Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 104 of 297
Found at i:37338080 original size:91 final size:91
Alignment explanation
Indices: 37337925--37338199 Score: 550
Period size: 91 Copynumber: 3.0 Consensus size: 91
37337915 ATCACAAGGA
37337925 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
1 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
37337990 CAATTTAGAGAATCGTATTTCAAAGC
66 CAATTTAGAGAATCGTATTTCAAAGC
37338016 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
1 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
37338081 CAATTTAGAGAATCGTATTTCAAAGC
66 CAATTTAGAGAATCGTATTTCAAAGC
37338107 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
1 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
37338172 CAATTTAGAGAATCGTATTTCAAAGC
66 CAATTTAGAGAATCGTATTTCAAAGC
37338198 AA
1 AA
37338200 CCATTATTAA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 184 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (91 bp):
AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
CAATTTAGAGAATCGTATTTCAAAGC
Found at i:37351172 original size:48 final size:48
Alignment explanation
Indices: 37351110--37351658 Score: 945
Period size: 48 Copynumber: 11.4 Consensus size: 48
37351100 TATATATGTG
37351110 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351158 TGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351206 AGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351254 TGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351302 AGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351350 TGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351398 AGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
37351446 TGCGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
37351494 TGTGGTAAACCCGAATGGCTAGTGTCAACTATGTATGAGATATGCATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
37351542 CGTGGTAAAGCCGAATGGCTAATGCGAAATATGCATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
37351590 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
37351638 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
37351659 GTGATTCGGC
Statistics
Matches: 471, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 471 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:37351880 original size:37 final size:37
Alignment explanation
Indices: 37351830--37351928 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
37351820 ATATATTCCG
37351830 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
37351867 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
*
37351904 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
37351929 GGACTATTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:37356733 original size:49 final size:49
Alignment explanation
Indices: 37356664--37356804 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 49
37356654 GAAGCTATCT
*
37356664 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-TCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGTTCA
* * * *
37356713 GGTA-GACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCA
1 GGTACG-CATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--TTCA
* *
37356764 GGTACGCATAGTAGCCTACACTTAGTACTACAGATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
37356805 TTACAATAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
48 5 0.07
49 35 0.46
51 35 0.46
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGTTCA
Found at i:37362076 original size:27 final size:27
Alignment explanation
Indices: 37362046--37362223 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
37362036 ATATTGAGCC
* *
37362046 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
37362073 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37362100 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
37362128 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37362155 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
37362182 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
37362209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37362224 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37362158 original size:55 final size:54
Alignment explanation
Indices: 37362046--37362223 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
37362036 ATATTGAGCC
* * * * *
37362046 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
37362100 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
37362155 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
37362209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37362224 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:37366339 original size:32 final size:32
Alignment explanation
Indices: 37366298--37366367 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
37366288 GCAAGGGCAT
37366298 TAGTGAGCCCGAACGGCATCACTAAGAACTCG
1 TAGTGAGCCCGAACGGCATCACTAAGAACTCG
37366330 TAGTGAGCCCGAACGGCATCACTAAGAACTCG
1 TAGTGAGCCCGAACGGCATCACTAAGAACTCG
37366362 TAGTGA
1 TAGTGA
37366368 CCGTACCTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (32 bp):
TAGTGAGCCCGAACGGCATCACTAAGAACTCG
Found at i:37370114 original size:27 final size:27
Alignment explanation
Indices: 37370084--37370261 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37370074 ATATTGAGTC
* * * *
37370084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37370111 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37370138 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37370166 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37370193 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37370220 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37370247 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37370262 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37370223 original size:82 final size:81
Alignment explanation
Indices: 37370105--37370260 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37370095 TGCTATATAA
* *
37370105 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37370170 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37370187 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37370251 CACTTAGTGC
65 CACTTAGTGC
37370261 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37386448 original size:15 final size:15
Alignment explanation
Indices: 37386428--37386459 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37386418 TAACCTTAGT
*
37386428 TAAAAAATATTATAC
1 TAAAAAAAATTATAC
37386443 TAAAAAAAATTATAC
1 TAAAAAAAATTATAC
37386458 TA
1 TA
37386460 TCGCATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAAAATTATAC
Found at i:37391486 original size:13 final size:13
Alignment explanation
Indices: 37391468--37391492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37391458 TGTGGGTGCA
37391468 CACGACCGTGTCG
1 CACGACCGTGTCG
37391481 CACGACCGTGTC
1 CACGACCGTGTC
37391493 TAGCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:37397866 original size:43 final size:43
Alignment explanation
Indices: 37397702--37397869 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
37397692 GCTGGTATTA
* *
37397702 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
* * * *
37397745 TATTAGGGCCTTTGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
*
37397788 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
*
37397831 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGA
37397870 AATGATATGT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
Found at i:37398253 original size:45 final size:42
Alignment explanation
Indices: 37398186--37398293 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
37398176 TTGACTTGAT
* *
37398186 TATTCGGGCCTTTGAGCTTAGCAAACTATAATACCGGTGGGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
** *
37398231 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
37398273 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
37398294 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:37405754 original size:36 final size:36
Alignment explanation
Indices: 37405714--37405786 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
37405704 TAAAGTTCAC
37405714 TCTTTACTCTTGTTATTTATTTTAATTATGTTTACT
1 TCTTTACTCTTGTTATTTATTTTAATTATGTTTACT
*
37405750 TCTTTCCTCTTGTTATTTATTTTAATTATGTTTACT
1 TCTTTACTCTTGTTATTTATTTTAATTATGTTTACT
37405786 T
1 T
37405787 TAAGTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.64
Consensus pattern (36 bp):
TCTTTACTCTTGTTATTTATTTTAATTATGTTTACT
Found at i:37414833 original size:43 final size:43
Alignment explanation
Indices: 37414780--37414899 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
37414770 TTTATGTGGG
37414780 AAAACGCCACTATAA-AACATGACCTTTAGCGGCGCTTCTCATA
1 AAAACGCCACTA-AAGAACATGACCTTTAGCGGCGCTTCTCATA
* ** *
37414823 AAAATGCCACTAAAGAACATGACCTTTAGCGGTACTTCCCATA
1 AAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATA
****
37414866 AAAACATTGCTAAAGAACATGACCTTTAGCGGCG
1 AAAACGCCACTAAAGAACATGACCTTTAGCGGCG
37414900 TTTTTCCCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATA
Found at i:37414922 original size:43 final size:43
Alignment explanation
Indices: 37414795--37414946 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
37414785 GCCACTATAA
* * ** *
37414795 AACATGACCTTTAGCGGCGCTTCTCATAAAAATGCCACTAAAG
1 AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
** * *
37414838 AACATGACCTTTAGC-G-GTACTTCCCATAAAA-ACATTGCTAAAG
1 AACATGACCTTTAGCGGCGTTTTTCCCA-AAAATGC--TACTAAAG
*
37414881 AACATGACCTTTAGCGGCGTTTTTCCCACAAATGCTACTAAA-
1 AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
* * *
37414923 AACATGATCTTTAGCTGTGTTTTT
1 AACATGACCTTTAGCGGCGTTTTT
37414947 AGTAAAAGCA
Statistics
Matches: 86, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.30
43 42 0.49
44 4 0.05
45 9 0.10
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
Found at i:37414989 original size:43 final size:43
Alignment explanation
Indices: 37414942--37415059 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
37414932 TTTAGCTGTG
*
37414942 TTTTTA-GTAAAAGCACCACTAAAGGTCATGTTCTTT-AGCGGCA
1 TTTTTATG-AAAAGCACCACTAAAGGTCATGTT-TTTCAACGGCA
** *
37414985 TTTTTATGGGAAGCGCCACTAAAGGTCATGTTTTTCAACGGCA
1 TTTTTATGAAAAGCACCACTAAAGGTCATGTTTTTCAACGGCA
* *** *
37415028 TTTTTATGAGAAGTGGCACTAAAGGTGATGTT
1 TTTTTATGAAAAGCACCACTAAAGGTCATGTT
37415060 ATTTAGCAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
42 3 0.05
43 61 0.94
44 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
TTTTTATGAAAAGCACCACTAAAGGTCATGTTTTTCAACGGCA
Found at i:37415460 original size:66 final size:66
Alignment explanation
Indices: 37415350--37415493 Score: 175
Period size: 66 Copynumber: 2.2 Consensus size: 66
37415340 TCTTCATCAT
* * * * ** *
37415350 ACTTTAAAGCTGTAGCTGGAGTTCTTCATATTTTCTTGTTGCCTCTGCTT-TCCTCGTTGCTGCC
1 ACTTT-AAGTTGTAGCTGGAGTTCATCATATTTGCTTGTAGCCTCTGCTTCT-CTCAATGATGCC
37415414 TTC
64 TTC
37415417 ACTTTAAGTTGTAGCTGGAGTTCATCATATTTGCTT-TGAGCCTCTGCTTCTCTCAATGATGCCT
1 ACTTTAAGTTGTAGCTGGAGTTCATCATATTTGCTTGT-AGCCTCTGCTTCTCTCAATGATGCCT
37415481 TC
65 TC
*
37415483 GCTTTAAGTTG
1 ACTTTAAGTTG
37415494 AGTAATTTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
65 1 0.01
66 60 0.90
67 6 0.09
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (66 bp):
ACTTTAAGTTGTAGCTGGAGTTCATCATATTTGCTTGTAGCCTCTGCTTCTCTCAATGATGCCTT
C
Found at i:37421488 original size:25 final size:26
Alignment explanation
Indices: 37421439--37421492 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
37421429 TTTTAAATAT
37421439 ATAGATAAATAATATTTATCTTTATG
1 ATAGATAAATAATATTTATCTTTATG
*
37421465 ATAGTTAAAT-ATATTTAT-TCTTATG
1 ATAGATAAATAATATTTATCT-TTATG
37421490 ATA
1 ATA
37421493 ATATTTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 16 0.62
26 9 0.35
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (26 bp):
ATAGATAAATAATATTTATCTTTATG
Found at i:37421823 original size:19 final size:20
Alignment explanation
Indices: 37421799--37421836 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37421789 TATCTTAAAT
37421799 TTTAAAAT-AAAAATAAAAA
1 TTTAAAATCAAAAATAAAAA
*
37421818 TTTAAAATCAAAACTAAAA
1 TTTAAAATCAAAAATAAAA
37421837 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAAAATCAAAAATAAAAA
Found at i:37421837 original size:19 final size:18
Alignment explanation
Indices: 37421794--37421837 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
37421784 CAAGTTATCT
*
37421794 TAAATTTTAAAATAAAAA
1 TAAAATTTAAAATAAAAA
*
37421812 TAAAAATTTAAAATCAAAAC
1 T-AAAATTTAAAAT-AAAAA
37421832 TAAAAT
1 TAAAAT
37421838 AAATAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAATTTAAAATAAAAA
Found at i:37424270 original size:64 final size:64
Alignment explanation
Indices: 37424189--37424372 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
37424179 AGACATTATG
* * *
37424189 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
37424253 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
37424318 AA
63 AA
* * *
37424320 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
37424373 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:37428440 original size:41 final size:41
Alignment explanation
Indices: 37428379--37428474 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
37428369 AATAAATTCA
* *
37428379 CGGCATTTAT-GGAAAAACGTCGTTA-TAGCCTTACCTTTTG
1 CGGCGTTTATGGGAAAAACGTCGTTACT-GCCTTACCTTATG
*
37428419 CGGTGTTTATGGGAAAAACGTCGTTACTGCCTTACCTTATG
1 CGGCGTTTATGGGAAAAACGTCGTTACTGCCTTACCTTATG
37428460 CGGCGTTTATGGGAA
1 CGGCGTTTATGGGAA
37428475 CTTTGCTACC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 8 0.16
41 41 0.82
42 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
CGGCGTTTATGGGAAAAACGTCGTTACTGCCTTACCTTATG
Found at i:37430608 original size:42 final size:42
Alignment explanation
Indices: 37430561--37430713 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 42
37430551 AGGGTTATGT
* * * *
37430561 GTGATTTCGTGTAGGACCATATTTGGGATATGGCATCGAAAC
1 GTGATTTCATGTAAGACCATATCTGGGACATGGCATCGAAAC
* * *
37430603 GTGATTTCATGTAAGACCATGTCTGGGACATGGCATCGATAT
1 GTGATTTCATGTAAGACCATATCTGGGACATGGCATCGAAAC
* ** * *
37430645 GGGACATCATGTAAGACCATAGCTGGG-CTATCGGCATCGATATAT
1 GTGATTTCATGTAAGACCATATCTGGGAC-AT-GGCATCGA-A-AC
**
37430690 GTGATCACATGTAAGACCATATCT
1 GTGATTTCATGTAAGACCATATCT
37430714 ATGATATGGC
Statistics
Matches: 89, Mismatches: 18, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 59 0.66
43 8 0.09
45 21 0.24
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGATTTCATGTAAGACCATATCTGGGACATGGCATCGAAAC
Found at i:37436677 original size:19 final size:17
Alignment explanation
Indices: 37436642--37436680 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
37436632 TGACAAATAA
*
37436642 TATATTAATATATTTTT
1 TATATTAATATAATTTT
37436659 TATATTATATATTAATTTT
1 TATATTA-ATA-TAATTTT
37436678 TAT
1 TAT
37436681 TAAACTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTAATATAATTTT
Found at i:37438624 original size:18 final size:19
Alignment explanation
Indices: 37438601--37438638 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
37438591 ATAATGGTTA
37438601 AAATAAATTAA-AT-AAAAG
1 AAAT-AATTAATATGAAAAG
37438619 AAATAATTAATATGAAAAG
1 AAATAATTAATATGAAAAG
37438638 A
1 A
37438639 TGAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
AAATAATTAATATGAAAAG
Found at i:37439930 original size:24 final size:23
Alignment explanation
Indices: 37439903--37440009 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 23
37439893 GTACTAGATA
37439903 TGCGGATTTGAGTGGCACTATGTG
1 TGCGGATTTGA-TGGCACTATGTG
* *
37439927 TGCGTATTTGTATGGCAGTATGTG
1 TGCGGATTTG-ATGGCACTATGTG
* *
37439951 TGCGTATATGTATGGCACTATGTG
1 TGCGGATTTG-ATGGCACTATGTG
* *
37439975 TGTGGAATTAT-TTGGCACTATGTG
1 TGCGG-ATT-TGATGGCACTATGTG
*
37439999 TGCGGAGTTGA
1 TGCGGATTTGA
37440010 ATCGTAGATT
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 61 0.90
25 3 0.04
26 1 0.01
ACGTcount: A:0.19, C:0.10, G:0.34, T:0.37
Consensus pattern (23 bp):
TGCGGATTTGATGGCACTATGTG
Found at i:37441207 original size:43 final size:44
Alignment explanation
Indices: 37441088--37441244 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
37441078 AGCTCGTACA
* *
37441088 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * * *
37441131 ATACC-ACTATCCTAGACAGGGTCTTACAC-TAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* * * *
37441173 ATGCCAACGTCCCAGACTTTGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AATATCG
* * **
37441217 ATGCCAACATCCAAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
37441245 TGATAACACA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 25 0.28
43 38 0.43
44 26 0.29
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:37449200 original size:15 final size:16
Alignment explanation
Indices: 37449180--37449214 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37449170 ATATAAATTT
37449180 AAATTTA-ACTCATTC
1 AAATTTACACTCATTC
*
37449195 AAATTTACATTCATTC
1 AAATTTACACTCATTC
37449211 AAAT
1 AAAT
37449215 CAATCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTACACTCATTC
Found at i:37457682 original size:150 final size:150
Alignment explanation
Indices: 37457426--37457916 Score: 816
Period size: 150 Copynumber: 3.3 Consensus size: 150
37457416 TTGATGCATA
*
37457426 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
37457491 AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
66 AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
37457556 TAATGTGAAATATATATATG
131 TAATGTGAAATATATATATG
37457576 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
37457641 AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
66 AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
37457706 TAATGTGAAATATATATATG
131 TAATGTGAAATATATATATG
*
37457726 AGATAT-CTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGG
1 AGATATGC-ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGG
* * *
37457790 TAAAGCCGAATGG-TCAATGTG-AA-A-ATATATATGAGATATGTATCTGTGGTAAAGCCGAATG
65 TAAAGCCGAATGGCT-AATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATG
* * *
37457851 GCTAGTGTG-AA-ATATGTATG
129 GTTAATGTGAAATATATATATG
* * *
37457871 AGATATGTATATGTGGTAAAGGCGAATGGCTAGTGTGAAATATGTA
1 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
37457917 GGCGATGTGT
Statistics
Matches: 326, Mismatches: 12, Indels: 11
0.93 0.03 0.03
Matches are distributed among these distances:
145 49 0.15
146 2 0.01
147 42 0.13
148 1 0.00
149 4 0.01
150 228 0.70
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (150 bp):
AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
TAATGTGAAATATATATATG
Found at i:37457916 original size:48 final size:49
Alignment explanation
Indices: 37457426--37457910 Score: 674
Period size: 48 Copynumber: 9.8 Consensus size: 49
37457416 TTGATGCATA
*
37457426 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATG
* *
37457474 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-A-ATATATATG
* *
37457526 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATATG
* *
37457576 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATG
* *
37457624 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-A-ATATATATG
* *
37457676 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATATG
* * *
37457726 AGATATCTATATGTGGTAAAGCTGAATGGCTAATGTG-AAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATG
*
37457774 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAAATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAAATATATATG
* * *
37457823 AGATATGTATCTGTGGTAAAGCCGAATGGCTAGTGTG-AAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATG
* *
37457871 AGATATGTATATGTGGTAAAGGCGAATGGCTAGTGTGAAA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
37457911 TATGTAGGCG
Statistics
Matches: 395, Mismatches: 30, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
47 1 0.00
48 164 0.42
49 48 0.12
50 94 0.24
51 6 0.02
52 82 0.21
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (49 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATG
Found at i:37458171 original size:37 final size:37
Alignment explanation
Indices: 37458063--37458171 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
37458053 GGAAATATAT
*
37458063 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
37458100 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
37458137 TCCGGGTAAGACCCGATAACTTCGTATGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
37458172 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:37461898 original size:46 final size:46
Alignment explanation
Indices: 37461831--37462002 Score: 335
Period size: 46 Copynumber: 3.7 Consensus size: 46
37461821 TGTAACCTGC
*
37461831 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
37461877 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
37461923 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
37461969 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
37462003 AAAACTCAAA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
Found at i:37465220 original size:43 final size:43
Alignment explanation
Indices: 37465149--37465302 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 43
37465139 TGTGTTCTCG
* * * * *
37465149 TGTAAGACCACGTCTAGGACGTTAGCATCGATATGTGATTACT
1 TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTACA
* * *
37465192 TGTAAGACCATGTTTGGGACATTGGCATC-ATATTTTATT-CA
1 TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTACA
* * *
37465233 TGT-AGATC-CTTTCTGGGACAGTGGCATCGATATGTGA-TAGCA
1 TGTAAGACCACGTT-TGGGACATTGGCATCGATATGTGATTA-CA
* *
37465275 TGTAAGACCACGTTCGGGACGTTGGCAT
1 TGTAAGACCACGTTTGGGACATTGGCAT
37465303 TGTACGATAT
Statistics
Matches: 86, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
39 2 0.02
40 19 0.22
41 10 0.12
42 13 0.15
43 39 0.45
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTACA
Found at i:37465510 original size:20 final size:21
Alignment explanation
Indices: 37465475--37465513 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37465465 TTGCAAATCA
37465475 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
37465496 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
37465514 GTACATTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:37473210 original size:41 final size:40
Alignment explanation
Indices: 37473157--37473326 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
37473147 AGTCTGACTC
*
37473157 TTAG-CACCGGCTCAAAAGCCCTTCGAGACTAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACTAAGCTCGGA
* * *
37473196 TTAGACTACTGGCTCGAAGGCCCTTCG-GAATTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACTAAGCT-CGGA
* *
37473236 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACTAAGCTCGG--A
*
37473281 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACTAAGCTCGGA
37473320 TTTAGAC
1 -TTAGAC
37473327 CCCGATTAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 18 0.17
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACTAAGCTCGGA
Found at i:37476790 original size:57 final size:57
Alignment explanation
Indices: 37476721--37477055 Score: 616
Period size: 57 Copynumber: 5.9 Consensus size: 57
37476711 CATGACATGG
*
37476721 GATTTCCTATATGTGTTCTCGTGTAAGATCACATCTGGGACGTTGGCATCAATATGT
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
37476778 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
37476835 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
37476892 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
37476949 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
* * * * *
37477006 GATTTCCTATATGTGTTCTCTTGTAAGACCATGTCTGGGACATCGGCATC
1 GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATC
37477056 GTATTTAATT
Statistics
Matches: 272, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 272 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (57 bp):
GATTTCCTATATGTGTTCTCGTGTAAGATCACGTCTGGGACGTTGGCATCAATATGT
Found at i:37477129 original size:43 final size:41
Alignment explanation
Indices: 37477027--37477138 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 41
37477017 TGTGTTCTCT
* * *
37477027 TGTAAGACCATGTCTGGGACA-TCGGCATCGTATTTAATTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGTATGTAATGCA
* * *
37477068 TGTAAGACC-CTATTTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATGTAAT-GCA
37477111 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
37477139 TGTACGATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
41 24 0.42
42 8 0.14
43 24 0.42
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATGTAATGCA
Found at i:37477345 original size:20 final size:21
Alignment explanation
Indices: 37477310--37477348 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37477300 TTGTAAATCA
37477310 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
37477331 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
37477349 GTACATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:37498439 original size:40 final size:40
Alignment explanation
Indices: 37498377--37498560 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
37498367 TATTCGAATG
*
37498377 ATATCCGGGCTAAG-TCCTGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
* * *
37498417 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
37498457 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
37498497 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
37498537 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
37498561 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.95
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:37505289 original size:45 final size:45
Alignment explanation
Indices: 37505239--37505329 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
37505229 CCAAAACATG
37505239 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
** * * *
37505284 TGTCACATATGTCATGAACTCAGACCACAGCTGAATGAGTTTAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
37505329 T
1 T
37505330 CACATAATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:37509751 original size:27 final size:26
Alignment explanation
Indices: 37509716--37509827 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
37509706 AGCATGGCTG
* *
37509716 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
37509742 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
37509770 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
37509797 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
37509824 CCAG
1 CCAG
37509828 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:37509780 original size:54 final size:54
Alignment explanation
Indices: 37509716--37509827 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
37509706 AGCATGGCTG
*
37509716 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
37509770 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
37509824 CCAG
1 CCAG
37509828 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:37515300 original size:54 final size:53
Alignment explanation
Indices: 37515218--37515328 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
37515208 AGCATGGCTG
* *
37515218 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCAGAGCCA
* *
37515272 CCAGAACAGA-ATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
37515325 CCAG
1 CCAG
37515329 GACACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 24 0.46
54 28 0.54
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
Found at i:37515323 original size:27 final size:27
Alignment explanation
Indices: 37515218--37515328 Score: 138
Period size: 26 Copynumber: 4.1 Consensus size: 27
37515208 AGCATGGCTG
* *
37515218 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
37515244 CCAGATATAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
37515272 CCAGAACAG--AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
37515298 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
37515325 CCAG
1 CCAG
37515329 GACACTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.04
26 26 0.35
27 26 0.35
28 19 0.26
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:37516773 original size:24 final size:24
Alignment explanation
Indices: 37516746--37516792 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
37516736 CTAGATTTCC
**
37516746 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
37516770 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
37516793 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:37519446 original size:13 final size:13
Alignment explanation
Indices: 37519428--37519452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37519418 CACATATTCT
37519428 CATCTTTGACATA
1 CATCTTTGACATA
37519441 CATCTTTGACAT
1 CATCTTTGACAT
37519453 GCCTATGAAC
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:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
CATCTTTGACATA
Found at i:37526194 original size:11 final size:11
Alignment explanation
Indices: 37526175--37526207 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
37526165 GAAATGGTAG
37526175 TAAAACAACAA
1 TAAAACAACAA
*
37526186 TATAACAACAA
1 TAAAACAACAA
37526197 TAAAACAACAA
1 TAAAACAACAA
37526208 GGAAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
TAAAACAACAA
Found at i:37526653 original size:41 final size:41
Alignment explanation
Indices: 37526596--37526674 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
37526586 CTCTTCTCTC
37526596 AACCAAATATTATTACTTACTAATATTTTCATTATTTTTTA
1 AACCAAATATTATTACTTACTAATATTTTCATTATTTTTTA
*
37526637 AACCAAATATTCTTACTTACTAATATTTTCATTATTTT
1 AACCAAATATTATTACTTACTAATATTTTCATTATTTT
37526675 GGATTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (41 bp):
AACCAAATATTATTACTTACTAATATTTTCATTATTTTTTA
Found at i:37531072 original size:28 final size:28
Alignment explanation
Indices: 37531040--37531109 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
37531030 AATGAGATTG
*
37531040 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
37531068 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
37531096 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37531110 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:37537882 original size:28 final size:28
Alignment explanation
Indices: 37537850--37537919 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
37537840 AATGAGATTG
37537850 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
37537878 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
37537906 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37537920 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:37544050 original size:40 final size:40
Alignment explanation
Indices: 37543995--37544080 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
37543985 TGTATTGAAT
* *
37543995 GAAATTATTCATTTAGATCAAGATCGGGTGAAAAATCAAG
1 GAAATTATTAATTTAGATCAAGATCGAGTGAAAAATCAAG
37544035 GAAATTATTAATTTAGATCAAGATCGAGTGAAAAATCAAG
1 GAAATTATTAATTTAGATCAAGATCGAGTGAAAAATCAAG
37544075 GTAAAT
1 G-AAAT
37544081 GGGAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (40 bp):
GAAATTATTAATTTAGATCAAGATCGAGTGAAAAATCAAG
Found at i:37544785 original size:41 final size:41
Alignment explanation
Indices: 37544710--37544787 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
37544700 ATAGTGATAT
*
37544710 TCGGGCTTTAAGCCTAGCAAGCATTGTGCTGGTGAATGTAA
1 TCGGGCTTTAAGCCTAGCAAGCATTGTGCCGGTGAATGTAA
* *
37544751 TCGGGCTTTATA-CCTAGC-AGGATTATTGCCGGTGAAT
1 TCGGGCTTTA-AGCCTAGCAAGCATT-GTGCCGGTGAAT
37544788 ATAAAATCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.16
41 26 0.81
42 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGCATTGTGCCGGTGAATGTAA
Found at i:37548493 original size:29 final size:28
Alignment explanation
Indices: 37548461--37548548 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 28
37548451 TAAAGGACAA
37548461 CCTTTGTGGAAAAACTCTAGAAAGGTAAG
1 CCTTTGTGG-AAAACTCTAGAAAGGTAAG
* ** * *
37548490 CCTTTATGGCGAACATGTTA-AAAGAT-AG
1 CCTTTGTGGAAAAC-T-CTAGAAAGGTAAG
*
37548518 CCTTTGTGGCAAAACTCTAGAAGGGTAAG
1 CCTTTGTGG-AAAACTCTAGAAAGGTAAG
37548547 CC
1 CC
37548549 CTCGTGGCAA
Statistics
Matches: 43, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
27 2 0.05
28 18 0.42
29 21 0.49
30 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (28 bp):
CCTTTGTGGAAAACTCTAGAAAGGTAAG
Found at i:37550175 original size:18 final size:18
Alignment explanation
Indices: 37550152--37550200 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
37550142 GTTTTTTTAT
37550152 TAAATTATTTATTTAATA
1 TAAATTATTTATTTAATA
*
37550170 TAAATTAGTTT-TATAATA
1 TAAATTA-TTTATTTAATA
*
37550188 -AAATTAATTATTT
1 TAAATTATTTATTT
37550201 GGGTTGGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 8 0.31
18 13 0.50
19 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TAAATTATTTATTTAATA
Found at i:37550671 original size:21 final size:21
Alignment explanation
Indices: 37550645--37550685 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37550635 ATTTAGATTT
37550645 AAAATTAATTTATAATTTTAA
1 AAAATTAATTTATAATTTTAA
* *
37550666 AAAATTATTTTATTATTTTA
1 AAAATTAATTTATAATTTTA
37550686 TTTTAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAATTAATTTATAATTTTAA
Found at i:37553637 original size:13 final size:13
Alignment explanation
Indices: 37553619--37553643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37553609 GGCCACCCAT
37553619 ATTATTTTTTTAG
1 ATTATTTTTTTAG
37553632 ATTATTTTTTTA
1 ATTATTTTTTTA
37553644 TATACAAACA
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTTAG
Found at i:37557931 original size:38 final size:37
Alignment explanation
Indices: 37557858--37557936 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
37557848 TATTACGAAA
* *
37557858 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
37557895 TCTTACCCGGACAAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCT-CCACACGAAGTCATCGGG
37557933 TCTT
1 TCTT
37557937 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.35
38 24 0.65
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:37558181 original size:47 final size:47
Alignment explanation
Indices: 37558055--37558197 Score: 178
Period size: 47 Copynumber: 3.0 Consensus size: 47
37558045 CCCTTCGGGA
* * * * * * *
37558055 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37558102 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37558151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37558198 GTGATAGGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 44 0.54
49 37 0.46
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37558337 original size:47 final size:47
Alignment explanation
Indices: 37558275--37558460 Score: 318
Period size: 47 Copynumber: 4.0 Consensus size: 47
37558265 TTATCACATA
*
37558275 TATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACG
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACG
* *
37558322 TATATACACTTTCACATTCATCACACCGGCCATTCGGCCCTATCACG
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACG
* *
37558369 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACG
*
37558416 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
37558461 TCATTTCATA
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACG
Found at i:37562790 original size:46 final size:46
Alignment explanation
Indices: 37562740--37562915 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
37562730 TGATTGAGCA
*
37562740 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
37562786 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37562831 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37562879 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
37562916 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.56
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37562901 original size:93 final size:93
Alignment explanation
Indices: 37562737--37562908 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
37562727 GGATGATTGA
* * *
37562737 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCGAACTCATTGAGT
37562802 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
*
37562830 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG-CCTGAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCC-GAACTCATTGAG
*
37562894 TTGAGTCCGAGTTCG
65 TTAAGTCCGAGTTCG
37562909 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCGAACTCATTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37565037 original size:49 final size:49
Alignment explanation
Indices: 37564983--37565102 Score: 161
Period size: 49 Copynumber: 2.4 Consensus size: 49
37564973 GTCGATGCTT
* *
37564983 TGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCTAGATAGGTCTTACACTGACTCTCATATATCG-GTGCCGATGCCA
* * * *
37565032 TGTCCTAGATAGGTCTTACACTGGCTCTCATTTATTGGTGTCGATGCCA
1 TGTCCTAGATAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
*
37565081 TGTCCCAGATAGGTCTTACACT
1 TGTCCTAGATAGGTCTTACACT
37565103 AACACCCAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 62 0.98
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (49 bp):
TGTCCTAGATAGGTCTTACACTGACTCTCATATATCGGTGCCGATGCCA
Found at i:37565191 original size:46 final size:46
Alignment explanation
Indices: 37565137--37565243 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
37565127 TCCTAGATAG
* *
37565137 GTCTTACACTAGCTCTCGTCTCAAT-GCCGATGCATATCCCAGACAT
1 GTCTTACACTAGCTCTCATCT-AATGGCCAATGCATATCCCAGACAT
* * * ** *
37565183 GTCTTACACTGGCACTCATGTTGTGGCCAATGCATGTCCCAGACAT
1 GTCTTACACTAGCTCTCATCTAATGGCCAATGCATATCCCAGACAT
37565229 GTCTTACACTAGCTC
1 GTCTTACACTAGCTC
37565244 ACATACCACC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.02
46 49 0.98
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTCTCATCTAATGGCCAATGCATATCCCAGACAT
Found at i:37568514 original size:43 final size:44
Alignment explanation
Indices: 37568451--37568536 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
37568441 ATCAAAATAT
* * *
37568451 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGAAGGCTATAATGCCAGTGAAAC
* *
37568495 GATA-TCGGGCTTTGAGCCTAGAATGCTATAATGCCAGTGAAA
1 GATATTCGGGCTTCGAGCCTAGAAGGCTATAATGCCAGTGAAA
37568537 TGAAATGTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 33 0.89
44 4 0.11
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGAAGGCTATAATGCCAGTGAAAC
Found at i:37569007 original size:43 final size:43
Alignment explanation
Indices: 37568902--37569020 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
37568892 TATCCGGGTC
* * *
37568902 TTGAGCCTAGCAGGCTATTATGCCGGTGAGATACTATTTGGGCCT
1 TTGAGCCTAGCAGGCTATAATGCCGGTGA-A-ACGATTCGGGCCT
37568947 TTGAGCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGG-CT
1 TTGAGCCTAGCAGGCTATAATGCCGGTGAAACGAT-TCGGGCCT
* * *
37568990 TTGAGCCTAGAATGCTATAATGCCAGTGAAA
1 TTGAGCCTAGCAGGCTATAATGCCGGTGAAA
37569021 TGAAATGTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 34 0.51
44 5 0.07
45 28 0.42
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
TTGAGCCTAGCAGGCTATAATGCCGGTGAAACGATTCGGGCCT
Found at i:37569361 original size:38 final size:38
Alignment explanation
Indices: 37569314--37569416 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
37569304 GGCTTAAAGA
37569314 CCTGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
1 CCTGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
* * *
37569352 CCTGTAGGCTTCTTGCTGGTATTATATCCGGGTTAAAT
1 CCTGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
* * * *
37569390 CCCGCAGGCCTAGTACTGGTATTATAT
1 CCTGCAGGCTTCGTGCTGGTATTATAT
37569417 TCAGGCCTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (38 bp):
CCTGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
Found at i:37569380 original size:484 final size:484
Alignment explanation
Indices: 37568467--37569384 Score: 1791
Period size: 484 Copynumber: 1.9 Consensus size: 484
37568457 CGGGCTTCGG
37568467 GCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGGCTTTGAGCCTAGAATGCTATAATGCCAG
1 GCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGGCTTTGAGCCTAGAATGCTATAATGCCAG
37568532 TGAAATGAAATGTTATGTGATTTCGGTGTTCCTTTAAGATAGGGACTTAGTCGAATGTTAAAGAT
66 TGAAATGAAATGTTATGTGATTTCGGTGTTCCTTTAAGATAGGGACTTAGTCGAATGTTAAAGAT
37568597 GAAATGATAGAGTATTATATCATGCTTATATGGCCTAATGGTAAGTATAACATGTTGGTAAATAT
131 GAAATGATAGAGTATTATATCATGCTTATATGGCCTAATGGTAAGTATAACATGTTGGTAAATAT
37568662 GCAATGTGCTTTTATAATCGATTGATAAGTTTGAAGTGAATGTGAGTGAAATGTTATGCATAAGC
196 GCAATGTGCTTTTATAATCGATTGATAAGTTTGAAGTGAATGTGAGTGAAATGTTATGCATAAGC
37568727 TATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTGTTAATATATGATTA
261 TATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTGTTAATATATGATTA
37568792 AATATGCATGATATTTGATGTGTATCTAGGCTTAAAGACCTGCAGGCTTCGTGCTGGTATTATAT
326 AATATGCATGATATTTGATGTGTATCTAGGCTTAAAGACCTGCAGGCTTCGTGCTGGTATTATAT
*
37568857 CCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTCTTGAGCCTAGCAGGCTATTA
391 CCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTCTTGAGCCTAGCAGGCTATTA
37568922 TGCCGGTGAGATACTATTTGGGCCTTTGA
456 TGCCGGTGAGATACTATTTGGGCCTTTGA
37568951 GCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGGCTTTGAGCCTAGAATGCTATAATGCCAG
1 GCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGGCTTTGAGCCTAGAATGCTATAATGCCAG
37569016 TGAAATGAAATGTTATGTGATTTCGGTGTTCCTTTAAGATAGGGACTTAGTCGAATGTTAAAGAT
66 TGAAATGAAATGTTATGTGATTTCGGTGTTCCTTTAAGATAGGGACTTAGTCGAATGTTAAAGAT
37569081 GAAATGATAGAGTATTATATCATGCTTATATGGCCTAATGGTAAGTATAACATGTTGGTAAATAT
131 GAAATGATAGAGTATTATATCATGCTTATATGGCCTAATGGTAAGTATAACATGTTGGTAAATAT
37569146 GCAATGTGCTTTTATAATCGATTGATAAGTTTGAAGTGAATGTGAGTGAAATGTTATGCATAAGC
196 GCAATGTGCTTTTATAATCGATTGATAAGTTTGAAGTGAATGTGAGTGAAATGTTATGCATAAGC
37569211 TATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTGTTAATATATGATTA
261 TATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTGTTAATATATGATTA
37569276 AATATGCATGATATTTGATGTGTATCTAGGCTTAAAGACCTGCAGGCTTCGTGCTGGTATTATAT
326 AATATGCATGATATTTGATGTGTATCTAGGCTTAAAGACCTGCAGGCTTCGTGCTGGTATTATAT
* * * *
37569341 CCGAGTTAAATCCTGTAGGCTTCTTGCTGGTATTATATCCGGGT
391 CCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGT
37569385 TAAATCCCGC
Statistics
Matches: 429, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
484 429 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (484 bp):
GCCTAGCAGGCTATAATGCCGGTGAAACGATATCGGGCTTTGAGCCTAGAATGCTATAATGCCAG
TGAAATGAAATGTTATGTGATTTCGGTGTTCCTTTAAGATAGGGACTTAGTCGAATGTTAAAGAT
GAAATGATAGAGTATTATATCATGCTTATATGGCCTAATGGTAAGTATAACATGTTGGTAAATAT
GCAATGTGCTTTTATAATCGATTGATAAGTTTGAAGTGAATGTGAGTGAAATGTTATGCATAAGC
TATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTGTTAATATATGATTA
AATATGCATGATATTTGATGTGTATCTAGGCTTAAAGACCTGCAGGCTTCGTGCTGGTATTATAT
CCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTCTTGAGCCTAGCAGGCTATTA
TGCCGGTGAGATACTATTTGGGCCTTTGA
Found at i:37569483 original size:45 final size:43
Alignment explanation
Indices: 37569420--37569543 Score: 155
Period size: 45 Copynumber: 2.9 Consensus size: 43
37569410 ATTATATTCA
* * *
37569420 GGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-ACTATTTG
1 GGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGA-TA-TCG
37569464 GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATGATATCG
1 GGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATGATATCG
* *
37569508 AGCCTTGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA
1 GGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGA
37569544 ATAAAAGTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
41 4 0.05
42 11 0.15
43 16 0.22
44 9 0.12
45 32 0.44
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (43 bp):
GGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGATATCG
Found at i:37573384 original size:27 final size:27
Alignment explanation
Indices: 37573353--37573530 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37573343 TAAATTGTAC
37573353 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
37573380 TGCACTAAGTGTGCGAAAAGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37573406 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37573434 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37573462 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37573489 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37573516 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37573531 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37573494 original size:82 final size:81
Alignment explanation
Indices: 37573354--37573509 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37573344 AAATTGTACA
* *
37573354 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAAGTGT
37573419 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
37573435 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACTAAGT
*
37573499 GTGCGAGTTGA
64 GTGCGAATTGA
37573510 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37573521 original size:82 final size:81
Alignment explanation
Indices: 37573350--37573530 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
37573340 GATTAAATTG
* *
37573350 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAAAGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
37573415 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
37573431 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGAT-GCACT
* **
37573495 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37573513 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37573531 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAAAGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37578312 original size:45 final size:45
Alignment explanation
Indices: 37578256--37578380 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 45
37578246 TAGGATTTTG
* * * **
37578256 ATATGTATTTTCGAGTAAGACCATGTTTGGGACATTGGAATTGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGAATCAAT
* *
37578301 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGAATCAAT
* * *
37578346 ATATGTGGTTACGTGTAAGACCTTGTCTGGGACAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACAT
37578381 CGGCATCGTA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGAATCAAT
Found at i:37578386 original size:45 final size:45
Alignment explanation
Indices: 37578270--37578433 Score: 156
Period size: 45 Copynumber: 3.7 Consensus size: 45
37578260 GTATTTTCGA
* * ** * *
37578270 GTAAGACCATGTTTGGGACATTGGAATTGATATATGTGTTTTCGT
1 GTAAGACCATGTCTGGGACATTGGCATCAATATATGTGGTTACGT
*
37578315 GTAAGACCATGTCTGGGACGTTGGCATCAATATATGTGGTTACGT
1 GTAAGACCATGTCTGGGACATTGGCATCAATATATGTGGTTACGT
* * * * * *
37578360 GTAAGACCTTGTCTGGGACATCGGCATC-GTA-AT-AGATT-CGA
1 GTAAGACCATGTCTGGGACATTGGCATCAATATATGTGGTTACGT
* * *
37578401 GTAAGACCCTGTCTAGGACAATGGCATCAATAT
1 GTAAGACCATGTCTGGGACATTGGCATCAATAT
37578434 GAGATAGCAT
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 26 0.27
42 5 0.05
43 2 0.02
44 2 0.02
45 63 0.64
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
GTAAGACCATGTCTGGGACATTGGCATCAATATATGTGGTTACGT
Found at i:37583802 original size:30 final size:30
Alignment explanation
Indices: 37583768--37583828 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
37583758 TCCTTAACTC
37583768 AAACTTTGGCAAAAT-TACAATTTTGCCCCT
1 AAACTTTGGC-AAATGTACAATTTTGCCCCT
* * *
37583798 AAACTTTTGCATATGTACACTTTTGCCCCT
1 AAACTTTGGCAAATGTACAATTTTGCCCCT
37583828 A
1 A
37583829 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAATGTACAATTTTGCCCCT
Found at i:37587142 original size:18 final size:19
Alignment explanation
Indices: 37587115--37587156 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
37587105 GCAGTTATAT
*
37587115 CCAAAGT-AAATTAAAATC
1 CCAAAGTAAAAATAAAATC
*
37587133 CCAAATTAAAAATAAAAT-
1 CCAAAGTAAAAATAAAATC
37587151 CCAAAG
1 CCAAAG
37587157 AGGCCTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.60, C:0.17, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAAGTAAAAATAAAATC
Found at i:37587793 original size:27 final size:27
Alignment explanation
Indices: 37587763--37587824 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
37587753 CATATATCTC
37587763 ATAGGGGCATAACAGTCATTTTATCAA
1 ATAGGGGCATAACAGTCATTTTATCAA
* * *
37587790 ATAGAGGCATAATAGTCATTTTATCGA
1 ATAGGGGCATAACAGTCATTTTATCAA
*
37587817 TTAGGGGC
1 ATAGGGGC
37587825 CCAGGTACAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTTATCAA
Found at i:37596023 original size:14 final size:14
Alignment explanation
Indices: 37595991--37596031 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
37595981 CTTTGGACAC
* *
37595991 GCCCGTGT-CCTCA
1 GCCCGTGTAACTCT
37596004 GCCCGTGTAACTCT
1 GCCCGTGTAACTCT
37596018 GCCCGTGTAACTCT
1 GCCCGTGTAACTCT
37596032 CTGTTTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.12, C:0.39, G:0.22, T:0.27
Consensus pattern (14 bp):
GCCCGTGTAACTCT
Found at i:37605385 original size:42 final size:42
Alignment explanation
Indices: 37605320--37605404 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
37605310 AAATTCATCG
* *
37605320 AAAGGTAAAAGCATCAGATCAGCAGGAAAATAAATATCTCGA
1 AAAGGTAAAAGCAACAGACCAGCAGGAAAATAAATATCTCGA
*
37605362 AAAGGTAAAAGTAACAGACCAGCAGGAAAATAAATATCTCGA
1 AAAGGTAAAAGCAACAGACCAGCAGGAAAATAAATATCTCGA
37605404 A
1 A
37605405 TCATTAACGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.15
Consensus pattern (42 bp):
AAAGGTAAAAGCAACAGACCAGCAGGAAAATAAATATCTCGA
Found at i:37607269 original size:13 final size:13
Alignment explanation
Indices: 37607253--37607277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37607243 AGTCACACGC
37607253 CCGTGTGACACAG
1 CCGTGTGACACAG
37607266 CCGTGTGACACA
1 CCGTGTGACACA
37607278 CATGGGCACT
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:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (13 bp):
CCGTGTGACACAG
Found at i:37608338 original size:43 final size:43
Alignment explanation
Indices: 37608244--37608352 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
37608234 TAGATGCCTC
* * *
37608244 TGTCCCAGACAGGGTCTTACAC-AAAATCAGATACGATGCTGA
1 TGTCCCAGACACGGTCTTACACGAAAATCAGATACAACGCTGA
*
37608286 TGTCCCAGACATGGTCTTACACGTAAATATCA-AT-CAACGCTTG-
1 TGTCCCAGACACGGTCTTACACG-AAA-ATCAGATACAACGC-TGA
37608329 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
37608353 TGTGTCAGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
42 22 0.37
43 26 0.44
44 7 0.12
45 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTACACGAAAATCAGATACAACGCTGA
Found at i:37610170 original size:42 final size:41
Alignment explanation
Indices: 37610007--37610173 Score: 154
Period size: 42 Copynumber: 4.0 Consensus size: 41
37609997 AATCGTACCA
* * * *
37610007 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAACTCATAACG
* ** * ** * *
37610049 ATGCCAATAGCCCATCTATAGTCTTACACGATTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAACTCATAACG
* * *
37610091 ATGCCATGTCCCAGACATGGTCTTGCACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-CTCATAACG
*
37610133 ATGCCATATCCCAAATATGGTCTTACACGTAAACTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACG-AAACTCATAAC
37610174 CTTAATGTCA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 18 0.18
42 60 0.61
43 21 0.21
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAACTCATAACG
Found at i:37612923 original size:79 final size:80
Alignment explanation
Indices: 37612824--37613006 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
37612814 TACTCATTCA
* *
37612824 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGA
* *
37612888 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* * * **
37612904 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGAT
* *
37612968 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
37612983 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
37613007 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 60 0.68
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:37613006 original size:40 final size:40
Alignment explanation
Indices: 37612822--37613006 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
37612812 GCTACTCATT
* *
37612822 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
** * *
37612862 CAAATGCCTTCGAAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
37612902 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
37612941 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
37612982 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37613007 CATCATTCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:37614497 original size:159 final size:159
Alignment explanation
Indices: 37614208--37614528 Score: 615
Period size: 159 Copynumber: 2.0 Consensus size: 159
37614198 GATTTCAAGA
*
37614208 ACTAGTATCAACTTCCTTACCTTAATATCGACCTAAGATGACCGATTGCTTCACTCCTTCCTTCC
1 ACTAGTATCAACTTCCTTACCTTAATATCGACCTAAAATGACCGATTGCTTCACTCCTTCCTTCC
*
37614273 TCCTCTCAATCCGGCCAAGAAGAACCAAAGAACACAACTTGTTTCCGTTCTTCCTTAGAACATTC
66 TCCTCTCAATCCGGCCAAGAAGAACCAAAGAACACAACTTGTTTCCATTCTTCCTTAGAACATTC
37614338 GGCCAAGAGACATGAAAAAAAAGATGGAC
131 GGCCAAGAGACATGAAAAAAAAGATGGAC
37614367 ACTAGTATCAACTTCCTTACCTTAATATCGACCTAAAATGACCGATTGCTTCACTCCTTCCTTCC
1 ACTAGTATCAACTTCCTTACCTTAATATCGACCTAAAATGACCGATTGCTTCACTCCTTCCTTCC
37614432 TCCTCTCAATCCGGCCAAGAAGAACCAAAGAACACAACTTGTTTCCATTCTTCCTTAGAACATTC
66 TCCTCTCAATCCGGCCAAGAAGAACCAAAGAACACAACTTGTTTCCATTCTTCCTTAGAACATTC
*
37614497 GGCCAAGTGACATGAAAAAAAAGATGGAC
131 GGCCAAGAGACATGAAAAAAAAGATGGAC
37614526 ACT
1 ACT
37614529 TTTTTTTTTG
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 159 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (159 bp):
ACTAGTATCAACTTCCTTACCTTAATATCGACCTAAAATGACCGATTGCTTCACTCCTTCCTTCC
TCCTCTCAATCCGGCCAAGAAGAACCAAAGAACACAACTTGTTTCCATTCTTCCTTAGAACATTC
GGCCAAGAGACATGAAAAAAAAGATGGAC
Found at i:37614816 original size:84 final size:85
Alignment explanation
Indices: 37614699--37614867 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
37614689 CTTTGTCCAT
37614699 CCTAATGTCATGGCCGGCCACTACTAGATGGGGGGG-AAAATTGACATGCAAGTCCCCCCTTTTT
1 CCTAATGTCATGGCCGGCCACTACTAGATGGGGGGGAAAAATTGACATGCAAGTCCCCCCTTTTT
37614763 CAACATGCACTAATAGGTCA
66 CAACATGCACTAATAGGTCA
37614783 CCTAATGTCATGGCCGGCCACTACTAGATGGGGGGGAAAAATTGACATGCAAGTCCCCCCTTTTT
1 CCTAATGTCATGGCCGGCCACTACTAGATGGGGGGGAAAAATTGACATGCAAGTCCCCCCTTTTT
37614848 CAACATGCACTAATAGGTCA
66 CAACATGCACTAATAGGTCA
37614868 TTATGTTTTG
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 36 0.43
85 48 0.57
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (85 bp):
CCTAATGTCATGGCCGGCCACTACTAGATGGGGGGGAAAAATTGACATGCAAGTCCCCCCTTTTT
CAACATGCACTAATAGGTCA
Found at i:37621448 original size:40 final size:40
Alignment explanation
Indices: 37621350--37621732 Score: 601
Period size: 40 Copynumber: 9.6 Consensus size: 40
37621340 TCCTCGTTCA
* * * * *
37621350 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37621389 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621429 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621469 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621509 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621549 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621589 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37621629 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
** * * * *
37621669 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37621709 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37621733 CAGCATTCAA
Statistics
Matches: 327, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
39 38 0.12
40 281 0.86
41 8 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37627679 original size:40 final size:40
Alignment explanation
Indices: 37627581--37627843 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
37627571 TCCTCGTTCA
* * * * *
37627581 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37627620 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37627660 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37627700 AATGCCTTCGGGACTTAACCTGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37627740 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37627780 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37627820 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37627844 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37639750 original size:27 final size:28
Alignment explanation
Indices: 37639700--37639771 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
37639690 AAGTCTACAT
* *
37639700 ACATGCATATGGCCCACTAAGCCC-ATC
1 ACATTCATATGGCCCACTAAGCCCAACC
* * * *
37639727 TCATTCATATGGCCTATTATGCCCAAACC
1 ACATTCATATGGCCCACTAAGCCC-AACC
37639756 ACATTCATATGGCCCA
1 ACATTCATATGGCCCA
37639772 TCGGCCCCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 19 0.54
29 16 0.46
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAAGCCCAACC
Found at i:37639787 original size:28 final size:29
Alignment explanation
Indices: 37639728--37639792 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
37639718 AAGCCCATCT
* *
37639728 CATTCATATGGCCTATTATGCCCAAACCA
1 CATTCATATGGCCCATTAGGCCCAAACCA
* * *
37639757 CATTCATATGGCCCA-TCGGCCCCAATCA
1 CATTCATATGGCCCATTAGGCCCAAACCA
37639785 CATTCATA
1 CATTCATA
37639793 GTCATGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAACCA
Found at i:37643464 original size:27 final size:26
Alignment explanation
Indices: 37643434--37643492 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
37643424 ATTTACTAAA
37643434 ATACCCCTACGTATG-AAAATTACCATT
1 ATACCCCTA-G-ATGCAAAATTACCATT
* *
37643461 ATACACCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
37643487 ATACCC
1 ATACCC
37643493 TTAGGGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.64
27 8 0.29
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:37643667 original size:27 final size:27
Alignment explanation
Indices: 37643601--37643679 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
37643591 GAGGAAGCAT
*
37643601 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
**
37643629 TCTATTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
37643656 TCTGGTGACTCTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
37643680 ATTCTGGAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 29 0.66
28 15 0.34
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:37647286 original size:28 final size:28
Alignment explanation
Indices: 37647215--37647319 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 28
37647205 AAGGAAACGT
*
37647215 TCTGGTGGCTTTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
37647242 TCTGGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
37647270 TCTGCTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
37647297 TCTGGT-ACTCTGTCAC-AATATCT
1 TCTGGTGGCTCTGCCACAAATATCT
37647320 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.22
27 38 0.56
28 15 0.22
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:37652213 original size:40 final size:40
Alignment explanation
Indices: 37652155--37652399 Score: 361
Period size: 40 Copynumber: 6.2 Consensus size: 40
37652145 AAACCAAGTA
* * *
37652155 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
37652194 CCTCCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37652234 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37652274 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37652314 CCTTCGGGACTTAGCCCGGATATAGTAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
37652354 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
37652394 CCTTCG
1 CCTTCG
37652400 TTATCATCCG
Statistics
Matches: 188, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 13 0.07
40 175 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37654643 original size:16 final size:16
Alignment explanation
Indices: 37654622--37654652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37654612 CCAAACTTCT
*
37654622 GGCTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
37654638 GGCTTTTCGACATTT
1 GGCTTTTCGACATTT
37654653 TGAGATTTGT
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:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:37658317 original size:29 final size:29
Alignment explanation
Indices: 37658284--37658348 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
37658274 TGTGAACAGG
*
37658284 CCGTGTGCCTCACATGGCATTAGACAAGC
1 CCGTGTGCCTCACATGGAATTAGACAAGC
*
37658313 CCGTGTGCCTCACATGGAATTAGACACGC
1 CCGTGTGCCTCACATGGAATTAGACAAGC
*
37658342 CTGTGTG
1 CCGTGTG
37658349 TCTAGCCCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (29 bp):
CCGTGTGCCTCACATGGAATTAGACAAGC
Found at i:37659677 original size:42 final size:43
Alignment explanation
Indices: 37659572--37659733 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 43
37659562 AAATGCCAAC
* * *
37659572 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGAGGCCACTA
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGAGGCCAC-A
* * * *
37659616 -TCCTAGACAGGGTCTTACACGAAATCAAATA-CGATGTCGA-A
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGA-GGCCACA
* *
37659657 GTCCCAGACATGGTCTTACACATAAATCTCAAAT-T-GATGCCATC-
1 GTCCCAGACATGGTCTTACAC-GAAA--TCAAATATCGAGGCCA-CA
* *
37659701 GTCCCAGACGT-GTCTTACACGAAATCACATATC
1 GTCCCAGACATGGTCTTACACGAAATCAAATATC
37659734 AAAAATCCTA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
40 5 0.05
41 2 0.02
42 24 0.26
43 43 0.47
44 12 0.13
45 6 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGAGGCCACA
Found at i:37662988 original size:28 final size:27
Alignment explanation
Indices: 37662955--37663058 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 27
37662945 TATATATAGC
37662955 CCATTAGGCCCAATCTC-TTCAATATGG
1 CCATTAGGCCCAATCTCATTC-ATATGG
* * *
37662982 ACCATTAGGCCTAATCTCATTTATGTGG
1 -CCATTAGGCCCAATCTCATTCATATGG
* *
37663010 CCCATTAGGCCCAAATCACATTCATACGG
1 -CCATTAGGCCC-AATCTCATTCATATGG
*
37663039 CCATTAGGCCCAATCACATT
1 CCATTAGGCCCAATCTCATT
37663059 TACAATTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
27 9 0.14
28 42 0.65
29 14 0.22
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (27 bp):
CCATTAGGCCCAATCTCATTCATATGG
Found at i:37663019 original size:56 final size:56
Alignment explanation
Indices: 37662953--37663060 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
37662943 CCTATATATA
* * * *
37662953 GCCCATTAGGCCC-AATCTC-TTCAATATGGACCATTAGGCCTAATCTCATTTATGTG
1 GCCCATTAGGCCCAAATCACATTC-ATACGG-CCATTAGGCCCAATCACATTTATGTG
37663009 GCCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTA
1 GCCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTA
37663061 CAATTATGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 33 0.72
57 10 0.22
58 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (56 bp):
GCCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTATGTG
Found at i:37663295 original size:16 final size:16
Alignment explanation
Indices: 37663274--37663327 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
37663264 GTAGCCAAAC
* *
37663274 TTTCGGCTTTTCAGCA
1 TTTCGGCATTTCAGCT
37663290 TTTCGGCATTTC-GACT
1 TTTCGGCATTTCAG-CT
37663306 TTTCGGCATTTCAGCT
1 TTTCGGCATTTCAGCT
37663322 TTTCGG
1 TTTCGG
37663328 GATCTGCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (16 bp):
TTTCGGCATTTCAGCT
Found at i:37663307 original size:24 final size:24
Alignment explanation
Indices: 37663274--37663326 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
37663264 GTAGCCAAAC
* *
37663274 TTTCGGCTTTTCAGCATTTCGGCA
1 TTTCGACTTTTCAGCATTTCAGCA
* *
37663298 TTTCGACTTTTCGGCATTTCAGCT
1 TTTCGACTTTTCAGCATTTCAGCA
37663322 TTTCG
1 TTTCG
37663327 GGATCTGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (24 bp):
TTTCGACTTTTCAGCATTTCAGCA
Found at i:37675803 original size:6 final size:6
Alignment explanation
Indices: 37675756--37675815 Score: 75
Period size: 6 Copynumber: 9.7 Consensus size: 6
37675746 AAACTTAAAC
* * *
37675756 GAAAAC GAAAAC GAAAAC GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
37675804 AGAGAAAT GAAA
1 -GA-AAAT GAAA
37675816 CCATTTGGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
6 43 0.84
7 4 0.08
8 4 0.08
ACGTcount: A:0.67, C:0.05, G:0.18, T:0.10
Consensus pattern (6 bp):
GAAAAT
Found at i:37677211 original size:17 final size:19
Alignment explanation
Indices: 37677158--37677211 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 19
37677148 TTATTTAGAA
* *
37677158 ATTTTTTATCATACTAAA-
1 ATTTTTTATAATAATAAAT
*
37677176 A-TTTTTATAATAATTAAT
1 ATTTTTTATAATAATAAAT
37677194 ATTTTTTA-AAT-ATAAAT
1 ATTTTTTATAATAATAAAT
37677211 A
1 A
37677212 AAGTAACTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 19 0.63
18 5 0.17
19 6 0.20
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTTATAATAATAAAT
Found at i:37682614 original size:23 final size:22
Alignment explanation
Indices: 37682554--37682618 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
37682544 TTTGATCAGT
37682554 ATACGACACATAAGTGCCT-AA
1 ATACGACACATAAGTGCCTAAA
* * *
37682575 A-ACAACACACGAGGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
37682597 ATACGACACATAAAGTGCCTAA
1 ATACGACACAT-AAGTGCCTAA
37682619 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 3 0.09
23 16 0.47
ACGTcount: A:0.45, C:0.25, G:0.15, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:37683723 original size:23 final size:21
Alignment explanation
Indices: 37683697--37683745 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
37683687 TTGTTTATCA
*
37683697 AATAAAAATCTTATAATTTAATT
1 AATAAAAATCTT-TAACTTAA-T
*
37683720 AATAAATATCTTTAACTTAAT
1 AATAAAAATCTTTAACTTAAT
37683741 AATAA
1 AATAA
37683746 TTAATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAATCTTTAACTTAAT
Found at i:37684156 original size:23 final size:24
Alignment explanation
Indices: 37684127--37684186 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
37684117 TTATTTCCTA
37684127 TAATATAATATTTTAA-CTTTAAT
1 TAATATAATATTTTAAGCTTTAAT
* *
37684150 TAATATAAT-TTATAATGTTTTAAT
1 TAATATAATATTTTAA-GCTTTAAT
37684174 TAA-ATAATATTTT
1 TAATATAATATTTT
37684187 TATAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 14 0.45
24 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATATAATATTTTAAGCTTTAAT
Found at i:37684176 original size:28 final size:28
Alignment explanation
Indices: 37684130--37684194 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
37684120 TTTCCTATAA
*
37684130 TATAATATTTTAACTTTAATTAATATAATT
1 TATAATATTTTAAC-TTAAATAATAT-ATT
* *
37684160 TATAATGTTTTAA-TTAAATAATATTTT
1 TATAATATTTTAACTTAAATAATATATT
37684187 TATAATAT
1 TATAATAT
37684195 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 10 0.32
30 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TATAATATTTTAACTTAAATAATATATT
Found at i:37684326 original size:360 final size:360
Alignment explanation
Indices: 37683918--37684637 Score: 1440
Period size: 360 Copynumber: 2.0 Consensus size: 360
37683908 TATAAAAATC
37683918 GTCATAATATAATTAATATAAATTATAATTTAATAAATTAATAATAACAATAATAATAACACACT
1 GTCATAATATAATTAATATAAATTATAATTTAATAAATTAATAATAACAATAATAATAACACACT
37683983 ATAATAACTATCTATTTAATAATAAGTATAAATACTACAATTGTGCACATATATTTTTGTACATT
66 ATAATAACTATCTATTTAATAATAAGTATAAATACTACAATTGTGCACATATATTTTTGTACATT
37684048 TGTACAATATCATCACCATCCATTTGGCAAATTTTTAATTTATTTATCATACAATTGTTTTTATT
131 TGTACAATATCATCACCATCCATTTGGCAAATTTTTAATTTATTTATCATACAATTGTTTTTATT
37684113 TTATTTATTTCCTATAATATAATATTTTAACTTTAATTAATATAATTTATAATGTTTTAATTAAA
196 TTATTTATTTCCTATAATATAATATTTTAACTTTAATTAATATAATTTATAATGTTTTAATTAAA
37684178 TAATATTTTTATAATATAAATAAAAAAAATCTAAGACTATTTCACGTATTGCCGCCTCATCTTAA
261 TAATATTTTTATAATATAAATAAAAAAAATCTAAGACTATTTCACGTATTGCCGCCTCATCTTAA
37684243 GCCATTGGCTTATTTACCTATTTAGTCCCTCTTAT
326 GCCATTGGCTTATTTACCTATTTAGTCCCTCTTAT
37684278 GTCATAATATAATTAATATAAATTATAATTTAATAAATTAATAATAACAATAATAATAACACACT
1 GTCATAATATAATTAATATAAATTATAATTTAATAAATTAATAATAACAATAATAATAACACACT
37684343 ATAATAACTATCTATTTAATAATAAGTATAAATACTACAATTGTGCACATATATTTTTGTACATT
66 ATAATAACTATCTATTTAATAATAAGTATAAATACTACAATTGTGCACATATATTTTTGTACATT
37684408 TGTACAATATCATCACCATCCATTTGGCAAATTTTTAATTTATTTATCATACAATTGTTTTTATT
131 TGTACAATATCATCACCATCCATTTGGCAAATTTTTAATTTATTTATCATACAATTGTTTTTATT
37684473 TTATTTATTTCCTATAATATAATATTTTAACTTTAATTAATATAATTTATAATGTTTTAATTAAA
196 TTATTTATTTCCTATAATATAATATTTTAACTTTAATTAATATAATTTATAATGTTTTAATTAAA
37684538 TAATATTTTTATAATATAAATAAAAAAAATCTAAGACTATTTCACGTATTGCCGCCTCATCTTAA
261 TAATATTTTTATAATATAAATAAAAAAAATCTAAGACTATTTCACGTATTGCCGCCTCATCTTAA
37684603 GCCATTGGCTTATTTACCTATTTAGTCCCTCTTAT
326 GCCATTGGCTTATTTACCTATTTAGTCCCTCTTAT
37684638 TTTCTTTTAC
Statistics
Matches: 360, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 360 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (360 bp):
GTCATAATATAATTAATATAAATTATAATTTAATAAATTAATAATAACAATAATAATAACACACT
ATAATAACTATCTATTTAATAATAAGTATAAATACTACAATTGTGCACATATATTTTTGTACATT
TGTACAATATCATCACCATCCATTTGGCAAATTTTTAATTTATTTATCATACAATTGTTTTTATT
TTATTTATTTCCTATAATATAATATTTTAACTTTAATTAATATAATTTATAATGTTTTAATTAAA
TAATATTTTTATAATATAAATAAAAAAAATCTAAGACTATTTCACGTATTGCCGCCTCATCTTAA
GCCATTGGCTTATTTACCTATTTAGTCCCTCTTAT
Found at i:37684516 original size:23 final size:24
Alignment explanation
Indices: 37684487--37684546 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
37684477 TTATTTCCTA
37684487 TAATATAATATTTTAA-CTTTAAT
1 TAATATAATATTTTAAGCTTTAAT
* *
37684510 TAATATAAT-TTATAATGTTTTAAT
1 TAATATAATATTTTAA-GCTTTAAT
37684534 TAA-ATAATATTTT
1 TAATATAATATTTT
37684547 TATAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 14 0.45
24 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATATAATATTTTAAGCTTTAAT
Found at i:37684536 original size:28 final size:28
Alignment explanation
Indices: 37684490--37684554 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
37684480 TTTCCTATAA
*
37684490 TATAATATTTTAACTTTAATTAATATAATT
1 TATAATATTTTAAC-TTAAATAATAT-ATT
* *
37684520 TATAATGTTTTAA-TTAAATAATATTTT
1 TATAATATTTTAACTTAAATAATATATT
37684547 TATAATAT
1 TATAATAT
37684555 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 10 0.32
30 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TATAATATTTTAACTTAAATAATATATT
Found at i:37685831 original size:7 final size:8
Alignment explanation
Indices: 37685803--37685831 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
37685793 TTGAAACTTG
37685803 ATTTTTAT
1 ATTTTTAT
37685811 ATTTTTAT
1 ATTTTTAT
37685819 ATTTTT-T
1 ATTTTTAT
37685826 ATTTTT
1 ATTTTT
37685832 CTCCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTAT
Found at i:37688185 original size:13 final size:13
Alignment explanation
Indices: 37688167--37688219 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
37688157 AATAAATATG
37688167 ATTTAATCAATTA
1 ATTTAATCAATTA
*
37688180 ATTTAATGAATTA
1 ATTTAATCAATTA
* *
37688193 AATTAACTAAATTA
1 ATTTAA-TCAATTA
*
37688207 ATTT-CTCAATTA
1 ATTTAATCAATTA
37688219 A
1 A
37688220 GTAATCTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:37693268 original size:68 final size:67
Alignment explanation
Indices: 37693184--37693339 Score: 181
Period size: 68 Copynumber: 2.3 Consensus size: 67
37693174 CTTAAAATTA
* * * * *
37693184 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAGATTCACTACTCAAAGCACT-ACCATATATGCTGTTTT-TTTAGTAA
37693248 ATGT
64 ATGT
* * * * *
37693252 AGCTGTCCGAATGTGTTAAATTCATTGCTCGATGCACTACCATATATGCTGTTTTTTTAGTAAAT
1 AGCTGTCCGAATGTGTTAGATTCACTACTCAAAGCACTACCATATATGCTGTTTTTTTAGTAAAT
37693317 GT
66 GT
*
37693319 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
37693340 TCACAGTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
66 3 0.04
67 27 0.36
68 44 0.59
69 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (67 bp):
AGCTGTCCGAATGTGTTAGATTCACTACTCAAAGCACTACCATATATGCTGTTTTTTTAGTAAAT
GT
Found at i:37696403 original size:34 final size:34
Alignment explanation
Indices: 37696360--37696433 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
37696350 CTTAGCTTTC
* *
37696360 AACTGAATGCCATTCTTCGCTATTCTCATACCATG
1 AACT-AATGCCATTCTCCGCTATTCTCATACCACG
*
37696395 AACTAATGCCATTCTCCGCTATTCTCGTACCACG
1 AACTAATGCCATTCTCCGCTATTCTCATACCACG
37696429 AACTA
1 AACTA
37696434 CTCTCAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (34 bp):
AACTAATGCCATTCTCCGCTATTCTCATACCACG
Found at i:37698394 original size:40 final size:40
Alignment explanation
Indices: 37698296--37698598 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
37698286 TCCTCGTTCA
* * * * *
37698296 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
37698335 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37698375 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37698415 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37698455 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37698495 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
37698535 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
37698575 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37698599 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.16
40 193 0.80
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37708237 original size:39 final size:40
Alignment explanation
Indices: 37708192--37708363 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
37708182 GCTCCTCGTT
* * *
37708192 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
37708232 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37708271 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
37708311 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
37708351 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37708364 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37708292 original size:40 final size:39
Alignment explanation
Indices: 37708194--37708416 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
37708184 TCCTCGTTCA
* * * *
37708194 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37708233 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37708272 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37708312 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
37708352 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37708393 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37708417 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37708376 original size:80 final size:79
Alignment explanation
Indices: 37708192--37708416 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
37708182 GCTCCTCGTT
* * * * *
37708192 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
37708256 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
37708271 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
37708336 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
37708351 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
37708415 GA
63 GA
37708417 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:37708425 original size:41 final size:41
Alignment explanation
Indices: 37708348--37708425 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37708338 TTTGTATCTC
* * *
37708348 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37708389 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37708426 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37721785 original size:43 final size:42
Alignment explanation
Indices: 37721738--37721836 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
37721728 TCTCAGATGT
*
37721738 GGTCTTACATGTAATCAAATATCAATGCC-ATTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATAT-AATGCCGA-TGTCCCAGACAG
** * *
37721781 GGTCTTACACAAAATCAAATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATAATGCCGATGTCCCAGACAG
37721823 GGTCTTACACGTAA
1 GGTCTTACACGTAA
37721837 ATCTCAAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.58
43 20 0.42
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATAATGCCGATGTCCCAGACAG
Done.