Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 114 of 170
Found at i:35119418 original size:13 final size:13
Alignment explanation
Indices: 35119402--35119498 Score: 86
Period size: 13 Copynumber: 7.4 Consensus size: 13
35119392 AAATGGTAAA
*
35119402 ATGAAATATTTAG
1 ATGAAATATTTAT
**
35119415 ATGAAATGGTTAT
1 ATGAAATATTTAT
*
35119428 ATGAAATGTTTAT
1 ATGAAATATTTAT
**
35119441 ATCGAAATAGATAT
1 AT-GAAATATTTAT
** *
35119455 ATGAAACGTTGAT
1 ATGAAATATTTAT
* *
35119468 ATGAAGTGTTTAT
1 ATGAAATATTTAT
35119481 ATGAAATATTTAT
1 ATGAAATATTTAT
35119494 ATGAA
1 ATGAA
35119499 TATAGATATG
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
13 56 0.85
14 10 0.15
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (13 bp):
ATGAAATATTTAT
Found at i:35119418 original size:26 final size:26
Alignment explanation
Indices: 35119389--35119448 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
35119379 AAATGTGTAA
35119389 ATGAAATGGTAAAATGAAATATTTAG
1 ATGAAATGGTAAAATGAAATATTTAG
* * * *
35119415 ATGAAATGGTTATATGAAATGTTTAT
1 ATGAAATGGTAAAATGAAATATTTAG
35119441 ATCGAAAT
1 AT-GAAAT
35119449 AGATATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (26 bp):
ATGAAATGGTAAAATGAAATATTTAG
Found at i:35119460 original size:53 final size:53
Alignment explanation
Indices: 35119402--35119513 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
35119392 AAATGGTAAA
* * *
35119402 ATGAAATATTTAGATGAAATGGTTATATGAAATGTTTATATCGAA-ATAGATAT
1 ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATAT-GAATATAGATAT
* * * *
35119455 ATGAAACGTTGATATGAAGTGTTTATATGAAATATTTATATGAATATAGATAT
1 ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATATGAATATAGATAT
*
35119508 GTGAAA
1 ATGAAA
35119514 AGGGACATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.38
Consensus pattern (53 bp):
ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATATGAATATAGATAT
Found at i:35119495 original size:26 final size:25
Alignment explanation
Indices: 35119402--35119498 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 25
35119392 AAATGGTAAA
*
35119402 ATGAAATATTTAGATGAAATGGTTAT
1 ATGAAATATTTATATGAAAT-GTTAT
* *
35119428 ATGAAATGTTTATATCGAAATAGATAT
1 ATGAAATATTTATAT-GAAAT-GTTAT
** * *
35119455 ATGAAACGTTGATATGAAGTGTTTAT
1 ATGAAATATTTATATGAAATG-TTAT
35119481 ATGAAATATTTATATGAA
1 ATGAAATATTTATATGAA
35119499 TATAGATATG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
25 1 0.02
26 35 0.60
27 22 0.38
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (25 bp):
ATGAAATATTTATATGAAATGTTAT
Found at i:35126942 original size:22 final size:22
Alignment explanation
Indices: 35126912--35126954 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
35126902 ACACCAAAAC
*
35126912 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
35126934 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35126955 AGCGGCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:35127249 original size:43 final size:43
Alignment explanation
Indices: 35127212--35127472 Score: 265
Period size: 43 Copynumber: 6.0 Consensus size: 43
35127202 ACGCCGGAAT
* *
35127212 AGACCCTGATCTATAGCGGCGCTTTGACTACAAACGCCACTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
* * * * ** *
35127255 AGAACCTAATCTTTAGTGGCGTTTTCCCCTA-AAACGCCGC-AA
1 AGACCCTGATCTTTAGCGGCGCTTTGACC-ACAAACGCCACTAA
* *
35127297 TAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAA
1 -AGACCCTGATCTTTAGCGGCGCTTTGACCAC-AAACGCCACTAA
* * ** *
35127342 AGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
* * ** *
35127385 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
* * *
35127428 AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCAATAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
35127471 AG
1 AG
35127473 GCCAACACCT
Statistics
Matches: 172, Mismatches: 41, Indels: 10
0.77 0.18 0.04
Matches are distributed among these distances:
42 3 0.02
43 134 0.78
44 33 0.19
45 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
Found at i:35127308 original size:86 final size:86
Alignment explanation
Indices: 35127200--35127465 Score: 354
Period size: 86 Copynumber: 3.1 Consensus size: 86
35127190 ATTTTTTCTC
* *
35127200 AAACGCCGGAATAGACCCTGATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
* * *
35127265 CTTTAGTGGCGTTTTCCCCTA
66 CTTTAGCGGCGCTTTCCCCAA
*
35127286 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC-AAACGCCACTAAAGAACCTAA
35127351 TCTTTAGCGGCGCTTTCCCCAA
65 TCTTTAGCGGCGCTTTCCCCAA
* * * * ** * * *
35127373 AAACGCCACTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAA
**
35127437 TCTTTAGCGGCGCTTTGACCAA
65 TCTTTAGCGGCGCTTTCCCCAA
35127459 AAACGCC
1 AAACGCC
35127466 AATAAAGGCC
Statistics
Matches: 160, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
86 85 0.53
87 73 0.46
88 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
CTTTAGCGGCGCTTTCCCCAA
Found at i:35127385 original size:130 final size:129
Alignment explanation
Indices: 35127220--35127472 Score: 334
Period size: 130 Copynumber: 2.0 Consensus size: 129
35127210 ATAGACCCTG
* * *
35127220 ATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACC-TAATCTTTAGTGGCG-TTTTCCC
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAG-ACCATAATCTTTAGTGGCGCTTTTCCC
*
35127283 -CTAAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAA
65 AC--AAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGACCA-AAAACGCCAATAAAGAA
35127346 CCTA
126 CCTA
* * * *
35127350 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGTGGCGCTTTTCCCA
* * *
35127415 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCAATAAAG
66 CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAACGCCAATAAAG
35127473 GCCAACACCT
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
129 17 0.16
130 82 0.76
131 8 0.07
132 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (129 bp):
ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGTGGCGCTTTTCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCAAAAACGCCAATAAAGAACCTA
Found at i:35127485 original size:43 final size:42
Alignment explanation
Indices: 35127220--35127514 Score: 205
Period size: 43 Copynumber: 6.9 Consensus size: 42
35127210 ATAGACCCTG
* * * *
35127220 ATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG-ACCAA
* * ** * * **
35127263 ATCTTTAGTGGCGTTTTCCCCTAAAACGCCGC-AATAGACCCTG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA-AGA-CCAA
* * *
35127306 ATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** *
35127350 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGACCATG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * **
35127393 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
* *
35127436 ATCTTTAGCGGCGCTTTGACCAAAAACGCCAATAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * * * ** *
35127478 CACCTTTAGTGGCGTTTTTAAAAAAAATGCCACTAAA
1 -ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
35127515 TTTGGAAGAT
Statistics
Matches: 195, Mismatches: 49, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
42 8 0.04
43 150 0.77
44 34 0.17
45 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:35127485 original size:86 final size:86
Alignment explanation
Indices: 35127243--35127514 Score: 244
Period size: 86 Copynumber: 3.2 Consensus size: 86
35127233 CTTTGACTAC
* * * * ***
35127243 AAACGCCACTAAAGAACCTAATCTTTAGTGGCGTTTTCCCCTAAAACGCCGCAAT--AGACCCTG
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACG-C-CAATAAAGACCAAC
* * * ***
35127306 ATCTATAGCGGCGCTTCGACCACA
64 ACCTTTAGTGGCG-TTTTTCCACA
* * ** *
35127330 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAGACCATGAT
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCAATAAAGACCAACAC
35127395 CTTTAGTGGCGCTTTTTCCAC-
66 CTTTAGTGGCG-TTTTTCCACA
* * * * *
35127416 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCAATAAAGGCCAACAC
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCAATAAAGACCAACAC
** *
35127481 CTTTAGTGGCGTTTTTAAAAA
66 CTTTAGTGGCGTTTTTCCACA
*
35127502 AAATGCCACTAAA
1 AAACGCCACTAAA
35127515 TTTGGAAGAT
Statistics
Matches: 157, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
85 9 0.06
86 78 0.50
87 70 0.45
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (86 bp):
AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCAATAAAGACCAACAC
CTTTAGTGGCGTTTTTCCACA
Found at i:35127843 original size:21 final size:21
Alignment explanation
Indices: 35127817--35127891 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
35127807 TCTGACGCTG
*
35127817 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
35127838 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * * *
35127859 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
35127880 CTCTGCTTCTCT
1 CTCTGCTTCTCT
35127892 TACTGCCGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:35127969 original size:66 final size:66
Alignment explanation
Indices: 35127879--35128025 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
35127869 CTAGCTGCCG
* **
35127879 CCTCTGCTTCTCTTACTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
35127942 GAA
64 GAA
* * * * *
35127945 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
35128010 A
66 A
35128011 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
35128026 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:35128041 original size:66 final size:66
Alignment explanation
Indices: 35127918--35128048 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
35127908 TTAAGCTGCT
* * *
35127918 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
35127983 A
66 A
* * *
35127984 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
35128048 T
65 T
35128049 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:35133567 original size:9 final size:9
Alignment explanation
Indices: 35133553--35133663 Score: 103
Period size: 9 Copynumber: 13.2 Consensus size: 9
35133543 TAAGGGATAT
35133553 TTATGTAAG
1 TTATGTAAG
35133562 TTATGT-A-
1 TTATGTAAG
* *
35133569 TTAAGTAAA
1 TTATGTAAG
35133578 TTATGTAAG
1 TTATGTAAG
35133587 TTATGT-A-
1 TTATGTAAG
*
35133594 TTATCTAAG
1 TTATGTAAG
35133603 TTATGTAAG
1 TTATGTAAG
35133612 TTATGT-A-
1 TTATGTAAG
* *
35133619 TTAAGTAGG
1 TTATGTAAG
*
35133628 TTATGTAAT
1 TTATGTAAG
*
35133637 TTATGT--C
1 TTATGTAAG
35133644 TTATGTAAG
1 TTATGTAAG
35133653 TTATGTAAG
1 TTATGTAAG
35133662 TT
1 TT
35133664 TTTGATTTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
7 21 0.26
8 5 0.06
9 56 0.68
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35133581 original size:25 final size:25
Alignment explanation
Indices: 35133553--35133663 Score: 159
Period size: 25 Copynumber: 4.4 Consensus size: 25
35133543 TAAGGGATAT
*
35133553 TTATGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTAAGTAAG
**
35133578 TTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
*
35133603 TTATGTAAGTTATGTATTAAGTAGG
1 TTATGTAAGTTATGTATTAAGTAAG
* * *
35133628 TTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
35133653 TTATGTAAGTT
1 TTATGTAAGTT
35133664 TTTGATTTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTAAGTAAG
Found at i:35133596 original size:16 final size:16
Alignment explanation
Indices: 35133577--35133659 Score: 80
Period size: 16 Copynumber: 5.1 Consensus size: 16
35133567 TATTAAGTAA
35133577 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
35133593 ATTATCTAAGTTATGT
1 ATTATGTAAGTTATGT
*
35133609 AAGTTATGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
*
35133625 AGGTTATGTAATTTATGT
1 A--TTATGTAAGTTATGT
*
35133643 CTTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
35133659 A
1 A
35133660 AGTTTTTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.02
16 41 0.75
17 3 0.05
18 10 0.18
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:35133608 original size:50 final size:50
Alignment explanation
Indices: 35133553--35133663 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
35133543 TAAGGGATAT
35133553 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
** * * *
35133603 TTATGTAAGTTATGTATTAAGTAGGTTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
35133653 TTATGTAAGTT
1 TTATGTAAGTT
35133664 TTTGATTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (50 bp):
TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
Found at i:35133753 original size:12 final size:12
Alignment explanation
Indices: 35133712--35133774 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
35133702 TGGTTATGTA
35133712 TTATTATGTAAG
1 TTATTATGTAAG
* * *
35133724 TTACTATTTAGG
1 TTATTATGTAAG
35133736 TTATTATGTAAG
1 TTATTATGTAAG
* * *
35133748 TCATTATATATG
1 TTATTATGTAAG
*
35133760 TTGGTTATGTAAG
1 TT-ATTATGTAAG
35133773 TT
1 TT
35133775 GTGATATGAT
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
12 28 0.76
13 9 0.24
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:35135294 original size:14 final size:14
Alignment explanation
Indices: 35135277--35135314 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
35135267 GTGGAGGACC
35135277 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
35135291 GGAGGTGGATCGGT
1 GGAGGTGGATCGGT
35135305 GGAGGTGGAT
1 GGAGGTGGAT
35135315 TGGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.58, T:0.21
Consensus pattern (14 bp):
GGAGGTGGATCGGT
Found at i:35136804 original size:22 final size:22
Alignment explanation
Indices: 35136778--35136830 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
35136768 ACCCTTGAAA
* ** *
35136778 CCCTAAATCCCTAGCTCTTAAC
1 CCCTAAACCCCTAAATCCTAAC
*
35136800 CCCTAACCCCCTAAATCCTAAC
1 CCCTAAACCCCTAAATCCTAAC
35136822 CCCTAAACC
1 CCCTAAACC
35136831 TTAAACCATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.47, G:0.02, T:0.21
Consensus pattern (22 bp):
CCCTAAACCCCTAAATCCTAAC
Found at i:35137133 original size:7 final size:7
Alignment explanation
Indices: 35137100--35137180 Score: 62
Period size: 7 Copynumber: 11.7 Consensus size: 7
35137090 CCTTAGCTCT
35137100 CCTAAAC
1 CCTAAAC
35137107 CTCTAAAC
1 C-CTAAAC
*
35137115 CTCT-AGC
1 C-CTAAAC
*
35137122 CCTAACC
1 CCTAAAC
35137129 CCTAAAC
1 CCTAAAC
* *
35137136 CTTAAAT
1 CCTAAAC
35137143 CCT-AAC
1 CCTAAAC
35137149 CC--AAC
1 CCTAAAC
35137154 CCTAAATC
1 CCTAAA-C
*
35137162 CCTAATC
1 CCTAAAC
35137169 CCTAAAC
1 CCTAAAC
35137176 CCTAA
1 CCTAA
35137181 CCCAGTCCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 5 0.08
6 6 0.10
7 33 0.55
8 16 0.27
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:35137287 original size:15 final size:15
Alignment explanation
Indices: 35137269--35137299 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35137259 TACCTCTAAC
35137269 CCTTAAATCCATAAA
1 CCTTAAATCCATAAA
35137284 CCTTAAATCCATAAA
1 CCTTAAATCCATAAA
35137299 C
1 C
35137300 ACCATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
CCTTAAATCCATAAA
Found at i:35137644 original size:41 final size:41
Alignment explanation
Indices: 35137587--35137740 Score: 184
Period size: 41 Copynumber: 3.8 Consensus size: 41
35137577 TAAAAAATAT
* **
35137587 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGATCTTAGC
1 ATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGATCAGAGC
* * * **
35137628 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGATCAGAGC
* *
35137669 ATTACCGGCACTTCTTCAAAAACGTCGCTAAAGGAT-AGAGC
1 ATTAGCGGCACTTCTTCAAAAACGCCGCTAAA-GATCAGAGC
* *
35137710 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAA
1 ATTAGCGGCACTTCTTCAAAAACGCCGCTAA
35137741 GGGCCCCAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 94 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGATCAGAGC
Found at i:35137698 original size:82 final size:82
Alignment explanation
Indices: 35137587--35137745 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 82
35137577 TAAAAAATAT
* * ** * * *
35137587 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAA-GATCTTAGCATTAGCGGCGCTTTTTCAAAAAT
1 ATTACCGGCACTTCTTCAAAAACGCCGCTAAAGGAT-AGAGCATTAGCGGCGCTTCTTAAAAAAC
35137651 GCCGCTAAAGGCCAGAGC
65 GCCGCTAAAGGCCAGAGC
*
35137669 ATTACCGGCACTTCTTCAAAAACGTCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAACG
1 ATTACCGGCACTTCTTCAAAAACGCCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAACG
*
35137734 CCGCTAAGGGCC
66 CCGCTAAAGGCC
35137746 CCAAAAACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
82 64 0.96
83 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
ATTACCGGCACTTCTTCAAAAACGCCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAACG
CCGCTAAAGGCCAGAGC
Found at i:35137848 original size:39 final size:40
Alignment explanation
Indices: 35137782--35137893 Score: 131
Period size: 39 Copynumber: 2.8 Consensus size: 40
35137772 TGGCTTAGGC
35137782 TTTTT-GCGGCGATTTTCTG-AAAACGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTCTGTAAAACGCCGCTAATGCTCAA
* * *
35137820 TTTTTAGCGGCGTTTTCTGTTAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
* * *
35137860 TTTTTAGTGGCGTTTTTTGTCCAAACGCCGCTAA
1 TTTTTAGCGGCGTTTTCTGT-AAAACGCCGCTAA
35137894 AAATGCCACT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 12 0.19
39 21 0.33
40 19 0.30
41 11 0.17
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
Found at i:35140795 original size:25 final size:26
Alignment explanation
Indices: 35140749--35140797 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
35140739 TCTAATCTCT
*
35140749 ATTTTACCCCTAGTAAAATTTTGACA
1 ATTTTACCCCTAGAAAAATTTTGACA
*
35140775 ATTTTACCTC-AGAAAAATTTTGA
1 ATTTTACCCCTAGAAAAATTTTGA
35140798 GAAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAGAAAAATTTTGACA
Found at i:35150070 original size:40 final size:40
Alignment explanation
Indices: 35150015--35150217 Score: 307
Period size: 40 Copynumber: 5.1 Consensus size: 40
35150005 CATTCCAGAT
* **
35150015 AGAAGCTCATAAGAGCTAATCCAATTGAAACACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
35150055 AGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
35150095 AGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
35150135 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * * * *
35150175 AGAAGCACATAAGAGCTTATCTAACCAAAACACGCCGAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
35150215 AGA
1 AGA
35150218 GAGTATAACA
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.12
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
Found at i:35151916 original size:22 final size:23
Alignment explanation
Indices: 35151891--35151933 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35151881 TAAAAATGTG
*
35151891 AAAAAAT-AAAATATTTAAAACT
1 AAAAAATAAAAATAATTAAAACT
35151913 AAAAAATAAAAATAATTAAAA
1 AAAAAATAAAAATAATTAAAA
35151934 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAATAAAAATAATTAAAACT
Found at i:35159935 original size:161 final size:161
Alignment explanation
Indices: 35159665--35160000 Score: 458
Period size: 161 Copynumber: 2.1 Consensus size: 161
35159655 TGCAATAGCT
* * *
35159665 GAGCTATAATCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTATTCACTAT
1 GAGCTATAGTCTTATATATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTATTCACTAT
* * * *
35159730 CCTGATGGACTCTTTATGCTGCCACAACCAAGCTATGGTCTTACACATGTAACCCTATATTTGAT
66 CCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATATTTAAT
* *
35159795 GTCTCAATGAACTTTATTGGTTGTCATAGGC
131 GTCCCAATGAACTCTATTGGTTGTCATAGGC
* * * * *
35159826 GAGCTATGGTCTTATATATGTAACCCCATGTTTAATGTCTTGGTGGATTACCTCG-AGTTTACTG
1 GAGCTATAGTCTTATATATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTA-TTCACTA
* * * * *
35159890 TCTTGATGGACTCCTTATGCTGCCATAACCGAGCTATGATCTTACATATGTAACCCCATGTTTAA
65 TCCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATATTTAA
* * *
35159955 TTTCCCAATGGACTCTATTGGTTGTCATAGTC
130 TGTCCCAATGAACTCTATTGGTTGTCATAGGC
35159987 GAGCTATAGTCTTA
1 GAGCTATAGTCTTA
35160001 CACTTTTAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
160 1 0.01
161 150 0.99
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (161 bp):
GAGCTATAGTCTTATATATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTATTCACTAT
CCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATATTTAAT
GTCCCAATGAACTCTATTGGTTGTCATAGGC
Found at i:35162342 original size:16 final size:16
Alignment explanation
Indices: 35162321--35162358 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
35162311 TAGAATTGAG
*
35162321 TTAAAAAATTATTTAA
1 TTAAAAAATTAATTAA
35162337 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
35162353 TTAAAA
1 TTAAAA
35162359 TTAATTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:35162371 original size:14 final size:14
Alignment explanation
Indices: 35162325--35162364 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
35162315 ATTGAGTTAA
*
35162325 AAAATTATTTAATT
1 AAAATTAATTAATT
35162339 AAAAAATTAATTAATT
1 --AAAATTAATTAATT
35162355 AAAATTAATT
1 AAAATTAATT
35162365 TGATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:35164300 original size:19 final size:19
Alignment explanation
Indices: 35164276--35164315 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35164266 CTCAAAAGTG
35164276 AAAAGCAACAAGCAAA-CAA
1 AAAAGCAACAAG-AAAGCAA
*
35164295 AAAAGCCACAAGAAAGCAA
1 AAAAGCAACAAGAAAGCAA
35164314 AA
1 AA
35164316 TGCACACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.68, C:0.20, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAGCAACAAGAAAGCAA
Found at i:35167254 original size:7 final size:6
Alignment explanation
Indices: 35167226--35167250 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35167216 CTATTTTATT
35167226 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
35167251 ATTTTTCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:35168999 original size:115 final size:112
Alignment explanation
Indices: 35168702--35169026 Score: 445
Period size: 111 Copynumber: 2.9 Consensus size: 112
35168692 AAAATAAGCA
* * * * * *
35168702 TTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAATGACGTCGTTTCTCGAGCTTT
1 TTAGCGGC-TTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTT
* *
35168767 CGGGGATTTAGAGGCGTTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
65 CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
35168815 TTAGCGGCGTTTTGGG-AAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGCTTTCTGAGCTTTC
1 TTAGCGGCTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTC
* * *
35168879 GGGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAATGCTCGGGGTT
66 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
35168926 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGCT
1 TTAGCGGC-TTTTTGGGAAAGCGCCGC--AAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCT
* * *
35168991 TTCAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGC
63 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
35169027 AAAAAAACCT
Statistics
Matches: 186, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
111 91 0.49
112 13 0.07
113 17 0.09
115 65 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (112 bp):
TTAGCGGCTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTTTC
GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:35169042 original size:188 final size:185
Alignment explanation
Indices: 35168807--35169219 Score: 578
Period size: 188 Copynumber: 2.2 Consensus size: 185
35168797 CCGCTAATGC
* **
35168807 TCAGGGCTTTAGCGGCG-TTTTGGGAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGCTTTCT
1 TCAGGGATTTAGCGGCGTTTTTGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGCTTTCT
* * * *
35168871 GAGCTTTCGGGGATTTAGCGACGTTTTTAAG-AAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCA
66 GAGCTTTCAGGGATTTAGCGACGTTTTT-AGTAAAGCGCCGCTAATGCCCAGGGCTTTAGCGGCA
* *
35168935 TTTTTGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGCTT
130 TTTTTGGAAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
* * *
35168992 TCAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCTGTTTT
1 TCAGGGATTTAGCGGCGTTTTTGA-AAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGCTTT
* * *
35169057 CTGAGCTTTCAGGGATTTAGCGGCGTTTTTGGTAAAGTGCCGCTAATGCCCAGGGCTTTAGCGGC
64 CTGAGCTTTCAGGGATTTAGCGACGTTTTTAGTAAAGCGCCGCTAATGCCCAGGGCTTTAGCGGC
* *
35169122 GTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
129 ATTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
* * * *
35169179 TCGGGGATTTTGCAGCGTTTTTTGAAAAGCGCCGCTAAAAA
1 TCAGGGATTTAGCGGCG-TTTTTGAAAAGCGCCGCAAAAAA
35169220 TATTTTATCT
Statistics
Matches: 202, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
185 16 0.08
186 10 0.05
187 70 0.35
188 106 0.52
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (185 bp):
TCAGGGATTTAGCGGCGTTTTTGAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGCTTTCT
GAGCTTTCAGGGATTTAGCGACGTTTTTAGTAAAGCGCCGCTAATGCCCAGGGCTTTAGCGGCAT
TTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
Found at i:35169066 original size:73 final size:74
Alignment explanation
Indices: 35168925--35169099 Score: 271
Period size: 73 Copynumber: 2.4 Consensus size: 74
35168915 TGCTCGGGGT
* * *
35168925 TTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTTTAAGC
1 TTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGC
35168990 TTTCAGGGA
66 TTTCAGGGA
* * * *
35168999 TTTAGCGGCGTTTTTGATAAAGCGCCGC-AAAAAAACCTAAGCCCAACGGCGCTGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGC
35169063 TTTCAGGGA
66 TTTCAGGGA
*
35169072 TTTAGCGGCGTTTTTGGTAAAGTGCCGC
1 TTTAGCGGCGTTTTTGGTAAAGCGCCGC
35169100 TAATGCCCAG
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 67 0.73
74 25 0.27
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGC
TTTCAGGGA
Found at i:35169197 original size:114 final size:114
Alignment explanation
Indices: 35168993--35169216 Score: 351
Period size: 114 Copynumber: 2.0 Consensus size: 114
35168983 TTTAAGCTTT
* *
35168993 CAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCTGTTTTC
1 CAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTC
* * *
35169058 TGAGCTTTCAGGGATTTAGCGGCGTTTTTGGTAAAGTGCCGCTAATGCC
66 TGAGCTTTCAGGGATTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCC
*
35169107 CAGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
1 CAGGGATTTAGCGGCGTTTTT-GATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * *
35169171 CTGAGCTTTCGGGGATTTTGCAGCGTTTTTTGAAAAGCGCCGCTAA
65 CTGAGCTTTCAGGGATTTAGCAGCGTTTTTGGAAAAGCGCCGCTAA
35169217 AAATATTTTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 98 0.98
115 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
CAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTC
TGAGCTTTCAGGGATTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCC
Found at i:35169500 original size:14 final size:14
Alignment explanation
Indices: 35169459--35169500 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
35169449 AGTTCATATT
35169459 TTATGGTTTAGGGA
1 TTATGGTTTAGGGA
*
35169473 GTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGA
*
35169488 TTATGGATTAGGG
1 TTATGGTTTAGGG
35169501 GTTGGGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
TTATGGTTTAGGGA
Found at i:35169808 original size:7 final size:7
Alignment explanation
Indices: 35169798--35169846 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
35169788 GATTTAAGAT
35169798 TTAGGGG
1 TTAGGGG
35169805 TTAGGGG
1 TTAGGGG
35169812 TTTAGGGG
1 -TTAGGGG
**
35169820 TTAGATG
1 TTAGGGG
35169827 TTAGGGG
1 TTAGGGG
* *
35169834 TTAAGAG
1 TTAGGGG
35169841 TTAGGG
1 TTAGGG
35169847 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:35169817 original size:15 final size:15
Alignment explanation
Indices: 35169797--35169861 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
35169787 AGATTTAAGA
*
35169797 TTTAGGGGTTAGGGG
1 TTTAGGGGTTAGAGG
*
35169812 TTTAGGGGTTAGATG
1 TTTAGGGGTTAGAGG
35169827 -TTAGGGGTTA-AGAG
1 TTTAGGGGTTAGAG-G
*
35169841 -TTAGGGATTTA-AGG
1 TTTAGGG-GTTAGAGG
35169855 TTTAGGG
1 TTTAGGG
35169862 ATTCAGGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.42
15 24 0.56
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (15 bp):
TTTAGGGGTTAGAGG
Found at i:35170775 original size:146 final size:146
Alignment explanation
Indices: 35170510--35170975 Score: 786
Period size: 146 Copynumber: 3.2 Consensus size: 146
35170500 AAATAGCTTA
* * *
35170510 AAAAACGCCACAAAAAATAAATCAACTTAT-----AA-AAAAAA-TTTTATAATAGCAAAACGGC
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
35170568 GTCGTTTTGTTCAAAATGAAAAAAA-TTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
66 GTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
35170632 TAGCGGCGTTTTCTAT
131 TAGCGGCGTTTTCTAT
35170648 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
*
35170713 GTCGTTTTGTTTAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
66 GTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
35170778 TAGCGGCGTTTTCTAT
131 TAGCGGCGTTTTCTAT
*
35170794 AAAAACGCCGTAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
* * *
35170859 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGTTAAAGGTAAGCAA
66 GTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
35170924 TAGCGGCGTTTTCTAT
131 TAGCGGCGTTTTCTAT
* *
35170940 AAAAATGCTGCAAAAAATAAATCAATTTATAAAAAA
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAA
35170976 TTTCTCAAAA
Statistics
Matches: 308, Mismatches: 12, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
138 28 0.09
143 2 0.01
144 6 0.02
145 43 0.14
146 229 0.74
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (146 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
GTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGTGCCGCTAAAGGTAAGCAA
TAGCGGCGTTTTCTAT
Found at i:35174753 original size:43 final size:42
Alignment explanation
Indices: 35174719--35174903 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 42
35174709 GAATCGTACT
35174719 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCA-GTTC
* *
35174762 TTTAGTGGCGTTTGTGATAAAAGCGCAGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCA-GTTC
* *
35174805 TTTAGTGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCA-GTTC
* ** * **
35174848 TTTAGCGGCGTTT-TGTTTTTAAGCGCCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGATCA-GTTC
35174891 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
35174904 ATTTCTGTAA
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
42 2 0.02
43 127 0.98
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCAGTTC
Found at i:35174872 original size:86 final size:86
Alignment explanation
Indices: 35174719--35174903 Score: 264
Period size: 86 Copynumber: 2.2 Consensus size: 86
35174709 GAATCGTACT
* *
35174719 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGATAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAA
* **
35174784 GCGCAGCTAAAGATCATGTTC
66 GCGCAGCTAAAGAACATGACC
* * **
35174805 TTTAGTGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT-TGTTTTTA
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTG-ATAAA
*
35174869 AGCGCCGCTAAAGAACATGACC
65 AGCGCAGCTAAAGAACATGACC
35174891 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
35174904 ATTTCTGTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 2 0.02
86 85 0.98
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAA
GCGCAGCTAAAGAACATGACC
Found at i:35182650 original size:38 final size:38
Alignment explanation
Indices: 35182595--35182674 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
35182585 AATTGATTTG
*
35182595 TATATGAAGATAAGTTGCTGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
*
35182633 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
35182671 TATA
1 TATA
35182675 CATTGCTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (38 bp):
TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
Found at i:35182750 original size:130 final size:130
Alignment explanation
Indices: 35182517--35182766 Score: 455
Period size: 130 Copynumber: 1.9 Consensus size: 130
35182507 ATTTTATACA
*
35182517 TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATATATTAT
1 TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
* *
35182582 CGAAATTGATTTGTATATGAAGATAAGTTGCTGAATTGATTCGTATATAATTATATGAAGATAGG
66 CGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCATATATAATTATATGAAGATAGG
*
35182647 TTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
1 TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
*
35182712 CGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCATATATGATTATA
66 CGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCATATATAATTATA
35182767 CATTACTAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 115 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (130 bp):
TTGCCGAATTAATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTAT
CGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCATATATAATTATATGAAGATAGG
Found at i:35183190 original size:276 final size:275
Alignment explanation
Indices: 35182553--35183192 Score: 854
Period size: 276 Copynumber: 2.3 Consensus size: 275
35182543 TACATTGCTG
* * ** *
35182553 AAATTTATTTGTATATGGTTATA-TATTATCGAAATTGATTTGTATATGAAGATAAGTTGCTGAA
1 AAATTGATTTGTATATGATTATACT-TTGCCGAAATTGATTTGTATATGAAGATAAGTTGCCGAA
* *
35182617 TTGATTCGTATATAATTATATGAAGATAGGTTGCCGAATTGATTCGTATATAATTATACATTGCT
65 TTGATTCG--------TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTACT
* *
35182682 GAAATTTATTTGTATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGCCGAA
122 GAAATTTATTTGCATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGCCAAA
* * * *
35182747 TTGATTCATATATGATTATACATTACTAAAATTTATTTGTATATGGTTATATATTATCGAAATTT
187 TTGATTCATATATAATTATACATTACTAAAATTTACTTGTATATGGTTATACATTATCGAAATTG
35182812 ATTTGTATATGAAGATAAGTTGCC
252 ATTTGTATATGAAGATAAGTTGCC
* * * * *** **
35182836 AAATTGATTCGTATATAATTATACATTGCTGAAAGTT-ATTTGTATATGGTTATACA-TTATCGA
1 AAATTGATTTGTATATGATTATACTTTGCCGAAA-TTGATTTGTATATGAAGATA-AGTTGCCG-
* * *
35182899 AATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCGTGTATGATTATACATTACTGAAATT
63 AATTGATTCGTATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTACTGAAATT
* *
35182964 TATTTGCATATGGTTATATATTATCGAAATTTATTTGTATATGAAGATAAGTTGCCAAATTGATT
128 TATTTGCATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGCCAAATTGATT
* * *
35183029 CGTATATAATTATACATTGCTGAAATTTACTTGTATATGGTTATACATTATCGAAATTGATTTGT
193 CATATATAATTATACATTACTAAAATTTACTTGTATATGGTTATACATTATCGAAATTGATTTGT
*
35183094 ATATGAAGATAAGTTGTC
258 ATATGAAGATAAGTTGCC
*
35183112 GAATTGATTTGTATATGATTATACTTTGCCGAAATTGATTTGTATATGAAGATAAGTTGCCGAAT
1 AAATTGATTTGTATATGATTATACTTTGCCGAAATTGATTTGTATATGAAGATAAGTTGCCGAA-
35183177 TTGATTCGTATATGAA
65 TTGATTCGTATATGAA
35183193 TATATATATT
Statistics
Matches: 308, Mismatches: 42, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
275 5 0.02
276 249 0.81
283 42 0.14
284 12 0.04
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (275 bp):
AAATTGATTTGTATATGATTATACTTTGCCGAAATTGATTTGTATATGAAGATAAGTTGCCGAAT
TGATTCGTATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTACTGAAATTTAT
TTGCATATGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGCCAAATTGATTCAT
ATATAATTATACATTACTAAAATTTACTTGTATATGGTTATACATTATCGAAATTGATTTGTATA
TGAAGATAAGTTGCC
Found at i:35183192 original size:92 final size:92
Alignment explanation
Indices: 35182633--35183159 Score: 847
Period size: 92 Copynumber: 5.7 Consensus size: 92
35182623 CGTATATAAT
*
35182633 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
35182698 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* * * *
35182725 TATATGAAGATAAGTTGCCGAATTGATTCATATATGATTATACATTACTAAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
* *
35182790 TGGTTATATATTATCGAAATTTATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* *
35182817 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAAGTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
35182882 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* * * *
35182909 TATATGAAGATAAGTTGCCGAATTGATTCGTGTATGATTATACATTACTGAAATTTATTTGCATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
* *
35182974 TGGTTATATATTATCGAAATTTATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* *
35183001 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTACTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
35183066 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* * * * * *
35183093 TATATGAAGATAAGTTGTCGAATTGATTTGTATATGATTATACTTTGCCGAAATTGATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
35183158 TG
66 TG
35183160 AAGATAAGTT
Statistics
Matches: 396, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 396 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (92 bp):
TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
TGGTTATACATTATCGAAATTGATTTG
Found at i:35189382 original size:31 final size:31
Alignment explanation
Indices: 35189347--35189855 Score: 285
Period size: 31 Copynumber: 16.6 Consensus size: 31
35189337 TACATTGCTA
* * *
35189347 AAATTTATTTGTACATGGTTATATATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
** **
35189378 AAATTGATTTGTATATGAAGATA-AGTTGCCG
1 AAATTGATTTGTATATGATTATATA-TTATCG
* * * *
35189409 -AATTGATTCGTATATAATTATACATT-GCTG
1 AAATTGATTTGTATATGATTATATATTATC-G
* *
35189439 AAATTTATTTGTATATGGTTATATATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
** * *
35189470 AAATTGATTTGTATATGAAGATA-AGTCA-CC
1 AAATTGATTTGTATATGATTATATA-TTATCG
* * * * * *
35189500 AAATTGATTCGTCTATAATTATACATT-GCTA
1 AAATTGATTTGTATATGATTATATATTATC-G
* * *
35189531 AAATTTATTTGTATATGGTTATACATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
* ** **
35189562 AAATTGATTTGTATATAAAGATA-AGTTGCCG
1 AAATTGATTTGTATATGATTATATA-TTATCG
* *
35189593 -AATTGATTCGTATATGATTATACATTA-CTG
1 AAATTGATTTGTATATGATTATATATTATC-G
* * *
35189623 GAATTTATTTGTATATGGTTATATATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
** * *
35189654 AAATTGATTTGTATATGAAGATA-AGTT-GCC
1 AAATTGATTTGTATATGATTATATA-TTATCG
* * * *
35189684 AAATTGATTTGTATGTAATTATACATT-GCTG
1 AAATTGATTTGTATATGATTATATATTATC-G
* * *
35189715 AAATTTATTTGTATATGGTTATACATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
* ** **
35189746 AAATTGATTTGTATATAAAGATA-AGTTGCCG
1 AAATTGATTTGTATATGATTATATA-TTATCG
* * *
35189777 -AATTGATTCGTATATGATTATACT-TT-GCTA
1 AAATTGATTTGTATATGATTATA-TATTATC-G
* * *
35189807 AAATTTATTTGTATATGGTTATACATTATCG
1 AAATTGATTTGTATATGATTATATATTATCG
35189838 AAATTGATTTGTATATGA
1 AAATTGATTTGTATATGA
35189856 AGATAACTTG
Statistics
Matches: 360, Mismatches: 92, Indels: 52
0.71 0.18 0.10
Matches are distributed among these distances:
29 3 0.01
30 112 0.31
31 240 0.67
32 5 0.01
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (31 bp):
AAATTGATTTGTATATGATTATATATTATCG
Found at i:35189418 original size:92 final size:92
Alignment explanation
Indices: 35189316--35189898 Score: 923
Period size: 92 Copynumber: 6.3 Consensus size: 92
35189306 ATACTTTTCT
* * *
35189316 GAATTAATTCGTATATAATTATACATTGCTAAAATTTATTTGTACATGGTTATATATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
35189381 TTGATTTGTATATGAAGATAAGTTGCC
66 TTGATTTGTATATGAAGATAAGTTGCC
* *
35189408 GAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATATGGTTATATATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
**
35189473 TTGATTTGTATATGAAGATAAGTCACC
66 TTGATTTGTATATGAAGATAAGTTGCC
* *
35189500 AAATTGATTCGTCTATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
*
35189565 TTGATTTGTATATAAAGATAAGTTGCC
66 TTGATTTGTATATGAAGATAAGTTGCC
* * ** *
35189592 GAATTGATTCGTATATGATTATACATTACTGGAATTTATTTGTATATGGTTATATATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
35189657 TTGATTTGTATATGAAGATAAGTTGCC
66 TTGATTTGTATATGAAGATAAGTTGCC
* * * *
35189684 AAATTGATTTGTATGTAATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
*
35189749 TTGATTTGTATATAAAGATAAGTTGCC
66 TTGATTTGTATATGAAGATAAGTTGCC
* *
35189776 GAATTGATTCGTATATGATTATACTTTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
1 GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
*
35189841 TTGATTTGTATATGAAGATAACTTGCC
66 TTGATTTGTATATGAAGATAAGTTGCC
*
35189868 GAATTTGATTCGTATATGAATATATATATTG
1 GAA-TTGATTCGTATAT-AAT-TATACATTG
35189899 TTGAATTGAT
Statistics
Matches: 449, Mismatches: 39, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
92 427 0.95
93 13 0.03
94 2 0.00
95 7 0.02
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (92 bp):
GAATTGATTCGTATATAATTATACATTGCTAAAATTTATTTGTATATGGTTATACATTATCGAAA
TTGATTTGTATATGAAGATAAGTTGCC
Found at i:35199128 original size:27 final size:27
Alignment explanation
Indices: 35199098--35199170 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
35199088 TGTCTTGAAT
35199098 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
35199125 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
35199157 TTGTTGGATATTGA
1 TTGTTAGATATTGA
35199171 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:35199150 original size:32 final size:32
Alignment explanation
Indices: 35199111--35199171 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
35199101 TTAGATATTG
35199111 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
35199143 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
35199172 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:35200463 original size:22 final size:20
Alignment explanation
Indices: 35200420--35200458 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35200410 CAATTTAAAA
35200420 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
35200440 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
35200459 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:35200598 original size:14 final size:15
Alignment explanation
Indices: 35200579--35200616 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
35200569 CTAGAAAAGT
35200579 AAATCATTTTCCA-A
1 AAATCATTTTCCAGA
*
35200593 AAATCATTTTTCAGA
1 AAATCATTTTCCAGA
35200608 AAA-CATTTT
1 AAATCATTTT
35200617 ACTAGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (15 bp):
AAATCATTTTCCAGA
Found at i:35209488 original size:50 final size:52
Alignment explanation
Indices: 35209379--35209493 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 52
35209369 TTAATGTAAT
* * *
35209379 ACTTAATTTAATGATGCAGACTTAAACTAACATGGGAGTTACATAATGCATG
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
* * * * *
35209431 TCATTATTT-ATGATGCATACTT-AACTAGCATTGAAGTTACATAATGCATA
1 ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
*
35209481 ACTTTATTAAATG
1 ACTTTATTTAATG
35209494 CAAAACCCAC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
50 30 0.59
51 15 0.29
52 6 0.12
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (52 bp):
ACTTTATTTAATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATA
Found at i:35216678 original size:50 final size:48
Alignment explanation
Indices: 35216599--35216787 Score: 186
Period size: 51 Copynumber: 3.8 Consensus size: 48
35216589 AAACTAAAAG
* *
35216599 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTACCGGAA
1 TGATAGGTCATATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-G-A
*
35216648 TGATAGGTCATATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-A
1 TGATAGGTCATATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
* * * *
35216695 -GATAGTTTCTATCACGTATGTAGTACTATGTGCAGGCTACTACATGTATCAGA
1 TGATAG-GTC-AT-A--TGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA
* *
35216748 TGGTAATGGTCAAATGTGTAGTACTATGTGCAGGCTACTA
1 TGAT-A-GGTCATATGTGTAGTACTATGTGCAGGCTACTA
35216788 TGTGAATCGG
Statistics
Matches: 117, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
46 5 0.04
47 3 0.03
48 2 0.02
49 5 0.04
50 38 0.32
51 54 0.46
52 1 0.01
53 2 0.02
54 3 0.03
55 3 0.03
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (48 bp):
TGATAGGTCATATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
Found at i:35216859 original size:45 final size:45
Alignment explanation
Indices: 35216795--35216886 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
35216785 CTATGTGAAT
*
35216795 CGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCAC
1 CGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
*
35216840 CGGACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 CGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
35216885 CG
1 CG
35216887 AGTATCTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
CGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
Found at i:35222236 original size:101 final size:101
Alignment explanation
Indices: 35222099--35222292 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 101
35222089 AAAGTGATGG
* *
35222099 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAT-G-ATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGG-ATGGAATA-GTCACATGTGTAGT
* *
35222162 ACTATGTGCAGGCTATTATGCGTACCGGATAGTTTCGA
64 ACTATGTGCAGGCTACTATGCGAACCGGATAGTTTCGA
*
35222200 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATAGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGG-AATAGTCACATGTGTAGTA
*
35222265 CTATGTGCAGGCTACTATGTGAACCGGA
65 CTATGTGCAGGCTACTATGCGAACCGGA
35222293 CATCATTGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
100 2 0.02
101 40 0.48
102 39 0.46
103 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGAATAGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGATAGTTTCGA
Found at i:35222242 original size:51 final size:51
Alignment explanation
Indices: 35222098--35222281 Score: 230
Period size: 51 Copynumber: 3.6 Consensus size: 51
35222088 GAAAGTGATG
*
35222098 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA-A-TGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATA
* * * * * * *
35222147 GGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCGTACCGGATAGT-TTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATA
* * *
35222198 GATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATA
35222250 GTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTA
35222282 TGTGAACCGG
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 39 0.35
51 69 0.62
52 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATA
Found at i:35227971 original size:124 final size:124
Alignment explanation
Indices: 35227751--35227999 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
35227741 GGTTTCTTTA
35227751 CTTGACAATCTCAATGGAGCATACACTAGAATGTCCGGTATTACATCATGCCATGATTTGAATGT
1 CTTGACAATCTCAATGGAGCATACACTAGAATGTCCGGTATTACATCATGCCATGATTTGAATGT
*
35227816 AACTCACTCAAGAAGCTAAGGCTTTTAACTAAAAAGATAGATGGACCACACAACTATCC
66 AACTCACTCAAGAAGCTAAGGCTTTTAACTAAAAAGATAGATGGACCAAACAACTATCC
35227875 CTTGACAATCTCAATGGAGCATACACTAGAATGTCCGGTATTACATCATGCCATGATTTGAATGT
1 CTTGACAATCTCAATGGAGCATACACTAGAATGTCCGGTATTACATCATGCCATGATTTGAATGT
35227940 AACTCACTCAAGAAGCTAAGGCTTTTAACTAAAAAGATAGATGGACCAAACAACTATCC
66 AACTCACTCAAGAAGCTAAGGCTTTTAACTAAAAAGATAGATGGACCAAACAACTATCC
35227999 C
1 C
35228000 CTTAGCTAAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (124 bp):
CTTGACAATCTCAATGGAGCATACACTAGAATGTCCGGTATTACATCATGCCATGATTTGAATGT
AACTCACTCAAGAAGCTAAGGCTTTTAACTAAAAAGATAGATGGACCAAACAACTATCC
Found at i:35248825 original size:16 final size:16
Alignment explanation
Indices: 35248804--35248838 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35248794 ATTAGTAATT
*
35248804 TTTTTTATATTTCTTA
1 TTTTTTATATTTCATA
*
35248820 TTTTTTATTTTTCATA
1 TTTTTTATATTTCATA
35248836 TTT
1 TTT
35248839 AATTAGTTTT
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:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTCATA
Found at i:35254807 original size:44 final size:44
Alignment explanation
Indices: 35254496--35254808 Score: 141
Period size: 44 Copynumber: 7.1 Consensus size: 44
35254486 AGACACTAGC
* * *
35254496 CTTGCCTCCCTGGGTTACAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGCGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * * *** * * * * * *
35254540 CTTGTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACA-CTAG-C
1 CTTGCCTCCCTGCGTTG-CAGCGGAGCAGGTTAAAAATAGC-AGAT
* *
35254584 CTTGCCTCCCTGGGTTGCAGCGGAGTAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * *** * * * ** * * *
35254628 CTTACCTTCCTGCACCGACAGCGAAGTAGATCGAAGATACCAG-C
1 CTTGCCTCCCTGCGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* *
35254672 CTTACCTCCCTAG-GTTGCAGCGGAGCAGGTTAAAAATAGCATAT
1 CTTGCCTCCCT-GCGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * *** * * * ** * *
35254716 CTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGATACCAG-T
1 CTTGCCTCCCTGCGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
*
35254760 CTTGCCTCCCTGCGTTGCAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
35254804 CTTGC
1 CTTGC
35254809 TTCCTACTCC
Statistics
Matches: 178, Mismatches: 81, Indels: 20
0.64 0.29 0.07
Matches are distributed among these distances:
43 51 0.29
44 72 0.40
45 55 0.31
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGCGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:35255046 original size:88 final size:88
Alignment explanation
Indices: 35254350--35255023 Score: 938
Period size: 88 Copynumber: 7.7 Consensus size: 88
35254340 AGCAGTTCAG
* *
35254350 TAAAAATAGCAGATCTTGCCGTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
35254415 CCCTAGGTTGCAGCGGAGTAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * * *
35254438 TAAAAATAACAGATCTTGTCTTCCTGCACCAACAACGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
35254503 CCCTGGGTTACAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
35254526 TAAAAATAACAGATCTTGTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
35254591 CCCTGGGTTGCAGCGGAGTAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
35254614 TAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGTAGATCGAAGATACCAGCCTTACCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
35254679 CCCTAGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
35254702 TAAAAATAGCATATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGATACCAGTCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
35254767 CCCTGCGTTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
35254790 TAAAAATAGCAGATCTTG-CTTCCTACTCCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
35254854 CCTTGGGTTGCAACGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
*
35254877 TAAAAATAGCAAATCTTGCCTT-CTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
1 TAAAAATAGCAGATCTTGCCTTCCT-GCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
35254941 TCCCTGGGTTGCAGTGGAGCAAGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* * * * * *
35254965 TAAAAATAACATATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
35255024 CTATCTCCCT
Statistics
Matches: 522, Mismatches: 61, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 79 0.15
88 441 0.84
89 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:35255094 original size:263 final size:261
Alignment explanation
Indices: 35254350--35255046 Score: 889
Period size: 263 Copynumber: 2.6 Consensus size: 261
35254340 AGCAGTTCAG
*
35254350 TAAAAATAGCAGATCTTGCCGTCCTA-CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
1 TAAAAATAGCAGATCTTGCC-TTCTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * * * *
35254414 TCCCTAGGTTGCAGCGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGCACCAACAACGAAGC
65 TCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCGAAGC
* * * ** *
35254479 AGATCAAAGACACTAGCCTTGCCTCCCTGGGTTA-CAGCGGAGCAGGTTAAAAATAACAGATCTT
130 AGATCGAAGACACCAGCCTTGCCTCCCT-GG-TAGCAGTGGAGCAGGTT-AAAATTGCAGATCCT
* * * * *
35254543 GTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGA
192 -TCTTCCTGCTCCGACAGCGAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGA
*
35254608 GTAGGT
256 GCAGGT
* * * *
35254614 TAAAAATAGCAGATCTTACCTTCCT-GCACCGACAGCGAAGTAGATCGAAGATACCAGCCTTACC
1 TAAAAATAGCAGATCTTGCCTT-CTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * *
35254678 TCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCATATCTTGCCTTCCTACACCGACAGCGAAAC
65 TCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCGAAGC
* * * *
35254743 AGATCGAAGATACCAGTCTTGCCTCCCTGCGTTGCAGTGGAGCAGGTTAAAAATAGCAGAT-CTT
130 AGATCGAAGACACCAGCCTTGCCTCCCTG-GTAGCAGTGGAGCAGGTT-AAAATTGCAGATCCTT
* * *
35254807 GCTTCCTACTCCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAACGGAG
193 -CTTCCTGCTCCGACAGCGAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGAG
35254872 CAGGT
257 CAGGT
*
35254877 TAAAAATAGCAAATCTTGCCTTCTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * *
35254942 CCCTGGGTTGCAGTGGAGCAAGTTAAAAATAACATATCTTGCCTTCCTGTACCGGCAGCGAAGCA
66 CCCTAGGTTGCAGCGGAGCAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCGAAGCA
* * * **
35255007 GATCGATGACCCCAGCCCTATCTCCCTGGTCAGCAGTGGA
131 GATCGAAGACACCAGCCTTGCCTCCCTGGT-AGCAGTGGA
35255047 ATTGGTTGAA
Statistics
Matches: 375, Mismatches: 51, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
262 5 0.01
263 207 0.55
264 163 0.43
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (261 bp):
TAAAAATAGCAGATCTTGCCTTCTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAGCAGGTTAAAAATAACATATCTTGCCTTCCTGCACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTGGTAGCAGTGGAGCAGGTTAAAATTGCAGATCCTTCTT
CCTGCTCCGACAGCGAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAACGGAGCAGG
T
Found at i:35255138 original size:351 final size:351
Alignment explanation
Indices: 35254350--35255047 Score: 842
Period size: 351 Copynumber: 2.0 Consensus size: 351
35254340 AGCAGTTCAG
* ** * * * ** *
35254350 TAAAAATAGCAGATCTTGCCGTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCATATCTTGCCCCCCTACA-CGACAGCGAAACAGATCGAAAATACCAATCTTACCT
* ** * * *
35254415 CCCTAGGTTGCAGCGGAGTAGGTTAAAAATAACAGATCTTGTCTTCCTGCACCAACAACGAAGCA
65 CCCTAAGCAGCAGTGGAGCAGGTTAAAAATAACAGATCTTGTCTTCCTACACCAACAACGAAGCA
* * * *
35254480 GATCAAAGACACTAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTAAAAATAACAGATCTTGT
130 GATCAAAGACACCAGCCTTGCCTCCCTGGGTTACAACGGAGCAGGTTAAAAATAACAAATCTTGC
* * *
35254545 CTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGT
195 CTTCTAGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGC
* * * * *
35254610 AGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGTAGATCGAAGATACCAGCCTT
260 AAGTTAAAAATAACAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCCT
* *
35254675 ACCTCCCTAGGTTGCAGCGGAGCAGGT
325 ACCTCCCTAGGTAGCAGCGGAACAGGT
** * * *
35254702 TAAAAATAGCATATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGATACCAGTCTTGCCT
1 TAAAAATAGCATATCTTGCCCCCCTACA-CGACAGCGAAACAGATCGAAAATACCAATCTTACCT
** ** * * * * *
35254767 CCCTGCGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTG-CTTCCTACTCCGACAGCGAAGTA
65 CCCTAAGCAGCAGTGGAGCAGGTTAAAAATAACAGATCTTGTCTTCCTACACCAACAACGAAGCA
* * * *
35254831 GATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAACGGAGCAGGTTAAAAATAGCAAATCTTGC
130 GATCAAAGACACCAGCCTTGCCTCCCTGGGTTACAACGGAGCAGGTTAAAAATAACAAATCTTGC
* *
35254896 CTTCTAGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGC
195 CTTCTAGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGC
* * * * * *
35254961 AAGTTAAAAATAACATATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGATGACCCCAGCCCT
260 AAGTTAAAAATAACAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCCT
* *
35255026 ATCTCCCT-GGTCAGCAGTGGAA
325 ACCTCCCTAGGT-AGCAGCGGAA
35255048 TTGGTTGAAG
Statistics
Matches: 302, Mismatches: 43, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
350 3 0.01
351 203 0.67
352 96 0.32
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (351 bp):
TAAAAATAGCATATCTTGCCCCCCTACACGACAGCGAAACAGATCGAAAATACCAATCTTACCTC
CCTAAGCAGCAGTGGAGCAGGTTAAAAATAACAGATCTTGTCTTCCTACACCAACAACGAAGCAG
ATCAAAGACACCAGCCTTGCCTCCCTGGGTTACAACGGAGCAGGTTAAAAATAACAAATCTTGCC
TTCTAGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCA
AGTTAAAAATAACAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCCTA
CCTCCCTAGGTAGCAGCGGAACAGGT
Found at i:35255161 original size:131 final size:131
Alignment explanation
Indices: 35255003--35255244 Score: 344
Period size: 131 Copynumber: 1.8 Consensus size: 131
35254993 CCGGCAGCGA
* * *
35255003 AGCAGATCGATGACCCCAGCCCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTGAATC
1 AGCAGATCGAAGACCCCAGCCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
* *
35255068 CTATCC-CCCCG-GTCAGCAGTGAAGTAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAG
66 CTA-CCTCCCCGAG-CAGCAGTGAAGTAGGTTGAAAATAACAGATCTTATCTCCCTAAGCAGTAG
35255131 TGG
129 TGG
* * **
35255134 AGCAGATCGAAGTCCCCAGCCTTATCTCCCTAGTCAGTGGTGGAATAGGTTGAAGATTGTGAATC
1 AGCAGATCGAAGACCCCAGCCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
* * *
35255199 TTACCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTT
66 CTACCTCCCCGAGCAGCAGTGAAGTAGGTTGAAAATAACAGATCTT
35255245 GCCTTCCTGT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
130 2 0.02
131 94 0.97
132 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (131 bp):
AGCAGATCGAAGACCCCAGCCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
CTACCTCCCCGAGCAGCAGTGAAGTAGGTTGAAAATAACAGATCTTATCTCCCTAAGCAGTAGTG
G
Found at i:35255727 original size:44 final size:44
Alignment explanation
Indices: 35255632--35255733 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
35255622 AGATGGCGAC
* * *
35255632 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAATAA
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAACAA
* * *
35255676 TCCTATCTCCCTGAGGTTACAGCGGAGCGGATTAAA-ATAACAGA
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAACA-A
*
35255720 TCTTATCTCTCTGA
1 TCTTATCTCCCTGA
35255734 AGTTGCAGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.06
44 46 0.94
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAACAA
Found at i:35257582 original size:16 final size:16
Alignment explanation
Indices: 35257561--35257595 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35257551 ATTAGTAATT
*
35257561 TTTTTTATATTTCTTA
1 TTTTTTATATTTCATA
*
35257577 TTTTTTATTTTTCATA
1 TTTTTTATATTTCATA
35257593 TTT
1 TTT
35257596 AATTATTTTT
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:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTCATA
Found at i:35257601 original size:24 final size:23
Alignment explanation
Indices: 35257561--35257607 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
35257551 ATTAGTAATT
* *
35257561 TTTTTTATATTTCTTATTTTTTA
1 TTTTTCATATTTATTATTTTTTA
35257584 TTTTTCATATTTAATTATTTTTTA
1 TTTTTCATATTT-ATTATTTTTTA
35257608 AATCTATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTCATATTTATTATTTTTTA
Found at i:35257702 original size:20 final size:19
Alignment explanation
Indices: 35257672--35257718 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
35257662 GCATATTTAT
*
35257672 TTTTTTAATATAATGTAATTA
1 TTTTTT-ATAT-ATGGAATTA
35257693 -TTTTT-TATATGGAATTA
1 TTTTTTATATATGGAATTA
35257710 TTTTTTATA
1 TTTTTTATA
35257719 ATCTATACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 2 0.09
20 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTTTATATATGGAATTA
Found at i:35258736 original size:14 final size:15
Alignment explanation
Indices: 35258714--35258790 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
35258704 CAATCAAACA
35258714 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
35258728 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
35258743 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
35258763 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
35258777 AC-GAAAAACATTTT
1 CCAGAAAATCATTTT
35258791 ACTAGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.02
14 24 0.48
15 11 0.22
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:35258755 original size:20 final size:20
Alignment explanation
Indices: 35258730--35258769 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35258720 AATATTTTCC
*
35258730 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
35258750 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
35258770 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:35258775 original size:34 final size:34
Alignment explanation
Indices: 35258718--35258783 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
35258708 CAAACACCAG
*
35258718 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
35258753 AAAACATTTTCCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
35258784 ACATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:35268224 original size:20 final size:20
Alignment explanation
Indices: 35268196--35268236 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
35268186 ATTTTTTTAA
35268196 CTAAACCATTTGAATTAAAT
1 CTAAACCATTTGAATTAAAT
* *
35268216 CTAAGCCATTTTAATTAAAT
1 CTAAACCATTTGAATTAAAT
35268236 C
1 C
35268237 AAGAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAAACCATTTGAATTAAAT
Found at i:35268969 original size:31 final size:31
Alignment explanation
Indices: 35268934--35268995 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
35268924 TTATTACGAG
35268934 TTTAATTACTATTCATTTACCTAATCATGTC
1 TTTAATTACTATTCATTTACCTAATCATGTC
*
35268965 TTTAATTACTATTCATTTATCTAATCATGTC
1 TTTAATTACTATTCATTTACCTAATCATGTC
35268996 ATGATGTCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTAATTACTATTCATTTACCTAATCATGTC
Found at i:35272143 original size:22 final size:22
Alignment explanation
Indices: 35272109--35272152 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
35272099 TAGATTTATG
* *
35272109 AAAATTTATTATAAAAATAATT
1 AAAATTCAATATAAAAATAATT
**
35272131 AAAATTCAATATATTAATAATT
1 AAAATTCAATATAAAAATAATT
35272153 TAAGTGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTCAATATAAAAATAATT
Found at i:35275889 original size:28 final size:29
Alignment explanation
Indices: 35275835--35275889 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
35275825 ATGTTTTAAA
*
35275835 AATATTTACAGAAAAAGACAGTTAATTTC
1 AATATTTACAGAAAAAGACAGTCAATTTC
*
35275864 AATATTTA-A-AAAAAGGATAGTCAATT
1 AATATTTACAGAAAAA-GACAGTCAATT
35275890 ATTGCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 10 0.43
29 8 0.35
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (29 bp):
AATATTTACAGAAAAAGACAGTCAATTTC
Found at i:35280566 original size:21 final size:21
Alignment explanation
Indices: 35280540--35280579 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35280530 TAAACGTACC
35280540 AAGCATTGATTAGTTCAAACA
1 AAGCATTGATTAGTTCAAACA
*
35280561 AAGCATTTATTAGTTCAAA
1 AAGCATTGATTAGTTCAAA
35280580 GAGTGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
AAGCATTGATTAGTTCAAACA
Found at i:35281490 original size:17 final size:17
Alignment explanation
Indices: 35281468--35281519 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
35281458 GGCAACTTGC
35281468 GAGCTCTCAAGCTTGAT
1 GAGCTCTCAAGCTTGAT
35281485 GAGCTCT-AAG---G-T
1 GAGCTCTCAAGCTTGAT
35281497 GAGCTCTCAAGCTTGAT
1 GAGCTCTCAAGCTTGAT
35281514 GAGCTC
1 GAGCTC
35281520 GCATTTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 8 0.27
13 4 0.13
16 4 0.13
17 14 0.47
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (17 bp):
GAGCTCTCAAGCTTGAT
Found at i:35282181 original size:7 final size:7
Alignment explanation
Indices: 35282171--35282196 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35282161 AGAAAAAAAT
35282171 AATTTTA
1 AATTTTA
35282178 AATTTTA
1 AATTTTA
35282185 AATTTTA
1 AATTTTA
35282192 AATTT
1 AATTT
35282197 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:35283271 original size:24 final size:25
Alignment explanation
Indices: 35283239--35283285 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
35283229 AGATTAGTGG
*
35283239 CGACTCTATTTTTGTTTT-AAAAGT
1 CGACACTATTTTTGTTTTCAAAAGT
35283263 CGACACTATTTTTGTTTTCAAAA
1 CGACACTATTTTTGTTTTCAAAA
35283286 AGTGGTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (25 bp):
CGACACTATTTTTGTTTTCAAAAGT
Found at i:35285030 original size:144 final size:144
Alignment explanation
Indices: 35284770--35285047 Score: 470
Period size: 144 Copynumber: 1.9 Consensus size: 144
35284760 CTTCTCCAAA
35284770 AATTACTCACCACTAAAAGAGATAGTAGTTTCACCGAGGAGAGATGACATCTTAAAGTAGAAGTG
1 AATTACTCACCACTAAAAGAGATAGTAGTTTCACCGAGGAGAGATGACATCTTAAAGTAGAAGTG
35284835 GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCCGG
66 GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCCGG
35284900 ATGACATCTCTGAG
131 ATGACATCTCTGAG
* * * * * *
35284914 AATTACTCGCCACTAAAAGAGATAGTAGTTTTACTGAGGAGAGATGGCATTTTGGAAG-AGAAGT
1 AATTACTCACCACTAAAAGAGATAGTAGTTTCACCGAGGAGAGATGACATCTT-AAAGTAGAAGT
35284978 GGATGGCAATTCTTCAGAATCTTCTG-GAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCC
65 GGATGGCAATTCTTCAGAATCTTC-GAGAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCC
35285042 GGATGA
129 GGATGA
35285048 GGTCCTATAT
Statistics
Matches: 126, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
144 122 0.97
145 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (144 bp):
AATTACTCACCACTAAAAGAGATAGTAGTTTCACCGAGGAGAGATGACATCTTAAAGTAGAAGTG
GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCCGG
ATGACATCTCTGAG
Found at i:35294828 original size:45 final size:45
Alignment explanation
Indices: 35294757--35294874 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 45
35294747 CAGTGGAATG
*
35294757 AAGATAGCAAGTCTTATCTCCTTGAAGTTGCAATGGAACAGACTC
1 AAGATAGCAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTC
* * * ** *
35294802 AAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTG
1 AAGATAGCAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTC
* *
35294847 AAGATGGCAAATCTTA-CTCCCTGAAGTT
1 AAGATAGCAAGTCTTATCTCCCTGAAGTT
35294875 ACAGTGGAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 11 0.18
45 51 0.82
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (45 bp):
AAGATAGCAAGTCTTATCTCCCTGAAGTTGCAATGGAACAGACTC
Found at i:35295072 original size:45 final size:45
Alignment explanation
Indices: 35295012--35295130 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
35295002 GGATTAAAGT
* * * * **
35295012 CTTATCTCTCTGAAGTTGTAGTAGAGCAGACTGAAGAAAGCAAGT
1 CTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAACAAAGCAAAC
* * * * *
35295057 CTTGTCCCCCTGAAGTTGCAGTGGGGCAGACTGATCATAGCAAAC
1 CTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAACAAAGCAAAC
*
35295102 CTTATCTCCCTGAAGTTGCAGTAGAGCAG
1 CTTATCCCCCTGAAGTTGCAGTAGAGCAG
35295131 GTTGAAGTTA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (45 bp):
CTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAACAAAGCAAAC
Found at i:35310571 original size:14 final size:14
Alignment explanation
Indices: 35310552--35310578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35310542 GTGACCCAAC
35310552 CTCCTTAACACTAT
1 CTCCTTAACACTAT
35310566 CTCCTTAACACTA
1 CTCCTTAACACTA
35310579 CCTCATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (14 bp):
CTCCTTAACACTAT
Found at i:35310925 original size:17 final size:17
Alignment explanation
Indices: 35310900--35310955 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
35310890 AAATATAATA
*
35310900 AATCATAATAGTGTTTC
1 AATCCTAATAGTGTTTC
35310917 AATCCTAATA--GTTT-
1 AATCCTAATAGTGTTTC
35310931 --T--TAATAGTGTTTC
1 AATCCTAATAGTGTTTC
35310944 AATCCTAATAGT
1 AATCCTAATAGT
35310956 TTTGTCAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
10 5 0.16
12 5 0.16
15 5 0.16
17 16 0.52
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
AATCCTAATAGTGTTTC
Found at i:35310925 original size:27 final size:27
Alignment explanation
Indices: 35310895--35310953 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
35310885 ACTATAAATA
35310895 TAATAAATCATAATAGTGTTTCAATCC
1 TAATAAATCATAATAGTGTTTCAATCC
** **
35310922 TAATAGTTTTTAATAGTGTTTCAATCC
1 TAATAAATCATAATAGTGTTTCAATCC
35310949 TAATA
1 TAATA
35310954 GTTTTGTCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (27 bp):
TAATAAATCATAATAGTGTTTCAATCC
Found at i:35310954 original size:27 final size:27
Alignment explanation
Indices: 35310905--35310958 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
35310895 TAATAAATCA
35310905 TAATAGTGTTTCAATCCTAATAGTTTT
1 TAATAGTGTTTCAATCCTAATAGTTTT
35310932 TAATAGTGTTTCAATCCTAATAGTTTT
1 TAATAGTGTTTCAATCCTAATAGTTTT
35310959 GTCAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (27 bp):
TAATAGTGTTTCAATCCTAATAGTTTT
Found at i:35313641 original size:16 final size:17
Alignment explanation
Indices: 35313602--35313634 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35313592 AATAACCATT
*
35313602 CAATTTACAATTATATC
1 CAATTCACAATTATATC
35313619 CAATTCACAATT-TATC
1 CAATTCACAATTATATC
35313635 ATATTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (17 bp):
CAATTCACAATTATATC
Found at i:35319325 original size:24 final size:24
Alignment explanation
Indices: 35319279--35319325 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
35319269 GCTTGCATTA
* *
35319279 ACACACATTCTAATCCACTAAATG
1 ACACACATTCTAAACAACTAAATG
35319303 ACACATCATTCTAAACAAC-AAAT
1 ACACA-CATTCTAAACAACTAAAT
35319326 TCTTTCCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (24 bp):
ACACACATTCTAAACAACTAAATG
Found at i:35320517 original size:29 final size:29
Alignment explanation
Indices: 35320470--35320527 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
35320460 CACGCCCGTA
35320470 TGGCAACCCCACACACCCGTTTGCATACC
1 TGGCAACCCCACACACCCGTTTGCATACC
* * *
35320499 TGGCAACCCCATACGCCCGTTTGTATACC
1 TGGCAACCCCACACACCCGTTTGCATACC
35320528 CGTGTACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.21
Consensus pattern (29 bp):
TGGCAACCCCACACACCCGTTTGCATACC
Found at i:35322714 original size:16 final size:16
Alignment explanation
Indices: 35322662--35322714 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35322652 TGAACATAGC
*
35322662 TATTCTTAAACAATAGT
1 TATTC-TAAACAATAAT
* * *
35322679 TGTTCTAAATAATAAC
1 TATTCTAAACAATAAT
*
35322695 TATTCTAAACAACAAT
1 TATTCTAAACAATAAT
35322711 TATT
1 TATT
35322715 GCTCTGGAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (16 bp):
TATTCTAAACAATAAT
Found at i:35328530 original size:22 final size:20
Alignment explanation
Indices: 35328494--35328552 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
35328484 GGCCCGGCCT
35328494 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
35328516 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
35328537 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
35328553 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:35328554 original size:11 final size:11
Alignment explanation
Indices: 35328534--35328632 Score: 56
Period size: 11 Copynumber: 9.6 Consensus size: 11
35328524 TAAAAATTAA
35328534 AAAAAGTATTTT
1 AAAAA-TATTTT
35328546 AAAAATATTTT
1 AAAAATATTTT
**
35328557 --AAA-ATTAA
1 AAAAATATTTT
35328565 AAAAATA-TTT
1 AAAAATATTTT
***
35328575 AAAAAT-TAAAA
1 AAAAATAT-TTT
35328586 AAAAAGTATTTT
1 AAAAA-TATTTT
35328598 AAAAATATTTT
1 AAAAATATTTT
35328609 --AAA-A-TTT
1 AAAAATATTTT
35328616 AAAAA-ATTTT
1 AAAAATATTTT
35328626 AAAAATA
1 AAAAATA
35328633 AATATATTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
7 3 0.05
8 4 0.06
9 10 0.15
10 18 0.27
11 19 0.29
12 11 0.17
13 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:35328570 original size:19 final size:19
Alignment explanation
Indices: 35328546--35328588 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
35328536 AAAGTATTTT
*
35328546 AAAAATATTTTAAAATTAA
1 AAAAATATTTAAAAATTAA
35328565 AAAAATATTTAAAAATTAA
1 AAAAATATTTAAAAATTAA
35328584 AAAAA
1 AAAAA
35328589 AAGTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATATTTAAAAATTAA
Found at i:35328594 original size:52 final size:49
Alignment explanation
Indices: 35328520--35328631 Score: 188
Period size: 52 Copynumber: 2.2 Consensus size: 49
35328510 CCAAAAATTT
35328520 ATTTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
1 ATTTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
*
35328569 ATATTTAAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAA
1 AT-TTTAAAAATT--AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
35328621 ATTTTAAAAAT
1 ATTTTAAAAAT
35328632 AAATATATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 2 0.03
50 10 0.17
51 9 0.15
52 38 0.64
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (49 bp):
ATTTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
Found at i:35328601 original size:12 final size:11
Alignment explanation
Indices: 35328586--35328632 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
35328576 AAAATTAAAA
35328586 AAAAAGTATTTT
1 AAAAA-TATTTT
35328598 AAAAATATTTT
1 AAAAATATTTT
35328609 --AAA-A-TTT
1 AAAAATATTTT
35328616 AAAAA-ATTTT
1 AAAAATATTTT
35328626 AAAAATA
1 AAAAATA
35328633 AATATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
7 3 0.10
8 1 0.03
9 7 0.23
10 8 0.26
11 7 0.23
12 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:35331139 original size:14 final size:15
Alignment explanation
Indices: 35331112--35331144 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35331102 TTGATACAAA
*
35331112 ATTTTTATTTTTTAT
1 ATTTTTATTATTTAT
35331127 ATTTTTA-TATTTAT
1 ATTTTTATTATTTAT
35331141 ATTT
1 ATTT
35331145 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTATTATTTAT
Found at i:35337921 original size:27 final size:25
Alignment explanation
Indices: 35337885--35337955 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
35337875 AAATCTTTAA
35337885 TAAAAAATATAAAAATATTTATATAAT
1 TAAAAAATATAAAAATATTTA-A-AAT
* *
35337912 TAAAATATATAGTAAATTATTTAAAAT
1 TAAAAAATATA--AAAATATTTAAAAT
*
35337939 TAAAAAATATATAAATA
1 TAAAAAATATAAAAATA
35337956 CAGTTATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 4 0.11
27 23 0.62
28 1 0.03
29 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (25 bp):
TAAAAAATATAAAAATATTTAAAAT
Found at i:35339841 original size:41 final size:41
Alignment explanation
Indices: 35339719--35339854 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
35339709 ACCAGTTTGG
* * *
35339719 CACCTAGTGCCTTATCGAA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTTATCGAATTAATCCGAAGTAGTAAATTGA
* * * * *
35339759 CACACAGTGTCTTATCG-GTTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTTATCGAATTAATCCGAAGTAGTAAATTGA
35339796 CACCCAGTGCCTTATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTTATCGAATTAATCCGAAGTAGTAAATTGA
* *
35339837 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTTATCGA
35339855 CTCAAAGTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 23 0.30
38 7 0.09
39 2 0.03
40 19 0.25
41 25 0.33
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCCAGTGCCTTATCGAATTAATCCGAAGTAGTAAATTGA
Found at i:35340057 original size:24 final size:24
Alignment explanation
Indices: 35340012--35340058 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35340002 TATATATACC
35340012 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
35340036 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
35340059 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:35340178 original size:14 final size:13
Alignment explanation
Indices: 35340159--35340198 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
35340149 TTGATTGGCA
35340159 GTAAAATGTTTTT
1 GTAAAATGTTTTT
35340172 CGTAAAATGATTTTT
1 -GTAAAATG-TTTTT
*
35340187 GGAAAATGTTTT
1 GTAAAATGTTTT
35340199 ACTTTCCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (13 bp):
GTAAAATGTTTTT
Found at i:35340345 original size:20 final size:20
Alignment explanation
Indices: 35340320--35340358 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35340310 GTTTTTACAT
35340320 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
35340340 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
35340359 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:35343294 original size:14 final size:14
Alignment explanation
Indices: 35343275--35343307 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
35343265 GAGGTAGACC
35343275 GGAGGTGGACCGGT
1 GGAGGTGGACCGGT
*
35343289 GGAGGTGGATCGGT
1 GGAGGTGGACCGGT
35343303 GGAGG
1 GGAGG
35343308 ACGGAGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.61, T:0.15
Consensus pattern (14 bp):
GGAGGTGGACCGGT
Found at i:35344359 original size:22 final size:22
Alignment explanation
Indices: 35344324--35344381 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
35344314 TAGATATATA
*
35344324 ATATATATACTTAA-ACATTAAG
1 ATATATAT-TTTAATACATTAAG
** *
35344346 ATATAATATTTTAATATTTTAAT
1 ATAT-ATATTTTAATACATTAAG
35344369 ATATATATTTTAA
1 ATATATATTTTAA
35344382 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATATATTTTAATACATTAAG
Found at i:35345978 original size:17 final size:18
Alignment explanation
Indices: 35345946--35345980 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35345936 TATTGCTTTT
*
35345946 TTAAGAAAAAGTAAATTA
1 TTAAGAAAAAGAAAATTA
35345964 TTAAGAAAAA-AAAATTA
1 TTAAGAAAAAGAAAATTA
35345981 CTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
TTAAGAAAAAGAAAATTA
Found at i:35348207 original size:64 final size:64
Alignment explanation
Indices: 35348106--35348239 Score: 223
Period size: 64 Copynumber: 2.1 Consensus size: 64
35348096 AATGAAACTA
* * *
35348106 GAGAAACAAGTGTCCAAATTTAAATGAATAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
1 GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGACTTATTTTTAATTTTT
*
35348170 GAGAAACAAGTGTTCAAATTTAAATCAACAATCTAGGTTCATTCTGGACTTATTTTTAATTTTT
1 GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGACTTATTTTTAATTTTT
*
35348234 AAGAAA
1 GAGAAA
35348240 TTTGAAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (64 bp):
GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGACTTATTTTTAATTTTT
Found at i:35349140 original size:17 final size:18
Alignment explanation
Indices: 35349099--35349133 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35349089 TTATTATTAA
*
35349099 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
35349117 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
35349134 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:35349187 original size:157 final size:156
Alignment explanation
Indices: 35348986--35349301 Score: 569
Period size: 157 Copynumber: 2.0 Consensus size: 156
35348976 TAAAATACCC
* *
35348986 TTAGCATAAATTTTTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
35349051 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA-TTTAATTAAAA
35349116 TATATAATTTAATAAAATTATTAATAA
130 TATATAATTTAATAAAATTATTAATAA
*
35349143 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
35349208 ATATCAATAATAAATAATTTAATCATATTTAAACATGATTATTATTAAATATATTTAATTAAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTAATTAAAAT
*
35349273 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTATTAATAA
35349299 TTA
1 TTA
35349302 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 40 0.26
157 113 0.74
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTAATTAAAAT
ATATAATTTAATAAAATTATTAATAA
Found at i:35349277 original size:17 final size:17
Alignment explanation
Indices: 35349256--35349289 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35349246 TTATTATTAA
35349256 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
35349273 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35349290 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35349337 original size:61 final size:61
Alignment explanation
Indices: 35349268--35349457 Score: 196
Period size: 61 Copynumber: 3.1 Consensus size: 61
35349258 ATATTTAATT
35349268 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
* * * * * * * *
35349329 ACAATATATGATATT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAAT
1 AAAATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AAT
*
35349387 T
61 C
35349388 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
*
35349449 ATAATATAT
1 AAAATATAT
35349458 GATACTATAA
Statistics
Matches: 98, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 6 0.06
59 27 0.28
60 16 0.16
61 35 0.36
62 6 0.06
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
Found at i:35349403 original size:14 final size:15
Alignment explanation
Indices: 35349354--35349405 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35349344 GTAAAATATA
35349354 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
35349369 TATTAAATATATTAT
1 AATTAAATATATTAT
35349384 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
35349397 AATTTAATA
1 AATTAAATA
35349406 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:35349405 original size:120 final size:120
Alignment explanation
Indices: 35349234--35349530 Score: 467
Period size: 120 Copynumber: 2.5 Consensus size: 120
35349224 ATTTAATCAT
* *
35349234 ATTTAAACATGATTATTATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTGAACATAATTATTATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
35349299 TTAATATTCTTATATGAATTTACTCAAATCACAATATATGATATTGTAAAAT-ATAA
66 TTAATATTCTTATATGAATTTACTCAAATCACAATATATGATACTAT-AAATGA-AA
35349355 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATT-TAATTAAAATATATAATTTAATAAAATTCTTAATA
*
35349418 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
65 ATTAATATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAATGAAA
* *
35349474 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATT
35349531 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 30 0.18
120 130 0.79
121 5 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTGAACATAATTATTATTAAATATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAATGAAA
Found at i:35349617 original size:24 final size:25
Alignment explanation
Indices: 35349571--35349618 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35349561 TATGAATTTG
35349571 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
35349597 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
35349619 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:35349622 original size:92 final size:92
Alignment explanation
Indices: 35349526--35349754 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
35349516 TGATTTAATA
* * *
35349526 AAATTT-AAAATAATT-GTAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCGTAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
35349588 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
35349618 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
35349683 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * * *
35349708 ATAATTTTATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCGTAATAAT-AAAT-TATATTATATGAATTTA
35349755 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 26 0.22
92 81 0.69
93 9 0.08
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:35352696 original size:30 final size:30
Alignment explanation
Indices: 35352662--35352771 Score: 76
Period size: 30 Copynumber: 3.4 Consensus size: 30
35352652 TAAAATTAGA
35352662 ACACACTATCAATGAATTGAAGTTGCAATT
1 ACACACTATCAATGAATTGAAGTTGCAATT
* * * * ** *
35352692 ACACATTATCAAATAAAAATAAACAATACAAATTT
1 ACACACTATC-AAT-GAATTGAA-GTTGC-AA-TT
35352727 AGAACACACTATCAATGAATTGAAGTTGCAATT
1 ---ACACACTATCAATGAATTGAAGTTGCAATT
*
35352760 ACACATTATCAA
1 ACACACTATCAA
35352772 ATAAAAATAA
Statistics
Matches: 57, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
30 20 0.35
31 3 0.05
32 5 0.09
33 4 0.07
34 4 0.07
35 4 0.07
36 5 0.09
37 3 0.05
38 9 0.16
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (30 bp):
ACACACTATCAATGAATTGAAGTTGCAATT
Found at i:35352734 original size:68 final size:68
Alignment explanation
Indices: 35352657--35352803 Score: 294
Period size: 68 Copynumber: 2.2 Consensus size: 68
35352647 CATATTAAAA
35352657 TTAGAACACACTATCAATGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAAACAATACA
1 TTAGAACACACTATCAATGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAAACAATACA
35352722 AAT
66 AAT
35352725 TTAGAACACACTATCAATGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAAACAATACA
1 TTAGAACACACTATCAATGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAAACAATACA
35352790 AAT
66 AAT
35352793 TTAGAACACAC
1 TTAGAACACAC
35352804 GAAGCAAAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 79 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (68 bp):
TTAGAACACACTATCAATGAATTGAAGTTGCAATTACACATTATCAAATAAAAATAAACAATACA
AAT
Found at i:35353462 original size:48 final size:48
Alignment explanation
Indices: 35353429--35353659 Score: 408
Period size: 48 Copynumber: 4.8 Consensus size: 48
35353419 ATTTCTTGAT
*
35353429 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTTGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
35353477 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
* *
35353525 TTTTAATAAAATATTAAAGTCCTTAATTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
*
35353573 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
* *
35353621 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGAT
35353660 GTAATTATTT
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
Found at i:35353477 original size:23 final size:23
Alignment explanation
Indices: 35353446--35353626 Score: 170
Period size: 23 Copynumber: 7.6 Consensus size: 23
35353436 AAAATATTAA
35353446 AGTCCTTATTTTAAATATTGATT
1 AGTCCTTATTTTAAATATTGATT
* * *
35353469 TGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
35353492 AAAGTCCTTATTTTAAATATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* *
35353517 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
* *
35353540 AAAGTCCTTAATTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* *
35353565 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
*
35353588 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
35353613 AGTCCTTATTTTAA
1 AGTCCTTATTTTAA
35353627 TGAAATATTA
Statistics
Matches: 127, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
23 63 0.50
24 15 0.12
25 49 0.39
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (23 bp):
AGTCCTTATTTTAAATATTGATT
Found at i:35354881 original size:23 final size:23
Alignment explanation
Indices: 35354855--35354950 Score: 151
Period size: 23 Copynumber: 4.2 Consensus size: 23
35354845 TAAACAAATT
35354855 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
*
35354878 CAATTTCCAGCAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
35354901 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
35354924 CAATTTCCAG-A-ACAAATCAAGAA
1 CAATTTCCAGCAGAC-AATCAA-AA
35354947 CAAT
1 CAAT
35354951 ATCAAAACAA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
21 2 0.03
22 7 0.10
23 60 0.87
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.19
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:35354959 original size:22 final size:22
Alignment explanation
Indices: 35354916--35354975 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
35354906 TCCAGCAGAC
* *
35354916 AATCAAAACAATTTCCAGAACA
1 AATCAAAACAATATCCAAAACA
35354938 AATCAAGAACAATAT-CAAAACA
1 AATCAA-AACAATATCCAAAACA
* *
35354960 AAT-ACAACAATTTCCA
1 AATCAAAACAATATCCA
35354976 GTTTCATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 15 0.47
23 7 0.22
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.18
Consensus pattern (22 bp):
AATCAAAACAATATCCAAAACA
Done.