228290 Score: 155
Period size: 6 Copynumber: 31.3 Consensus size: 6
125228088 TTGCATTCAC
* * *
125228098 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
125228148 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
125228197 ATTCTG -TTACCTA ATTCTG ATTCTG ATTCTA ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
125228247 ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
125228291 AATGTTTCTT
Statistics
Matches: 151, Mismatches: 19, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
5 10 0.07
6 120 0.79
7 14 0.09
8 7 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:125228138 original size:25 final size:25
Alignment explanation
Indices: 125228104--125228165 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
125228094 TCACATTCTA
*
125228104 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTAATACTG
*
125228129 ATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGTTACCTAATACTG
125228154 ATTCTGATTCTG
1 ATTCTGATTCTG
125228166 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTAATACTG
Found at i:125228161 original size:37 final size:38
Alignment explanation
Indices: 125228120--125228258 Score: 135
Period size: 37 Copynumber: 3.6 Consensus size: 38
125228110 ATTCTGTTAC
125228120 CTGATA-CTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATACCTGATTCTGATTCTGTTACCTAATTCTGATT
*
125228157 CTGAT-TCTGATTCTGATTCTGTTACCTGATACTGATTCTGATT
1 CTGATACCTGATTCTGATTCTGTTACC---TA---ATTCTGATT
* * *
125228200 CTGTTACCTAATTCTGATTCTGATT--CTAATTTTGATT
1 CTGATACCTGATTCTGATTCTG-TTACCTAATTCTGATT
125228237 CTG-TCACCTGATTCTGATTCTG
1 CTGAT-ACCTGATTCTGATTCTG
125228259 ATTCTGATTC
Statistics
Matches: 87, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
36 1 0.01
37 52 0.60
40 4 0.05
43 14 0.16
44 14 0.16
45 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (38 bp):
CTGATACCTGATTCTGATTCTGTTACCTAATTCTGATT
Found at i:125228185 original size:25 final size:25
Alignment explanation
Indices: 125228157--125228226 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
125228147 AATTCTGATT
125228157 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
125228182 CTGATACTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
125228207 CTAATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
125228227 AATTTTGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:125228195 original size:62 final size:62
Alignment explanation
Indices: 125228098--125228264 Score: 298
Period size: 62 Copynumber: 2.7 Consensus size: 62
125228088 TTGCATTCAC
125228098 ATTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
*
125228160 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
* * *
125228222 ATTCTAATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG
125228265 ATTCTCATTT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (62 bp):
ATTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
Found at i:125232371 original size:21 final size:20
Alignment explanation
Indices: 125232345--125232386 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
125232335 ATATATACCT
* *
125232345 ATATATATATATATACTAGAA
1 ATATATACATACATAC-AGAA
125232366 ATATATACATACATACAGAA
1 ATATATACATACATACAGAA
125232386 A
1 A
125232387 ACATATACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
ATATATACATACATACAGAA
Found at i:125232470 original size:22 final size:20
Alignment explanation
Indices: 125232415--125232471 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
125232405 AACAATAGTA
125232415 ATAAAGATAAAAAT-ATATAC
1 ATAAA-ATAAAAATAATATAC
** *
125232435 ATAAAATAGTAATAATATAT
1 ATAAAATAAAAATAATATAC
125232455 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
125232472 AAATAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAAAAATAATATAC
Found at i:125232655 original size:24 final size:22
Alignment explanation
Indices: 125232610--125232675 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
125232600 TATATAATGG
* *
125232610 TATTAGAA-ATATGCAT-ACAA
1 TATTAAAATATATACATAACAA
125232630 TATTACAAAATATATATC-TAACAA
1 TATT--AAAATATATA-CATAACAA
125232654 TATTAAAATATATACATAACAA
1 TATTAAAATATATACATAACAA
125232676 CAAAAGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 19 0.50
23 5 0.13
24 9 0.24
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (22 bp):
TATTAAAATATATACATAACAA
Found at i:125232664 original size:22 final size:23
Alignment explanation
Indices: 125232618--125232675 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
125232608 GGTATTAGAA
*
125232618 ATATGCAT-ACAATATTACAAAAT
1 ATATACATAACAATATTA-AAAAT
125232641 ATATATC-TAACAATATT-AAAAT
1 ATATA-CATAACAATATTAAAAAT
125232663 ATATACATAACAA
1 ATATACATAACAA
125232676 CAAAAGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.52
23 5 0.16
24 9 0.29
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATTAAAAAT
Found at i:125232946 original size:22 final size:22
Alignment explanation
Indices: 125232906--125232947 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
125232896 ATTGATGATA
* *
125232906 AATAATAATAGGAATAATAAAC
1 AATAATAATAGAAAAAATAAAC
*
125232928 AATAATAATATAAAAAATAA
1 AATAATAATAGAAAAAATAA
125232948 CAAAAATGCT
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:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AATAATAATAGAAAAAATAAAC
Found at i:125234911 original size:174 final size:173
Alignment explanation
Indices: 125234635--125234954 Score: 541
Period size: 174 Copynumber: 1.8 Consensus size: 173
125234625 AAAAGTAGAT
*
125234635 TTTGAAAATACCTTGTCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
1 TTTGAAAATACCTCGTCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
* * *
125234700 AGCAGAAATTGAAAATACCTCAGTACGTGAACCAAGGCTCAACTCACCTCTTGCAATATGAGTTG
66 AGCAAAAATTGAAAATACCTCAGTAAGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
125234765 ACTTTTGAAAACTAGAAGATAAAAATAGAATTTGAACAACAGAA
131 A-TTTTGAAAACTAGAAGATAAAAATAGAATTTGAACAACAGAA
* * **
125234809 TTTGAAAATACCTCGTCATGTGACCTGAAGTTCAACTTATTTCTCGCAATATGAGTTGATTGAAA
1 TTTGAAAATACCTCGTCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
*
125234874 AGCAAAAATTGAAAATACCTCAGTAAGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AGCAAAAATTGAAAATACCTCAGTAAGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
125234939 ATTTTGAAAAGTAGAA
131 ATTTTGAAAACTAGAA
125234955 ATTGAAAAGC
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
173 14 0.10
174 122 0.90
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (173 bp):
TTTGAAAATACCTCGTCATGTGACCCGAAGTTCAACTCACCTCTCGCAATATGAGTTGATTGAAA
AGCAAAAATTGAAAATACCTCAGTAAGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTGAAAACTAGAAGATAAAAATAGAATTTGAACAACAGAA
Found at i:125234961 original size:14 final size:14
Alignment explanation
Indices: 125234942--125234974 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
125234932 TGAGTTGATT
*
125234942 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
125234956 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
125234970 TTGAA
1 TTGAA
125234975 GTTACCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:125235044 original size:13 final size:13
Alignment explanation
Indices: 125235026--125235051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125235016 TATGAGTTGA
125235026 CTTCTTTTTTTTT
1 CTTCTTTTTTTTT
125235039 CTTCTTTTTTTTT
1 CTTCTTTTTTTTT
125235052 TGAAAAAATA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTCTTTTTTTTT
Found at i:125235264 original size:14 final size:14
Alignment explanation
Indices: 125235245--125235278 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
125235235 GAGTTGATTT
*
125235245 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
125235259 TTGAAAAATAGAAA
1 TTGAAAAACAGAAA
125235273 TTGAAA
1 TTGAAA
125235279 TTACCTCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:125235277 original size:103 final size:104
Alignment explanation
Indices: 125235055--125235278 Score: 317
Period size: 103 Copynumber: 2.2 Consensus size: 104
125235045 TTTTTTTTGA
* * *
125235055 AAAAATATAAGTTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGAGCCAAGGCTCAACTCAC
1 AAAAATAGAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACTCAC
*
125235120 TTCTCGCAATATGAGTTGAGTTTTTGAAAAGTAAAAATT
66 TTCTCGCAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
** * * * * *
125235159 AAAAATAGAGTTTGAAAG-ACAGAATTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCAC
1 AAAAATAGAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACTCAC
*
125235223 TTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATT
66 TTCTCGCAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
125235261 GAAAAATAGAAATTGAAA
1 -AAAAATAGAAATTGAAA
125235279 TTACCTCAGC
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
102 17 0.16
103 74 0.70
104 15 0.14
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (104 bp):
AAAAATAGAAATTGAAAGAACAGAAATTGAAAATACCTCAGCATGCGACCCAAGGCTCAACTCAC
TTCTCGCAATATGAGTTGAGTTTTTGAAAAGCAAAAATT
Found at i:125235318 original size:87 final size:88
Alignment explanation
Indices: 125235172--125235937 Score: 845
Period size: 87 Copynumber: 8.8 Consensus size: 88
125235162 AATAGAGTTT
* * * * * * *
125235172 GAAAGACAGAATTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGA
1 GAAAAACAGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
125235237 GTTGATTTTTGAAAAGCAGAAATT-
64 GTTGATTTTTGAAAAACAGAAATTA
* * * *
125235261 GAAAAATAGAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
125235326 TGATTTTTTGAAAAATATAGATTG
66 TGA-TTTTTGAAAAACAGAAATTA
* *
125235350 GAAAAAACAGAAATTGAAAATACCTCAGCGTATCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 G-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
125235415 TTGA--TTT-AAAAACAGAAATT-
65 TTGATTTTTGAAAAACAGAAATTA
* *
125235435 -AAGAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
125235499 TGATTTTTGAAAATA-TG-AATTA
66 TGATTTTTGAAAA-ACAGAAATTA
* * * * * *
125235521 AAAAAATAGAAATTGAAGATACCTCAGCATGTGAGCC-GAGGCTCAACTCACTTCTCACAATATG
1 GAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
125235585 AGTTGATTTTTTTGAAAAATATAGATTG
63 AGTTGA--TTTTTGAAAAACAGAAATTA
*
125235613 GAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGC-ATATGAG
1 G-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
125235677 TTGA--TTT-AAAAACAGACATT-
65 TTGATTTTTGAAAAACAGAAATTA
* *
125235697 -AAGAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
125235761 TGATTTTTG-AAAACATG-AATTA
66 TGATTTTTGAAAAACA-GAAATTA
* * ** *
125235783 AAAAAACAGAAATTGAAGATACCTCAGCATGTGAGAC-GAGGCTCAACTCACTTCTCGCAATATG
1 GAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
125235847 AGTTGATTTTTG-AAAACAG-AATT-
63 AGTTGATTTTTGAAAAACAGAAATTA
** * * *
125235870 GAAAAACAGAAATTGAAGTTACCTCAGCGTGCCCTGAGGCTCAACTTACTTCTCGCAATATGAGT
1 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
125235935 TGA
66 TGA
125235938 CTTCTTGTTT
Statistics
Matches: 586, Mismatches: 62, Indels: 62
0.83 0.09 0.09
Matches are distributed among these distances:
82 52 0.09
83 74 0.13
84 1 0.00
85 64 0.11
86 19 0.03
87 116 0.20
88 20 0.03
89 103 0.18
90 78 0.13
91 31 0.05
92 3 0.01
93 25 0.04
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (88 bp):
GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAATTA
Found at i:125235488 original size:173 final size:172
Alignment explanation
Indices: 125235160--125235937 Score: 837
Period size: 173 Copynumber: 4.5 Consensus size: 172
125235150 GTAAAAATTA
* * * * *
125235160 AAAATAGAGTTTGAAAGACAGAATTTGAAAATACCTC-G-GTATGTGACCCGAGGCTCAACTCAC
1 AAAACAGAGATTGAAAAACAGAAATTGAAAATACCTCAGCGTA--T--CCTGAGGCTCAACTCAC
* * * *
125235223 TTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATAGAAATTGAAATTACCTCAG
62 TTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAAAAAACAGAAATTGAAAATACCTCAG
* **
125235288 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
126 CGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
* * * *
125235336 AAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTATCTTGAGGCTCAACTCACC
1 -AAAACAGAGATT-G-AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACT
*
125235401 TCTCGCAATATGAGTTGA-TTT-AAAAACAGAAATT-AAGAACAGAAATTGAAAATACCTCAGCG
63 TCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAAACAGAAATTGAAAATACCTCAGCG
125235463 TGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
128 TGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
125235508 AAAATATGA-ATTAAAAAAATAGAAATTGAAGATACCTCAGCATGTGAGCC-GAGGCTCAACTCA
1 AAAACA-GAGATT-GAAAAACAGAAATTGAAAATACCTCAGC--GT-ATCCTGAGGCTCAACTCA
* * * *
125235571 CTTCTCACAATATGAGTTGATTTTTTTGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATAC
61 CTTCTCGCAATATGAGTTGA---TTTTGAAAAACAGAAATT--AAAAAACAGAAATTGAAAATAC
* * *
125235636 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGC-ATATGAGTTGA--TTTA
121 CTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * * *
125235685 AAAACAGACATT-AAGAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
1 AAAACAGAGATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACTTCT
* *
125235749 CGCAATATGAGTTGATTTTTG-AAAACATG-AATTAAAAAAACAGAAATTGAAGATACCTCAGCA
66 CGCAATATGAGTTGA-TTTTGAAAAACA-GAAATT-AAAAAACAGAAATTGAAAATACCTCAGCG
*** *
125235812 TGTGAGACGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
128 TGTCCTA--AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** ** *
125235859 AAAACAGA-ATTGAAAAACAGAAATTGAAGTTACCTCAGCGTGCCCTGAGGCTCAACTTACTTCT
1 AAAACAGAGATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACTTCT
125235923 CGCAATATGAGTTGA
66 CGCAATATGAGTTGA
125235938 CTTCTTGTTT
Statistics
Matches: 517, Mismatches: 59, Indels: 53
0.82 0.09 0.08
Matches are distributed among these distances:
169 30 0.06
170 33 0.06
171 33 0.06
172 53 0.10
173 99 0.19
174 83 0.16
175 26 0.05
176 5 0.01
177 64 0.12
178 1 0.00
179 34 0.07
180 53 0.10
181 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (172 bp):
AAAACAGAGATTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACTTCT
CGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGT
CCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:125235692 original size:262 final size:262
Alignment explanation
Indices: 125235210--125235937 Score: 1145
Period size: 262 Copynumber: 2.8 Consensus size: 262
125235200 ATGTGACCCG
* *
125235210 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAGCA-GAAATT-GAAAAATAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATG-AATTAAAAAAATAGAAA
** *
125235273 TTGAA-ATTACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
64 TTGAAGA-TACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
* *
125235335 GAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTATCTTGAGGCTCAACTCAC
128 GAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
*
125235400 CTCTCGCAATATGAGTTGATTTAAAAACAGAAATTAAGAACAGAAATTGAAAATACCTCAGCGTG
193 CTCTCGCAATATGAGTTGATTTAAAAACAGAAATTAAGAACAAAAATTGAAAATACCTCAGCGTG
125235465 TCCTA
258 TCCTA
*
125235470 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATGAATTAAAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAAAATAGAAATT
*
125235535 GAAGATACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGA
66 GAAGATACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTGA
125235600 AAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
130 AAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
* *
125235665 CTTGC-ATATGAGTTGATTTAAAAACAGACATTAAGAACAAAAATTGAAAATACCTCAGCGTGTC
195 CTCGCAATATGAGTTGATTTAAAAACAGAAATTAAGAACAAAAATTGAAAATACCTCAGCGTGTC
*
125235729 CTG
260 CTA
*
125235732 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAAAATAGAAATT
*
125235797 GAAGATACCTCAGCATGTGAGACGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTG-A
66 GAAGATACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA
* * ** * * *
125235860 AAACAGA-ATT-G-AAAAACAGAAATTGAAGTTACCTCAGCGTGCCCTGAGGCTCAACTTACTTC
131 AAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
125235922 TCGCAATATGAGTTGA
196 TCGCAATATGAGTTGA
125235938 CTTCTTGTTT
Statistics
Matches: 436, Mismatches: 25, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
256 49 0.11
257 12 0.03
258 3 0.01
259 11 0.03
260 73 0.17
261 1 0.00
262 212 0.49
263 75 0.17
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (262 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAAAATAGAAATT
GAAGATACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA
AAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTAAAAACAGAAATTAAGAACAAAAATTGAAAATACCTCAGCGTGTCC
TA
Found at i:125236665 original size:26 final size:26
Alignment explanation
Indices: 125236628--125236711 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
125236618 TGATACAAAT
*
125236628 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125236654 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125236680 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125236706 TGATAA
1 TGATAA
125236712 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:125241094 original size:49 final size:49
Alignment explanation
Indices: 125241041--125241136 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
125241031 GTTCATACAT
125241041 GTCATCTTAAATTTTTCCTTAAACACGAATTCGTATCATGTAGATAAAA
1 GTCATCTTAAATTTTTCCTTAAACACGAATTCGTATCATGTAGATAAAA
125241090 GTCATCTTAAATTTTTCCTTAAACACGAATTCGTATCATGTAGATAA
1 GTCATCTTAAATTTTTCCTTAAACACGAATTCGTATCATGTAGATAA
125241137 TCTCTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (49 bp):
GTCATCTTAAATTTTTCCTTAAACACGAATTCGTATCATGTAGATAAAA
Found at i:125241425 original size:40 final size:40
Alignment explanation
Indices: 125241381--125241567 Score: 275
Period size: 40 Copynumber: 4.7 Consensus size: 40
125241371 CCAACCCAAT
* *
125241381 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
125241421 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
125241461 TGCCTTCGAGACTTAACCCGGATATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* * * *
125241501 TGCCTTTGGGACTTAACCCGAAAATAACAACGAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
125241541 TACCTTCGGGACTTAACTCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
125241568 TCCTCAATTG
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:125250398 original size:22 final size:22
Alignment explanation
Indices: 125250367--125250411 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
125250357 ATGCAATGAA
*
125250367 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
**
125250389 TGAATAAATGGTAAATGAATGT
1 TGAATAAATGACAAATGAATGT
125250411 T
1 T
125250412 AATCGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.22, T:0.31
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:125254415 original size:25 final size:26
Alignment explanation
Indices: 125254370--125254421 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
125254360 ATAATAAAAA
*
125254370 ACCTATTATATACTACATAGATATAT
1 ACCTATTATATACTACATAGAAATAT
125254396 ACCTATATATATA-TAC-TAGAAATAT
1 ACCTAT-TATATACTACATAGAAATAT
125254421 A
1 A
125254422 TACATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 9 0.38
27 6 0.25
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (26 bp):
ACCTATTATATACTACATAGAAATAT
Found at i:125254521 original size:22 final size:20
Alignment explanation
Indices: 125254466--125254522 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
125254456 AACAATAGTA
125254466 ATAAAGATAAAAAT-ATATAC
1 ATAAA-ATAAAAATAATATAC
** *
125254486 ATAAAATAGTAATAATATAT
1 ATAAAATAAAAATAATATAC
125254506 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
125254523 AAATAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAAAAATAATATAC
Found at i:125254704 original size:24 final size:22
Alignment explanation
Indices: 125254659--125254724 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
125254649 TATATAATGG
* *
125254659 TATTAGAA-ATATGCAT-ACAA
1 TATTAAAATATATACATAACAA
125254679 TATTACAAAATATATATC-TAACAA
1 TATT--AAAATATATA-CATAACAA
125254703 TATTAAAATATATACATAACAA
1 TATTAAAATATATACATAACAA
125254725 CAAAAGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 19 0.50
23 5 0.13
24 9 0.24
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (22 bp):
TATTAAAATATATACATAACAA
Found at i:125254713 original size:22 final size:23
Alignment explanation
Indices: 125254667--125254724 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
125254657 GGTATTAGAA
*
125254667 ATATGCAT-ACAATATTACAAAAT
1 ATATACATAACAATATTA-AAAAT
125254690 ATATATC-TAACAATATT-AAAAT
1 ATATA-CATAACAATATTAAAAAT
125254712 ATATACATAACAA
1 ATATACATAACAA
125254725 CAAAAGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.52
23 5 0.16
24 9 0.29
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (23 bp):
ATATACATAACAATATTAAAAAT
Found at i:125256593 original size:20 final size:20
Alignment explanation
Indices: 125256568--125256621 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
125256558 AGTGGCACAC
125256568 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
125256588 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
125256608 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
125256622 CCCATGGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.07, C:0.31, G:0.41, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:125257491 original size:53 final size:53
Alignment explanation
Indices: 125257430--125257552 Score: 228
Period size: 53 Copynumber: 2.3 Consensus size: 53
125257420 TGTCATATAT
125257430 CAGATATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCC
1 CAGATATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCC
* *
125257483 CAGCTATGGTCTTATACGGGATCACATTATCACATTGTACCGATGCCATAGCC
1 CAGATATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCC
125257536 CAGATATGGTCTTATAC
1 CAGATATGGTCTTATAC
125257553 AAAAGTACAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (53 bp):
CAGATATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCC
Found at i:125263265 original size:30 final size:30
Alignment explanation
Indices: 125263231--125263308 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
125263221 ACCTATTACC
*
125263231 AAGTTTTCATTTAAGT-AGTGAATTATTCAA
1 AAGTTTT-ATTTAAGTCAGTGAACTATTCAA
*
125263261 AAGTTTTATTTAAGTCATTGAACTATTCGAA
1 AAGTTTTATTTAAGTCAGTGAACTATTC-AA
**
125263292 ATTTTTTATTTAAGTCA
1 AAGTTTTATTTAAGTCA
125263309 TTGGGCTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.19
30 17 0.40
31 17 0.40
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (30 bp):
AAGTTTTATTTAAGTCAGTGAACTATTCAA
Found at i:125263302 original size:31 final size:30
Alignment explanation
Indices: 125263234--125263311 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
125263224 TATTACCAAG
* * *
125263234 TTTTCATTTAAGT-AGTGAATTATTCAAAA
1 TTTTTATTTAAGTCATTGAACTATTCAAAA
* *
125263263 GTTTTATTTAAGTCATTGAACTATTCGAAAT
1 TTTTTATTTAAGTCATTGAACTATTC-AAAA
125263294 TTTTTATTTAAGTCATTG
1 TTTTTATTTAAGTCATTG
125263312 GGCTGTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 11 0.27
30 10 0.24
31 20 0.49
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (30 bp):
TTTTTATTTAAGTCATTGAACTATTCAAAA
Found at i:125264027 original size:31 final size:31
Alignment explanation
Indices: 125263989--125264064 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
125263979 AATCTTTTGT
** *
125263989 AAAAAAGTTTAATTTGACCATCAACCTTTAA
1 AAAAAAGTCGAATTTAACCATCAACCTTTAA
* *
125264020 AAAAAAGTCGAATTTAACCATCAATCTTTCA
1 AAAAAAGTCGAATTTAACCATCAACCTTTAA
* *
125264051 AAAAGAGTCAAATT
1 AAAAAAGTCGAATT
125264065 GTTGTTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAAAAGTCGAATTTAACCATCAACCTTTAA
Found at i:125265355 original size:3 final size:3
Alignment explanation
Indices: 125265347--125265515 Score: 84
Period size: 3 Copynumber: 56.0 Consensus size: 3
125265337 TAGTACAATG
* * * * * *
125265347 ATA ATA ATA AGA TTA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
125265393 CTA ATA ATA ATAA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A
1 ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* * *
125265438 ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
*
125265481 ATA ATA AGTA ATA ATA TATA ATA ATA ATA ACA ATA
1 ATA ATA A-TA ATA ATA -ATA ATA ATA ATA ATA ATA
125265516 TTAAAAATCA
Statistics
Matches: 128, Mismatches: 24, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
2 13 0.10
3 91 0.71
4 24 0.19
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:125265387 original size:20 final size:20
Alignment explanation
Indices: 125265349--125265387 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
125265339 GTACAATGAT
* * *
125265349 AATAATAAGATTAATAATAA
1 AATAATAAAAATAACAATAA
125265369 AATAATAAAAATAACAATA
1 AATAATAAAAATAACAATA
125265388 TGTTACTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAATAAAAATAACAATAA
Found at i:125265437 original size:31 final size:30
Alignment explanation
Indices: 125265402--125265500 Score: 76
Period size: 32 Copynumber: 3.0 Consensus size: 30
125265392 ACTAATAATA
125265402 ATAAATAAATAAATAATGGTAATAAATATAT
1 ATAAATAAATAAATAAT-GTAATAAATATAT
**
125265433 ATAAAATAATAGTAACAGTAATAAAATAAATATA-
1 AT-AAATAA-A-TAA-A-TAATGTAATAAATATAT
125265467 ATATAATAAATATAATAATAAGTAAT-AATATAT
1 ATA-AATAAATA-AATAAT--GTAATAAATATAT
125265500 A
1 A
125265501 ATAATAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
31 6 0.11
32 15 0.28
33 8 0.15
34 10 0.19
35 11 0.20
36 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (30 bp):
ATAAATAAATAAATAATGTAATAAATATAT
Found at i:125265487 original size:20 final size:20
Alignment explanation
Indices: 125265396--125265509 Score: 85
Period size: 20 Copynumber: 5.6 Consensus size: 20
125265386 TATGTTACTA
125265396 ATAATAATAA-ATAAATAAAT
1 ATAATAATAATAT-AATAAAT
**
125265416 AATGGTAATAAATATATATAAA-
1 -ATAATAAT-AATATA-ATAAAT
* *
125265438 ATAATAGTAACAGTAATAAA-
1 ATAATAATAATA-TAATAAAT
125265458 ATAA-ATATAATATAATAAAT
1 ATAATA-ATAATATAATAAAT
*
125265478 ATAATAATAA-GTAATAATAT
1 ATAATAATAATATAATAA-AT
125265498 ATAATAATAATA
1 ATAATAATAATA
125265510 ACAATATTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
19 14 0.19
20 36 0.49
21 14 0.19
22 3 0.04
23 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAATAATAATATAATAAAT
Found at i:125265745 original size:19 final size:21
Alignment explanation
Indices: 125265699--125265745 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
125265689 ACTTTCGTAT
*
125265699 ATAAAAAAAATATAAAATTGA
1 ATAAAAAAAATATAAAATTAA
*
125265720 A-AGAAAAAA-ATAAAA-TAA
1 ATAAAAAAAATATAAAATTAA
125265738 ATAAAAAA
1 ATAAAAAA
125265746 CTTAAAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.14
19 11 0.50
20 7 0.32
21 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (21 bp):
ATAAAAAAAATATAAAATTAA
Found at i:125266301 original size:23 final size:25
Alignment explanation
Indices: 125266249--125266302 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
125266239 AAATTAATAT
*
125266249 TTTAATTTATATTTTTGTTAAAAGA
1 TTTAATTTAAATTTTTGTTAAAAGA
*
125266274 -ATAATTTAAATTTTT-TTAAAA-A
1 TTTAATTTAAATTTTTGTTAAAAGA
125266296 TTTAATT
1 TTTAATT
125266303 ATCATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTAATTTAAATTTTTGTTAAAAGA
Found at i:125267187 original size:25 final size:24
Alignment explanation
Indices: 125267154--125267202 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
125267144 TATTAAGTTG
125267154 CTTTTA-TTTTAAAAAATAAATTAT
1 CTTTTATTTTTAAAAAAT-AATTAT
*
125267178 CTTTTAATTTTTATAAAATAATTAT
1 CTTTT-ATTTTTAAAAAATAATTAT
125267203 ACAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
CTTTTATTTTTAAAAAATAATTAT
Found at i:125267310 original size:17 final size:15
Alignment explanation
Indices: 125267277--125267305 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
125267267 TAATATTAAT
125267277 TTTATCAAACAATAA
1 TTTATCAAACAATAA
125267292 TTTATCAAACAATA
1 TTTATCAAACAATA
125267306 TAATTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
TTTATCAAACAATAA
Found at i:125274728 original size:31 final size:31
Alignment explanation
Indices: 125274688--125274751 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
125274678 AAATTGTTAC
*
125274688 TGAATTATTCAAAAATTTTCATTTAAGTCAT
1 TGAACTATTCAAAAATTTTCATTTAAGTCAT
* ** * *
125274719 TGAACTATTCGAATGTTTTTATTTAAGTTAT
1 TGAACTATTCAAAAATTTTCATTTAAGTCAT
125274750 TG
1 TG
125274752 GATCAGTATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (31 bp):
TGAACTATTCAAAAATTTTCATTTAAGTCAT
Found at i:125275292 original size:27 final size:28
Alignment explanation
Indices: 125275239--125275292 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
125275229 CACTCGTTCA
125275239 TATTTAATATATATTCTCTAATCCAATC
1 TATTTAATATATATTCTCTAATCCAATC
*
125275267 TATTTAATATAT-TTCTCTAATTCAAT
1 TATTTAATATATATTCTCTAATCCAAT
125275293 TCAATTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTTAATATATATTCTCTAATCCAATC
Found at i:125275299 original size:28 final size:29
Alignment explanation
Indices: 125275235--125275300 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
125275225 TATACACTCG
125275235 TTCATATTTAATATATATTCTCTAATCCAA
1 TTCA-ATTTAATATATATTCTCTAATCCAA
* *
125275265 -TCTATTTAATATAT-TTCTCTAATTCAA
1 TTCAATTTAATATATATTCTCTAATCCAA
125275292 TTCAATTTA
1 TTCAATTTA
125275301 GTTTTAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 12 0.38
28 18 0.56
29 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (29 bp):
TTCAATTTAATATATATTCTCTAATCCAA
Found at i:125281959 original size:12 final size:12
Alignment explanation
Indices: 125281942--125281976 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
125281932 GCCATTCATG
125281942 TACATATATACA
1 TACATATATACA
*
125281954 TACATAAATACA
1 TACATATATACA
*
125281966 TACATGTATAC
1 TACATATATAC
125281977 TCCTAGTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
TACATATATACA
Found at i:125293063 original size:31 final size:31
Alignment explanation
Indices: 125293025--125293089 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
125293015 TTATTAAATG
** *
125293025 ATTTAAAATTTTTTATTTAAGTCATTGAACT
1 ATTTAAAAAATTTTATTCAAGTCATTGAACT
125293056 ATTTAAAAAATTTTATTCAAGTCATTGAACT
1 ATTTAAAAAATTTTATTCAAGTCATTGAACT
125293087 ATT
1 ATT
125293090 AAGCTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (31 bp):
ATTTAAAAAATTTTATTCAAGTCATTGAACT
Found at i:125293773 original size:2 final size:2
Alignment explanation
Indices: 125293768--125293794 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
125293758 TTTGAGCCTT
125293768 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
125293795 TCTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125294910 original size:15 final size:16
Alignment explanation
Indices: 125294890--125294922 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
125294880 TGTATATTTT
125294890 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
125294905 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
125294922 T
1 T
125294923 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:125295007 original size:21 final size:20
Alignment explanation
Indices: 125294968--125295016 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
125294958 GTTTTAAGAA
*
125294968 TTGTTTTAGTATTATTTTTAT
1 TTGTTTTAATATTATTTTT-T
125294989 TTGTTTTAATATT-TGTTTTT
1 TTGTTTTAATATTAT-TTTTT
125295009 TATGTTTT
1 T-TGTTTT
125295017 TAAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (20 bp):
TTGTTTTAATATTATTTTTT
Found at i:125295022 original size:23 final size:23
Alignment explanation
Indices: 125294982--125295047 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
125294972 TTTAGTATTA
*
125294982 TTTTTATTTGTTTTAATATTTG-T
1 TTTTTATTT-TTTAAATATTTGAT
125295005 TTTTTATGTTTTTAAATATATTTGAT
1 TTTTTAT-TTTTT-AA-ATATTTGAT
*
125295031 TTATTATATTTTTAAAT
1 TTTTTAT-TTTTTAAAT
125295048 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 10 0.28
24 5 0.14
25 9 0.25
26 12 0.33
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTTTAAATATTTGAT
Found at i:125295044 original size:26 final size:25
Alignment explanation
Indices: 125294997--125295047 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
125294987 ATTTGTTTTA
* *
125294997 ATATTTGTTTTTTATGTTTTTAAAT
1 ATATTTGTTTATTATATTTTTAAAT
125295022 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTTATTATATTTTTAAAT
125295048 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (25 bp):
ATATTTGTTTATTATATTTTTAAAT
Found at i:125296467 original size:17 final size:17
Alignment explanation
Indices: 125296447--125296502 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
125296437 AATTTCTCCT
*
125296447 TTTTCTTTCTTTCTTTC
1 TTTTCCTTCTTTCTTTC
* *
125296464 TTTTCCTTCTCTGTTTC
1 TTTTCCTTCTTTCTTTC
* **
125296481 GTCCCCTTCTTTCTTTC
1 TTTTCCTTCTTTCTTTC
125296498 TTTTC
1 TTTTC
125296503 TATTCTTTTT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTCCTTCTTTCTTTC
Found at i:125296579 original size:15 final size:14
Alignment explanation
Indices: 125296559--125296591 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
125296549 TATTATACGA
125296559 ATATAATATTATATT
1 ATATAATA-TATATT
125296574 ATATAATATATATT
1 ATATAATATATATT
125296588 -TATA
1 ATATA
125296592 CTTAAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 6 0.33
15 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATAATATATATT
Found at i:125298492 original size:31 final size:29
Alignment explanation
Indices: 125298457--125298528 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
125298447 ATCCCAAAAC
*
125298457 TATACATGAAATATGGTTTGATGTATAATGG
1 TATACATGAAATATGATTT--TGTATAATGG
* * **
125298488 TATACATGAATTTTGATTTTGTATAATTT
1 TATACATGAAATATGATTTTGTATAATGG
125298517 TATACATGAAAT
1 TATACATGAAAT
125298529 TTTGATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (29 bp):
TATACATGAAATATGATTTTGTATAATGG
Found at i:125298520 original size:29 final size:30
Alignment explanation
Indices: 125298478--125298536 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
125298468 TATGGTTTGA
125298478 TGTATAATGGTATACATG-AATTTTGATTT
1 TGTATAATGGTATACATGAAATTTTGATTT
**
125298507 TGTATAATTTTATACATGAAATTTTGATTT
1 TGTATAATGGTATACATGAAATTTTGATTT
125298537 GATCAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTATAATGGTATACATGAAATTTTGATTT
Found at i:125299237 original size:6 final size:7
Alignment explanation
Indices: 125299211--125299236 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
125299201 TATGAAAGCA
125299211 AAAAAAT
1 AAAAAAT
125299218 AAAAAAT
1 AAAAAAT
125299225 AAAAAAT
1 AAAAAAT
125299232 AAAAA
1 AAAAA
125299237 TGAGAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:125306168 original size:47 final size:46
Alignment explanation
Indices: 125306015--125306195 Score: 265
Period size: 46 Copynumber: 3.9 Consensus size: 46
125306005 ATGAAATGTG
* *
125306015 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
* * *
125306061 TAAGACCATGGTTGAAAGATACCATGGCAACTTGACATAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
*
125306107 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAA
* *
125306154 CAAGACAATGGTTGAAAGATACCATGGCAACATGACAGAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
125306196 CAAGTAAAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 81 0.66
47 41 0.34
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:125306190 original size:93 final size:92
Alignment explanation
Indices: 125306008--125306195 Score: 286
Period size: 93 Copynumber: 2.0 Consensus size: 92
125305998 CTCTGATATG
* * * * * *
125306008 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACAATGGT
* *
125306073 TGAAAGATACCATGGCAACTTGACATA
66 TGAAAGATACCATGGCAACATGACAGA
*
125306100 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAACAAGACAATGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAACAAGACAATGG
125306165 TTGAAAGATACCATGGCAACATGACAGA
65 TTGAAAGATACCATGGCAACATGACAGA
125306193 AAA
1 AAA
125306196 CAAGTAAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 41 0.48
93 45 0.52
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.19
Consensus pattern (92 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACAATGGT
TGAAAGATACCATGGCAACATGACAGA
Found at i:125306202 original size:93 final size:92
Alignment explanation
Indices: 125306014--125306221 Score: 281
Period size: 93 Copynumber: 2.2 Consensus size: 92
125306004 TATGAAATGT
* * * * *
125306014 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACAATGGTTGAAAG
* * **
125306079 ATACCATGGCAACTTGACATAAAATGA
66 ATACCATGGCAACATGACAGAAAACAA
*
125306106 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAACAAGACAATGGTTGAAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAACAAGACAATGGTTGAAA
125306171 GATACCATGGCAACATGACAGAAAACAA
65 GATACCATGGCAACATGACAGAAAACAA
* ** *
125306199 GTAAAATTATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
125306222 TATGACATCA
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 36 0.36
93 65 0.64
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.20
Consensus pattern (92 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACAATGGTTGAAAG
ATACCATGGCAACATGACAGAAAACAA
Found at i:125307436 original size:13 final size:13
Alignment explanation
Indices: 125307418--125307442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125307408 TGTCTGTCAT
125307418 ATTGTGTCTATTG
1 ATTGTGTCTATTG
125307431 ATTGTGTCTATT
1 ATTGTGTCTATT
125307443 CCTAGGATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
ATTGTGTCTATTG
Found at i:125310129 original size:16 final size:16
Alignment explanation
Indices: 125310104--125310135 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
125310094 AAAGGAAGAC
*
125310104 ATATATTATAATAATA
1 ATATAATATAATAATA
125310120 ATATAATATAATAATA
1 ATATAATATAATAATA
125310136 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATAATATAATAATA
Found at i:125310215 original size:3 final size:3
Alignment explanation
Indices: 125310207--125310624 Score: 214
Period size: 3 Copynumber: 138.7 Consensus size: 3
125310197 AAACATACAC
* * *
125310207 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TATG TAT TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA
** * * * * * * *
125310254 TGG TAA -AA GAA TAA TAG TAA CAA TAA -AT TAA -AA AAA TGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
125310299 TAA TAA -AA TAA AAA TAA TAG CGA TAA TAA TAA TAG TAAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
** * *
125310344 TAA TAA TACA TTAA TAA TAA TAA T-A TGT TAA TAA CAA TAA -AT TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
125310389 TGAA TTAA TAA CAA -AA CAG TAA GTAAA TAA -ACA CAA AAA TAA GATA
1 T-AA -TAA TAA TAA TAA TAA TAA -T-AA TAA TA-A TAA TAA TAA TA-A
* * * *
125310435 TAA TTA TAA TAG TAA TAT TAA CAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
125310482 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * **
125310530 T-A TAT TAA TAA -AA -AA TAA TAA TAAA TGGAA TAA AAA CAA TGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA T--AA TAA TAA TAA TAA TAA
* * * ** *
125310575 TAA CAA GAA TAT TAA TAA TGG TAA TAA TAA CAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
125310620 TAA TA
1 TAA TA
125310625 TATACATGAG
Statistics
Matches: 311, Mismatches: 78, Indels: 52
0.71 0.18 0.12
Matches are distributed among these distances:
2 22 0.07
3 259 0.83
4 22 0.07
5 8 0.03
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:125312652 original size:77 final size:76
Alignment explanation
Indices: 125312490--125312770 Score: 361
Period size: 75 Copynumber: 3.7 Consensus size: 76
125312480 AGAGACTAAA
* * * *
125312490 AGGCTCAACTCACTTCTTGCAATATGAGTCGATTTTTTTGAAAAAACATAAATTGAAAATATCTC
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATTGAAAATACCTC
* * * *
125312555 AGTGCGTGATTTG
64 AGCGTGTGACTCG
* *
125312568 AGGCTCAACTCACATCTCT-CAATATGAGTTGATTTTTTTGAAAAACAGGAATT-AAAGATACCT
1 AGGCTCAACTCACCTCT-TGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAA-ATACCT
125312631 CAGCGTGTGACTCG
63 CAGCGTGTGACTCG
* * *
125312645 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACTTCGG
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
125312709 CGTGTGACCCG
66 CGTGTGACTCG
*
125312720 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTAAAAAACAGAAAT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
125312771 AAAAGTATCA
Statistics
Matches: 181, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
75 66 0.36
76 23 0.13
77 55 0.30
78 36 0.20
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTGACTCG
Found at i:125314318 original size:2 final size:2
Alignment explanation
Indices: 125314311--125314344 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
125314301 ATACGCAATA
125314311 AT AT AT AT AT AT AT AT 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
125314345 GCATCGCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125315313 original size:39 final size:39
Alignment explanation
Indices: 125315237--125315352 Score: 128
Period size: 39 Copynumber: 3.0 Consensus size: 39
125315227 TAAACCCAGT
* * * * *
125315237 ATAATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGAC
1 ATAATTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGAC
*
125315276 A-AATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAT
1 ATAA-TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAC
* *
125315315 ATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGA
1 ATAATTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGA
125315353 TATACATCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.08
39 59 0.89
40 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (39 bp):
ATAATTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAC
Found at i:125315353 original size:39 final size:39
Alignment explanation
Indices: 125315280--125315356 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
125315270 CCGGACAAAT
* *
125315280 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
125315319 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
125315357 CATCAATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:125328453 original size:3 final size:3
Alignment explanation
Indices: 125328439--125328861 Score: 168
Period size: 3 Copynumber: 140.3 Consensus size: 3
125328429 AAACATACAC
* * * *
125328439 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAT TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * * * *
125328487 TTA -AA TGG TAA -AA GAA TAA TAG TAA CAA TAA -AT TAA -AA AAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * **
125328531 TAA TAG TAA TAA AAA TAA AAA TAA TAG CGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
125328579 TAA TAA TAA TAA TAA TAAA TAG TAA TAA TAA TACA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA
** * * * * *
125328627 T-A TGT TAA TAA CAA TAA -AT TAA TGAA TTAA TAA CAA -AA CAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA TAA TAA
* * * * * * *
125328671 GTAAA TAA -ACA CAA AAA TAA GATA TAA TTA TAA TAG TAA TAT TAA CAA
1 -T-AA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
125328719 -AA TAA TAA TAA TAA TAA T-A TAT TAA TAA AAA TAA TAA TAA -AA GGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * ** * * * ** * *
125328765 TAA AAA CAA TGT TAA TAA CAA GAA TAT TAA TAA TGG TAA CAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
125328813 TAA T-A TAAA TAA TAA TATA TACA TGA GAA AAA AAA TTAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TA-A TA-A TAA TAA TAA TAA -TAA TAA TAA TAA
125328861 T
1 T
125328862 GATAGAAGTA
Statistics
Matches: 306, Mismatches: 89, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
2 20 0.07
3 256 0.84
4 25 0.08
5 5 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:125335524 original size:35 final size:35
Alignment explanation
Indices: 125335466--125335560 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
125335456 ATAAATTTAG
* **
125335466 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
125335502 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
125335537 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
125335561 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:125335780 original size:21 final size:21
Alignment explanation
Indices: 125335756--125335813 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
125335746 CATTATTTCT
*
125335756 AATCTCACCGCTATAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
* *
125335777 AATCTCATCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
125335798 AATCTCACCGCTACAG
1 AATCTCACCGCTACAG
125335814 CTGTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:125337348 original size:54 final size:55
Alignment explanation
Indices: 125337263--125337374 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 55
125337253 AAGAAACAAC
125337263 TAGCTTAATATAAAGAATTTAAATAACA-TTTTTTTATAATTTATGTAATTTATT
1 TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
* *
125337317 TAGCTTAATATTAAGAATTTAAATAATATTTTTTTTTTATAATTTATGTAATTTATT
1 TAGCTTAATATAAAGAATTTAAATAACA--TTTTTTTTATAATTTATGTAATTTATT
125337374 T
1 T
125337375 GGTGCTTGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
54 26 0.49
57 27 0.51
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (55 bp):
TAGCTTAATATAAAGAATTTAAATAACATTTTTTTTATAATTTATGTAATTTATT
Found at i:125338731 original size:21 final size:22
Alignment explanation
Indices: 125338694--125338736 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
125338684 TCATTGCCAC
125338694 AAAATTTTAAAAAATAT-TTTT
1 AAAATTTTAAAAAATATATTTT
**
125338715 AAAATTTTAAATTATATATTTT
1 AAAATTTTAAAAAATATATTTT
125338737 TATTTACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATTTTAAAAAATATATTTT
Found at i:125340021 original size:8 final size:8
Alignment explanation
Indices: 125339962--125340044 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 8
125339952 CACATTTTTA
*
125339962 TTTATTTT
1 TTTAATTT
*
125339970 TTTATTTT
1 TTTAATTT
125339978 TTATAATTT
1 TT-TAATTT
*
125339987 TTAAATTAT
1 TTTAATT-T
125339996 TTTAATTT
1 TTTAATTT
*
125340004 TTT-CTATT
1 TTTAAT-TT
125340012 TTTAATTT
1 TTTAATTT
125340020 TTATGATATTT
1 TT-T-A-ATTT
**
125340031 TAGAATTT
1 TTTAATTT
125340039 TTTAAT
1 TTTAAT
125340045 AATTATAGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
7 1 0.02
8 35 0.59
9 17 0.29
10 1 0.02
11 5 0.08
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (8 bp):
TTTAATTT
Found at i:125340040 original size:27 final size:28
Alignment explanation
Indices: 125340010--125340069 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
125340000 ATTTTTTCTA
** *
125340010 TTTTTAATTTTTAT-GATATTTTAGAAT
1 TTTTTAATAATTATAGACATTTTAGAAT
*
125340037 TTTTTAATAATTATAGACATTTTATAAT
1 TTTTTAATAATTATAGACATTTTAGAAT
125340065 TTTTT
1 TTTTT
125340070 TTTTTAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTTAATAATTATAGACATTTTAGAAT
Found at i:125346990 original size:14 final size:14
Alignment explanation
Indices: 125346971--125346997 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
125346961 TAATTCAAAT
125346971 CAATCAACGTACGG
1 CAATCAACGTACGG
125346985 CAATCAACGTACG
1 CAATCAACGTACG
125346998 ATTTTAGTGT
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:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (14 bp):
CAATCAACGTACGG
Found at i:125347195 original size:14 final size:14
Alignment explanation
Indices: 125347173--125347244 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
125347163 TTGTAAAATT
*
125347173 TTATAACATATTAA
1 TTATGACATATTAA
*
125347187 TTATGACATATAAA
1 TTATGACATATTAA
*
125347201 CTAATG--ATATT--
1 -TTATGACATATTAA
*
125347212 TTAT-AAATATTAA
1 TTATGACATATTAA
125347225 TTATGACATATTAA
1 TTATGACATATTAA
125347239 TTATGA
1 TTATGA
125347245 TTACAATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.07
11 5 0.11
13 8 0.17
14 26 0.57
15 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (14 bp):
TTATGACATATTAA
Found at i:125347471 original size:27 final size:29
Alignment explanation
Indices: 125347431--125347486 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
125347421 ATAATTATGT
*
125347431 TAAAATATGATTAA-AAT-ATTTTTTTAA
1 TAAAATATGATTAACAATAATTTTATTAA
125347458 TAAAATAT-ATTTAACAATAATTTTATTAA
1 TAAAATATGA-TTAACAATAATTTTATTAA
125347487 AATTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 12 0.48
28 3 0.12
29 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAAATATGATTAACAATAATTTTATTAA
Found at i:125347679 original size:16 final size:16
Alignment explanation
Indices: 125347659--125347730 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
125347649 TGAATTACTT
*
125347659 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
125347675 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
125347691 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
* *
125347707 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
125347723 ATTACAGC
1 ATTACAGC
125347731 CAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:125351246 original size:27 final size:29
Alignment explanation
Indices: 125351206--125351261 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
125351196 ATAATTATGT
*
125351206 TAAAATATGATTAA-AAT-ATTTTTTTAA
1 TAAAATATGATTAACAATAATTTTATTAA
125351233 TAAAATAT-ATTTAACAATAATTTTATTAA
1 TAAAATATGA-TTAACAATAATTTTATTAA
125351262 AATTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 12 0.48
28 3 0.12
29 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAAATATGATTAACAATAATTTTATTAA
Found at i:125351421 original size:44 final size:46
Alignment explanation
Indices: 125351358--125351448 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 46
125351348 TATTACAACA
*
125351358 CCATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGTTCTATT
1 CCATTCCATTCAACCAAACACAAGAATTACTTATTACAGCTCTATT
* ***
125351402 CCATTCCATTCAATCAAACAGTTGAATTACTTATTACAGCTCTATT
1 CCATTCCATTCAACCAAACACAAGAATTACTTATTACAGCTCTATT
125351448 C
1 C
125351449 TATTACAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 22 0.55
45 3 0.08
46 15 0.38
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACACAAGAATTACTTATTACAGCTCTATT
Found at i:125351454 original size:16 final size:16
Alignment explanation
Indices: 125351434--125351505 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
125351424 TGAATTACTT
*
125351434 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
125351450 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
* *
125351466 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
* *
125351482 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
125351498 ATTACAGC
1 ATTACAGC
125351506 CAACCAAACG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:125351894 original size:2 final size:2
Alignment explanation
Indices: 125351887--125351928 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
125351877 GTAATAGTTG
125351887 AT AT AT AT AT AT AT AT AT AT AT AT 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
125351929 TAACCTAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125362618 original size:17 final size:17
Alignment explanation
Indices: 125362596--125362630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
125362586 AAGAAAGTGG
*
125362596 AGTGTAAAATCTAAAGC
1 AGTGTAAAATATAAAGC
125362613 AGTGTAAAATATAAAGC
1 AGTGTAAAATATAAAGC
125362630 A
1 A
125362631 CATAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (17 bp):
AGTGTAAAATATAAAGC
Found at i:125373830 original size:23 final size:23
Alignment explanation
Indices: 125373800--125373847 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
125373790 AATAGTTTTA
125373800 ATTGTTTATTTGAGTGGTTGTTC
1 ATTGTTTATTTGAGTGGTTGTTC
125373823 ATTGTTTATTTGAGTGGTTGTTC
1 ATTGTTTATTTGAGTGGTTGTTC
125373846 AT
1 AT
125373848 CTACTTAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.04, G:0.25, T:0.56
Consensus pattern (23 bp):
ATTGTTTATTTGAGTGGTTGTTC
Found at i:125387705 original size:131 final size:131
Alignment explanation
Indices: 125387570--125387816 Score: 354
Period size: 131 Copynumber: 1.9 Consensus size: 131
125387560 ATATAAATGG
**
125387570 AATTTTGAAGGGA-AGCCCGATTATTTTGAGCAAACGCAAAATTACAACCCAACACGTTAGGGCA
1 AATTTTGAAGGGATA-CCCGATTATTTCAAGCAAACGCAAAATTACAACCCAACACGTTAGGGCA
* * **
125387634 CGATTCCGCGAATTGCCAAACATGGAA-CCTCGTCTTCGTTTTGGGGAATTTTAAAAGTCGTGAG
65 CGATTCCGCAAATTGCCAAACATCGAATCC-CGTCTTCGTTTTGAAGAATTTTAAAAGTCGTGAG
125387698 TGA
129 TGA
* ** ** *
125387701 AATTTTGAAGTGATATTCGATTATTTCAAGCAAACGCGGAATTGCAACCCAACACGTTAGGGCAC
1 AATTTTGAAGGGATACCCGATTATTTCAAGCAAACGCAAAATTACAACCCAACACGTTAGGGCAC
125387766 GATTCCGCAAATTGCCAAACATCGAATCCCGTCTTCGTTTTGAAGAATTTT
66 GATTCCGCAAATTGCCAAACATCGAATCCCGTCTTCGTTTTGAAGAATTTT
125387817 TGAATGAATA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
131 99 0.97
132 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (131 bp):
AATTTTGAAGGGATACCCGATTATTTCAAGCAAACGCAAAATTACAACCCAACACGTTAGGGCAC
GATTCCGCAAATTGCCAAACATCGAATCCCGTCTTCGTTTTGAAGAATTTTAAAAGTCGTGAGTG
A
Found at i:125400229 original size:3 final size:3
Alignment explanation
Indices: 125400221--125400245 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
125400211 GTTGGAGTAA
125400221 GCG GCG GCG GCG GCG GCG GCG GCG G
1 GCG GCG GCG GCG GCG GCG GCG GCG G
125400246 TGACGAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.68, T:0.00
Consensus pattern (3 bp):
GCG
Found at i:125401422 original size:21 final size:21
Alignment explanation
Indices: 125401396--125401445 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
125401386 AATAGAAGTT
125401396 GTGAATGATAGGAAATTGACA
1 GTGAATGATAGGAAATTGACA
* *
125401417 GTGAATGACAGGGAATTGACA
1 GTGAATGATAGGAAATTGACA
125401438 -TGAATGAT
1 GTGAATGAT
125401446 TTTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.40, C:0.06, G:0.30, T:0.24
Consensus pattern (21 bp):
GTGAATGATAGGAAATTGACA
Found at i:125401755 original size:4 final size:4
Alignment explanation
Indices: 125401746--125401808 Score: 117
Period size: 4 Copynumber: 15.8 Consensus size: 4
125401736 TGAAATTAAG
*
125401746 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GAAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
125401794 GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTA
125401809 ATTGAGTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:125404694 original size:11 final size:11
Alignment explanation
Indices: 125404680--125404733 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
125404670 TAGTAATAAA
125404680 ATAATAACAAT
1 ATAATAACAAT
125404691 ATAATAACAAAAT
1 ATAATAAC--AAT
*
125404704 GATCAATAACCAT
1 -AT-AATAACAAT
*
125404717 ATAATAGCAAT
1 ATAATAACAAT
125404728 ATAATA
1 ATAATA
125404734 TCCAAATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 21 0.58
12 2 0.06
13 5 0.14
14 2 0.06
15 6 0.17
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (11 bp):
ATAATAACAAT
Found at i:125407969 original size:17 final size:17
Alignment explanation
Indices: 125407931--125407969 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
125407921 TCGAAATCGG
* *
125407931 ATAATTAACTGAATTAA
1 ATAATTAACCGAAATAA
*
125407948 CTAATTAACCGAAATAA
1 ATAATTAACCGAAATAA
125407965 ATAAT
1 ATAAT
125407970 AAATATTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (17 bp):
ATAATTAACCGAAATAA
Found at i:125408767 original size:33 final size:33
Alignment explanation
Indices: 125408725--125408793 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
125408715 CTGCCAGGTG
125408725 AATGACAAATTTACCCCATTTTTCAATATTTGT
1 AATGACAAATTTACCCCATTTTTCAATATTTGT
125408758 AATGACAAATTTACCCCATTTTTCAATATTTGT
1 AATGACAAATTTACCCCATTTTTCAATATTTGT
125408791 AAT
1 AAT
125408794 TTAGTGCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (33 bp):
AATGACAAATTTACCCCATTTTTCAATATTTGT
Found at i:125414702 original size:18 final size:18
Alignment explanation
Indices: 125414681--125414733 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
125414671 ATAAATAATT
* *
125414681 TAAAAATTATAAAAATGG
1 TAAAAAATATAAAAATAG
* *
125414699 TAAAAAGTA-AAAAATTAT
1 TAAAAAATATAAAAA-TAG
125414717 TAAAAAATATAAAAATA
1 TAAAAAATATAAAAATA
125414734 TATAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.17
18 19 0.66
19 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAAATATAAAAATAG
Found at i:125414715 original size:26 final size:24
Alignment explanation
Indices: 125414682--125414747 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
125414672 TAAATAATTT
*
125414682 AAAAATTATAAAAATGGTAAAAAGTA
1 AAAAATTATAAAAAT-ATAAAAA-TA
125414708 AAAAATTATTAAAAAATATAAAAATA
1 AAAAATTA-T-AAAAATATAAAAATA
* *
125414734 TATAATTATAAAAA
1 AAAAATTATAAAAA
125414748 AATTAGTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 5 0.14
25 1 0.03
26 16 0.46
27 7 0.20
28 6 0.17
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (24 bp):
AAAAATTATAAAAATATAAAAATA
Found at i:125421654 original size:20 final size:21
Alignment explanation
Indices: 125421614--125421654 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
125421604 TTAATCATTA
*
125421614 ATTTTATTAAAAATTATTATT
1 ATTTTATTAAAAATTAGTATT
*
125421635 ATTTT-TTAAAATTTAGTATT
1 ATTTTATTAAAAATTAGTATT
125421655 TTAATTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTATTAAAAATTAGTATT
Found at i:125426533 original size:35 final size:32
Alignment explanation
Indices: 125426461--125426537 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
125426451 TCAATTGTGT
125426461 CAATAATAATAAGGTAGCTTTTTCATTTTTGG
1 CAATAATAATAAGGTAGCTTTTTCATTTTTGG
125426493 CAATAATAATAAGGTAGCTTTTTCATTTTTGG
1 CAATAATAATAAGGTAGCTTTTTCATTTTTGG
125426525 CAATAATAATAAG
1 CAATAATAATAAG
125426538 TGAATCTGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (32 bp):
CAATAATAATAAGGTAGCTTTTTCATTTTTGG
Found at i:125430315 original size:13 final size:13
Alignment explanation
Indices: 125430299--125430367 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
125430289 TATCATTATA
125430299 ATATAATATTAAT
1 ATATAATATTAAT
125430312 ATAT-ATACTTAAT
1 ATATAATA-TTAAT
125430325 A-ATTAATATATAAT
1 ATA-TAATAT-TAAT
125430339 ATTATAATATT-AT
1 A-TATAATATTAAT
*
125430352 A-ATATTA-TAAT
1 ATATAATATTAAT
125430363 ATATA
1 ATATA
125430368 TTTTAACTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
10 1 0.02
11 8 0.17
12 7 0.15
13 15 0.32
14 9 0.19
15 6 0.13
16 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAATATTAAT
Done.