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 197 of 297
Found at i:66808596 original size:14 final size:14
Alignment explanation
Indices: 66808577--66808625 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
66808567 AATTAAATAA
66808577 AAATTAAGAAAGAC
1 AAATTAAGAAAGAC
* *
66808591 AAATTAACAATCGA-
1 AAATTAAGAA-AGAC
*
66808605 GAATTAAGAAAGAC
1 AAATTAAGAAAGAC
66808619 AAATTAA
1 AAATTAA
66808626 CAATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.18
Consensus pattern (14 bp):
AAATTAAGAAAGAC
Found at i:66808613 original size:28 final size:28
Alignment explanation
Indices: 66808578--66808638 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
66808568 ATTAAATAAA
66808578 AATTAAGAAAGACAAATTAACAATCGAG
1 AATTAAGAAAGACAAATTAACAATCGAG
66808606 AATTAAGAAAGACAAATTAACAATCGAG
1 AATTAAGAAAGACAAATTAACAATCGAG
66808634 -ATTAA
1 AATTAA
66808639 CTCAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (28 bp):
AATTAAGAAAGACAAATTAACAATCGAG
Found at i:66820752 original size:32 final size:32
Alignment explanation
Indices: 66820711--66820772 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
66820701 CATCTATTTT
66820711 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
66820743 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
66820773 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:66829674 original size:40 final size:39
Alignment explanation
Indices: 66829619--66829780 Score: 209
Period size: 40 Copynumber: 4.1 Consensus size: 39
66829609 GATGATAACG
*
66829619 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-TCC
*
66829659 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCC
* *
66829699 GGGCTAAGTCCCGAAGACATTTGTGCAAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTATATCC
* * *
66829739 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTCGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATATCC
66829779 GG
1 GG
66829781 TTAAAGCCCG
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
39 2 0.02
40 104 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCC
Found at i:66829752 original size:80 final size:80
Alignment explanation
Indices: 66829619--66829780 Score: 238
Period size: 80 Copynumber: 2.0 Consensus size: 80
66829609 GATGATAACG
* * * *
66829619 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGACATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
*
66829684 CGAGTTACTATATCC
66 CGAGTCACTATATCC
66829699 GGGCTAAGTCCCGAAGACATTTGTGCAAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGACATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
66829762 AGCGAGTCGCTATATCC
64 AGCGAGTCACTATATCC
66829779 GG
1 GG
66829781 TTAAAGCCCG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.03
80 70 0.95
81 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGACATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTCACTATATCC
Found at i:66835928 original size:3 final size:3
Alignment explanation
Indices: 66835920--66835956 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
66835910 GCCAAATACT
66835920 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
66835957 CTTTTTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:66844791 original size:33 final size:33
Alignment explanation
Indices: 66844746--66844867 Score: 208
Period size: 33 Copynumber: 3.7 Consensus size: 33
66844736 GCGCCGTCAT
*
66844746 AAGTTACAGTATCTTTGTTTCACACACCATCAC
1 AAGTTACGGTATCTTTGTTTCACACACCATCAC
*
66844779 AAGTTATGGTATCTTTGTTTCACACACCATCAC
1 AAGTTACGGTATCTTTGTTTCACACACCATCAC
*
66844812 AAGTTACGGTATCTTTGTGTCACACACCATCAC
1 AAGTTACGGTATCTTTGTTTCACACACCATCAC
*
66844845 AAGTTACGGTATCTTCGTTTCAC
1 AAGTTACGGTATCTTTGTTTCAC
66844868 GCGCCACTCG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (33 bp):
AAGTTACGGTATCTTTGTTTCACACACCATCAC
Found at i:66858373 original size:36 final size:35
Alignment explanation
Indices: 66858318--66858394 Score: 136
Period size: 36 Copynumber: 2.2 Consensus size: 35
66858308 AGGAGAAGAG
66858318 AAAATTACCAATAGCCCTTGTACTTAGTCATTTCC
1 AAAATTACCAATAGCCCTTGTACTTAGTCATTTCC
66858353 AAAATTACCAAATAGCCCTTGTACTTAGTCATTTCC
1 AAAATTACC-AATAGCCCTTGTACTTAGTCATTTCC
*
66858389 ACAATT
1 AAAATT
66858395 TAGCTAGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 9 0.22
36 31 0.77
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (35 bp):
AAAATTACCAATAGCCCTTGTACTTAGTCATTTCC
Found at i:66859608 original size:48 final size:48
Alignment explanation
Indices: 66859530--66859770 Score: 192
Period size: 48 Copynumber: 5.1 Consensus size: 48
66859520 GAAATCACAT
* * * *
66859530 TCACATAGTCGGATGCCAATGACATATCCCAGATATGGTCTTACGTGGGA
1 TCACATA-TC-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * *
66859580 TCACATATCGATGCTAATGCCATGTCCCAGACATGTTCTTACATGGAA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * * * * *
66859628 TCATGCATATCAAAGCCGAT---A-G-CCCA-ATTATGGTCTTACACGATG-
1 TCA--CATATCGATGCCAATGCCATGTCCCAGA-CATGGTCTTACATG-GGA
** * * *
66859673 TCTTATATTGATGCCAATGCTATGTCCTAGACATGGTCTTACATGGG-
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
66859720 TCACATTTCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
66859768 TCA
1 TCA
66859771 TGCATATCCC
Statistics
Matches: 149, Mismatches: 31, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
43 10 0.07
44 1 0.01
45 17 0.11
46 2 0.01
47 45 0.30
48 53 0.36
49 3 0.02
50 18 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:66868737 original size:28 final size:28
Alignment explanation
Indices: 66868705--66868771 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
66868695 GTAAGTCCGT
66868705 ACACTTAGTGCT-TA-ATAGTCAAACTCGC
1 ACACTTAGTGCTATACA-A-TCAAACTCGC
*
66868733 ACACTTAGTGCTATACAATTAAACTCGC
1 ACACTTAGTGCTATACAATCAAACTCGC
66868761 ACACTTAGTGC
1 ACACTTAGTGC
66868772 CAATCTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 32 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
ACACTTAGTGCTATACAATCAAACTCGC
Found at i:66877514 original size:27 final size:26
Alignment explanation
Indices: 66877470--66877521 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
66877460 CTCGCTGCAA
*
66877470 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
66877497 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
66877522 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:66904293 original size:7 final size:7
Alignment explanation
Indices: 66904281--66904316 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
66904271 ATCTAAAATA
66904281 AATGTCC
1 AATGTCC
66904288 AATGTCC
1 AATGTCC
66904295 AATGTCC
1 AATGTCC
66904302 AATGTCC
1 AATGTCC
66904309 AATGTCC
1 AATGTCC
66904316 A
1 A
66904317 TTTACAACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
AATGTCC
Found at i:66905574 original size:41 final size:41
Alignment explanation
Indices: 66905517--66905594 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
66905507 AATTTCCTTA
*
66905517 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGGCGTGGGTG
1 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTGGGTG
66905558 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTG
1 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTG
66905595 TGATCACCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (41 bp):
TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTGGGTG
Found at i:66913475 original size:25 final size:25
Alignment explanation
Indices: 66913442--66913511 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
66913432 CTCTTTTAAT
*
66913442 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
66913467 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
66913492 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
66913512 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:66913754 original size:27 final size:27
Alignment explanation
Indices: 66913724--66913854 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
66913714 ATGGTAATAT
* *
66913724 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * * *
66913751 TACCCTATAGGGGTATTTCAATATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
66913778 TACCCTACAAGGGTATTTTGGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
*
66913805 TACCCTAC-AGGAGTATTTCAATAATTC
1 TACCCTACAAGG-GTATTTCGATAATTC
*
66913832 TACCCTACAGGGGTATTTCGATA
1 TACCCTACAAGGGTATTTCGATA
66913855 TTTTACAAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 80 0.94
28 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATTC
Found at i:66913782 original size:54 final size:54
Alignment explanation
Indices: 66913724--66913854 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
66913714 ATGGTAATAT
* * * * *
66913724 TACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATATTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
* *
66913778 TACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGAGTATTTCAATAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
*
66913832 TACCCTACAGGGGTATTTCGATA
1 TACCCTACAAGGGTATTTCGATA
66913855 TTTTACAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
Found at i:66913900 original size:27 final size:27
Alignment explanation
Indices: 66913839--66914145 Score: 395
Period size: 27 Copynumber: 11.4 Consensus size: 27
66913829 TTCTACCCTA
* * *
66913839 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * * * *
66913865 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
66913892 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
66913919 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66913946 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
66913973 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66914000 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66914027 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
66914054 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* ** *
66914081 CAAGGGTATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
66914108 C-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
66914135 CAAGGGTATTT
1 CAGGGGTATTT
66914146 CAATAATTTT
Statistics
Matches: 248, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
25 1 0.00
26 12 0.05
27 234 0.94
28 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:66914179 original size:27 final size:27
Alignment explanation
Indices: 66914149--66914207 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
66914139 GGTATTTCAA
* *
66914149 TAATTTTGTAAATCGAGGTTAAAATTG
1 TAATTTTGTAAATCGAGGGTAAAATGG
*
66914176 TAATTTTGTAAATTGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATGG
66914203 TAATT
1 TAATT
66914208 CTGTNNNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAATGG
Found at i:66914179 original size:81 final size:81
Alignment explanation
Indices: 66913854--66914182 Score: 232
Period size: 81 Copynumber: 4.1 Consensus size: 81
66913844 GTATTTCGAT
** * * * * * * *** * *
66913854 ATTTTACAAATCGAGAGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGC
1 ATTTTACTGATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTATAAAC
* **
66913919 CAGGGGTATTTTGGTA
66 CAAGGGTAAATTGGTA
* * * * * *** *
66913935 ATTTTAC-AAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA
1 ATTTTACTGATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTATAAA
**
66913999 CCAAGGGTATTTTGGTA
65 CCAAGGGTAAATTGGTA
* * * * ***
66914016 ATTTTAC-AAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAA
1 ATTTTACTGATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTATAAA
**
66914080 CCAAGGGTATTTTGGTA
65 CCAAGGGTAAATTGGTA
** * *
66914097 ATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAATAATTTTGTAAAT
1 ATTTTACTGATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTATAAAC
* *
66914162 CGAGGTTAAAATT-GTA
66 CAAGGGT-AAATTGGTA
66914178 ATTTT
1 ATTTT
66914183 GTAAATTGAG
Statistics
Matches: 217, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
80 4 0.02
81 207 0.95
82 6 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
ATTTTACTGATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTATAAAC
CAAGGGTAAATTGGTA
Found at i:66914361 original size:27 final size:27
Alignment explanation
Indices: 66914323--66914477 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
66914313 NNNNNNNNNN
*
66914323 TAAAATGGTAATTCTATAAATCGAGGG
1 TAAAACGGTAATTCTATAAATCGAGGG
* * *
66914350 TAAAATGGTAATTCTGTAAATTGAGGG
1 TAAAACGGTAATTCTATAAATCGAGGG
*
66914377 TAAAACAGTAATTCTATAAATCGAGGG
1 TAAAACGGTAATTCTATAAATCGAGGG
* *
66914404 TAAAATGGTAATTCTGTAAATCGAGGG
1 TAAAACGGTAATTCTATAAATCGAGGG
66914431 TAAAACGGTAATTCTATAAATCGAGGG
1 TAAAACGGTAATTCTATAAATCGAGGG
*
66914458 TAAAACGGTAAATCTATAAA
1 TAAAACGGTAATTCTATAAA
66914478 ATTTGAGGGC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
TAAAACGGTAATTCTATAAATCGAGGG
Found at i:66916732 original size:41 final size:44
Alignment explanation
Indices: 66916682--66916764 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
66916672 GCGATTGAAA
*
66916682 TTAGCTTCGGCTA-CT-A-AAGGCACTAAGTGTGTGATATCGAC
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
* * *
66916723 TTAGCTTCGGTTAGTTGAGATGGCACTAAGTGTGTGAAATCG
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCG
66916765 TTCTATCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.34
42 1 0.03
43 1 0.03
44 21 0.60
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (44 bp):
TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
Found at i:66918421 original size:92 final size:92
Alignment explanation
Indices: 66918264--66918448 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
66918254 GCGTATGTGA
66918264 ATCTAGCTATACATGCCATATTTATGAACTACGATAATGTGTTGAATCCTGACATTGAAATGTGC
1 ATCTAGCTATACATGCCATATTTATGAACTACGATAATGTGTTGAATCCTGACATTGAAATGTGC
66918329 TTTTATATAGCAAATGGATCCCGATAG
66 TTTTATATAGCAAATGGATCCCGATAG
66918356 ATCTAGCTATACATGCCATATTTATGAACTACGATAATGTGTTGAATCCTGACATTGAAATGTGC
1 ATCTAGCTATACATGCCATATTTATGAACTACGATAATGTGTTGAATCCTGACATTGAAATGTGC
66918421 TTTTATATAGCAAATGGATCCCGATAG
66 TTTTATATAGCAAATGGATCCCGATAG
66918448 A
1 A
66918449 GCTGTAGCAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (92 bp):
ATCTAGCTATACATGCCATATTTATGAACTACGATAATGTGTTGAATCCTGACATTGAAATGTGC
TTTTATATAGCAAATGGATCCCGATAG
Found at i:66920683 original size:189 final size:188
Alignment explanation
Indices: 66920354--66920732 Score: 674
Period size: 189 Copynumber: 2.0 Consensus size: 188
66920344 CTCCGACCGA
66920354 ACTAAAAGAATTAAAGTCTCAGTTGCAAGAGTTGATCGATTGAGGGTTTGTTAGACCAAGTTTCT
1 ACTAAAAGAATTAAAGTCTCAGTTGCAAGAGTTGATCGATTGAGGGTTTGTTAGACCAAGTTTCT
*
66920419 CACCTTGGGGGTGCTCCGGTTCTATTTGTGAAAAAGAAAGACGGTACGATGAGATAATAGCTCTG
66 CACCTTGGGGGTGCTCCGGTTCTATTTGTGAAAAAGAAAGACGGTACGATGAGATAATAGATCT-
66920484 CACCCACCAGTTGAACAAGGTGACTGTCAAGAATAAGTATCCCCTGCCCCAAATTGATG
130 CACCCACCAGTTGAACAAGGTGACTGTCAAGAATAAGTATCCCCTGCCCCAAATTGATG
66920543 ACTAAAAGAATTAAAGTCTCAGTTGCAAGAGTTGATCGATTGAGGGTTTGTTAGACCAAGTTTCT
1 ACTAAAAGAATTAAAGTCTCAGTTGCAAGAGTTGATCGATTGAGGGTTTGTTAGACCAAGTTTCT
66920608 CACCTTGGGGGTGCTCCGGTTCTATTTGTGAAAAAGAAAGACGGTACGATGAGAATATGTATAGA
66 CACCTTGGGGGTGCTCCGGTTCTATTTGTGAAAAAGAAAGACGGTACGATGAG-ATA---ATAGA
*
66920673 T-T-A-TCACCAGTTGAACAAGGTGACTGTCAAGAATAAGTATCCCCTGCCCCAAATTGATG
127 TCTCACCCACCAGTTGAACAAGGTGACTGTCAAGAATAAGTATCCCCTGCCCCAAATTGATG
66920732 A
1 A
66920733 TTTGCTTGAT
Statistics
Matches: 184, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
189 174 0.95
190 4 0.02
192 1 0.01
193 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (188 bp):
ACTAAAAGAATTAAAGTCTCAGTTGCAAGAGTTGATCGATTGAGGGTTTGTTAGACCAAGTTTCT
CACCTTGGGGGTGCTCCGGTTCTATTTGTGAAAAAGAAAGACGGTACGATGAGATAATAGATCTC
ACCCACCAGTTGAACAAGGTGACTGTCAAGAATAAGTATCCCCTGCCCCAAATTGATG
Found at i:66933882 original size:80 final size:80
Alignment explanation
Indices: 66933644--66933887 Score: 323
Period size: 80 Copynumber: 3.0 Consensus size: 80
66933634 TGGATGACAA
* * * **
66933644 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
* *
66933708 GTGCGAGTTACTATAT
65 GTGTGAGATACTATAT
* *
66933724 CCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
66933789 TGCT-AGATACTATAT
66 TG-TGAGATACTATAT
* * *
66933804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGTATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
66933869 AGTGAG-TAGCTATAT
66 TGTGAGATA-CTATAT
66933884 CCGG
1 CCGG
66933888 TTCAATCCCG
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 4 0.03
80 141 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGTGAGATACTATAT
Found at i:66933882 original size:120 final size:120
Alignment explanation
Indices: 66933644--66933887 Score: 350
Period size: 120 Copynumber: 2.0 Consensus size: 120
66933634 TGGATGACAA
*
66933644 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
* * *
66933709 TGCGAGTTACTATATCCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* *
66933764 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGATAAGTCCCGAAGGCATTTGCGCTAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* * * *
66933827 TGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTATAT
64 TGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATAT
66933884 CCGG
1 CCGG
66933888 TTCAATCCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
119 3 0.03
120 107 0.96
121 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (120 bp):
CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
Found at i:66933887 original size:40 final size:40
Alignment explanation
Indices: 66933644--66933862 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
66933634 TGGATGACAA
* * * **
66933644 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
66933684 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66933724 CCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66933764 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66933804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66933844 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66933863 TATTCGAGTG
Statistics
Matches: 164, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 163 0.99
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66934883 original size:18 final size:18
Alignment explanation
Indices: 66934860--66934896 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
66934850 AGAAGTCATG
66934860 CCATATATGTATAGATTC
1 CCATATATGTATAGATTC
66934878 CCATATATGTATAGATTC
1 CCATATATGTATAGATTC
66934896 C
1 C
66934897 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (18 bp):
CCATATATGTATAGATTC
Found at i:66941753 original size:40 final size:40
Alignment explanation
Indices: 66941698--66941895 Score: 274
Period size: 40 Copynumber: 5.0 Consensus size: 40
66941688 ATGATAACCT
* * *
66941698 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCG
*
66941738 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
66941778 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
66941818 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * * * *
66941858 GGCTATGTCCCAAAGGTATTCGAGCGAG-TAGCTATATC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
66941896 TGGTTCAATC
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 141 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:66947044 original size:26 final size:26
Alignment explanation
Indices: 66946990--66947070 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
66946980 GGCTATATAA
**
66946990 CAGGAAGCTCAT-AAGAGCCA-TAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
* *
66947014 CAGGAAGTTCATAAAGA-ACTTTTAAT
1 CAGGAAGCTCATAAAGAGA-TATTAAT
66947040 CAGGAAGCTCATAAAGAGATATTAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
66947066 CAGGA
1 CAGGA
66947071 GCTTCAGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.23
25 4 0.09
26 31 0.66
27 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGGAAGCTCATAAAGAGATATTAAT
Found at i:66950991 original size:79 final size:82
Alignment explanation
Indices: 66950856--66951039 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 82
66950846 TGAATGATGC
*
66950856 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
66950920 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATAAT
* * * * **
66950936 CCGGGCTAAG-CCTGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
66950998 TGTGCGAGTTACTATAAT
65 TGTGCGAGATACTATAAT
*
66951016 -CGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66951040 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAAT
Found at i:66951046 original size:40 final size:40
Alignment explanation
Indices: 66950856--66951039 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
66950846 TGAATGATGC
* * * *
66950856 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
66950896 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
66950936 CCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
66950975 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
66951016 -CGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66951040 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 79 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:66951061 original size:79 final size:79
Alignment explanation
Indices: 66950908--66951072 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
66950898 GGACTAAGAT
* * **
66950908 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
66950973 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
66950987 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
66951050 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
66951066 CCGAAGG
1 CCGAAGG
66951073 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 48 0.65
80 26 0.35
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:66962163 original size:24 final size:24
Alignment explanation
Indices: 66962117--66962207 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
66962107 AAGCTCCTCC
* * *
66962117 TGAGCTGATGAACAGTAATCTCTTT
1 TGAGCTGA-AAACGGTAAGCTCTTT
*
66962142 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACGGTAAGCTCTTT
66962166 TGAGCT-AAATA--GTAAGCTCTTT
1 TGAGCTGAAA-ACGGTAAGCTCTTT
** *
66962188 CAAGCTG-AATCGGTAAGCTC
1 TGAGCTGAAAACGGTAAGCTC
66962208 CAATGAGTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.30
23 11 0.20
24 19 0.35
25 8 0.15
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (24 bp):
TGAGCTGAAAACGGTAAGCTCTTT
Found at i:66962193 original size:22 final size:23
Alignment explanation
Indices: 66962155--66962207 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
66962145 GCTGAAAACG
*
66962155 GTAAGCTCTATTGAGCTAAAT-A
1 GTAAGCTCTATTAAGCTAAATCA
* *
66962177 GTAAGCTCT-TTCAAGCTGAATCG
1 GTAAGCTCTATT-AAGCTAAATCA
66962200 GTAAGCTC
1 GTAAGCTC
66962208 CAATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 16 0.62
23 8 0.31
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTATTAAGCTAAATCA
Found at i:66962194 original size:46 final size:46
Alignment explanation
Indices: 66962117--66962240 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
66962107 AAGCTCCTCC
* * * *
66962117 TGAGCTGATGAACAGTAATCTCTTTTGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTTTCGAGCTG-AAACGGTAAGCTCCAA
* * *
66962166 TGAGCT-AAATAGTAAGCTCTTTCAAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAA
* *
66962211 TGAGTTGAAACAGTAAGCTTTTTCGAGCTG
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCTG
66962241 TGGTGAGTCC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
45 18 0.29
46 38 0.60
48 1 0.02
49 6 0.10
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAA
Found at i:66965783 original size:37 final size:37
Alignment explanation
Indices: 66965733--66965811 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
66965723 TTATTACGAA
* * *
66965733 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
66965770 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
66965807 GTCTT
1 GTCTT
66965812 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:66966050 original size:51 final size:51
Alignment explanation
Indices: 66965989--66966448 Score: 902
Period size: 51 Copynumber: 9.0 Consensus size: 51
66965979 TGTCACATAT
66965989 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966040 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966091 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966142 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966193 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966244 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966295 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966346 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
* *
66966397 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
66966448 A
1 A
66966449 CTCTCTTGGC
Statistics
Matches: 407, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 407 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (51 bp):
ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATAC
Found at i:66973837 original size:24 final size:24
Alignment explanation
Indices: 66973793--66973871 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 24
66973783 AGCTCCTCCA
* *
66973793 GAGCTGATGAACAATAAGCTCTTTT
1 GAGCTGA-AAACAGTAAGCTCTTTT
* *
66973818 GAGCTGAAAACGGTAAGCTCTATT
1 GAGCTGAAAACAGTAAGCTCTTTT
*
66973842 GAGCTG--AACAGTAAGCTCTTTC
1 GAGCTGAAAACAGTAAGCTCTTTT
66973864 GAGCTGAA
1 GAGCTGAA
66973872 TCAATAAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 19 0.42
24 19 0.42
25 7 0.16
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTTTT
Found at i:66973858 original size:22 final size:22
Alignment explanation
Indices: 66973800--66973904 Score: 86
Period size: 22 Copynumber: 4.6 Consensus size: 22
66973790 CCAGAGCTGA
* *
66973800 TGAACAATAAGCTCTTTTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
66973822 TGAAAACGGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
66973846 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * * * *
66973868 TGAATCAATAAGTTCCAATAAGC
1 TGAA-CAGTAAGCTCTATTGAGC
66973891 TGAAACAGTAAGCT
1 TG-AACAGTAAGCT
66973905 TCTTCGAGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.03
22 22 0.33
23 20 0.30
24 22 0.33
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:66973914 original size:23 final size:23
Alignment explanation
Indices: 66973793--66973915 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 23
66973783 AGCTCCTCCA
* * *
66973793 GAGCTGATGAACAATAAGCTCTTTT
1 GAGCTGA--AACAGTAAGCTCATTC
*
66973818 GAGCTGAAAACGGTAAGCTCTATT-
1 GAGCTG-AAACAGTAAGCTC-ATTC
*
66973842 GAGCTG-AACAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCATTC
* * * *
66973864 GAGCTGAATCAATAAGTTCCAAT-
1 GAGCTGAAACAGTAAGCT-CATTC
*
66973887 AAGCTGAAACAGTAAGCTTC-TTC
1 GAGCTGAAACAGTAAGC-TCATTC
66973910 GAGCTG
1 GAGCTG
66973916 TGGTGAGTCT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 27 0.36
24 19 0.25
25 8 0.11
26 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATTC
Found at i:66976986 original size:46 final size:46
Alignment explanation
Indices: 66976928--66977054 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
66976918 TATCGCGAGA
* ** *
66976928 CCGATGCATGTCCCAGACATGTCTTACGCTAGCTTTCGT-CTCAGTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAG-G
* *
66976974 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGCTCTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAGG
* *
66977020 CTGATGCATGTCCTAGACATGTCTTACACTAGCAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC
66977055 ACATATGACC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 67 0.94
47 4 0.06
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAGG
Found at i:66986889 original size:13 final size:12
Alignment explanation
Indices: 66986873--66986976 Score: 52
Period size: 13 Copynumber: 8.1 Consensus size: 12
66986863 TCAAATTTTT
66986873 TTTCTATTTTCTC
1 TTTCT-TTTTCTC
*
66986886 TTTCTTGTTCATC
1 TTTCTTTTTC-TC
*
66986899 TTTTTATTTTCTC
1 TTTCT-TTTTCTC
66986912 ATTT-TCTTTTCTC
1 -TTTCT-TTTTCTC
*
66986925 TCTCTTTTTCT-
1 TTTCTTTTTCTC
* *
66986936 ATTCTTGTTTTCTT
1 TTTC-T-TTTTCTC
66986950 TTTCTCACTTTTCT-
1 TTTCT---TTTTCTC
66986964 TTTCTTTTTCTC
1 TTTCTTTTTCTC
66986976 T
1 T
66986977 CAATTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
11 8 0.11
12 14 0.19
13 29 0.40
14 15 0.21
15 6 0.08
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCTC
Found at i:66986923 original size:39 final size:45
Alignment explanation
Indices: 66986879--66986974 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 45
66986869 TTTTTTTCTA
66986879 TTTTCTCTTTCTTGTTC-A-TC-T-TTTT-ATTTTCTCA-TTTTC
1 TTTTCTCTTTCTTGTTCTATTCTTGTTTTCATTTTCTCACTTTTC
* * *
66986918 TTTTCTCTCTCTTTTTCTATTCTTGTTTTCTTTTTCTCACTTTTC
1 TTTTCTCTTTCTTGTTCTATTCTTGTTTTCATTTTCTCACTTTTC
*
66986963 TTTTCTTTTTCT
1 TTTTCTCTTTCT
66986975 CTCAATTGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
39 15 0.33
40 1 0.02
41 2 0.04
42 1 0.02
43 4 0.09
44 8 0.17
45 15 0.33
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.71
Consensus pattern (45 bp):
TTTTCTCTTTCTTGTTCTATTCTTGTTTTCATTTTCTCACTTTTC
Found at i:66986931 original size:30 final size:29
Alignment explanation
Indices: 66986897--66986961 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
66986887 TTCTTGTTCA
*
66986897 TCTTTTTATTTTCTCATTTTCTTTTCTCTC
1 TCTTTTTATATTCTCATTTTCTTTT-TCTC
* **
66986927 TCTTTTTCTATTCTTGTTTTCTTTTTCTC
1 TCTTTTTATATTCTCATTTTCTTTTTCTC
*
66986956 ACTTTT
1 TCTTTT
66986962 CTTTTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.71
Consensus pattern (29 bp):
TCTTTTTATATTCTCATTTTCTTTTTCTC
Found at i:66986966 original size:20 final size:20
Alignment explanation
Indices: 66986917--66986975 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
66986907 TTCTCATTTT
*
66986917 CTTTTCTCTCTCTTTTTCT-A
1 CTTTTCT-TTTCTTTTTCTCA
*
66986937 -TTCTTGTTTTCTTTTTCTCA
1 CTT-TTCTTTTCTTTTTCTCA
66986957 CTTTTCTTTTCTTTTTCTC
1 CTTTTCTTTTCTTTTTCTC
66986976 TCAATTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.36
20 19 0.58
21 2 0.06
ACGTcount: A:0.03, C:0.25, G:0.02, T:0.69
Consensus pattern (20 bp):
CTTTTCTTTTCTTTTTCTCA
Found at i:66991233 original size:30 final size:30
Alignment explanation
Indices: 66991199--66991265 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
66991189 TAAACTAAAA
*
66991199 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAG
1 TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
* *
66991228 TTGAGCTAAGGTTTAGCTCATGAGTTGAAAG
1 -TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
66991259 TGAGCTA
1 TGAGCTA
66991266 GGAGTGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTGAAAG
Found at i:66992760 original size:20 final size:21
Alignment explanation
Indices: 66992737--66992783 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
66992727 TCAGCTCCCA
*
66992737 TCAGCTCACTTGAGCTCG-AT
1 TCAGCTCACTTGAGCTAGAAT
**
66992757 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCACTTGAGCTAGAAT
66992778 TCAGCT
1 TCAGCT
66992784 TGATTCAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (21 bp):
TCAGCTCACTTGAGCTAGAAT
Found at i:66992834 original size:11 final size:12
Alignment explanation
Indices: 66992815--66992847 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
66992805 CATTCTAATA
66992815 AATTAAGTTT-T
1 AATTAAGTTTAT
*
66992826 AATTCAGTTTAT
1 AATTAAGTTTAT
66992838 AATTAAGTTT
1 AATTAAGTTT
66992848 GCTACAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
AATTAAGTTTAT
Found at i:66995719 original size:286 final size:285
Alignment explanation
Indices: 66995193--66995763 Score: 1034
Period size: 286 Copynumber: 2.0 Consensus size: 285
66995183 ATATAGGAAC
*
66995193 CGGGGTGACACTTCTTAGTGTTGAACCATTCCTGACGTTGAGTTCGTTTTTCCATCCCCCATCTT
1 CGGGGTGACACTTCTTAGTGTTGAACCATTCCTGACGTTGAGTTCATTTTTCCATCCCCCATCTT
* *
66995258 TCAACTTTCCTTCTTGTAACCAAACCGACCCATTTATCCATCACCCATCTTTGCTATACATAACC
66 TCAACTTTCCTTCTTGTAACCAAACCGACCCATTTATCCATCACACATCTTTGCTACACATAACC
*
66995323 AACCTATTACTAACCTTACCCTTCTTGAAACCTTCCGCTTATTCTAATCCATTATTTTACTTTTA
131 AACCTATTACTAAACTTACCCTTCTTGAAACCTTCCGCTTATTCTAATCCATTATTTTACTTTTA
*
66995388 TTACTAAAATCCGAGGCACGAACGACTCTCTCGAACTACGATCGGGCAACTACGTGAATTCGATT
196 TTACTAAAATCCGAGGCACGAACGACTCTCTCGAACTACGATCGGGCAACTACGTGAATTCGACT
66995453 CATCTACCCGGGCCGGATCACATCA
261 CATCTACCCGGGCCGGATCACATCA
* * *
66995478 CGGGGTGACACTTCTTAGTGTTGAATCATTCTTGACGTTGAGTTCATTTTTCTATCCCCCATCTT
1 CGGGGTGACACTTCTTAGTGTTGAACCATTCCTGACGTTGAGTTCATTTTTCCATCCCCCATCTT
*
66995543 TCAACTTTCCTTCTTGTAACCAAACCGACCCATTTATCCATCACACATCTTTTCTACACATAACC
66 TCAACTTTCCTTCTTGTAACCAAACCGACCCATTTATCCATCACACATCTTTGCTACACATAACC
*
66995608 GAACCTATTACTAAACTTACCCTTCTTGAAACCTTTCGCTTATTCTAATCCATTATTTTACTTTT
131 -AACCTATTACTAAACTTACCCTTCTTGAAACCTTCCGCTTATTCTAATCCATTATTTTACTTTT
66995673 ATTACTAAAATCCGAGGCACGAACGACTCTCTCGAACTACGATCGGGCAACTACGTGAATTCGAC
195 ATTACTAAAATCCGAGGCACGAACGACTCTCTCGAACTACGATCGGGCAACTACGTGAATTCGAC
*
66995738 TCATCTACCCGGGCCGGATCTCATCA
260 TCATCTACCCGGGCCGGATCACATCA
66995764 AAAGTGCTTA
Statistics
Matches: 274, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
285 123 0.45
286 151 0.55
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (285 bp):
CGGGGTGACACTTCTTAGTGTTGAACCATTCCTGACGTTGAGTTCATTTTTCCATCCCCCATCTT
TCAACTTTCCTTCTTGTAACCAAACCGACCCATTTATCCATCACACATCTTTGCTACACATAACC
AACCTATTACTAAACTTACCCTTCTTGAAACCTTCCGCTTATTCTAATCCATTATTTTACTTTTA
TTACTAAAATCCGAGGCACGAACGACTCTCTCGAACTACGATCGGGCAACTACGTGAATTCGACT
CATCTACCCGGGCCGGATCACATCA
Found at i:66996841 original size:12 final size:12
Alignment explanation
Indices: 66996824--66996868 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
66996814 CTCTCTCAAA
66996824 CTCTTTTTCATT
1 CTCTTTTTCATT
*
66996836 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
66996848 CTCATTTTCTTT
1 CTCTTTTTCATT
*
66996860 TTCTTTTTC
1 CTCTTTTTC
66996869 TTTTTGTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:66996855 original size:24 final size:24
Alignment explanation
Indices: 66996819--66996868 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
66996809 TTTTTCTCTC
*
66996819 TCAAACTCTTTTTCATTCTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
* * *
66996843 TCAATCTCATTTTCTTTTTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
66996867 TC
1 TC
66996869 TTTTTGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (24 bp):
TCAAACTCATTTTCATTCTCTTTT
Found at i:66996982 original size:15 final size:14
Alignment explanation
Indices: 66996942--66996987 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
66996932 CTCTTGCCTC
*
66996942 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
66996957 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
66996972 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
66996987 T
1 T
66996988 TTCTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:66996986 original size:12 final size:11
Alignment explanation
Indices: 66996942--66997004 Score: 53
Period size: 10 Copynumber: 5.9 Consensus size: 11
66996932 CTCTTGCCTC
66996942 TCTTTTCTTTT
1 TCTTTTCTTTT
* *
66996953 T-ATTTCATTT
1 TCTTTTCTTTT
*
66996963 TC-TTT-TTCT
1 TCTTTTCTTTT
66996972 TCTTTTGCTTTT
1 TCTTTT-CTTTT
66996984 TCTTTTCTTTGT
1 TCTTTTCTTT-T
66996996 T-TTTTCTTT
1 TCTTTTCTTT
66997005 ACAAGAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 4 0.10
10 14 0.33
11 13 0.31
12 11 0.26
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:66997000 original size:16 final size:15
Alignment explanation
Indices: 66996960--66997004 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
66996950 TTTTATTTCA
*
66996960 TTTT-CTTTTTCTTC
1 TTTTGCTTTTTCTTT
66996974 TTTTGCTTTTTCTTT
1 TTTTGCTTTTTCTTT
*
66996989 TCTTTGTTTTTTCTTT
1 T-TTTGCTTTTTCTTT
66997005 ACAAGAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 13 0.48
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (15 bp):
TTTTGCTTTTTCTTT
Found at i:66998053 original size:79 final size:75
Alignment explanation
Indices: 66997922--66998067 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 75
66997912 TCTTTTTTGA
* *
66997922 TTTTTTATATACTTTTTTTTATAACTACTAAAATGATAATTACAACACAATACTCGAATCTCACG
1 TTTTTTATATACTTTTTTTTATAACTACTAAAAAGATAAATACAACACAATACTCGAATCTCACG
66997987 AAGTAGTTTT
66 AAGTAGTTTT
* * ** * * *
66997997 TTTTTGTATATATTTTTTTGTTTATAAACTACTAAAAAGGTAAATACAGTATAATACTTGAATTT
1 TTTTT-TATATA-CTTTTT-TTTAT-AACTACTAAAAAGATAAATACAACACAATACTCGAATCT
66998062 CACGAA
62 CACGAA
66998068 ACAAATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
75 5 0.09
76 6 0.10
77 5 0.09
78 5 0.09
79 37 0.64
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (75 bp):
TTTTTTATATACTTTTTTTTATAACTACTAAAAAGATAAATACAACACAATACTCGAATCTCACG
AAGTAGTTTT
Found at i:66999656 original size:30 final size:30
Alignment explanation
Indices: 66999571--66999667 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
66999561 TAAACTAAAA
* *
66999571 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
66999601 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
66999631 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
66999660 ATGAGCTA
1 -TGAGCTA
66999668 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:67004303 original size:20 final size:20
Alignment explanation
Indices: 67004280--67004327 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
67004270 AGCTCCGTCC
67004280 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** **
67004300 AGCTCGTTTCAGCTGGTTTG
1 AGCTCAACTCAGCTCATTTG
67004320 AGCTCAAC
1 AGCTCAAC
67004328 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:67007384 original size:19 final size:19
Alignment explanation
Indices: 67007360--67007399 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
67007350 AGCTCCCATA
67007360 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
67007379 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
67007398 TA
1 TA
67007400 TCTGATATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:67007666 original size:20 final size:20
Alignment explanation
Indices: 67007643--67007690 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
67007633 AGCTCCGTCC
67007643 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
67007663 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
67007683 AGCTCAAC
1 AGCTCAAC
67007691 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:67008097 original size:19 final size:19
Alignment explanation
Indices: 67008073--67008110 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
67008063 AGTTGACTTA
67008073 TAATTATTA-TGTCTAAATT
1 TAATTATTACTGT-TAAATT
67008092 TAATTATTACTGTTAAATT
1 TAATTATTACTGTTAAATT
67008111 GTTTAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TAATTATTACTGTTAAATT
Found at i:67008130 original size:21 final size:22
Alignment explanation
Indices: 67008090--67008131 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
67008080 TATGTCTAAA
*
67008090 TTTAATTATTACTGTTAAATTG
1 TTTAATTATTAATGTTAAATTG
*
67008112 TTTAGTTATTAAT-TTAAATT
1 TTTAATTATTAATGTTAAATT
67008132 ATGATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTAATTATTAATGTTAAATTG
Found at i:67008150 original size:216 final size:216
Alignment explanation
Indices: 67007776--67008207 Score: 846
Period size: 216 Copynumber: 2.0 Consensus size: 216
67007766 CAGCTCATGC
*
67007776 AGAAACCCCTAGCTCAATTTCAGCTCATTAAGTGTTTTGACTAATTTTGAGCTAGCCGAATTTAC
1 AGAAACCCCTAGCTCAATTTCAACTCATTAAGTGTTTTGACTAATTTTGAGCTAGCCGAATTTAC
*
67007841 TTCATAAGTTGACTTATAATTATTATGTCTAAATTTAATTATTGCTGTTAAATTGTTTAGTTATT
66 TTCATAAGTTGACTTATAATTATTATGTCTAAATTTAATTATTACTGTTAAATTGTTTAGTTATT
67007906 AATTTAAATTATGATTTTTTATGAATAGTTATCTTTTAATTAATTGTGTGTTAATTCATGTAGGT
131 AATTTAAATTATGATTTTTTATGAATAGTTATCTTTTAATTAATTGTGTGTTAATTCATGTAGGT
67007971 TAGCCGAATGTGGAAGGTACA
196 TAGCCGAATGTGGAAGGTACA
67007992 AGAAACCCCTAGCTCAATTTCAACTCATTAAGTGTTTTGACTAATTTTGAGCTAGCCGAATTTAC
1 AGAAACCCCTAGCTCAATTTCAACTCATTAAGTGTTTTGACTAATTTTGAGCTAGCCGAATTTAC
67008057 TTCATAAGTTGACTTATAATTATTATGTCTAAATTTAATTATTACTGTTAAATTGTTTAGTTATT
66 TTCATAAGTTGACTTATAATTATTATGTCTAAATTTAATTATTACTGTTAAATTGTTTAGTTATT
67008122 AATTTAAATTATGATTTTTTATGAATAGTTATCTTTTAATTAATTGTGTGTTAATTCATGTAGGT
131 AATTTAAATTATGATTTTTTATGAATAGTTATCTTTTAATTAATTGTGTGTTAATTCATGTAGGT
67008187 TAGCCGAATGTGGAAGGTACA
196 TAGCCGAATGTGGAAGGTACA
67008208 TTCATGAAGA
Statistics
Matches: 214, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 214 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (216 bp):
AGAAACCCCTAGCTCAATTTCAACTCATTAAGTGTTTTGACTAATTTTGAGCTAGCCGAATTTAC
TTCATAAGTTGACTTATAATTATTATGTCTAAATTTAATTATTACTGTTAAATTGTTTAGTTATT
AATTTAAATTATGATTTTTTATGAATAGTTATCTTTTAATTAATTGTGTGTTAATTCATGTAGGT
TAGCCGAATGTGGAAGGTACA
Found at i:67013064 original size:30 final size:31
Alignment explanation
Indices: 67013030--67013126 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
67013020 TAAACTAAAA
*
67013030 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
1 TGAGCTAAGCTTTAGCTCCTGAGCTGAAAGT
* * * *
67013060 TGAGCTGAGGC-TGAACTCCTAAGCTGAAA-T
1 TGAGCT-AAGCTTTAGCTCCTGAGCTGAAAGT
* *
67013090 TGAGCTAAGGTTTAGCTCCTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCCTGAGCTGAAAGT
67013120 TGAGCTA
1 TGAGCTA
67013127 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
29 2 0.04
30 44 0.85
31 6 0.12
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (31 bp):
TGAGCTAAGCTTTAGCTCCTGAGCTGAAAGT
Found at i:67013740 original size:21 final size:21
Alignment explanation
Indices: 67013716--67013783 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
67013706 GATTTTGAAT
67013716 GAAATCGAGAGAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
* ***** *
67013737 GAAAGCGAGAGAATCTTGAAT
1 GAAATCGAGAGAAGAAACAAA
*
67013758 GAAATCGAGAAAAGAAACAAA
1 GAAATCGAGAGAAGAAACAAA
67013779 GAAAT
1 GAAAT
67013784 GAAAGAAAAA
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.57, C:0.09, G:0.24, T:0.10
Consensus pattern (21 bp):
GAAATCGAGAGAAGAAACAAA
Found at i:67013756 original size:42 final size:42
Alignment explanation
Indices: 67013701--67013782 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
67013691 GAGAGAAAAT
* * *
67013701 GAGAGGATTTTGAATGAAATCGAGAGAAGAAACAAAGAAAGC
1 GAGAGAATCTTGAATGAAATCGAGAAAAGAAACAAAGAAAGC
67013743 GAGAGAATCTTGAATGAAATCGAGAAAAGAAACAAAGAAA
1 GAGAGAATCTTGAATGAAATCGAGAAAAGAAACAAAGAAA
67013783 TGAAAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.54, C:0.07, G:0.26, T:0.13
Consensus pattern (42 bp):
GAGAGAATCTTGAATGAAATCGAGAAAAGAAACAAAGAAAGC
Found at i:67013817 original size:18 final size:18
Alignment explanation
Indices: 67013794--67013843 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
67013784 GAAAGAAAAA
67013794 GAAAAAGAGAATGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
67013812 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
67013830 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
67013844 AAAAGAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:67015502 original size:20 final size:20
Alignment explanation
Indices: 67015479--67015526 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
67015469 AGCTCCGGCT
67015479 AGCTCAACTCAGCTCATTTA
1 AGCTCAACTCAGCTCATTTA
*** * *
67015499 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTA
67015519 AGCTCAAC
1 AGCTCAAC
67015527 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTA
Found at i:67016162 original size:27 final size:27
Alignment explanation
Indices: 67016132--67016185 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
67016122 AGAGACACTT
67016132 TTTGAATGATTCATTCACCCTATGGCC
1 TTTGAATGATTCATTCACCCTATGGCC
*
67016159 TTTGAATGATTCATTCATCCTATGGCC
1 TTTGAATGATTCATTCACCCTATGGCC
67016186 GAATTTAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (27 bp):
TTTGAATGATTCATTCACCCTATGGCC
Found at i:67018051 original size:42 final size:42
Alignment explanation
Indices: 67017989--67018077 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
67017979 AGATTATGAG
* * * * *
67017989 AGAAAATGAGAGGATTTTGAATGAAATCGAGAGAAGAAACAA
1 AGAAAACGAGAGAATCTTGAATGAAATCGAGAAAAAAAACAA
67018031 AGAAAACGAGAGAATCTTGAATGAAATCGAGAAAAAAAACAA
1 AGAAAACGAGAGAATCTTGAATGAAATCGAGAAAAAAAACAA
67018073 AGAAA
1 AGAAA
67018078 TGAAAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.57, C:0.07, G:0.22, T:0.13
Consensus pattern (42 bp):
AGAAAACGAGAGAATCTTGAATGAAATCGAGAAAAAAAACAA
Found at i:67018137 original size:18 final size:18
Alignment explanation
Indices: 67018089--67018138 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
67018079 GAAAGAAAAA
*
67018089 GAAAAAGAGAATAAGAGT
1 GAAAAAGAGAATGAGAGT
* *
67018107 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
67018125 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
67018139 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:67024216 original size:254 final size:254
Alignment explanation
Indices: 67023767--67024274 Score: 980
Period size: 254 Copynumber: 2.0 Consensus size: 254
67023757 CCTGAAAAAA
67023767 GTTCCAATTGTGATTCCTTTTCGTCATCTACTTTGAGACAAAGAGATTCATACTATGACTCATAT
1 GTTCCAATTGTGATTCCTTTTCGTCATCTACTTTGAGACAAAGAGATTCATACTATGACTCATAT
67023832 TCATCAGCAAATTCGAGAAGTGACTTCGATCGAAAGTCCTTTTCATCAAGAAATTCGAGAAGACG
66 TCATCAGCAAATTCGAGAAGTGACTTCGATCGAAAGTCCTTTTCATCAAGAAATTCGAGAAGACG
67023897 AGAAGCCGATTACGATTTTGATTCGTTCCAAGATGGCGTTCAAAGAGAAAGACATACTCCTACTA
131 AGAAGCCGATTACGATTTTGATTCGTTCCAAGATGGCGTTCAAAGAGAAAGACATACTCCTACTA
*
67023962 GATCTTCAAAGAAATCTTAATCGGAGTATTCTTCACGATGTTTTGATTGTGAATCATAC
196 GATCTTCAAAGAAATCTTAATCGGAGTATTCTTCACGAAGTTTTGATTGTGAATCATAC
67024021 GTTCCAATTGTGATTCCTTTTCGTCATCTACTTTGAGACAAAGAGATTCATACTATGACTCATAT
1 GTTCCAATTGTGATTCCTTTTCGTCATCTACTTTGAGACAAAGAGATTCATACTATGACTCATAT
67024086 TCATCAGCAAATTCGAGAAGTGACTTCGATCGAAAGTCCTTTTCATCAAGAAATTCGAGAAGACG
66 TCATCAGCAAATTCGAGAAGTGACTTCGATCGAAAGTCCTTTTCATCAAGAAATTCGAGAAGACG
67024151 AGAAGCCGATTACGATTTTGATTCGTTCCAAGATGGCGTTCAAAGAGAAAGACATACTCCTACTA
131 AGAAGCCGATTACGATTTTGATTCGTTCCAAGATGGCGTTCAAAGAGAAAGACATACTCCTACTA
* * *
67024216 GATCTTCAAAGAAATCTTACTCGGAGTATTCTTCATGAAGTTTTGATTTTGAATCATAC
196 GATCTTCAAAGAAATCTTAATCGGAGTATTCTTCACGAAGTTTTGATTGTGAATCATAC
67024275 ACAAATAGTT
Statistics
Matches: 250, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 250 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (254 bp):
GTTCCAATTGTGATTCCTTTTCGTCATCTACTTTGAGACAAAGAGATTCATACTATGACTCATAT
TCATCAGCAAATTCGAGAAGTGACTTCGATCGAAAGTCCTTTTCATCAAGAAATTCGAGAAGACG
AGAAGCCGATTACGATTTTGATTCGTTCCAAGATGGCGTTCAAAGAGAAAGACATACTCCTACTA
GATCTTCAAAGAAATCTTAATCGGAGTATTCTTCACGAAGTTTTGATTGTGAATCATAC
Found at i:67024372 original size:21 final size:20
Alignment explanation
Indices: 67024338--67024405 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
67024328 ACATTTTTGT
67024338 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
67024359 AAAGAAAAAGCAAAAGAAGGA
1 AAAGAAAAAGCAAAA-AAAGA
* *
67024380 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
67024401 AAAGA
1 AAAGA
67024406 GAGACAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.12
21 33 0.82
22 2 0.05
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:67024373 original size:6 final size:5
Alignment explanation
Indices: 67024349--67024405 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67024339 AAGAGAAAAC
*
67024349 AAAGA AAAGA AAAGAA AAAGCA AAAG- AAGGA AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
67024396 AAAGA AAAGA
1 AAAGA AAAGA
67024406 GAGACAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:67024519 original size:30 final size:31
Alignment explanation
Indices: 67024485--67024555 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
67024475 AAATGAAAAA
*
67024485 GAAAAAGAAA-ATGAGATTGAAAAAG-AGAAC
1 GAAAAAGAAATATGAGAGTGAAAAAGAAG-AC
* *
67024515 G-AAAAGAAATCTGAGAGTGAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
67024545 GAAAAAGAAAT
1 GAAAAAGAAAT
67024556 TGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 8 0.23
30 16 0.46
31 11 0.31
ACGTcount: A:0.62, C:0.03, G:0.24, T:0.11
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
Found at i:67026667 original size:30 final size:30
Alignment explanation
Indices: 67026633--67026729 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
67026623 AGCTCACTCC
67026633 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
67026663 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* *
67026693 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
67026723 TAGCTCA
1 TAGCTCA
67026730 TTTTAGTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:67026901 original size:85 final size:85
Alignment explanation
Indices: 67026797--67026954 Score: 316
Period size: 85 Copynumber: 1.9 Consensus size: 85
67026787 ATTTAAGCAT
67026797 TAAACTTGTCTTATATTAATATTTGTTATTAATATGTCATTGTCATTATATAAATTGATTATGTT
1 TAAACTTGTCTTATATTAATATTTGTTATTAATATGTCATTGTCATTATATAAATTGATTATGTT
67026862 CACATAGCTCATTGTCATTA
66 CACATAGCTCATTGTCATTA
67026882 TAAACTTGTCTTATATTAATATTTGTTATTAATATGTCATTGTCATTATATAAATTGATTATGTT
1 TAAACTTGTCTTATATTAATATTTGTTATTAATATGTCATTGTCATTATATAAATTGATTATGTT
67026947 CACATAGC
66 CACATAGC
67026955 CGAATTAATG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.48
Consensus pattern (85 bp):
TAAACTTGTCTTATATTAATATTTGTTATTAATATGTCATTGTCATTATATAAATTGATTATGTT
CACATAGCTCATTGTCATTA
Found at i:67027397 original size:15 final size:15
Alignment explanation
Indices: 67027377--67027453 Score: 77
Period size: 15 Copynumber: 5.3 Consensus size: 15
67027367 TCAAAGATGG
67027377 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
67027392 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
67027406 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
67027421 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
67027435 GTTTATGGATATAAA
1 GTTTATGGATATGAA
67027450 GTTT
1 GTTT
67027454 TTGTAGGTTT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
14 21 0.45
15 26 0.55
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:67027411 original size:14 final size:14
Alignment explanation
Indices: 67027371--67027443 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
67027361 AAGGATTCAA
67027371 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
67027385 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
67027400 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
67027414 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
67027429 AGATGGGTTTATGG
1 AGATGGGTTTATGG
67027443 A
1 A
67027444 TATAAAGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
14 23 0.51
15 22 0.49
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:67027469 original size:29 final size:29
Alignment explanation
Indices: 67027371--67027459 Score: 160
Period size: 29 Copynumber: 3.1 Consensus size: 29
67027361 AAGGATTCAA
67027371 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
67027400 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
* *
67027429 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
67027458 AG
1 AG
67027460 GTTTGGTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATGAAGTTTATGT
Found at i:67033368 original size:18 final size:18
Alignment explanation
Indices: 67033333--67033379 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
67033323 AAAAAAGGAA
*
67033333 ATTGAAAAAGAGAGAGAG
1 ATTGAAAAAGAGAAAGAG
67033351 ATTGAAGAAAGA-AAAGAG
1 ATTGAA-AAAGAGAAAGAG
67033369 AGTGTGAAAAA
1 A-T-TGAAAAA
67033380 AATGAGTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.13
Consensus pattern (18 bp):
ATTGAAAAAGAGAAAGAG
Found at i:67041140 original size:42 final size:44
Alignment explanation
Indices: 67041040--67041166 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 44
67041030 CAAAGCCAAC
* *
67041040 GTCCCAGACGTGGTCTTACATGTAAA-CAAATATCGATGCCATT
1 GTCCCAGACATGGTCTTACATGTAAATCATATATCGATGCCATT
* * * * *
67041083 GCCCCAAACAGGGTCTTACACG-AAATCATATA-CGATGTCGATT
1 GTCCCAGACATGGTCTTACATGTAAATCATATATCGATG-CCATT
67041126 -TCCCAGACATGGTCTTACATGTAAATCATA-AGTCGATGCCA
1 GTCCCAGACATGGTCTTACATGTAAATCATATA-TCGATGCCA
67041167 ACATCCCAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
42 26 0.39
43 36 0.54
44 5 0.07
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACATGTAAATCATATATCGATGCCATT
Found at i:67050412 original size:46 final size:45
Alignment explanation
Indices: 67050355--67050525 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
67050345 TAGCAAGGCA
67050355 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGCC
* * * * * * *
67050401 GATGCATGTCCCAAACATGTCTTACACTGGTTTAAATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG-CT--CTCTCTCAATGCC
* * * * * *
67050449 AATGCATGTCCCAGACATGTCTTACACTGGCTCTC-ATGATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCA-AT-GCC
67050495 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
67050526 ACACATATCA
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 59 0.59
47 2 0.02
48 36 0.36
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGCC
Found at i:67050534 original size:94 final size:93
Alignment explanation
Indices: 67050356--67050534 Score: 225
Period size: 94 Copynumber: 1.9 Consensus size: 93
67050346 AGCAAGGCAG
* *
67050356 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAAACATGT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAT-AATGCCGATGCATGTCCCAAACATGT
* ***
67050421 CTTACACTGGTTTAAATATCTCGAGGCCA
65 CTTACACTAGCACAAATATCTCGAGGCCA
* * * *
67050450 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATGAT-GTGGCTGATGCATGTCCCAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-ATAAT-GCCGATGCATGTCCCAAACATG
*
67050514 TCTTACACTAGCACACATATC
64 TCTTACACTAGCACAAATATC
67050535 ACCTATTATC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 70 0.97
95 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (93 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATAATGCCGATGCATGTCCCAAACATGTC
TTACACTAGCACAAATATCTCGAGGCCA
Found at i:67056771 original size:869 final size:868
Alignment explanation
Indices: 67055089--67056817 Score: 2689
Period size: 869 Copynumber: 2.0 Consensus size: 868
67055079 GTTCTTTTTC
*
67055089 CAAATTCCTACAACATATTCTCATGGTAACACAATCGAAGTTGCACATAATTCCATTACTTGCTC
1 CAAATTCCTACAACATATTCTCATGGTAACACAATCGAAGTTGCACATAATTCCACTACTTGCTC
* * * ** *
67055154 ATATTCCAGTCAAGTTGTCTACTCGAATTATAGTCATTAAATTATTAATATCTTGAGCTACGGAG
66 ATATTCCAGTCAAGCTGTCTACTCGAATCATAGTCACTAAATTATTAATATCTTGAGCTACAAAC
*
67055219 ATCCAAATTAAGATCTGCTAATTTTTCCTGAAACTAGACTCATATATCTTCTTACCATAAATTTT
131 ATCCAAATTAAGATCTGCTAATTTTTCCTGAAACTAGACTCACATATCTTCTTACCATAAATTTT
* * * * * *
67055284 TAGAATTTTTGGCTTAGCCAATAAGTATATTTTATTCTTTAAAGTCTCCCCTTGTACTACTATTT
196 CAGAATTTTTGGCTAAGCAAATAAGTACAGTTTATTCTTTAAAGTCTCCCCTTATACTACTATTT
* * * * * *
67055349 GACAGTTTCAACCCTTATTCACTAAAAATTAATTATGTCATCGTATGAGATTCATATTATGTTCC
261 AACAGTTTCAACCCTTATTCACTAAAAAATAATTATCTCATCGTATGAGATGCAGATGATGTTCC
*
67055414 TATTTGTTTCTCTTGAAAATAGATTCATTAAGAACTTATTCATATTAGTTCTAACCCATAATTAT
326 TATTTGTTTCTCTTGAAAATAGATTCATTAAGAACTTATTCATATCAGTTCTAACCCATAATTAT
* * *
67055479 TCTTGTACAATTTTTAGTGATTTTCCAAAGTTAAGATAGGGGAGCACGAAATAATTTGACCCTGT
391 TCTTGTACAATTTTTAGTGATTTTCCAAAGTTAAGACAGGGGAGCACGAAATAATCTAACCCTGT
* * *
67055544 CTCACAAAAATTCAAATATCTCATAATAATAAAATTCTTTTGCTTACACCGTTTCTTATATGTAA
456 CTAACAAAAATTCAAATATCTCATAATAATAAAATTCTTTTGCTTACACCATTTCCTATATGTAA
* * * * *
67055609 AACTACAGTAAATAATATTTAATTTCAAATTTTATTTAGTCTCTAATTCGATTTCCACTATTTTT
521 AACTAAACTAAATAAGATTTAATTTCAAATTTTATTCAGTCTCTAATTCGATTTCCACTAGTTTT
* * *
67055674 TGTGGATTTTCAAAGTTTGACTTCTACTGCTCTCCAAAACTATTTTAGTGCAATATGATGATAAC
586 TGTGGATTTTCAAAGTTGGACTACTACTACTCTCCAAAACTATTTTAGTGCAATATGATGATAAC
*
67055739 TTTCATAAGTTCATTTTCAACTAATCATGAACTCACCATTTCATGGATTCCATGTTCAATTACAC
651 TATCATAAGTTCATTTTCAACTAATCATGAACTCACCATTTCATGGATTCCATGTTCAATTACAC
*
67055804 AATGCAAGTTAGCATGATATTGCAACAAAATTCATAATCATAATTCATACATCTTAGCTCACCAA
716 AATGCAAGTTAGCACGATATTGCAACAAAATTCATAATCATAATTCATACATCTTAGCTCACCAA
* *
67055869 GGTCTCAACATTTCATAGTCTCAATAGCCATAAGCTTAGTGTTCATACCTGTACCCTTTCAACAC
781 GGTCTCAACATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTATACCCTTTCAACAC
67055934 TTTTCACATATTACTATTATTGT
846 TTTTCACATATTACTATTATTGT
* *
67055957 CAAATTCCTACAACATATTCTCATGGTAACACAATTGAAGTTGCACATAATTCCACTATTTGCTC
1 CAAATTCCTACAACATATTCTCATGGTAACACAATCGAAGTTGCACATAATTCCACTACTTGCTC
* * *
67056022 ATATTTCAGTCAAGCTGTCTACTCGAGTCATAGTCACTAAATTATTAATATCTTGAGCTATAAAC
66 ATATTCCAGTCAAGCTGTCTACTCGAATCATAGTCACTAAATTATTAATATCTTGAGCTACAAAC
*
67056087 CTCCAAATTAAGATCTGCTAATTTTTCCT-AAGACTAGACTCACATATCTTCTTACCATAAAATT
131 ATCCAAATTAAGATCTGCTAATTTTTCCTGAA-ACTAGACTCACATATCTTCTTACCAT-AAATT
* * * *
67056151 TTCATAATATTTTGTC-AAGCAAATAAGTACAGTTTATTCTTTAAATTCT-CCCTATATACTGCT
194 TTCAGAAT-TTTTGGCTAAGCAAATAAGTACAGTTTATTCTTTAAAGTCTCCCCT-TATACTACT
* * * *
67056214 GTTTAATAGTTTCAACCCTTCTTCACTAAAAAATAATTATCTCATCGTATGGGATGCAGATGATG
257 ATTTAACAGTTTCAACCCTTATTCACTAAAAAATAATTATCTCATCGTATGAGATGCAGATGATG
* * * *
67056279 TT-CTCGTTTGTTTTTCTTGAAAATAGATTCTTTAATAACTTATTCATATCAGTTCTAACCCATA
322 TTCCT-ATTTGTTTCTCTTGAAAATAGATTCATTAAGAACTTATTCATATCAGTTCTAACCCATA
*
67056343 ATTATTCTTGTACAATTTTTAGTGATTTTCCAAAGTTAAGACAGGGGAGCACGAAATCACTCTAA
386 ATTATTCTTGTACAATTTTTAGTGATTTTCCAAAGTTAAGACAGGGGAGCACGAAAT-AATCTAA
* * * *
67056408 TCCTGTCTAACAAAAATTCAAATATCTCATAAT-ATGAAATTCTTTTGCTTGCACCATTTCCTCT
450 CCCTGTCTAACAAAAATTCAAATATCTCATAATAATAAAATTCTTTTGCTTACACCATTTCCTAT
* * *
67056472 ATGTGAAACTAAACTCAATAAGATTTAATTTCATATTTTATTCAGTCTCTAATTCGATTTCCA-T
515 ATGTAAAACTAAACTAAATAAGATTTAATTTCAAATTTTATTCAGTCTCTAATTCGATTTCCACT
* * *
67056536 AAGTTTTTGTGGATTTTCAAA-TTCGGACTACTACTATTGTCCAAAACTGTTTTAGTGCAATATG
580 -AGTTTTTGTGGATTTTCAAAGTT-GGACTACTACTACTCTCCAAAACTATTTTAGTGCAATATG
*
67056600 ATGATAACTATCATAAGTTCATTTTCAACTAATCATGAACTCACTATTTCATGGATTCCATGTTC
643 ATGATAACTATCATAAGTTCATTTTCAACTAATCATGAACTCACCATTTCATGGATTCCATGTTC
*
67056665 AATTACACAATGTAAGTTAGCACGATATTGCAACAAAATTCATAATCATAATTCATACATCTTAG
708 AATTACACAATGCAAGTTAGCACGATATTGCAACAAAATTCATAATCATAATTCATACATCTTAG
* *
67056730 CTCACCGAGGTCTCGACATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTATACCCT
773 CTCACCAAGGTCTCAACATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTATACCCT
67056795 TTCAACACTTTTCACATATTACT
838 TTCAACACTTTTCACATATTACT
67056818 CCACTTCTTA
Statistics
Matches: 781, Mismatches: 72, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
867 2 0.00
868 180 0.23
869 558 0.71
870 41 0.05
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (868 bp):
CAAATTCCTACAACATATTCTCATGGTAACACAATCGAAGTTGCACATAATTCCACTACTTGCTC
ATATTCCAGTCAAGCTGTCTACTCGAATCATAGTCACTAAATTATTAATATCTTGAGCTACAAAC
ATCCAAATTAAGATCTGCTAATTTTTCCTGAAACTAGACTCACATATCTTCTTACCATAAATTTT
CAGAATTTTTGGCTAAGCAAATAAGTACAGTTTATTCTTTAAAGTCTCCCCTTATACTACTATTT
AACAGTTTCAACCCTTATTCACTAAAAAATAATTATCTCATCGTATGAGATGCAGATGATGTTCC
TATTTGTTTCTCTTGAAAATAGATTCATTAAGAACTTATTCATATCAGTTCTAACCCATAATTAT
TCTTGTACAATTTTTAGTGATTTTCCAAAGTTAAGACAGGGGAGCACGAAATAATCTAACCCTGT
CTAACAAAAATTCAAATATCTCATAATAATAAAATTCTTTTGCTTACACCATTTCCTATATGTAA
AACTAAACTAAATAAGATTTAATTTCAAATTTTATTCAGTCTCTAATTCGATTTCCACTAGTTTT
TGTGGATTTTCAAAGTTGGACTACTACTACTCTCCAAAACTATTTTAGTGCAATATGATGATAAC
TATCATAAGTTCATTTTCAACTAATCATGAACTCACCATTTCATGGATTCCATGTTCAATTACAC
AATGCAAGTTAGCACGATATTGCAACAAAATTCATAATCATAATTCATACATCTTAGCTCACCAA
GGTCTCAACATTTCATAGTCTCAATAACCATAAGCTTAGTGTTCATACCTATACCCTTTCAACAC
TTTTCACATATTACTATTATTGT
Found at i:67058262 original size:10 final size:10
Alignment explanation
Indices: 67058223--67058267 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
67058213 AAAAGGAATA
67058223 AGCTGAAACG
1 AGCTGAAACG
* *
67058233 AGCTAAAATCA
1 AGCTGAAA-CG
*
67058244 AGCTCAAACG
1 AGCTGAAACG
67058254 AGCTGAAACG
1 AGCTGAAACG
67058264 AGCT
1 AGCT
67058268 CAAGTGAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (10 bp):
AGCTGAAACG
Found at i:67059400 original size:16 final size:17
Alignment explanation
Indices: 67059363--67059407 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
67059353 ATCACAACTC
67059363 TTTTTCTTTTCTCTTTCA
1 TTTTTCTTTT-TCTTTCA
67059381 -TTTTCTTTTTCTTT-A
1 TTTTTCTTTTTCTTTCA
*
67059396 TTTTTCATTTTC
1 TTTTTCTTTTTC
67059408 ACTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 15 0.60
17 9 0.36
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTCA
Found at i:67059401 original size:22 final size:23
Alignment explanation
Indices: 67059361--67059417 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
67059351 TTATCACAAC
67059361 TCTTTTTCTTTTCTCTTTCATTT
1 TCTTTTTCTTTTCTCTTTCATTT
67059384 TCTTTTTCTTTAT-T-TTTCATTT
1 TCTTTTTCTTT-TCTCTTTCATTT
**
67059406 TCACTTTCTTTT
1 TCTTTTTCTTTT
67059418 TCCACTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 17 0.55
23 12 0.39
24 1 0.03
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (23 bp):
TCTTTTTCTTTTCTCTTTCATTT
Found at i:67063390 original size:48 final size:46
Alignment explanation
Indices: 67063348--67063473 Score: 171
Period size: 48 Copynumber: 2.7 Consensus size: 46
67063338 CATATCGGTG
* *
67063348 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAT
* *
67063394 CACCGATGCCAAGTCCCAGACATGGTCTTACACTGGCACACATATCAACT
1 --CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-A-T
*
67063444 TCGATGCCATGTCCCAGACATGGTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
67063474 TGGGATCTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
48 68 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAT
Found at i:67071055 original size:66 final size:66
Alignment explanation
Indices: 67070949--67071073 Score: 241
Period size: 66 Copynumber: 1.9 Consensus size: 66
67070939 CGAAACTTTA
*
67070949 ATACTAACTTAATAACACTCCATAAATATTTATAAAAATATTTATGGCTCGGTTTATAAATTTGA
1 ATACTAACTTAATAACACTCCATAAATATTTATAAAAATATTTATAGCTCGGTTTATAAATTTGA
67071014 G
66 G
67071015 ATACTAACTTAATAACACTCCATAAATATTTATAAAAATATTTATAGCTCGGTTTATAA
1 ATACTAACTTAATAACACTCCATAAATATTTATAAAAATATTTATAGCTCGGTTTATAA
67071074 CTCCGAGGTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (66 bp):
ATACTAACTTAATAACACTCCATAAATATTTATAAAAATATTTATAGCTCGGTTTATAAATTTGA
G
Found at i:67071876 original size:46 final size:46
Alignment explanation
Indices: 67071819--67071985 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
67071809 ACACACCGTA
67071819 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
67071865 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
67071918 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
67071964 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
67071986 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:67073116 original size:23 final size:22
Alignment explanation
Indices: 67073049--67073132 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 22
67073039 CCTGATCAAT
*
67073049 ATACGACACATAA-GTGCCTGAA
1 ATACGACACACAAGGTGCCT-AA
* * *
67073071 AT--TACACACGAGGTGCCT-G
1 ATACGACACACAAGGTGCCTAA
67073090 ATACGACACACAAGGTGCCTAAA
1 ATACGACACACAAGGTGCCT-AA
* *
67073113 ATACGACACATAAAGTGCCT
1 ATACGACACACAAGGTGCCT
67073133 GATCAGTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.04
20 6 0.12
21 20 0.42
22 2 0.04
23 18 0.38
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTAA
Found at i:67073421 original size:29 final size:28
Alignment explanation
Indices: 67073339--67073422 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
67073329 AACACACCAG
* *
67073339 TATAATCCTCCAAAACACACAAGTATCA
1 TATAATCCTCCAAAACACACAAGAATAA
* *
67073367 TATAATCCTCCCAAACACACTAGAATAA
1 TATAATCCTCCAAAACACACAAGAATAA
*
67073395 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACAAGAATA
67073423 GCACAAAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACAAGAATAA
Found at i:67081126 original size:47 final size:47
Alignment explanation
Indices: 67081040--67081997 Score: 1805
Period size: 47 Copynumber: 20.4 Consensus size: 47
67081030 ATTTTGTTAC
*
67081040 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACG--TATGTGATAAGGCCGAATGGCCAATGT
67081089 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081136 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081183 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081230 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081277 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081324 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081371 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081418 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081465 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081512 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081559 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081606 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081653 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081700 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081747 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081794 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
67081841 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
*
67081888 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
* * * *
67081935 GATGAATGTGAAAGTATA--TATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
*
67081980 GATGGAA-GTGGAAGTGTA
1 GAT-GAATGTGAAAGTGTA
67081998 TAACTGTGAT
Statistics
Matches: 900, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
45 36 0.04
46 3 0.00
47 842 0.94
49 19 0.02
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTACGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:67085526 original size:48 final size:47
Alignment explanation
Indices: 67085486--67085609 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 47
67085476 TATCGGTGCT
* *
67085486 GATGCCATGTCCCAGACATGGTCTTACGCTAGCACACATATCATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAT-GCC
* * *
67085534 GATGCCATGTCCCAAACATGGTCTTACACTGGTACACATATCAACGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC-ATGCC
**
67085582 GATGCCATGTCCCACTCATGGTCTTACA
1 GATGCCATGTCCCAAACATGGTCTTACA
67085610 TGGGATCTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 67 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCATGCC
Found at i:67087569 original size:17 final size:18
Alignment explanation
Indices: 67087536--67087569 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67087526 TGTCAAATTG
67087536 GTATTGATACTTATAAAA
1 GTATTGATACTTATAAAA
67087554 GTATTGATAC-TATAAA
1 GTATTGATACTTATAAA
67087570 TTTCAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
GTATTGATACTTATAAAA
Found at i:67096868 original size:21 final size:21
Alignment explanation
Indices: 67096842--67096881 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
67096832 AAAAGACACC
67096842 CCAATTTTGACCATTACCATT
1 CCAATTTTGACCATTACCATT
67096863 CCAATTTTGACCATTACCA
1 CCAATTTTGACCATTACCA
67096882 GTTGGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (21 bp):
CCAATTTTGACCATTACCATT
Found at i:67101185 original size:34 final size:34
Alignment explanation
Indices: 67101147--67101217 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
67101137 CACACAACCA
* *
67101147 CATAAAACATCATCAATGCATCGACACATGCATG
1 CATAAAACACCATCAATGCATCGACACATACATG
*
67101181 CATAAAACACCATCAATGCATCGAGACATACATG
1 CATAAAACACCATCAATGCATCGACACATACATG
67101215 CAT
1 CAT
67101218 GAACAATTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.20
Consensus pattern (34 bp):
CATAAAACACCATCAATGCATCGACACATACATG
Found at i:67101201 original size:18 final size:17
Alignment explanation
Indices: 67101147--67101201 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
67101137 CACACAACCA
67101147 CATAAAACATCATCAATG
1 CATAAAACA-CATCAATG
**
67101165 CAT-CGACACATGC-ATG
1 CATAAAACACAT-CAATG
67101181 CATAAAACACCATCAATG
1 CATAAAACA-CATCAATG
67101199 CAT
1 CAT
67101202 CGAGACATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 9 0.31
17 8 0.28
18 12 0.41
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (17 bp):
CATAAAACACATCAATG
Found at i:67102065 original size:43 final size:43
Alignment explanation
Indices: 67102017--67102099 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
67102007 ACATGTATTA
*
67102017 CATCCATTATGAACTC-GAGCCACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGGA-CCACTCAACGAGCTCGGATGCTCG
* *
67102060 CATCCATAATGAACTTGGACCACTCATCGAGCTCGGATGC
1 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
67102100 CACATATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
Found at i:67104361 original size:22 final size:22
Alignment explanation
Indices: 67104319--67104363 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
67104309 TTATTAACCC
*
67104319 AAATTAAATTGAATATAAATTA
1 AAATTAAATTAAATATAAATTA
*
67104341 AAATT-AATTAAATTATGAATTA
1 AAATTAAATTAAA-TATAAATTA
67104363 A
1 A
67104364 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTAAATTAAATATAAATTA
Found at i:67104942 original size:32 final size:32
Alignment explanation
Indices: 67104901--67104965 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
67104891 TTCATAAATT
67104901 ATGTGCACATATTTGTGTTCATTATTAGGCTA
1 ATGTGCACATATTTGTGTTCATTATTAGGCTA
67104933 ATGTGCACATATTTGTGTTCATTATTAGGCTA
1 ATGTGCACATATTTGTGTTCATTATTAGGCTA
67104965 A
1 A
67104966 CTTTATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (32 bp):
ATGTGCACATATTTGTGTTCATTATTAGGCTA
Found at i:67113523 original size:30 final size:30
Alignment explanation
Indices: 67113466--67113523 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
67113456 TTTTCGAGCA
* **
67113466 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
67113496 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
67113524 ATGTGAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:67115691 original size:48 final size:48
Alignment explanation
Indices: 67115585--67115764 Score: 193
Period size: 48 Copynumber: 3.7 Consensus size: 48
67115575 GTAAAATTTT
* * * *
67115585 GATGCCATGTCCCAG-CACGGTCCTACACTGGCTCTCATACATCAGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATAAG-GCC
* * * *
67115634 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCGCATATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATAAGGCC
* * * * *
67115682 GATGCCATGTCCCAGGCATGGTCTTACAC-GAGATCTTATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTCATAATAAGGCC
*
67115730 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
67115765 ACACATAACC
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.01
48 69 0.63
49 18 0.17
50 21 0.19
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATAAGGCC
Found at i:67115750 original size:96 final size:97
Alignment explanation
Indices: 67115585--67115764 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 97
67115575 GTAAAATTTT
* * * * *
67115585 GATGCCATGTCCCAGCACGGTCCTACACTGGCTCTCATACATCAGTGTCGATGCCATGTCTCAGA
1 GATGCCATGTCCCAGCACGGTCCTACACTGGATCTCATACATCAATGCCGATGCCATGTCCCAAA
67115650 CATGGTCTTACACTGGCTCGCATATTGAGGCC
66 CATGGTCTTACACTGGCTCGCATATTGAGGCC
* * *
67115682 GATGCCATGTCCCAGGCATGGTCTTACAC-GAGATCTTATA-A-CAATGCCGATGCCATGTCCCA
1 GATGCCATGTCCCA-GCACGGTCCTACACTG-GATCTCATACATCAATGCCGATGCCATGTCCCA
67115744 AACATGGTCTTACACTGGCTC
64 AACATGGTCTTACACTGGCTC
67115765 ACACATAACC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
96 38 0.52
97 16 0.22
98 19 0.26
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (97 bp):
GATGCCATGTCCCAGCACGGTCCTACACTGGATCTCATACATCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTCGCATATTGAGGCC
Found at i:67122842 original size:28 final size:28
Alignment explanation
Indices: 67122767--67122843 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
67122757 TATATATGTA
* *
67122767 TATGGCACTTAGTGTACAAAATATTAAG
1 TATGGCACTTAGTGTACGAGATATTAAG
* * * *
67122795 AATGGCACTTGGTGTGCGAGATATTGAG
1 TATGGCACTTAGTGTACGAGATATTAAG
67122823 TATGGCACTTAGTGTACGAGA
1 TATGGCACTTAGTGTACGAGA
67122844 CATCGAAGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTACGAGATATTAAG
Found at i:67125371 original size:37 final size:37
Alignment explanation
Indices: 67125322--67125497 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 37
67125312 ATGTTGTACG
*
67125322 TGTAAGACCATAGCTGGGCTATGGCATTGTAATAGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGCA
* *
67125359 TGTAAGGCCATAGCTGGGTTATGGCATCGTAATAGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGCA
* ** *
67125396 TGTAAGGCCATAGCTGGTTTATGGCATCGTGAT-GACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAG-CA
* * *
67125433 TGTAAGACCATAGCTGGGCTATAGCATTGTGATA-CA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGCA
67125469 TGTAAGACCAT-GTCTGGGAC-ATGGCATCG
1 TGTAAGACCATAG-CTGGG-CTATGGCATCG
67125498 ATATGAGATC
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
35 1 0.01
36 26 0.21
37 96 0.78
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGCA
Found at i:67125516 original size:42 final size:42
Alignment explanation
Indices: 67125469--67125792 Score: 258
Period size: 42 Copynumber: 7.3 Consensus size: 42
67125459 TTGTGATACA
* *
67125469 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCTG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTTG
* *
67125511 TGTAAGACCATATTTGGGATATGGCATCAGCATTGATATGAGATCTTG
1 TGTAAGACCATATCTGGGACATGGCAT---C---GATATGAGATCTTG
*
67125559 TGTAAGACCATATCTGGCATATGACATTAGCATCGATATGAGATCTTG
1 TGTAAGACCATATCTGG-----GACA-TGGCATCGATATGAGATCTTG
*
67125607 TGTAAGACCATATCTGGGATATAACATCGGCATCGATATGAGAT-TACG
1 TGTAAGACCATATCTGGG-----ACAT-GGCATCGATATGAGATCT-TG
* * * *
67125655 TGTAAGACCATATCTGGGATATGGCTTCGGTATGAGAT-TTCA
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT-G
* * *** * *
67125697 TGTAAGACCGTGTCTGGGATGCGGCATCGATATGTGATTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTTG
* * *
67125739 TATAAGACCATGTCTGGGACATGGCATCGATGTGAGA-CTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGATC-TTG
67125781 TGTAAGACCATA
1 TGTAAGACCATA
67125793 GTTGGACTAT
Statistics
Matches: 228, Mismatches: 32, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
42 113 0.50
43 6 0.03
45 1 0.00
47 2 0.01
48 97 0.43
51 1 0.00
53 3 0.01
54 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTTG
Found at i:67125568 original size:48 final size:48
Alignment explanation
Indices: 67125492--67125677 Score: 275
Period size: 48 Copynumber: 3.9 Consensus size: 48
67125482 CTGGGACATG
* * *
67125492 GCATCGATATGAGATCCTGTGTAAGACCATATTTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* * *
67125540 GCATTGATATGAGATCTTGTGTAAGACCATATCTGGCATATGACATTA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
* *
67125588 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATAACATCG
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
*
67125636 GCATCGATATGAGAT-TACGTGTAAGACCATATCTGGGATATG
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATG
67125678 GCTTCGGTAT
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
47 1 0.01
48 123 0.99
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCA
Found at i:67131254 original size:12 final size:11
Alignment explanation
Indices: 67131237--67131268 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
67131227 TTCGTAATGT
*
67131237 AAAAAAAAGTC
1 AAAAAAAAATC
67131248 AAAAAAAAATC
1 AAAAAAAAATC
67131259 AAAAAAAAAT
1 AAAAAAAAAT
67131269 TTGAGTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:67131418 original size:9 final size:9
Alignment explanation
Indices: 67131404--67131435 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
67131394 AAATCGAGTT
67131404 AAAAGAAAA
1 AAAAGAAAA
67131413 AAAAGAAAAA
1 AAAAG-AAAA
67131423 AAAAGAAAA
1 AAAAGAAAA
67131432 AAAA
1 AAAA
67131436 AGTGAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:67131443 original size:10 final size:10
Alignment explanation
Indices: 67131404--67131437 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
67131394 AAATCGAGTT
67131404 AAAAG-AAAA
1 AAAAGAAAAA
67131413 AAAAGAAAAA
1 AAAAGAAAAA
67131423 AAAAGAAAAA
1 AAAAGAAAAA
67131433 AAAAG
1 AAAAG
67131438 TGAAAAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:67132484 original size:18 final size:18
Alignment explanation
Indices: 67132458--67132543 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
67132448 AAATTGAAAG
*
67132458 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
* *
67132476 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAAACGA
** * *
67132494 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
67132512 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
67132533 AAAAGAAAAAG
1 AAAAGAAAAAG
67132544 CGAAAAAAGA
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
18 31 0.62
19 5 0.10
20 8 0.16
21 6 0.12
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:67132486 original size:6 final size:6
Alignment explanation
Indices: 67132454--67132543 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
67132444 AAAGAAATTG
* * * **
67132454 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATCA-AA AAAGTG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA
* * *
67132501 AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAG
67132544 CGAAAAAAGA
Statistics
Matches: 63, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
5 4 0.06
6 47 0.75
7 8 0.13
8 4 0.06
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:67132523 original size:14 final size:13
Alignment explanation
Indices: 67132504--67132541 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
67132494 AAAAGTGAGA
67132504 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
67132516 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
67132531 GAAAAAGAAAA
1 GAAAAAGAAAA
67132542 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:67132538 original size:13 final size:12
Alignment explanation
Indices: 67132440--67132541 Score: 50
Period size: 12 Copynumber: 8.0 Consensus size: 12
67132430 AGAAAGAGAT
*
67132440 TGAAAAAGAAAT
1 TGAAAAAGAAAA
67132452 TG--AAAGAAAA
1 TGAAAAAGAAAA
*
67132462 -CAAAAAGAAAA
1 TGAAAAAGAAAA
*
67132473 CGAAAAAGAAAA
1 TGAAAAAGAAAA
*
67132485 AGAAATCAA-AAAA
1 TGAAA--AAGAAAA
67132498 GTGAGAGAAAAAGAAAA
1 -T----GAAAAAGAAAA
67132515 TGAAGAAAAGAAAA
1 TG-A-AAAAGAAAA
67132529 TTGAAAAAGAAAA
1 -TGAAAAAGAAAA
67132542 AGCGAAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 27
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.10
11 8 0.11
12 17 0.24
13 14 0.20
14 12 0.17
15 2 0.03
16 3 0.04
17 4 0.06
18 4 0.06
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.08
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:67132555 original size:21 final size:21
Alignment explanation
Indices: 67132505--67132555 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
67132495 AAAGTGAGAG
*
67132505 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
67132526 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
67132547 AAAAAGAAA
1 AAAAAGAAA
67132556 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:67132595 original size:33 final size:33
Alignment explanation
Indices: 67132558--67132620 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
67132548 AAAAGAAATT
67132558 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
67132591 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
67132621 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:67138107 original size:40 final size:40
Alignment explanation
Indices: 67138052--67138127 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
67138042 CTAAATAAAA
* * *
67138052 TGGCACTTATTGTGCGGTTTGAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTGGAAATAGCTTCGGCTAAATG
* *
67138092 TGGCACTTGGTGTGCGATTGGAGATAGCTTCGGCTA
1 TGGCACTTAGTGTGCGATTGGAAATAGCTTCGGCTA
67138128 TATATGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTGGAAATAGCTTCGGCTAAATG
Found at i:67143994 original size:25 final size:25
Alignment explanation
Indices: 67143960--67144009 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
67143950 ATGGCAATAC
67143960 ATGATATATTGATAT-ATTGAAATGG
1 ATGATATATTGATATGA-TGAAATGG
*
67143985 ATGATATATTTATATGATGAAATGG
1 ATGATATATTGATATGATGAAATGG
67144010 TAAGATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (25 bp):
ATGATATATTGATATGATGAAATGG
Found at i:67146166 original size:40 final size:40
Alignment explanation
Indices: 67146097--67146273 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
67146087 ACCCAAGTAT
* *
67146097 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
67146136 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
67146176 CTTCGGGTCTTAGTCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
67146216 CTTCGGGACATAGCCCGAATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
67146256 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
67146274 TTATCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Done.