Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 202 of 427
Found at i:56480743 original size:25 final size:25
Alignment explanation
Indices: 56480715--56480774 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
56480705 AAGCTCCTCC
*
56480715 GAGCTAAATAACGGTAAGCTCATAT
1 GAGCTAAATAACGGTAAGCTCATAA
** * *
56480740 GAGCTAAGCAATGGTAAGCTTATAA
1 GAGCTAAATAACGGTAAGCTCATAA
56480765 GAGCTGAAAT
1 GAGCT-AAAT
56480775 CGATAACCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCTAAATAACGGTAAGCTCATAA
Found at i:56494550 original size:39 final size:39
Alignment explanation
Indices: 56494466--56494618 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
56494456 TATGGTAACC
** * *
56494466 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56494506 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
56494545 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56494584 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
56494619 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56494592 original size:78 final size:79
Alignment explanation
Indices: 56494435--56494617 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
56494425 TCGTTCAAAC
* * **
56494435 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
56494500 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
56494515 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
56494579 CAATTTGCACAATT
66 CAATTTGCACAATT
56494593 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56494618 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:56500875 original size:27 final size:28
Alignment explanation
Indices: 56500845--56500914 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56500835 ATAATAAGTC
*
56500845 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56500872 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
56500900 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56500915 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56508796 original size:27 final size:28
Alignment explanation
Indices: 56508766--56508835 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56508756 ATAATAAGTC
*
56508766 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56508793 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
56508821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56508836 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56513664 original size:38 final size:39
Alignment explanation
Indices: 56513551--56513693 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
56513541 CCGCACAAAG
*
56513551 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
56513591 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
56513630 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
56513668 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
56513694 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:56513672 original size:77 final size:79
Alignment explanation
Indices: 56513511--56513692 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
56513501 TCGTTCAAAC
* * **
56513511 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
56513576 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
56513591 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
56513654 CAATTTGCACAATT
66 CAATTTGCACAATT
56513668 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56513693 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:56517604 original size:20 final size:21
Alignment explanation
Indices: 56517579--56517618 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56517569 GCTTTGGAGC
* *
56517579 AGGGC-ACATGCCTGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
56517599 AGGGCAACACGCCCGTGTAG
1 AGGGCAACACGCCCGTGTAG
56517619 TCATTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:56518812 original size:46 final size:46
Alignment explanation
Indices: 56518723--56518939 Score: 151
Period size: 46 Copynumber: 4.7 Consensus size: 46
56518713 GCATATCTGC
* * *
56518723 GCCGATGCCATGTCCCAGAAATGGTCTTACACAGAC--ACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTTATATCTCGTA
* *
56518769 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTATATCTCGTA
* * * * * * *
56518814 GGCTGATGCATGTCCTAGACATGTCTTACATTAACACT-TGTCTCAATA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TTATATCTC-GTA
* ** *
56518862 -CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCA-AAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-T-ATATCTCGTA
*
56518909 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
56518940 AGCTCACGCA
Statistics
Matches: 135, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 63 0.47
47 29 0.21
48 17 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTATATCTCGTA
Found at i:56528058 original size:41 final size:41
Alignment explanation
Indices: 56528001--56528085 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
56527991 CGTCGTTGGA
*
56528001 ATAGGACTACAAGGCATTACCTATCAATTACATTATACAAC
1 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
56528042 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
1 ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
56528083 ATA
1 ATA
56528086 CATTTATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (41 bp):
ATAGGACTACAAGGCATTACCGATCAATTACATTATACAAC
Found at i:56528601 original size:23 final size:23
Alignment explanation
Indices: 56528573--56528622 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
56528563 TTCATCTTCA
56528573 ACCATTT-CACTACTCAAATCAAT
1 ACCATTTGCAC-ACTCAAATCAAT
* *
56528596 ACCATTTGCACATTCAAATCCAT
1 ACCATTTGCACACTCAAATCAAT
56528619 ACCA
1 ACCA
56528623 ACTAGCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (23 bp):
ACCATTTGCACACTCAAATCAAT
Found at i:56529845 original size:43 final size:43
Alignment explanation
Indices: 56529742--56529849 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
56529732 TATCCTGGAT
* * * *
56529742 ATGGTCTTACATGTTATCACATATTGATGCCACTATCCCAGAC
1 ATGGTCTTACATGTAATCACATAATGATGCCAATATCCCAAAC
* ** *
56529785 ATGTTCTTACACATAATCA-A-AATGCAATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAATG--ATGCCAATATCCCAAAC
56529828 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
56529850 CTTGGTAATC
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 3 0.06
42 1 0.02
43 45 0.90
44 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAATGATGCCAATATCCCAAAC
Found at i:56531626 original size:67 final size:67
Alignment explanation
Indices: 56531547--56531681 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
56531537 AATAAGCATA
*
56531547 AATCTCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATATTATTCACCAA
1 AATCTCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACCAA
56531612 AT
66 AT
*
56531614 AATCTCAATGTCATCAAGTATCAAGGACTTATTCTAAATCATGTCATTTTCATAATATTCACCAA
1 AATCTCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACCAA
56531679 AT
66 AT
56531681 A
1 A
56531682 CTATATACAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (67 bp):
AATCTCAATGTCATCAAGTATCAAGGACTTATTCCAAATCATGTCATTTTCATAATATTCACCAA
AT
Found at i:56546497 original size:40 final size:40
Alignment explanation
Indices: 56546370--56546499 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
56546360 ATGCTGGAAT
* * *
56546370 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
56546410 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
56546450 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
56546490 TTATATCCGG
1 TTATATCCGG
56546500 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:56550330 original size:24 final size:24
Alignment explanation
Indices: 56550301--56550348 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56550291 ATGGATTTAA
56550301 TGAATTGGATCTTCAGACCATATT
1 TGAATTGGATCTTCAGACCATATT
56550325 TGAATTGGATCTTCAGACCATATT
1 TGAATTGGATCTTCAGACCATATT
56550349 ACCGACGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TGAATTGGATCTTCAGACCATATT
Found at i:56554172 original size:40 final size:40
Alignment explanation
Indices: 56554128--56554256 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
56554118 TGCTGGAATT
* * *
56554128 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
56554168 TATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
56554208 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
56554248 TATATCCGG
1 TATATCCGG
56554257 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:56557227 original size:17 final size:18
Alignment explanation
Indices: 56557202--56557235 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56557192 AAAGTCATTC
56557202 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
56557220 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
56557236 TTCTGCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:56557937 original size:201 final size:201
Alignment explanation
Indices: 56557585--56557960 Score: 590
Period size: 201 Copynumber: 1.9 Consensus size: 201
56557575 ATAGTTAGAA
* *
56557585 AACAGAACAATGTGTTTGGGCCAAAGCCCACTACAATTTCACTTGGGTCTCAGCCCTCATCAGAA
1 AACAAAACAATGTGTTTGGGCCAAAGCCCACTACAATTTCACTTGGGTCTCAGCCCTCATCAAAA
* * *
56557650 TCAATCGGGCCTAGCCCATTCTCAAAATCGGTAACAGTTGGGCCTAGTCCATTAACAAAATCAGG
66 TCAATCGGGCCTAGCCCATTCTCAAAATCAGAAACAGTTGGGCCTAGTCAATTAACAAAATCAGG
* **
56557715 TGGGCCTAAGCCCAGTACAGAATCAGTATCAGATGTAGATATGCAGACAGATAGCCGGAGCCCAT
131 TGGGCCTAAGCCCAATACAGAATCAGTATCAGATACAGATATGCAGACAGATAGCCGGAGCCCAT
56557780 TACAAT
196 TACAAT
** * * *
56557786 AACAAAACAATGTGTTTGGGGGAAAGCCCAGTACAGTTTCATTTGGGTCTCAGCCCTCATCAAAA
1 AACAAAACAATGTGTTTGGGCCAAAGCCCACTACAATTTCACTTGGGTCTCAGCCCTCATCAAAA
* * * * *
56557851 TCAATCGGGCCTAGGCCATTCTCTAAATCAGAAATAGTTGGTCCTAGTCAATTAACAGAATCAGG
66 TCAATCGGGCCTAGCCCATTCTCAAAATCAGAAACAGTTGGGCCTAGTCAATTAACAAAATCAGG
56557916 TGGGCCTAAGCCCAATACAGAATCAGTATCAGATACAGATATGCA
131 TGGGCCTAAGCCCAATACAGAATCAGTATCAGATACAGATATGCA
56557961 AACAAATAAC
Statistics
Matches: 157, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
201 157 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (201 bp):
AACAAAACAATGTGTTTGGGCCAAAGCCCACTACAATTTCACTTGGGTCTCAGCCCTCATCAAAA
TCAATCGGGCCTAGCCCATTCTCAAAATCAGAAACAGTTGGGCCTAGTCAATTAACAAAATCAGG
TGGGCCTAAGCCCAATACAGAATCAGTATCAGATACAGATATGCAGACAGATAGCCGGAGCCCAT
TACAAT
Found at i:56558135 original size:22 final size:22
Alignment explanation
Indices: 56558086--56558128 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56558076 AAGTCAACAA
* * *
56558086 GACAGCTCAACGCCGTAGATAG
1 GACAGCTCAACACCGTAAATAC
56558108 GACAGCTCAACACCGTAAATA
1 GACAGCTCAACACCGTAAATA
56558129 TCGCAGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.28, G:0.21, T:0.14
Consensus pattern (22 bp):
GACAGCTCAACACCGTAAATAC
Found at i:56559181 original size:94 final size:90
Alignment explanation
Indices: 56559053--56559221 Score: 266
Period size: 94 Copynumber: 1.8 Consensus size: 90
56559043 TTTCCCCTAG
*
56559053 CAACTCATCTGGTTCGCTCTATTTAAAGCCAGCTTCTCACCAATTCTCATGTTAACTTTCCGATG
1 CAACTCATCTGGTTCGCTCTATTTAAAGCCAGCTTCTCACCAATTCTCATGTTAAC-TTCCCATG
56559118 TGGGATTACTTTTAACCATTAGGAAC
65 TGGGATTACTTTTAACCATTAGGAAC
* * *
56559144 CAACTCATCTGGTTTGGCTCTCTATTTAAAGCTAGCTTCTCACCAATTCTCATGTTAGCTTCCCA
1 CAACTCATCTGG-TT--CGCTCTATTTAAAGCCAGCTTCTCACCAATTCTCATGTTAACTTCCCA
56559209 TGTGGGATTACTT
63 TGTGGGATTACTT
56559222 ATTCCTTATT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 12 0.17
92 2 0.03
93 18 0.25
94 39 0.55
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (90 bp):
CAACTCATCTGGTTCGCTCTATTTAAAGCCAGCTTCTCACCAATTCTCATGTTAACTTCCCATGT
GGGATTACTTTTAACCATTAGGAAC
Found at i:56561474 original size:27 final size:27
Alignment explanation
Indices: 56561444--56561499 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
56561434 TACCCCATTA
*
56561444 ATAGAATCAGGTGGGCCTAAGCCTAGT
1 ATAGAATCAGGTGGGCCTAAGCCCAGT
56561471 ATAGAATCAGGTGGGCCTAAGCCCAGT
1 ATAGAATCAGGTGGGCCTAAGCCCAGT
56561498 AT
1 AT
56561500 CAAATGTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (27 bp):
ATAGAATCAGGTGGGCCTAAGCCCAGT
Found at i:56561961 original size:27 final size:26
Alignment explanation
Indices: 56561931--56561986 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
56561921 ACCATATAGA
*
56561931 GGTATTACAGTCATTTTACACAACTAG
1 GGTATTACAGTCATTTTACA-AACCAG
* * *
56561958 GGTATTTCGGTGATTTTACAAACCAG
1 GGTATTACAGTCATTTTACAAACCAG
56561984 GGT
1 GGT
56561987 CTTAACGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (26 bp):
GGTATTACAGTCATTTTACAAACCAG
Found at i:56564688 original size:25 final size:25
Alignment explanation
Indices: 56564623--56564688 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
56564613 ATGCTCATAT
* * * *
56564623 GAGCTGTA-AACGGTAAGCTCTTCT
1 GAGCTGAATAACGGTAAACTCCTCC
**
56564647 GAGCTGAATAATAGTAAACTCCTCC
1 GAGCTGAATAACGGTAAACTCCTCC
*
56564672 GAGTTGAATAACGGTAA
1 GAGCTGAATAACGGTAA
56564689 GCTTATACGA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAACTCCTCC
Found at i:56570185 original size:34 final size:33
Alignment explanation
Indices: 56570111--56570207 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 33
56570101 CTTTGTTTGC
56570111 ATACTG-TATTAAAATGGGCTAAGGCCCAGACT
1 ATACTGTTATTAAAATGGGCTAAGGCCCAGACT
* *
56570143 ACCT-CTGTTATTGAAATGGGCTCAGGCCCAGACT
1 A--TACTGTTATTAAAATGGGCTAAGGCCCAGACT
*
56570177 GATACTGTT-TCTAAAAAAGGGGCTAAGGCCC
1 -ATACTGTTAT-T--AAAATGGGCTAAGGCCC
56570208 TAACGGGAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
32 1 0.02
33 5 0.10
34 31 0.60
35 1 0.02
36 14 0.27
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (33 bp):
ATACTGTTATTAAAATGGGCTAAGGCCCAGACT
Found at i:56572999 original size:39 final size:39
Alignment explanation
Indices: 56572945--56573106 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
56572935 TGTGAATGAA
56572945 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56572984 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
56573023 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * **
56573062 TGTGCGAGTTGTGATAT-CGGGTTAAGTCCCGCAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56573101 TGTGCG
1 TGTGCG
56573107 GGTTACCATA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 8 0.07
39 105 0.93
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56573122 original size:78 final size:78
Alignment explanation
Indices: 56572962--56573136 Score: 226
Period size: 78 Copynumber: 2.2 Consensus size: 78
56572952 ATTGTGATAT
56572962 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
** *
56573027 CGAGCTATGATAT
66 CGAGCTACCATAA
* * * **
56573040 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATAT-CGGGTTAAGTCCCGCAGGCGTTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGT
* *
56573104 GCGGGTTACCATAA
65 GCGAGCTACCATAA
*
56573118 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAG-CCCGAAGG
56573137 TGTTTTGAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 8 0.10
78 68 0.81
79 8 0.10
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:56578361 original size:24 final size:24
Alignment explanation
Indices: 56578328--56578506 Score: 295
Period size: 24 Copynumber: 7.4 Consensus size: 24
56578318 CTAGAGGCCT
* *
56578328 AGCCTCTTTTACTAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
56578353 AGTCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56578377 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56578401 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56578425 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
*
56578450 AGCACTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56578474 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56578498 AGCCCTTTT
1 AGCCCTTTT
56578507 GCACTTCCTC
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 119 0.82
25 26 0.18
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56578447 original size:73 final size:73
Alignment explanation
Indices: 56578328--56578506 Score: 297
Period size: 73 Copynumber: 2.5 Consensus size: 73
56578318 CTAGAGGCCT
* * * * *
56578328 AGCCTCTTTTACTAACTGGGGCAAAAGTCC-TTTTAATAACTGGGGCATAAGCCCTTTTGATAAC
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCACTTTTAATAAC
56578392 TGGGGCATA
65 TGGGGCATA
56578401 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCACTTTTAATAACT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCACTTTTAATAACT
56578466 GGGGCATA
66 GGGGCATA
56578474 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
56578507 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 22 0.22
73 78 0.78
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (73 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCACTTTTAATAACT
GGGGCATA
Found at i:56578581 original size:20 final size:20
Alignment explanation
Indices: 56578556--56578622 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
56578546 TTATGAATAC
56578556 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56578576 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56578596 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56578616 ACCATGT
1 ATCATGT
56578623 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56578587 original size:11 final size:11
Alignment explanation
Indices: 56578556--56578611 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56578546 TTATGAATAC
56578556 ATCATGTGCAT
1 ATCATGTGCAT
*
56578567 ATCA--TACAT
1 ATCATGTGCAT
56578576 ATCATGTGCAT
1 ATCATGTGCAT
*
56578587 ATCA--TACAT
1 ATCATGTGCAT
*
56578596 GTCATGTGCAT
1 ATCATGTGCAT
56578607 ATCAT
1 ATCAT
56578612 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:56585093 original size:6 final size:6
Alignment explanation
Indices: 56585077--56585108 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56585067 ATATGAATCT
*
56585077 CATATA TATATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CATATA CA
56585109 ACTCACATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
CATATA
Found at i:56593572 original size:40 final size:40
Alignment explanation
Indices: 56593510--56593734 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
56593500 AACCCAAGTA
* * * *
56593510 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
56593549 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56593589 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * * *
56593630 CCTTCGGGCCTTAGCCCGTATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
56593670 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
56593711 CCTTCGGGTCTTAGCCCAGATATA
1 CCTTCGGGACTTAGCCCGGATATA
56593735 ATCCGAATAA
Statistics
Matches: 162, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.07
40 92 0.57
41 58 0.36
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:56593643 original size:81 final size:81
Alignment explanation
Indices: 56593510--56593734 Score: 285
Period size: 81 Copynumber: 2.8 Consensus size: 81
56593500 AACCCAAGTA
* * * *
56593510 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCAC-AAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAACCCAGATATAGTC-ACTAGCACAAAATGCCTTCGGGACTTAGCCCGGATAT
*
56593572 AGTAACTCGCACAAATG
65 AGTAACTAGCACAAATG
* * * *
56593589 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATGCCTTCGGGCCTTAGCCCGTATATC
1 CCTTCGGGACTTAACCCAGATATAGTCACTAGCACAAAATGCCTTCGGGACTTAGCCCGGATATA
* *
56593654 GTCACTAGCGCAAATG
66 GTAACTAGCACAAATG
* * * *
56593670 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCAGATATA
1 CCTTCGGGACTTAACCCAGATATAGTCACTAGCACAAAATGCCTTCGGGACTTAGCCCGGATATA
56593735 ATCCGAATAA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 12 0.10
80 15 0.12
81 98 0.78
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CCTTCGGGACTTAACCCAGATATAGTCACTAGCACAAAATGCCTTCGGGACTTAGCCCGGATATA
GTAACTAGCACAAATG
Found at i:56611463 original size:18 final size:18
Alignment explanation
Indices: 56611437--56611487 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
56611427 CTCGGCCCAT
56611437 TGCAGTAACAGTAAATAA
1 TGCAGTAACAGTAAATAA
* * *
56611455 TGCAATAACAGTAATTAG
1 TGCAGTAACAGTAAATAA
56611473 TGCAGTAACAGTAAA
1 TGCAGTAACAGTAAA
56611488 CAGTATGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAA
Found at i:56611885 original size:27 final size:27
Alignment explanation
Indices: 56611817--56611981 Score: 215
Period size: 27 Copynumber: 6.1 Consensus size: 27
56611807 ATTTCAACCA
* * * *
56611817 TTTACCACATAAGGGCAAAACAGTC-G
1 TTTACCTCAAAAGGGCAAAACAATCAT
* * *
56611843 TTTCCCTCAAAAGGGCAAAACACTCGT
1 TTTACCTCAAAAGGGCAAAACAATCAT
* *
56611870 TTTACCTCAAAAGGGCAAAACAGTTAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
56611897 TTTACCTCAAAAGGGCAAAACAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
* * *
56611924 TTTATCTCAAAAGGGGAAAAAAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
56611951 TTTACCTCAAAAGGGCAAAACAATCAT
1 TTTACCTCAAAAGGGCAAAACAATCAT
56611978 TTTA
1 TTTA
56611982 TCAATCTGGG
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 21 0.17
27 100 0.83
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
TTTACCTCAAAAGGGCAAAACAATCAT
Found at i:56614409 original size:48 final size:48
Alignment explanation
Indices: 56614157--56614429 Score: 209
Period size: 48 Copynumber: 5.7 Consensus size: 48
56614147 GGGTTGACGA
* * * * * *
56614157 GATCCCATATAAGACCATATCTAGGATATGGTATTGTCATCGATATCT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * *
56614205 AATCCCATGTAAGACCATGTTTGAGACATGGCATTGGCATCGTTATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* **
56614253 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATAGATATAA
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * ** *
56614301 AAACATCGTGCAAGACCAT-TGCTGGG-CTAT--CA---GCTTCGATATGTGT
1 GATC-CCATATAAGACCATGT-CTGGGAC-ATGGCATTGGCATCGATA--TGT
*
56614347 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
** * * *
56614395 GGCCCCATATAAGACCATATCTGAGATATGGCATT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATT
56614430 TCTACCCTAC
Statistics
Matches: 172, Mismatches: 41, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
44 7 0.04
45 18 0.10
46 5 0.03
47 4 0.02
48 113 0.66
49 17 0.10
50 8 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (48 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:56615650 original size:31 final size:31
Alignment explanation
Indices: 56615612--56615712 Score: 175
Period size: 31 Copynumber: 3.3 Consensus size: 31
56615602 AAGCCACAGT
* *
56615612 GGCGTGTGTGACAACGCGACCTACCCACGTG
1 GGCGTGTGTGACCACACGACCTACCCACGTG
56615643 GGCGTGTGTGACCACACGACCTACCCACGTG
1 GGCGTGTGTGACCACACGACCTACCCACGTG
*
56615674 GGCGTGTGTGACCACACGACCTACCCACGCG
1 GGCGTGTGTGACCACACGACCTACCCACGTG
56615705 GGCGTGTG
1 GGCGTGTG
56615713 ACTCTCCGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.18, C:0.34, G:0.33, T:0.16
Consensus pattern (31 bp):
GGCGTGTGTGACCACACGACCTACCCACGTG
Found at i:56620166 original size:49 final size:49
Alignment explanation
Indices: 56620109--56620460 Score: 632
Period size: 49 Copynumber: 7.2 Consensus size: 49
56620099 ATGTATGAGA
56620109 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
56620158 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
56620207 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56620256 TTTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56620305 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56620354 TGTATATATGTGATAAGACCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56620403 TGTATATATGTGATAAGACCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56620452 TATATATAT
1 TGTATATAT
56620461 ATGTGGCAAA
Statistics
Matches: 296, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 296 1.00
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:56620169 original size:27 final size:27
Alignment explanation
Indices: 56620138--56620220 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
56620128 CTAATGGCCG
56620138 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
56620165 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
56620188 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
56620214 ATGTGAT
1 ATGTGAT
56620221 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:56620584 original size:37 final size:36
Alignment explanation
Indices: 56620529--56620615 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
56620519 AACTTAGAAA
*
56620529 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCAATGACTACGTGTGGAGAT
56620567 TATGTCCGGGTACGACCCAATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCAATGACTACGTGTGGAGAT
56620604 TATGTCCGGGTA
1 TATGTCCGGGTA
56620616 AGACTTCGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCAATGACTACGTGTGGAGAT
Found at i:56622252 original size:48 final size:48
Alignment explanation
Indices: 56622179--56622314 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 48
56622169 GGGATAACGA
* * * *
56622179 GATCCCCTATAAGACCATATCTGGGATATGGCATCGTCATCGA-TATAT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATC-ATTATAT
* * * *
56622227 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCATTATAT
* * * *
56622275 GATCCCATATAAGACCATGACTAGGACATTGCATTGGCAT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATCGGCAT
56622315 AGGTATGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 73 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATCATTATAT
Found at i:56624156 original size:30 final size:29
Alignment explanation
Indices: 56624085--56624184 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
56624075 GGCTATTGAT
*
56624085 TATGAAAAGGGATGGTGACGACCA-CAAA
1 TATGAAAAGGGATGGTGACGACCATCGAA
* *
56624113 CTATGACAAGGGATGGTGACGACAATCGAA
1 -TATGAAAAGGGATGGTGACGACCATCGAA
* ** *
56624143 TAATGAAAAGGGATAGTTTCGGCCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATCGAA
56624173 TATGAAAAGGGA
1 TATGAAAAGGGA
56624185 CATTATGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 34 0.57
30 26 0.43
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCGAA
Found at i:56625697 original size:25 final size:25
Alignment explanation
Indices: 56625669--56625747 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
56625659 TATTTTGTTA
*
56625669 TGGTATGAATCTAAATTGTTAAGGT
1 TGGTATGAATCTAAATTGGTAAGGT
** * ** *
56625694 TGGTATGTGTCAAAAGCGGT-ATGT
1 TGGTATGAATCTAAATTGGTAAGGT
56625718 T--TATGAATCTAAATTGGTAAGGT
1 TGGTATGAATCTAAATTGGTAAGGT
56625741 TGGTATG
1 TGGTATG
56625748 TTTCAAAAGC
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 4 0.11
25 18 0.47
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (25 bp):
TGGTATGAATCTAAATTGGTAAGGT
Found at i:56625741 original size:47 final size:47
Alignment explanation
Indices: 56625672--56625766 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
56625662 TTTGTTATGG
*
56625672 TATGAATCTAAATTGTTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
1 TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
*
56625719 TATGAATCTAAATTGGTAAGGTTGGTATGTTTCAAAAGCGGTATGTT
1 TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
56625766 T
1 T
56625767 TGGTATGGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.39
Consensus pattern (47 bp):
TATGAATCTAAATTGGTAAGGTTGGTATGTGTCAAAAGCGGTATGTT
Found at i:56636272 original size:40 final size:39
Alignment explanation
Indices: 56636171--56636377 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 39
56636161 CAATTTAATG
* * * * * *
56636171 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-GTT
* * *
56636211 ATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-TT
*
56636250 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGTT
* * *
56636290 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-GTT
* *
56636330 GTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGT-GTT
56636370 ATATCCGG
1 ATATCCGG
56636378 TTGTATTCCA
Statistics
Matches: 139, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
39 36 0.26
40 99 0.71
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGTT
Found at i:56636339 original size:80 final size:80
Alignment explanation
Indices: 56636171--56636377 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
56636161 CAATTTAATG
* * ** * * *
56636171 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCC-GGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
*
56636235 ATTGTGCTAGTGACT
66 ATTGTGCAAGTGACT
* * * *
56636250 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
* *
56636315 TTTGTGCAAGTCG-TT
66 ATTGTGCAAGT-GACT
* * *
56636330 GTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
56636378 TTGTATTCCA
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 37 0.35
80 69 0.64
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTGACT
Found at i:56640772 original size:43 final size:42
Alignment explanation
Indices: 56640670--56640808 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 42
56640660 GTCCTAGACG
* *
56640670 TGGTCTTACATGT-AATCAAATATCGATAACACTGTCCCA-AA
1 TGGTCTTACATGTAAATCAAATA-CGATGACAATGTCCCAGAA
*** *
56640711 TAGGATCTTA-AACAAAATCAAATACGATGACAATGTCCCAGGCA
1 T-GG-TCTTACATGTAAATCAAATACGATGACAATGTCCCA-GAA
* * *
56640755 TGGTCTTACATGTAAATCACAAGT-CAATGCCAATGTCCCAGATG
1 TGGTCTTACATGTAAATCA-AA-TACGATGACAATGTCCCAGA-A
56640799 TGGTCTTACA
1 TGGTCTTACA
56640809 CAAAAACACA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 24 0.32
44 28 0.37
45 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (42 bp):
TGGTCTTACATGTAAATCAAATACGATGACAATGTCCCAGAA
Found at i:56643042 original size:27 final size:28
Alignment explanation
Indices: 56642985--56643054 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56642975 AAATTTGTAC
**
56642985 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56643013 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56643040 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56643055 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56643063 original size:27 final size:27
Alignment explanation
Indices: 56642985--56643066 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56642975 AAATTTGTAC
* *
56642985 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56643013 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56643040 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56643067 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56650961 original size:27 final size:28
Alignment explanation
Indices: 56650904--56650973 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56650894 AAATTTGTAC
**
56650904 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56650932 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56650959 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56650974 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56650982 original size:27 final size:27
Alignment explanation
Indices: 56650904--56650985 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56650894 AAATTTGTAC
* *
56650904 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56650932 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56650959 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56650986 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56652518 original size:26 final size:26
Alignment explanation
Indices: 56652489--56652596 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
56652479 TGGTAAAAAT
56652489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56652515 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56652541 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56652567 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56652593 TGAT
1 TGAT
56652597 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56654258 original size:27 final size:26
Alignment explanation
Indices: 56654218--56654358 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
56654208 AGGAAGCATC
* *
56654218 CTGGTGGCTATGCCACGATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
56654245 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
56654272 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
56654299 ATGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
56654326 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
56654353 CTGGTG
1 CTGGTG
56654359 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 10 0.10
27 84 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:56654304 original size:54 final size:54
Alignment explanation
Indices: 56654218--56654334 Score: 207
Period size: 54 Copynumber: 2.2 Consensus size: 54
56654208 AGGAAGCATC
*
56654218 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTAATATGGTGGCTCTGCCACATATATCTGTT
* *
56654272 CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTAATATGGTGGCTCTGCCACATATATCTGTT
56654326 CTGGTGGCT
1 CTGGTGGCT
56654335 CTACCACAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTAATATGGTGGCTCTGCCACATATATCTGTT
Found at i:56654358 original size:54 final size:54
Alignment explanation
Indices: 56654218--56654358 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
56654208 AGGAAGCATC
* * *
56654218 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACGAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * * *
56654272 CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATACCACGAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
56654326 CTGGTGGCTCTACCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATACCACGAATATCTG-ATCTGGTG
56654359 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATACCACGAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:56661357 original size:43 final size:43
Alignment explanation
Indices: 56661325--56661454 Score: 192
Period size: 43 Copynumber: 3.1 Consensus size: 43
56661315 GCATTACACT
*
56661325 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
* *
56661368 TGCTAGGCATGAAGGCCCGAATACACATCACCGACACTAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
* * *
56661411 TGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
56661452 TGC
1 TGC
56661455 GGGATTTATC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 14 0.18
42 2 0.03
43 63 0.80
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
Found at i:56670413 original size:49 final size:49
Alignment explanation
Indices: 56670285--56670405 Score: 233
Period size: 49 Copynumber: 2.5 Consensus size: 49
56670275 TACATAATAG
56670285 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
56670334 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
56670383 TATGTGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
56670406 TAATGTGAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:56670455 original size:48 final size:48
Alignment explanation
Indices: 56670381--56670558 Score: 275
Period size: 48 Copynumber: 3.7 Consensus size: 48
56670371 TGAAAGTGTA
* *
56670381 TATATGTGTGATAAGGCCTAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
56670431 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
56670479 TATATGTAGTAAAGCCGAATGGCTAATGTGAAATGTATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
56670527 TATATGTGGTAAAGCCGAATGGCTAACGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
56670559 TGTTGTAACA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
48 109 0.92
49 1 0.01
50 8 0.07
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:56670652 original size:37 final size:37
Alignment explanation
Indices: 56670598--56670725 Score: 211
Period size: 37 Copynumber: 3.4 Consensus size: 37
56670588 AACTTGGAAA
*
56670598 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
56670636 TATGTCCAGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
* *
56670673 TATGTCCGGGTGAGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
56670710 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
56670726 TTCGTAATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 80 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:56677269 original size:42 final size:42
Alignment explanation
Indices: 56677218--56677371 Score: 161
Period size: 42 Copynumber: 3.6 Consensus size: 42
56677208 CAAGACTATG
56677218 TGTAAGACCATATCTGAGATATGGCATC-ATTATGAGACTTCA
1 TGTAAGACCATATCTGAGATATGGCATCGA-TATGAGACTTCA
*
56677260 TGTAAGACCATATCTGAGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTCA
* * * * * * * *
56677302 TTTAAGATCATAGCT-AGGCTATTGGTATCGAAACGAGA-TCCTA
1 TGTAAGACCATATCTGA-GATA-TGGCATCGATATGAGACTTC-A
*
56677345 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGAGATATGGCAT
56677372 TAGTGTGGTA
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 61 0.66
43 30 0.33
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTCA
Found at i:56679739 original size:40 final size:40
Alignment explanation
Indices: 56679695--56679799 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
56679685 CGACAAATCT
* **
56679695 GCTATTTATGGCACTTAGTGTGCGATTCGACATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCA
* * *
56679735 GCTATATATGGCACTTAGTGTGCGATTTGAGATAGGTTCA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCA
* *
56679775 GCTATGTATGACACTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGA
56679800 GATATCGAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCA
Found at i:56679833 original size:24 final size:24
Alignment explanation
Indices: 56679791--56679860 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
56679781 TATGACACTT
*
56679791 AGTGTGCGAGATATCGAGTGTGAC
1 AGTGTGCAAGATATCGAGTGTGAC
* *
56679815 AGTGTGCAAGTTATTGAGTGTGGCAC
1 AGTGTGCAAGATATCGAGTGT-G-AC
*
56679841 TTATTGTGCAAGATATCGAG
1 --AGTGTGCAAGATATCGAG
56679861 AATGGCACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 18 0.50
25 1 0.03
26 2 0.06
28 15 0.42
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (24 bp):
AGTGTGCAAGATATCGAGTGTGAC
Found at i:56679866 original size:28 final size:28
Alignment explanation
Indices: 56679786--56679876 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
56679776 CTATGTATGA
*
56679786 CACTTAGTGTGCGAGATATCGAG--TGTG
1 CACTTAGTGTGCAAGATATCGAGAATG-G
* * **
56679813 -AC--AGTGTGCAAGTTATTGAGTGTGG
1 CACTTAGTGTGCAAGATATCGAGAATGG
*
56679838 CACTTATTGTGCAAGATATCGAGAATGG
1 CACTTAGTGTGCAAGATATCGAGAATGG
56679866 CACTTAGTGTG
1 CACTTAGTGTG
56679877 TGAGGCATTG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
24 15 0.30
25 1 0.02
26 6 0.12
28 28 0.56
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCAAGATATCGAGAATGG
Found at i:56685768 original size:49 final size:49
Alignment explanation
Indices: 56685708--56686059 Score: 498
Period size: 49 Copynumber: 7.4 Consensus size: 49
56685698 TATACATATG
* * * *
56685708 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
56685757 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56685806 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56685855 TGTGATAA-GCCTAATGGATGTCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAAT-G--G-CCGATGTGGTGAATGTGAAAGTGTATGTATA
56685907 TGTGATAAGGCCTAATGGCCGATGTGGTG-ATGTG-AA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56685948 --TG-TAAGGCCTAATGGCCGA-GTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56685993 TGTGATAAGGCCTAATGGCCGATGT-GTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56686041 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56686060 TAATGTAAAA
Statistics
Matches: 276, Mismatches: 10, Indels: 35
0.86 0.03 0.11
Matches are distributed among these distances:
37 6 0.02
38 21 0.08
39 4 0.01
41 3 0.01
43 4 0.01
45 3 0.01
47 4 0.01
48 70 0.25
49 112 0.41
50 1 0.00
51 1 0.00
52 40 0.14
53 7 0.03
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56685954 original size:38 final size:39
Alignment explanation
Indices: 56685912--56685990 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
56685902 GTATATGTGA
*
56685912 TAAGGCCTAATGGCCGATGTGGTG-ATGT-GAAGTGTATG
1 TAAGGCCTAATGGCCGA-GTGGTGAATGTAAAAGTGTATG
56685950 TAAGGCCTAATGGCCGAGTGGTGAATGTAAAAGTGTATG
1 TAAGGCCTAATGGCCGAGTGGTGAATGTAAAAGTGTATG
56685989 TA
1 TA
56685991 TATGTGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
37 6 0.16
38 21 0.55
39 11 0.29
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (39 bp):
TAAGGCCTAATGGCCGAGTGGTGAATGTAAAAGTGTATG
Found at i:56685995 original size:86 final size:89
Alignment explanation
Indices: 56685762--56686038 Score: 382
Period size: 101 Copynumber: 3.0 Consensus size: 89
56685752 GTATATGTGA
* * *
56685762 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56685827 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
56685851 TATATGTGATAAGCCTAATGGATGTCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
1 TA-A---G----GCCTAAT-G--G-CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
56685916 GCCTAATGGCCGATGTGGTG-ATGTG-AAGTGTATG
54 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
*
56685950 TAAGGCCTAATGGCCGA-GTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
56686014 ATGT-GTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
56686037 TA
1 TA
56686039 TATGTGATAA
Statistics
Matches: 170, Mismatches: 4, Indels: 30
0.83 0.02 0.15
Matches are distributed among these distances:
85 3 0.02
86 55 0.32
87 15 0.09
88 1 0.01
89 2 0.01
90 2 0.01
91 7 0.04
93 1 0.01
95 1 0.01
97 7 0.04
98 2 0.01
99 11 0.06
100 6 0.04
101 57 0.34
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:56686211 original size:37 final size:37
Alignment explanation
Indices: 56686161--56686245 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
56686151 GGAATATGTT
*
56686161 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56686198 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56686235 CCGGGTAAGAC
1 CCGGGTAAGAC
56686246 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56694583 original size:40 final size:40
Alignment explanation
Indices: 56694538--56694705 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56694528 CGGAATATAA
56694538 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56694578 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56694618 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
56694658 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56694698 CCGGATAT
1 CCGGATAT
56694706 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56697882 original size:11 final size:11
Alignment explanation
Indices: 56697865--56697898 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56697855 CATAGCACAC
56697865 AAAACAATTTG
1 AAAACAATTTG
*
56697876 GAAACAATTTG
1 AAAACAATTTG
*
56697887 AAAACTATTTG
1 AAAACAATTTG
56697898 A
1 A
56697899 TATATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (11 bp):
AAAACAATTTG
Found at i:56698178 original size:25 final size:25
Alignment explanation
Indices: 56698136--56698184 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
56698126 TATAATAACA
*
56698136 AAGAATAAACAATATAC-ATGAAAG
1 AAGAACAAACAATATACAATGAAAG
56698160 AAGAACAAACCAATATACAATGAAA
1 AAGAACAAA-CAATATACAATGAAA
56698185 CTATATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (25 bp):
AAGAACAAACAATATACAATGAAAG
Found at i:56700490 original size:176 final size:176
Alignment explanation
Indices: 56700192--56700809 Score: 805
Period size: 176 Copynumber: 3.5 Consensus size: 176
56700182 CTTGGGGCTT
* * * * * * *
56700192 AAATCTGCTCCATTGCCGATACACGGAGATAAGATTCGCCTTTTTCGATCT-ACTCCGATTCTGT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGA-TCCGCTACTGC
* * ** *
56700256 TTAGGGAGATAAGATCTTCAATCTTTAGCCTGCTTTTTTGCTGCCTC-AGAAATATAAGACTACA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAG-AATATAAGACTACA
*
56700320 ATCGCCAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTAGTGGTA
129 ATCGCCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
* * *
56700368 AAATCTGCTCCATTGCCGATACATGGAGATAAAATTCACCATCTTCGATTTGATCCCCTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGATCCGCTACTGCT
* * * * *
56700433 TAGAGATATAAAATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAATATAAGACT-CATT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAATATAAGACTACAAT
** * *
56700497 CTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGACTAGTGGTA
131 CGCCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
* * * *
56700543 AAATATGCTCCATTGCCGATACATGGGGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGATCCGCTACTGCT
* * * *
56700608 TAGGGAAAT-AGATCTTTAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAATATAAGACTACAAT
*
56700672 CGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGG-TCAGTGGCTA
131 CGCCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCT-AGTGG-TA
* * * * * *
56700719 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTGCTACTTCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGATCCGCTACTGCT
56700784 TAGGGAGATAAGATCTTCAATCTTCA
66 TAGGGAGATAAGATCTTCAATCTTCA
56700810 ATCTACTCCA
Statistics
Matches: 382, Mismatches: 54, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
174 46 0.12
175 150 0.39
176 168 0.44
177 18 0.05
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (176 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGATCCGCTACTGCT
TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAAGAATATAAGACTACAAT
CGCCAACCTACTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
Found at i:56700842 original size:351 final size:351
Alignment explanation
Indices: 56700192--56700843 Score: 871
Period size: 351 Copynumber: 1.9 Consensus size: 351
56700182 CTTGGGGCTT
* * * * * *
56700192 AAATCTGCTCCATTGCCGATACACGGAGATAAGATTCGCCTTTTTCGATCTACTCCGATTCTGTT
1 AAATATGCTCCATTGCCGATACACGGAGATAAGATTCACCATCTTCGATCTACTCCGATACTGCT
* * ** * *
56700257 TAGGGAGATAAGATCTTCAATCTTTAGCCTGCTTTTTTGCTGCCTCAGAAATATAAGACTACAAT
66 TAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
** *
56700322 CGCCAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGA
131 CGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCTAGTGGTAAAATCTGCTCCATTACCGA
* *
56700387 TACATGGAGATAAAATTCACCATCTTCGATTTGATCCCCTACTGCTTAGAGATATAAAATCTTCA
196 TACATGGAGATAAAATTCACCATCTTCGATCTGATCCCCTACTGCTTAGAGAGATAAAATCTTCA
* * * * * *
56700452 ATTTTCAGTCTGCTTCCTTGCTACCTCAAGAATATAAGACTCATTCTTCAACCTGCTCTCTTGCT
261 ATCTTCAATCTACTTCCCTGCAACCTCAAGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCT
56700517 ACCTCAAAGAGATAAGACTAGTGGTA
326 ACCTCAAAGAGATAAGACTAGTGGTA
* * *
56700543 AAATATGCTCCATTGCCGATACATGGGGATAAGATTCACCATCTTCGATCTGCTCC-ACTACTGC
1 AAATATGCTCCATTGCCGATACACGGAGATAAGATTCACCATCTTCGATCTACTCCGA-TACTGC
* * *
56700607 TTAGGGAAAT-AGATCTTTAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
65 TTAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAA
56700671 TCGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGG-TCAGTGGCTAAAATCTGCTCCATTAC
130 TCGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCT-AGTGG-TAAAATCTGCTCCATTAC
* * * * ** * * *
56700735 TGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTGCTACTTCTTAGGGAGATAAGATCT
193 CGATACATGGAGATAAAATTCACCATCTTCGATCTGATCCCCTACTGCTTAGAGAGATAAAATCT
* * *
56700800 TCAATCTTCAATCTAC-TCCACTGCAACCTTAGGGAGATAAGACT
258 TCAATCTTCAATCTACTTCC-CTGCAACCTCAAGAAGATAAGACT
56700844 TGCATATTGA
Statistics
Matches: 256, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
349 1 0.00
350 91 0.36
351 164 0.64
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (351 bp):
AAATATGCTCCATTGCCGATACACGGAGATAAGATTCACCATCTTCGATCTACTCCGATACTGCT
TAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
CGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCTAGTGGTAAAATCTGCTCCATTACCGA
TACATGGAGATAAAATTCACCATCTTCGATCTGATCCCCTACTGCTTAGAGAGATAAAATCTTCA
ATCTTCAATCTACTTCCCTGCAACCTCAAGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCT
ACCTCAAAGAGATAAGACTAGTGGTA
Found at i:56701298 original size:64 final size:64
Alignment explanation
Indices: 56701197--56701324 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
56701187 TTCATGTATC
* *
56701197 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
*
56701261 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
56701325 TTATGAATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
Found at i:56702438 original size:28 final size:28
Alignment explanation
Indices: 56702388--56702442 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
56702378 GCCTCTCCTT
56702388 TTCTTTCTTTTTTTAATTTTTTTGATTGA
1 TTCTTTCTTTTTTT-ATTTTTTTGATTGA
56702417 TTCTTTCTTTTTTT-TTTATTTTGATT
1 TTCTTTCTTTTTTTATTT-TTTTGATT
56702443 TTTTTATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.12
28 8 0.32
29 14 0.56
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.76
Consensus pattern (28 bp):
TTCTTTCTTTTTTTATTTTTTTGATTGA
Found at i:56703000 original size:28 final size:29
Alignment explanation
Indices: 56702964--56703026 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
56702954 TCACTATGAC
* *
56702964 CTTTGTTCTATTGTT-TGCTTTTCCTTTT
1 CTTTTTTCTATTGTTGTACTTTTCCTTTT
**
56702992 CTTTTTTCTATTGTTGTACTTTTGTTTTT
1 CTTTTTTCTATTGTTGTACTTTTCCTTTT
56703021 CTTTTT
1 CTTTTT
56703027 GGATGCCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (29 bp):
CTTTTTTCTATTGTTGTACTTTTCCTTTT
Found at i:56707280 original size:40 final size:39
Alignment explanation
Indices: 56707226--56707444 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 39
56707216 GCTCGATTGT
* * * *
56707226 CTTCAGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACAAATGC
*
56707266 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
56707306 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
56707346 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
56707386 CTACGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
56707427 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
56707445 ATACCATTCG
Statistics
Matches: 156, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 129 0.83
41 26 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:56707338 original size:80 final size:80
Alignment explanation
Indices: 56707239--56707446 Score: 272
Period size: 80 Copynumber: 2.6 Consensus size: 80
56707229 CAGGACATAG
* * * *
56707239 CCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAAT
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
* *
56707304 GCCTTCGGGACTTAA
66 GCCTACGGGAATTAA
* * * *
56707319 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAT
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
56707384 GCCTACGGGAATTGA
66 GCCTACGGGAATTAA
* * * *
56707399 CCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
56707447 ACCATTCGAA
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 81 0.74
81 28 0.26
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
GCCTACGGGAATTAA
Found at i:56713286 original size:40 final size:40
Alignment explanation
Indices: 56713163--56713290 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
56713153 AAATTGAATG
* * * **
56713163 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTAGTGATT
* **
56713203 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
56713243 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGATT
56713283 ATATCCGG
1 ATATCCGG
56713291 TTATATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:56718085 original size:40 final size:40
Alignment explanation
Indices: 56718026--56718167 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
56718016 AAATTGAATG
* *
56718026 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
56718066 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
56718106 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
56718146 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56718168 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56718168 original size:40 final size:39
Alignment explanation
Indices: 56718065--56718193 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
56718055 TGCTGGAAAT
* * *
56718065 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
56718105 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
56718145 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
56718185 TATATCCGG
1 TATATCCGG
56718194 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:56720900 original size:42 final size:42
Alignment explanation
Indices: 56720788--56720902 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
56720778 TACCGTACCA
* * * * *
56720788 ATGCCATATTCTAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
56720830 ATGCCAATAGCCCA-ACTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGTAA-TCTCATATCG
56720873 ATGCCATATCCCAGATATGGTCTTACACGT
1 ATGCCATATCCCAGATATGGTCTTACACGT
56720903 TAACTCAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:56724694 original size:25 final size:25
Alignment explanation
Indices: 56724598--56724690 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
56724588 TCTGACCCAC
* *
56724598 AGCTCGTGTGAGCATACCAATCTAC
1 AGCTCGTGTGAGCATACCAATTTAT
* *
56724623 ACCTCGTGTGAGCATACCAACTTAT
1 AGCTCGTGTGAGCATACCAATTTAT
* **
56724648 AGCTCGTGAGAGCATACTGATTTAT
1 AGCTCGTGTGAGCATACCAATTTAT
*
56724673 AGCTCGAGTGAGCATACC
1 AGCTCGTGTGAGCATACC
56724691 GATTCACAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCAATTTAT
Found at i:56732680 original size:24 final size:24
Alignment explanation
Indices: 56732651--56732696 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
56732641 GATTATGTGT
56732651 AAGACCATGTCTAGGACATTGGTA
1 AAGACCATGTCTAGGACATTGGTA
56732675 AAGACCATGTCTAGGACATTGG
1 AAGACCATGTCTAGGACATTGG
56732697 CATTGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (24 bp):
AAGACCATGTCTAGGACATTGGTA
Found at i:56732717 original size:67 final size:67
Alignment explanation
Indices: 56732607--56732741 Score: 191
Period size: 67 Copynumber: 2.0 Consensus size: 67
56732597 TGATTACCTG
* * * *
56732607 AAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTATGTGTAAGACCATGTCTAGGACATTG
1 AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTATGTGTAAGACCATGTCTAGGACAGTG
56732672 GT
66 GT
* * *
56732674 AAAGACCATGTCTAGGACATTGGCATTGTTAAT-CGATTTTGTGTAAGACCCTGTCTGGGACAGT
1 AAAGACCATGTCTAGGACATTGGCATTG-TAATGCGATTATGTGTAAGACCATGTCTAGGACAGT
56732738 GGT
65 GGT
56732741 A
1 A
56732742 TCGATATGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 57 0.95
68 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (67 bp):
AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTATGTGTAAGACCATGTCTAGGACAGTG
GT
Found at i:56733828 original size:30 final size:30
Alignment explanation
Indices: 56733775--56733841 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
56733765 ACATGGTCTA
56733775 GACACACGGGCGTGTCTACTGGCCATGTGT
1 GACACACGGGCGTGTCTACTGGCCATGTGT
* * * * *
56733805 GACACATGGGCTTGTTTATTGGCCTTGTGT
1 GACACACGGGCGTGTCTACTGGCCATGTGT
56733835 GACACAC
1 GACACAC
56733842 AAGCTAGCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (30 bp):
GACACACGGGCGTGTCTACTGGCCATGTGT
Found at i:56739317 original size:14 final size:14
Alignment explanation
Indices: 56739298--56739324 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56739288 AAAATTTTGT
56739298 TTAATTTTAGCGAA
1 TTAATTTTAGCGAA
56739312 TTAATTTTAGCGA
1 TTAATTTTAGCGA
56739325 TTGTGAGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
TTAATTTTAGCGAA
Found at i:56740583 original size:48 final size:46
Alignment explanation
Indices: 56740471--56740591 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
56740461 TGATACGTGT
* *
56740471 GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCCACATTACGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
* *
56740517 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAC-A-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-C-ACAT-TACGAGA
*
56740565 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
56740592 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 30 0.46
47 1 0.02
48 27 0.42
49 4 0.06
50 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
Found at i:56740689 original size:49 final size:48
Alignment explanation
Indices: 56740614--56740741 Score: 132
Period size: 49 Copynumber: 2.6 Consensus size: 48
56740604 TGTGTGTCAA
* * * *
56740614 TGTAAGACCTATCTAGGACATAGCATCGACACCGATAGATGAGAG-CTAG
1 TGTAAGACCTGTAT-GGACATGGCATCGACACCGATAGATGAAAGTCT-G
* ** *
56740663 TGTAAGACCTGTATGGAACATGGCATCGGCTTCGATATATGAAAGTCTG
1 TGTAAGACCTGTATGG-ACATGGCATCGACACCGATAGATGAAAGTCTG
*
56740712 TGTAAGACCTGTTTGGGACATGGCATCGAC
1 TGTAAGACCTGTAT-GGACATGGCATCGAC
56740742 TTTGATGTGC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 2 0.03
49 60 0.91
50 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TGTAAGACCTGTATGGACATGGCATCGACACCGATAGATGAAAGTCTG
Found at i:56743202 original size:40 final size:40
Alignment explanation
Indices: 56743107--56743202 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
56743097 GTAATGCATT
* * * *
56743107 TAAACTACCAGTAGTACAAATAAGCTACCAATATTGTAGA
1 TAAACTGCCAGTAATGCAAACAAGCTACCAATATTGTAGA
* * * *
56743147 TAAAATGCCAGTAATGCAAACAAGCTTCCAGTATTGTTGA
1 TAAACTGCCAGTAATGCAAACAAGCTACCAATATTGTAGA
56743187 TAAACTGCCAGTAATG
1 TAAACTGCCAGTAATG
56743203 TGGTCAAGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (40 bp):
TAAACTGCCAGTAATGCAAACAAGCTACCAATATTGTAGA
Found at i:56744389 original size:23 final size:22
Alignment explanation
Indices: 56744337--56744389 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
56744327 ATACTTTATT
*
56744337 ATACATTCACCAAGCAATAACAT
1 ATACA-TCACCAAGCAATAACAC
* *
56744360 ATCACATCATCAAGGCACTAACAC
1 AT-ACATCACCAA-GCAATAACAC
56744384 ATACAT
1 ATACAT
56744390 GCATGTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (22 bp):
ATACATCACCAAGCAATAACAC
Found at i:56745965 original size:47 final size:47
Alignment explanation
Indices: 56745880--56746067 Score: 272
Period size: 47 Copynumber: 3.9 Consensus size: 47
56745870 ACAAATGTTC
* *
56745880 TTCGGCACTTATCACAGT-TATACACTTCCAC-TTCCATCACATTGGCCA
1 TTCGGC-CTTATCACA-TACATACACTTTCACATT-CATCACATTGGCCA
* * *
56745928 TTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCA
56745975 TTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCA
56746024 TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGG
1 TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGG
56746068 ATCCTAAATC
Statistics
Matches: 130, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
46 1 0.01
47 76 0.58
48 8 0.06
49 45 0.35
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
TTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCA
Found at i:56749151 original size:44 final size:44
Alignment explanation
Indices: 56749066--56749184 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
56749056 TACATGTATC
56749066 GCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGCTT
1 GCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGCTT
* * *
56749110 GCATCCATAATGAACTC-AGACCAACTTAACGAA-CTCTGATGCCT
1 GCATCCATAATGAACTCGA-ACCAACTCAAC-AAGCTCGGATGCTT
* * *
56749154 -CATACATATCACGAACCCGAACCAACTCAAC
1 GCATCCATA--ATGAACTCGAACCAACTCAAC
56749185 GAGTTCAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
43 8 0.13
44 36 0.57
45 18 0.29
46 1 0.02
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (44 bp):
GCATCCATAATGAACTCGAACCAACTCAACAAGCTCGGATGCTT
Found at i:56750102 original size:50 final size:50
Alignment explanation
Indices: 56749974--56750263 Score: 269
Period size: 50 Copynumber: 5.8 Consensus size: 50
56749964 AACCGAAGCT
* * * * *
56749974 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
56750023 ATCCGGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * **
56750073 ATCTGATACACGTAGTAGCCTGCACTTAGTTA-TACACACGTGATCGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAG-TACTACACACGTGACCTAA-CC
* * ** * * * *
56750124 TTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
56750174 ATCTGGTACACGTAGTAGCCTGCAATTAGTACTACACACGTGACTTAAAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
*** * * *
56750226 ATCTTAAACACATAGTAGCCTGCACATAGTACTGCACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
56750264 TGTGTGCTCA
Statistics
Matches: 191, Mismatches: 44, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
49 38 0.20
50 82 0.43
51 37 0.19
52 34 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:56750169 original size:101 final size:101
Alignment explanation
Indices: 56750035--56750216 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
56750025 CCGGTACATG
* * *
56750035 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
56750100 AGTTA-TACACACGTGATCGAAGTTTTCGGGTATGCA
66 AG-TACTACACACGTGATCGAAGTTTTCGGGTATGCA
* * *
56750136 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCAATT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
56750201 AGTACTACACACGTGA
66 AGTACTACACACGTGA
56750217 CTTAAAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 2 0.03
101 72 0.97
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCAATT
AGTACTACACACGTGATCGAAGTTTTCGGGTATGCA
Found at i:56753379 original size:29 final size:29
Alignment explanation
Indices: 56753329--56753403 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
56753319 CTTAATAATC
* *
56753329 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTACCATGCA-TTTCA
*
56753359 AACTCGCACACTTAGTACCATGCATTTCA
1 AACCCGCACACTTAGTACCATGCATTTCA
*
56753388 AGCCCGCACACTTAGT
1 AACCCGCACACTTAGT
56753404 GCCAATCTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.08
29 33 0.85
30 3 0.08
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTACCATGCATTTCA
Found at i:56756348 original size:21 final size:21
Alignment explanation
Indices: 56756322--56756365 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
56756312 CCATTCAAGG
56756322 ACACATCACTGTAAATCACAA
1 ACACATCACTGTAAATCACAA
56756343 ACACATCACTGTAAATCACAA
1 ACACATCACTGTAAATCACAA
56756364 AC
1 AC
56756366 TCTTTCCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.30, G:0.05, T:0.18
Consensus pattern (21 bp):
ACACATCACTGTAAATCACAA
Found at i:56757803 original size:23 final size:23
Alignment explanation
Indices: 56757777--56757861 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 23
56757767 TCTATTAGGA
*
56757777 TGAAACGGTAAGCTTTATCGAGC
1 TGAAACAGTAAGCTTTATCGAGC
** *
56757800 TG-AACAGTAAGGCCATA-CAAGC
1 TGAAACAGTAA-GCTTTATCGAGC
** *
56757822 TGAAATGGTAAG-TTCAATCGAGC
1 TGAAACAGTAAGCTT-TATCGAGC
56757845 TGAAAACAGTAAGCTTT
1 TG-AAACAGTAAGCTTT
56757862 TCTAAGCTAA
Statistics
Matches: 43, Mismatches: 13, Indels: 11
0.64 0.19 0.16
Matches are distributed among these distances:
22 15 0.35
23 18 0.42
24 8 0.19
25 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (23 bp):
TGAAACAGTAAGCTTTATCGAGC
Found at i:56762108 original size:44 final size:44
Alignment explanation
Indices: 56762058--56762150 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
56762048 TATTATGACC
*
56762058 TTACTAACATCCCGTAGAAATTAAAATAATAATAAAATAAAAAT
1 TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
*
56762102 TTACTAACATCCCATAGAAATTAAATTAATAATAAAATAAAAAT
1 TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
56762146 TTACT
1 TTACT
56762151 CGTCAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (44 bp):
TTACTAACATCCCATAGAAATTAAAATAATAATAAAATAAAAAT
Found at i:56768057 original size:2 final size:2
Alignment explanation
Indices: 56768050--56768074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56768040 TATATTATCA
56768050 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
56768075 GATCCAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56770257 original size:2 final size:2
Alignment explanation
Indices: 56770252--56770279 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56770242 TCATCTTTAA
56770252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56770280 TATTGTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56771801 original size:79 final size:80
Alignment explanation
Indices: 56771658--56771865 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
56771648 ACCTTCGGAG
* * ** * * * *
56771658 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
56771722 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
56771737 CTTAACCCGGATATCA-CGATTA-CACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
56771799 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
56771816 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
56771866 TTATAATTTC
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.63
80 35 0.34
81 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:56771810 original size:40 final size:40
Alignment explanation
Indices: 56771719--56771865 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 40
56771709 ATGGTAACCC
* * * * ** * *
56771719 GCACCAAGGCCTACGGGACTTAACCCGGATATCACGATTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* ** *
56771759 -CACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
56771798 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
56771838 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACCAATGCCTTCGGGTCTTAGCCCGG
56771866 TTATAATTTC
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 29 0.33
40 58 0.67
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:56782942 original size:40 final size:40
Alignment explanation
Indices: 56782876--56783026 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
56782866 AAATTGAATG
* * *
56782876 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56782915 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56782955 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
56782995 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56783027 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56807847 original size:28 final size:27
Alignment explanation
Indices: 56807784--56807853 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
56807774 ATAGTGAGTC
*
56807784 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
56807811 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56807839 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56807854 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56814273 original size:68 final size:70
Alignment explanation
Indices: 56814201--56814398 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
56814191 ACACCCTGTA
* * * *
56814201 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
56814263 ATAAAT
65 ATAAAT
*
56814269 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
56814334 ATAAAT
65 ATAAAT
*
56814340 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
56814399 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:56814312 original size:41 final size:41
Alignment explanation
Indices: 56814267--56814384 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56814257 TGAAAGATAA
56814267 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56814308 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56814338 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56814379 ATGTAG
1 ATGTAG
56814385 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56814324 original size:71 final size:71
Alignment explanation
Indices: 56814235--56814398 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56814225 GAGATGTATC
56814235 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56814300 AGGACA
66 AGGACA
56814306 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56814371 AGGACA
66 AGGACA
56814377 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56814399 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56818534 original size:28 final size:27
Alignment explanation
Indices: 56818472--56818540 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
56818462 TAGTGAGTCT
*
56818472 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTATATAATCAACTC
*
56818499 GCACACTTAGTGCTATATGATCAAACTC
1 GCACACTTAGTGCTATATAATC-AACTC
56818527 GCACACTTAGTGCT
1 GCACACTTAGTGCT
56818541 GCACAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
GCACACTTAGTGCTATATAATCAACTC
Found at i:56834115 original size:47 final size:47
Alignment explanation
Indices: 56834031--56834296 Score: 210
Period size: 47 Copynumber: 5.7 Consensus size: 47
56834021 GGTGCCAATT
* *
56834031 CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATG
1 CCATGTCCCAGACAT-GTCTTACACTGACTCATATCTCGAAGCCGATG
* * *
56834078 CCATTTCCCAAACATAGTCTTACACTGACT-ATCATCTCGTAGCCGATG
1 CCATGTCCCAGACAT-GTCTTACACTGACTCAT-ATCTCGAAGCCGATG
* * * * *
56834126 -CATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATG
1 CCATGTCCCAGACATGTCTTACACTGACTCATATCTCGAAGCCGATG
* * *
56834172 -CATGTTCCAGACATGTCTTACACT-AGCTCTTGTCTC-AATGCCGATG
1 CCATGTCCCAGACATGTCTTACACTGA-CTCATATCTCGAA-GCCGATG
* * * * *
56834218 CCATGTCCCAGACATGGTCCTATACTGGCTCTCATAATGT-G--GCCAATG
1 CCATGTCCCAGACAT-GTCTTACACT-G-ACTCAT-ATCTCGAAGCCGATG
*
56834266 -CATGTCCCAGACATGTCTTACACTGGCTCAT
1 CCATGTCCCAGACATGTCTTACACTGACTCAT
56834297 GCAAGTGACC
Statistics
Matches: 175, Mismatches: 32, Indels: 27
0.75 0.14 0.12
Matches are distributed among these distances:
44 5 0.03
45 2 0.01
46 70 0.40
47 71 0.41
48 21 0.12
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CCATGTCCCAGACATGTCTTACACTGACTCATATCTCGAAGCCGATG
Found at i:56834169 original size:46 final size:46
Alignment explanation
Indices: 56834032--56834293 Score: 230
Period size: 46 Copynumber: 5.6 Consensus size: 46
56834022 GTGCCAATTC
* * *
56834032 CATGTCCCAGACATGGTCTTACACTGGC-TCATATCTCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTCATATC-GAGGCCGATG
* * * * *
56834078 CCATTTCCCAAACATAGTCTTACACTGACTATCATCTCGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TCATATCG-AGGCCGATG
56834126 CATGTCCCAGACAT-GTCTTACACTGGCTTACATATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTT-CATATCGAGGCCGATG
* * ** * * *
56834172 CATGTTCCAGACAT-GTCTTACACTAGCTCTTGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TCATATCGAGGCCGATG
* * * *
56834218 CCATGTCCCAGACATGGTCCTATACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TCAT-ATCGAGGCCGATG
56834266 CATGTCCCAGACAT-GTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
56834294 CATGCAAGTG
Statistics
Matches: 175, Mismatches: 31, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 75 0.43
47 64 0.37
48 26 0.15
49 8 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTCATATCGAGGCCGATG
Found at i:56834276 original size:94 final size:92
Alignment explanation
Indices: 56834119--56834294 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 92
56834109 TCATCTCGTA
* * *
56834119 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTTCCAGAC
1 GCCGATGCATGTCCCAGACATGTCCTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
56834184 ATGTCTTACACTAGCTCTTGTCTCAAT
66 ATGTCTTACACTAGCTCTTGTCTCAAT
* *
56834211 GCCGATGCCATGTCCCAGACATGGTCCTATACTGGCTCT-CATAAT-GTGGCCAATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCCTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCCC
*
56834274 AGACATGTCTTACACTGGCTC
62 AGACATGTCTTACACTAGCTC
56834295 ATGCAAGTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 7 0.09
93 14 0.19
94 50 0.68
95 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCCTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTTGTCTCAAT
Found at i:56834284 original size:140 final size:140
Alignment explanation
Indices: 56834032--56834293 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 140
56834022 GTGCCAATTC
* * *
56834032 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATTTCCCAAACATAGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACATAGTC
* * *
56834097 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATC
66 CTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATC
56834162 GAGGCCGATG
131 GAGGCCGATG
* * * * *
56834172 CATGTTCCAGACAT-GTCTTACACTAGCTCTTGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAA-GCCGATGCCATGTCCCAAACATAGT
* * * *
56834236 CCTATACTGGCTCTCATAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACACTGGCT
65 CCTACACTGACTATCAT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCT
56834294 CATGCAAGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 21 0.20
140 83 0.79
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAAACATAGTC
CTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATC
GAGGCCGATG
Found at i:56837540 original size:25 final size:24
Alignment explanation
Indices: 56837512--56837590 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
56837502 CCTAATGGCG
56837512 ATGTGATGAATGTGAAGGTGTATAT
1 ATGTGATGAATGTGAA-GTGTATAT
* * ***
56837537 ATGTGAT-AAGGCCGAA-TGGCCA-
1 ATGTGATGAATG-TGAAGTGTATAT
56837559 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTG-AAGTGTATAT
56837584 ATGTGAT
1 ATGTGAT
56837591 AGGGCCGAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 6 0.15
25 17 0.44
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (24 bp):
ATGTGATGAATGTGAAGTGTATAT
Found at i:56837580 original size:47 final size:47
Alignment explanation
Indices: 56837388--56837640 Score: 364
Period size: 47 Copynumber: 5.3 Consensus size: 47
56837378 GTATGAGATA
56837388 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
56837437 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56837484 TATATTTATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAGGTG
1 TATA--TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
56837532 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
56837579 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56837626 TATAAATGTGATAAG
1 TATATATGTGATAAG
56837641 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
46 19 0.10
47 82 0.43
48 25 0.13
49 64 0.34
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:56837647 original size:95 final size:95
Alignment explanation
Indices: 56837388--56837640 Score: 368
Period size: 95 Copynumber: 2.7 Consensus size: 95
56837378 GTATGAGATA
*
56837388 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAG-GTGTATATATGTGATAAGG
* *
56837453 CCTAATGGCCGATGTGATGAATGTGAAAGTG
65 CCGAATGGCCAATGTGATGAATGTGAAAGTG
56837484 TATATTTATGTGATAAGGCCTAATGG-CGATGTGATGAATGT-GAAGGTGTATATATGTGATAAG
1 TATA--TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGGTGTATATATGTGATAAG
56837547 GCCGAATGGCCAATGTGATGAATGTGAAAGTG
64 GCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * * *
56837579 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGGTGTATATATGTGATAAG
56837641 TCCCGAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
93 17 0.12
94 29 0.20
95 55 0.38
96 7 0.05
97 15 0.10
98 20 0.14
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (95 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGGTGTATATATGTGATAAGGC
CGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:56839835 original size:40 final size:40
Alignment explanation
Indices: 56839766--56839997 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
56839756 GAGAATTGAG
* * * * *
56839766 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
56839806 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56839846 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
56839886 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
56839926 AGTAATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
56839966 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
56839998 ATCATGCTGG
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:56845348 original size:55 final size:56
Alignment explanation
Indices: 56845283--56845397 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
56845273 AGCATGGCTG
*
56845283 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGAT-ATGTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAAT-TTGTGGCA-TAGCCA
* * *
56845339 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
56845394 CCAG
1 CCAG
56845398 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 27 0.52
56 24 0.46
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:56845360 original size:27 final size:27
Alignment explanation
Indices: 56845308--56845397 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
56845298 GTGACAGAGT
56845308 CACCAGATACAGATATGTTGTGGCAGTGC
1 CACCAGA-ACAGATAT-TTGTGGCAGTGC
* *
56845337 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
56845364 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
56845392 CACCAG
1 CACCAG
56845398 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:56845550 original size:28 final size:28
Alignment explanation
Indices: 56845503--56845567 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
56845493 AAATTAACCC
*
56845503 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
56845531 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
56845559 TAGGGGTAT
1 TAGGGGTAT
56845568 CCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:56848711 original size:40 final size:38
Alignment explanation
Indices: 56848662--56848769 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56848652 ATCACGATTT
*
56848662 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56848702 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56848742 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56848770 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Done.