Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 119 of 292
Found at i:35924521 original size:24 final size:24
Alignment explanation
Indices: 35924494--35924588 Score: 181
Period size: 24 Copynumber: 4.0 Consensus size: 24
35924484 TTGATCTGTG
35924494 TAAGACAACGTCTGGGATGTTGGA
1 TAAGACAACGTCTGGGATGTTGGA
35924518 TAAGACAACGTCTGGGATGTTGGA
1 TAAGACAACGTCTGGGATGTTGGA
35924542 TAAGACAACGTCTGGGATGTTGGA
1 TAAGACAACGTCTGGGATGTTGGA
*
35924566 TAAGACCACGTCTGGGATGTTGG
1 TAAGACAACGTCTGGGATGTTGG
35924589 CATCGATATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (24 bp):
TAAGACAACGTCTGGGATGTTGGA
Found at i:35924655 original size:41 final size:41
Alignment explanation
Indices: 35924566--35924814 Score: 219
Period size: 43 Copynumber: 5.9 Consensus size: 41
35924556 GGATGTTGGA
* ** * *
35924566 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT-CATG
* * *
35924609 TAAGACCATGTCTAGGACATCGGTATCGTATTTGATTCATG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCATG
* * * * *
35924650 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCA-TG
* * *
35924693 TAAGACCATGTTTGGGACATCGGCATCGTTTTTGATTCATG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCATG
** ** * *
35924734 TAAGACCACATCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT-CATG
* * *
35924777 TAAGACCATGTCTTGGATATTAGCATCGTATTTGATTC
1 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTC
35924815 GTGATGTGAT
Statistics
Matches: 165, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
41 50 0.30
42 40 0.24
43 75 0.45
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCATG
Found at i:35924698 original size:43 final size:43
Alignment explanation
Indices: 35924566--35924789 Score: 231
Period size: 43 Copynumber: 5.3 Consensus size: 43
35924556 GGATGTTGGA
* *
35924566 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * * * *
35924609 TAAGACCATGTCTAGGACATCGGTATCG-TATTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
35924650 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * * * *
35924693 TAAGACCATGTTTGGGACATCGGCATCG-TTTTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * *
35924734 TAAGACCACATCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
35924777 TAAGACCATGTCT
1 TAAGACCACGTCT
35924790 TGGATATTAG
Statistics
Matches: 142, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
41 48 0.34
42 32 0.23
43 62 0.44
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
Found at i:35924711 original size:84 final size:83
Alignment explanation
Indices: 35924566--35924814 Score: 381
Period size: 84 Copynumber: 3.0 Consensus size: 83
35924556 GGATGTTGGA
*
35924566 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
1 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGT-TTGGACATCG
*
35924631 GTATCGTATTTGATTCATG
65 GCATCGTATTTGATTCATG
* * *
35924650 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTGTAAGACCATGTTTGGGACATCG
1 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTTT-GGACATCG
*
35924715 GCATCGTTTTTGATTCATG
65 GCATCGTATTTGATTCATG
* * **
35924734 TAAGACCACATCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTTGGATATTA
1 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGT-TTGGACATCG
35924799 GCATCGTATTTGATTC
65 GCATCGTATTTGATTC
35924815 GTGATGTGAT
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 146 0.98
85 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (83 bp):
TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTTTGGACATCGG
CATCGTATTTGATTCATG
Found at i:35928739 original size:46 final size:47
Alignment explanation
Indices: 35928542--35928815 Score: 249
Period size: 46 Copynumber: 5.8 Consensus size: 47
35928532 GGGGTAAATT
* *
35928542 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TC-AA
* ** * * **
35928591 GCTGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGCATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT--GGCTTACATCT-CAA
* *
35928641 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-A
* * *
35928687 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AA
* * *
35928733 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCAA
35928778 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
35928816 CTAATAATGT
Statistics
Matches: 184, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 59 0.32
47 16 0.09
48 13 0.07
49 31 0.17
50 32 0.17
51 5 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAA
Found at i:35928833 original size:94 final size:96
Alignment explanation
Indices: 35928544--35928860 Score: 309
Period size: 94 Copynumber: 3.4 Consensus size: 96
35928534 GGTAAATTGC
* * ** * *
35928544 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTA-TCATCATCGAGGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TTAATGCCGATGCCATGTCCCA
** *
35928608 GACATGGTCTTACACTAACTCTTGCATATCCGT-GT
64 GACATGGTCTTACACTGGCTC-T-AATAT-CGTGGT
* *
35928643 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TCATAGCCGATG-CATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAAT-GCCGATGCCATGTCCCAG
* * * * *
35928704 ACAT-GTCTTACATTGGCT-TACGTCTCGAGGC
65 ACATGGTCTTACACTGGCTCTA-ATATCGTGGT
35928735 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCAGA
35928798 CATGGTCTTACACTGGCTCTAATAAT-GTGGT
66 CATGGTCTTACACTGGCTCTAAT-ATCGTGGT
**
35928829 CGATG-CATGTCATAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
35928861 CCACGAGAAC
Statistics
Matches: 184, Mismatches: 23, Indels: 27
0.79 0.10 0.12
Matches are distributed among these distances:
90 10 0.05
91 17 0.09
92 22 0.12
93 17 0.09
94 58 0.32
95 18 0.10
96 7 0.04
97 4 0.02
98 1 0.01
99 30 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTAATATCGTGGT
Found at i:35943342 original size:13 final size:12
Alignment explanation
Indices: 35943324--35943356 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
35943314 CAAGTTTGAA
35943324 AAAAAAAATTCCG
1 AAAAAAAATT-CG
35943337 AAAAAAAATTCG
1 AAAAAAAATTCG
35943349 AAAAAAAA
1 AAAAAAAA
35943357 AAGTGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:35943357 original size:13 final size:14
Alignment explanation
Indices: 35943323--35943357 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
35943313 ACAAGTTTGA
35943323 AAAAAAAAATTCCG
1 AAAAAAAAATTCCG
35943337 -AAAAAAAATT-CG
1 AAAAAAAAATTCCG
35943349 AAAAAAAAA
1 AAAAAAAAA
35943358 AGTGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (14 bp):
AAAAAAAAATTCCG
Found at i:35945502 original size:16 final size:15
Alignment explanation
Indices: 35945462--35945547 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 15
35945452 AAGTTGTAAA
*
35945462 AAAATAAAAG-AAGAG
1 AAAA-AAAAGAAAAAG
*
35945477 AAAAATAAGAAAAAG
1 AAAAAAAAGAAAAAG
35945492 AAAACAAAAGAGAGACAAG
1 AAAA-AAAAGA-A-A-AAG
35945511 AAAAATATCCAAGAAAAAG
1 AAAAA-A---AAGAAAAAG
*
35945530 AAGAAAAAG-AAAAG
1 AAAAAAAAGAAAAAG
35945544 AAAA
1 AAAA
35945548 TCGAGAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
14 12 0.21
15 15 0.26
16 5 0.09
17 1 0.02
18 3 0.05
19 15 0.26
20 1 0.02
21 1 0.02
22 4 0.07
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:35951184 original size:21 final size:22
Alignment explanation
Indices: 35951145--35951187 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
35951135 ATGCATACTC
35951145 CTTCAAGCTTAAATCAGCTCAA
1 CTTCAAGCTTAAATCAGCTCAA
* *
35951167 CTTCAA-CTTAACTTAGCTCAA
1 CTTCAAGCTTAAATCAGCTCAA
35951188 TGAGCTCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (22 bp):
CTTCAAGCTTAAATCAGCTCAA
Found at i:35953668 original size:21 final size:21
Alignment explanation
Indices: 35953644--35953707 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
35953634 GAAGCCACCG
35953644 ATTGCAGCGAGGCTGCCAGAT
1 ATTGCAGCGAGGCTGCCAGAT
** * **
35953665 ATTGTGGCGAAGCCACCAG--
1 ATTGCAGCGAGGCTGCCAGAT
35953684 ATTGCAGCGAGGCTGCCAGAT
1 ATTGCAGCGAGGCTGCCAGAT
35953705 ATT
1 ATT
35953708 ATGACAAAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.20
Consensus pattern (21 bp):
ATTGCAGCGAGGCTGCCAGAT
Found at i:35953697 original size:40 final size:39
Alignment explanation
Indices: 35953628--35953707 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 39
35953618 TATATGTATA
35953628 TGTGGCGAAGCCACCGATTGCAGCGAGGCTGCCAGATAT
1 TGTGGCGAAGCCACCGATTGCAGCGAGGCTGCCAGATAT
35953667 TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
1 TGTGGCGAAGCCACC-GATTGCAGCGAGGCTGCCAGATAT
35953707 T
1 T
35953708 ATGACAAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 15 0.38
40 25 0.62
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.19
Consensus pattern (39 bp):
TGTGGCGAAGCCACCGATTGCAGCGAGGCTGCCAGATAT
Found at i:35953702 original size:19 final size:19
Alignment explanation
Indices: 35953643--35953704 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
35953633 CGAAGCCACC
35953643 GATTGCAGCGAGGCTGCCA
1 GATTGCAGCGAGGCTGCCA
** * **
35953662 GATATTGTGGCGAAGCCACCA
1 G--ATTGCAGCGAGGCTGCCA
35953683 GATTGCAGCGAGGCTGCCA
1 GATTGCAGCGAGGCTGCCA
35953702 GAT
1 GAT
35953705 ATTATGACAA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 17 0.55
21 14 0.45
ACGTcount: A:0.24, C:0.24, G:0.34, T:0.18
Consensus pattern (19 bp):
GATTGCAGCGAGGCTGCCA
Found at i:35953722 original size:40 final size:40
Alignment explanation
Indices: 35953635--35953724 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
35953625 ATATGTGGCG
* * *
35953635 AAGCCACC-GATTGCAGCGAGGCTGCCAGATATTGTGGCG
1 AAGCCACCAGATTGCAGCGAGGCTGCCAGATATTATGACA
35953674 AAGCCACCAGATTGCAGCGAGGCTGCCAGATATTATGACA
1 AAGCCACCAGATTGCAGCGAGGCTGCCAGATATTATGACA
*
35953714 AAGTCACCAGA
1 AAGCCACCAGA
35953725 ACAGATATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.17
40 38 0.83
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (40 bp):
AAGCCACCAGATTGCAGCGAGGCTGCCAGATATTATGACA
Found at i:35958881 original size:10 final size:10
Alignment explanation
Indices: 35958866--35958896 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
35958856 GAGATGGAAT
35958866 TTAAATCGAA
1 TTAAATCGAA
35958876 TTAAATCGAA
1 TTAAATCGAA
35958886 TTAAATCGAA
1 TTAAATCGAA
35958896 T
1 T
35958897 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (10 bp):
TTAAATCGAA
Found at i:35959387 original size:23 final size:22
Alignment explanation
Indices: 35959328--35959387 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 22
35959318 AAGGGAAAGG
35959328 AAATGGGGGGAAAATATTCAAAA
1 AAAT-GGGGGAAAATATTCAAAA
35959351 AAATGGGGGAAAATATTCAAAA
1 AAATGGGGGAAAATATTCAAAA
*
35959373 ACATGGGGGAGAAAT
1 AAATGGGGGA-AAAT
35959388 GGAAGGTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 27 0.77
23 8 0.23
ACGTcount: A:0.50, C:0.05, G:0.28, T:0.17
Consensus pattern (22 bp):
AAATGGGGGAAAATATTCAAAA
Found at i:35961060 original size:95 final size:95
Alignment explanation
Indices: 35960882--35961155 Score: 311
Period size: 95 Copynumber: 2.9 Consensus size: 95
35960872 GTGAATTGCT
* * * * * *
35960882 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATTTTGAGGTTGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA-TATGTGGCTGATGCCATGTCCCAGAC
* *
35960947 ATGGTCTTACACTAGCTCTCGTC-TCA-AAGCC
65 ATGGTCTTACACTAGCTCTC-ACAACATAA-CC
* * **
35960978 GTTGCCAT-TCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCCATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATGTGGCTGATGCCATGTCCCAGAC
* *
35961042 ATGGTCTTACACTGGCTCTCACAACATCACC
65 ATGGTCTTACACTAGCTCTCACAACATAACC
* * * *
35961073 GATGCCATGTTCCAAACATCGTCTTACACTAGCTCTCATATCGTGGCTGACGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-GTGGCTGATGCCATGTCCCAGAC
*
35961138 ATGGTCATACACTAGCTC
65 ATGGTCTTACACTAGCTC
35961156 ACATATCACC
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
94 2 0.01
95 77 0.52
96 70 0.47
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATGTGGCTGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCACAACATAACC
Found at i:35961161 original size:48 final size:48
Alignment explanation
Indices: 35960882--35961162 Score: 260
Period size: 48 Copynumber: 5.9 Consensus size: 48
35960872 GTGAATTGCT
* * * * * * * **
35960882 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATTTTGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCC
* * * ***
35960930 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCC
* *
35960978 GTTGCCAT-TCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCGTGGCC
* * * * * **
35961025 CATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCC
* * * *
35961073 GATGCCATGTTCCAAACATCGTCTTACACTAGCTCTCATATCGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCC
* * *
35961121 GACGCCATGTCCCAGACATGGTCATACACTAGCTCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
35961163 ACCCAAATGT
Statistics
Matches: 186, Mismatches: 44, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
47 37 0.20
48 149 0.80
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCC
Found at i:35963252 original size:20 final size:21
Alignment explanation
Indices: 35963210--35963252 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
35963200 CTGACGTAGT
35963210 TCGATTCTAGCTCAATGGAGC
1 TCGATTCTAGCTCAATGGAGC
*
35963231 TCGATTCTAGCTC-ATTGAGC
1 TCGATTCTAGCTCAATGGAGC
35963251 TC
1 TC
35963253 AATTTTATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (21 bp):
TCGATTCTAGCTCAATGGAGC
Found at i:35963334 original size:16 final size:16
Alignment explanation
Indices: 35963313--35963346 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
35963303 TTATTTTTTT
35963313 TGCTGGAACAA-TTTCA
1 TGCTGGAA-AATTTTCA
35963329 TGCTGGAAAATTTTCA
1 TGCTGGAAAATTTTCA
35963345 TG
1 TG
35963347 TGTGTAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (16 bp):
TGCTGGAAAATTTTCA
Found at i:35963806 original size:30 final size:30
Alignment explanation
Indices: 35963772--35963869 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
35963762 AGCTCACTCC
35963772 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
35963802 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
35963832 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
35963862 TAGCTCAT
1 TAGCTCAT
35963870 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:35965910 original size:27 final size:26
Alignment explanation
Indices: 35965861--35965915 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
35965851 TAGTATATGC
35965861 TTTAATGTGTCTAGTTTCAGACATAAT
1 TTTAATGTGTCTAGTTTCAGACA-AAT
35965888 TTTAATGTGTCTAGTTT-AGGACAAAT
1 TTTAATGTGTCTAGTTTCA-GACAAAT
35965914 TT
1 TT
35965916 ATTAGCTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (26 bp):
TTTAATGTGTCTAGTTTCAGACAAAT
Found at i:35970560 original size:24 final size:26
Alignment explanation
Indices: 35970506--35970579 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 26
35970496 AAATACACTA
*
35970506 ATTTTCTCACTTTCT-TTTTCTTTTCTC
1 ATTTTCT--CTTTCTCTTCTCTTTTCTC
35970533 ATTTTCT-TTTC-CTTCTCTTTTGCT-
1 ATTTTCTCTTTCTCTTCTCTTTT-CTC
* *
35970557 ATTTTTTCTTTCTTTTCTCTTTT
1 ATTTTCTCTTTCTCTTCTCTTTT
35970580 TTTTTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 18 0.45
25 6 0.15
26 9 0.22
27 7 0.17
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (26 bp):
ATTTTCTCTTTCTCTTCTCTTTTCTC
Found at i:35970582 original size:19 final size:20
Alignment explanation
Indices: 35970522--35970582 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 20
35970512 TCACTTTCTT
35970522 TTTCTTTTCTCATTTTCTTTTCC
1 TTTCTTTTCTC--TTT-TTTTCC
*
35970545 TTCTCTTTTGCT-ATTTTTT-C
1 TT-TCTTTT-CTCTTTTTTTCC
35970565 TTTCTTTTCTCTTTTTTT
1 TTTCTTTTCTCTTTTTTT
35970583 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 3 0.09
21 4 0.12
22 2 0.06
23 2 0.06
24 6 0.18
25 2 0.06
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCTTTTCTCTTTTTTTCC
Found at i:35978922 original size:30 final size:30
Alignment explanation
Indices: 35978888--35978984 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
35978878 TAAACTAAAA
35978888 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * *
35978918 TGAGCTAAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCTAA-GCTTTAGCTCGTGAGCTAAAGT
* *
35978948 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
35978978 TGAGCTA
1 TGAGCTA
35978985 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 1 0.02
30 47 0.87
31 6 0.11
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:35987585 original size:17 final size:17
Alignment explanation
Indices: 35987551--35987592 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
35987541 ACTCTTGGAG
*
35987551 GGTGCATGGACGGCTAA
1 GGTGCATGGACGACTAA
35987568 GGTGCATGGAC-ACTTAA
1 GGTGCATGGACGAC-TAA
*
35987585 GATGCATG
1 GGTGCATG
35987593 AATCGGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (17 bp):
GGTGCATGGACGACTAA
Found at i:35988501 original size:13 final size:14
Alignment explanation
Indices: 35988478--35988522 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
35988468 GCCTAAACCG
*
35988478 ACCAATTCATTCAT
1 ACCACTTCATTCAT
35988492 ACC-CTTCATTCAT
1 ACCACTTCATTCAT
* *
35988505 ACCATTTCGTTCAT
1 ACCACTTCATTCAT
35988519 ACCA
1 ACCA
35988523 TTTCGACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.29, C:0.33, G:0.02, T:0.36
Consensus pattern (14 bp):
ACCACTTCATTCAT
Found at i:35988519 original size:14 final size:14
Alignment explanation
Indices: 35988487--35988527 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
35988477 GACCAATTCA
* *
35988487 TTCATACC-CTTCA
1 TTCATACCATTTCG
35988500 TTCATACCATTTCG
1 TTCATACCATTTCG
35988514 TTCATACCATTTCG
1 TTCATACCATTTCG
35988528 ACCATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:35996617 original size:40 final size:40
Alignment explanation
Indices: 35996538--35996780 Score: 357
Period size: 40 Copynumber: 6.1 Consensus size: 40
35996528 TCGGATTTAA
* *
35996538 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
35996577 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35996617 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35996657 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35996697 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35996737 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
35996777 CCGG
1 CCGG
35996781 TTATCATCCG
Statistics
Matches: 187, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 18 0.10
40 168 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36004739 original size:40 final size:40
Alignment explanation
Indices: 36004646--36004902 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
36004636 AAGCCAAGTA
* * *
36004646 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
36004684 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36004724 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
36004764 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
36004804 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
36004844 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
36004884 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36004903 TTATCATCCG
Statistics
Matches: 198, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 168 0.85
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36008371 original size:30 final size:30
Alignment explanation
Indices: 36008337--36008433 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
36008327 TAAACTAAAA
36008337 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
36008367 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
36008397 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
36008427 TGAGCTA
1 TGAGCTA
36008434 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:36010606 original size:30 final size:30
Alignment explanation
Indices: 36010535--36010617 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
36010525 CTTTTGTTTC
* *
36010535 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
36010566 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
36010595 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
36010618 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:36010617 original size:18 final size:18
Alignment explanation
Indices: 36010568--36010623 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
36010558 CACTCTCAAA
* *
36010568 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
36010585 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
36010603 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
36010622 TT
1 TT
36010624 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:36010624 original size:12 final size:12
Alignment explanation
Indices: 36010593--36010617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36010583 TTTTTCAATC
36010593 TCATTTTCTTTT
1 TCATTTTCTTTT
36010605 TCATTTTCTTTT
1 TCATTTTCTTTT
36010617 T
1 T
36010618 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:36010635 original size:12 final size:12
Alignment explanation
Indices: 36010620--36010650 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
36010610 TTCTTTTTGC
36010620 TTTTCAAAGGCT
1 TTTTCAAAGGCT
36010632 TTTTCAAAGGCT
1 TTTTCAAAGGCT
36010644 TTTTCAA
1 TTTTCAA
36010651 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:36010708 original size:5 final size:5
Alignment explanation
Indices: 36010698--36010754 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
36010688 CTCTTGCCTC
*
36010698 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
36010745 TCTTT TCTTT
1 TCTTT TCTTT
36010755 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:36010738 original size:15 final size:14
Alignment explanation
Indices: 36010698--36010754 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
36010688 CTCTTGCCTC
*
36010698 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
36010713 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
36010728 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
36010745 TCTTTTCTTT
1 TCTTTTCTTT
36010755 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:36010764 original size:21 final size:20
Alignment explanation
Indices: 36010696--36010765 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
36010686 GCCTCTTGCC
36010696 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
36010719 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
36010739 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
36010759 TCTCTTT
1 TCTCTTT
36010766 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:36011684 original size:11 final size:10
Alignment explanation
Indices: 36011668--36011721 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 10
36011658 CATTAAACAC
36011668 TTTTTTTTAGA
1 TTTTTTTTA-A
36011679 TTTTTTTCTAA
1 TTTTTTT-TAA
36011690 TATTTTTTTGAA
1 T-TTTTTTT-AA
36011702 TTTTTTTTCAA
1 TTTTTTTT-AA
36011713 TTTTTTTTA
1 TTTTTTTTA
36011722 CTTGTATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 1 0.03
11 27 0.69
12 11 0.28
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:36013465 original size:30 final size:30
Alignment explanation
Indices: 36013431--36013527 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
36013421 TAAACTAAAA
36013431 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
36013461 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
36013491 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
36013521 TGAGCTA
1 TGAGCTA
36013528 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:36014000 original size:10 final size:10
Alignment explanation
Indices: 36013979--36014044 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
36013969 CATGAGATTT
36013979 TGATAT-ACA
1 TGATATGACA
36013988 TGATATGACA
1 TGATATGACA
36013998 TGATATGACA
1 TGATATGACA
*
36014008 TGA-GTGCACA
1 TGATATG-ACA
**
36014018 TGATATGTTA
1 TGATATGACA
*
36014028 TGAGATGCACA
1 TGATATG-ACA
36014039 TGATAT
1 TGATAT
36014045 ACTCATTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 8 0.18
10 29 0.64
11 8 0.18
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:36014010 original size:20 final size:20
Alignment explanation
Indices: 36013979--36014044 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
36013969 CATGAGATTT
36013979 TGATAT-ACATGATATG-ACA
1 TGATATGACATGA-ATGCACA
*
36013998 TGATATGACATGAGTGCACA
1 TGATATGACATGAATGCACA
**
36014018 TGATATGTTATGAGATGCACA
1 TGATATGACATGA-ATGCACA
36014039 TGATAT
1 TGATAT
36014045 ACTCATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.20
20 20 0.50
21 12 0.30
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
TGATATGACATGAATGCACA
Found at i:36014133 original size:25 final size:25
Alignment explanation
Indices: 36014092--36014162 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
36014082 AAGAAGTGCA
*
36014092 AAAAAGGGCTTTG-CCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTAACC
* *
36014116 GAAAAGGGCTTTGCCCCAGTTAATC
1 AAAAAGGGCTTTGCCCCAGTTAACC
36014141 AAAAAGGGCTTTGCCCCAGTTA
1 AAAAAGGGCTTTGCCCCAGTTA
36014163 TTAAAAGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 12 0.29
25 30 0.71
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTAACC
Found at i:36014174 original size:24 final size:25
Alignment explanation
Indices: 36014093--36014174 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 25
36014083 AGAAGTGCAA
* *
36014093 AAAAG-GGCTTTG-CCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTAATC
36014116 GAAAAG-GGCTTTGCCCCAGTTAATC
1 -AAAAGAGGCTTTGCCCCAGTTAATC
*
36014141 AAAA-AGGGCTTTGCCCCAGTT-ATT
1 AAAAGA-GGCTTTGCCCCAGTTAATC
36014165 AAAAGAGGCT
1 AAAAGAGGCT
36014175 AGGCCTCCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 26 0.51
25 25 0.49
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTAATC
Found at i:36016955 original size:13 final size:14
Alignment explanation
Indices: 36016912--36016959 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
36016902 GTACGAATGG
36016912 AATGGTAGGAACGAA
1 AATGGTAGGAAC-AA
36016927 AA-GGTAGGAACAA
1 AATGGTAGGAACAA
*
36016940 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
36016954 ATTGGT
1 AATGGT
36016960 TGGTTTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 4 0.13
14 24 0.80
15 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:36023534 original size:40 final size:39
Alignment explanation
Indices: 36023374--36023566 Score: 296
Period size: 39 Copynumber: 4.9 Consensus size: 39
36023364 TGTGTATGAA
*
36023374 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
36023413 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
36023452 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
36023491 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
36023531 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
36023567 TGTTTGAACA
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 103 0.72
40 41 0.28
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:36034108 original size:47 final size:48
Alignment explanation
Indices: 36034039--36034263 Score: 162
Period size: 46 Copynumber: 4.8 Consensus size: 48
36034029 TAAGGTGCTG
*
36034039 ATGCCATGTCCCA-AACATGGTCTTACACTGGCTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGAA-ATGGTCTTACACTGGCT-ATCATCTCGAAGCCA
* * *
36034086 ATGCCATGTCCCAGAAATGGTCTTACACTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCATCTCGAAGCCA
* * * **
36034134 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAGGCTG
1 ATGCCATGTCCCAGAAATGGTCTTACACTGGCTAT-CATCTCGAAGCCA
* * * * * * *
36034180 ATG-CATGTCTCGGACAT-GTCTTACACTAGCTCTCGTCTC-AATGCCT
1 ATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCATCTCGAA-GCCA
* * * * *
36034226 ATGCCATGTCCTAGACATGCTTTTACACTGGCTCTCAT
1 ATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCAT
36034264 AATGTGGCCG
Statistics
Matches: 147, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 63 0.43
47 59 0.40
48 23 0.16
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGAAATGGTCTTACACTGGCTATCATCTCGAAGCCA
Found at i:36034173 original size:46 final size:47
Alignment explanation
Indices: 36034038--36034298 Score: 198
Period size: 47 Copynumber: 5.6 Consensus size: 47
36034028 GTAAGGTGCT
* * * *
36034038 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAAGCC
* * * *
36034085 AATGCCATGTCCCAGAAATGGTCTTACACTGAC-TATCATCTCGTAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAAGCC
* * *
36034133 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCC
* * * *
36034179 GATG-CATGTCTCGGACATGTCTTACACTAGCTCT-CGTCTC-AATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAA-GCC
* * * * **
36034225 TATGCCATGTCCTAGACATGCTTTTACACTGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCT-TACAT-CTCGAAGCC
36034273 GATG-CATGTCCCAGACATGTCTTACA
1 GATGCCATGTCCCAGACATGTCTTACA
36034299 TTAGCTCACA
Statistics
Matches: 172, Mismatches: 33, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.39
47 76 0.44
48 27 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCC
Found at i:36035990 original size:13 final size:13
Alignment explanation
Indices: 36035972--36035998 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36035962 ATAAACATAA
36035972 GGTCAAGACACAC
1 GGTCAAGACACAC
36035985 GGTCAAGACACAC
1 GGTCAAGACACAC
36035998 G
1 G
36035999 CCTGTGCGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.26, T:0.07
Consensus pattern (13 bp):
GGTCAAGACACAC
Found at i:36042149 original size:27 final size:25
Alignment explanation
Indices: 36042111--36042195 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 25
36042101 TGGAGGAAGC
36042111 GTTCTGGTGGCTACGTCACAAATATCT
1 GTTCTGGTGGCT-CGTCAC-AATATCT
* *
36042138 GTTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGC-TCGTCACAATATCT
*
36042164 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTC-GTCACAATATCT
36042191 GTTCT
1 GTTCT
36042196 AGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 13 0.26
27 36 0.72
28 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (25 bp):
GTTCTGGTGGCTCGTCACAATATCT
Found at i:36050268 original size:27 final size:26
Alignment explanation
Indices: 36050230--36050316 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
36050220 TGGAGGAAGC
36050230 GTTCTGGTGGCTAC-GCCACAAATATCT
1 GTTCTGGTGGCT-CTGCCAC-AATATCT
36050257 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
36050283 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
36050310 GTTCTGG
1 GTTCTGG
36050317 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:36055180 original size:37 final size:37
Alignment explanation
Indices: 36055130--36055200 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
36055120 CGAAGTCTTA
36055130 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
36055167 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
36055201 TCACCCGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:36055208 original size:37 final size:36
Alignment explanation
Indices: 36055128--36055214 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
36055118 TACGAAGTCT
36055128 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
36055164 GTGCCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
36055201 TCACCCGGAACATA
1 T-ACCCGG-ACATA
36055215 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:36055355 original size:49 final size:49
Alignment explanation
Indices: 36055283--36055594 Score: 574
Period size: 49 Copynumber: 6.4 Consensus size: 49
36055273 TTTACCACAT
*
36055283 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
36055332 ATATATATACATTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36055381 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36055430 ATATATATAC-CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36055478 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36055527 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
36055576 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
36055595 AATTTTAATA
Statistics
Matches: 256, Mismatches: 5, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
48 47 0.18
49 209 0.82
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:36055455 original size:146 final size:147
Alignment explanation
Indices: 36055283--36055594 Score: 574
Period size: 146 Copynumber: 2.1 Consensus size: 147
36055273 TTTACCACAT
* *
36055283 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
36055348 ACATTCATCACATCGGCCATGAGGCCTTATCACATATATATAC-CTTTTCACATTCATCACATCG
66 ACATTCATCACATCGGCCATGAGGCCTTATCACATATATATACAC-TTTCACATTCATCACATCG
36055412 GCCATTAGGCCTTATCAC
130 GCCATTAGGCCTTATCAC
36055430 ATATATATAC-CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
*
36055494 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
66 ACATTCATCACATCGGCCATGAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
36055559 CCATTAGGCCTTATCAC
131 CCATTAGGCCTTATCAC
36055576 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
36055595 AATTTTAATA
Statistics
Matches: 160, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
146 141 0.88
147 19 0.12
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (147 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATGAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCAC
Found at i:36067514 original size:23 final size:23
Alignment explanation
Indices: 36067473--36067516 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36067463 AACCACTAAT
*
36067473 ATGCATAATTGTATGATTTATGA
1 ATGCATAATTATATGATTTATGA
36067496 ATGCATAATTAT-TGCATTTAT
1 ATGCATAATTATATG-ATTTAT
36067517 TATTGGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (23 bp):
ATGCATAATTATATGATTTATGA
Found at i:36069542 original size:27 final size:28
Alignment explanation
Indices: 36069485--36069554 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
36069475 AAACTTGTAC
*
36069485 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
36069513 AGCACTAAGTGTGTGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
36069540 AGCACTAGGTGTGCG
1 AGCACTAAGTGTGCG
36069555 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:36076500 original size:10 final size:10
Alignment explanation
Indices: 36076487--36076512 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36076477 TTTTAAAAAA
36076487 ATAAAATATT
1 ATAAAATATT
36076497 ATAAAATATT
1 ATAAAATATT
36076507 ATAAAA
1 ATAAAA
36076513 GTCATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:36076517 original size:45 final size:49
Alignment explanation
Indices: 36076463--36076555 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 49
36076453 GAAACGCCGC
* *
36076463 TAAAGGTCAT-AAAATTTTAAAAAAA-TAAAA-T-ATTAT-AAAATATTA
1 TAAAAGTCATGAAAA-TATAAAAAAATTAAAATTCATTATCAAAATATTA
36076508 TAAAAGTCATGAAAATATAAAAAAATTAAAATTCATTATCAAAATATT
1 TAAAAGTCATGAAAATATAAAAAAATTAAAATTCATTATCAAAATATT
36076556 GAGAAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
45 18 0.44
46 9 0.22
47 1 0.02
48 5 0.12
49 8 0.20
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (49 bp):
TAAAAGTCATGAAAATATAAAAAAATTAAAATTCATTATCAAAATATTA
Found at i:36077416 original size:21 final size:23
Alignment explanation
Indices: 36077379--36077431 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
36077369 AATCACAACT
36077379 TTTAGACACCATAAA-TTGCAGCA
1 TTTA-ACACCATAAATTTGCAGCA
*
36077402 TTTAACACC-TAAATTTTCAGCA
1 TTTAACACCATAAATTTGCAGCA
36077424 TTTAACAC
1 TTTAACAC
36077432 ATATAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (23 bp):
TTTAACACCATAAATTTGCAGCA
Found at i:36079322 original size:26 final size:26
Alignment explanation
Indices: 36079256--36079316 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
36079246 TATTTAAAAG
36079256 AATTA-GATAAAATTTGAAATCTTGAA
1 AATTATGA-AAAATTTGAAATCTTGAA
* *
36079282 AATTATTAAAAATTTGAAATCTTTAA
1 AATTATGAAAAATTTGAAATCTTGAA
36079308 AATT-TGAAA
1 AATTATGAAA
36079317 TTATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 26 0.84
27 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (26 bp):
AATTATGAAAAATTTGAAATCTTGAA
Found at i:36079323 original size:17 final size:17
Alignment explanation
Indices: 36079267--36079324 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
36079257 ATTAGATAAA
*
36079267 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
36079286 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
*
36079302 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
36079319 ATTTAA
1 ATTTAA
36079325 TATATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 14 0.42
17 9 0.27
18 3 0.09
19 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:36079463 original size:7 final size:7
Alignment explanation
Indices: 36079442--36079476 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
36079432 CTTAATGTCT
36079442 TAACCCC
1 TAACCCC
36079449 TAAACCCC
1 T-AACCCC
36079457 TAACCCC
1 TAACCCC
36079464 TAACCCC
1 TAACCCC
36079471 TAACCC
1 TAACCC
36079477 ATGCCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.31, C:0.54, G:0.00, T:0.14
Consensus pattern (7 bp):
TAACCCC
Found at i:36079984 original size:7 final size:7
Alignment explanation
Indices: 36079972--36080077 Score: 65
Period size: 7 Copynumber: 15.1 Consensus size: 7
36079962 ACCAATTAAT
36079972 CTAAACC
1 CTAAACC
36079979 CTAAACC
1 CTAAACC
*
36079986 TCTAACCC
1 -CTAAACC
*
36079994 CT-ATCC
1 CTAAACC
36080000 CATAAACC
1 C-TAAACC
*
36080008 CGAAACC
1 CTAAACC
*
36080015 CAAAACC
1 CTAAACC
*
36080022 CTTAACC
1 CTAAACC
*
36080029 CGAAACC
1 CTAAACC
* *
36080036 CTACACG
1 CTAAACC
*
36080043 TTAAACTC
1 CTAAAC-C
36080051 C--AACC
1 CTAAACC
36080056 CTAAACC
1 CTAAACC
* *
36080063 ATAATCC
1 CTAAACC
36080070 CTAAACC
1 CTAAACC
36080077 C
1 C
36080078 ATAATTCATC
Statistics
Matches: 73, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.03
6 7 0.10
7 54 0.74
8 10 0.14
ACGTcount: A:0.39, C:0.42, G:0.03, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:36080073 original size:14 final size:15
Alignment explanation
Indices: 36080054--36080082 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36080044 TAAACTCCAA
36080054 CCCTAAA-CCATAAT
1 CCCTAAACCCATAAT
36080068 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
36080083 TCATCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:36080160 original size:14 final size:14
Alignment explanation
Indices: 36080122--36080166 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
36080112 TCCTAAAACT
36080122 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* * *
36080136 TATATCTTAAACCA
1 TAAACCCTAAACCA
*
36080150 TAAACCCTAAACTA
1 TAAACCCTAAACCA
36080164 TAA
1 TAA
36080167 TGATAATTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:36080348 original size:14 final size:14
Alignment explanation
Indices: 36080309--36080407 Score: 101
Period size: 14 Copynumber: 7.0 Consensus size: 14
36080299 ATTAATTAAT
36080309 CTAAACCTTAAACTC
1 CTAAACCTTAAAC-C
*
36080324 CTAATCCTTAAACC
1 CTAAACCTTAAACC
* *
36080338 ATAAACCTTAAATC
1 CTAAACCTTAAACC
* *
36080352 CTAAAACATAAACC
1 CTAAACCTTAAACC
*
36080366 CTAAACCCTT-ACCC
1 CTAAA-CCTTAAACC
*
36080380 CTAAACTTTAAACC
1 CTAAACCTTAAACC
*
36080394 CTAACCCTTAAACC
1 CTAAACCTTAAACC
36080408 GTAATCCCTA
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
13 3 0.04
14 50 0.75
15 14 0.21
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:36080373 original size:7 final size:7
Alignment explanation
Indices: 36080309--36080441 Score: 70
Period size: 7 Copynumber: 18.7 Consensus size: 7
36080299 ATTAATTAAT
36080309 CTAAACC
1 CTAAACC
*
36080316 TTAAACTC
1 CTAAAC-C
*
36080324 CTAATCC
1 CTAAACC
*
36080331 TTAAACC
1 CTAAACC
*
36080338 ATAAACC
1 CTAAACC
* *
36080345 TTAAATC
1 CTAAACC
*
36080352 CTAAAAC
1 CTAAACC
*
36080359 ATAAACC
1 CTAAACC
36080366 CTAAACC
1 CTAAACC
* *
36080373 CTTACCC
1 CTAAACC
*
36080380 CTAAACT
1 CTAAACC
*
36080387 TTAAACC
1 CTAAACC
36080394 CT-AACC
1 CTAAACC
36080400 CTTAAACC
1 C-TAAACC
* *
36080408 GTAATCC
1 CTAAACC
*
36080415 CTAAGCC
1 CTAAACC
*
36080422 CATAATCC
1 C-TAAACC
*
36080430 ATAAACC
1 CTAAACC
*
36080437 TTAAA
1 CTAAA
36080442 ATAGTATTCA
Statistics
Matches: 93, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
6 5 0.05
7 74 0.80
8 14 0.15
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:36081008 original size:40 final size:40
Alignment explanation
Indices: 36080962--36081055 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
36080952 AAGGTGCACC
* *
36080962 TATAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTCACTT
1 TATAGCGGCGTTTTTAAGAAAAGAGCCGCTAATGCTCA-TT
*
36081002 TTTAGCGGCG-TTTTAAGAAAAGAGCCGCTAATGCTCATT
1 TATAGCGGCGTTTTTAAGAAAAGAGCCGCTAATGCTCATT
*
36081041 TATAGTGGCGTTTTT
1 TATAGCGGCGTTTTT
36081056 TGTTCAAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 15 0.32
40 32 0.68
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (40 bp):
TATAGCGGCGTTTTTAAGAAAAGAGCCGCTAATGCTCATT
Found at i:36085622 original size:16 final size:16
Alignment explanation
Indices: 36085601--36085635 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36085591 AACTGTTACG
* *
36085601 AAATATATATTTTTAT
1 AAATATAAAATTTTAT
36085617 AAATATAAAATTTTAT
1 AAATATAAAATTTTAT
36085633 AAA
1 AAA
36085636 GATTATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATAAAATTTTAT
Found at i:36086706 original size:34 final size:34
Alignment explanation
Indices: 36086662--36086727 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
36086652 CAGGAAAAGA
36086662 AGTTACATTATTTCATTAATTATTAAATTATAGC
1 AGTTACATTATTTCATTAATTATTAAATTATAGC
*
36086696 AGTTAGATTATTTCATTAATTATTAAATTATA
1 AGTTACATTATTTCATTAATTATTAAATTATA
36086728 AGTTCCTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (34 bp):
AGTTACATTATTTCATTAATTATTAAATTATAGC
Found at i:36088504 original size:29 final size:29
Alignment explanation
Indices: 36088464--36088522 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36088454 AAGGACTAAA
36088464 TTGCTATTTTTATAGTAGAGGAGCTAATT
1 TTGCTATTTTTATAGTAGAGGAGCTAATT
36088493 TTGCTATTTTTATAGTAGAGGAGCTAATT
1 TTGCTATTTTTATAGTAGAGGAGCTAATT
36088522 T
1 T
36088523 ACTCCTAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (29 bp):
TTGCTATTTTTATAGTAGAGGAGCTAATT
Found at i:36090652 original size:13 final size:14
Alignment explanation
Indices: 36090622--36090659 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
36090612 GTTTACATGT
* *
36090622 AAAAGATTTTATGA
1 AAAATATTTTACGA
36090636 AAAATATTTTACGA
1 AAAATATTTTACGA
36090650 AAAATATTTT
1 AAAATATTTT
36090660 CTACATTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (14 bp):
AAAATATTTTACGA
Found at i:36093813 original size:40 final size:41
Alignment explanation
Indices: 36093704--36093871 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 41
36093694 TCTTCGGAAT
* * *
36093704 TTAG-CCGGATATAA-CCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * * ** *
36093743 TTAACCCGAATTTGGT-AACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* * *
36093783 TTAGCTCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
* *
36093823 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
36093863 TTAGCCCGG
1 TTAGCCCGG
36093872 GTATCATTCA
Statistics
Matches: 103, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
TTAGCCCGGATATAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:36093852 original size:80 final size:79
Alignment explanation
Indices: 36093695--36093868 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 79
36093685 AACCGAGTCT
* * * * **
36093695 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGAATTTGGTA
1 CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAATA
*
36093760 ACTTGCACAAATGC
66 ACTAGCACAAATGC
* ** * *
36093774 CTTCGGGTCTTAGCTCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGC-CGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGAATATAA
* *
36093838 TCACTAGCATAAATGC
64 TAACTAGCACAAATGC
36093854 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
36093869 CGGGTATCAT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
79 12 0.15
80 64 0.82
81 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAATA
ACTAGCACAAATGC
Found at i:36098103 original size:15 final size:15
Alignment explanation
Indices: 36098083--36098134 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
36098073 ATTCAAAAGT
36098083 AATATTTTAATAATA
1 AATATTTTAATAATA
36098098 AATATTTTGAACAATAATA
1 AATATTTT----AATAATA
*
36098117 AATATATTAATAATA
1 AATATTTTAATAATA
36098132 AAT
1 AAT
36098135 GTTCTATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 18 0.56
19 14 0.44
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36102432 original size:20 final size:20
Alignment explanation
Indices: 36102383--36102434 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
36102373 CGGGCTAGGG
36102383 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
* * *
36102403 ACATGAGCGTGTTCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
36102423 ATACGGGCGTGT
1 ACACGGGCGTGT
36102435 GCATTGTCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.17
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:36111338 original size:29 final size:29
Alignment explanation
Indices: 36111296--36111375 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
36111286 TATATATGTG
36111296 AATTATCGAGCACTAAGTGTGCAAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
*
36111325 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCAAAGTAA
*
36111354 AACTATCGAGCACTAAGTGTGC
1 AATTATCGAGCACTAAGTGTGC
36111376 GATCTCATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCAAAGTAA
Found at i:36113735 original size:24 final size:25
Alignment explanation
Indices: 36113693--36113739 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
36113683 TTATAATATG
* *
36113693 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCGATTTACCCCTAGGTA
36113718 AAAATGACC-ATTTACCCCTAGG
1 AAAATGACCGATTTACCCCTAGG
36113740 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (25 bp):
AAAATGACCGATTTACCCCTAGGTA
Found at i:36113790 original size:9 final size:9
Alignment explanation
Indices: 36113778--36113834 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
36113768 TTTGATAAAC
36113778 ATGATATGT
1 ATGATATGT
36113787 ATGATATGCAT
1 ATGATATG--T
*
36113798 ATGACATGT
1 ATGATATGT
*
36113807 ATGATATGCAC
1 ATGATATG--T
36113818 ATGATATGT
1 ATGATATGT
36113827 ATGATATG
1 ATGATATG
36113835 CACATGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:36113806 original size:20 final size:20
Alignment explanation
Indices: 36113776--36113846 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
36113766 ATTTTGATAA
36113776 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
36113796 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
36113816 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
36113836 ACATGAGATGT
1 ACATGATATGT
36113847 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:36113809 original size:15 final size:16
Alignment explanation
Indices: 36113787--36113829 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
36113777 CATGATATGT
36113787 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
36113803 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
36113818 ATGATATG-TATG
1 ATGATATGATATG
36113830 ATATGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:36113923 original size:23 final size:23
Alignment explanation
Indices: 36113893--36114059 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
36113883 AGGAAGTGCA
36113893 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
36113916 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
36113940 AAAGGGCTTATGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
36113963 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
36113987 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
36114010 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
36114033 AAAAGGGCTTTTGCCCAAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
36114057 AAA
1 AAA
36114060 AGAGGCTAGG
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
23 69 0.52
24 64 0.48
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:36113948 original size:24 final size:23
Alignment explanation
Indices: 36113892--36114081 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
36113882 GAGGAAGTGC
36113892 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
36113915 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
36113938 CAAAAGGGCTTATGCCTCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
36113962 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
36113985 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
36114009 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
36114033 AAAAGGGCTTTTGCCCAAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
36114057 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
36114081 A
1 A
36114082 TGATAAAGCA
Statistics
Matches: 149, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
23 64 0.43
24 76 0.51
25 9 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:36113960 original size:47 final size:47
Alignment explanation
Indices: 36113891--36114059 Score: 302
Period size: 47 Copynumber: 3.6 Consensus size: 47
36113881 GGAGGAAGTG
36113891 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
36113938 CAAAAGGGCTTATGCCTCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
36113985 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
36114032 TAAAAGGGCTTTTGCCCAAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
36114060 AGAGGCTAGG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 117 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:36117662 original size:49 final size:49
Alignment explanation
Indices: 36117605--36117721 Score: 189
Period size: 49 Copynumber: 2.4 Consensus size: 49
36117595 GTTACAAAAT
* *
36117605 GGTGTACGATTACACACCTACATTCATCATTGAACATAGAGTAAGGTTG
1 GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
*
36117654 GGTGTACGACTACACACCTACATTCATCATTGCACACAGAGTAAGGTTG
1 GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
* *
36117703 TGTGTATGACTACACACCT
1 GGTGTACGACTACACACCT
36117722 TGATTTGCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (49 bp):
GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
Found at i:36118390 original size:27 final size:27
Alignment explanation
Indices: 36118307--36118383 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
36118297 GACAGAGAGA
* * *
36118307 AGGGGTATTACGGTCACTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCCTAT
* *
36118334 AGGGGCTTTACGATCATTTTACCCTAT
1 AGGGGCATTACGGTCATTTTACCCTAT
*
36118361 AGGGGCATTACGGTCTTTTTACC
1 AGGGGCATTACGGTCATTTTACC
36118384 TATTAGGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
AGGGGCATTACGGTCATTTTACCCTAT
Found at i:36118513 original size:28 final size:28
Alignment explanation
Indices: 36118441--36118533 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 28
36118431 ATCTACAACC
*
36118441 CAAGGGTATTTCAGTAATTTTGGAAACT
1 CAAGGGTATTTCTGTAATTTTGGAAACT
* * *
36118469 -AATGGTATTTCTATAATTTAT-GAAAGT
1 CAAGGGTATTTCTGTAATTT-TGGAAACT
**
36118496 CAAGGGTATTTCTGTAATTTTCTAAA-T
1 CAAGGGTATTTCTGTAATTTTGGAAACT
*
36118523 TAAGGGTATTT
1 CAAGGGTATTT
36118534 TAGTACTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 33 0.61
28 21 0.39
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (28 bp):
CAAGGGTATTTCTGTAATTTTGGAAACT
Found at i:36118548 original size:27 final size:26
Alignment explanation
Indices: 36118495--36118589 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
36118485 TTTATGAAAG
*
36118495 TCAAGGGTATTTCTGTAATTTTCTAAA
1 TCAAGGGTATTT-TGTACTTTTCTAAA
* *
36118522 TTAAGGGTATTTTAGTACTTTTTTAAA
1 TCAAGGGTATTTT-GTACTTTTCTAAA
* *
36118549 TCAGGGGTATTTTGGTAACTTTGC-AAA
1 TCAAGGGTATTTT-GT-ACTTTTCTAAA
**
36118576 TCTCGGGTATTTTG
1 TCAAGGGTATTTTG
36118590 GTAATTTTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.04
27 49 0.88
28 5 0.09
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (26 bp):
TCAAGGGTATTTTGTACTTTTCTAAA
Found at i:36118611 original size:27 final size:26
Alignment explanation
Indices: 36118553--36118730 Score: 126
Period size: 27 Copynumber: 6.6 Consensus size: 26
36118543 TTTAAATCAG
* *
36118553 GGGTATTTTGGTAACTTTGCAAATCTC-
1 GGGTATTTTGGTAATTTTAC-AATC-CA
*
36118580 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCCA
* * * * * *
36118607 AGGTATTTCGATAATTTTATAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCCA
** *
36118634 GGGTATTTCAGTAATTTCACAAAT-CA
1 GGGTATTTTGGTAATTTTAC-AATCCA
* *
36118660 GGGGTATTTTGGTAATTTGACAAACCA
1 -GGGTATTTTGGTAATTTTACAATCCA
* *
36118687 GGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTACAATCC-A
36118715 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
36118731 CTACCCTATA
Statistics
Matches: 123, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.04
27 116 0.94
28 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCCA
Found at i:36118612 original size:54 final size:51
Alignment explanation
Indices: 36118495--36118730 Score: 127
Period size: 54 Copynumber: 4.4 Consensus size: 51
36118485 TTTATGAAAG
* * * *
36118495 TCAAGGGTATTTCT-GTAATTTTCTAAATTAAGGGTATTTTAGTACTTTTTTA-AA
1 TCAA-GGTATTT-TGGTAATTTGC-AAATCAAGGGTATTTTGGTA--ATTTTACAA
* **
36118549 TCAGGGGTATTTTGGTAACTTTGCAAATCTCGGGTATTTTGGTAATTTTACAA
1 TCA-AGGTATTTTGGTAA-TTTGCAAATCAAGGGTATTTTGGTAATTTTACAA
* * * * * ** *
36118602 GTCGAAGGTATTTCGATAATTT-TATAGGTCGAGGGTATTTCAGTAATTTCACAAA
1 -TC-AAGGTATTTTGGTAATTTGCA-A-ATCAAGGGTATTTTGGTAATTTTAC-AA
* * * *
36118657 TCAGGGGTATTTTGGTAATTTGACAAACCAGGGGTATTTTGGTAATTTTATAAA
1 TCA-AGGTATTTTGGTAATTTG-CAAATCAAGGGTATTTTGGTAATTTTA-CAA
*
36118711 CCAAGGGTATTTTGGTAATT
1 TCAA-GGTATTTTGGTAATT
36118731 CTACCCTATA
Statistics
Matches: 137, Mismatches: 31, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
52 6 0.04
53 8 0.06
54 114 0.83
55 8 0.06
56 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (51 bp):
TCAAGGTATTTTGGTAATTTGCAAATCAAGGGTATTTTGGTAATTTTACAA
Found at i:36118729 original size:81 final size:80
Alignment explanation
Indices: 36118525--36118730 Score: 207
Period size: 81 Copynumber: 2.5 Consensus size: 80
36118515 TTCTAAATTA
* * * * * *
36118525 AGGGTATTTTAGTACTTTTTTAAATCAGGGGTATTTTGGTAACTTTGCAAATCTCGGGTATTTTG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGGTAA-TTTACAAATCACGGGTATTTTG
* **
36118590 GTAATTTTACAAGTCG
65 GTAATTTGACAAACCG
* * * ** * ** *
36118606 AAGGTATTTCGATAATTTTATAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGGTAATTT-ACAAATCACGGGTATTTTG
36118671 GTAATTTGACAAACC-
65 GTAATTTGACAAACCG
*
36118686 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATT
1 A-GGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGGTAATT
36118731 CTACCCTATA
Statistics
Matches: 96, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
80 4 0.04
81 92 0.96
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTACAAATCACGGGTATTTTGG
TAATTTGACAAACCG
Found at i:36118745 original size:27 final size:27
Alignment explanation
Indices: 36118713--36118819 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
36118703 TTTATAAACC
**
36118713 AAGGGTATTTTGGTAATTCTACCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTAT
* *
36118740 AGGGGTATTTCAATAATTCTACCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTAT
* *
36118767 AAGGGTATTTCAGTAATTCTACCTTAC
1 AAGGGTATTTCAGTAATTCTACCCTAT
* *
36118794 AAGGGTATTTCAGTAATGCTAGCCTA
1 AAGGGTATTTCAGTAATTCTACCCTA
36118820 CAGATATGAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTCTACCCTAT
Found at i:36125801 original size:29 final size:29
Alignment explanation
Indices: 36125759--36125840 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
36125749 TATATATGTG
36125759 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
36125788 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
36125817 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
36125841 TCTCATTGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:36129831 original size:18 final size:18
Alignment explanation
Indices: 36129808--36129848 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
36129798 TGAATCTTAG
36129808 TTGTGTAGTAAACAACTT
1 TTGTGTAGTAAACAACTT
36129826 TTGTGTAGTAAACAACTT
1 TTGTGTAGTAAACAACTT
36129844 TTGTG
1 TTGTG
36129849 AAAGAAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (18 bp):
TTGTGTAGTAAACAACTT
Found at i:36130925 original size:22 final size:22
Alignment explanation
Indices: 36130877--36130926 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
36130867 AAGCTTTATT
* * * *
36130877 AAGCTGAATGGGAAGCTCTTTC
1 AAGCTAAACGGGAAGCTCATAC
*
36130899 TAGCTAAACGGGAAGCTCATAC
1 AAGCTAAACGGGAAGCTCATAC
36130921 AAGCTA
1 AAGCTA
36130927 TGGTGAGTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
AAGCTAAACGGGAAGCTCATAC
Found at i:36132210 original size:6 final size:6
Alignment explanation
Indices: 36132180--36132287 Score: 96
Period size: 6 Copynumber: 17.7 Consensus size: 6
36132170 AAGAAACATT
* * *
36132180 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
36132229 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
36132278 ATCAGA ATCA
1 ATCAGA ATCA
36132288 ATATCAAGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
5 4 0.05
6 70 0.85
7 5 0.06
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:36132230 original size:37 final size:37
Alignment explanation
Indices: 36132189--36132316 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 37
36132179 TATCAGAACT
*
36132189 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAAC
* * *
36132226 AGAATCAGAATCAGAATCAGAATCAGAATC-AG-AATT
1 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAA-C
* * *
36132262 AG-GTGACAGAATTAGAATCAGAATCA-ATATCAAGTAAC
1 AGAAT--CAAAATGAGAATCAGAATCAGA-ATCAAGTAAC
36132300 AGAATCAAAATGAGAAT
1 AGAATCAAAATGAGAAT
36132317 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
35 2 0.03
36 5 0.07
37 60 0.81
38 4 0.05
39 3 0.04
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATGAGAATCAGAATCAGAATCAAGTAAC
Found at i:36132236 original size:43 final size:43
Alignment explanation
Indices: 36132189--36132287 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
36132179 TATCAGAACT
*
36132189 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
* * * *
36132232 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
*
36132275 AGAATCAGAATCA
1 AGAATCAAAATCA
36132288 ATATCAAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (43 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:36132302 original size:31 final size:31
Alignment explanation
Indices: 36132206--36132316 Score: 95
Period size: 31 Copynumber: 3.6 Consensus size: 31
36132196 AAATGAGAAT
*
36132206 CAGAATCAGAATCA-AGTGACAGAATC-AG-AA
1 CAGAATCAGAATCAGAAT--CAGAATCAAGTAA
* * *
36132236 TCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGAATCAGAATCAAGTAA
*
36132268 CAGAATTAGAATCAGAATCA-ATATCAAGTAA
1 CAGAATCAGAATCAGAATCAGA-ATCAAGTAA
* *
36132299 CAGAATCAAAATGAGAAT
1 CAGAATCAGAATCAGAAT
36132317 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
30 7 0.11
31 55 0.85
32 3 0.05
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAAGTAA
Found at i:36133212 original size:27 final size:27
Alignment explanation
Indices: 36132819--36133201 Score: 496
Period size: 27 Copynumber: 14.2 Consensus size: 27
36132809 TAACACCTAG
* *
36132819 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
36132846 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36132873 TGGTAAAATGATAATTCAGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36132900 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36132927 GGGTAAAACGGTAATTCTATAGATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*** *
36132954 GGGTAAAACAATAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
36132981 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
36133008 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36133035 GGGTGAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36133062 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
36133089 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
36133116 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
**
36133143 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
36133170 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
36133197 GGGTA
1 GGGTA
36133202 CTTTGGTAAT
Statistics
Matches: 308, Mismatches: 48, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 308 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:36133214 original size:81 final size:81
Alignment explanation
Indices: 36132819--36133201 Score: 568
Period size: 81 Copynumber: 4.7 Consensus size: 81
36132809 TAACACCTAG
* * * *
36132819 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGATGGTAAAATGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
*
36132884 TAATTCAGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * *
36132900 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAGATCGAGGGTAAAACAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
*
36132965 TAATTCTGTAAATCAA
66 TAATTCTGTAAATCGA
* * *
36132981 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTGAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
*
36133046 TAATTCTATAAATCGA
66 TAATTCTGTAAATCGA
** * *
36133062 GGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
*
36133127 TAATTTTGTAAATCGA
66 TAATTCTGTAAATCGA
* *
36133143 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
36133202 CTTTGGTAAT
Statistics
Matches: 270, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 270 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
TAATTCTGTAAATCGA
Found at i:36133223 original size:27 final size:27
Alignment explanation
Indices: 36133163--36133347 Score: 176
Period size: 27 Copynumber: 6.9 Consensus size: 27
36133153 GTAATTCTGT
*** * **
36133163 AAATCGAGGGTAAAATGGTAATTCTGT
1 AAATCGAGGGTATTTTGGTAATTTTAC
*
36133190 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
36133217 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** * *
36133244 AGGTCGAGGGTATTTTAGTAATTTCAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
36133271 AAATC-AGAGGTATTTTGGTAATTTTAC
1 AAATCGAG-GGTATTTTGGTAATTTTAC
* *
36133298 AAA-CTAGTGGTATTTTGGTAATTTTAT
1 AAATCGAG-GGTATTTTGGTAATTTTAC
* *
36133325 AAACCAAGGGTATTTTGGTAATT
1 AAATCGAGGGTATTTTGGTAATT
36133348 CTACCTTACA
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 129 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:36133359 original size:27 final size:27
Alignment explanation
Indices: 36133329--36133411 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
36133319 TTTTATAAAC
** *
36133329 CAAGGGTATTTTGGTAATTCTACCTTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
36133356 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
36133383 CAAGGGTATTTCAATAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
36133410 CA
1 CA
36133412 GATATGAGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:36133364 original size:54 final size:53
Alignment explanation
Indices: 36133250--36133374 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 53
36133240 TTACAGGTCG
* * *
36133250 AGGGTATTTTAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTTAGTAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACA
* * * **
36133303 AGTGGTATTTTGGTAATTTTATAAACCA-AGGGTATTTTGGTAATTCTACCTTACA
1 AG-GGTATTTTAGTAATTTCACAAACCAGA-GGTATTTTGGTAATTCTA-CAAACA
*
36133358 AGGGTATTTCAGTAATT
1 AGGGTATTTTAGTAATT
36133375 CTACCCTACA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
53 3 0.05
54 51 0.86
55 5 0.08
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACA
Found at i:36135329 original size:43 final size:43
Alignment explanation
Indices: 36135282--36135387 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
36135272 TATCAGAACT
*
36135282 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
** * *
36135325 AGAAT-AAGGGTCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAA-AATCAGAATCAGAATCAGAATCAGGTGACAGAATC
*
36135368 AGAATCAAAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
36135388 GTAATAGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (43 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:36135372 original size:6 final size:6
Alignment explanation
Indices: 36135273--36135353 Score: 67
Period size: 6 Copynumber: 13.3 Consensus size: 6
36135263 AAGAAACATT
* * *
36135273 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
36135322 ATCAGA ATAAGG GTCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
36135354 TAGGTGACAG
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
5 2 0.03
6 51 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:36135397 original size:31 final size:31
Alignment explanation
Indices: 36135337--36135397 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
36135327 AATAAGGGTC
* * *
36135337 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAAAATCAGAATCAGGTAACAGAATT
* *
36135368 AGAATCAAAATCAGTATCAGGTAATAGAAT
1 AGAATCAAAATCAGAATCAGGTAACAGAAT
36135398 CAAAATGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.23
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGGTAACAGAATT
Found at i:36135409 original size:37 final size:37
Alignment explanation
Indices: 36135281--36135409 Score: 111
Period size: 37 Copynumber: 3.5 Consensus size: 37
36135271 TTATCAGAAC
*
36135281 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTAA
* * * **
36135318 CAGAATCAGAATAAGGGTCAGAATCAGAATCA-G-AA
1 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTAA
* * * * *
36135353 TTAG-GTGACAGAATTAGAATCAAAATCAGTATCAGGTAA
1 -TAGAAT--CAAAATGAGAATCAGAATCAGAATCAGGTAA
36135392 TAGAATCAAAATGAGAAT
1 TAGAATCAAAATGAGAAT
36135410 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
35 2 0.03
36 3 0.04
37 58 0.83
38 4 0.06
39 3 0.04
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (37 bp):
TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTAA
Found at i:36135576 original size:27 final size:27
Alignment explanation
Indices: 36135528--36135579 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36135518 GCGAGGTTGC
*
36135528 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
36135555 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
36135580 ACAAATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:36135943 original size:27 final size:27
Alignment explanation
Indices: 36135932--36136291 Score: 443
Period size: 27 Copynumber: 13.3 Consensus size: 27
36135922 GGTAACTTTA
* *
36135932 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
36135959 TAAATCGATGGTAAAAC-GATAATTCTG
1 TAAATCGAGGGTAAAACAG-TAATTCTG
* * *
36135986 TAAATCGAGGATAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
** *
36136013 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
36136040 TAGATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
36136067 TAAATCAAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* *
36136094 TAAATCAAGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* *
36136121 TAAATCGAGGGTGAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
36136148 TAAATCGAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
36136175 TAAATTGTGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* * *
36136202 TAAATCTAGGGTAAAACAATAATTTTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
* *
36136229 TAAATTGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTG
*
36136256 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACAGTAATTCTG
36136283 TAAATCGAG
1 TAAATCGAG
36136292 AGTACTTTGG
Statistics
Matches: 289, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 287 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACAGTAATTCTG
Found at i:36136034 original size:81 final size:81
Alignment explanation
Indices: 36135913--36136291 Score: 490
Period size: 81 Copynumber: 4.7 Consensus size: 81
36135903 AACAACCTAG
* * * * * *
36135913 GGGTAAAATGGTAACTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGATGGTAAAACGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
36135978 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * *
36135994 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAGATCGAGGGTAAAA-TA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
* *
36136058 GTAATTTTGTAAATCAA
66 -TAATTCTGTAAATCGA
* * * *
36136075 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTGAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
36136140 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * * *
36136156 GGGTAAAACAGTAATTTTGTAAATTGTGGGTAAAATAGTAATTCTGTAAATCTAGGGTAAAACAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
* *
36136221 TAATTTTGTAAATTGA
66 TAATTCTGTAAATCGA
* * * *
36136237 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
36136292 AGTACTTTGG
Statistics
Matches: 257, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.00
81 256 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA
TAATTCTGTAAATCGA
Found at i:36136394 original size:27 final size:27
Alignment explanation
Indices: 36136284--36136441 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 27
36136274 GTAATTCTGT
* *
36136284 AAATCGAGAGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
36136311 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** * ** *
36136338 AGGTCGAGGGTAGTTCAGTAATTTCAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
36136365 AAATC-AGAGGTATTTTGGTAATTTTAC
1 AAATCGAG-GGTATTTTGGTAATTTTAC
* *
36136392 AAA-CCAGGGGTATTTTGGTAATTTTAT
1 AAATCGA-GGGTATTTTGGTAATTTTAC
* *
36136419 AAACCAAGGGTATTTTGGTAATT
1 AAATCGAGGGTATTTTGGTAATT
36136442 CTACCCTATA
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 105 0.95
28 3 0.03
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:36136504 original size:27 final size:27
Alignment explanation
Indices: 36136423--36136505 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
36136413 TTTTATAAAC
**
36136423 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
36136450 -TAGGGATATTTCAGTAATTCTACCCTA
1 CAAGGG-TATTTCAGTAATTCTACCCTA
* *
36136477 CAAGGGTATTTCAGTAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
36136504 CA
1 CA
36136506 GATATGAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.08
27 40 0.83
28 4 0.08
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:36144722 original size:34 final size:34
Alignment explanation
Indices: 36144657--36144727 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
36144647 GTTCAATCTT
* * *
36144657 AGTTAGGGCCTTAGCCCATTACAATATCAGTATC
1 AGTTAGGGCCTGAGCCCATTACAATAACAGTAAC
* *
36144691 AGTTTGGGCCTGAGCCCATCT-CAGTAACAGTAAC
1 AGTTAGGGCCTGAGCCCAT-TACAATAACAGTAAC
36144725 AGT
1 AGT
36144728 ACAGTTATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (34 bp):
AGTTAGGGCCTGAGCCCATTACAATAACAGTAAC
Found at i:36145076 original size:27 final size:27
Alignment explanation
Indices: 36145016--36145069 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
36145006 TCATACATCT
36145016 CATAGGGGCATAACAATCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
* * *
36145043 CACAGGGGCATAATAGTCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
36145070 GTTAGGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (27 bp):
CATAGGGGCATAACAATCATTTTATCA
Found at i:36145212 original size:17 final size:17
Alignment explanation
Indices: 36145186--36145219 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36145176 TGCGGGCCCA
36145186 TGTGGGCCCACA-AGCC
1 TGTGGGCCCACATAGCC
36145202 TGTGTGGCCCACATAGCC
1 TGTG-GGCCCACATAGCC
36145220 ACAAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (17 bp):
TGTGGGCCCACATAGCC
Found at i:36150778 original size:27 final size:27
Alignment explanation
Indices: 36150748--36150901 Score: 155
Period size: 29 Copynumber: 5.5 Consensus size: 27
36150738 ATAGTGAATC
36150748 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * * **
36150775 CGCACACATAGGGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
36150803 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
36150830 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
36150859 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
36150888 TGCACACTTAGTGC
1 CGCACACTTAGTGC
36150902 CATTCTCGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 39 0.37
28 26 0.25
29 40 0.38
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:36150795 original size:29 final size:29
Alignment explanation
Indices: 36150748--36150878 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 29
36150738 ATAGTGAATC
*
36150748 CGCACACTTAGTGC--TATAAAATCAGCT
1 CGCACACATAGTGCTATATAAAATCAGCT
* **
36150775 CGCACACATAGGGCTATAT--AATCAAATT
1 CGCACACATAGTGCTATATAAAATC-AGCT
*
36150803 CGCACACTTAGTGC--TATAAAATCAGCT
1 CGCACACATAGTGCTATATAAAATCAGCT
** *
36150830 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACATAGTGCTATATAAAATCAGCT
* *
36150859 CGCACACTTAGTGCCATATA
1 CGCACACATAGTGCTATATA
36150879 TTTCCAGCTT
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.04
27 31 0.37
28 18 0.22
29 31 0.37
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCTATATAAAATCAGCT
Found at i:36150819 original size:55 final size:55
Alignment explanation
Indices: 36150748--36150851 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
36150738 ATAGTGAATC
36150748 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGGGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGGGCTATATAATCAAATT
*
36150803 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGGGCTATATAAT
36150852 TTGAGCTCGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGGGCTATATAATCAAATT
Done.