Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 18 of 297
Found at i:5876186 original size:45 final size:45
Alignment explanation
Indices: 5875989--5876197 Score: 181
Period size: 45 Copynumber: 4.6 Consensus size: 45
5875979 ATTATTGACA
* * ** * * *
5875989 CCATGTCCCAAACATGGTCTTACACTAGCTCTCTTCTCAATGCCGAGG
1 CCATGT-CC-AACATGGTCTTACACTGGCTCAC-AGTCAACGTCGATG
* * *
5876037 CCATGTCCAACATGGTCTTACACTGGCTCACAATCAAC-ACTGATT
1 CCATGTCCAACATGGTCTTACACTGGCTCACAGTCAACGTC-GATG
* * * * *
5876082 TCATGTCTAGCATGGTCTTACACTGGCTCTC-GT-AATGTGGCCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCACAGTCAACGT---CGATG
*
5876128 CCATGTCCAACATGGTCTTATACTGGCTCACAGTCAACGTCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCACAGTCAACGTCGATG
*
5876173 CCATGTGCAACATGGTCTTACACTG
1 CCATGTCCAACATGGTCTTACACTG
5876198 ACTCTCGTAA
Statistics
Matches: 130, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 61 0.47
46 50 0.38
47 5 0.04
48 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CCATGTCCAACATGGTCTTACACTGGCTCACAGTCAACGTCGATG
Found at i:5876242 original size:46 final size:46
Alignment explanation
Indices: 5875989--5876228 Score: 195
Period size: 46 Copynumber: 5.2 Consensus size: 46
5875979 ATTATTGACA
* ** *
5875989 CCATGTCCCAAACATGGTCTTACACTAGCTCTC-TTCTCAAT-GCCGAGG
1 CCATGT-CC-AACATGGTCTTACACTGGCTCTCGTAAT--ATGGCCGATG
* *** * *
5876037 CCATGTCCAACATGGTCTTACACTGGCTCAC--AATCAACACTGATT
1 CCATGTCCAACATGGTCTTACACTGGCTCTCGTAAT-ATGGCCGATG
* * * *
5876082 TCATGTCTAGCATGGTCTTACACTGGCTCTCGTAATGTGGCCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTCGTAATATGGCCGATG
* * * * *
5876128 CCATGTCCAACATGGTCTTATACTGGCTCACAGTCA-A-CGTCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTC-GTAATATGGCCGATG
* *
5876173 CCATGTGCAACATGGTCTTACACTGACTCTCGTAATATGGCCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTCGTAATATGGCCGATG
5876219 CCATGTCCAA
1 CCATGTCCAA
5876229 TGTGGTTTAA
Statistics
Matches: 149, Mismatches: 37, Indels: 14
0.75 0.19 0.07
Matches are distributed among these distances:
44 4 0.03
45 65 0.44
46 66 0.44
47 8 0.05
48 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CCATGTCCAACATGGTCTTACACTGGCTCTCGTAATATGGCCGATG
Found at i:5884063 original size:50 final size:50
Alignment explanation
Indices: 5883988--5884087 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
5883978 CCCCTAAGGA
*
5883988 TCGATGGTGTGGATGGCCCAAATTGCATCCGTGATTTGGACTTGTTCTAG
1 TCGATGGTGGGGATGGCCCAAATTGCATCCGTGATTTGGACTTGTTCTAG
5884038 TCGATGGTGGGGATGGCCCAAATTGCATCCGTGATTTGGACTTGTTCTAG
1 TCGATGGTGGGGATGGCCCAAATTGCATCCGTGATTTGGACTTGTTCTAG
5884088 CGCGGCCCAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (50 bp):
TCGATGGTGGGGATGGCCCAAATTGCATCCGTGATTTGGACTTGTTCTAG
Found at i:5888453 original size:64 final size:63
Alignment explanation
Indices: 5888380--5888507 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 63
5888370 AACTAAAAGT
5888380 ACTAGTAATGACGATCTTTTTATTATCTAGCCTAAGAAAAATGAGATTTGTTTTAACTAACTA
1 ACTAGTAATGACGATCTTTTTATTATCTAGCCTAAGAAAAATGAGATTTGTTTTAACTAACTA
* * * *
5888443 NACTAGTAATGACTATCTTTTTATTATCTAGCCTAAGAATAATGGGGTTTGTTTTAACTAACTA
1 -ACTAGTAATGACGATCTTTTTATTATCTAGCCTAAGAAAAATGAGATTTGTTTTAACTAACTA
5888507 A
1 A
5888508 TTAACTAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 1 0.02
64 59 0.98
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.39
Consensus pattern (63 bp):
ACTAGTAATGACGATCTTTTTATTATCTAGCCTAAGAAAAATGAGATTTGTTTTAACTAACTA
Found at i:5888782 original size:68 final size:68
Alignment explanation
Indices: 5888673--5888809 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
5888663 ATCCCTAAGT
5888673 TATATTATTATCCGTCTTGAGACTAAAAACGTCTAACCCTAGGTTGAATAATTAAAATCTCTTTC
1 TATATTATTATCCGTCTTGAGACTAAAAACGTCTAACCCTAGGTTGAATAATTAAAATCTCTTTC
5888738 TAA
66 TAA
*
5888741 TATATTATTATCCGTCTTGAGACTAAAAACGTCTAACCCTAGGTTGAATAATTGAAATCTCTTTC
1 TATATTATTATCCGTCTTGAGACTAAAAACGTCTAACCCTAGGTTGAATAATTAAAATCTCTTTC
5888806 TAA
66 TAA
5888809 T
1 T
5888810 TAACTTCATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (68 bp):
TATATTATTATCCGTCTTGAGACTAAAAACGTCTAACCCTAGGTTGAATAATTAAAATCTCTTTC
TAA
Found at i:5893284 original size:48 final size:48
Alignment explanation
Indices: 5893204--5893321 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 48
5893194 CATATGGACA
* *
5893204 CCATATCCCAAATATGGTCTTATACAAAATCACTTAACGATGCCGAAG
1 CCATATCCCAGATATGGTCTTATACAAAATCACATAACGATGCCGAAG
* **** ** * *
5893252 CCATATCCCTGATATGGTCTTATATGGGATCACATATTGGTGCCGATG
1 CCATATCCCAGATATGGTCTTATACAAAATCACATAACGATGCCGAAG
*
5893300 CCATATCCCAGACATGGTCTTA
1 CCATATCCCAGATATGGTCTTA
5893322 CATTTGCATA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (48 bp):
CCATATCCCAGATATGGTCTTATACAAAATCACATAACGATGCCGAAG
Found at i:5893335 original size:48 final size:48
Alignment explanation
Indices: 5893243--5893419 Score: 162
Period size: 48 Copynumber: 3.7 Consensus size: 48
5893233 TCACTTAACG
* * * * * *
5893243 ATGCCGAAGCCATATCCCTGATATGGTCTTATA-TGGGATCACATATTG
1 ATGCCGATGCCATATCCCAGACATGGTCTTACATTGGCAT-ACATATTA
* * *
5893291 GTGCCGATGCCATATCCCAGACATGGTCTTACATTTGCATACATA-TC
1 ATGCCGATGCCATATCCCAGACATGGTCTTACATTGGCATACATATTA
* * * *
5893338 AT-CACTAATGCCATGTCCTAGACATGGTCTTACATTGGCATACATATCA
1 ATGC-C-GATGCCATATCCCAGACATGGTCTTACATTGGCATACATATTA
** *
5893387 ACACCGATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCGATGCCATATCCCAGACATGGTCTTACA
5893420 CGGGATCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 95 0.90
49 6 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATATCCCAGACATGGTCTTACATTGGCATACATATTA
Found at i:5900868 original size:79 final size:80
Alignment explanation
Indices: 5900732--5900915 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
5900722 TTGAATGATG
* *
5900732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
5900796 TGTGCGAG-ATACTAA
66 TGTGCGAGTATA-TAA
* * * **
5900811 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
5900873 ATTGTGCGAGTTATATAA
64 ATTGTGCGAG-TATATAA
*
5900891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5900916 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 10 0.11
79 57 0.63
80 21 0.23
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGTATATAA
Found at i:5900922 original size:39 final size:40
Alignment explanation
Indices: 5900732--5900915 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
5900722 TTGAATGATG
* * * *
5900732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
5900772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
5900812 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
5900851 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTA-TATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
5900891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5900916 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 59 0.48
40 57 0.46
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:5915767 original size:98 final size:99
Alignment explanation
Indices: 5915593--5915782 Score: 251
Period size: 98 Copynumber: 1.9 Consensus size: 99
5915583 AAAGAGAGAG
*
5915593 AGAAAGTTTATATTTTTAAAAATAAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
1 AGAAAGTTTAGATTTTT--AAATAAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
5915658 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAA
64 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAA
* * * *
5915694 AGAAAGTTTAGATTTTT-AATATAAAAA-TATGTTTTTAGTCATTTTAAAGGAAGGTT-TAAATG
1 AGAAAGTTTAGATTTTTAAATAAAAAAATTAT-TTTTTAGTCATTCTAAAGGAAAGTTAAAAAT-
* **
5915756 TTTAAAGCAAAGTTTTGATTTTTTTTT
64 TTTAAAACAAAGTAGTGATTTTTTTTT
5915783 CAATTATTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
97 7 0.09
98 56 0.71
101 16 0.20
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.43
Consensus pattern (99 bp):
AGAAAGTTTAGATTTTTAAATAAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAATTT
TAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAA
Found at i:5915829 original size:262 final size:256
Alignment explanation
Indices: 5915437--5915926 Score: 675
Period size: 262 Copynumber: 1.9 Consensus size: 256
5915427 GGGTGTTACA
5915437 TTTAGATTTTTAAAAATAAAAACATGTTTTTTTAGCCATTTTAAAGAAAAGTTTAAAATTTTAAA
1 TTTAGATTTTTAAAAATAAAAACATG-TTTTTTAGCCATTTTAAAGAAAAGTTTAAAATTTTAAA
* * * *
5915502 ATAAAGTTTTTATTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAACAAAAGTAGTGAT
65 ACAAAGTTTTTATTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAGTAGTGA-
*
5915567 TTTTTAAAAGAAAAAAAAAGAGAGAGAGAAAGTTTATATTTTTAAAAATAAAAAAAT-TATTTTT
129 TTTTTAAAAG---AAAAAA-AGAGAGAG--AGTTTAGATTTTTAAAAATAAAAAAATGT-TTTTT
5915631 TAGTCATTCTAAAGG-AAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAAA
187 TAGTCATTCTAAAGGTAAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAAA
5915695 GAAAG
252 GAAAG
* * * * *
5915700 TTTAGATTTTT-AATATAAAAATATG-TTTTTAGTCATTTTAAAGGAAGGTTT-AAATGTTTAAA
1 TTTAGATTTTTAAAAATAAAAACATGTTTTTTAGCCATTTTAAAGAAAAGTTTAAAAT-TTTAAA
* * * *
5915762 GCAAAGTTTTGATTTTTTTTTCAATTATTTCAAAATAAAAACTTTAATATTTAAGAAAAGTAGTG
65 ACAAAGTTTT--TATTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAGTAGTG
*
5915827 ATTTTTAAAAGAAAAAAAGAGAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCA
128 ATTTTTAAAAGAAAAAAAGAGAGAGAGTTTAGATTTTTAAAAATAAAAAAATGTTTTTTTAGTCA
* * *
5915892 TTTTAAAGGTAAAGTTTAAATTTTTAAAACAAAGT
193 TTCTAAAGGTAAAGTTAAAAATTTTAAAACAAAGT
5915927 TTTAATCTTT
Statistics
Matches: 204, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
255 44 0.22
256 24 0.12
257 8 0.04
258 6 0.03
259 4 0.02
260 37 0.18
261 10 0.05
262 60 0.29
263 11 0.05
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (256 bp):
TTTAGATTTTTAAAAATAAAAACATGTTTTTTAGCCATTTTAAAGAAAAGTTTAAAATTTTAAAA
CAAAGTTTTTATTTTTTTCAACTATTTCAAAATAAAAACTTTAATATTTAACAAAAGTAGTGATT
TTTAAAAGAAAAAAAGAGAGAGAGTTTAGATTTTTAAAAATAAAAAAATGTTTTTTTAGTCATTC
TAAAGGTAAAGTTAAAAATTTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAAAAAGAAAG
Found at i:5915925 original size:20 final size:21
Alignment explanation
Indices: 5915902--5915942 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5915892 TTTTAAAGGT
5915902 AAAGTTTAAAT-TTTTAAAAC
1 AAAGTTTAAATCTTTTAAAAC
* *
5915922 AAAGTTTTAATCTTTTTAAAC
1 AAAGTTTAAATCTTTTAAAAC
5915943 TATTTCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAGTTTAAATCTTTTAAAAC
Found at i:5915930 original size:21 final size:21
Alignment explanation
Indices: 5915902--5915941 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5915892 TTTTAAAGGT
5915902 AAAGTTTAA-ATTTTTAAAAC
1 AAAGTTTAATATTTTTAAAAC
*
5915922 AAAGTTTTAATCTTTTTAAA
1 AAAG-TTTAATATTTTTAAA
5915942 CTATTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAGTTTAATATTTTTAAAAC
Found at i:5915938 original size:157 final size:153
Alignment explanation
Indices: 5915685--5915998 Score: 409
Period size: 157 Copynumber: 2.0 Consensus size: 153
5915675 ATTTTTTTTT
* *
5915685 AAAAAAAAAAGAAAGTTTAGATTTTTAATATAAAAATATGTTTTTAGTCATTTTAAAGGAAGGTT
1 AAAAAAAAAAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTAGTCATTTTAAAGGAAAGTT
* * * * *
5915750 TAAATGTTTAAAGCAAAGTTTTGATTTTTTTTTCAATTATTTCAAAATAAAAACTTT-A-ATATT
66 TAAATGTTTAAAACAAAGTTTTGA-ATCTTTTTAAACTATTTCAAAAT-AAAACTTTGATATATT
5915813 TAAGAAAAGTAGTGATTTTTAAAAG
129 TAAGAAAAGTAGTGATTTTTAAAAG
* *
5915838 AAAAAAAGAGAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGTA
1 AAAAAAA-AAAGAAAGTTTAGATTTTT-AAAATAAAAATATG--TTTTTAGTCATTTTAAAGG-A
* * *
5915903 AAGTTTAAATTTTTAAAACAAAGTTTT-AATCTTTTTAAACTATTTCGAAATAAAACTTTGATTT
61 AAGTTTAAATGTTTAAAACAAAGTTTTGAATCTTTTTAAACTATTTCAAAATAAAACTTTGATAT
* * *
5915967 TTTTTAGAAAAGTAGTGATTTTTTAAAG
126 ATTTAAGAAAAGTAGTGATTTTTAAAAG
5915995 AAAA
1 AAAA
5915999 CTTTGATTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
153 7 0.05
154 17 0.12
155 21 0.15
156 19 0.14
157 50 0.36
158 25 0.18
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.41
Consensus pattern (153 bp):
AAAAAAAAAAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTAGTCATTTTAAAGGAAAGTT
TAAATGTTTAAAACAAAGTTTTGAATCTTTTTAAACTATTTCAAAATAAAACTTTGATATATTTA
AGAAAAGTAGTGATTTTTAAAAG
Found at i:5916005 original size:20 final size:20
Alignment explanation
Indices: 5915954--5916013 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
5915944 ATTTCGAAAT
**
5915954 AAAACTTTGATTTTTTTTAG
1 AAAACTTTGATTTTTTAAAG
* *
5915974 AAAAGTAGTGATTTTTTAAAG
1 AAAACT-TTGATTTTTTAAAG
*
5915995 AAAACTTTGATTTTGTAAA
1 AAAACTTTGATTTTTTAAA
5916014 AAAGAATACA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
AAAACTTTGATTTTTTAAAG
Found at i:5916205 original size:43 final size:43
Alignment explanation
Indices: 5916156--5916241 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
5916146 AAAATGAAAG
*
5916156 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGGATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
5916199 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
5916242 TTATTCCCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (43 bp):
AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
Found at i:5933435 original size:22 final size:22
Alignment explanation
Indices: 5933407--5933476 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
5933397 TGGTTTGTTG
5933407 CCTTTGTTTCATACCCTGGTAT
1 CCTTTGTTTCATACCCTGGTAT
** * *
5933429 CCTTTGTGGCATATCC-GGTTTGTT
1 CCTTTGTTTCATACCCTGG--T-AT
5933453 GCCTTTGTTTCATACCCTGGTAT
1 -CCTTTGTTTCATACCCTGGTAT
5933476 C
1 C
5933477 TTTTATGGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
21 2 0.06
22 14 0.40
23 2 0.06
24 2 0.06
25 13 0.37
26 2 0.06
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.44
Consensus pattern (22 bp):
CCTTTGTTTCATACCCTGGTAT
Found at i:5933436 original size:47 final size:47
Alignment explanation
Indices: 5933382--5933505 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
5933372 TTCTAGTTGG
*
5933382 CCTTTGTGGCATATTTGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
*
5933429 CCTTTGTGGCATATCCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
* * * * *
5933476 CTTTTATGGCATATTCAGTATGTTTCCTTT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTT
5933506 ATGGCATACT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.48
Consensus pattern (47 bp):
CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
Found at i:5933457 original size:25 final size:25
Alignment explanation
Indices: 5933381--5933460 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
5933371 ATTCTAGTTG
**
5933381 GCCTTTGTGGCATATTTGGTTTGTT
1 GCCTTTGTGGCATATCCGGTTTGTT
** * *
5933406 GCCTTTGTTTCATACCCTGG--T-AT
1 GCCTTTGTGGCATATCC-GGTTTGTT
5933429 -CCTTTGTGGCATATCCGGTTTGTT
1 GCCTTTGTGGCATATCCGGTTTGTT
5933453 GCCTTTGT
1 GCCTTTGT
5933461 TTCATACCCT
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
21 2 0.05
22 13 0.32
23 2 0.05
24 2 0.05
25 19 0.47
26 2 0.05
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (25 bp):
GCCTTTGTGGCATATCCGGTTTGTT
Found at i:5933532 original size:22 final size:21
Alignment explanation
Indices: 5933502--5933553 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
5933492 AGTATGTTTC
* *
5933502 CTTTATGGCATACTTTGATAG
1 CTTTGTGGCATACTCTGATAG
*
5933523 TCTTTGTGGCGTACTCTGATAG
1 -CTTTGTGGCATACTCTGATAG
5933545 CTTTTGTGG
1 C-TTTGTGG
5933554 TATATTCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.44
Consensus pattern (21 bp):
CTTTGTGGCATACTCTGATAG
Found at i:5939021 original size:57 final size:57
Alignment explanation
Indices: 5938902--5939042 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 57
5938892 TTTATAAAAT
** * * * *
5938902 AGGATTACCAGTCCAGGCTAAATCCCATCTTTAGCATTCGCTCTTAAAAGCTTATTC
1 AGGATTACCAGTCCAGGCTAAATCCCATCGATAACATTAGCTCTTAAAAGCCTACTC
* * *
5938959 AGGATTACCAGTCCAGGCTAAATCCCTTCGATAACGTTAGCTCATT-AGAGCCTACT-
1 AGGATTACCAGTCCAGGCTAAATCCCATCGATAACATTAGCTC-TTAAAAGCCTACTC
* *
5939015 ATGGATTACCCGTCCGGGCTAAA-CCCAT
1 A-GGATTACCAGTCCAGGCTAAATCCCAT
5939043 TTCATGACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 5 0.07
57 63 0.90
58 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCCATCGATAACATTAGCTCTTAAAAGCCTACTC
Found at i:5942684 original size:46 final size:46
Alignment explanation
Indices: 5942606--5942697 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
5942596 AGTTTTGCCA
**
5942606 AGGTTCTGAGCTTCTGCATAGTTTGCTGACTCAAGAATAT-AGGAAT
1 AGGTTCTGAGCTTCTGCATAGTTTGCAAACTCAAGAAT-TCAGGAAT
5942652 AGGTTCTGAGC-TCTTGCATA-TGTTGCAAACTCAAGAATTCAGGAAT
1 AGGTTCTGAGCTTC-TGCATAGT-TTGCAAACTCAAGAATTCAGGAAT
5942698 GGATTTCAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
45 4 0.10
46 37 0.90
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (46 bp):
AGGTTCTGAGCTTCTGCATAGTTTGCAAACTCAAGAATTCAGGAAT
Found at i:5943612 original size:27 final size:28
Alignment explanation
Indices: 5943573--5943628 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
5943563 TTAGTATTCA
5943573 TCATATATATATACACATAACATAACAT
1 TCATATATATATACACATAACATAACAT
* *
5943601 TCAT-TATTTATACACATAACATAGCAT
1 TCATATATATATACACATAACATAACAT
5943628 T
1 T
5943629 TATCATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (28 bp):
TCATATATATATACACATAACATAACAT
Found at i:5945534 original size:39 final size:40
Alignment explanation
Indices: 5945468--5945575 Score: 157
Period size: 39 Copynumber: 2.7 Consensus size: 40
5945458 TATTTGGATG
*
5945468 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
5945508 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
5945547 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
5945576 AGCAAGTAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:5945589 original size:40 final size:40
Alignment explanation
Indices: 5945468--5945589 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
5945458 TATTTGGATG
*
5945468 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CT
* * *
5945508 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTA-CT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCT
*
5945547 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCT
5945587 ATA
1 ATA
5945590 TCTGGCTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
39 34 0.49
40 35 0.51
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCT
Found at i:5945597 original size:39 final size:39
Alignment explanation
Indices: 5945473--5945608 Score: 127
Period size: 39 Copynumber: 3.5 Consensus size: 39
5945463 GGATGATAAC
*
5945473 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-T
* * *
5945512 CCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTA-CTATAAC
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTAT-AT
*
5945552 CGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
* * *
5945591 CTGGCTAAATTCCGAAGG
1 CGGGCTAAGTCCCGAAGG
5945609 TACTTGGTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
39 48 0.60
40 31 0.39
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAT
Found at i:5949466 original size:49 final size:49
Alignment explanation
Indices: 5949355--5949501 Score: 190
Period size: 49 Copynumber: 3.0 Consensus size: 49
5949345 TACATGTATT
* *
5949355 CTCATATGAGCT-ATGAATCGGTATGCTCTCACGAGCTAT-AAATCGATAAG
1 CTCATATGAGCTGA-GAATCGGTAAGCTCTCACGAG--ATGAAATCGGTAAG
5949405 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
1 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
* ** * *
5949454 CTCATACGAGCTGAGAATCAATAAGCTCTCACGAGCTGAAATCAGTAA
1 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAA
5949502 TCCCTAATGA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
48 2 0.02
49 53 0.60
50 32 0.36
51 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (49 bp):
CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
Found at i:5949491 original size:25 final size:24
Alignment explanation
Indices: 5949370--5949496 Score: 123
Period size: 25 Copynumber: 5.2 Consensus size: 24
5949360 ATGAGCTATG
* * *
5949370 AATCGGTATGCTCTCACGAGCTATA
1 AATCGATAAGCTCTCACGAGCT-GA
*
5949395 AATCGATAAGCTCAT-ATGAGCTGA
1 AATCGATAAGCTC-TCACGAGCTGA
* *
5949419 GAATCGGTAAGCTCTCACGAGATGA
1 -AATCGATAAGCTCTCACGAGCTGA
*
5949444 AATCGGTAAGCTCAT-ACGAGCTGA
1 AATCGATAAGCTC-TCACGAGCTGA
*
5949468 GAATCAATAAGCTCTCACGAGCTGA
1 -AATCGATAAGCTCTCACGAGCTGA
5949493 AATC
1 AATC
5949497 AGTAATCCCT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
24 28 0.33
25 57 0.66
26 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (24 bp):
AATCGATAAGCTCTCACGAGCTGA
Found at i:5956158 original size:37 final size:37
Alignment explanation
Indices: 5956099--5956207 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
5956089 AGCTCAGACG
* * *
5956099 AAATCTCCACACGAAGTTATCGGGTCTTGCCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
5956136 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
5956173 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
5956208 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:5956411 original size:48 final size:48
Alignment explanation
Indices: 5956353--5957303 Score: 1875
Period size: 48 Copynumber: 19.8 Consensus size: 48
5956343 GCACATCGCC
* *
5956353 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956401 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956449 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956497 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956545 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956593 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956641 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956689 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956737 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956785 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956833 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956881 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956929 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5956977 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5957025 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5957073 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5957121 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5957169 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
5957217 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
5957265 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
5957304 TGCATGTTCA
Statistics
Matches: 899, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 899 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (48 bp):
TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:5957352 original size:47 final size:47
Alignment explanation
Indices: 5957273--5957466 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
5957263 CATACACATT
* * * *
5957273 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
5957320 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
5957367 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * ** *
5957414 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
5957461 TCACAT
1 TCACAT
5957467 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:5957393 original size:22 final size:22
Alignment explanation
Indices: 5957366--5957437 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
5957356 GCTCACATTC
5957366 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
5957388 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
5957412 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
5957435 ATC
1 ATC
5957438 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:5957460 original size:94 final size:93
Alignment explanation
Indices: 5956369--5957466 Score: 616
Period size: 96 Copynumber: 11.5 Consensus size: 93
5956359 TTTCACACTA
* ** *
5956369 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956433 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956465 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956529 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956561 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956625 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956657 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956721 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956753 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956817 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956849 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5956913 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5956945 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5957009 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5957041 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * ** *
5957105 ACATATA--CATATCTCATACACATTTCACATTA
63 ACATATATGCATGT-TCACATTCA--TCACATTG
* ** *
5957137 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* * *
5957201 ACATATA--CATATCTCATACATAT-TTCACATTA
63 ACATATATGCATGT-TC--ACAT-TCATCACATTG
* ** *
5957233 GCCATTCGGCTTTA-CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACC
1 GCCATTCGGCCTTATCCACATATACATAT-TCATATTCA--TCACATTAGCCATTCGGCCTTACC
* *
5957297 ACATATATGCATGTTCATATTCACCACATTG
63 ACATATATGCATGTTCACATTCATCACATTG
* ** * * *
5957328 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATC-CACATATACATATTCATATTCATCACATTAGCCATTCGGCCTTACCAC
5957393 ATATATGCATGTTCACATTCATCACATTG
65 ATATATGCATGTTCACATTCATCACATTG
* *
5957422 GCCATTCGGCCTTATCTCATATATACACATTCATATTCATCACAT
1 GCCATTCGGCCTTATC-CACATATACATATTCATATTCATCACAT
5957467 AAAATCCTAA
Statistics
Matches: 966, Mismatches: 28, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
94 89 0.09
95 22 0.02
96 837 0.87
97 12 0.01
98 6 0.01
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (93 bp):
GCCATTCGGCCTTATCCACATATACATATTCATATTCATCACATTAGCCATTCGGCCTTACCACA
TATATGCATGTTCACATTCATCACATTG
Found at i:5961360 original size:40 final size:40
Alignment explanation
Indices: 5961316--5962267 Score: 1787
Period size: 40 Copynumber: 23.8 Consensus size: 40
5961306 CCAGCATGAT
* * *
5961316 TGCTCTTCGGGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
*
5961356 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961396 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961436 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961476 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961516 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961556 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961596 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961636 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961676 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961716 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961756 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961796 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961836 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961876 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961916 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961956 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5961996 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
*
5962036 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
5962076 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
5962116 TGCTCTTCGGGACTTAGCCCGAATATATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
5962156 AGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
*
5962196 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
5962236 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTTGGGACTTAGCCCGGATACATCACT
5962268 CTCAATTCTC
Statistics
Matches: 899, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 899 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:5967801 original size:264 final size:263
Alignment explanation
Indices: 5967327--5968117 Score: 1456
Period size: 264 Copynumber: 3.0 Consensus size: 263
5967317 TTCCAAATAC
*
5967327 TTCTGAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
1 TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
5967392 AAACCAAATGGCATGCGTCTAAATGAAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGA
66 AAACCAAATGGCATGCGTCTAAATGAAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGA
5967457 TCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCG
131 TCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCG
5967522 CCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCCT
196 CCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCCT
5967587 TGT
261 TGT
5967590 TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
1 TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
* *
5967655 AAACCAAATGGCATGCGTCTAAATGAAAATGTACCATACGGGCAGGTGAATGTTGTCTTGTGTTG
66 AAACCAAATGGCATGCGTCTAAATG-AAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTG
* *
5967720 ATCTTCCGGAGCTATTGTAACATAATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTC
130 ATCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTC
** *
5967785 GCTTTGTGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCC
195 GCCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCC
5967850 TTGT
260 TTGT
5967854 TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
1 TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
5967919 AAACCAAATGGCATGCGTCTAAATGAAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGA
66 AAACCAAATGGCATGCGTCTAAATGAAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGA
5967984 TCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCG
131 TCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCG
* * * **
5968049 CCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGTGATCTTTCCTAGTCACCT
196 CCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCCT
5968114 TGT
261 TGT
5968117 T
1 T
5968118 CAGCTTTCGA
Statistics
Matches: 507, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
263 251 0.50
264 256 0.50
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (263 bp):
TTCTCAACCATGTTAGTAAAAATAGACATCATACATCTTTTTGAAATGTAGCAAGTGCATTACAT
AAACCAAATGGCATGCGTCTAAATGAAATGTATCGTACGGGCAGGTGAATGTTGTCTTGTGTTGA
TCTTCCGGAGCTATTGTAATATGATTATACCCTAAGTATCCATCAAGAAAATAGTAATAGTCTCG
CCCTGCGAGTCTATCCAACATCTGGTCCAAAAATGGTAAAGGAAAGAGCTCTTTTCTAGTTGCCT
TGT
Found at i:5975896 original size:60 final size:60
Alignment explanation
Indices: 5975803--5975922 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
5975793 ATATATAATA
5975803 GGCTGAAATATAAGAATGTAAATGAAATTAAAGTATTTTTTACATACAAACCTACCTCGG
1 GGCTGAAATATAAGAATGTAAATGAAATTAAAGTATTTTTTACATACAAACCTACCTCGG
5975863 GGCTGAAATATAAGAATGTAAATGAAATTAAAGTATTTTTTACATACAAACCTACCTCGG
1 GGCTGAAATATAAGAATGTAAATGAAATTAAAGTATTTTTTACATACAAACCTACCTCGG
5975923 TGCAAAATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (60 bp):
GGCTGAAATATAAGAATGTAAATGAAATTAAAGTATTTTTTACATACAAACCTACCTCGG
Found at i:5982584 original size:70 final size:70
Alignment explanation
Indices: 5982471--5982610 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
5982461 CACTACTACT
* *
5982471 GTCCAAAACAGTTTTAATGCTAGTTTCACTCTTTCACACATTCTTTGTACTAACCTCATTTTAAC
1 GTCCAAAACAGTTTTAATGCTAATTTCACTCTTTCACACATTCTTTGTACTAACATCATTTTAAC
5982536 TTATA
66 TTATA
*
5982541 GTCCAAAATAGTTTTAATGCTAATTTCACTCTTTCACACATTCTTTGTACTAACATCATTTTAAC
1 GTCCAAAACAGTTTTAATGCTAATTTCACTCTTTCACACATTCTTTGTACTAACATCATTTTAAC
5982606 TTATA
66 TTATA
5982611 TATATATATC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (70 bp):
GTCCAAAACAGTTTTAATGCTAATTTCACTCTTTCACACATTCTTTGTACTAACATCATTTTAAC
TTATA
Found at i:5992466 original size:24 final size:24
Alignment explanation
Indices: 5992439--5992484 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5992429 TTAAGGAATG
*
5992439 GATTATGGAGAAAATCAAGGAGAA
1 GATTAGGGAGAAAATCAAGGAGAA
* *
5992463 GATTAGGGAGGAAATCATGGAG
1 GATTAGGGAGAAAATCAAGGAG
5992485 GGATTTAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.35, T:0.17
Consensus pattern (24 bp):
GATTAGGGAGAAAATCAAGGAGAA
Found at i:6012330 original size:25 final size:25
Alignment explanation
Indices: 6012302--6012371 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
6012292 CTCTTTTAAT
*
6012302 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
6012327 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
6012352 AACTGGGGCATAGCCGTTTT
1 AACTGGGGCAAAGCCCTTTT
6012372 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:6012423 original size:16 final size:16
Alignment explanation
Indices: 6012402--6012432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6012392 AACCCAACCC
*
6012402 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
6012418 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
6012433 CCCATAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:6013329 original size:27 final size:27
Alignment explanation
Indices: 6013299--6013384 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
6013289 GTAAATCTAC
6013299 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
6013326 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
6013352 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
6013382 AAA
1 AAA
6013385 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 7 0.14
29 18 0.37
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:6013402 original size:27 final size:27
Alignment explanation
Indices: 6013362--6013545 Score: 176
Period size: 27 Copynumber: 6.8 Consensus size: 27
6013352 AGAAAGTCAA
** *
6013362 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
6013389 GGGTATTTTGGTAATTTTAC-AACTTG
1 GGGTATTTTGGTAATTTTACAAACTAG
*** * *
6013415 AGGGTATTTCATTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
6013443 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
6013470 GAGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
6013497 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
**
6013524 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
6013546 TCGAGGGTAA
Statistics
Matches: 126, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
26 6 0.05
27 113 0.90
28 7 0.06
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:6013538 original size:81 final size:81
Alignment explanation
Indices: 6013362--6013545 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
6013352 AGAAAGTCAA
* ** * * * *
6013362 GGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAACTTGAGGGTATTTCAT
1 GGGTATTTCAGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAG
6013427 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* ** **
6013443 TGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCA
**
6013507 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
6013524 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTCAGTAATTTTACAA
6013546 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
80 3 0.04
81 74 0.88
82 7 0.08
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:6013609 original size:27 final size:27
Alignment explanation
Indices: 6013544--6013635 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
6013534 GTAATTTTAC
6013544 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACAATAATTTTGTA
** ***
6013571 AA-CTGAAAGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACAATAATTTTGTA
* *
6013598 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAATAATTTTGTA
*
6013625 AATCGAAGGTA
1 AATCGAGGGTA
6013636 CTTTGGTAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAATAATTTTGTA
Found at i:6014953 original size:45 final size:46
Alignment explanation
Indices: 6014917--6015004 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
6014907 CTAGGATATT
*
6014917 TGAATTCC-AAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATG
1 TGAATGCCTAAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATG
* * * *
6014962 TGAATGCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TGAATGCCTAAACTCGTTGAGTTAAGTCCGAGTTCACTTATGG
6015005 GCAGTTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 7 0.19
46 30 0.81
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (46 bp):
TGAATGCCTAAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATG
Found at i:6016586 original size:38 final size:39
Alignment explanation
Indices: 6016535--6016608 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 39
6016525 ACCAGCTCTG
6016535 GCTGAAGGGGCGGTGCCAACTG-AAAATCCACCTCCCCT
1 GCTGAAGGGGCGGTGCCAACTGAAAAATCCACCTCCCCT
** *
6016573 GCTGAAGGGGCGGTGCTGACTGAAAAATCGACCTCC
1 GCTGAAGGGGCGGTGCCAACTGAAAAATCCACCTCC
6016609 TAGTCTTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 20 0.62
39 12 0.38
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (39 bp):
GCTGAAGGGGCGGTGCCAACTGAAAAATCCACCTCCCCT
Found at i:6026350 original size:42 final size:43
Alignment explanation
Indices: 6026276--6026360 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
6026266 GAGATATGCG
*
6026276 GCATCCGAGCTTGTTGAGTGGTCCGAGATCATTATGGATGTGA
1 GCATCCGAGCTTGTTGAGTGGTCCGAGATCATTATAGATGTGA
* ** * *
6026319 GCATCCGGGC-TGTTGAGTGGTTTGAGTTCATTGTAGATGTGA
1 GCATCCGAGCTTGTTGAGTGGTCCGAGATCATTATAGATGTGA
6026361 TGCCTGTGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.19, C:0.14, G:0.34, T:0.33
Consensus pattern (43 bp):
GCATCCGAGCTTGTTGAGTGGTCCGAGATCATTATAGATGTGA
Found at i:6030411 original size:15 final size:15
Alignment explanation
Indices: 6030393--6030433 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
6030383 TTATATATTT
6030393 TGGATTTCTTTGTCA
1 TGGATTTCTTTGTCA
* *
6030408 TGGATTTTTTTTGTCT
1 TGGA-TTTCTTTGTCA
6030424 TGGATTTCTT
1 TGGATTTCTT
6030434 ATTTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (15 bp):
TGGATTTCTTTGTCA
Found at i:6033031 original size:46 final size:46
Alignment explanation
Indices: 6032964--6033138 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
6032954 TGTAACCCGC
6032964 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* * *
6033010 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* *
6033060 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
6033103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
6033139 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 60 0.55
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:6033083 original size:93 final size:93
Alignment explanation
Indices: 6032971--6033142 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
6032961 CGCCCATAAG
*
6032971 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCG
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
6033036 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
6033064 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
6033129 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
6033143 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:6033674 original size:77 final size:77
Alignment explanation
Indices: 6033547--6033699 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
6033537 TATCAAATTA
* *
6033547 ATCCTTAACTCAAATTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATTTTCATTTTT
1 ATCCTTAACTAAAACTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATTTTCATTTTT
6033612 GCCCCTAGGCTC
66 GCCCCTAGGCTC
6033624 ATCCTTAACTAAAACTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATTTTCATTTTT
1 ATCCTTAACTAAAACTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATTTTCATTTTT
*
6033689 GCCCCTGGGCT
66 GCCCCTAGGCT
6033700 TGGGATTAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.40
Consensus pattern (77 bp):
ATCCTTAACTAAAACTTTGGCAAAATTACAATTTTACCCCTAAACTTTTGCATATTTTCATTTTT
GCCCCTAGGCTC
Found at i:6045242 original size:46 final size:46
Alignment explanation
Indices: 6045192--6045449 Score: 516
Period size: 46 Copynumber: 5.6 Consensus size: 46
6045182 AGCATCCAAA
6045192 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
6045238 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
6045284 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
6045330 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
6045376 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
6045422 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
6045450 GGGACGGGTT
Statistics
Matches: 212, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 212 1.00
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
Found at i:6059209 original size:17 final size:18
Alignment explanation
Indices: 6059175--6059216 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6059165 GCCTATTTAA
6059175 ACAAGCCCATAGGCCCAC
1 ACAAGCCCATAGGCCCAC
* *
6059193 ACAA-CCCATTGGTCCAC
1 ACAAGCCCATAGGCCCAC
6059210 -CAAGCCC
1 ACAAGCCC
6059217 GATTTTGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 14 0.67
18 4 0.19
ACGTcount: A:0.31, C:0.45, G:0.14, T:0.10
Consensus pattern (18 bp):
ACAAGCCCATAGGCCCAC
Found at i:6069317 original size:39 final size:39
Alignment explanation
Indices: 6069200--6070163 Score: 1733
Period size: 39 Copynumber: 24.6 Consensus size: 39
6069190 GCTCCTCGTT
* *
6069200 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
6069240 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
6069280 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069319 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069358 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069397 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069436 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069475 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069514 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069553 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069592 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069631 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069670 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069709 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069748 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069787 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069826 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069865 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069904 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069943 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6069982 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6070021 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
6070060 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
6070099 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
6070140 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
6070164 CATCATTCAA
Statistics
Matches: 906, Mismatches: 11, Indels: 15
0.97 0.01 0.02
Matches are distributed among these distances:
39 834 0.92
40 61 0.07
41 11 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:6080761 original size:33 final size:33
Alignment explanation
Indices: 6080711--6080792 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
6080701 TAGATTATGA
* * *
6080711 TGTGGTGGTGTGGTGGTGCTAAGGTGGTTGAA-
1 TGTGGTGATGTGGTGGTGCTAAGATAGTTGAAT
* *
6080743 TGATGGTGATGTGTTGGTGGTAAGATAGTTGAAT
1 TG-TGGTGATGTGGTGGTGCTAAGATAGTTGAAT
*
6080777 TGTGGTGATATGGTGG
1 TGTGGTGATGTGGTGG
6080793 ATTTTGGGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 2 0.05
33 37 0.90
34 2 0.05
ACGTcount: A:0.17, C:0.01, G:0.45, T:0.37
Consensus pattern (33 bp):
TGTGGTGATGTGGTGGTGCTAAGATAGTTGAAT
Found at i:6085797 original size:48 final size:48
Alignment explanation
Indices: 6085726--6085831 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
6085716 AGATAAATAT
* * *
6085726 ATATATATGTGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
*
6085774 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
*
6085822 ATGTGTATAT
1 ATATGTATAT
6085832 ATTGTGGCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
Found at i:6086023 original size:37 final size:37
Alignment explanation
Indices: 6085964--6086035 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
6085954 GAAATATATT
* *
6085964 CCGGGTAAGACCTGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
6086001 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
6086036 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:6090890 original size:40 final size:40
Alignment explanation
Indices: 6090846--6091037 Score: 249
Period size: 40 Copynumber: 4.8 Consensus size: 40
6090836 CCAGCATGAT
* * * * *
6090846 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
6090886 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
6090926 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
6090966 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
6091006 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
6091038 CTCAATTCTC
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:6092299 original size:37 final size:37
Alignment explanation
Indices: 6092238--6092316 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
6092228 TTATTACGAA
* * *
6092238 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
*
6092275 GTCTTACCCAGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
6092312 GTCTT
1 GTCTT
6092317 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:6092636 original size:48 final size:48
Alignment explanation
Indices: 6092578--6092670 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
6092568 ATATACACAC
* *
6092578 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
6092626 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCGCATATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
6092671 TGCATTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
Found at i:6092716 original size:47 final size:47
Alignment explanation
Indices: 6092648--6092770 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
6092638 TTTCACACTA
* * * * * * *
6092648 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATACACTTTCACATTCACCACATCG
*
6092695 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTCGGCCTTATCACATATATACACTTTCACATTCACCACATCG
*
6092742 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTCGGCCTTATCACATATATACACT
6092771 GTCTTGGCTG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATACACTTTCACATTCACCACATCG
Found at i:6096420 original size:40 final size:40
Alignment explanation
Indices: 6096363--6096585 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
6096353 CCAGCATGAT
* * *
6096363 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
6096403 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
6096443 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
6096483 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * **
6096524 TGC-CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
6096564 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
6096586 CATCATTCGA
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 132 0.86
41 19 0.12
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:6096571 original size:120 final size:120
Alignment explanation
Indices: 6096355--6096585 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 120
6096345 ACACGCCACC
* * * *
6096355 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
* *
6096420 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
66 CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * * *
6096475 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTA
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGAACTTA
* * **
6096539 GTCTGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
65 GCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
6096586 CATCATTCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
120 68 0.72
121 21 0.22
122 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:6096932 original size:29 final size:29
Alignment explanation
Indices: 6096893--6096971 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
6096883 CTTAATAATC
*
6096893 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
6096923 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
6096952 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6096972 ATNNNNNNNN
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:6105393 original size:18 final size:18
Alignment explanation
Indices: 6105362--6105398 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6105352 AATGAGTTAA
6105362 TATTTAGTTCATTCGAAT
1 TATTTAGTTCATTCGAAT
6105380 TATTTGAGTT-ATTCGAAT
1 TATTT-AGTTCATTCGAAT
6105398 T
1 T
6105399 CAAAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTTAGTTCATTCGAAT
Found at i:6106362 original size:143 final size:143
Alignment explanation
Indices: 6106104--6106362 Score: 421
Period size: 143 Copynumber: 1.8 Consensus size: 143
6106094 TTCAACGAAC
* * **
6106104 ACATCTTATAAATAGTGACAGATAACGTTCTACTCCAACGAAAACATCGTGGCCTAGAACAATGC
1 ACATCTTATAAATAGTGACAGATAACATTCAACTCCAACGAAAACATCGTCACCTAGAACAATGC
*
6106169 AATTACTTTTTCAACTTCTTAAGCTCTGATTTTCTCATATGTTGTTTTTGTATTTACTCTAACCT
66 AATTACTTTTTCAACTTCTTAAGCTCTAATTTTCTCATATGTTGTTTTTGTATTTACTCTAACCT
6106234 TCTTTCATGTTGT
131 TCTTTCATGTTGT
* * * *
6106247 ACATCTTGTAAATAGTGACGGATAGCATTCAACTCCAACGAAAACATCGTCACCTAGAATAATGC
1 ACATCTTATAAATAGTGACAGATAACATTCAACTCCAACGAAAACATCGTCACCTAGAACAATGC
6106312 AATTACTTTTTCAACTTCTTAAGCT-TCAATTTTCTCATATGTTGTTTTTGT
66 AATTACTTTTTCAACTTCTTAAGCTCT-AATTTTCTCATATGTTGTTTTTGT
6106363 GTAAAACTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
142 1 0.01
143 105 0.99
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (143 bp):
ACATCTTATAAATAGTGACAGATAACATTCAACTCCAACGAAAACATCGTCACCTAGAACAATGC
AATTACTTTTTCAACTTCTTAAGCTCTAATTTTCTCATATGTTGTTTTTGTATTTACTCTAACCT
TCTTTCATGTTGT
Found at i:6108334 original size:20 final size:20
Alignment explanation
Indices: 6108311--6108375 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
6108301 TACCAATAAG
*
6108311 TCTAACGATTTATCAAAATT
1 TCTAACGATTTATCAAAATA
**
6108331 TCTAAATATTTATCAAAATA
1 TCTAACGATTTATCAAAATA
* * *
6108351 TCTAACGGTTTACCAATATA
1 TCTAACGATTTATCAAAATA
6108371 TCTAA
1 TCTAA
6108376 TAATTTACAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
TCTAACGATTTATCAAAATA
Found at i:6108355 original size:40 final size:40
Alignment explanation
Indices: 6108311--6108401 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
6108301 TACCAATAAG
* *
6108311 TCTAACGATTTATCAAAATTTCTAA-ATATTTATCAAA-ATA
1 TCTAACGATTTACCAAAATATCTAATA-ATTTA-CAAATATA
* * *
6108351 TCTAACGGTTTACCAATATATCTAATAATTTACAAATATT
1 TCTAACGATTTACCAAAATATCTAATAATTTACAAATATA
*
6108391 TCTAATGATTT
1 TCTAACGATTT
6108402 CTTTTTACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.10
40 37 0.88
41 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (40 bp):
TCTAACGATTTACCAAAATATCTAATAATTTACAAATATA
Found at i:6108382 original size:20 final size:20
Alignment explanation
Indices: 6108359--6108401 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6108349 TATCTAACGG
*
6108359 TTTACCAATATATCTAATAA
1 TTTACAAATATATCTAATAA
* *
6108379 TTTACAAATATTTCTAATGA
1 TTTACAAATATATCTAATAA
6108399 TTT
1 TTT
6108402 CTTTTTACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTACAAATATATCTAATAA
Found at i:6108537 original size:20 final size:21
Alignment explanation
Indices: 6108492--6108540 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6108482 GTCTTAACAA
*
6108492 TTACCAAAATTTTGAAGGATT
1 TTACCAATATTTTGAAGGATT
6108513 TTACCAATATTTAT-AAGGA-T
1 TTACCAATATTT-TGAAGGATT
6108533 TTACCAAT
1 TTACCAAT
6108541 GAATCTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 16 0.62
22 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
TTACCAATATTTTGAAGGATT
Found at i:6108647 original size:20 final size:20
Alignment explanation
Indices: 6108624--6108727 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
6108614 TTTCTAAGAA
*
6108624 TTTACTAAAATATTTAACGT
1 TTTACTAATATATTTAACGT
* * * *
6108644 TTTACCAATATTTTTAAGGA
1 TTTACTAATATATTTAACGT
* *
6108664 TTTA-TCAATATATCTAACAT
1 TTTACT-AATATATTTAACGT
* * *
6108684 TTTACTAATATTTTTAAGGA
1 TTTACTAATATATTTAACGT
* *
6108704 TTTACCAATATATCTAACGT
1 TTTACTAATATATTTAACGT
6108724 TTTA
1 TTTA
6108728 TCAGAATTTT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 60 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.46
Consensus pattern (20 bp):
TTTACTAATATATTTAACGT
Found at i:6108651 original size:40 final size:40
Alignment explanation
Indices: 6108607--6108777 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 40
6108597 CAAATGATTA
* * *
6108607 ACCAAAATTTCTAAGAATTTACT-AAAATATTTAACGTTTT
1 ACCAAAATTTTTAAGGATTTA-TAAAAATATCTAACGTTTT
* * * *
6108647 ACCAATATTTTTAAGGATTTATCAATATATCTAACATTTT
1 ACCAAAATTTTTAAGGATTTATAAAAATATCTAACGTTTT
* * ** *
6108687 ACTAATATTTTTAAGGATTTACCAATATATCTAACGTTTT
1 ACCAAAATTTTTAAGGATTTATAAAAATATCTAACGTTTT
* * * *
6108727 ATCAGAATTTTTAAGGATTTATAAAAAATATCTAATGATTT
1 ACCAAAATTTTTAAGGATTTAT-AAAAATATCTAACGTTTT
*
6108768 ATCAAAATTT
1 ACCAAAATTT
6108778 CTATTGTTTT
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 86 0.78
41 23 0.21
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (40 bp):
ACCAAAATTTTTAAGGATTTATAAAAATATCTAACGTTTT
Found at i:6108780 original size:20 final size:20
Alignment explanation
Indices: 6108609--6108780 Score: 82
Period size: 20 Copynumber: 8.6 Consensus size: 20
6108599 AATGATTAAC
*
6108609 CAAAATTTCTAAGAATTTA-
1 CAAAATTTCTAAGGATTTAT
* * *
6108628 CTAAAATATT-TAACGTTTTAC
1 C-AAAAT-TTCTAAGGATTTAT
* *
6108649 CAATATTTTTAAGGATTTAT
1 CAAAATTTCTAAGGATTTAT
* * *
6108669 CAATATATCTAA-CATTT-T
1 CAAAATTTCTAAGGATTTAT
* * *
6108687 ACTAATATTTTTAAGGATTTAC
1 -C-AAAATTTCTAAGGATTTAT
* * * *
6108709 CAATATATCTAACGTTTTAT
1 CAAAATTTCTAAGGATTTAT
* *
6108729 CAGAATTTTTAAGGATTTAT
1 CAAAATTTCTAAGGATTTAT
* * *
6108749 AAAAAATATCTAATGATTTAT
1 -CAAAATTTCTAAGGATTTAT
6108770 CAAAATTTCTA
1 CAAAATTTCTA
6108781 TTGTTTTGCC
Statistics
Matches: 112, Mismatches: 32, Indels: 17
0.70 0.20 0.11
Matches are distributed among these distances:
18 1 0.01
19 8 0.07
20 80 0.71
21 23 0.21
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.43
Consensus pattern (20 bp):
CAAAATTTCTAAGGATTTAT
Found at i:6108812 original size:20 final size:20
Alignment explanation
Indices: 6108789--6108837 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
6108779 TATTGTTTTG
*
6108789 CCAATATTTATGAGAATTTA
1 CCAATATTTATAAGAATTTA
* * *
6108809 CCAAAATTTCTAAGATTTTA
1 CCAATATTTATAAGAATTTA
*
6108829 CTAATATTT
1 CCAATATTT
6108838 TCAAAATTTC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (20 bp):
CCAATATTTATAAGAATTTA
Found at i:6108900 original size:20 final size:20
Alignment explanation
Indices: 6108872--6109096 Score: 124
Period size: 20 Copynumber: 11.3 Consensus size: 20
6108862 GTGTTAACAA
*
6108872 TTACAAAAATTTCTAAAGAT
1 TTACCAAAATTTCTAAAGAT
* *
6108892 TTACTAAAATATT-TAACGAT
1 TTACCAAAAT-TTCTAAAGAT
* * *
6108912 TTACCAATATTTCTAAGGGT
1 TTACCAAAATTTCTAAAGAT
* * *
6108932 TTA-CAAATAATACTAACGAT
1 TTACCAAA-ATTTCTAAAGAT
*
6108952 TTACCAATATTTCT--A-AT
1 TTACCAAAATTTCTAAAGAT
** *
6108969 TT-CACAAACAAATCTAACGAT
1 TTAC-CAAA-ATTTCTAAAGAT
* *
6108990 TTACTAAAATTTCTAAAAAT
1 TTACCAAAATTTCTAAAGAT
* * * *
6109010 TTACCAATATTTATAAGGGT
1 TTACCAAAATTTCTAAAGAT
6109030 TTACCAAAATGTTC-AAAGAT
1 TTACCAAAAT-TTCTAAAGAT
* *
6109050 TTACCAATAA-ATCTAATGAT
1 TTACCAA-AATTTCTAAAGAT
* * *
6109070 TTATCAAAATTTCTACAGTT
1 TTACCAAAATTTCTAAAGAT
6109090 TTACCAA
1 TTACCAA
6109097 TACTTATTAG
Statistics
Matches: 149, Mismatches: 42, Indels: 28
0.68 0.19 0.13
Matches are distributed among these distances:
16 1 0.01
17 7 0.05
18 4 0.03
19 9 0.06
20 111 0.74
21 16 0.11
22 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (20 bp):
TTACCAAAATTTCTAAAGAT
Found at i:6108976 original size:38 final size:38
Alignment explanation
Indices: 6108905--6109005 Score: 125
Period size: 38 Copynumber: 2.6 Consensus size: 38
6108895 CTAAAATATT
*
6108905 TAACGATTTACCAATATTTCTAAGGGTTTACAAA-TAATAC
1 TAACGATTTACCAATATTTCTAA--GTTTACAAACAAAT-C
6108945 TAACGATTTACCAATATTTCTAA-TTTCACAAACAAATC
1 TAACGATTTACCAATATTTCTAAGTTT-ACAAACAAATC
* *
6108983 TAACGATTTACTAAAATTTCTAA
1 TAACGATTTACCAATATTTCTAA
6109006 AAATTTACCA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
37 3 0.05
38 27 0.48
39 3 0.05
40 23 0.41
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (38 bp):
TAACGATTTACCAATATTTCTAAGTTTACAAACAAATC
Found at i:6109065 original size:98 final size:98
Alignment explanation
Indices: 6108883--6109066 Score: 246
Period size: 98 Copynumber: 1.9 Consensus size: 98
6108873 TACAAAAATT
** *
6108883 TCTAAAGATTTACTAAAATATTTAACGATTTACCAATATTTCTAAGGGTTTACAAATAATACTAA
1 TCTAAAGATTTACTAAAATATTTAAAAATTTACCAATATTTATAAGGGTTTACAAATAATACTAA
* **
6108948 CGATTTACCAATATTTCTAATTTCACAAACAAA
66 AGATTTACCAATAAATCTAATTTCACAAACAAA
* * **
6108981 TCTAACGATTTACTAAAAT-TTCTAAAAATTTACCAATATTTATAAGGGTTTACCAA-AATGTTC
1 TCTAAAGATTTACTAAAATATT-TAAAAATTTACCAATATTTATAAGGGTTTACAAATAATACT-
6109044 AAAGATTTACCAATAAATCTAAT
64 AAAGATTTACCAATAAATCTAAT
6109067 GATTTATCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 6 0.08
98 68 0.92
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (98 bp):
TCTAAAGATTTACTAAAATATTTAAAAATTTACCAATATTTATAAGGGTTTACAAATAATACTAA
AGATTTACCAATAAATCTAATTTCACAAACAAA
Found at i:6109097 original size:40 final size:40
Alignment explanation
Indices: 6108872--6109098 Score: 187
Period size: 40 Copynumber: 5.7 Consensus size: 40
6108862 GTGTTAACAA
* * *
6108872 TTACAAAAATTTCTAAAGATTTACTAA-AATATTTAACGAT
1 TTACCAAAATTTCTAAAGATTTACCAATAA-ATCTAACGAT
* * * *
6108912 TTACCAATATTTCTAAGGGTTTACAAAT-AATACTAACGAT
1 TTACCAAAATTTCTAAAGATTTACCAATAAAT-CTAACGAT
* * *
6108952 TTACCAATATTTCT--A-ATTTCACAAACAAATCTAACGAT
1 TTACCAAAATTTCTAAAGATTT-ACCAATAAATCTAACGAT
* * ** * * *
6108990 TTACTAAAATTTCTAAAAATTTACCAATATTTATAAGGGT
1 TTACCAAAATTTCTAAAGATTTACCAATAAATCTAACGAT
*
6109030 TTACCAAAATGTTC-AAAGATTTACCAATAAATCTAATGAT
1 TTACCAAAAT-TTCTAAAGATTTACCAATAAATCTAACGAT
* * *
6109070 TTATCAAAATTTCTACAGTTTTACCAATA
1 TTACCAAAATTTCTAAAGATTTACCAATA
6109099 CTTATTAGAG
Statistics
Matches: 150, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
37 3 0.02
38 25 0.17
39 8 0.05
40 107 0.71
41 7 0.05
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (40 bp):
TTACCAAAATTTCTAAAGATTTACCAATAAATCTAACGAT
Found at i:6109245 original size:20 final size:20
Alignment explanation
Indices: 6109193--6109245 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
6109183 ATTTTTTTAC
**
6109193 TTTACCAAAACATATAAAAA
1 TTTACCAAAATTTATAAAAA
* * * *
6109213 TTTACTAATATTTCTAAAGA
1 TTTACCAAAATTTATAAAAA
6109233 TTTACCAAAATTT
1 TTTACCAAAATTT
6109246 TTAAGAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTACCAAAATTTATAAAAA
Found at i:6109788 original size:14 final size:14
Alignment explanation
Indices: 6109769--6109800 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6109759 TCAAATCACC
6109769 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
6109783 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
6109797 GGGC
1 GGGC
6109801 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:6114901 original size:14 final size:14
Alignment explanation
Indices: 6114882--6114913 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6114872 TCAAATCACC
6114882 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
6114896 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
6114910 GGGC
1 GGGC
6114914 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:6116161 original size:200 final size:200
Alignment explanation
Indices: 6115813--6116212 Score: 764
Period size: 200 Copynumber: 2.0 Consensus size: 200
6115803 GTGGATGCAT
* *
6115813 GCTCTTGGAGAAGTTCAAATCTGAGCCCATTGACTTGAACAACTCCGTCCAAAACCGACCAGTAA
1 GCTCGTGGAGAAGTTCAAATATGAGCCCATTGACTTGAACAACTCCGTCCAAAACCGACCAGTAA
6115878 ATTGACCATCTCGATCGCTGATAATAGATAGTGGCACTCCCCAATATTTCACCACGTGTCTAAGG
66 ATTGACCATCTCGATCGCTGATAATAGATAGTGGCACTCCCCAATATTTCACCACGTGTCTAAGG
6115943 AATAACCGAGCTGCTTCCTCAGCAGGGCACTCTTTGGTCGCCGGAATAAAAGTCGCATACTTTGA
131 AATAACCGAGCTGCTTCCTCAGCAGGGCACTCTTTGGTCGCCGGAATAAAAGTCGCATACTTTGA
6116008 AAACC
196 AAACC
*
6116013 GCTCGTGGAGAAGTTCAAATATGAGCCCATTGACTTGAACAACTCCGTCCAGAACCGACCAGTAA
1 GCTCGTGGAGAAGTTCAAATATGAGCCCATTGACTTGAACAACTCCGTCCAAAACCGACCAGTAA
*
6116078 ATTGACCATCTCGATCGTTGATAATAGATAGTGGCACTCCCCAATATTTCACCACGTGTCTAAGG
66 ATTGACCATCTCGATCGCTGATAATAGATAGTGGCACTCCCCAATATTTCACCACGTGTCTAAGG
6116143 AATAACCGAGCTGCTTCCTCAGCAGGGCACTCTTTGGTCGCCGGAATAAAAGTCGCATACTTTGA
131 AATAACCGAGCTGCTTCCTCAGCAGGGCACTCTTTGGTCGCCGGAATAAAAGTCGCATACTTTGA
6116208 AAACC
196 AAACC
6116213 TGTCCACCAC
Statistics
Matches: 196, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (200 bp):
GCTCGTGGAGAAGTTCAAATATGAGCCCATTGACTTGAACAACTCCGTCCAAAACCGACCAGTAA
ATTGACCATCTCGATCGCTGATAATAGATAGTGGCACTCCCCAATATTTCACCACGTGTCTAAGG
AATAACCGAGCTGCTTCCTCAGCAGGGCACTCTTTGGTCGCCGGAATAAAAGTCGCATACTTTGA
AAACC
Found at i:6116739 original size:42 final size:42
Alignment explanation
Indices: 6116692--6116771 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
6116682 GATTGCTGCG
6116692 AATTCCATCTTTCGACTAAGTGCATCAGCAACATTGTTTGCA
1 AATTCCATCTTTCGACTAAGTGCATCAGCAACATTGTTTGCA
6116734 AATTCCATCTTTCGACTAAGTGCATCAGCAACATTGTT
1 AATTCCATCTTTCGACTAAGTGCATCAGCAACATTGTT
6116772 GGCACTTCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (42 bp):
AATTCCATCTTTCGACTAAGTGCATCAGCAACATTGTTTGCA
Found at i:6119732 original size:14 final size:14
Alignment explanation
Indices: 6119709--6119740 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6119699 TCCAATCACC
6119709 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
*
6119723 GGGCCTGTTTGGTT
1 GGGCCAGTTTGGTT
6119737 GGGC
1 GGGC
6119741 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.47, T:0.34
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:6120372 original size:65 final size:65
Alignment explanation
Indices: 6120267--6120396 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 65
6120257 TTTTATAGTG
* *
6120267 ATTTCAAAGCTAGCTTGGATTCGGAGATAGTCAGAAACTTCATCACACTATCAAGCTATCATTTT
1 ATTTCAAAGCTAGCTCGAATTCGGAGATAGTCAGAAACTTCATCACACTATCAAGCTATCATTTT
* *
6120332 ATTTCAAAGCTAGCTCGAATTCGGAGATAGTCGGAGACTTCATCACACTATCAAGCTATCATTTT
1 ATTTCAAAGCTAGCTCGAATTCGGAGATAGTCAGAAACTTCATCACACTATCAAGCTATCATTTT
6120397 CATACTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (65 bp):
ATTTCAAAGCTAGCTCGAATTCGGAGATAGTCAGAAACTTCATCACACTATCAAGCTATCATTTT
Found at i:6124012 original size:16 final size:16
Alignment explanation
Indices: 6123991--6124034 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
6123981 AATGAACCGG
6123991 AAAAAGCCGAAATGCT
1 AAAAAGCCGAAATGCT
* *
6124007 AAAAAGTCAAAATGCT
1 AAAAAGCCGAAATGCT
*
6124023 GAAAAGCCGAAA
1 AAAAAGCCGAAA
6124035 CTTGGGCTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (16 bp):
AAAAAGCCGAAATGCT
Found at i:6124285 original size:29 final size:27
Alignment explanation
Indices: 6124253--6124355 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 27
6124243 ATATGATTTG
6124253 GGCCTAATGGGCCATATGAATGAGAATT
1 GGCCTAATGGGCCATATGAAT-AGAATT
* * *
6124281 AGGCCTAGTGGGCCATAAGAATATGAACT
1 -GGCCTAATGGGCCATATGAATA-GAATT
* * *
6124310 GGGCAAGATGGGCCATTTGAATA-AGATT
1 GGCCTA-ATGGGCCATATGAATAGA-ATT
*
6124338 GGGCCTAGTGGGCCATAT
1 -GGCCTAATGGGCCATAT
6124356 ACATGTATGT
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
27 1 0.02
28 16 0.28
29 40 0.70
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (27 bp):
GGCCTAATGGGCCATATGAATAGAATT
Found at i:6141212 original size:22 final size:22
Alignment explanation
Indices: 6141174--6141221 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
6141164 AGAAATTAAG
6141174 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
6141197 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
6141219 TAG
1 TAG
6141222 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:6141559 original size:28 final size:28
Alignment explanation
Indices: 6141490--6141566 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
6141480 ATTACGGAAT
6141490 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * *
6141517 T-AAGTATTGATATTGAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
6141545 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
6141567 TCGTAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:6156496 original size:42 final size:42
Alignment explanation
Indices: 6156437--6156518 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
6156427 TCTTTAAGGT
6156437 GCAACTCAAAGAGTTACACGACATGGCACACGGGCATGTGGG
1 GCAACTCAAAGAGTTACACGACATGGCACACGGGCATGTGGG
6156479 GCAACTCAAAGAGTTACACGACATGGCACACGGGCATGTG
1 GCAACTCAAAGAGTTACACGACATGGCACACGGGCATGTG
6156519 ACACGACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (42 bp):
GCAACTCAAAGAGTTACACGACATGGCACACGGGCATGTGGG
Found at i:6165378 original size:40 final size:40
Alignment explanation
Indices: 6165319--6165506 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
6165309 GAGCATTGGA
* *
6165319 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
6165359 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
6165399 ATATATCCGGGCCAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
6165439 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
6165479 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
6165507 ATGTGTTTGC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:6166978 original size:47 final size:47
Alignment explanation
Indices: 6166909--6167003 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6166899 GGTGTGCTAG
6166909 CTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGCAA
1 CTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGCAA
6166956 CTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGCAA
1 CTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGCAA
6167003 C
1 C
6167004 ATAGGGAGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (47 bp):
CTCGATACTAGTCTCTGTACTACTACACAGTGAGTTTGATGTTGCAA
Found at i:6177213 original size:19 final size:20
Alignment explanation
Indices: 6177169--6177213 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6177159 CAAAAATGTC
* *
6177169 AAAATAATTTTCAAATATTC
1 AAAATAATTTTCAAAGATTA
*
6177189 AAAATAATTTT-TAAGATTA
1 AAAATAATTTTCAAAGATTA
6177208 AAAATA
1 AAAATA
6177214 TTTATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTCAAAGATTA
Found at i:6177265 original size:20 final size:20
Alignment explanation
Indices: 6177237--6177274 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6177227 AAAATTTATA
*
6177237 TTTTTAAAAAATTATAAAAC
1 TTTTAAAAAAATTATAAAAC
*
6177257 TTTTAAAAAAATTCTAAA
1 TTTTAAAAAAATTATAAA
6177275 GAATACATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAAATTATAAAAC
Found at i:6177305 original size:20 final size:21
Alignment explanation
Indices: 6177242--6177308 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
6177232 TTATATTTTT
*
6177242 AAAAAATTATAAAA-CTTTTA
1 AAAAAATTATAAAATCTTTAA
* *
6177262 AAAAAATTCTAAAGAATAC-ATAA
1 AAAAAATTAT-AA-AAT-CTTTAA
6177285 AAAAAATT-TAAAATCTTTAA
1 AAAAAATTATAAAATCTTTAA
6177305 AAAA
1 AAAA
6177309 GTTAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.03
20 19 0.50
21 4 0.11
22 3 0.08
23 10 0.26
24 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.28
Consensus pattern (21 bp):
AAAAAATTATAAAATCTTTAA
Found at i:6186706 original size:59 final size:59
Alignment explanation
Indices: 6186614--6186758 Score: 245
Period size: 59 Copynumber: 2.4 Consensus size: 59
6186604 ATTGATTTAT
*
6186614 TTTTGAATATTTTTGTACAAATTGTTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
* * *
6186673 TTTTGAATATTTTTGTACTAATTATTTTTATATTTTTTCATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
6186732 TTTTGAATATTTTTGTACAAATATATT
1 TTTTGAATATTTTTGTACAAAT-TATT
6186759 ACTGACGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 76 0.95
60 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:6188355 original size:7 final size:7
Alignment explanation
Indices: 6188345--6188383 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
6188335 AAATTAACTA
6188345 TTAAATT
1 TTAAATT
6188352 TTAAATT
1 TTAAATT
6188359 TTAAATT
1 TTAAATT
6188366 TTAAATT
1 TTAAATT
6188373 TTAAATT
1 TTAAATT
6188380 TTAA
1 TTAA
6188384 TTAATTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:6188362 original size:21 final size:21
Alignment explanation
Indices: 6188338--6188383 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6188328 GCGACTGAAA
*
6188338 TTAACTATTAAATTTTAAATT
1 TTAAATATTAAATTTTAAATT
*
6188359 TTAAATTTTAAATTTTAAATT
1 TTAAATATTAAATTTTAAATT
6188380 TTAA
1 TTAA
6188384 TTAATTATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAATATTAAATTTTAAATT
Found at i:6192736 original size:93 final size:93
Alignment explanation
Indices: 6192622--6192793 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
6192612 CGCCCATAAG
* * *
6192622 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
6192687 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
6192715 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
6192780 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
6192794 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:6192790 original size:46 final size:46
Alignment explanation
Indices: 6192623--6192790 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
6192613 GCCCATAAGC
* * *
6192623 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* * ** *
6192669 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCA-TAAAT
*
6192716 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
*
6192762 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
6192791 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 62 0.61
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
Found at i:6193246 original size:30 final size:30
Alignment explanation
Indices: 6193211--6193271 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6193201 TCCTTAACTC
6193211 AAATTTTGGCAAATTTACAATTTTACCCCT
1 AAATTTTGGCAAATTTACAATTTTACCCCT
* * * *
6193241 AAATTTTTGCATATTTACATTTTTGCCCCT
1 AAATTTTGGCAAATTTACAATTTTACCCCT
6193271 A
1 A
6193272 GGCTCGGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
AAATTTTGGCAAATTTACAATTTTACCCCT
Found at i:6194596 original size:25 final size:25
Alignment explanation
Indices: 6194568--6194651 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
6194558 AATTATAAAA
6194568 TAAAGAAAATTACAACACATGGAAG
1 TAAAGAAAATTACAACACATGGAAG
* * ** *
6194593 TAAAAAAGAACT-CATACACGAATTATAAAA
1 TAAAGAA-AATTACA-ACAC--A-T-GGAAG
6194623 TAAAGAAAATTACAACACATGGAAG
1 TAAAGAAAATTACAACACATGGAAG
6194648 TAAA
1 TAAA
6194652 AAAGAACTCA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 14 0.33
26 8 0.19
27 1 0.02
28 1 0.02
29 8 0.19
30 10 0.24
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (25 bp):
TAAAGAAAATTACAACACATGGAAG
Found at i:6194601 original size:28 final size:28
Alignment explanation
Indices: 6194569--6194657 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 28
6194559 ATTATAAAAT
6194569 AAAGAAAATTACAACACATGGAAGTAAA
1 AAAGAAAATTACAACACATGGAAGTAAA
* *
6194597 AAAG--AACT-CATACAC---GAATTATAAAA
1 AAAGAAAATTACA-ACACATGGAA--GT-AAA
6194623 TAAAGAAAATTACAACACATGGAAGTAAA
1 -AAAGAAAATTACAACACATGGAAGTAAA
6194652 AAAGAA
1 AAAGAA
6194658 CTCACCAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 22
0.64 0.06 0.31
Matches are distributed among these distances:
23 3 0.07
25 3 0.07
26 10 0.22
27 4 0.09
28 10 0.22
29 10 0.22
30 3 0.07
32 3 0.07
ACGTcount: A:0.61, C:0.11, G:0.12, T:0.16
Consensus pattern (28 bp):
AAAGAAAATTACAACACATGGAAGTAAA
Found at i:6194636 original size:55 final size:55
Alignment explanation
Indices: 6194552--6194661 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
6194542 TTACTTACCC
6194552 TACACAAATTATAAAATAAAGAAAATTACAACACATGGAAGTAAAAAAGAACTCA
1 TACACAAATTATAAAATAAAGAAAATTACAACACATGGAAGTAAAAAAGAACTCA
*
6194607 TACACGAATTATAAAATAAAGAAAATTACAACACATGGAAGTAAAAAAGAACTCA
1 TACACAAATTATAAAATAAAGAAAATTACAACACATGGAAGTAAAAAAGAACTCA
6194662 CCAGAAACTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (55 bp):
TACACAAATTATAAAATAAAGAAAATTACAACACATGGAAGTAAAAAAGAACTCA
Found at i:6196937 original size:20 final size:21
Alignment explanation
Indices: 6196908--6196949 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6196898 AGCACATGTA
6196908 TTCATAAAATTTCA-AACTTT
1 TTCATAAAATTTCACAACTTT
* *
6196928 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTCACAACTTT
6196949 T
1 T
6196950 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.48
Consensus pattern (21 bp):
TTCATAAAATTTCACAACTTT
Found at i:6200417 original size:19 final size:19
Alignment explanation
Indices: 6200380--6200418 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6200370 TCATATGTTC
*
6200380 ATATGATATGGAAAGATGA
1 ATATGATATAGAAAGATGA
6200399 ATATGCATATAGAAA-ATGA
1 ATATG-ATATAGAAAGATGA
6200418 A
1 A
6200419 AATGGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.26
Consensus pattern (19 bp):
ATATGATATAGAAAGATGA
Found at i:6212424 original size:65 final size:65
Alignment explanation
Indices: 6212229--6212411 Score: 348
Period size: 65 Copynumber: 2.8 Consensus size: 65
6212219 AATTTGAGAT
*
6212229 AGCGCAAGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATTTGGGAAAAGAC
1 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATTTGGGAAAAGAC
6212294 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATTTGGGAAAAGAC
1 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATTTGGGAAAAGAC
*
6212359 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGTCTATTAT
1 AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTAT
6212412 CCGAGAAAAG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 116 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (65 bp):
AGCGCAGGTGGCTTGAGTTATTGAAAGATTATGATTTGGTTATAGACTATTATTTGGGAAAAGAC
Found at i:6219135 original size:30 final size:30
Alignment explanation
Indices: 6219073--6219135 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
6219063 TCGAATATGT
*
6219073 ATTATGATACATAAATTTTGATTTGATACA
1 ATTATGATACATAAATTTTGATTTAATACA
*
6219103 ATTAT-ATACATAAACTTTT-ATTTTAATTCA
1 ATTATGATACATAAA-TTTTGA-TTTAATACA
6219133 ATT
1 ATT
6219136 CTACATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (30 bp):
ATTATGATACATAAATTTTGATTTAATACA
Found at i:6222656 original size:22 final size:22
Alignment explanation
Indices: 6222606--6222656 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
6222596 TCCTTTTCAT
* *
6222606 AATC-CAAGCTTAATTCCTATC
1 AATCTCAAGCCTAATTCCAATC
*
6222627 AATTTCAAGCCTAATT-CAATC
1 AATCTCAAGCCTAATTCCAATC
6222648 AAATCTCAA
1 -AATCTCAA
6222657 TCATGAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.31
Consensus pattern (22 bp):
AATCTCAAGCCTAATTCCAATC
Found at i:6226559 original size:30 final size:33
Alignment explanation
Indices: 6226523--6226588 Score: 111
Period size: 30 Copynumber: 2.1 Consensus size: 33
6226513 ATAGTTTATA
6226523 TTTTTATAATTTTTAG-AGGATT-AAAT-TAAT
1 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
6226553 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
1 TTTTTATAATTTTTAGAAGGATTAAAATATAAT
6226586 TTT
1 TTT
6226589 ATCATTACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 16 0.48
31 6 0.18
32 4 0.12
33 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (33 bp):
TTTTTATAATTTTTAGAAGGATTAAAATATAAT
Found at i:6228553 original size:22 final size:22
Alignment explanation
Indices: 6228528--6228569 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6228518 ATTTAAATTG
6228528 GTTACATTAATTATCAATTTTA
1 GTTACATTAATTATCAATTTTA
6228550 GTTACATTAATTATCAATTT
1 GTTACATTAATTATCAATTT
6228570 AGGTTCTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
GTTACATTAATTATCAATTTTA
Found at i:6229920 original size:14 final size:13
Alignment explanation
Indices: 6229888--6229942 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
6229878 TGTTACGAAA
6229888 TTAATTAATTAAT
1 TTAATTAATTAAT
* *
6229901 TAAATTGAATTGAT
1 TTAATT-AATTAAT
*
6229915 TTAATTATTTAAT
1 TTAATTAATTAAT
*
6229928 TT-ATT-TTTAAT
1 TTAATTAATTAAT
6229939 TTAA
1 TTAA
6229943 AAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 8 0.23
12 4 0.11
13 12 0.34
14 11 0.31
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:6232916 original size:15 final size:15
Alignment explanation
Indices: 6232898--6232926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6232888 AGTGTTTAGT
6232898 ATTAGGGTTTATGGA
1 ATTAGGGTTTATGGA
6232913 ATTAGGGTTTATGG
1 ATTAGGGTTTATGG
6232927 TTTTTTTTTT
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:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
ATTAGGGTTTATGGA
Found at i:6233610 original size:13 final size:13
Alignment explanation
Indices: 6233592--6233616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6233582 AAATGTTTTG
6233592 ATTTTTCGTGTTA
1 ATTTTTCGTGTTA
6233605 ATTTTTCGTGTT
1 ATTTTTCGTGTT
6233617 TCGAATTTCT
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:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTTTCGTGTTA
Found at i:6238074 original size:22 final size:23
Alignment explanation
Indices: 6238046--6238090 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6238036 TCCCAAAGTT
6238046 GTAAAA-TTTCTTCTAATTCAAA
1 GTAAAATTTTCTTCTAATTCAAA
6238068 GTAAAATTTTCTTCTAATTCAAA
1 GTAAAATTTTCTTCTAATTCAAA
6238091 TGCTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (23 bp):
GTAAAATTTTCTTCTAATTCAAA
Found at i:6239852 original size:16 final size:18
Alignment explanation
Indices: 6239831--6239868 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
6239821 ATTTGAATAT
*
6239831 TAATTTTAAT-ATATTA-
1 TAATTTAAATAATATTAC
6239847 TAATTTAAATAATATTAC
1 TAATTTAAATAATATTAC
6239865 TAAT
1 TAAT
6239869 AATTCTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTAAATAATATTAC
Found at i:6244669 original size:25 final size:24
Alignment explanation
Indices: 6244584--6244670 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
6244574 TTACATGTAT
*
6244584 GCTCTTACGAGCTATAATCGGTAA
1 GCTCTTACGAGCTAAAATCGGTAA
* * * *
6244608 GCTCCTCCGAGCTAACATACAGTAA
1 GCTCTTACGAGCTAAAAT-CGGTAA
* *
6244633 ACTCTTATGAGCTAAGAATCGGTAA
1 GCTCTTACGAGCTAA-AATCGGTAA
*
6244658 GCTCATACGAGCT
1 GCTCTTACGAGCT
6244671 GTAGTGAGTC
Statistics
Matches: 47, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
24 14 0.30
25 31 0.66
26 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (24 bp):
GCTCTTACGAGCTAAAATCGGTAA
Found at i:6245616 original size:31 final size:31
Alignment explanation
Indices: 6245575--6245973 Score: 717
Period size: 31 Copynumber: 12.8 Consensus size: 31
6245565 CTTGTCACTT
* * *
6245575 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
* * *
6245606 GCAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245637 GTAGTTCCGAAGCTACCACTTTTCACTGATTAG
1 GTAG--CCGAAGCTACCACTTTTCACTGATTAG
6245670 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245701 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245732 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245763 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245794 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245825 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245856 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245887 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
*
6245918 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
6245949 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
6245974 TGTCATTTGT
Statistics
Matches: 358, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
31 329 0.92
33 29 0.08
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATTAG
Found at i:6246050 original size:50 final size:50
Alignment explanation
Indices: 6245949--6246125 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
6245939 CACTGATCAG
* * * *
6245949 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
*
6246000 GTAACCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * **
6246050 GTAGCCGAAACTATCACTTATCACTTTCACTTGTTCTTGATCAGATAAAC
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
6246100 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
6246126 GTTGCCATGG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 92 0.80
51 23 0.20
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:6258661 original size:50 final size:50
Alignment explanation
Indices: 6258586--6258685 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
6258576 TATTGATTTC
6258586 GGCACTCTATGGAAGACGGCAAGGATAAGTGTTCGAGGAAAAAGCCCGTT
1 GGCACTCTATGGAAGACGGCAAGGATAAGTGTTCGAGGAAAAAGCCCGTT
6258636 GGCACTCTATGGAAGACGGCAAGGATAAGTGTTCGAGGAAAAAGCCCGTT
1 GGCACTCTATGGAAGACGGCAAGGATAAGTGTTCGAGGAAAAAGCCCGTT
6258686 TGAACCTTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (50 bp):
GGCACTCTATGGAAGACGGCAAGGATAAGTGTTCGAGGAAAAAGCCCGTT
Done.