Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 88 of 253
Found at i:27358470 original size:49 final size:50
Alignment explanation
Indices: 27358359--27358494 Score: 125
Period size: 50 Copynumber: 2.7 Consensus size: 50
27358349 TACACAAGGA
** * * *
27358359 TCAATA-TATCATCACATAAATACCTACCTACATAGCCAAAAATACAAGAT
1 TCAATAGTA-CATCACATATGTACCTAACTATATGGCCAAAAATACAAGAT
* * * * *
27358409 TCAATAGTACATCATATATGTACGTAACTATGTGGCCAAACATTCAAG-T
1 TCAATAGTACATCACATATGTACCTAACTATATGGCCAAAAATACAAGAT
* *
27358458 TCAATA-TAACATCACATTTGTACCTACCTATATGGCC
1 TCAATAGT-ACATCACATATGTACCTAACTATATGGCC
27358495 GATTATACAA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 31 0.45
50 35 0.51
51 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (50 bp):
TCAATAGTACATCACATATGTACCTAACTATATGGCCAAAAATACAAGAT
Found at i:27359398 original size:30 final size:31
Alignment explanation
Indices: 27359323--27359407 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
27359313 TCAATCTCAA
*
27359323 CATAT-ACTAGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
27359353 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
27359384 CATATCAC-GGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
27359408 TGTAAACGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
30 19 0.39
31 30 0.61
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:27359662 original size:25 final size:25
Alignment explanation
Indices: 27359626--27359695 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
27359616 CTCTTTTAAT
* *
27359626 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGAGCAAAGCCCTTTTCAGTA
*
27359651 AATTGGAGCAAAGCCCTTTTCAGTA
1 AACTGGAGCAAAGCCCTTTTCAGTA
* * *
27359676 AACTGGGGTAAAGTCCTTTT
1 AACTGGAGCAAAGCCCTTTT
27359696 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGAGCAAAGCCCTTTTCAGTA
Found at i:27359770 original size:20 final size:20
Alignment explanation
Indices: 27359745--27359850 Score: 185
Period size: 20 Copynumber: 5.3 Consensus size: 20
27359735 TATGAATTTC
27359745 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27359765 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
27359785 TCATATACATATCATACATA
1 TCATGTGCATATCATACATA
*
27359805 TCATGTGCATATCATACGTA
1 TCATGTGCATATCATACATA
27359825 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27359845 TCATGT
1 TCATGT
27359851 ATATCAAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27364117 original size:30 final size:31
Alignment explanation
Indices: 27364042--27364124 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
27364032 TCAATCTCAG
**
27364042 CATAT-ACTGGGCTAAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
27364072 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
27364103 CATATCAC-GGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
27364125 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 18 0.38
31 29 0.62
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:27364378 original size:25 final size:25
Alignment explanation
Indices: 27364345--27364439 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
27364335 CTCTTTTAAT
* * *
27364345 AACTCGGGCAAAGCCCGTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
27364370 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
27364395 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* * *
27364420 AACTAGAGCAAAGCTCTTTT
1 AACTGGGGCAAAGCCCTTTT
27364440 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:27364512 original size:20 final size:20
Alignment explanation
Indices: 27364487--27364543 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
27364477 TATATGTATT
27364487 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
* *
27364507 TATCATGTGCATAGCATACG
1 TATCATGTGCATATCATACA
* *
27364527 TAACATGTGCTTATCAT
1 TATCATGTGCATATCAT
27364544 GTCAAATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:27364824 original size:40 final size:40
Alignment explanation
Indices: 27364780--27364967 Score: 283
Period size: 40 Copynumber: 4.7 Consensus size: 40
27364770 GCTACTTGCT
27364780 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
27364820 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
*
27364860 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
27364900 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
27364939 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27364968 CATCCGAATA
Statistics
Matches: 134, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 99 0.74
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:27364879 original size:80 final size:79
Alignment explanation
Indices: 27364780--27364967 Score: 315
Period size: 80 Copynumber: 2.4 Consensus size: 79
27364770 GCTACTTGCT
27364780 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCAGG-CTTAGCCCGG
* *
27364845 -TTATAGTAACTCGCA
65 AAT-TAGTAACTAGCA
*
27364860 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCAGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCAGGCTTAGCCCGGA
*
27364925 ATTAGTCACTAGCA
66 ATTAGTAACTAGCA
27364939 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27364968 CATCCGAATA
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
79 48 0.47
80 54 0.53
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCAGGCTTAGCCCGGA
ATTAGTAACTAGCA
Found at i:27368138 original size:9 final size:9
Alignment explanation
Indices: 27368124--27368150 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
27368114 ATTGGACAAA
27368124 ACACAAAAT
1 ACACAAAAT
27368133 ACACAAAAT
1 ACACAAAAT
27368142 ACACAAAAT
1 ACACAAAAT
27368151 CTCCATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
ACACAAAAT
Found at i:27393709 original size:55 final size:53
Alignment explanation
Indices: 27393622--27393876 Score: 252
Period size: 55 Copynumber: 4.8 Consensus size: 53
27393612 ATTAAGGTTT
* * *
27393622 AAGGATACCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTCAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
27393677 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-T-TTCTAAGGC
* * *
27393732 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
27393785 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
27393834 AAGGATACCACGTAAGACCATGACAAGTCATGGTAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
27393877 GTACCCGGGT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 8 0.05
53 40 0.24
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:27393828 original size:108 final size:110
Alignment explanation
Indices: 27393629--27393829 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
27393619 TTTAAGGATA
* *
27393629 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTCAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
27393694 CCATGTCAAGACATGGCATTGATAAGTTATTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
* * *
27393739 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
27393801 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
27393830 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
Found at i:27393971 original size:23 final size:24
Alignment explanation
Indices: 27393945--27393989 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27393935 AAGGTAAGAT
*
27393945 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
27393968 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
27393990 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:27406057 original size:43 final size:43
Alignment explanation
Indices: 27406002--27406088 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
27405992 ATATCGTACA
** *
27406002 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTAC-TCGTAAACACATATCG
27406045 ATGCC-ACTGTCCCAGACAAGGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACTCGTAAACACATATCG
27406088 A
1 A
27406089 AATCACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACTCGTAAACACATATCG
Found at i:27408814 original size:66 final size:69
Alignment explanation
Indices: 27408725--27408854 Score: 176
Period size: 66 Copynumber: 1.9 Consensus size: 69
27408715 ACATGGTGAA
* * *
27408725 CACTTAGTACCACTCATGCGACCTAGC-CAATT-TGTCT-CGTAGCTCTCTTGTCTACATGGTGT
1 CACTTAGAACCACGCATGCGACCTAGCACAATTATCTCTCCGTAGCTCTCTTGTCTACATGGTGT
27408787 CCTT
66 CCTT
* *
27408791 CACTTAGAATCACGCATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG
1 CACTTAGAACCACGCATGCGACCTAGC-ACAATTATCTCT-CCGTAGCTCTCTTGTCTACATGG
27408855 GATACATCCC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
66 24 0.44
68 4 0.07
69 4 0.07
71 22 0.41
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (69 bp):
CACTTAGAACCACGCATGCGACCTAGCACAATTATCTCTCCGTAGCTCTCTTGTCTACATGGTGT
CCTT
Found at i:27412909 original size:42 final size:42
Alignment explanation
Indices: 27412852--27413016 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 42
27412842 TAGCGTTATG
* * *
27412852 TGTGATTTTGTGTAAGACTATATCTGGGATATGGCATCGATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * ** *
27412894 TGTGATTTCGTGTAAGACCATGTTTGATACATGGCATCGATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
27412936 TGAGA-CACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATA
1 TGTGATCTCGTGTAAGACCATATCTGGGATA-TGGCATCG--ATA
* *
27412980 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATCTCGTGTAAGACCATATCTGGGATATGGCAT
27413017 TGGCATCTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
41 16 0.16
42 47 0.48
44 13 0.13
45 21 0.22
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATCTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:27413014 original size:86 final size:83
Alignment explanation
Indices: 27412861--27413016 Score: 186
Period size: 86 Copynumber: 1.8 Consensus size: 83
27412851 GTGTGATTTT
* * ** * * * *
27412861 GTGTAAGACTATATCTGGGATATGGCATCGATATGTGATTTCGTGTAAGACCATGTTTGATACAT
1 GTGTAAGACCATAGCTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGACAT
27412926 GGCATCGATATGAGACAC
66 GGCATCGATATGAGACAC
* *
27412944 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATATGTGATCCCATGTAAGACCATATCTGGGA
1 GTGTAAGACCATAGCTGGGATA-TGGCATCG--ATATGTGATCCCATGTAAGACCATATCTGAGA
*
27413009 TATGGCAT
63 CATGGCAT
27413017 TGGCATCTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 19 0.32
84 8 0.14
86 32 0.54
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGAGACAT
GGCATCGATATGAGACAC
Found at i:27413189 original size:16 final size:17
Alignment explanation
Indices: 27413168--27413199 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27413158 AAGCATTGGC
27413168 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
27413184 TTCATGATCATTATGA
1 TTCATGATCATTATGA
27413200 AAGTGACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:27417487 original size:40 final size:40
Alignment explanation
Indices: 27417386--27417545 Score: 227
Period size: 40 Copynumber: 4.0 Consensus size: 40
27417376 ATTGATACCT
* * *
27417386 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
27417426 GGGCT-A-TCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
27417464 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
27417504 GGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
27417544 GG
1 GG
27417546 TTAAACTCCG
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
38 34 0.31
39 4 0.04
40 70 0.65
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:27425957 original size:47 final size:47
Alignment explanation
Indices: 27425879--27426382 Score: 738
Period size: 47 Copynumber: 10.6 Consensus size: 47
27425869 CCCTTCGGGA
* * * * * *
27425879 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27425926 CCTGTCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27425973 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27426020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27426067 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27426116 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27426165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27426212 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27426261 CTTATCACATATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27426310 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27426357 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
27426383 CACAATTATC
Statistics
Matches: 421, Mismatches: 30, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 236 0.56
49 185 0.44
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27426184 original size:145 final size:145
Alignment explanation
Indices: 27425879--27426382 Score: 804
Period size: 145 Copynumber: 3.5 Consensus size: 145
27425869 CCCTTCGGGA
* * * * * * * *
27425879 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
27425942 ACTTTCATATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* * *
27426005 CATCGGCTATTAGGC
131 CATTGGCCATTCGGC
27426020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
27426085 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
27426150 CATTGGCCATTCGGC
131 CATTGGCCATTCGGC
*
27426165 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
27426230 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATGTATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
27426295 CATTGGCCATTCGGC
131 CATTGGCCATTCGGC
*
27426310 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27426375 A--TTCACAT
66 ACTTTCACAT
27426383 CACAATTATC
Statistics
Matches: 339, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 47 0.14
143 50 0.15
145 242 0.71
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATTGGCCATTCGGC
Found at i:27430050 original size:40 final size:40
Alignment explanation
Indices: 27429995--27430137 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
27429985 ATTGATACCC
* *
27429995 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
*
27430035 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
* *
27430075 GGGCTAAGTCCCGAATGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
27430115 GGGCTAAGTCCCGAAGACATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
27430138 AGCTAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 93 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:27430151 original size:80 final size:80
Alignment explanation
Indices: 27429995--27430153 Score: 223
Period size: 80 Copynumber: 2.0 Consensus size: 80
27429985 ATTGATACCC
* * * *
27429995 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCTGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGACATTTGAG
27430060 CGAGTTACTATATCT
66 CGAGTTACTATATCT
* *
27430075 GGGCTAAGTCCCGAATGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGACATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAGTCCCGAAGACATTTGA
*
27430139 GCTAG-TAGCTATATC
65 GCGAGTTA-CTATATC
27430154 CGGCTAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 66 0.94
81 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGACATTTGAG
CGAGTTACTATATCT
Found at i:27435149 original size:5 final size:5
Alignment explanation
Indices: 27435136--27435176 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
27435126 ACTCTATTCT
*
27435136 AAAGAA AAAGA AAAGA AATAGA AAGGA AAAGA AAAGA AAAG
1 AAAG-A AAAGA AAAGA AA-AGA AAAGA AAAGA AAAGA AAAG
27435177 CATAAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:27435152 original size:11 final size:11
Alignment explanation
Indices: 27435136--27435175 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
27435126 ACTCTATTCT
27435136 AAAGAAAAAGA
1 AAAGAAAAAGA
*
27435147 AAAGAAATAG-
1 AAAGAAAAAGA
*
27435157 AAAGGAAAAGA
1 AAAGAAAAAGA
27435168 AAAGAAAA
1 AAAGAAAA
27435176 GCATAAAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:27437265 original size:25 final size:25
Alignment explanation
Indices: 27437237--27437318 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
27437227 TAATATGAAG
27437237 TATAACTATGTTAAATTTAATTGAC
1 TATAACTATGTTAAATTTAATTGAC
* ** ** *
27437262 TATATAATA-AATACAATATATAAAAGGC
1 TATA-ACTATGTTA-AAT-T-TAATTGAC
27437290 TATAACTATGTTAAATTTAATTGAC
1 TATAACTATGTTAAATTTAATTGAC
27437315 TATA
1 TATA
27437319 TAATAAATAC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 15 0.38
26 7 0.17
27 7 0.17
28 11 0.28
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (25 bp):
TATAACTATGTTAAATTTAATTGAC
Found at i:27437267 original size:27 final size:27
Alignment explanation
Indices: 27437237--27437321 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
27437227 TAATATGAAG
27437237 TATAACTATGTTAAATTTAATTGACTA
1 TATAACTATGTTAAATTTAATTGACTA
** ** *
27437264 TATAA-TA-AATACAATATATAAAAGGC--
1 TATAACTATGTTA-AAT-T-TAATTGACTA
27437290 TATAACTATGTTAAATTTAATTGACTA
1 TATAACTATGTTAAATTTAATTGACTA
27437317 TATAA
1 TATAA
27437322 TAAATACAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
25 7 0.17
26 11 0.27
27 16 0.39
28 7 0.17
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (27 bp):
TATAACTATGTTAAATTTAATTGACTA
Found at i:27437294 original size:53 final size:53
Alignment explanation
Indices: 27437237--27437338 Score: 204
Period size: 53 Copynumber: 1.9 Consensus size: 53
27437227 TAATATGAAG
27437237 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
1 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
27437290 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAA
1 TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAA
27437339 TGGTTTAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (53 bp):
TATAACTATGTTAAATTTAATTGACTATATAATAAATACAATATATAAAAGGC
Found at i:27437512 original size:30 final size:30
Alignment explanation
Indices: 27437476--27437537 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
27437466 ATTTAAAAGA
27437476 AAACTCATATATGGCACCTCAACCTTTAGT
1 AAACTCATATATGGCACCTCAACCTTTAGT
27437506 AAACTCATATATGGCACCTCAACCTTTAGT
1 AAACTCATATATGGCACCTCAACCTTTAGT
27437536 AA
1 AA
27437538 CAAGGCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (30 bp):
AAACTCATATATGGCACCTCAACCTTTAGT
Found at i:27440839 original size:26 final size:26
Alignment explanation
Indices: 27440803--27440910 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
27440793 TGGTACAAAT
27440803 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
27440829 TGATAATGGATTAGGTAAATATCCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
27440855 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
27440881 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
27440907 TGAT
1 TGAT
27440911 GGACATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:27442430 original size:26 final size:26
Alignment explanation
Indices: 27442401--27442453 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27442391 TTTACAGTTT
27442401 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
27442427 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
27442453 T
1 T
27442454 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:27445214 original size:80 final size:80
Alignment explanation
Indices: 27444983--27445225 Score: 389
Period size: 80 Copynumber: 3.0 Consensus size: 80
27444973 TTTAGCCAGA
* * *
27444983 TATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
* *
27445048 GGGA-CTTAGCCCGGA
66 -GGATCTTAGTCCGGT
* *
27445063 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATGCCTTT
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
27445128 GGATCTTAGTCCGGT
66 GGATCTTAGTCCGGT
*
27445143 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCGCGGATATAGTCACTAGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
27445208 GAATCTTAGTCCGGT
66 GGATCTTAGTCCGGT
27445223 TAT
1 TAT
27445226 CATCCGAATA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
79 3 0.02
80 149 0.98
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (80 bp):
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
GGATCTTAGTCCGGT
Found at i:27445216 original size:40 final size:40
Alignment explanation
Indices: 27444964--27445208 Score: 352
Period size: 40 Copynumber: 6.2 Consensus size: 40
27444954 AACCCAAGTA
* * *
27444964 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
27445003 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
27445043 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
27445083 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
27445123 CCTT-TGGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
*
27445163 CCTTCGGGACTTAGCGCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27445203 CCTTCG
1 CCTTCG
27445209 AATCTTAGTC
Statistics
Matches: 184, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.09
40 164 0.89
41 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:27445771 original size:13 final size:13
Alignment explanation
Indices: 27445755--27445782 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27445745 TTTATTATTT
27445755 TTAACACAAAATA
1 TTAACACAAAATA
27445768 TTAACACAAAATA
1 TTAACACAAAATA
27445781 TT
1 TT
27445783 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:27452003 original size:39 final size:39
Alignment explanation
Indices: 27451942--27452192 Score: 270
Period size: 39 Copynumber: 6.5 Consensus size: 39
27451932 AAGCCAAGTA
* * *
27451942 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA--TAACTCGCACAAATG
* *
27451980 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATA-TAACTCGCACAAATG
27452020 CCTTCGGGACTTAGCCCGGAT-TAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATAT-ATAACTCGCACAAATG
*
27452059 CCTTCGGGACTTAGCCCGG--ATGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATATAACTCGCACAAATG
*
27452095 CCTTCGGGACTTAG-CCGGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-ATAT-ATAACTCGCACAAATG
* * *
27452135 CCTTC-GGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TA-TAACTCGCACAAATG
27452174 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27452193 TTATCATCCA
Statistics
Matches: 185, Mismatches: 14, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
35 4 0.02
36 18 0.10
37 10 0.05
38 15 0.08
39 87 0.47
40 51 0.28
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATATAACTCGCACAAATG
Found at i:27452172 original size:115 final size:115
Alignment explanation
Indices: 27451968--27452192 Score: 328
Period size: 115 Copynumber: 2.0 Consensus size: 115
27451958 GGATATAGCT
* * *
27451968 ACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTA
1 ACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTA
* *
27452033 GCCCGGATTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTA
66 GCCCGGACTAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTA
* *
27452083 ACTCGCACAATGCCTTCGGGACTTAG-CCGGAATGTAATAACTCGCACAAATGCCTTC-GGACTT
1 ACTCGCACAATGCCTTCGGGACATAGCCCGG-ATATAATAACTCGCACAAATGCCTTCGGGACTT
* * *
27452146 AGCCCGGAACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
65 AGCCCGG-ACTAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
27452193 TTATCATCCA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 17 0.17
115 81 0.83
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (115 bp):
ACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGACTAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTA
Found at i:27460849 original size:37 final size:37
Alignment explanation
Indices: 27460799--27460877 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27460789 TTATTAAGAA
* * *
27460799 GTCTTACCCGGACATAATCTCC-ATACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCTACACGAAGTCATCGG
*
27460836 GTCTTACCCGGACAAAATCCCTACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCTACACGAAGTCATCGG
27460873 GTCTT
1 GTCTT
27460878 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 2 0.05
37 35 0.95
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCTACACGAAGTCATCGG
Found at i:27461074 original size:47 final size:47
Alignment explanation
Indices: 27460996--27461667 Score: 1038
Period size: 47 Copynumber: 14.1 Consensus size: 47
27460986 CCCTTCGGGA
* * * ** * *
27460996 CTTATCACATTTATACACTTTCACATCCATCACGTTTGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27461043 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461090 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461139 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27461188 CTTATCACGTATATACACTTTCACAGTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461235 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461282 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461329 CCTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461378 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27461425 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27461474 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27461521 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27461570 CTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27461617 CTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27461664 CTTA
1 CTTA
27461668 CTATCATTTC
Statistics
Matches: 586, Mismatches: 31, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
47 357 0.61
49 229 0.39
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27461201 original size:96 final size:96
Alignment explanation
Indices: 27460996--27461667 Score: 1086
Period size: 96 Copynumber: 7.0 Consensus size: 96
27460986 CCCTTCGGGA
* * * ** * * * *
27460996 CTTATCACATTTATACACTTTCACATCCATCACGTTTGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27461059 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
27461090 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
27461155 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27461188 CTTATCACGTATATACACTTTCACAGTCATCACATCGACCATTAGGCCTTATCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27461251 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27461282 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27461347 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
27461378 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27461443 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
27461474 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27461539 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
27461570 CTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTAT--CATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
27461633 ACTTTCACGTTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
27461664 CTTA
1 CTTA
27461668 CTATCATTTC
Statistics
Matches: 544, Mismatches: 28, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
94 140 0.26
96 366 0.67
98 38 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27461442 original size:239 final size:237
Alignment explanation
Indices: 27460996--27461667 Score: 1069
Period size: 239 Copynumber: 2.8 Consensus size: 237
27460986 CCCTTCGGGA
* * * ** * * * * *
27460996 CTTATCACATTTATACACTTTCACATCCATCACGTTTGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27461061 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
*
27461126 TCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
131 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
27461191 ATCACGTATATACACTTTCACAGTCATCACATCGACCATTAGGC
194 ATCACATATATACACTTTCACAGTCATCACATCGACCATTAGGC
* *
27461235 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
27461300 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATGTATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
*
27461365 TCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
27461430 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CAC--ATATATACACTTTCACAGTCATCACATCGACCATTAGGC
*
27461474 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
27461539 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CATATATATACACTTTCACGTTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
* *
27461602 CATCGGCCATTAGGCCTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTT
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
27461667 A
194 A
27461668 CTATCATTTC
Statistics
Matches: 402, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
237 46 0.11
239 314 0.78
241 42 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACAGTCATCACATCGACCATTAGGC
Found at i:27464649 original size:81 final size:80
Alignment explanation
Indices: 27464510--27464701 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
27464500 GGATATAGCT
* * * *
27464510 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAATAACTCACACAAATGCCTTCGGGACTT
**
27464574 AGCCCGGATGTAATA
66 AGCCCGGAACTAATA
* *
27464589 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATGTAATAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-AATATAATAACTCACACAAATGCCTTCGGGACT
* *
27464654 TAGCCCGGAACTAGTC
65 TAGCCCGGAACTAATA
27464670 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCG
27464702 GTTATCATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 7 0.07
80 21 0.21
81 44 0.44
82 23 0.23
83 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAATAACTCACACAAATGCCTTCGGGACTT
AGCCCGGAACTAATA
Found at i:27464702 original size:41 final size:40
Alignment explanation
Indices: 27464510--27464702 Score: 248
Period size: 40 Copynumber: 4.8 Consensus size: 40
27464500 GGATATAGCT
* * *
27464510 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AGTAATA
* *
27464549 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
*
27464589 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-GTAATA
* * *
27464630 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
27464670 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
27464703 TTATCATCCA
Statistics
Matches: 137, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 6 0.04
40 64 0.47
41 63 0.46
42 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
Found at i:27470590 original size:26 final size:26
Alignment explanation
Indices: 27470561--27470668 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27470551 TGGTACAAAT
27470561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27470587 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27470613 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27470639 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27470665 TGAT
1 TGAT
27470669 GGGCATTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27472464 original size:43 final size:38
Alignment explanation
Indices: 27472364--27472455 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
27472354 GCAGTAACTG
27472364 TGGAGTGTTGGGCTGGGTGGGTTGCGCTATTCCCCACA
1 TGGAGTGTTGGGCTGGGTGGGTTGCGCTATTCCCCACA
27472402 TGGAGTGTTGGGCTGGGTGGGTTGCGCTATTCCCCACA
1 TGGAGTGTTGGGCTGGGTGGGTTGCGCTATTCCCCACA
27472440 TGGAGTGTAT-GGCTGG
1 TGGAGTGT-TGGGCTGG
27472456 TACGGGTGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 52 0.98
39 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.41, T:0.29
Consensus pattern (38 bp):
TGGAGTGTTGGGCTGGGTGGGTTGCGCTATTCCCCACA
Found at i:27476352 original size:53 final size:52
Alignment explanation
Indices: 27476277--27476434 Score: 203
Period size: 51 Copynumber: 3.0 Consensus size: 52
27476267 AGGATCACAT
* * * *
27476277 ATCATACCGATGCCATATCCCAGATATGGTCTTATATGGAATCACATTATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCAC
*
27476330 ATCACACCGATGCCATAGCCCAGCTATGGTATTATACGGAAAT-AC-TATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACATATCAC
** * *
27476381 ATTGCACCGATGCCATAGCCTAGCTATGGTCTTATACGGAAGCACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCAC
27476433 AT
1 AT
27476435 ATTTTCCGTC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
50 2 0.02
51 43 0.47
52 8 0.09
53 36 0.39
54 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (52 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCAC
Found at i:27498825 original size:39 final size:39
Alignment explanation
Indices: 27498782--27498936 Score: 247
Period size: 39 Copynumber: 4.0 Consensus size: 39
27498772 CCGGACATAT
* * *
27498782 TTCCAGCACGTAGTCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
27498821 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
* * *
27498860 TTCCATCACATAGCCTGCGGACCTTAAGTCCGGATATAG
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
*
27498899 TTCCAGCACATAGCCTGCGGACCCTAAGTCTGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATA
27498937 CTTCATCACT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
Found at i:27505143 original size:46 final size:47
Alignment explanation
Indices: 27504959--27505228 Score: 254
Period size: 46 Copynumber: 5.7 Consensus size: 47
27504949 GTAAGTTACT
* *
27504959 GATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CGTC-TCGAGGCC
* * * * *
27505008 AATGCCATGTCCCAGACATGGT-TTACACTAGCTCTCGCATATCCG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACG--TCT-CGAGGCC
* *
27505057 GATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCG-AGGCC
*
27505103 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TACGTCTCGAGGCC
* * *
27505149 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTTGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAC--GTCTCGAGGCC
27505195 GATGCCATGTCCCA-AGCATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGA-CATGGTCTTACACTGGCT
27505229 CACACCAATG
Statistics
Matches: 184, Mismatches: 21, Indels: 32
0.78 0.09 0.14
Matches are distributed among these distances:
44 14 0.08
45 17 0.09
46 61 0.33
47 12 0.07
48 24 0.13
49 45 0.24
50 11 0.06
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCGAGGCC
Found at i:27511267 original size:84 final size:84
Alignment explanation
Indices: 27511162--27511379 Score: 287
Period size: 84 Copynumber: 2.6 Consensus size: 84
27511152 GTGCAAGTCG
* * *
27511162 ATGTCTGGGACATCGACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCGTA
1 ATGTCTGGGACATAGGCATCGTAT-TGATTTCATGTAAGACCATGTCTGGGACATCGGCATCATA
27511227 TCCGATTTCGTGTAAG-ACC
65 TCCGATTTCGTGTAAGAACC
* **
27511246 ATGTCTGGGACATTGGCATCGTATTTGATTTTGTGTAAGACCATGTCTGGGACATCGGCATCATA
1 ATGTCTGGGACATAGGCATCGTA-TTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCATA
*
27511311 TCTGATTTCGTGTAAGAACC
65 TCCGATTTCGTGTAAGAACC
* * * *
27511331 -TGTCTGGGACAGAGGCATTGATATTGAATTACATGTAAGACCACGTCTG
1 ATGTCTGGGACATAGGCATCG-TATTG-ATTTCATGTAAGACCATGTCTG
27511380 AGACGTCGAC
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
84 93 0.79
85 24 0.21
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
ATGTCTGGGACATAGGCATCGTATTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCATAT
CCGATTTCGTGTAAGAACC
Found at i:27511348 original size:42 final size:42
Alignment explanation
Indices: 27511162--27511341 Score: 281
Period size: 42 Copynumber: 4.3 Consensus size: 42
27511152 GTGCAAGTCG
* *
27511162 ATGTCTGGGACATCGACATCGTATCTGATTTCATGTAAGACC
1 ATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACC
*
27511204 ATGTCTGGGACATCGGCATCGTATCCGATTTCGTGTAAGACC
1 ATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACC
* * *
27511246 ATGTCTGGGACATTGGCATCGTATTTGATTTTGTGTAAGACC
1 ATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACC
*
27511288 ATGTCTGGGACATCGGCATCATATCTGATTTCGTGTAAGAACC
1 ATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAG-ACC
27511331 -TGTCTGGGACA
1 ATGTCTGGGACA
27511342 GAGGCATTGA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 123 0.98
43 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
ATGTCTGGGACATCGGCATCGTATCTGATTTCGTGTAAGACC
Found at i:27517999 original size:42 final size:42
Alignment explanation
Indices: 27517940--27518268 Score: 401
Period size: 42 Copynumber: 7.8 Consensus size: 42
27517930 TCAATTTGAT
* *
27517940 ATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATCTA
1 ATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
* **
27517983 ATTTCATGTAAGACCATGTCTGGGACATCGGTTTCGTATCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
* *
27518025 ATTTCGTGTAAGA-TATGTCTGGGACATTGGCATCGTATCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * *
27518066 ATTTTGTGTAAAACCATGTCTGGGACATCGACATCGTATCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
*
27518108 ATTTTGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * * * *
27518150 CTTTTGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * **
27518192 ATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCTG
* * * *
27518234 AATTACATGTAAGACCACGTCTGGGACGTCGGCAT
1 -ATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
27518269 TGTACCCGTT
Statistics
Matches: 248, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
41 35 0.14
42 178 0.72
43 35 0.14
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTG
Found at i:27518090 original size:125 final size:126
Alignment explanation
Indices: 27517940--27518268 Score: 428
Period size: 125 Copynumber: 2.6 Consensus size: 126
27517930 TCAATTTGAT
*
27517940 ATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTG
1 ATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTG
** * * *
27518005 GGACATCGGTTTCGTATCTGATTTCGTGTAAGA-TATGTCTGGGACATTGGCATCGTATCTG
65 GGACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
* * * * **
27518066 ATTTTGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCTGG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTGG
* *
27518131 GACATCGGCATCGTATCTGCTTTTGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
66 GACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
* * ** * *
27518192 ATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACATGTAAGACCACGTCT
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCT-AATTTCATGTAAGACCATGTCT
*
27518256 GGGACGTCGGCAT
64 GGGACATCGGCAT
27518269 TGTACCCGTT
Statistics
Matches: 173, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
125 82 0.47
126 59 0.34
127 32 0.18
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (126 bp):
ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTGG
GACATCGGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
Found at i:27542535 original size:40 final size:39
Alignment explanation
Indices: 27542490--27542589 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
27542480 AAGTGACCAT
* *
27542490 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-CCCGAAGGCATTTGCGCGAGATACTAA
* * *
27542530 TTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTTGCGCGAGATACTAA
**
27542569 ATCCGGGTTAAGTCCCGAAGG
1 ATCCGGACTAAG-CCCGAAGG
27542590 TACGTGATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
39 34 0.65
40 18 0.35
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTTGCGCGAGATACTAA
Found at i:27542552 original size:39 final size:40
Alignment explanation
Indices: 27542451--27542589 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
27542441 TTGAATGATG
* *
27542451 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCCA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27542490 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
27542531 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27542570 TCCGGGTTAAGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
27542590 TACGTGATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 34 0.40
40 38 0.45
41 12 0.14
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27558223 original size:44 final size:46
Alignment explanation
Indices: 27558103--27558278 Score: 123
Period size: 44 Copynumber: 3.8 Consensus size: 46
27558093 GATTTCTTGT
27558103 GTGCTAGTGTAAGACATG-TCTGGGACATGCATCGGCCACAATATGA
1 GTGCTAGTGTAAGACATGTTC-GGGACATGCATCGGCCACAATATGA
* * * * * * *
27558149 GTGCCAGTGTAAGACATGTAT-GAGATATGCATTGG-C-TAAGA-GTC
1 GTGCTAGTGTAAGACATGT-TCGGGACATGCATCGGCCACAATATG-A
* *
27558193 GTGCTAGTGTAAGACATGTTCGGGACATGCATCAG-CACGTATTTATGA
1 GTGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCAC--A-ATATGA
* *
27558241 GAGCTAGTATAAGACCATG-TCTGGGACATGGCATCGGC
1 GTGCTAGTGTAAGA-CATGTTC-GGGACAT-GCATCGGC
27558279 AACTTATCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
43 2 0.02
44 32 0.33
45 1 0.01
46 28 0.29
47 1 0.01
48 16 0.16
49 12 0.12
50 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
GTGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCACAATATGA
Found at i:27562362 original size:40 final size:40
Alignment explanation
Indices: 27562289--27562389 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
27562279 ACCCAAGTAT
* *
27562289 CTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
27562328 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
27562368 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
27562390 CATCCGAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.20
40 45 0.80
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:27566171 original size:21 final size:21
Alignment explanation
Indices: 27566133--27566172 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27566123 ATTACTCCAA
*
27566133 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
27566154 AGAAGCCAGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
27566173 AAGATTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Found at i:27584780 original size:5 final size:5
Alignment explanation
Indices: 27584754--27584806 Score: 61
Period size: 5 Copynumber: 9.8 Consensus size: 5
27584744 ATGTGTTAAA
*
27584754 ATATAT ATATT AAATT ATTATT ATATT ATATT ATATTAT ATATT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATA-T-T ATATT ATATT
27584803 ATAT
1 ATAT
27584807 AAATAAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 28 0.67
6 10 0.24
7 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:27584797 original size:12 final size:12
Alignment explanation
Indices: 27584757--27584807 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
27584747 TGTTAAAATA
*
27584757 TATATATTAAAT
1 TATATATTATAT
27584769 TAT-TATTATA-
1 TATATATTATAT
27584779 T-TATATTATAT
1 TATATATTATAT
27584790 TATATATTATAT
1 TATATATTATAT
27584802 TATATA
1 TATATA
27584808 AATAAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 1 0.03
10 8 0.23
11 7 0.20
12 19 0.54
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATTATAT
Found at i:27586146 original size:18 final size:19
Alignment explanation
Indices: 27586123--27586161 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
27586113 ATATATAGAT
27586123 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
27586141 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
27586160 AT
1 AT
27586162 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:27586447 original size:41 final size:41
Alignment explanation
Indices: 27586399--27586499 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 41
27586389 TCGACCTCGA
*
27586399 GTCGATGAGACACTGGGTGTCACTATA-TTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCA-ACTTTACTTCGGATAG
* **
27586439 ATTCGATGAGGTACT-GG-GT-ACCAACTTTACTTCGGATAG
1 -GTCGATGAGACACTGGGTGTCACCAACTTTACTTCGGATAG
*
27586478 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
27586500 AATATTGCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
37 1 0.02
38 16 0.34
39 14 0.30
40 4 0.09
41 12 0.26
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAACTTTACTTCGGATAG
Found at i:27586511 original size:39 final size:40
Alignment explanation
Indices: 27586401--27586511 Score: 109
Period size: 39 Copynumber: 2.8 Consensus size: 40
27586391 GACCTCGAGT
* * **
27586401 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** *
27586442 CGATGAGGTACTGGGTACCAACT-TTACTTCGGATAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
27586480 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
27586512 AACTATCCAA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
38 18 0.33
39 19 0.35
40 1 0.02
41 16 0.30
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:27586679 original size:18 final size:19
Alignment explanation
Indices: 27586658--27586698 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27586648 AATGAAATGA
27586658 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
27586676 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
27586695 GAAA
1 GAAA
27586699 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:27591690 original size:40 final size:39
Alignment explanation
Indices: 27591634--27591737 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
27591624 TTTTGTGGCA
*
27591634 TTTTTCAAAAAA-CGCCGCTAAAGATCGAGC-ACTAGCGGCG
1 TTTTT-AAAAAAGCGCCGCTAAAGATAGA-CTA-TAGCGGCG
* * *
27591674 TTTTTTAAAAAGCGCCGCTAAAGGTATACTTATAGCGGCG
1 TTTTTAAAAAAGCGCCGCTAAAGATAGAC-TATAGCGGCG
27591714 TTTCTTAAAAAAGCGCCGCTAAAG
1 TTT-TTAAAAAAGCGCCGCTAAAG
27591738 CCACTAAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
39 6 0.11
40 29 0.53
41 20 0.36
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (39 bp):
TTTTTAAAAAAGCGCCGCTAAAGATAGACTATAGCGGCG
Found at i:27592107 original size:12 final size:12
Alignment explanation
Indices: 27592090--27592117 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27592080 TTTTTTATTC
27592090 AAACGCCGCTAA
1 AAACGCCGCTAA
27592102 AAACGCCGCTAA
1 AAACGCCGCTAA
27592114 AAAC
1 AAAC
27592118 CAGTTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:27602495 original size:47 final size:46
Alignment explanation
Indices: 27602380--27602694 Score: 230
Period size: 47 Copynumber: 6.7 Consensus size: 46
27602370 TTTCTTGTGT
* * *
27602380 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATAAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGA-TATGAGA
* * *
27602426 GCCAATGTAAGACCATGCCTGGGACATGACATCGGCGTAGATATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTAGATATGAGA
* *
27602474 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGATGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAT-ATGAGA
* * * * *
27602521 GCCAGTGTAAGA-AGTGTCTAGGACATGCACCGG-TTAAGAGTCT---C
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGCCT-AGA-TATGAGA
* ** * *
27602565 GCTAGTGTAAGACATGT-TCGGGACATGCATCAACACGTATATACGAGA
1 GCCAGTGTAAGACATGTCT-GGGACATGCATCGGC-C-TAGATATGAGA
* * * *
27602613 GCTAGTATAAGACCATGTCTGGGACATAGCATCGGCCTCGATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGAT-ATGAGA
* *
27602662 ACCTGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
27602695 CGCAACGAGA
Statistics
Matches: 211, Mismatches: 39, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 24 0.11
45 2 0.01
46 26 0.12
47 66 0.31
48 38 0.18
49 47 0.22
50 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATATGAGA
Found at i:27606346 original size:27 final size:26
Alignment explanation
Indices: 27606316--27606552 Score: 163
Period size: 27 Copynumber: 8.7 Consensus size: 26
27606306 TAATAAAGAG
*
27606316 AAATTACCAAAATACCCTCAGTTTGTA
1 AAATTACCGAAATACCCTC-GTTTGTA
** *
27606343 AAA-TATTGAAGTACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTC-GTTTGTA
*
27606369 AAATTACTGAAATACCC-CGATTTGTA
1 AAATTACCGAAATACCCTCG-TTTGTA
* *
27606395 AAATTACTGAAAAACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCG-TTTGTA
* * *
27606422 AAATTACCGAAACACCCTCGATTGTG
1 AAATTACCGAAATACCCTCGTTTGTA
** * *
27606448 AAATTACTAAAATACACTCAATTTGTA
1 AAATTACCGAAATACCCTC-GTTTGTA
*
27606475 AAATTACCGAAATAGAAACACCACCGATTTGTA
1 AAATTACCGAAAT----AC-CC-TCG-TTTGTA
* * * *
27606508 AAATTATCAAAATACCCTTGTAATGTA
1 AAATTACCGAAATACCCTCGT-TTGTA
*
27606535 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
27606553 TGTAGTGTAA
Statistics
Matches: 168, Mismatches: 30, Indels: 24
0.76 0.14 0.11
Matches are distributed among these distances:
25 1 0.01
26 64 0.38
27 78 0.46
28 2 0.01
29 2 0.01
31 2 0.01
32 1 0.01
33 18 0.11
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (26 bp):
AAATTACCGAAATACCCTCGTTTGTA
Found at i:27606357 original size:26 final size:27
Alignment explanation
Indices: 27606316--27606488 Score: 192
Period size: 26 Copynumber: 6.5 Consensus size: 27
27606306 TAATAAAGAG
**
27606316 AAATTACCAAAATACCCTC-AGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* * *
27606343 AAA-TATTGAAGTACCCTCGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
27606369 AAATTACTGAAATACCC-CGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
27606395 AAATTACTGAAAAACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
27606422 AAATTACCGAAACACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
27606448 AAATTACTAAAATACACTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
27606475 AAATTACCGAAATA
1 AAATTACTGAAATA
27606489 GAAACACCAC
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
26 64 0.52
27 58 0.48
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:27606412 original size:53 final size:54
Alignment explanation
Indices: 27606316--27606488 Score: 203
Period size: 53 Copynumber: 3.3 Consensus size: 54
27606306 TAATAAAGAG
* * ** *
27606316 AAATTACCAAAATACCCTC-AGTTTGTAAAA-TATTGAAGTACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTAAAATTACTGAAAAACCCTCGATTTGTA
*
27606369 AAATTACTGAAATACCC-CGATTTGTAAAATTACTGAAAAACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAAAACCCTCGATTTGTA
* * * *
27606422 AAATTACCGAAACACCCTCGA-TTGTGAAATTACT-AAAATACACTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAAA-ACCCTCGATTTGTA
27606475 AAATTACCGAAATA
1 AAATTACCGAAATA
27606489 GAAACACCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
52 14 0.13
53 87 0.84
54 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAAAACCCTCGATTTGTA
Found at i:27606553 original size:27 final size:27
Alignment explanation
Indices: 27606504--27606592 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
27606494 ACCACCGATT
* *
27606504 TGTAAAATTATCAAAATACCCTTGTAA
1 TGTAAAATTATCGAAATACCCTTGTAG
27606531 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
27606558 TGTAAAATGAACGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
27606585 GGTAAAAT
1 TGTAAAAT
27606593 AACTATTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:27612284 original size:46 final size:46
Alignment explanation
Indices: 27612197--27612284 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
27612187 GCTTAGTATT
* * *
27612197 CCTATACTCTCGAGTCCGCAACATATGTAGGAGGTCGGAACCAATA
1 CCTATACTCTCAAGTCCGCAACATATGTAGGAGCTCAGAACCAATA
* * * *
27612243 CCTATATTCTCAAGTTCGCAACATATGTTGGAGCTTAGAACC
1 CCTATACTCTCAAGTCCGCAACATATGTAGGAGCTCAGAACC
27612285 TATTCCTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (46 bp):
CCTATACTCTCAAGTCCGCAACATATGTAGGAGCTCAGAACCAATA
Found at i:27614903 original size:79 final size:81
Alignment explanation
Indices: 27614800--27614984 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
27614790 GCTCCTCGTT
* *
27614800 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
27614863 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
27614880 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
27614944 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
27614960 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27614985 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:27614984 original size:40 final size:40
Alignment explanation
Indices: 27614800--27614984 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
27614790 GCTCCTCGTT
* *
27614800 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27614840 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
27614880 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
27614919 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
27614960 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27614985 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27618474 original size:43 final size:42
Alignment explanation
Indices: 27618397--27618478 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
27618387 ATGATTTACG
* *
27618397 TGTAAGACCATGTTTGGGAGATCGGCATCGTATTTGATTTGA
1 TGTAAGACCATGTCTGGGAAATCGGCATCGTATTTGATTTGA
*
27618439 TGTAAGACCCTGTCTGGGACAAT-GGCATCGATATTTGATT
1 TGTAAGACCATGTCTGGGA-AATCGGCATCG-TATTTGATT
27618479 ACATGCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 24 0.69
43 11 0.31
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGAAATCGGCATCGTATTTGATTTGA
Found at i:27618508 original size:43 final size:43
Alignment explanation
Indices: 27618353--27618509 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
27618343 TGGGTTCTCG
* * *
27618353 TGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * **
27618397 TGTAAGACCATGTTTGGGA-GATCGGCATCG-TATTTGATTTGA
1 TGTAAGACCACGTCTGGGACG-TTGGCATCGATATTTGATTACA
**
27618439 TGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATTACA
* *
27618482 TGCAAAACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
27618510 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:27620254 original size:39 final size:40
Alignment explanation
Indices: 27620193--27620329 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
27620183 AAGCCAAGTA
* * *
27620193 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
27620231 CCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
27620271 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27620311 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27620330 TTATCATCCA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 12 0.14
39 16 0.18
40 59 0.68
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27626111 original size:47 final size:47
Alignment explanation
Indices: 27626042--27626135 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
27626032 ATATCATCAT
*
27626042 TCAGTCCATCTTCGAAACGTTTACACATCACAACTTCTGAAGAAATG
1 TCAGTCCATCTTCAAAACGTTTACACATCACAACTTCTGAAGAAATG
27626089 TCAGTCCATCTTCAAAACGTTTACACATCACAACTTCTGAAGAAATG
1 TCAGTCCATCTTCAAAACGTTTACACATCACAACTTCTGAAGAAATG
27626136 CATTCTCGCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (47 bp):
TCAGTCCATCTTCAAAACGTTTACACATCACAACTTCTGAAGAAATG
Found at i:27637487 original size:41 final size:41
Alignment explanation
Indices: 27637430--27637513 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
27637420 GTATAGTTTA
27637430 TAAGCTTGAATTTGGTTGATAATAATATGGTATGAATGATG
1 TAAGCTTGAATTTGGTTGATAATAATATGGTATGAATGATG
27637471 TAAGCTTGAATTTGGTTGATAATAATATGGTATGAATGATG
1 TAAGCTTGAATTTGGTTGATAATAATATGGTATGAATGATG
27637512 TA
1 TA
27637514 TGATTTGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (41 bp):
TAAGCTTGAATTTGGTTGATAATAATATGGTATGAATGATG
Found at i:27650185 original size:15 final size:16
Alignment explanation
Indices: 27650165--27650202 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
27650155 TATTTTCTTC
27650165 TGGATTTCCT-TATGT
1 TGGATTTCCTATATGT
*
27650180 TGGATTT-CTATATTT
1 TGGATTTCCTATATGT
27650195 TGGATTTC
1 TGGATTTC
27650203 TCCGTTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (16 bp):
TGGATTTCCTATATGT
Found at i:27652290 original size:16 final size:16
Alignment explanation
Indices: 27652269--27652299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27652259 AGTTTAGGGG
27652269 CAAAAATATAATTTTT
1 CAAAAATATAATTTTT
*
27652285 CAAAAATATGATTTT
1 CAAAAATATAATTTT
27652300 GAGTCGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
CAAAAATATAATTTTT
Found at i:27657832 original size:11 final size:11
Alignment explanation
Indices: 27657816--27657840 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27657806 TATCATGGAC
27657816 CATAAAATAAT
1 CATAAAATAAT
27657827 CATAAAATAAT
1 CATAAAATAAT
27657838 CAT
1 CAT
27657841 TTCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (11 bp):
CATAAAATAAT
Found at i:27658907 original size:22 final size:24
Alignment explanation
Indices: 27658879--27658922 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
27658869 ATTTTGTTCA
27658879 ACTTTAAATT-TTAT-TCAAAAAC
1 ACTTTAAATTGTTATATCAAAAAC
*
27658901 ACTTTAATTTGTTATATCAAAA
1 ACTTTAAATTGTTATATCAAAA
27658923 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAAATTGTTATATCAAAAAC
Found at i:27661172 original size:26 final size:27
Alignment explanation
Indices: 27661143--27661218 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
27661133 TCAATTTAAC
* *
27661143 CCTAGGGGTATTTTAGTAATTTTGC-A
1 CCTAGGGGTATTATAGTAATTTTCCAA
* *
27661169 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTATAGTAATTTTCCA-A
*
27661197 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTATAGTAATTT
27661219 AGCTATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
CCTAGGGGTATTATAGTAATTTTCCAA
Found at i:27662698 original size:26 final size:26
Alignment explanation
Indices: 27662667--27662774 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
27662657 TGAAATGCCC
*
27662667 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27662693 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27662719 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27662745 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27662771 ATCA
1 ATCA
27662775 ATTTGTACCA
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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27664567 original size:97 final size:98
Alignment explanation
Indices: 27664394--27664582 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 98
27664384 AAAGAGAGAG
27664394 AGAAAGTTTAGATTTTTAAAAATAAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
1 AGAAAGTTTAGATTTTTAAAAAT-AAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
27664459 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAA
65 TTTAAAACAAAGTAGTGATTTTTTTTTAAAAAAA
* * * *
27664493 AGAAAGTTTAGATTTTTAAAGAT-AAAAA-TATGTTTTTAGTCATTTTAAAGGAAGGTT-TAAAT
1 AGAAAGTTTAGATTTTTAAAAATAAAAAATTAT-TTTTTAGTCATTCTAAAGGAAAGTTAAAAAT
* **
27664555 GTTTAAAGCAAAGTTTTGATTTTTTTTT
65 -TTTAAAACAAAGTAGTGATTTTTTTTT
27664583 TTCAATTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
96 7 0.09
97 52 0.64
99 22 0.27
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.42
Consensus pattern (98 bp):
AGAAAGTTTAGATTTTTAAAAATAAAAAATTATTTTTTAGTCATTCTAAAGGAAAGTTAAAAATT
TTAAAACAAAGTAGTGATTTTTTTTTAAAAAAA
Found at i:27664677 original size:157 final size:153
Alignment explanation
Indices: 27664486--27664800 Score: 404
Period size: 157 Copynumber: 2.0 Consensus size: 153
27664476 ATTTTTTTTT
* *
27664486 AAAAAAAAGAAAGTTTAGATTTTTAAAGATAAAAATATG-TTTTTAGTCATTTTAAAGG-AAGGT
1 AAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGTAAAGT
* * * * *
27664549 TTAAATGTTTAAAGCAAAGTTTTGATTTTTTTTTTTCAATTATTTCAAAATAAAAACTTT-A-AT
66 TTAAATGTTTAAAACAAAGTTTT-A---ATCTTTTTAAACTATTTCAAAAT-AAAACTTTGATAT
27664612 ATTTAAGAAAAGTAGTGATTTTTAAAAG
126 ATTTAAGAAAAGTAGTGATTTTTAAAAG
27664640 AAAAAAAGAGAGAGAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGTA
1 AAAAAAA-AGA-A-AGTTTAGATTTTTAAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGGTA
* * * *
27664705 AAGTTTAAATTTTTAAAACAAAGTTTTAATCTTTTTAAACTATTTCGAAATAAAACTTTGATTTT
62 AAGTTTAAATGTTTAAAACAAAGTTTTAATCTTTTTAAACTATTTCAAAATAAAACTTTGATATA
* *
27664770 TTTTAGAAAAGTAGTGATTTTTTAAAG
127 TTTAAGAAAAGTAGTGATTTTTAAAAG
27664797 AAAA
1 AAAA
27664801 CTTTGATTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
154 7 0.05
155 11 0.08
156 20 0.14
157 57 0.41
159 20 0.14
160 25 0.18
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (153 bp):
AAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGTAAAGT
TTAAATGTTTAAAACAAAGTTTTAATCTTTTTAAACTATTTCAAAATAAAACTTTGATATATTTA
AGAAAAGTAGTGATTTTTAAAAG
Found at i:27664727 original size:20 final size:21
Alignment explanation
Indices: 27664704--27664744 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27664694 TTTTAAAGGT
27664704 AAAGTTTAAAT-TTTTAAAAC
1 AAAGTTTAAATCTTTTAAAAC
* *
27664724 AAAGTTTTAATCTTTTTAAAC
1 AAAGTTTAAATCTTTTAAAAC
27664745 TATTTCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAGTTTAAATCTTTTAAAAC
Found at i:27664732 original size:21 final size:21
Alignment explanation
Indices: 27664704--27664743 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27664694 TTTTAAAGGT
27664704 AAAGTTTAA-ATTTTTAAAAC
1 AAAGTTTAATATTTTTAAAAC
*
27664724 AAAGTTTTAATCTTTTTAAA
1 AAAG-TTTAATATTTTTAAA
27664744 CTATTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAGTTTAATATTTTTAAAAC
Found at i:27664807 original size:20 final size:20
Alignment explanation
Indices: 27664756--27664815 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
27664746 ATTTCGAAAT
**
27664756 AAAACTTTGATTTTTTTTAG
1 AAAACTTTGATTTTTTAAAG
* *
27664776 AAAAGTAGTGATTTTTTAAAG
1 AAAACT-TTGATTTTTTAAAG
*
27664797 AAAACTTTGATTTTGTAAA
1 AAAACTTTGATTTTTTAAA
27664816 AAAGAATACA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
AAAACTTTGATTTTTTAAAG
Found at i:27665009 original size:43 final size:43
Alignment explanation
Indices: 27664960--27665045 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
27664950 AAAATGAAAG
*
27664960 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGGATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
27665003 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
1 AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
27665046 TTATTCCCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (43 bp):
AATGAATAGATTTCTCGTATTTATATGTGCTAAAATGAATAAT
Found at i:27671338 original size:47 final size:47
Alignment explanation
Indices: 27671284--27671407 Score: 194
Period size: 47 Copynumber: 2.6 Consensus size: 47
27671274 TTCTAGTTGG
*
27671284 CCTTTGTGGCATATTTGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
27671331 CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
* * * * *
27671378 CTTTTATGGCATATTCAGTATGTTTCCTTT
1 CCTTTGTGGCATATTCGGTTTGTTGCCTTT
27671408 ATGGCATACT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (47 bp):
CCTTTGTGGCATATTCGGTTTGTTGCCTTTGTTTCATACCCTGGTAT
Found at i:27671368 original size:25 final size:25
Alignment explanation
Indices: 27671283--27671362 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
27671273 ATTCTAGTTG
*
27671283 GCCTTTGTGGCATATTTGGTTTGTT
1 GCCTTTGTGGCATATTCGGTTTGTT
** ** *
27671308 GCCTTTGTTTCATACCCTGG--T-AT
1 GCCTTTGTGGCATATTC-GGTTTGTT
27671331 -CCTTTGTGGCATATTCGGTTTGTT
1 GCCTTTGTGGCATATTCGGTTTGTT
27671355 GCCTTTGT
1 GCCTTTGT
27671363 TTCATACCCT
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
21 2 0.05
22 12 0.31
23 2 0.05
24 2 0.05
25 19 0.49
26 2 0.05
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.49
Consensus pattern (25 bp):
GCCTTTGTGGCATATTCGGTTTGTT
Found at i:27671434 original size:22 final size:21
Alignment explanation
Indices: 27671404--27671455 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
27671394 AGTATGTTTC
* *
27671404 CTTTATGGCATACTTTGATAG
1 CTTTGTGGCATACTCTGATAG
*
27671425 TCTTTGTGGCGTACTCTGATAG
1 -CTTTGTGGCATACTCTGATAG
27671447 CTTTTGTGG
1 C-TTTGTGG
27671456 TATATTCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.44
Consensus pattern (21 bp):
CTTTGTGGCATACTCTGATAG
Found at i:27680583 original size:46 final size:45
Alignment explanation
Indices: 27680505--27680667 Score: 127
Period size: 46 Copynumber: 3.6 Consensus size: 45
27680495 AGTTTTGCCA
*
27680505 AGGTTCTGAGCT-TCTGCATA-GTTTGCTGACTCAAGAATATAGGAAT
1 AGGTTCTGAGCTCT-TGCATATG-TTGCAGACTCAAGAAT-TAGGAAT
*
27680551 AGGTTCTGAGCTCTTGCATATGTTGCAAACTCAAGAATTCAGGAAT
1 AGGTTCTGAGCTCTTGCATATGTTGCAGACTCAAGAATT-AGGAAT
* * * * * * * * *
27680597 -GGATT-TCAAGCTCCTACATCTATTGCGGACCCGAGAATTTAGGTAT
1 AGG-TTCT-GAGCTCTTGCATATGTTGCAGACTCAAGAA-TTAGGAAT
*
27680643 AGGTTCTGAGCTCTTCCATATGTTG
1 AGGTTCTGAGCTCTTGCATATGTTG
27680668 AATACTTGAG
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
45 4 0.04
46 81 0.88
47 7 0.08
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
AGGTTCTGAGCTCTTGCATATGTTGCAGACTCAAGAATTAGGAAT
Found at i:27681511 original size:27 final size:28
Alignment explanation
Indices: 27681472--27681527 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
27681462 TTAGTATTCA
27681472 TCATATATATATACACATAACATAACAT
1 TCATATATATATACACATAACATAACAT
* *
27681500 TCAT-TATTTATACACATAACATAGCAT
1 TCATATATATATACACATAACATAACAT
27681527 T
1 T
27681528 TATCATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (28 bp):
TCATATATATATACACATAACATAACAT
Found at i:27683495 original size:79 final size:80
Alignment explanation
Indices: 27683364--27683511 Score: 246
Period size: 79 Copynumber: 1.9 Consensus size: 80
27683354 TATTCGGATG
* *
27683364 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
27683428 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
*
27683443 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
27683507 ATTTG
65 ATTTG
27683512 AGCAAGTAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 2 0.03
79 48 0.75
80 14 0.22
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:27683533 original size:79 final size:79
Alignment explanation
Indices: 27683364--27683544 Score: 242
Period size: 79 Copynumber: 2.3 Consensus size: 79
27683354 TATTCGGATG
* *
27683364 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* *
27683429 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
*
27683443 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
27683507 ATTTGAGCAAG-TAGCT
64 ATTTGAGCAAGTTA-CT
* * *
27683523 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
27683545 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 64 0.70
80 25 0.27
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:27683544 original size:39 final size:40
Alignment explanation
Indices: 27683364--27683511 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
27683354 TATTCGGATG
* *
27683364 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
27683404 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
27683443 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
27683483 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
27683512 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
39 35 0.35
40 66 0.65
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:27687315 original size:25 final size:25
Alignment explanation
Indices: 27687280--27687390 Score: 106
Period size: 25 Copynumber: 4.5 Consensus size: 25
27687270 TACATGTATT
* *
27687280 CTCATATGAGCTATGAATCGGTATG
1 CTCATACGAGCTATGAATCGGTAAG
* *
27687305 CTC-TCACGAGCTATAAATCGATAAG
1 CTCAT-ACGAGCTATGAATCGGTAAG
*
27687330 CTCATATGAGCTGA-GAATCGGTAAG
1 CTCATACGAGCT-ATGAATCGGTAAG
27687355 CTC-TCACGAG--ATGAAATCGGTAAG
1 CTCAT-ACGAGCTATG-AATCGGTAAG
27687379 CTCATACGAGCT
1 CTCATACGAGCT
27687391 GAGAATCAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 20 0.29
25 45 0.65
26 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (25 bp):
CTCATACGAGCTATGAATCGGTAAG
Found at i:27687391 original size:49 final size:49
Alignment explanation
Indices: 27687280--27687426 Score: 181
Period size: 49 Copynumber: 3.0 Consensus size: 49
27687270 TACATGTATT
* *
27687280 CTCATATGAGCT-ATGAATCGGTATGCTCTCACGAGCTAT-AAATCGATAAG
1 CTCATATGAGCTGA-GAATCGGTAAGCTCTCACGAG--ATGAAATCGGTAAG
27687330 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
1 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
* ** * * *
27687379 CTCATACGAGCTGAGAATCAATAAGCTCTCATGAGTTGAAATCAGTAA
1 CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAA
27687427 TCCCTAATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
48 2 0.02
49 52 0.60
50 32 0.37
51 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (49 bp):
CTCATATGAGCTGAGAATCGGTAAGCTCTCACGAGATGAAATCGGTAAG
Found at i:27687403 original size:25 final size:25
Alignment explanation
Indices: 27687320--27687406 Score: 106
Period size: 25 Copynumber: 3.5 Consensus size: 25
27687310 ACGAGCTATA
*
27687320 AATCGATAAGCTCATATGAGCTGAG
1 AATCGATAAGCTCATACGAGCTGAG
* *
27687345 AATCGGTAAGCTC-TCACGAGATGA-
1 AATCGATAAGCTCAT-ACGAGCTGAG
*
27687369 AATCGGTAAGCTCATACGAGCTGAG
1 AATCGATAAGCTCATACGAGCTGAG
*
27687394 AATCAATAAGCTC
1 AATCGATAAGCTC
27687407 TCATGAGTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 22 0.42
25 31 0.58
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
AATCGATAAGCTCATACGAGCTGAG
Found at i:27692946 original size:13 final size:13
Alignment explanation
Indices: 27692928--27692952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27692918 CGTGTTGGTT
27692928 CACACGGTCATGA
1 CACACGGTCATGA
27692941 CACACGGTCATG
1 CACACGGTCATG
27692953 TCTGGCGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
CACACGGTCATGA
Found at i:27694083 original size:37 final size:37
Alignment explanation
Indices: 27694024--27694132 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27694014 AGCTCAGACG
* * *
27694024 AAATCTCCACACGAAGTTATCGGGTCTTGCCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27694061 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27694098 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27694133 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27694347 original size:48 final size:48
Alignment explanation
Indices: 27694295--27694686 Score: 358
Period size: 48 Copynumber: 8.2 Consensus size: 48
27694285 TTCACACTAG
27694295 CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
1 CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
* * * *
27694343 CCATTCGGCTTTACCACATATGCATATCTCTTACATATTTCACATT-A
1 CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
*
27694390 GCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAA
1 -CCATTCGGCTTTACCACATATACATATCTCATATATATA--TCACATTGA
* * * *
27694441 CCATTCAGCTTTACCACATATGCATATCTCATACATATTTCACATT-A
1 CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
* * *
27694488 GCCATTCGGCTTTACCACATATACATATCTCATACACATTTCACATT-A
1 -CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
* * * *
27694536 GCCATTCGGCTTTACCACATATATGCATGT-TCATAT-T-CACCACATTGG
1 -CCATTCGGCTTTACCACATATA--CATATCTCATATATATATCACATTGA
* * * * * *
27694584 CCATTCGGCCTTATCACATATATGCATGT-TCACAT-T-CATCACATTGG
1 CCATTCGGCTTTACCACATATA--CATATCTCATATATATATCACATTGA
* * * * *
27694631 CCATTCGGCCTTATCACATATATGCATGT-TCATAT-T-CATCACATTGG
1 CCATTCGGCTTTACCACATATA--CATATCTCATATATATATCACATTGA
27694678 CCATTCGGC
1 CCATTCGGC
27694687 CTTATCTCAT
Statistics
Matches: 309, Mismatches: 27, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
47 106 0.34
48 151 0.49
49 5 0.02
50 46 0.15
51 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (48 bp):
CCATTCGGCTTTACCACATATACATATCTCATATATATATCACATTGA
Found at i:27694452 original size:146 final size:146
Alignment explanation
Indices: 27694281--27694558 Score: 459
Period size: 146 Copynumber: 1.9 Consensus size: 146
27694271 CATCGCCTAC
* * *
27694281 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATCACATT-GACC
1 ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCATACATATATCACATTAG-CC
* * *
27694345 ATTCGGCTTTACCACATATGCATATCTCTTACATATTTCACATTAGCCATTCGGCTTTACCACAT
65 ATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACAT
27694410 ATACATATCTCATATAT
130 ATACATATCTCATATAT
* * *
27694427 ATATTTCACATTAACCATTCAGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCATACATATATCACATTAGCCA
27694492 TTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATA
27694557 TA
131 TA
27694559 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
146 121 0.99
147 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (146 bp):
ATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCATACATATATCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTCATATAT
Found at i:27694482 original size:98 final size:98
Alignment explanation
Indices: 27694278--27694557 Score: 469
Period size: 96 Copynumber: 2.9 Consensus size: 98
27694268 GCACATCGCC
*
27694278 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATA--TCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
27694341 GACCATTCGGCTTTACCACATATGCATATCTCT
66 AACCATTCGGCTTTACCACATATGCATATCTCA
27694374 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
27694439 AACCATTCAGCTTTACCACATATGCATATCTCA
66 AACCATTCGGCTTTACCACATATGCATATCTCA
* *
27694472 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACACATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
27694535 AGCCATTCGGCTTTACCACATAT
66 AACCATTCGGCTTTACCACATAT
27694558 ATGCATGTTC
Statistics
Matches: 174, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
96 90 0.52
98 84 0.48
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:27694563 original size:98 final size:96
Alignment explanation
Indices: 27694278--27694557 Score: 463
Period size: 98 Copynumber: 2.9 Consensus size: 96
27694268 GCACATCGCC
* *
27694278 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATCACATT-G
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAG
*
27694342 ACCATTCGGCTTTACCACATATGCATATCTCT
66 -CCATTCGGCTTTACCACATATGCATATCTCA
27694374 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATTTCACATT
* *
27694439 AACCATTCAGCTTTACCACATATGCATATCTCA
64 AGCCATTCGGCTTTACCACATATGCATATCTCA
* *
27694472 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAG
27694537 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
27694558 ATGCATGTTC
Statistics
Matches: 172, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
96 81 0.47
98 91 0.53
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:27694602 original size:47 final size:47
Alignment explanation
Indices: 27694480--27694721 Score: 299
Period size: 47 Copynumber: 5.1 Consensus size: 47
27694470 CATACATATT
* * * * **
27694480 TCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACACA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TCATATTCA
* * *
27694526 TTTCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 --TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
* *
27694575 CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
27694622 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
* * ** *
27694669 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
27694716 TCACAT
1 TCACAT
27694722 AAAATCCTAA
Statistics
Matches: 177, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
47 135 0.76
48 31 0.18
49 7 0.04
50 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
Found at i:27694624 original size:25 final size:25
Alignment explanation
Indices: 27694596--27694674 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
27694586 ATTCGGCCTT
27694596 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
27694621 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-ACATTC
*
27694643 ATCACATATATGCATGTTCATATTC
1 ATCACATATATGCATGTTCACATTC
27694668 ATCACAT
1 ATCACAT
27694675 TGGCCATTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 10 0.25
23 7 0.17
24 6 0.15
25 17 0.43
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:27694649 original size:22 final size:22
Alignment explanation
Indices: 27694576--27694649 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
27694566 TCATATTCAC
27694576 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCGGCCTTAT
* * *
27694598 CACATATATG-CATGTTC-ACATTCAT
1 CACAT-T-GGCCA--TTCGGCCTT-AT
27694623 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCGGCCTTAT
27694645 CACAT
1 CACAT
27694650 ATATGCATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 15 0.38
23 7 0.18
24 7 0.18
25 10 0.26
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (22 bp):
CACATTGGCCATTCGGCCTTAT
Found at i:27696453 original size:13 final size:13
Alignment explanation
Indices: 27696435--27696466 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
27696425 CATCTTAAAT
27696435 ATACCTTCCGTAC
1 ATACCTTCCGTAC
27696448 ATACCTTCCGTAC
1 ATACCTTCCGTAC
27696461 ATACCT
1 ATACCT
27696467 GTATCACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (13 bp):
ATACCTTCCGTAC
Found at i:27697027 original size:40 final size:40
Alignment explanation
Indices: 27696983--27697254 Score: 490
Period size: 40 Copynumber: 6.8 Consensus size: 40
27696973 CCAGCATGAT
* *
27696983 TGCTCTTCGGGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27697023 TGCTCTTCGGGACTTAGCCCGGATAGATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27697063 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27697103 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27697143 TGCTCTTCGGGACTTATCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27697183 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27697223 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
27697255 CTCAATTCTC
Statistics
Matches: 223, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27698627 original size:37 final size:37
Alignment explanation
Indices: 27698521--27698629 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27698511 AGCTCAGATG
* * *
27698521 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27698558 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27698595 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27698630 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27698833 original size:50 final size:49
Alignment explanation
Indices: 27698775--27699057 Score: 432
Period size: 48 Copynumber: 5.8 Consensus size: 49
27698765 GCACATCGCC
*
27698775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-TA
* *
27698825 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCT-
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCTA
27698873 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-TA
* *
27698923 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCTA
*
27698971 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
*
27699019 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
27699058 TGCATGTTCA
Statistics
Matches: 215, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
48 124 0.58
49 6 0.03
50 85 0.40
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
Found at i:27698891 original size:98 final size:98
Alignment explanation
Indices: 27698775--27699056 Score: 489
Period size: 98 Copynumber: 2.9 Consensus size: 98
27698765 GCACATCGCC
*
27698775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
27698840 GACCATTCGGCTTTACCACATATGCATATCTCT
66 GACCATTCGGCTTTACCACATATGCATATCTCA
27698873 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
27698938 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATGCATATCTCA
* * *
27698971 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC--ATACACATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
27699034 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCGGCTTTACCACATAT
27699057 ATGCATGTTC
Statistics
Matches: 178, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
95 1 0.01
96 35 0.20
98 142 0.80
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:27699090 original size:47 final size:47
Alignment explanation
Indices: 27699027--27699314 Score: 477
Period size: 47 Copynumber: 6.1 Consensus size: 47
27699017 CATACACATT
* * * *
27699027 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
27699074 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27699121 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27699168 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27699215 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
27699262 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
27699309 TCACAT
1 TCACAT
27699315 AAAATCCTAA
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 227 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:27699202 original size:141 final size:141
Alignment explanation
Indices: 27698932--27699314 Score: 479
Period size: 141 Copynumber: 2.7 Consensus size: 141
27698922 ATATATATTT
* * * * *
27698932 CACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACATTGGCCATTC
* * * * * *
27698994 AGCTTTACCACATATACATATCTCATACACATT--TCACATTAGCCATTCGGCTTTACCACATAT
62 GGCCTTATCACATAT--ATA-CACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATAT
*
27699057 ATGCATGTTCATATTCAC
124 ATGCATGTTCACATTCAC
27699075 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
* ** * *
27699140 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATG
66 TTATCACATATATACACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATATATGCATG
*
27699205 TTCACATTCAT
131 TTCACATTCAC
* *
27699216 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
*
27699281 TTATCTCATATATACACATTCACATTCATCACAT
66 TTATCACATATATACACATTCACATTCATCACAT
27699315 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
139 8 0.04
140 2 0.01
141 137 0.65
142 30 0.14
143 19 0.09
144 4 0.02
145 11 0.05
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (141 bp):
CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
TTATCACATATATACACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATATATGCATG
TTCACATTCAC
Found at i:27707911 original size:45 final size:45
Alignment explanation
Indices: 27707808--27708027 Score: 302
Period size: 45 Copynumber: 5.0 Consensus size: 45
27707798 CCGAATTCAT
* * * * * *
27707808 TCACCGGCATT-TCGCCTGTTAGGCTCGAA-GCCTG-ATATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* * *
27707850 TCACCTGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
27707895 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
**
27707940 TCACCGGCATTATAGCCCACTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
* *
27707985 TCACCGACACTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
27708028 CTGTACGATA
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
42 10 0.06
43 16 0.10
44 4 0.03
45 130 0.81
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
Found at i:27710389 original size:41 final size:40
Alignment explanation
Indices: 27710269--27710453 Score: 246
Period size: 41 Copynumber: 4.6 Consensus size: 40
27710259 CTACTTGCTC
* * * *
27710269 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
* *
27710309 AATGCTTTTGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
27710349 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGG-ATGTAATAACTCGCACA
** * *
27710390 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACT--CGCACA
27710431 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
27710454 TTATCATCCA
Statistics
Matches: 130, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
40 62 0.48
41 64 0.49
42 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
Found at i:27710406 original size:81 final size:80
Alignment explanation
Indices: 27710269--27710453 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 80
27710259 CTACTTGCTC
* * * * *
27710269 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCTTTTGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGAA
*
27710334 GTAATAACT-CGCACA
66 CTAATAACTACGCA-A
* *
27710349 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGG-ATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGA
* *
27710414 ACTAGTCACTAGCGCAA
65 ACTAATAACTA-CGCAA
27710431 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
27710454 TTATCATCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 22 0.24
81 42 0.46
82 24 0.26
83 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGAA
CTAATAACTACGCAA
Found at i:27712247 original size:25 final size:25
Alignment explanation
Indices: 27712214--27712407 Score: 261
Period size: 25 Copynumber: 7.8 Consensus size: 25
27712204 GGCTGTCACA
*
27712214 GAAA-TATTAAGAGCAAATTTAACC
1 GAAATTATTAAGAACAAATTTAACC
27712238 GAAATTATTAAGAACAAATTTAACC
1 GAAATTATTAAGAACAAATTTAACC
27712263 GAAATTATTAAGAACAAATTTAACC
1 GAAATTATTAAGAACAAATTTAACC
*
27712288 GGAATTATTAAGAACAAATTTAACC
1 GAAATTATTAAGAACAAATTTAACC
* *
27712313 GGAATTATTAAGAGCAAATTTAACC
1 GAAATTATTAAGAACAAATTTAACC
*
27712338 -AGAATTATTAAGAACAAATTTAATC
1 GA-AATTATTAAGAACAAATTTAACC
* *
27712363 -AGAATTTTTAAGAGA-AAACTTAACC
1 GA-AATTATTAAGA-ACAAATTTAACC
*
27712388 GGAATTATTAAGAACAAATT
1 GAAATTATTAAGAACAAATT
27712408 AACAAGCTTA
Statistics
Matches: 153, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
24 5 0.03
25 147 0.96
26 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (25 bp):
GAAATTATTAAGAACAAATTTAACC
Done.