Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 280 of 770
Found at i:84983194 original size:27 final size:27
Alignment explanation
Indices: 84982943--84983180 Score: 244
Period size: 27 Copynumber: 8.8 Consensus size: 27
84982933 GGGTATTTTG
* * *** *
84982943 GTAATTTTACAAATTGAGGGTATTTCT
1 GTAATTTTATAAATCGAGGGTAAAACA
* *
84982970 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACA
* * * * * *
84982997 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTTTATAAATCGAGGGTAAAACA
* *
84983024 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTTTATAAATCGAGGGTAAAACA
*
84983050 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTTTATAAATCGAGGGTAAAACA
* * * *
84983078 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACA
84983105 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACA
* * *
84983132 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACA
84983159 GTAATTTTATAAATCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
84983181 TTTCAGTATT
Statistics
Matches: 176, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 174 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACA
Found at i:84983218 original size:81 final size:81
Alignment explanation
Indices: 84982943--84983207 Score: 246
Period size: 81 Copynumber: 3.3 Consensus size: 81
84982933 GGGTATTTTG
** *** * * * *
84982943 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* * *
84983008 AATCAAGAGAAAAATA
66 AATCAAGGGTAAAACA
* * * * * *
84983024 GTAATTCTATAAATCGACGGTAAAAC-GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTTTACAAATCAAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
*
84983088 AAATCAAGGGTAAAACG
65 AAATCAAGGGTAAAACA
* * * *
84983105 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATA
1 GTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* ***
84983170 AATCGAGGGTATTTCA
66 AATCAAGGGTAAAACA
*
84983186 GTATTTTTACAAA-CTAAGGGTA
1 GTAATTTTACAAATC-AAGGGTA
84983208 TTTCGGTAAT
Statistics
Matches: 155, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.01
81 152 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (81 bp):
GTAATTTTACAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:84983228 original size:28 final size:27
Alignment explanation
Indices: 84983157--84983230 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
84983147 GAGGGTAAAA
*
84983157 CGGTAATTTTATAAA-TCGAGGGTATTT
1 CGGTAATTTTATAAACT-AAGGGTATTT
* * *
84983184 CAGTATTTTTACAAACTAAGGGTATTT
1 CGGTAATTTTATAAACTAAGGGTATTT
84983211 CGGTAATTTTAGTAAACTAA
1 CGGTAATTTTA-TAAACTAA
84983231 AGTATTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTATAAACTAAGGGTATTT
Found at i:84983235 original size:27 final size:27
Alignment explanation
Indices: 84983178--84983236 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
84983168 TAAATCGAGG
* *
84983178 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGA
* *
84983205 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAAGA
84983232 GTATT
1 GTATT
84983237 ATAAACATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGA
Found at i:84987388 original size:15 final size:15
Alignment explanation
Indices: 84987362--84987417 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
84987352 CAAGGAAATC
84987362 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
84987377 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
84987392 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
84987407 GAATAAAGAAA
1 GAATAAAGAAA
84987418 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:84990418 original size:46 final size:45
Alignment explanation
Indices: 84990344--84990511 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 45
84990334 TGTAACCCGC
84990344 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * * *
84990389 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG-GGCTTCGCAT
* *** ** *
84990434 ACATCTCTCGAACTCGGACTCAACTCAACGATTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
84990481 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
84990512 TTCAGATGCT
Statistics
Matches: 96, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
45 20 0.21
46 69 0.72
47 7 0.07
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:84992907 original size:15 final size:15
Alignment explanation
Indices: 84992885--84992932 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
84992875 AAGAAACCGA
84992885 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
84992900 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
84992914 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
84992930 ATA
1 ATA
84992933 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:84992917 original size:30 final size:28
Alignment explanation
Indices: 84992876--84992932 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
84992866 AAAGATAACA
*
84992876 AGAAACCGAATAAAGAAATCCAAGATAG
1 AGAAACCGAATAAAGAAACCCAAGATAG
84992904 AGAAATCCAGAATAAAGAAACCCAAGATA
1 AGAAA-CC-GAATAAAGAAACCCAAGATA
84992933 CGATACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 19 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (28 bp):
AGAAACCGAATAAAGAAACCCAAGATAG
Found at i:84995951 original size:93 final size:93
Alignment explanation
Indices: 84995839--84996009 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
84995829 GCCCATAAGT
* *
84995839 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84995904 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
84995932 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
84995997 CGAGTTCGGATGC
66 CGAGCTCGGATGC
84996010 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:84996006 original size:46 final size:46
Alignment explanation
Indices: 84995831--84996006 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
84995821 TGTAACCCGC
* *
84995831 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84995877 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
84995923 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
84995970 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84996007 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84998387 original size:13 final size:13
Alignment explanation
Indices: 84998369--84998432 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 13
84998359 CAAAGATAAC
84998369 AAGAAACCGAATA
1 AAGAAACCGAATA
*
84998382 AAGAAATCCAAGATA
1 AAGAAA-CCGA-ATA
* *
84998397 GAGAAATCGAATA
1 AAGAAACCGAATA
84998410 AAGAAATCCAGAATA
1 AAGAAA-CC-GAATA
84998425 AAGAAACC
1 AAGAAACC
84998433 CAAGATACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 14 0.34
14 8 0.20
15 19 0.46
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (13 bp):
AAGAAACCGAATA
Found at i:84998401 original size:15 final size:15
Alignment explanation
Indices: 84998379--84998439 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
84998369 AAGAAACCGA
84998379 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
84998394 ATAGAGAAAT-CGA-
1 ATAAAGAAATCCAAG
84998407 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
84998421 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
84998437 ATA
1 ATA
84998440 CGATACTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.26
14 3 0.08
15 23 0.61
16 2 0.05
ACGTcount: A:0.59, C:0.13, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:84998429 original size:28 final size:28
Alignment explanation
Indices: 84998369--84998432 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
84998359 CAAAGATAAC
84998369 AAGAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCGAATAAAGAAATCCAAGATA
* *
84998397 GAGAAATCGAATAAAGAAATCC-AGAATA
1 AAGAAACCGAATAAAGAAATCCAAG-ATA
84998425 AAGAAACC
1 AAGAAACC
84998433 CAAGATACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (28 bp):
AAGAAACCGAATAAAGAAATCCAAGATA
Found at i:85002757 original size:40 final size:40
Alignment explanation
Indices: 85002652--85002868 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
85002642 CGGATGATAA
* *
85002652 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
85002692 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
85002731 CCGGGCTAAGTACCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
85002771 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** *
85002811 CCGGGCTAAGTCCCAAAGGCATTTCAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
85002851 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
85002869 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 50 0.31
40 109 0.69
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:85002866 original size:119 final size:119
Alignment explanation
Indices: 85002652--85002868 Score: 305
Period size: 119 Copynumber: 1.8 Consensus size: 119
85002642 CGGATGATAA
* * * **
85002652 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTTCA
* *
85002717 GCGAGTTACTATATCCGGGCTAAGTACCGAAGGCAATTGTGCGAGTTACTATAT
66 GCAAGTTACTATATCCGGGCTAAATACCGAAGGCAATTGTGCGAGTTACTATAT
*
85002771 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGCATTT
*
85002835 CAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 CAGCAAGTTA-CTATATCCGGGCTAAATACCGAAGG
85002869 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 60 0.70
120 24 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCATTTCA
GCAAGTTACTATATCCGGGCTAAATACCGAAGGCAATTGTGCGAGTTACTATAT
Found at i:85004610 original size:46 final size:46
Alignment explanation
Indices: 85004543--85004718 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85004533 ATGTAACCCG
*
85004543 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
* *
85004589 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCA
* * *
85004639 TCTC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TC-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
*
85004682 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
85004719 ATGCTCAACC
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
46 66 0.58
47 28 0.25
48 1 0.01
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
Found at i:85004658 original size:93 final size:93
Alignment explanation
Indices: 85004551--85004722 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
85004541 CGTCCATAAG
* * *
85004551 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85004616 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
85004644 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
85004709 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
85004723 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:85004738 original size:46 final size:46
Alignment explanation
Indices: 85004549--85004738 Score: 146
Period size: 46 Copynumber: 4.1 Consensus size: 46
85004539 CCCGTCCATA
***
85004549 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-TCAACCATCC-T
85004594 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * *
85004644 --TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCT
*
85004688 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
85004734 AGTGA
1 AGTGA
85004739 CATGTCGCTT
Statistics
Matches: 118, Mismatches: 10, Indels: 32
0.74 0.06 0.20
Matches are distributed among these distances:
44 9 0.08
46 65 0.55
47 31 0.26
48 2 0.02
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:85006705 original size:15 final size:14
Alignment explanation
Indices: 85006683--85006744 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
85006673 TCGTATCTTG
85006683 GGTTTCTTTATTCT
1 GGTTTCTTTATTCT
*
85006697 GGATTTCTTAATTCT
1 GG-TTTCTTTATTCT
85006712 GGGTTT-TTCTA-TCTT
1 -GGTTTCTT-TATTC-T
85006727 GGTTTCTTTATTC-
1 GGTTTCTTTATTCT
85006740 GGTTT
1 GGTTT
85006745 TCTTGTTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
13 5 0.12
14 13 0.32
15 20 0.50
16 2 0.05
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.60
Consensus pattern (14 bp):
GGTTTCTTTATTCT
Found at i:85007548 original size:160 final size:160
Alignment explanation
Indices: 85007372--85007692 Score: 556
Period size: 160 Copynumber: 2.0 Consensus size: 160
85007362 TTATAATATC
*
85007372 CCGAATTAGGGCCTAATC-GCAATAATGGTTTCGTGACCACAAAT-CTGAGATATAAATAATTAT
1 CCGAATTAGGGCCTAATCAG-AATAATGGTTTCGTGACCACAAATAC-GAGATAGAAATAATTAT
*
85007435 TTTATGATTATTTTGAGGTCTAAGATATGATTGCATGATTGTGTGTAAATTTCGTGAAGAAATTC
64 TTTATGATTATTTTGAGGTCTAAGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTC
85007500 TATGCATAAAGTGCTTAATTTGAAGTTAGGGA
129 TATGCATAAAGTGCTTAATTTGAAGTTAGGGA
* * *
85007532 CCGAATTATGGCCTAATCAGAATAGTGGTTTTGTGACCACAAATACGAGATAGAAATAATTATTT
1 CCGAATTAGGGCCTAATCAGAATAATGGTTTCGTGACCACAAATACGAGATAGAAATAATTATTT
*
85007597 TATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTA
66 TATGATTATTTTGAGGTCTAAGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTA
85007662 TGCATAAAGTGCTTAATTTGAAGTTAGGGA
131 TGCATAAAGTGCTTAATTTGAAGTTAGGGA
85007692 C
1 C
85007693 TAAATTGAAT
Statistics
Matches: 153, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
160 151 0.99
161 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (160 bp):
CCGAATTAGGGCCTAATCAGAATAATGGTTTCGTGACCACAAATACGAGATAGAAATAATTATTT
TATGATTATTTTGAGGTCTAAGATATGATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTCTA
TGCATAAAGTGCTTAATTTGAAGTTAGGGA
Found at i:85009140 original size:50 final size:49
Alignment explanation
Indices: 85009041--85009226 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
85009031 TGAGGTCGCA
* * * *
85009041 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACT-T-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-A-GACTGTAGGTCACG
* * **
85009091 TGTCTAGTACTAAGTGCAGCCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
85009141 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
85009190 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
85009227 TAGCTTCGGC
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 2 0.02
49 40 0.35
50 69 0.61
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:85026780 original size:43 final size:43
Alignment explanation
Indices: 85026614--85026781 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
85026604 AGGGTTTCCA
* * *
85026614 ATATGT-ATTGTCGTGTAAGACCACATCTGGGACGTTCGCATCG
1 ATATGTGATTG-CGTGTAAGACCACGTCTGGGACGTTGGCATCT
* * * **
85026657 ATATGTGATTACGTGTAAGACCATGTCTGGGACATTGATATCGT
1 ATATGTGATTGCGTGTAAGACCACGTCTGGGACGTTGGCATC-T
*
85026701 AT-T-TGATT-CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCT
1 ATATGTGATTGCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCT
* * *
85026741 ATATGTGATTGCATGTAAGACCACGTTTGGGATGTTGGCAT
1 ATATGTGATTGCGTGTAAGACCACGTCTGGGACGTTGGCAT
85026782 TGTACTATAT
Statistics
Matches: 101, Mismatches: 15, Indels: 18
0.75 0.11 0.13
Matches are distributed among these distances:
40 3 0.03
41 25 0.25
42 11 0.11
43 56 0.55
44 6 0.06
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATGTGATTGCGTGTAAGACCACGTCTGGGACGTTGGCATCT
Found at i:85049398 original size:40 final size:40
Alignment explanation
Indices: 85049353--85049520 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
85049343 CGGAATACGA
85049353 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* *
85049393 CCGGATAGAACGACTCA-CACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACGAATGCCTTCGGGTCTTAGC
* * *
85049433 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
85049473 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
85049513 CCGGATAT
1 CCGGATAT
85049521 CATTCAATTG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:85054471 original size:48 final size:48
Alignment explanation
Indices: 85054191--85054460 Score: 407
Period size: 48 Copynumber: 5.6 Consensus size: 48
85054181 TGCCTCATGC
* *
85054191 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
*
85054239 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* *
85054287 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* * * *
85054335 CGATGCGATGTCCTAGACATGGTCTTACACTGACTCACGTAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* *
85054383 CGATGGCATGTCCCAGACAAGGTCTTACACTGGCTCACATAACAATG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
* *
85054430 CAGATGCCATATCCCAGATATGGTCTTACAC
1 C-GATGCCATGTCCCAGACATGGTCTTACAC
85054461 AGTTACACAT
Statistics
Matches: 199, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 1 0.01
48 198 0.99
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGT
Found at i:85055799 original size:43 final size:43
Alignment explanation
Indices: 85055708--85055831 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
85055698 TCACATATCG
* * * *
85055708 ATGCCACTGTCCCAGACAGGGTCTTACAC-AAATCA-ATATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATAAA
*
85055750 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAATAAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATAAA
*
85055793 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
85055832 CTCGATAACC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 26 0.36
43 46 0.63
44 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATAAA
Found at i:85063440 original size:43 final size:43
Alignment explanation
Indices: 85063299--85063468 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
85063289 CATAAGCTCG
* * * * *
85063299 TACAATGCC-ATATCTCAGATATGGTCTTATATGTTATCAC-A
1 TACAATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACAA
* * *
85063340 TACCGATGCCACTGTCCCAAATAGGGGT-TTACATG-AATCA-ATA
1 TA-CAATGCCAATGTCCCAGATA-GGGTCTTACATGTAATCACA-A
** * *
85063383 TATGATGCAAATGTCCCAGATAGGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACAA
* *
85063426 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACAA
85063469 CTCGATATCC
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.06
42 32 0.31
43 60 0.59
44 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGATAGGGTCTTACATGTAATCACAA
Found at i:85066638 original size:26 final size:25
Alignment explanation
Indices: 85066603--85066652 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
85066593 ATATATATCA
*
85066603 TAAAATAGCACATAAAAGAAATAAT
1 TAAAATAGCACATAAAAAAAATAAT
*
85066628 TAAACATAGCATATAAAAAAAATAA
1 TAAA-ATAGCACATAAAAAAAATAA
85066653 AACTATGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAAATAGCACATAAAAAAAATAAT
Found at i:85067191 original size:19 final size:19
Alignment explanation
Indices: 85067156--85067272 Score: 175
Period size: 19 Copynumber: 6.2 Consensus size: 19
85067146 AGATTACAAG
85067156 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
85067177 ACCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
85067196 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
85067213 ATCATATCTAAAATTGCAT
1 ATCATATCTAAGATTGCAT
*
85067232 ATCATATCTAAAATTGCAT
1 ATCATATCTAAGATTGCAT
85067251 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
85067270 ATC
1 ATC
85067273 CTTAAAGATT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
17 16 0.18
19 66 0.73
20 1 0.01
21 7 0.08
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:85067238 original size:55 final size:57
Alignment explanation
Indices: 85067156--85067266 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 57
85067146 AGATTACAAG
* *
85067156 ATCATATCTTCAAGATTGCATACCATATCTAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAAATTGCATACCATATCTAAAATTGCATATCATATCTAAGATTGT
*
85067213 ATCATATC-T-AAAATTGCATATCATATCTAAAATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAAATTGCATACCATATCTAAAATTGCATATCATATCTAAGATTG
85067267 CATATCCTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 42 0.82
56 1 0.02
57 8 0.16
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (57 bp):
ATCATATCTTCAAAATTGCATACCATATCTAAAATTGCATATCATATCTAAGATTGT
Found at i:85067267 original size:38 final size:38
Alignment explanation
Indices: 85067156--85067272 Score: 175
Period size: 36 Copynumber: 3.1 Consensus size: 38
85067146 AGATTACAAG
*
85067156 ATCATATCTTCAAGATTGCATACCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCAT
*
85067196 ATCATATCTAAGATTG--TATCATATCTAAAATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
*
85067232 ATCATATCTAAAATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
85067270 ATC
1 ATC
85067273 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
36 33 0.46
38 29 0.41
39 1 0.01
40 8 0.11
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (38 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:85067894 original size:44 final size:44
Alignment explanation
Indices: 85067844--85067938 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 44
85067834 TCGAAATGGA
* * * *
85067844 GATGCCAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
85067888 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
85067932 GATGCCA
1 GATGCCA
85067939 TGTTGAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
Found at i:85067966 original size:44 final size:44
Alignment explanation
Indices: 85067844--85067968 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 44
85067834 TCGAAATGGA
* ** *
85067844 GATGCCAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGAAATCTTCGATCTGTTCCCTATAAACACAGG
** *
85067888 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGAAATCTTCGATC-TGTTCCCTATAAACACAGG
** *
85067932 GATGCCATGT-TGAAATCTTCGATCTGCTTTCCTATAA
1 GATGCCAAATCTGAAATCTTCGATCTG-TTCCCTATAA
85067969 GCATAGGAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 11 0.16
44 57 0.84
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (44 bp):
GATGCCAAATCTGAAATCTTCGATCTGTTCCCTATAAACACAGG
Found at i:85069630 original size:29 final size:29
Alignment explanation
Indices: 85069591--85069669 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
85069581 CTTAATAATC
*
85069591 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
85069621 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
85069650 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
85069670 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:85070327 original size:2 final size:2
Alignment explanation
Indices: 85070309--85070351 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
85070299 TGATGGCCGA
* *
85070309 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85070351 A
1 A
85070352 CAACTATACT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85082410 original size:40 final size:40
Alignment explanation
Indices: 85082302--85082471 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
85082292 CGGGATTTAA
* * * * *
85082302 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
85082342 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85082382 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85082422 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
85082462 CCGGATATAT
1 CCGGATATAT
85082472 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:85090468 original size:40 final size:40
Alignment explanation
Indices: 85090383--85090533 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
85090373 AATTGAATGA
* * *
85090383 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
85090423 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
85090464 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
85090503 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
85090534 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:85090547 original size:40 final size:40
Alignment explanation
Indices: 85090419--85090549 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
85090409 TATGCTGGAA
* * *
85090419 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
85090459 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
85090499 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
85090539 ATTATATCCGG
1 ATTATATCCGG
85090550 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:85097406 original size:21 final size:21
Alignment explanation
Indices: 85097382--85097452 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
85097372 GAGCTCAATA
85097382 TGTGTGACTGAATG-ACACGCC
1 TGTGTGACTGAA-GCACACGCC
** *
85097403 TGTGTGAAAGAGGCACACGACC
1 TGTGTGACTGAAGCACACG-CC
* *
85097425 -GTGTGACTGAAGTACATGCC
1 TGTGTGACTGAAGCACACGCC
85097445 TGTGTGAC
1 TGTGTGAC
85097453 AAATGTCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 3 0.08
21 34 0.87
22 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (21 bp):
TGTGTGACTGAAGCACACGCC
Found at i:85102367 original size:48 final size:48
Alignment explanation
Indices: 85102285--85102376 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
85102275 TAGGGTTATG
* ** *
85102285 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCCGAGACATGGCATTGGCATCGATA
*
85102333 TGTGATCCCATGTAAGACCATATCCGAGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCCGAGACATGGCATTGGCATC
85102377 CTACCATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCCGAGACATGGCATTGGCATCGATA
Found at i:85104090 original size:53 final size:53
Alignment explanation
Indices: 85104021--85104498 Score: 514
Period size: 53 Copynumber: 8.9 Consensus size: 53
85104011 TTTTCCTTTT
* * * ** *
85104021 TGAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* ** *
85104074 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCATTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
* ** *
85104127 TAGTAACTCATCAATGTTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA
1 T-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* *
85104182 TGAACTCACTAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* ** *
85104235 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
*
85104288 TAGTAACTC-CTCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA
1 T-G-AACTCAC-CAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* ** ** **
85104343 TGAACTCACCAATGGCATGCCTTGGTATGGTCTTACATGGGA-CCTTTATCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
* *
85104396 TAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * * * *
85104451 TAGAACTTATCAATGCCATGCTTTGGCACGGTCTTACATGATATCCTT
1 T-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
85104499 ATCTTACCAA
Statistics
Matches: 358, Mismatches: 53, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
52 6 0.02
53 174 0.49
54 47 0.13
55 125 0.35
56 6 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:85104296 original size:108 final size:107
Alignment explanation
Indices: 85104021--85104490 Score: 531
Period size: 108 Copynumber: 4.4 Consensus size: 107
85104011 TTTTCCTTTT
* * * * ** *
85104021 TGAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCAC-CA
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCCTTGCCTTATGAACTCACTCA
* ** *
85104085 ATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCATTA
66 ATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
* ** * * **
85104127 TAGTAACTCATCAATGTTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACT
1 T-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCCTTGCCTTATGAACTCACT
*
85104192 -AATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTA
64 CAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
*
85104235 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTC-C
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCAC
*
85104298 TCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA
63 TCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * **
85104343 TGAACTCACCAATGGCATGCCTTGGTATGGTCTTACATGGGA-CCTTTATCTTATAGTAACTCA-
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCAC
*
85104406 TCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTA
63 TCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * * *
85104451 TAGAACTTATCAATGCCATGCTTTGGCACGGTCTTACATG
1 T-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG
85104491 ATATCCTTAT
Statistics
Matches: 321, Mismatches: 33, Indels: 17
0.87 0.09 0.05
Matches are distributed among these distances:
105 2 0.01
106 42 0.13
107 5 0.02
108 238 0.74
109 34 0.11
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (107 bp):
TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGATCCTTGCCTTATGAACTCACTCA
ATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:85104312 original size:161 final size:161
Alignment explanation
Indices: 85104021--85104498 Score: 649
Period size: 161 Copynumber: 3.0 Consensus size: 161
85104011 TTTTCCTTTT
* * * * **
85104021 TGAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCAA
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAA
* **
85104086 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCATTATAGTAACTCATCAATGTTATGTCT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCT
85104151 TGACATGGTCTTACATGATATCCTTGCCTTA
131 TGACATGGTCTTACATGATATCCTTGCCTTA
* *
85104182 TGAACTCACTAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAA
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAA
* *
85104247 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCCTCAATGCCATGTCT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCT
85104312 TGACATGGTCTTACATGATATCCTTGCCTTA
131 TGACATGGTCTTACATGATATCCTTGCCTTA
* * * ** *
85104343 TGAACTCACCAATGGCATGCCTTGGTATGGTCTTACATGGGA-CCTTTATCTTATAGTAACTCAT
1 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCAC
* *** *
85104407 CAATGCCATGCCTTGACATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTTATCAATGCCAT
63 CAATGCCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAATGCCAT
* *
85104470 G-CTTTGGCACGGTCTTACATGATATCCTT
127 GTC-TTGACATGGTCTTACATGATATCCTT
85104499 ATCTTACCAA
Statistics
Matches: 282, Mismatches: 30, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
160 2 0.01
161 193 0.68
162 40 0.14
163 45 0.16
164 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (161 bp):
TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCT
TGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:85104535 original size:47 final size:48
Alignment explanation
Indices: 85104480--85104598 Score: 197
Period size: 47 Copynumber: 2.5 Consensus size: 48
85104470 GCTTTGGCAC
*
85104480 GGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACAT-
1 GGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
*
85104527 GGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
1 GGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
*
85104575 GG-CTTACATGGTATCCTTCTCTTA
1 GGTCTTACATGGTATCCTTATCTTA
85104599 GTGACAATGC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 66 0.97
48 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (48 bp):
GGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
Found at i:85104787 original size:44 final size:44
Alignment explanation
Indices: 85104738--85104821 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
85104728 TCCTTAACTG
* *
85104738 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
85104782 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
85104822 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:85113671 original size:20 final size:20
Alignment explanation
Indices: 85113620--85113677 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
85113610 TACAGGAGTC
*
85113620 ACACGCCCGTGCCGTTTGGG
1 ACACGCCCGTGTCGTTTGGG
*
85113640 ACACGCCTGTGTCGTTTGGG
1 ACACGCCCGTGTCGTTTGGG
* *
85113660 ACACACCCGTGTCATTTG
1 ACACGCCCGTGTCGTTTG
85113678 ACACATACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (20 bp):
ACACGCCCGTGTCGTTTGGG
Found at i:85119912 original size:49 final size:49
Alignment explanation
Indices: 85119853--85120049 Score: 232
Period size: 50 Copynumber: 4.0 Consensus size: 49
85119843 ATAGCCAAAG
*
85119853 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
85119902 CTATCCGGTACACGTAGTAGCATGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
* * * * * **
85119952 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* * *
85120002 GTTATCGGGTACACATAGTAGCTTGCACTTAGTACTACACATGCGACC
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
85120050 TCACAATAGA
Statistics
Matches: 123, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.34
50 44 0.36
51 37 0.30
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:85120041 original size:101 final size:99
Alignment explanation
Indices: 85119867--85120050 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
85119857 CTGGTACGCA
* *
85119867 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCCGGTACACGTAGTAGCATGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACTATCCGGTACACATAGTAGCATGCACTTA
*
85119932 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* ** * * *
85119966 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATCGGGTACACATAGTAGCTTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-CTATCCGGTACACATAGTAGCATGCACT
85120031 TAGTACTACACATGCGACCT
64 TAGTACTACACATGCGACCT
85120051 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 2 0.03
101 43 0.58
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACTATCCGGTACACATAGTAGCATGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:85122852 original size:15 final size:16
Alignment explanation
Indices: 85122823--85122856 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
85122813 AACAGAGAAG
85122823 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
85122839 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
85122854 CCA
1 CCA
85122857 TGATACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:85126303 original size:28 final size:27
Alignment explanation
Indices: 85126240--85126309 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
85126230 ATAGTGAGTC
*
85126240 CGCACACTCAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTATATATTCAACT
85126267 CGCACACTTAGTGCTATATGA-TCAAACT
1 CGCACACTTAGTGCTATAT-ATTC-AACT
85126295 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85126310 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATATTCAACT
Found at i:85128815 original size:50 final size:50
Alignment explanation
Indices: 85128697--85128930 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
85128687 CTGGTACGCA
* ** * *
85128697 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
85128746 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
*
85128796 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * * * ** * * ** *
85128846 TAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGATACACG
*
85128897 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
85128931 CACAATAGAT
Statistics
Matches: 162, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 32 0.20
50 94 0.58
51 36 0.22
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
Found at i:85133149 original size:28 final size:28
Alignment explanation
Indices: 85133117--85133173 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
85133107 TCAAAATACA
*
85133117 AACATATTTAACATTGGTAAAAGTTTAG
1 AACATATTTAACAATGGTAAAAGTTTAG
*
85133145 AACATATTTAACAATGGTAAAATTTTAG
1 AACATATTTAACAATGGTAAAAGTTTAG
85133173 A
1 A
85133174 CATTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (28 bp):
AACATATTTAACAATGGTAAAAGTTTAG
Found at i:85153066 original size:54 final size:54
Alignment explanation
Indices: 85152957--85153123 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
85152947 AGCATGGCTG
* * * * *
85152957 CCAGATACAAATA-ATGTGACAGAGTCACCAAATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
*
85153012 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
85153066 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
85153120 CCAG
1 CCAG
85153124 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 82 0.79
55 22 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:85153123 original size:27 final size:27
Alignment explanation
Indices: 85152957--85153123 Score: 196
Period size: 27 Copynumber: 6.1 Consensus size: 27
85152947 AGCATGGCTG
* * *
85152957 CCAGATACAAATAA-TGTGACAGAGTCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
85152984 CCAAATACAGATAATTGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
85153012 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
* *
85153039 CCAGATCAGATAATCGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
*
85153066 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
85153093 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
85153120 CCAG
1 CCAG
85153124 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.03
27 98 0.81
28 19 0.16
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:85156500 original size:16 final size:16
Alignment explanation
Indices: 85156479--85156512 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
85156469 TCCTCGAAAA
85156479 CACAGAACTCCTTCGC
1 CACAGAACTCCTTCGC
85156495 CACAGAACTCCTTCGC
1 CACAGAACTCCTTCGC
85156511 CA
1 CA
85156513 TTTAACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.44, G:0.12, T:0.18
Consensus pattern (16 bp):
CACAGAACTCCTTCGC
Found at i:85161056 original size:27 final size:27
Alignment explanation
Indices: 85161023--85161159 Score: 154
Period size: 27 Copynumber: 5.0 Consensus size: 27
85161013 AGCATGGCTG
** *
85161023 CCAGATACAGATA-ATGTGATAGAGTCA
1 CCAGA-ACAGATATATGTGGCAGAGCCA
*
85161050 CTAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGA-ACAGATATA-TGTGGCAGAGCCA
85161078 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
85161105 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
85161132 TCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
85161159 C
1 C
85161160 GAGGACGCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 82 0.84
28 15 0.15
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:85167854 original size:2 final size:2
Alignment explanation
Indices: 85167847--85167886 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
85167837 TAGGTGTCTT
85167847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85167887 CATCGAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:85168861 original size:59 final size:59
Alignment explanation
Indices: 85168721--85168861 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 59
85168711 ATCAGTGTTA
* * *
85168721 ACTGGGCCTTAGCCCATATCAATATTAATCTGTGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTT-GCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGT-ACAGAGTAT
* *
85168782 ACTGGGCCTAGCCCATATCAGTATCAATTTGGGCCATAG-CCCTGTACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCCCT-TAC-AGTACAGAG-TAT
*
85168841 ATTGGGCCTTGCCCATATCAG
1 ACTGGGCCTTGCCCATATCAG
85168862 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
58 3 0.04
59 27 0.39
60 28 0.40
61 12 0.17
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTACAGAGTAT
Found at i:85169500 original size:8 final size:8
Alignment explanation
Indices: 85169487--85169516 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
85169477 ACAAATGCCA
85169487 GCTTTTCG
1 GCTTTTCG
85169495 GCTTTTCG
1 GCTTTTCG
85169503 GCTTTTCG
1 GCTTTTCG
85169511 GCTTTT
1 GCTTTT
85169517 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:85173309 original size:27 final size:26
Alignment explanation
Indices: 85173279--85173338 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
85173269 AGTGGGCCAA
* * *
85173279 AGCCCATTACAATATCATTTGGGGCAT
1 AGCCCATAACAAAATCAATTGGGGC-T
* *
85173306 AGCCCATAATAAAATCAATTGGGTCT
1 AGCCCATAACAAAATCAATTGGGGCT
85173332 AGCCCAT
1 AGCCCAT
85173339 CTCAATAGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (26 bp):
AGCCCATAACAAAATCAATTGGGGCT
Found at i:85173646 original size:27 final size:26
Alignment explanation
Indices: 85173610--85173712 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 26
85173600 CAACGACGGT
* *
85173610 AATATAATCGGCACACAGCCATGGGTA
1 AATATGATCGGCACAAAGCCAT-GGTA
* * * **
85173637 AATATGATCGACACAGAGTCATCAATA
1 AATATGATCGGCACAAAGCCAT-GGTA
* *
85173664 AATATGATAGGCACATAGCCACTGGTA
1 AATATGATCGGCACAAAGCCA-TGGTA
* **
85173691 AATACGATTTGCACAAAGCCAT
1 AATATGATCGGCACAAAGCCAT
85173713 AATCAACATA
Statistics
Matches: 58, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (26 bp):
AATATGATCGGCACAAAGCCATGGTA
Found at i:85174100 original size:27 final size:27
Alignment explanation
Indices: 85174070--85174177 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
85174060 TCATTTTGCC
*
85174070 CTACAGGGGAATTTTGATAATTTTACA
1 CTACAGGGGTATTTTGATAATTTTACA
* *
85174097 CTACAAGGGTATTTCGATAATTTTACA
1 CTACAGGGGTATTTTGATAATTTTACA
* *
85174124 CTATAGGGGTGTTTT-AGTAATTTTACA
1 CTACAGGGGTATTTTGA-TAATTTTACA
* ** *
85174151 -AATTGGGGGTATTTCGATAATTTTACA
1 CTA-CAGGGGTATTTTGATAATTTTACA
85174178 AATTGGGGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.03
27 64 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CTACAGGGGTATTTTGATAATTTTACA
Found at i:85174178 original size:27 final size:27
Alignment explanation
Indices: 85174103--85174293 Score: 219
Period size: 27 Copynumber: 7.1 Consensus size: 27
85174093 TACACTACAA
* *
85174103 GGGTATTTCGATAATTTTACACTATAGG
1 GGGTATTTCGATAATTTTACA-AATTGG
*
85174131 GGTGT-TTTAG-TAATTTTACAAATTGG
1 GG-GTATTTCGATAATTTTACAAATTGG
85174157 GGGTATTTCGATAATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* *
85174184 GGGTATTTCGGTAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* *
85174211 GGGTATTTCGGTTATTTTACAAATTGG
1 GGGTATTTCGATAATTTTACAAATTGG
* * *
85174238 AGGTATTTTGATAATTTTACAAACCT-G
1 GGGTATTTCGATAATTTTACAAA-TTGG
*
85174265 GGGTATTTC-AGTAATTTTACAACTTGG
1 GGGTATTTCGA-TAATTTTACAAATTGG
85174292 GG
1 GG
85174294 TCTTAACGAC
Statistics
Matches: 140, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
25 2 0.01
26 12 0.09
27 117 0.84
28 7 0.05
29 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATTGG
Found at i:85179090 original size:290 final size:290
Alignment explanation
Indices: 85178487--85179870 Score: 2290
Period size: 289 Copynumber: 4.8 Consensus size: 290
85178477 CATACTTATA
* * *
85178487 ATTGGACCCAATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAGTGGGTGGCAACCCTAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
* * *
85178552 AGAAATACTACGGTGTGCTATTAACCCTACTCTTACTCTAGGTAGGAAGTT-GTTTTTCCATTTG
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTT-CATTTG
* *
85178616 AAATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAAAAGGCAT------
130 AAATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAG
* * *
85178675 --CATAAAACACAAGTCTCAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAAT
195 GGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAAT
85178738 ATTAAATATAATTTCCCAGAATAACAATTCT
260 ATTAAATATAATTTCCCAGAATAACAATTCT
* *
85178769 ATTGGACCCGATGTAAGAAAGGCCCAAATCCCATCATATAACATGAAATGGGTGACAACCCTAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85178834 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAAGAAGTTGGTTTTTCATTTGA
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTTCATTTGA
* *
85178899 AATAAACCACTACAACTCAACAAGGGTTCTAACTTCTTTTCTTATAAATAGATGGCATCGGAAGG
131 AATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAGG
*
85178964 GCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTGTTCTTAAATA
196 GCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATA
85179029 TTAAATATAATTTCCCAGAATAACAATTCT
261 TTAAATATAATTTCCCAGAATAACAATTCT
85179059 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85179124 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAAGAAGTTGGTTTTTCATTTGA
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTTCATTTGA
* * * * *
85179189 AATAAACCACTACAACTCAACAAAGGTTCTACCTTCTTTTCTTATAAATAGTTTGCATCAGAAGG
131 AATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAGG
*
85179254 GCATAAAACACAACTTTGAGAGATTGTTACTTTGTCAAAAAATAGAGAGAATTTATTCTTAAATA
196 GCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATA
85179319 TTAAATATAATTTCCCAGAATAACAATTCT
261 TTAAATATAATTTCCCAGAATAACAATTCT
* * *
85179349 ATTGGACCCGATGTAAAAAAAGCCCAAAT-CCCTCATATAATATGAAATGGGTGACAACCATAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85179413 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGGTGGTTTTTCATTTGA
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTTCATTTGA
*
85179478 AATAAACCACTACAACTCAACAAGGGTTCTACCTTCCCTTCTTATAAATAGATGGCATCGGAAGG
131 AATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAGG
* *
85179543 GCATAAAACACAACTTT-ATGAGATTTTTACTCTGTCAAAAAATAGAGAGAATTTGTTCTTAAAT
196 GCATAAAACACAACTTTGA-GAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAAT
* *
85179607 ATAAAATATAATTTCCCAAAATAACAATTCT
260 ATTAAATATAATTTCCCAGAATAACAATTCT
* * *
85179638 ATTGGACCCGATGTAAGAAAGGCCCAAATCCCCTCATATAACATGAAATGGGTGA-AAACCTAAT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85179702 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAG-TCGTTTTTCCATTTG
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTT-CATTTG
*
85179766 AAATAAACCACTACAACTCAACAAGTGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAG
130 AAATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAG
* *
85179831 GGCAAAAAACACAACTTTGAGAGATTGTTACTCTATCAAA
195 GGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAA
85179871 GAAAGAATTT
Statistics
Matches: 1035, Mismatches: 54, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
282 168 0.16
283 6 0.01
288 8 0.01
289 429 0.41
290 424 0.41
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (290 bp):
ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGGTTTTTCATTTGA
AATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAGG
GCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATA
TTAAATATAATTTCCCAGAATAACAATTCT
Found at i:85179578 original size:579 final size:579
Alignment explanation
Indices: 85178487--85179870 Score: 2324
Period size: 579 Copynumber: 2.4 Consensus size: 579
85178477 CATACTTATA
* * *
85178487 ATTGGACCCAATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAGTGGGTGGCAACCCTAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
* * *
85178552 AGAAATACTACGGTGTGCTATTAACCCTACTCTTACTCTAGGTAGGAAGTTGTTTTTCCATTTGA
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGTTTTTCCATTTGA
* * *
85178617 AATAAACCACTACAACTCAACAAGGGTTCTACCTTCTCTTCTTATAAATAAAAGGCAT-------
131 AATAAACCACTACAACTCAACAAAGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGAAGGG
* * *
85178675 CATAAAACACAAGTCTCAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATAT
196 CATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATAT
* *
85178740 TAAATATAATTTCCCAGAATAACAATTCTATTGGACCCGATGTAAGAAAGGCCCAAATCCCATCA
261 TAAATATAATTTCCCAGAATAACAATTCTATTGGACCCGATGTAAAAAAAGCCCAAATCCCATCA
*
85178805 TATAACATGAAATGGGTGACAACCCTAGTAGAAATACTAGGGTGTGCTATTAACCCTACTCCTAC
326 TATAACATGAAATGGGTGACAACCATAGTAGAAATACTAGGGTGTGCTATTAACCCTACTCCTAC
*
85178870 TCTAAGTAAGAAGTTGGTTTTTCATTTGAAATAAACCACTACAACTCAACAAGGGTTCTAACTTC
391 TCTAAGTAAGAAGGTGGTTTTTCATTTGAAATAAACCACTACAACTCAACAAGGGTTCTAACTTC
**
85178935 TTTTCTTATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTC
456 CCTTCTTATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTC
* *
85179000 AAAAAATAGAGAGAATTTGTTCTTAAATATTAAATATAATTTCCCAGAATAACAATTCT
521 AAAAAATAGAGAGAATTTGTTCTTAAATATAAAATATAATTTCCCAAAATAACAATTCT
85179059 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85179124 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAAGAAGTTGGTTTTT-CATTTG
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTT-GTTTTTCCATTTG
* * *
85179188 AAATAAACCACTACAACTCAACAAAGGTTCTACCTTCTTTTCTTATAAATAGTTTGCATCAGAAG
130 AAATAAACCACTACAACTCAACAAAGGTTCTACCTTCTCTTCTTATAAATAGATGGCATC-GAAG
*
85179253 GGCATAAAACACAACTTTGAGAGATTGTTACTTTGTCAAAAAATAGAGAGAATTTATTCTTAAAT
194 GGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAAT
85179318 ATTAAATATAATTTCCCAGAATAACAATTCTATTGGACCCGATGTAAAAAAAGCCCAAATCCC-T
259 ATTAAATATAATTTCCCAGAATAACAATTCTATTGGACCCGATGTAAAAAAAGCCCAAATCCCAT
*
85179382 CATATAATATGAAATGGGTGACAACCATAGTAGAAATACTAGGGTGTGCTATTAACCCTACTCCT
324 CATATAACATGAAATGGGTGACAACCATAGTAGAAATACTAGGGTGTGCTATTAACCCTACTCCT
* *
85179447 ACTCTAAGTAGGAAGGTGGTTTTTCATTTGAAATAAACCACTACAACTCAACAAGGGTTCTACCT
389 ACTCTAAGTAAGAAGGTGGTTTTTCATTTGAAATAAACCACTACAACTCAACAAGGGTTCTAACT
*
85179512 TCCCTTCTTATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTT-ATGAGATTTTTACTCT
454 TCCCTTCTTATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGA-GAGATTGTTACTCT
85179576 GTCAAAAAATAGAGAGAATTTGTTCTTAAATATAAAATATAATTTCCCAAAATAACAATTCT
518 GTCAAAAAATAGAGAGAATTTGTTCTTAAATATAAAATATAATTTCCCAAAATAACAATTCT
* * *
85179638 ATTGGACCCGATGTAAGAAAGGCCCAAATCCCCTCATATAACATGAAATGGGTGA-AAACCTAAT
1 ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
*
85179702 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTCGTTTTTCCATTTGA
66 AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGTTTTTCCATTTGA
85179767 AATAAACCACTACAACTCAAC-AAGTGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGGAAG
131 AATAAACCACTACAACTCAACAAAG-GTTCTACCTTCTCTTCTTATAAATAGATGGCATC-GAAG
* *
85179831 GGCAAAAAACACAACTTTGAGAGATTGTTACTCTATCAAA
194 GGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAA
85179871 GAAAGAATTT
Statistics
Matches: 759, Mismatches: 41, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
572 168 0.22
573 6 0.01
577 9 0.01
578 157 0.21
579 299 0.39
580 120 0.16
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (579 bp):
ATTGGACCCGATGTAAGAAAAGCCCAAATCCCCTCATATAACATGAAATGGGTGACAACCCTAGT
AGAAATACTAGGGTGTGCTATTAACCCTACTCCTACTCTAAGTAGGAAGTTGTTTTTCCATTTGA
AATAAACCACTACAACTCAACAAAGGTTCTACCTTCTCTTCTTATAAATAGATGGCATCGAAGGG
CATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAATAGAGAGAATTTATTCTTAAATAT
TAAATATAATTTCCCAGAATAACAATTCTATTGGACCCGATGTAAAAAAAGCCCAAATCCCATCA
TATAACATGAAATGGGTGACAACCATAGTAGAAATACTAGGGTGTGCTATTAACCCTACTCCTAC
TCTAAGTAAGAAGGTGGTTTTTCATTTGAAATAAACCACTACAACTCAACAAGGGTTCTAACTTC
CCTTCTTATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTC
AAAAAATAGAGAGAATTTGTTCTTAAATATAAAATATAATTTCCCAAAATAACAATTCT
Found at i:85196552 original size:40 final size:40
Alignment explanation
Indices: 85196505--85196714 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 40
85196495 TGTCCGGGCT
* * * * *
85196505 AAGTCCCGAAGGCTTTTGTGCTAAGTGA-TAAATCCGGGTC
1 AAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTC
* * *
85196545 AATTCCCGAAGGCATTTGTGCGAGTTA-CAAAACTGGGTT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC
*
85196584 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC
* * *
85196624 AAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGG-C
1 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC
* * * * * *
85196663 TAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-C
1 -AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC
85196703 AATGTCCCGAAG
1 AA-GTCCCGAAG
85196715 ACAATCGAGC
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 40 0.28
40 105 0.72
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC
Found at i:85196635 original size:79 final size:79
Alignment explanation
Indices: 85196498--85196728 Score: 241
Period size: 79 Copynumber: 2.9 Consensus size: 79
85196488 CGAATGGTGT
* * * * * *
85196498 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATAAATCCGGGTCAATTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACAAAACCGGGTCAAGTCCCGAAGGCATTCG
85196563 TGCGAGTTAC-AAAA
65 TGCGAGTTACTAAAA
* * * *
85196577 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CAAAACCGGGTCAAGTCCCGAAGGCATTCG
*
85196642 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAA
* * * * * * *
85196657 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGAC-AAAACCGGGTCAA-GTCCCGAAGGCATTC
*
85196721 GAGCGAGT
64 GTGCGAGT
85196729 CGCTATATCC
Statistics
Matches: 126, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.03
79 63 0.50
80 59 0.47
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAAACCGGGTCAAGTCCCGAAGGCATTCGT
GCGAGTTACTAAAA
Found at i:85196735 original size:40 final size:41
Alignment explanation
Indices: 85196548--85196740 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 41
85196538 CCGGGTCAAT
* * * * * *
85196548 TCCCGAAGGCATTTGTGCGAGTTAC-AAAACTGGGTTAA-G
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTAATG
* * * * * *
85196587 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-G
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTAATG
* *
85196627 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCTAATG
* *
85196667 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC-AATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTAATG
* * * *
85196707 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
85196741 TTAAATTCCG
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 30 0.22
40 103 0.76
41 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTAATG
Found at i:85196749 original size:80 final size:80
Alignment explanation
Indices: 85196497--85196740 Score: 188
Period size: 80 Copynumber: 3.1 Consensus size: 80
85196487 TCGAATGGTG
* ** * * * * * * *
85196497 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGA-TAAATCCGGGTCAATTCCCGAAGGCATT
1 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAA-TCACCAAAACCGGGTCAAGTCCCGAAGACAAT
* * *
85196561 TGTGCGAGTTAC-AAA
65 CGAGCGAGTCACTAAA
* * * * * * * * * *
85196576 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATC
* *
85196641 GTGCGAGTTACTAAA
66 GAGCGAGTCACTAAA
* *
85196656 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAAT
1 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAGACAAT
* *
85196720 CGAGCGAGTCGCTATA
65 CGAGCGAGTCACTAAA
85196736 TCCGG
1 TCCGG
85196741 TTAAATTCCG
Statistics
Matches: 134, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
78 2 0.01
79 63 0.47
80 69 0.51
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATC
GAGCGAGTCACTAAA
Found at i:85203459 original size:40 final size:40
Alignment explanation
Indices: 85203404--85203573 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
85203394 AACATTGGAA
85203404 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
85203444 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
85203484 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
85203523 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
85203564 CTATATCCGG
1 ATATATCCGG
85203574 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:85205226 original size:7 final size:7
Alignment explanation
Indices: 85205210--85205322 Score: 127
Period size: 7 Copynumber: 15.9 Consensus size: 7
85205200 AATTTATAGT
85205210 GTTTAGG
1 GTTTAGG
*
85205217 GTTTATG
1 GTTTAGG
*
85205224 GTTTATG
1 GTTTAGG
85205231 GTTTAGTG
1 GTTTAG-G
*
85205239 TTTTAGG
1 GTTTAGG
85205246 GTTTAGG
1 GTTTAGG
85205253 GTTTATGG
1 GTTTA-GG
* *
85205261 TTTTAAG
1 GTTTAGG
*
85205268 GTTTAGT
1 GTTTAGG
*
85205275 GTTTAGT
1 GTTTAGG
*
85205282 GATTAGG
1 GTTTAGG
85205289 GTTTAGG
1 GTTTAGG
85205296 GTTTAGG
1 GTTTAGG
*
85205303 GTTTATG
1 GTTTAGG
85205310 GTTTAGG
1 GTTTAGG
85205317 GTTTAG
1 GTTTAG
85205323 ATCTTTTATT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
7 78 0.87
8 12 0.13
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:85212715 original size:28 final size:27
Alignment explanation
Indices: 85212652--85212721 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
85212642 ATAGTGAGTC
85212652 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
85212679 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
85212707 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85212722 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:85241239 original size:21 final size:19
Alignment explanation
Indices: 85241210--85241269 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
85241200 TCTCAATAAA
85241210 AAATATAAAATAATTCAAAAT
1 AAATATAAAAT--TTCAAAAT
*
85241231 AAATTTAAAATTTCAAAAT
1 AAATATAAAATTTCAAAAT
** *
85241250 ATTTATAAAAATTCCAAAAT
1 AAATAT-AAAATTTCAAAAT
85241270 TATATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 11 0.33
20 12 0.36
21 10 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATAAAATTTCAAAAT
Found at i:85255753 original size:30 final size:30
Alignment explanation
Indices: 85255713--85255787 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
85255703 ATAACATTTC
* * *
85255713 AAACATAAGTGACTAAATATAACCTAAAGT
1 AAACAAAAGTGACTAAATATAACATAAAGA
* *
85255743 AAACAAAAGTGACTAAATATAACATGAGGA
1 AAACAAAAGTGACTAAATATAACATAAAGA
85255773 AAACAAAAGTGACTA
1 AAACAAAAGTGACTA
85255788 TTTTGATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.56, C:0.12, G:0.13, T:0.19
Consensus pattern (30 bp):
AAACAAAAGTGACTAAATATAACATAAAGA
Found at i:85255822 original size:9 final size:9
Alignment explanation
Indices: 85255803--85255932 Score: 67
Period size: 9 Copynumber: 14.0 Consensus size: 9
85255793 ATAGTTTACC
85255803 TAAAAATTTA
1 TAAAAA-TTA
85255813 TAAAAATTA
1 TAAAAATTA
85255822 TAAAAAATTA
1 T-AAAAATTA
85255832 T-AAAATTAA
1 TAAAAATT-A
85255841 TAAAGCATATT-
1 TAAA--A-ATTA
85255852 TAAAATATT-
1 TAAAA-ATTA
* *
85255861 GAAATATTA
1 TAAAAATTA
85255870 TAAAAACTTA
1 TAAAAA-TTA
85255880 TAAATAA-TA
1 TAAA-AATTA
85255889 -AAAAATCTA
1 TAAAAAT-TA
*
85255898 -ATAAATTA
1 TAAAAATTA
*
85255906 T-AATATTA
1 TAAAAATTA
85255914 TTAAAAATTA
1 -TAAAAATTA
*
85255924 GAAAAATTA
1 TAAAAATTA
85255933 GAGATTATAA
Statistics
Matches: 97, Mismatches: 9, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.02
8 19 0.20
9 36 0.37
10 30 0.31
11 6 0.06
12 1 0.01
13 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:85255843 original size:19 final size:19
Alignment explanation
Indices: 85255803--85255932 Score: 69
Period size: 19 Copynumber: 7.0 Consensus size: 19
85255793 ATAGTTTACC
*
85255803 TAAAAATTTATAAAAATTA
1 TAAAAAATTATAAAAATTA
85255822 TAAAAAATTAT-AAAATTAA
1 TAAAAAATTATAAAAATT-A
*
85255841 TAAAGCATATT-T-AAAA-TA
1 TAAA--AAATTATAAAAATTA
* *
85255859 TTGAAATATTATAAAAACTTA
1 -TAAAAAATTATAAAAA-TTA
* *
85255880 TAAATAA-TA-AAAAA-TC
1 TAAAAAATTATAAAAATTA
* *
85255896 TAATAAATTAT-AATATTA
1 TAAAAAATTATAAAAATTA
* *
85255914 TTAAAAATTAGAAAAATTA
1 TAAAAAATTATAAAAATTA
85255933 GAGATTATAA
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
16 6 0.07
17 10 0.12
18 22 0.26
19 31 0.37
20 9 0.11
21 6 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTA
Found at i:85256752 original size:22 final size:22
Alignment explanation
Indices: 85256727--85256769 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
85256717 TGAAAGTAAG
85256727 TTTCATATTCTGTGTTTGGTTT
1 TTTCATATTCTGTGTTTGGTTT
85256749 TTTCATATTCTGTGTTTGGTT
1 TTTCATATTCTGTGTTTGGTT
85256770 CGTATTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.63
Consensus pattern (22 bp):
TTTCATATTCTGTGTTTGGTTT
Found at i:85260207 original size:15 final size:15
Alignment explanation
Indices: 85260185--85260224 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
85260175 ATAAATACAG
85260185 CCCAATTTACCTTAA
1 CCCAATTTACCTTAA
*
85260200 CTCAATTTACCTTAA
1 CCCAATTTACCTTAA
85260215 CCCAATTTAC
1 CCCAATTTAC
85260225 AAACTGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (15 bp):
CCCAATTTACCTTAA
Found at i:85260237 original size:19 final size:22
Alignment explanation
Indices: 85260213--85260259 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
85260203 AATTTACCTT
*
85260213 AACCCAAT-TTACA-AA-CTGA
1 AACCCAATGTTACACAAGCTCA
85260232 AACCCAATGTTACACAAGCTCA
1 AACCCAATGTTACACAAGCTCA
85260254 AACCCA
1 AACCCA
85260260 CAACCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 2 0.08
22 9 0.38
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.17
Consensus pattern (22 bp):
AACCCAATGTTACACAAGCTCA
Found at i:85263141 original size:3 final size:3
Alignment explanation
Indices: 85263123--85263179 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
85263113 TATGTATTTT
*
85263123 TTA TT- TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85263170 TTA TTA TTA T
1 TTA TTA TTA T
85263180 GATAATGGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:85266591 original size:100 final size:101
Alignment explanation
Indices: 85266405--85266592 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 101
85266395 TGGTTTTAGG
* * *
85266405 TCACGTGTACAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGGTCGAATGTGTAGTAC
1 TCACGTGTACAGTACTAAGTGCAGGCTACAACGTGGACCAGATAATTAGGTCGAATGTGTAGTAC
*
85266470 TAAGTGCAGGCTACTATGCGTACCCGGCAACTTCAA
66 TAAGTGCAAGCTACTATGCGTACCCGGCAACTTCAA
** * * * *
85266506 TCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGGACCAGAT-TTTTGGTTGCATGTGTAGTAC
1 TCACGTGTACAGTACTAAGTGCAGGCTACAACGTGGACCAGATAATTAGGTCGAATGTGTAGTAC
85266570 TAAGTGCAAGCTACTATGCGTAC
66 TAAGTGCAAGCTACTATGCGTAC
85266593 TAGATAGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 39 0.51
101 38 0.49
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (101 bp):
TCACGTGTACAGTACTAAGTGCAGGCTACAACGTGGACCAGATAATTAGGTCGAATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGGCAACTTCAA
Found at i:85266818 original size:16 final size:15
Alignment explanation
Indices: 85266797--85266826 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85266787 GAATGAAGTA
85266797 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
85266813 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
85266827 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:85270399 original size:19 final size:20
Alignment explanation
Indices: 85270364--85270405 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
85270354 TGCATTCATT
85270364 TTTCATTCATTAGCATTAAA
1 TTTCATTCATTAGCATTAAA
85270384 TTTCA-TCATATA-CATTAAA
1 TTTCATTCAT-TAGCATTAAA
85270403 TTT
1 TTT
85270406 TATAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTCATTCATTAGCATTAAA
Found at i:85272392 original size:30 final size:29
Alignment explanation
Indices: 85272356--85272416 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
85272346 AAACAGAAGT
*
85272356 TTTGGCACTAAGTGTGCTATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
85272386 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
85272415 TT
1 TT
85272417 CAGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:85275883 original size:40 final size:40
Alignment explanation
Indices: 85275796--85276012 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
85275786 AAGCCAAGTA
* * * *
85275796 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* *
85275834 CCTTCGGGACATAGCCCGGATATAATAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
85275874 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
*
85275914 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* * * *
85275954 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAATAACTCGCACAAATG
85275994 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
85276013 TTATCATCCG
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 130 0.82
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:85275929 original size:80 final size:79
Alignment explanation
Indices: 85275796--85276012 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 79
85275786 AAGCCAAGTA
* * * *
85275796 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
85275859 TAACTCGCACCAATG
65 TAACTCGCACAAATG
*
85275874 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
85275939 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
85275954 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
85276013 TTATCATCCG
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
78 14 0.11
79 17 0.13
80 94 0.75
81 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCGCACAAATG
Found at i:85280318 original size:21 final size:19
Alignment explanation
Indices: 85280289--85280348 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
85280279 TCTCAATAAA
85280289 AAATATAAAATAATTCAAAAT
1 AAATATAAAAT--TTCAAAAT
*
85280310 AAATTTAAAATTTCAAAAT
1 AAATATAAAATTTCAAAAT
** *
85280329 ATTTATAAAAATTCCAAAAT
1 AAATAT-AAAATTTCAAAAT
85280349 TATATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 11 0.33
20 12 0.36
21 10 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATAAAATTTCAAAAT
Found at i:85280381 original size:19 final size:19
Alignment explanation
Indices: 85280286--85280382 Score: 55
Period size: 19 Copynumber: 5.3 Consensus size: 19
85280276 CTCTCTCAAT
85280286 AAAAAA-TATAAAATAATTCA
1 AAAAAATTATAAAAT--TTCA
85280306 AAATAAATT-TAAAATTTCA
1 AAA-AAATTATAAAATTTCA
* * *
85280325 AAATATTTATAAAAATTC-
1 AAAAAATTATAAAATTTCA
* **
85280343 -CAAAATTAT---ATTTTT
1 AAAAAATTATAAAATTTCA
*
85280358 TAAAAATTATAAAATTTCA
1 AAAAAATTATAAAATTTCA
85280377 AAAAAA
1 AAAAAA
85280383 ATTCTAAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 17
0.66 0.14 0.20
Matches are distributed among these distances:
14 3 0.05
16 8 0.14
17 6 0.11
18 3 0.05
19 24 0.42
20 3 0.05
21 9 0.16
22 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAATTATAAAATTTCA
Found at i:85286670 original size:21 final size:22
Alignment explanation
Indices: 85286643--85286711 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
85286633 CTCTCTATTT
*
85286643 TATATTTTTTAATTTTTTATAT
1 TATATTTTTTAATTTTTTATAA
* *
85286665 TA-ATTTTTGAATAACTTTTAATAA
1 TATATTTTT---TAATTTTTTATAA
*
85286689 TATATTTTTTAATTTTCTATAA
1 TATATTTTTTAATTTTTTATAA
85286711 T
1 T
85286712 TTTTTTCACT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
21 6 0.16
22 13 0.35
24 12 0.32
25 6 0.16
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TATATTTTTTAATTTTTTATAA
Found at i:85292035 original size:29 final size:29
Alignment explanation
Indices: 85292007--85292108 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
85291997 CCTCCGAGCT
** * * *
85292007 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
85292036 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85292065 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85292094 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
85292109 GATCTCATCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:85294714 original size:125 final size:125
Alignment explanation
Indices: 85294492--85294743 Score: 495
Period size: 125 Copynumber: 2.0 Consensus size: 125
85294482 TGGGGCCTCG
85294492 AGGGCTCGTATTAGGGACTATATGAATGTTTATGAATGGATTTTAATTTGTTAGAGAATTGGTCA
1 AGGGCTCGTATTAGGGACTATATGAATGTTTATGAATGGATTTTAATTTGTTAGAGAATTGGTCA
85294557 TGAAACGCATGATTGTTTGATTTATAAGTCCGGTAATGCTTCGTAACTTGTTTCGACATC
66 TGAAACGCATGATTGTTTGATTTATAAGTCCGGTAATGCTTCGTAACTTGTTTCGACATC
85294617 AGGGCTCGTATTAGGGACTATATGAATGTTTATGAATGGATTTTAATTTGTTAGAGAATTGGTCA
1 AGGGCTCGTATTAGGGACTATATGAATGTTTATGAATGGATTTTAATTTGTTAGAGAATTGGTCA
*
85294682 TGAAACGTATGATTGTTTGATTTATAAGTCCGGTAATGCTTCGTAACTTGTTTCGACATC
66 TGAAACGCATGATTGTTTGATTTATAAGTCCGGTAATGCTTCGTAACTTGTTTCGACATC
85294742 AG
1 AG
85294744 ACAAGGGTTA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.38
Consensus pattern (125 bp):
AGGGCTCGTATTAGGGACTATATGAATGTTTATGAATGGATTTTAATTTGTTAGAGAATTGGTCA
TGAAACGCATGATTGTTTGATTTATAAGTCCGGTAATGCTTCGTAACTTGTTTCGACATC
Found at i:85302935 original size:48 final size:48
Alignment explanation
Indices: 85302868--85302971 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 48
85302858 ATACGGGTAG
* * *
85302868 ACCACATGCCCATGTCTATTTAATAGA-TTGTAACACGGCCTAAGCCAC
1 ACCACACGCCCATGTCTATTTAACAGACTT-TAACACGGCCTAAACCAC
* * * *
85302916 ACCACACGCCCGTTTCTATTTAGCAGACTTTAACTCGGCCTAAACCAC
1 ACCACACGCCCATGTCTATTTAACAGACTTTAACACGGCCTAAACCAC
*
85302964 CCCACACG
1 ACCACACG
85302972 GGCGTGGCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 45 0.96
49 2 0.04
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (48 bp):
ACCACACGCCCATGTCTATTTAACAGACTTTAACACGGCCTAAACCAC
Found at i:85305482 original size:46 final size:45
Alignment explanation
Indices: 85305312--85305487 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
85305302 TGTAACCCGC
* * *
85305312 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
* *
85305358 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCC-A--T
* *** * *
85305404 ACATCTCTCGAAATCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
* *
85305451 CCATAAGTGAACTCGGACTCAACTAAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
85305488 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.63
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCCAT
Found at i:85307972 original size:29 final size:29
Alignment explanation
Indices: 85307930--85308061 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
85307920 AAAATTGTAC
85307930 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
85307959 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
85307988 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
85308018 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
85308047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
85308062 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:85308026 original size:59 final size:58
Alignment explanation
Indices: 85307930--85308061 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
85307920 AAAATTGTAC
85307930 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
85307988 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
85308047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
85308062 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:85308050 original size:88 final size:89
Alignment explanation
Indices: 85307900--85308061 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
85307890 GACAAGATTG
* * *
85307900 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
85307965 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
85307989 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
85308053 AAGTGTGCG
66 AAGTGTGCG
85308062 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:85325485 original size:11 final size:11
Alignment explanation
Indices: 85325469--85325493 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85325459 AGTTTTTGGG
85325469 TTTGTGAGCAT
1 TTTGTGAGCAT
85325480 TTTGTGAGCAT
1 TTTGTGAGCAT
85325491 TTT
1 TTT
85325494 TGGCTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (11 bp):
TTTGTGAGCAT
Found at i:85325716 original size:51 final size:51
Alignment explanation
Indices: 85325656--85325757 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
85325646 GCTTTTCAGT
85325656 GTTGTTTCCTCTTTTGACCATTTCTCTACTGTTAGCTGATTCTTTCTCATC
1 GTTGTTTCCTCTTTTGACCATTTCTCTACTGTTAGCTGATTCTTTCTCATC
*
85325707 GTTGTTTCCTCTTTTGACCATTTCTCTGCTGTTAGCTGATTCTTTCTCATC
1 GTTGTTTCCTCTTTTGACCATTTCTCTACTGTTAGCTGATTCTTTCTCATC
85325758 TACTATACTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.11, C:0.25, G:0.13, T:0.51
Consensus pattern (51 bp):
GTTGTTTCCTCTTTTGACCATTTCTCTACTGTTAGCTGATTCTTTCTCATC
Found at i:85328105 original size:40 final size:40
Alignment explanation
Indices: 85328020--85328170 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
85328010 AATTGAATGA
* * * **
85328020 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
85328060 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
85328101 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
85328140 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
85328171 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:85328184 original size:40 final size:40
Alignment explanation
Indices: 85328057--85328186 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
85328047 ATGCTGGAAA
* * *
85328057 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
85328097 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
85328137 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
85328177 TTATATCCGG
1 TTATATCCGG
85328187 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:85335687 original size:46 final size:46
Alignment explanation
Indices: 85335637--85335812 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
85335627 TATTTGGGCA
85335637 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
85335683 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
85335730 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
85335776 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85335813 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:85335792 original size:93 final size:93
Alignment explanation
Indices: 85335633--85335804 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85335623 TGGATATTTG
* *
85335633 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85335698 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
85335726 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85335791 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85335805 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85338799 original size:15 final size:15
Alignment explanation
Indices: 85338760--85338838 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
85338750 GTATCTTGGG
*
85338760 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
85338775 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
85338790 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
85338804 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
85338819 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
85338833 TTTCTT
1 TTTCTT
85338839 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:85338823 original size:29 final size:29
Alignment explanation
Indices: 85338751--85338837 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
85338741 CATAGTATCG
* * * *
85338751 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
85338781 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
85338810 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
85338838 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:85341276 original size:46 final size:46
Alignment explanation
Indices: 85341223--85341398 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
85341213 TATTTGGGCA
85341223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
85341269 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
85341316 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
85341362 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85341399 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:85341378 original size:93 final size:93
Alignment explanation
Indices: 85341219--85341390 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85341209 GGGATATTTG
* *
85341219 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85341284 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
85341312 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
85341377 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85341391 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85350936 original size:15 final size:15
Alignment explanation
Indices: 85350916--85350971 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
85350906 GTATCTTGGG
85350916 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
85350931 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
85350946 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
85350961 TTTCTTTATTC
1 TTTCTTTATTC
85350972 AGTTTTCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.12
15 25 0.76
16 4 0.12
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:85353711 original size:46 final size:46
Alignment explanation
Indices: 85353659--85353834 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
85353649 TATTTGGGCA
*
85353659 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *** * ** *
85353705 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGAAATATAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GC-AAACG
* * *
85353752 TCCGAAG-TTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
85353798 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85353835 GCGGATTACA
Statistics
Matches: 102, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
45 6 0.06
46 63 0.62
47 27 0.26
48 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:85353814 original size:93 final size:93
Alignment explanation
Indices: 85353655--85353827 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
85353645 AGGATATTTG
***
85353655 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
85353720 TTGAGTCCGAGTTCGTGAAATATAACTA
66 TTGAGTCCGAGTTCGTGAAATATAACTA
* *
85353748 GGCATCCGAAG-TTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGA
1 GGCATCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGA
85353812 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
85353828 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAAATATAACTA
Found at i:85355723 original size:138 final size:138
Alignment explanation
Indices: 85355471--85355790 Score: 507
Period size: 138 Copynumber: 2.3 Consensus size: 138
85355461 GAAAACATAG
85355471 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
* * * * * *
85355536 AAACAGTTATATTAATTAATTTCTGTCAAAATATAAATGACATGGAAATTACTTTTCTTTTGGAA
66 AAAAAATTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA
*
85355601 AGAATTTA
131 AGAATATA
* ** *
85355609 GTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAATTTATTAATAT
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
85355674 AAAAAATTATATTAATTAATTT-TGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 AAAAAATTATATTAATTAATTTCT-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
85355738 AAGAATATA
130 AAGAATATA
* *
85355747 ATTAATATATGAATTTGATTCATACAAATTATTATTTGTATATA
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATA
85355791 AACAATTATA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
137 1 0.01
138 166 0.99
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (138 bp):
ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
AAAAAATTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA
AGAATATA
Found at i:85360364 original size:12 final size:12
Alignment explanation
Indices: 85360349--85360374 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85360339 GTAATGGACA
85360349 TTGGACATTTAT
1 TTGGACATTTAT
85360361 TTGGACATTTAT
1 TTGGACATTTAT
85360373 TT
1 TT
85360375 TGGTGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:85363612 original size:29 final size:29
Alignment explanation
Indices: 85363580--85363648 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
85363570 ATACCCTCCG
* *
85363580 AGCTCGCACACCCAATGCCGTATTTTTCC
1 AGCTCGCACACCCAATGCCATATATTTCC
* ** *
85363609 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAATGCCATATATTTCC
*
85363638 AGCACGCACAC
1 AGCTCGCACAC
85363649 TTAGTGCCGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (29 bp):
AGCTCGCACACCCAATGCCATATATTTCC
Found at i:85363649 original size:29 final size:29
Alignment explanation
Indices: 85363595--85363656 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
85363585 GCACACCCAA
* * **
85363595 TGCCGTATTTTTCCAGCTTGCACACTTAG
1 TGCCATATATTTCCAGCACGCACACTTAG
85363624 TGCCATATATTTCCAGCACGCACACTTAG
1 TGCCATATATTTCCAGCACGCACACTTAG
85363653 TGCC
1 TGCC
85363657 GATCTCGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (29 bp):
TGCCATATATTTCCAGCACGCACACTTAG
Found at i:85366560 original size:68 final size:67
Alignment explanation
Indices: 85366488--85366637 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
85366478 CATCATGTGT
* * * *
85366488 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
85366550 ATGTAG
62 ATGTAG
** * *
85366556 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
85366621 AG
66 AG
85366623 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
85366638 GATAAATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:85366593 original size:64 final size:63
Alignment explanation
Indices: 85366512--85366692 Score: 174
Period size: 64 Copynumber: 2.9 Consensus size: 63
85366502 AGACATTATG
*
85366512 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
85366575 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
85366640 TA
62 TA
* * * *
85366642 A-AT-GCTAGGTCACAT-GGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
85366693 CGAACTATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
59 1 0.01
60 19 0.20
61 1 0.01
62 3 0.03
63 3 0.03
64 31 0.32
65 5 0.05
66 3 0.03
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:85370521 original size:27 final size:27
Alignment explanation
Indices: 85370461--85370547 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
85370451 CATAAAAGTG
* * * *
85370461 GCTTCGCCACATATACTATTTCTGGTG
1 GCTTTGCCACATATACTGTTACTGGTA
85370488 GCTTTGCCACATATACTGTTACTGGTA
1 GCTTTGCCACATATACTGTTACTGGTA
* * *
85370515 GCCTTGCTAC-GATACTGTTACTGGTA
1 GCTTTGCCACATATACTGTTACTGGTA
85370541 GCTTTGC
1 GCTTTGC
85370548 TGCGATACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.40
27 31 0.60
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GCTTTGCCACATATACTGTTACTGGTA
Found at i:85370534 original size:26 final size:26
Alignment explanation
Indices: 85370500--85370580 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
85370490 TTTGCCACAT
*
85370500 ATACTGTTACTGGTAGCCTTGCTACG
1 ATACTGTTACTGGTAGCCTTGCTGCG
*
85370526 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGTAGCCTTGCTGCG
* * * *
85370552 ATACTTTTACTAGCAACCTTGCTGCG
1 ATACTGTTACTGGTAGCCTTGCTGCG
85370578 ATA
1 ATA
85370581 TTGGTGTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGTAGCCTTGCTGCG
Found at i:85371885 original size:29 final size:28
Alignment explanation
Indices: 85371853--85371913 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
85371843 ATTCATATTC
85371853 ATATGCCCTATTAGGCCCAAATCACCTTT
1 ATATGCCCTATTAGGCCCAAATCACC-TT
* * *
85371882 ATATGGCCTGTTAGGCCCAAGTCACCTT
1 ATATGCCCTATTAGGCCCAAATCACCTT
85371910 ATAT
1 ATAT
85371914 TCATGCTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (28 bp):
ATATGCCCTATTAGGCCCAAATCACCTT
Found at i:85376574 original size:40 final size:40
Alignment explanation
Indices: 85376491--85376711 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
85376481 ACCCAAGTAT
** * *
85376491 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85376529 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85376569 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
85376609 CTTCGGGTTTTGGCCCAGATATAGT-AGCTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGC
* * * *
85376649 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
85376690 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
85376712 CATTTGAATA
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 94 0.63
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85379754 original size:16 final size:16
Alignment explanation
Indices: 85379733--85379763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85379723 GTAGAACGAC
*
85379733 AAAAGCTGAAAAGCCA
1 AAAAGCTAAAAAGCCA
85379749 AAAAGCTAAAAAGCC
1 AAAAGCTAAAAAGCC
85379764 GAACGAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAAGCTAAAAAGCCA
Found at i:85381616 original size:28 final size:28
Alignment explanation
Indices: 85381579--85381685 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
85381569 GCAATCAAAT
*
85381579 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
85381607 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
85381635 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
85381663 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
85381686 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Done.