Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 256 of 344
Found at i:85266326 original size:43 final size:43
Alignment explanation
Indices: 85266190--85266332 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 43
85266180 AGATGAGATT
* * * * * * *
85266190 ACATGTAAGACCATGTCTGGGCCATTGGCATTG-TATTGTGTTT
1 ACATGTAAGACCACGTCAGGGACATTGGCATCGATA-TATGATA
* * * *
85266233 ACATGTAAGAACATGTCAGGGACATTGGCATCGTTATATGATT
1 ACATGTAAGACCACGTCAGGGACATTGGCATCGATATATGATA
*** *
85266276 TTGTGTAAGACCACGTCTA-GGACGTTGGCATCGATATATGATA
1 ACATGTAAGACCACGTC-AGGGACATTGGCATCGATATATGATA
85266319 ACATGTAAAGACCA
1 ACATGT-AAGACCA
85266333 TATCTGGGAT
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
43 70 0.88
44 10 0.12
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
ACATGTAAGACCACGTCAGGGACATTGGCATCGATATATGATA
Found at i:85271733 original size:15 final size:15
Alignment explanation
Indices: 85271715--85271744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85271705 AACTAGGAAG
85271715 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
85271730 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
85271745 AGTTCAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TTAGTGAAAATGATC
Found at i:85272067 original size:41 final size:40
Alignment explanation
Indices: 85272038--85272256 Score: 312
Period size: 41 Copynumber: 5.4 Consensus size: 40
85272028 CGTTTTAGTA
* *
85272038 AAAAGCGCCGCGAAAAATAGAGCATTAGCGGCGCTTTTGGC
1 AAAA-CGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
85272079 AAAACGCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCGCT-AAAAACAGAGCATTAGCGGCGCTTTTGGC
* *
85272120 AAAACGCCGCTAAAATCTAGAGAATTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGGC
* * *
85272161 AAAACGCCGCTAAAACCAGAGAATTAGCGGCGCTTTTAGC
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
* * *
85272201 AAAACGCTGCTAAAAACCGGAGCATTAGCGGCGCTTTTGAC
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGC
85272242 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
85272257 GTCATATAAC
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 47 0.29
41 115 0.71
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
Found at i:85272203 original size:81 final size:80
Alignment explanation
Indices: 85272022--85272256 Score: 319
Period size: 81 Copynumber: 2.9 Consensus size: 80
85272012 CTCATAGCAA
* * *
85272022 TAGCGGCG-TTTTAGTAAAAAGCGCCGCGAAAAATAGAGCATTAGCGGCGCTTTTGGCAAAACGC
1 TAGCGGCGCTTTTAG-CAAAA-CGCCGCTAAAACTAGAGCATTAGCGGCGCTTTTGGCAAAACGC
*
85272086 CGCTAAAAAACAGAGCAT
64 CGCT-AAAAACAGAGAAT
* *
85272104 TAGCGGCGCTTTTGGCAAAACGCCGCTAAAATCTAGAGAATTAGCGGCGCTTTTGGCAAAACGCC
1 TAGCGGCGCTTTTAGCAAAACGCCGCTAAAA-CTAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
*
85272169 GCTAAAACCAGAGAAT
65 GCTAAAAACAGAGAAT
* ** *
85272185 TAGCGGCGCTTTTAGCAAAACGCTGCTAAAAACCGGAGCATTAGCGGCGCTTTTGACAAAACGCC
1 TAGCGGCGCTTTTAGCAAAACGCCGCT-AAAACTAGAGCATTAGCGGCGCTTTTGGCAAAACGCC
85272250 GCTAAAA
65 GCTAAAA
85272257 GTCATATAAC
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
81 82 0.60
82 50 0.36
83 5 0.04
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (80 bp):
TAGCGGCGCTTTTAGCAAAACGCCGCTAAAACTAGAGCATTAGCGGCGCTTTTGGCAAAACGCCG
CTAAAAACAGAGAAT
Found at i:85272426 original size:7 final size:7
Alignment explanation
Indices: 85272414--85272504 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
85272404 TTAATTATCA
85272414 TTATGGT
1 TTATGGT
85272421 TTATGGT
1 TTATGGT
* *
85272428 TTAAGAT
1 TTATGGT
*
85272435 ATATGGT
1 TTATGGT
*
85272442 TTAGGGT
1 TTATGGT
*
85272449 TTAAGGT
1 TTATGGT
85272456 TTATGAGT
1 TTATG-GT
85272464 TAACTATGGT
1 T---TATGGT
* *
85272474 TTAAGAT
1 TTATGGT
*
85272481 ATATGGT
1 TTATGGT
*
85272488 TTAGGGT
1 TTATGGT
*
85272495 TTAAGGT
1 TTATGGT
85272502 TTA
1 TTA
85272505 GGAGTTAACT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
7 53 0.84
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:85272439 original size:21 final size:21
Alignment explanation
Indices: 85272415--85272499 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
85272405 TAATTATCAT
*
85272415 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
85272436 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
85272457 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
85272482 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
85272500 GTTTAGGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:85272477 original size:46 final size:46
Alignment explanation
Indices: 85272422--85272515 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
85272412 CATTATGGTT
*
85272422 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
85272468 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
85272514 TA
1 TA
85272516 GTGTTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:85272549 original size:72 final size:70
Alignment explanation
Indices: 85272447--85272582 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 70
85272437 ATGGTTTAGG
* * *
85272447 GTTTAAGGTTTATGAGTTAACTATGGTTTAA-GATATATGGTTTAGGGTTTAAGGTTTAGGAGTT
1 GTTTAAGGTTTATGAGTGAACTATGGTTTAAGGAT-TATGATTTAGGGTTTAAGGGTTAGG-GTT
85272511 AACTAGT
64 AACTAGT
* *
85272518 GTTTGAAGGTTTATGA-TGAATTATGAGTTTAAGGATTATGATTTAGGGTTTAGGGGTTAGGGTT
1 GTTT-AAGGTTTATGAGTGAACTATG-GTTTAAGGATTATGATTTAGGGTTTAAGGGTTAGGGTT
85272582 A
64 A
85272583 GAGTTTAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
71 15 0.26
72 39 0.68
73 3 0.05
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.42
Consensus pattern (70 bp):
GTTTAAGGTTTATGAGTGAACTATGGTTTAAGGATTATGATTTAGGGTTTAAGGGTTAGGGTTAA
CTAGT
Found at i:85278736 original size:13 final size:13
Alignment explanation
Indices: 85278720--85278765 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
85278710 ATGTTGTTGA
85278720 TGCATGTAAATTC
1 TGCATGTAAATTC
85278733 TGCATGTAAA---
1 TGCATGTAAATTC
*
85278743 TAC-TGTAAATTC
1 TGCATGTAAATTC
85278755 TGCATGTAAAT
1 TGCATGTAAAT
85278766 GGGCATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
12 2 0.07
13 17 0.63
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (13 bp):
TGCATGTAAATTC
Found at i:85278752 original size:22 final size:22
Alignment explanation
Indices: 85278724--85278765 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
85278714 TGTTGATGCA
85278724 TGTAAATTCTGCATGTAAATAC
1 TGTAAATTCTGCATGTAAATAC
85278746 TGTAAATTCTGCATGTAAAT
1 TGTAAATTCTGCATGTAAAT
85278766 GGGCATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TGTAAATTCTGCATGTAAATAC
Found at i:85278872 original size:12 final size:12
Alignment explanation
Indices: 85278855--85278887 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
85278845 TCTTGCATAT
85278855 ATGATTAATAAC
1 ATGATTAATAAC
85278867 ATGATTAATAAC
1 ATGATTAATAAC
85278879 ATGATTAAT
1 ATGATTAAT
85278888 GGTTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (12 bp):
ATGATTAATAAC
Found at i:85279380 original size:16 final size:16
Alignment explanation
Indices: 85279361--85279391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85279351 ATTCTATCAT
*
85279361 TATTTTGTTCTATTTG
1 TATTTTGTTATATTTG
85279377 TATTTTGTTATATTT
1 TATTTTGTTATATTT
85279392 CTGGTGTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.10, T:0.71
Consensus pattern (16 bp):
TATTTTGTTATATTTG
Found at i:85279641 original size:43 final size:43
Alignment explanation
Indices: 85279553--85279653 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
85279543 ATTTTTATGT
** *
85279553 CCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGA
1 CCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGGTCTCGA
*
85279596 CCTTTATCGGCGTTTACGGGAAAAGCGCCGCTAAAGGT-TCCGA
1 CCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGGTCT-CGA
*
85279639 CCTTTAGCAGCGTTT
1 CCTTTAGCGGCGTTT
85279654 TTTCAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (43 bp):
CCTTTAGCGGCGTTTACGGGAAAAGCGCCGCTAAAGGTCTCGA
Found at i:85283984 original size:28 final size:26
Alignment explanation
Indices: 85283953--85284048 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 26
85283943 ATCCTCAATC
*
85283953 TTCAATCCTCAATTTCTAATTTTAGATT
1 TTCAATCTTCAATTT-TAATTTTA-ATT
* *
85283981 TTCAATCTTCAAATTTAAAATTTAAATT
1 TTCAATCTTC-AATTT-TAATTTTAATT
*
85284009 TTCAATTTTCAATTTTCAATTTTAATT
1 TTCAATCTTCAATTTT-AATTTTAATT
* *
85284036 TTGAATTTTCAAT
1 TTCAATCTTCAAT
85284049 CCTCAATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 26 0.45
28 21 0.36
29 11 0.19
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (26 bp):
TTCAATCTTCAATTTTAATTTTAATT
Found at i:85284015 original size:7 final size:7
Alignment explanation
Indices: 85283947--85284058 Score: 86
Period size: 7 Copynumber: 16.1 Consensus size: 7
85283937 TTCTCAATCC
*
85283947 TCAATCT
1 TCAATTT
**
85283954 TCAATCC
1 TCAATTT
85283961 TCAA-TT
1 TCAATTT
85283967 TCTAATTT
1 TC-AATTT
85283975 T-AGATTT
1 TCA-ATTT
*
85283982 TCAATCT
1 TCAATTT
*
85283989 TCAAATT
1 TCAATTT
* *
85283996 TAAAATT
1 TCAATTT
*
85284003 TAAATTT
1 TCAATTT
85284010 TCAATTT
1 TCAATTT
85284017 TCAATTT
1 TCAATTT
85284024 TCAATTT
1 TCAATTT
85284031 T-AATTT
1 TCAATTT
*
85284037 TGAATTT
1 TCAATTT
**
85284044 TCAATCC
1 TCAATTT
85284051 TCAATTT
1 TCAATTT
85284058 T
1 T
85284059 TTAACTTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
6 9 0.10
7 73 0.85
8 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (7 bp):
TCAATTT
Found at i:85284030 original size:27 final size:27
Alignment explanation
Indices: 85283973--85284057 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
85283963 AATTTCTAAT
* * **
85283973 TTTAGATTTTCAATCTTCAAATTTAAAA
1 TTTAAATTTTCAATTTTC-AATTTTCAA
85284001 TTTAAATTTTCAATTTTCAATTTTCAA
1 TTTAAATTTTCAATTTTCAATTTTCAA
* * **
85284028 TTTTAATTTTGAATTTTCAATCCTCAA
1 TTTAAATTTTCAATTTTCAATTTTCAA
85284055 TTT
1 TTT
85284058 TTTAACTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 33 0.67
28 16 0.33
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAAATTTTCAATTTTCAATTTTCAA
Found at i:85284077 original size:34 final size:33
Alignment explanation
Indices: 85284001--85284078 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
85283991 AAATTTAAAA
**
85284001 TTTAAATTTTCAATTTTCAATTTTCAATTTTAAT
1 TTTAAATTTTCAATCCTCAATTTTCAATTTT-AT
* *
85284035 TTTGAATTTTCAATCCTCAATTTTTTAACTTTT-T
1 TTTAAATTTTCAATCCTCAA-TTTTCAA-TTTTAT
85284069 TTTAAATTTT
1 TTTAAATTTT
85284079 ATTCTCTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 27 0.73
35 6 0.16
36 4 0.11
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.60
Consensus pattern (33 bp):
TTTAAATTTTCAATCCTCAATTTTCAATTTTAT
Found at i:85288866 original size:40 final size:40
Alignment explanation
Indices: 85288813--85289285 Score: 802
Period size: 40 Copynumber: 11.8 Consensus size: 40
85288803 CAGCCGCAAA
* * * *
85288813 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
85288853 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
85288893 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
85288933 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
85288973 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
85289013 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
85289053 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
85289093 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
85289133 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
85289173 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
85289213 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
85289253 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
85289286 TCCAATGTTC
Statistics
Matches: 407, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 407 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:85297923 original size:39 final size:39
Alignment explanation
Indices: 85297871--85298059 Score: 139
Period size: 39 Copynumber: 4.5 Consensus size: 39
85297861 CAGCCGCAAA
* *
85297871 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTG-CTTCGGGTCTTAACCCGGACATATCAACTCG
* *
85297911 CATAATTGCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCTTCGGGTCTTAACCCGGACATATCAACTCG
* * * *
85297950 CATAATTG-TTCGGCCTTTTTTTTCGGGTCTTAGCCGGATATATCAACTCG
1 CATAATTGCTTCGG--------GTC---T-TAACCCGGACATATCAACTCG
* *
85298000 CATAATTGCCTTC-GGTCTTAGCCCGGATATATCAACTCG
1 CATAATTG-CTTCGGGTCTTAACCCGGACATATCAACTCG
85298039 CATAATTGCCTTCGGGTCTTA
1 CATAATTG-CTTCGGGTCTTA
85298060 GGCACACATA
Statistics
Matches: 122, Mismatches: 12, Indels: 30
0.74 0.07 0.18
Matches are distributed among these distances:
38 5 0.04
39 67 0.55
40 15 0.12
43 2 0.02
46 2 0.02
49 1 0.01
50 26 0.21
51 1 0.01
52 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (39 bp):
CATAATTGCTTCGGGTCTTAACCCGGACATATCAACTCG
Found at i:85298033 original size:89 final size:90
Alignment explanation
Indices: 85297881--85298046 Score: 282
Period size: 89 Copynumber: 1.9 Consensus size: 90
85297871 CATATTTGCC
*
85297881 TTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCTTCGGGTCTTAGCCCGGATATATCAA
1 TTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCTTCGGGTCTTAGCCCGGATATATCAA
85297946 CTCGCATAATTGTTCGGCCTTTTTT
66 CTCGCATAATTGTTCGGCCTTTTTT
* *
85297971 TTCGGGTCTT-AGCCGGATATATCAACTCGCATAATTGCCTTC-GGTCTTAGCCCGGATATATCA
1 TTCGGGTCTTAACCCGGACATATCAACTCGCATAATTG-CTTCGGGTCTTAGCCCGGATATATCA
85298034 ACTCGCATAATTG
65 ACTCGCATAATTG
85298047 CCTTCGGGTC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 58 0.81
90 14 0.19
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (90 bp):
TTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCTTCGGGTCTTAGCCCGGATATATCAA
CTCGCATAATTGTTCGGCCTTTTTT
Found at i:85310112 original size:3 final size:3
Alignment explanation
Indices: 85310104--85310182 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
85310094 AAACTGTTAG
85310104 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
85310152 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
85310183 AGCAATAGAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:85310212 original size:3 final size:3
Alignment explanation
Indices: 85310204--85310228 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85310194 CTGTTAGATG
85310204 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
85310229 AGGACTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:85311769 original size:12 final size:12
Alignment explanation
Indices: 85311752--85311776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85311742 TGTATGTAAG
85311752 TATTGTTGTTGT
1 TATTGTTGTTGT
85311764 TATTGTTGTTGT
1 TATTGTTGTTGT
85311776 T
1 T
85311777 TTTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TATTGTTGTTGT
Found at i:85320271 original size:33 final size:31
Alignment explanation
Indices: 85320234--85320305 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
85320224 TAATATTTTT
* *
85320234 ATTTTTTAAAAATTTATTTTTATATATTTTAGA
1 ATTTTTTAAAAA-ATATTTTTAAAT-TTTTAGA
* *
85320267 ATTTTATAAAAAATATTTTTAAATTTTTTGA
1 ATTTTTTAAAAAATATTTTTAAATTTTTAGA
*
85320298 ATTATTTA
1 ATTTTTTA
85320306 GACATTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 12 0.36
32 10 0.30
33 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
ATTTTTTAAAAAATATTTTTAAATTTTTAGA
Found at i:85320948 original size:3 final size:3
Alignment explanation
Indices: 85320940--85320973 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
85320930 TACATATTTG
*
85320940 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
85320974 GTTTAGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85322258 original size:20 final size:20
Alignment explanation
Indices: 85322216--85322261 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
85322206 CAAAAATCAC
*
85322216 AAAAGAATTCAAAATATTGAT
1 AAAA-AATTCAAAATATTCAT
85322237 AAAAAATTACAAAAT-TTCAT
1 AAAAAATT-CAAAATATTCAT
85322257 AAAAA
1 AAAAA
85322262 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAAATTCAAAATATTCAT
Found at i:85323863 original size:29 final size:29
Alignment explanation
Indices: 85323831--85323895 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
85323821 AGAAGGACTT
* *
85323831 GATCAAGTTAGTCTCTCTACTATTAAATA
1 GATCAAGTTAGTCTATCTACTATTAAAAA
* * *
85323860 GATCAATTTAGTTTATGTACTATTAAAAA
1 GATCAAGTTAGTCTATCTACTATTAAAAA
85323889 GAATCAA
1 G-ATCAA
85323896 ATAAGGCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (29 bp):
GATCAAGTTAGTCTATCTACTATTAAAAA
Found at i:85324481 original size:24 final size:23
Alignment explanation
Indices: 85324434--85324483 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
85324424 TATGTACTTG
* **
85324434 TTTTATTTTTATTTTTTATGATA
1 TTTTATTTTTATTTCTTAAAATA
85324457 TTTTAATTTTTATTTCTTAAAATA
1 TTTT-ATTTTTATTTCTTAAAATA
85324481 TTT
1 TTT
85324484 CTCTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTTTTATTTCTTAAAATA
Found at i:85325778 original size:30 final size:30
Alignment explanation
Indices: 85325743--85325804 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
85325733 AGATAGAAGG
* * * *
85325743 GGAGTAAAAGTTTTGGGGGGAAAGTAGAAA
1 GGAGTAAAAATTTTGAGGGAAAAGTAAAAA
85325773 GGAGTAAAAATTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAATTTTGAGGGAAAAGTAAAAA
85325803 GG
1 GG
85325805 TTTAAGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAATTTTGAGGGAAAAGTAAAAA
Found at i:85327148 original size:2 final size:2
Alignment explanation
Indices: 85327136--85327180 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
85327126 TGCCCAAGTA
85327136 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
85327177 CT CT
1 CT CT
85327181 TTTTAATGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:85327590 original size:28 final size:28
Alignment explanation
Indices: 85327543--85327596 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
85327533 AGCCAATTCA
* * *
85327543 AAGTGAATGTTGGTATCATTTACAGACG
1 AAGTGAATGATGATACCATTTACAGACG
*
85327571 AAGTGAATGATGATACCATTTGCAGA
1 AAGTGAATGATGATACCATTTACAGA
85327597 AATAGTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (28 bp):
AAGTGAATGATGATACCATTTACAGACG
Found at i:85330174 original size:13 final size:12
Alignment explanation
Indices: 85330156--85330186 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
85330146 TTTTTCACAA
85330156 CATTTTGAAAAG
1 CATTTTGAAAAG
85330168 CACTTTTGAAAAG
1 CA-TTTTGAAAAG
85330181 CATTTT
1 CATTTT
85330187 TCAACCGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (12 bp):
CATTTTGAAAAG
Found at i:85330898 original size:23 final size:23
Alignment explanation
Indices: 85330867--85330913 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
85330857 CTACCAATAG
* *
85330867 AAGTGCATAGAAGTATCAGTAGA
1 AAGTACATAAAAGTATCAGTAGA
85330890 AAGTACATAAAAGTATCAGTAGA
1 AAGTACATAAAAGTATCAGTAGA
85330913 A
1 A
85330914 CCAAGTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (23 bp):
AAGTACATAAAAGTATCAGTAGA
Found at i:85340000 original size:42 final size:41
Alignment explanation
Indices: 85339930--85340009 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
85339920 AATATAAATT
* *
85339930 TTTTATTTTTTCCTTTTTTGAATTATTTATATTTTATATAA
1 TTTTATTTTTTCCTTTTTTGAATCATTTATATATTATATAA
*
85339971 TTTTATATTTTT-CTTTTTTTATATCATTTATATATTATA
1 TTTTAT-TTTTTCCTTTTTTGA-ATCATTTATATATTATA
85340010 AAAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 14 0.41
42 20 0.59
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (41 bp):
TTTTATTTTTTCCTTTTTTGAATCATTTATATATTATATAA
Found at i:85340106 original size:13 final size:13
Alignment explanation
Indices: 85340083--85340115 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
85340073 TTCAAATTCT
85340083 TTATA-TTTTATA
1 TTATATTTTTATA
85340095 TTATATTTTTATA
1 TTATATTTTTATA
85340108 TT-TATTTT
1 TTATATTTT
85340116 ATGTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:85344603 original size:26 final size:26
Alignment explanation
Indices: 85344572--85344678 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85344562 TGAAATGCCC
*
85344572 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85344598 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85344624 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
85344650 ATCATGGAACATTTACC-AACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85344675 ATCA
1 ATCA
85344679 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 11 0.14
26 65 0.86
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85351594 original size:26 final size:26
Alignment explanation
Indices: 85351558--85351665 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85351548 TGAAATGCCC
* *
85351558 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
85351584 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85351610 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
85351636 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85351662 ATCA
1 ATCA
85351666 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85357151 original size:54 final size:53
Alignment explanation
Indices: 85357039--85357194 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 53
85357029 GCAACCTCCT
* * * * ** *
85357039 ACTTATGAGATTTTTAGAATCTTACGGTTTACCGATTTATGATCACAACCTTTT
1 ACTTATGAGATTTTTAGAATTTTATGGTTTGCCGATTTA-AATCACAACCAATC
* *
85357093 ACTTATGAGATTTTTAAAATTTTATGGTTTGCCGGTTTACAATCACAACCAATC
1 ACTTATGAGATTTTTAGAATTTTATGGTTTGCCGATTTA-AATCACAACCAATC
** * * *
85357147 ACTTAAAAGATTTTCAGAATTTTGTAG-TTGCCGATTTAAGATCACAAC
1 ACTTATGAGATTTTTAGAATTTTATGGTTTGCCGATTTAA-ATCACAAC
85357195 TTTCTCGTAC
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 1 0.01
53 18 0.21
54 65 0.77
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (53 bp):
ACTTATGAGATTTTTAGAATTTTATGGTTTGCCGATTTAAATCACAACCAATC
Found at i:85357573 original size:24 final size:24
Alignment explanation
Indices: 85357524--85357578 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
85357514 ACAACCACCG
**
85357524 TAATTTTCTACTATACAGTTCACA
1 TAATTTTCTACTATACAACTCACA
*
85357548 TAATTTTCTACTTTACAACT-AGCA
1 TAATTTTCTACTATACAACTCA-CA
85357572 TAATTTT
1 TAATTTT
85357579 TCCTGCCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TAATTTTCTACTATACAACTCACA
Found at i:85359261 original size:9 final size:9
Alignment explanation
Indices: 85359247--85359278 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
85359237 AACTTGGTGC
85359247 ATTTTGTTT
1 ATTTTGTTT
85359256 ATTTTGTTT
1 ATTTTGTTT
85359265 ATTTTGTTT
1 ATTTTGTTT
85359274 ATTTT
1 ATTTT
85359279 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:85359359 original size:23 final size:23
Alignment explanation
Indices: 85359329--85359380 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
85359319 TGCAACTTGG
85359329 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
85359352 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
85359375 TTTCAT
1 TTTCAT
85359381 CTTTTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:85359392 original size:59 final size:59
Alignment explanation
Indices: 85359329--85359444 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
85359319 TGCAACTTGG
*
85359329 TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
1 TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
* *
85359388 TTTCATAATGATAACTAATATGCTTTCATAATGATAGTTATAATGCTTTCATCTTTT
1 TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTT
85359445 TAATTATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (59 bp):
TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
Found at i:85363739 original size:9 final size:9
Alignment explanation
Indices: 85363721--85363752 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
85363711 AACTTGGTGC
85363721 ATTTTGTTT
1 ATTTTGTTT
*
85363730 ATTTTATTT
1 ATTTTGTTT
85363739 ATTTTGTTT
1 ATTTTGTTT
85363748 ATTTT
1 ATTTT
85363753 TAATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:85363833 original size:23 final size:23
Alignment explanation
Indices: 85363803--85363854 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
85363793 TGCAACTTGG
85363803 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
85363826 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
85363849 TTTCAT
1 TTTCAT
85363855 CTTTTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:85363866 original size:59 final size:59
Alignment explanation
Indices: 85363803--85363918 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
85363793 TGCAACTTGG
*
85363803 TTTCATAATAATAGCTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
1 TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
* *
85363862 TTTCATAATGATAACTAATATGCTTTCATAATGATAGTTATAATGCTTTCATCTTTT
1 TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTT
85363919 TAATTATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (59 bp):
TTTCATAATAATAACTAATATGCTTTCATAATGATAGCTATAATGCTTTCATCTTTTGC
Found at i:85371153 original size:20 final size:22
Alignment explanation
Indices: 85371119--85371162 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
85371109 CGCAACTCTT
85371119 TTTTTTTAATATTAA-AAAATA
1 TTTTTTTAATATTAATAAAATA
*
85371140 TTTTTTTCAT-TTAATAAAATA
1 TTTTTTTAATATTAATAAAATA
85371161 TT
1 TT
85371163 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTTTAATATTAATAAAATA
Found at i:85371892 original size:17 final size:17
Alignment explanation
Indices: 85371856--85371898 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
85371846 CAGAACTTGT
*
85371856 AGACGATGAAGACATGG
1 AGACGATGAAGACATAG
*
85371873 AGACGATGAAGACGTAG
1 AGACGATGAAGACATAG
*
85371890 AGACAATGA
1 AGACGATGA
85371899 TAGCTCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.33, T:0.12
Consensus pattern (17 bp):
AGACGATGAAGACATAG
Found at i:85373730 original size:11 final size:11
Alignment explanation
Indices: 85373716--85373760 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
85373706 AGATAAATAT
85373716 TATTTTATTAA
1 TATTTTATTAA
*
85373727 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
85373740 TATTTTATTAT
1 TATTTTATTAA
85373751 TATTTTATTA
1 TATTTTATTA
85373761 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:85375901 original size:38 final size:40
Alignment explanation
Indices: 85375851--85376016 Score: 210
Period size: 46 Copynumber: 3.9 Consensus size: 40
85375841 CTGATATGAA
85375851 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTTG
85375890 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGTATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC---T-TG
85375933 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC---T-T--G
85375981 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85376017 GTGACATGAA
Statistics
Matches: 116, Mismatches: 1, Indels: 13
0.89 0.01 0.10
Matches are distributed among these distances:
38 36 0.31
43 2 0.02
46 77 0.66
48 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.23
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTTG
Found at i:85375957 original size:46 final size:46
Alignment explanation
Indices: 85375890--85376106 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
85375880 TGGCAACCTG
*
85375890 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGGTATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
85375936 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
85375982 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
85376028 AGAATAAGACCATGGTTGAAAGATACCATGGAAACATGATA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
** * * *
85376074 TAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
85376107 TCACGTCAAA
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 151 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:85376095 original size:138 final size:130
Alignment explanation
Indices: 85375841--85376106 Score: 345
Period size: 138 Copynumber: 2.0 Consensus size: 130
85375831 AGTGTGCTCT
*
85375841 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * ** * *
85375906 TGAAAGATACCATGGCAACCTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGAAACATGATATGAAATAAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
85375971 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
85376036 ACCATGGTTGAAAGATACCATGGAAACATGATA-GAAAATAAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGAAACATGATATG-AAATAAGTAAGACCATAGTTGAAAGACAC
*
85376100 TATGGCA
122 CATGGCA
85376107 TCACGTCAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
130 47 0.41
133 2 0.02
136 1 0.01
137 1 0.01
138 65 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGAAACATGATATGAAATAAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:85380882 original size:60 final size:60
Alignment explanation
Indices: 85380809--85380927 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
85380799 ATACTAAACT
* * * * *
85380809 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTGATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
85380869 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
85380928 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:85381117 original size:3 final size:3
Alignment explanation
Indices: 85381109--85381141 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
85381099 TATTTATTGT
*
85381109 TTC TTC TTC TTC TTC TTC TTC TGC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
85381142 CCTTTCTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:85381138 original size:17 final size:17
Alignment explanation
Indices: 85381112--85381158 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
85381102 TTATTGTTTC
85381112 TTCT-TCTTCTTCTTC-
1 TTCTCTCTTCTTCTTCT
*
85381127 TTCTGCTCTTCTTCTCCT
1 TTCT-CTCTTCTTCTTCT
85381145 TTCTCTCTT-TTCTT
1 TTCTCTCTTCTTCTT
85381159 TCTCTCTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 15 0.56
18 4 0.15
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (17 bp):
TTCTCTCTTCTTCTTCT
Found at i:85381156 original size:9 final size:10
Alignment explanation
Indices: 85381109--85381167 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 10
85381099 TATTTATTGT
85381109 TTCT-TCTTC
1 TTCTCTCTTC
85381118 TTCT-TCTTC
1 TTCTCTCTTC
85381127 TTCTGCTCTTC
1 TTCT-CTCTTC
85381138 TTCTC-CTT-
1 TTCTCTCTTC
*
85381146 TCTCTCTTTTC
1 T-TCTCTCTTC
85381157 TTTCTCTCTTC
1 -TTCTCTCTTC
85381168 GAGTGGGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 1 0.02
9 20 0.48
10 3 0.07
11 17 0.40
12 1 0.02
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.63
Consensus pattern (10 bp):
TTCTCTCTTC
Found at i:85384305 original size:16 final size:16
Alignment explanation
Indices: 85384286--85384324 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
85384276 AGAGAGCAGG
* *
85384286 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAGAAA
85384302 GGAAAAAAAGAAGAAA
1 GGAAAAAAAGAAGAAA
85384318 GGAAAAA
1 GGAAAAA
85384325 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAGAAA
Found at i:85386451 original size:46 final size:46
Alignment explanation
Indices: 85386399--85386628 Score: 388
Period size: 46 Copynumber: 5.0 Consensus size: 46
85386389 AGTGTGCTCT
85386399 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85386445 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85386491 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
85386537 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
85386583 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85386629 ATGGCAGAAA
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:85386675 original size:50 final size:49
Alignment explanation
Indices: 85386414--85386681 Score: 292
Period size: 46 Copynumber: 5.7 Consensus size: 49
85386404 ATGAAATGTG
* * *
85386414 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG--TG-
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
* * *
85386460 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG--TG-
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
* * *
85386506 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATG-A--A
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
*
85386552 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-A--A
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
*
85386598 TAAGACCATGGTTGAAAGATACCATGGCAACATGGCA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAATGA
* * * *
85386647 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
85386682 TCAAAGATAA
Statistics
Matches: 206, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
45 5 0.02
46 169 0.82
47 1 0.00
49 1 0.00
50 30 0.15
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (49 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
Found at i:85397059 original size:34 final size:32
Alignment explanation
Indices: 85396982--85397064 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 32
85396972 ATATTTGTCT
*
85396982 TTTGCATCAAGTTTATTATGATTAGTGTTTTC
1 TTTGCATCAAGTTTATTATGATTAATGTTTTC
* *
85397014 -AT--ATCAAGTTTATTATGATTAATTTTTATC
1 TTTGCATCAAGTTTATTATGATTAATGTTT-TC
85397044 TTTCGCATCAAGTTTATTATG
1 TTT-GCATCAAGTTTATTATG
85397065 TTTTTGAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 23 0.55
30 2 0.05
31 2 0.05
34 15 0.36
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTGCATCAAGTTTATTATGATTAATGTTTTC
Found at i:85399244 original size:28 final size:28
Alignment explanation
Indices: 85399140--85399244 Score: 111
Period size: 28 Copynumber: 3.7 Consensus size: 28
85399130 ATCCACCACT
**
85399140 GGTACATAGTACCTGGAACTGTAATCACC
1 GGTACATAGTACCTGGAACTG-AAAAACC
* * * *
85399169 GGCACAGAGTGCCTAGAACTGAAAAACC
1 GGTACATAGTACCTGGAACTGAAAAACC
* * * *
85399197 GGTACATAGTACTTGAAACTGAAAGACT
1 GGTACATAGTACCTGGAACTGAAAAACC
85399225 GGTACATAGTACCTGGAACT
1 GGTACATAGTACCTGGAACT
85399245 TTAATCACCG
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 43 0.72
29 17 0.28
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
GGTACATAGTACCTGGAACTGAAAAACC
Found at i:85412327 original size:22 final size:22
Alignment explanation
Indices: 85412302--85412359 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
85412292 CATGAAGCAA
85412302 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
85412324 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
** *
85412346 TACCATACCTCCAC
1 CCCCATACCCCCAC
85412360 AGTCCTCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.31, C:0.53, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:85413758 original size:16 final size:16
Alignment explanation
Indices: 85413737--85413767 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
85413727 GGTTATGTGT
85413737 TATATATATTAGTATA
1 TATATATATTAGTATA
85413753 TATATATATTAGTAT
1 TATATATATTAGTAT
85413768 TATCAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATATATATTAGTATA
Found at i:85415544 original size:82 final size:82
Alignment explanation
Indices: 85415407--85415570 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
85415397 ATGCCTTTTG
85415407 CCTTTCATTTACACTCTTTATACAAAAGATTTGGATTGGGTAGTTTAATTTGTTTCTCAAATTAT
1 CCTTTCATTTACACTCTTTATACAAAAGATTTGGATTGGGTAGTTTAATTTGTTTCTCAAATTAT
85415472 ATTTGTTGTGTTTACTA
66 ATTTGTTGTGTTTACTA
85415489 CCTTTCATTTACACTCTTTATACAAAAGATTTGGATTGGGTAGTTTAATTTGTTTCTCAAATTAT
1 CCTTTCATTTACACTCTTTATACAAAAGATTTGGATTGGGTAGTTTAATTTGTTTCTCAAATTAT
85415554 ATTTGTTGTGTTTACTA
66 ATTTGTTGTGTTTACTA
85415571 ACCAAGTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (82 bp):
CCTTTCATTTACACTCTTTATACAAAAGATTTGGATTGGGTAGTTTAATTTGTTTCTCAAATTAT
ATTTGTTGTGTTTACTA
Found at i:85425379 original size:13 final size:13
Alignment explanation
Indices: 85425361--85425388 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85425351 CCAGGCGTTT
85425361 AAACTGTACGACA
1 AAACTGTACGACA
85425374 AAACTGTACGACA
1 AAACTGTACGACA
85425387 AA
1 AA
85425389 TAGTGAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (13 bp):
AAACTGTACGACA
Found at i:85426254 original size:78 final size:77
Alignment explanation
Indices: 85426125--85426268 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 77
85426115 TATGTTTTTC
* * * *
85426125 AAAAAAATCAACTCATAATGCTAGAGGTGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAAATT
85426190 TATGCTTTTCAA
66 TATGCTTTTCAA
** * * *
85426202 AAAAAAAGTCAACTCAT-ATGGCGAGAAGTGAGTTGAGCCTCGGGGCAGGTTGAGGTATTTTAAA
1 AAAAAAA-TCAACTCATAAT-GCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAAA
85426266 TTT
64 TTT
85426269 CTTTCGTCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
77 9 0.16
78 47 0.84
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (77 bp):
AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTAAATT
TATGCTTTTCAA
Found at i:85426702 original size:72 final size:71
Alignment explanation
Indices: 85426564--85426702 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 71
85426554 TTTTTCAAAA
* * ** *
85426564 TCAACTCATATCGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAA-TAATCTGT
85426629 TTTAATT
65 TTTAATT
* * *
85426636 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAA-AATCTG
1 TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTCAATAATCTG
85426700 TTT
64 TTT
85426703 GGCAAATTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
72 42 0.74
74 15 0.26
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (71 bp):
TCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAATAATCTGTT
TTAATT
Found at i:85426790 original size:88 final size:88
Alignment explanation
Indices: 85426636--85426838 Score: 239
Period size: 88 Copynumber: 2.3 Consensus size: 88
85426626 TGTTTTAATT
* *
85426636 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAAATCTGT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGATATTTTCAAAATCTGT
85426701 TTGGCAAAT-TCTATTTTCAAA-AA
66 TT--CAAATGTCTATTTTCAAAGAA
* * * *** *
85426724 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGTTCACATGCTGAGATATTTTCAGTTTTTGT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGATATTTTCAAAATCTGT
** * *
85426789 TTTTAATGTCTATTTTTAAAGAG
66 TTCAAATGTCTATTTTCAAAGAA
* *
85426812 TCAATTCATATTGCGAGAAATGAGTTG
1 TCAACTCATATTGCGAGAAGTGAGTTG
85426839 GGCTCAAGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 3 0.03
87 11 0.11
88 84 0.86
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (88 bp):
TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCACATGCCGAGATATTTTCAAAATCTGT
TTCAAATGTCTATTTTCAAAGAA
Found at i:85427555 original size:22 final size:22
Alignment explanation
Indices: 85427530--85427587 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
85427520 CATGAAGCAA
85427530 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
85427552 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
85427574 TCCCATACCTCCAC
1 CCCCATACCCCCAC
85427588 AGTCCTCGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.55, G:0.03, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:85433065 original size:13 final size:13
Alignment explanation
Indices: 85433043--85433073 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
85433033 TTTGGGGCTG
*
85433043 TTTTTGTTTTGGA
1 TTTTTATTTTGGA
85433056 TTTTTATTTTGGA
1 TTTTTATTTTGGA
85433069 TTTTT
1 TTTTT
85433074 GGCATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTGGA
Found at i:85435990 original size:16 final size:18
Alignment explanation
Indices: 85435963--85435995 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85435953 TGGAATTGGG
85435963 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
85435980 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
85435996 TATAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:85438097 original size:19 final size:21
Alignment explanation
Indices: 85438057--85438097 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
85438047 CACCCCTTGT
*
85438057 GTTGCAACACTGCAGGCCTGC
1 GTTGCAACACTGCAGCCCTGC
85438078 GTTGCAACACTG-A-CCCTGC
1 GTTGCAACACTGCAGCCCTGC
85438097 G
1 G
85438098 CAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
GTTGCAACACTGCAGCCCTGC
Found at i:85445514 original size:45 final size:45
Alignment explanation
Indices: 85445459--85445545 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
85445449 TATGTAATCT
* *
85445459 GAACCCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
1 GAACCCATTGAGTTGTAGTCTGAGTTCATGATATATGCGACATCC
* *
85445504 GAACTCATTGAGTTGTAGTCTGAGTTCGTGATATATGCGACA
1 GAACCCATTGAGTTGTAGTCTGAGTTCATGATATATGCGACA
85445546 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
GAACCCATTGAGTTGTAGTCTGAGTTCATGATATATGCGACATCC
Found at i:85450817 original size:42 final size:41
Alignment explanation
Indices: 85450708--85450823 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 41
85450698 TGATAAAATG
* * *
85450708 TGTAAGACCATTTCTGGGACATTGGCATCGTATATGACTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGTATATGACTCA
* * *
85450749 TGTAAGACCTTGTCCGGGACAGTGGCATCGATATATGA-TAACA
1 TGTAAGACCATATCTGGGACAGTGGCATCG-TATATGACT--CA
* *
85450792 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATATCTGGGACAGTGGCATCGTAT
85450824 GAGCTATTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 30 0.48
42 14 0.23
43 18 0.29
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGTATATGACTCA
Found at i:85468215 original size:16 final size:16
Alignment explanation
Indices: 85468194--85468230 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
85468184 ATAATTATTC
85468194 AATCATGATTACAATT
1 AATCATGATTACAATT
85468210 AATCATGATTACAATT
1 AATCATGATTACAATT
85468226 AATCA
1 AATCA
85468231 ATCTTATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (16 bp):
AATCATGATTACAATT
Found at i:85470531 original size:9 final size:9
Alignment explanation
Indices: 85470517--85470566 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
85470507 AATAATATAA
85470517 AATTAACCG
1 AATTAACCG
85470526 AATTAACCG
1 AATTAACCG
*
85470535 AATTAATCG
1 AATTAACCG
85470544 AATTAACCG
1 AATTAACCG
*
85470553 AATTAACCA
1 AATTAACCG
85470562 AATTA
1 AATTA
85470567 TTTGTATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:85470598 original size:6 final size:6
Alignment explanation
Indices: 85470587--85470651 Score: 94
Period size: 6 Copynumber: 10.5 Consensus size: 6
85470577 ATTATATGTT
* *
85470587 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA
85470637 TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
85470652 ATTAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
6 45 0.85
7 7 0.13
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:85470623 original size:32 final size:32
Alignment explanation
Indices: 85470587--85470648 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
85470577 ATTATATGTT
85470587 TTTTTATTTTTATTTTTAGTTTTAGTTTTAGA
1 TTTTTATTTTTATTTTTAGTTTTAGTTTTAGA
* *
85470619 TTTTTATTTTTATTTTTATTTTTATTTTTA
1 TTTTTATTTTTATTTTTAGTTTTAGTTTTA
85470649 TTTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (32 bp):
TTTTTATTTTTATTTTTAGTTTTAGTTTTAGA
Found at i:85470661 original size:18 final size:18
Alignment explanation
Indices: 85470622--85470674 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
85470612 TTTTAGATTT
**
85470622 TTATTTTTATTTTTATTT
1 TTATTTTTATTTTTATAA
85470640 TTATTTTTATTTATTA-AA
1 TTATTTTTATTT-TTATAA
*
85470658 TTATTTGTAATTTTTAT
1 TTATTT-TTATTTTTAT
85470675 GATTGGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TTATTTTTATTTTTATAA
Found at i:85470700 original size:18 final size:18
Alignment explanation
Indices: 85470677--85470713 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
85470667 ATTTTTATGA
85470677 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
*
85470695 TTGGGTTGGGTAATTGGG
1 TTGGGTTGAGTAATTGGG
85470713 T
1 T
85470714 CAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.41
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:85473192 original size:47 final size:47
Alignment explanation
Indices: 85473126--85473219 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
85473116 CCTATTTTAC
85473126 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
1 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
85473173 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
1 ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
85473220 TCTTCATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (47 bp):
ACAATGGGCTATCTGTAAATGAATATTTTGAGAATTTAGTAATGTTT
Found at i:85476432 original size:227 final size:229
Alignment explanation
Indices: 85476141--85476598 Score: 785
Period size: 231 Copynumber: 2.0 Consensus size: 229
85476131 GTTTTAGTAA
* ** **
85476141 TATACTAAACAATGTTGATAATTTAAATTCAGTGCTTATATATTTAGTATCTAGTTTTCAGCA-T
1 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATACGTAGTAGATAGTTTTCAGCATT
85476205 -TTTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAG
66 ATTTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAG
*
85476269 AAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGTT
131 AAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGCT
*
85476334 GTGTATTTTCGATGCTATCACATTGGCTCAACCC
196 GTGTACTTTCGATGCTATCACATTGGCTCAACCC
* *
85476368 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATCTCCGTAGTAGATAGTTTTCAGCATT
1 TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATACGTAGTAGATAGTTTTCAGCA-T
*
85476433 TAATTTTTAAGATTATAGAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAA
65 T-ATTTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAA
85476498 AGAAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATG
129 AGAAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATG
*
85476563 CTGTGTACTTTCGGTGCTATCACATTGGCTCAACCC
194 CTGTGTACTTTCGATGCTATCACATTGGCTCAACCC
85476599 CTACCCCCTG
Statistics
Matches: 216, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
227 56 0.26
229 1 0.00
231 159 0.74
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (229 bp):
TATACTAAACAATGTTGATAATTCAAATTCAGTGCTTATATACGTAGTAGATAGTTTTCAGCATT
ATTTTTAAGATTATAAAACAACACATAAGTTAAAGATAGTCATGGTAATCCAAAATAAAATAAAG
AAAATAGCCCCCAAAAGCATAAACCCCTTTTAACAAAAATATGGTATATGGTGAAGTGTCATGCT
GTGTACTTTCGATGCTATCACATTGGCTCAACCC
Found at i:85493310 original size:26 final size:26
Alignment explanation
Indices: 85493281--85493331 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
85493271 TAATTTTTTT
* *
85493281 TTGAAAATTTTACCTTTGGTAAAATG
1 TTGAAAATTTTACCCTTAGTAAAATG
**
85493307 TTGACCATTTTACCCTTAGTAAAAT
1 TTGAAAATTTTACCCTTAGTAAAAT
85493332 TTCGAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (26 bp):
TTGAAAATTTTACCCTTAGTAAAATG
Found at i:85501781 original size:34 final size:34
Alignment explanation
Indices: 85501743--85501822 Score: 88
Period size: 40 Copynumber: 2.2 Consensus size: 34
85501733 CTATGTCCCG
* *
85501743 TGTCCCTCACACGGCTATGACACGCCCGTGTCTA
1 TGTCCCTCACACGACCATGACACGCCCGTGTCTA
85501777 TGTCCGTGTTCCTCACACGACCATGACACGCCCGTGTCTA
1 TGT-C-----CCTCACACGACCATGACACGCCCGTGTCTA
85501817 TGTCCC
1 TGTCCC
85501823 ATGTCCCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
34 5 0.13
35 1 0.03
39 1 0.03
40 31 0.82
ACGTcount: A:0.16, C:0.39, G:0.20, T:0.25
Consensus pattern (34 bp):
TGTCCCTCACACGACCATGACACGCCCGTGTCTA
Found at i:85501795 original size:40 final size:41
Alignment explanation
Indices: 85501707--85501849 Score: 216
Period size: 41 Copynumber: 3.5 Consensus size: 41
85501697 ACAGGGGTTT
**
85501707 TCACACGGCCTAAAACACGCCCGTGTCTATGTCCCGTGTCCC
1 TCACACGG-CTATGACACGCCCGTGTCTATGTCCCGTGTCCC
*
85501749 TCACACGGCTATGACACGCCCGTGTCTATGT-CCGTGTTCC
1 TCACACGGCTATGACACGCCCGTGTCTATGTCCCGTGTCCC
* * *
85501789 TCACACGACCATGACACGCCCGTGTCTATGTCCCATGTCCC
1 TCACACGGCTATGACACGCCCGTGTCTATGTCCCGTGTCCC
85501830 TCACACGGCTATGACACGCC
1 TCACACGGCTATGACACGCC
85501850 TTTGTCCAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 37 0.41
41 46 0.51
42 8 0.09
ACGTcount: A:0.19, C:0.39, G:0.20, T:0.22
Consensus pattern (41 bp):
TCACACGGCTATGACACGCCCGTGTCTATGTCCCGTGTCCC
Found at i:85507083 original size:17 final size:17
Alignment explanation
Indices: 85507063--85507103 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
85507053 ATGATTTAAC
85507063 ACATGCATTGCTCATTA
1 ACATGCATTGCTCATTA
85507080 ACATGCATTGCTCATTA
1 ACATGCATTGCTCATTA
85507097 ACATGCA
1 ACATGCA
85507104 AAAGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (17 bp):
ACATGCATTGCTCATTA
Found at i:85513876 original size:23 final size:22
Alignment explanation
Indices: 85513850--85513895 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
85513840 TGTGATGACG
85513850 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
85513873 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
85513895 T
1 T
85513896 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:85520363 original size:28 final size:28
Alignment explanation
Indices: 85520300--85520509 Score: 332
Period size: 28 Copynumber: 7.5 Consensus size: 28
85520290 ATATTAAGTC
*
85520300 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
85520327 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
85520355 CGCACACTTAGTGCTACATATTCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85520383 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
85520411 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
85520439 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
85520467 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
85520496 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85520510 CAATCTCATG
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.13
28 129 0.76
29 19 0.11
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:85523784 original size:23 final size:22
Alignment explanation
Indices: 85523758--85523803 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
85523748 TGTGATGACG
85523758 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
85523781 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
85523803 T
1 T
85523804 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:85527046 original size:6 final size:6
Alignment explanation
Indices: 85527032--85527070 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
85527022 GGATTGTAAG
* * *
85527032 TTTCCA TTTCTA TTTCTA TTTCTA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
85527071 TTGGAAGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTCCA
Found at i:85527052 original size:12 final size:12
Alignment explanation
Indices: 85527032--85527070 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
85527022 GGATTGTAAG
85527032 TTTCCATTTCTA
1 TTTCCATTTCTA
*
85527044 TTTCTATTTCTA
1 TTTCCATTTCTA
*
85527056 TTTCCATTTCCA
1 TTTCCATTTCTA
85527068 TTT
1 TTT
85527071 TTGGAAGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTCTA
Found at i:85533617 original size:44 final size:44
Alignment explanation
Indices: 85533567--85533654 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
85533557 TAAACTCATA
*
85533567 CCTTAATTAAGCTCCAAATTGGCTGAACCCTAGCTTTGTGTTCT
1 CCTTAATTAAGCTCCAAATTGGCTGAACCCTAGCTTTGGGTTCT
*
85533611 CCTTAATTAAGCTCCAAATTGGCTGAATCCTAGCTTTGGGTTCT
1 CCTTAATTAAGCTCCAAATTGGCTGAACCCTAGCTTTGGGTTCT
85533655 TTCTTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (44 bp):
CCTTAATTAAGCTCCAAATTGGCTGAACCCTAGCTTTGGGTTCT
Found at i:85538705 original size:28 final size:28
Alignment explanation
Indices: 85538647--85538706 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
85538637 CGTAATTTTC
* * *
85538647 CCTTTACATAGATAACCATAGAAGTCTT
1 CCTTTACATAGATAACCAAAGAAGGCAT
85538675 CCTTTGACATAGATAACCAAAG-AGGCAT
1 CCTTT-ACATAGATAACCAAAGAAGGCAT
85538703 CCTT
1 CCTT
85538707 ACAGAATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (28 bp):
CCTTTACATAGATAACCAAAGAAGGCAT
Found at i:85541501 original size:37 final size:37
Alignment explanation
Indices: 85541446--85541562 Score: 171
Period size: 37 Copynumber: 3.1 Consensus size: 37
85541436 CGGCGAGACC
* * *
85541446 CTTAGCTCAGACGAAATCTCCACACGAAGTTATCGGGT
1 CTTA-CTCAGACAAAATCTCCACACGTAGTCATCGGGT
85541484 CTTACTCAGACAAAATCTCCACACGTAGTCATCGGGT
1 CTTACTCAGACAAAATCTCCACACGTAGTCATCGGGT
* * *
85541521 CTCACCCGGACAAAATCTCCACACGTAGTCATCGGGT
1 CTTACTCAGACAAAATCTCCACACGTAGTCATCGGGT
85541558 CTTAC
1 CTTAC
85541563 CCGGAATATA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 68 0.94
38 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
CTTACTCAGACAAAATCTCCACACGTAGTCATCGGGT
Found at i:85541565 original size:37 final size:37
Alignment explanation
Indices: 85541459--85541567 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
85541449 AGCTCAGACG
* * * *
85541459 AAATCTCCACACGAAGTTATCGGGTCTTACTCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
85541496 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
85541533 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
85541568 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:85541772 original size:50 final size:50
Alignment explanation
Indices: 85541718--85541814 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
85541708 ATCGCCTACG
85541718 TATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATATA
1 TATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATATA
* * *
85541768 TATTTCACATTGACCATTCGGCTTTACCACGTATGCATATCTCATAT
1 TATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATAT
85541815 TCATCACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (50 bp):
TATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATATA
Found at i:85541871 original size:47 final size:47
Alignment explanation
Indices: 85541772--85541964 Score: 255
Period size: 47 Copynumber: 4.1 Consensus size: 47
85541762 TATATATATT
* * * * *
85541772 TCACATTGACCATTCGGCTTTA-C-CACGTATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACATTCA
85541818 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
85541865 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * **
85541912 TCACATTGGCCATTCGGCCTTATCTCATATATACATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
85541959 TCACAT
1 TCACAT
85541965 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 20 0.15
47 105 0.78
48 10 0.07
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:85541892 original size:22 final size:22
Alignment explanation
Indices: 85541817--85541935 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
85541807 TCTCATATTC
85541817 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
85541839 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
85541863 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
85541886 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
85541910 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
85541933 ATC
1 ATC
85541936 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:85545408 original size:56 final size:56
Alignment explanation
Indices: 85545322--85545441 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
85545312 ACAAGGGATG
85545322 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
85545378 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGT
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
85545434 ATGGGCAA
1 ATGGGCAA
85545442 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:85546913 original size:45 final size:48
Alignment explanation
Indices: 85546822--85546935 Score: 189
Period size: 45 Copynumber: 2.4 Consensus size: 48
85546812 TATTCATTGG
85546822 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCC
85546871 AATGTGATGAATGTGAAAGTG-TATATATGTGATAA-G-CTAATGGCC
1 AATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
*
85546916 GATGTGATGAATGTGAAAGT
1 AATGTGATGAATGTGAAAGT
85546936 ATAAGGCCTA
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
45 28 0.44
46 1 0.02
47 14 0.22
49 21 0.33
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
AATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
Found at i:85546950 original size:35 final size:36
Alignment explanation
Indices: 85546907--85547001 Score: 148
Period size: 31 Copynumber: 2.8 Consensus size: 36
85546897 ATGTGATAAG
85546907 CTAATGGCCGATGTGATGAATGTGAAAGTATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTATAAGGC
85546943 CT-ATGGCCGATGTGATGAATGT----G-ATAAGGC
1 CTAATGGCCGATGTGATGAATGTGAAAGTATAAGGC
85546973 CTAATGGCCGATGTGATGAATGTGAAAGT
1 CTAATGGCCGATGTGATGAATGTGAAAGT
85547002 GTATATATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
30 9 0.17
31 21 0.40
35 21 0.40
36 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.26
Consensus pattern (36 bp):
CTAATGGCCGATGTGATGAATGTGAAAGTATAAGGC
Found at i:85547034 original size:47 final size:47
Alignment explanation
Indices: 85546961--85547441 Score: 720
Period size: 47 Copynumber: 10.2 Consensus size: 47
85546951 GATGTGATGA
* *
85546961 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATAT
85547008 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TATAT
*
85547057 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
85547104 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
85547151 ATGAGATAAGGCCGAATGG-CAATGTGATGAATGTGAACATGTGTAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
85547197 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
85547244 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
* *
85547291 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
*
85547338 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATAT
* * *
85547385 ATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTGTATAA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATAT
85547432 ATGTGATAAG
1 ATGTGATAAG
85547442 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 29, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
46 43 0.11
47 307 0.77
48 3 0.01
49 45 0.11
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATAT
Found at i:85547300 original size:187 final size:189
Alignment explanation
Indices: 85546965--85547426 Score: 797
Period size: 187 Copynumber: 2.4 Consensus size: 189
85546955 TGATGAATGT
* *
85546965 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
85547030 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG-ACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
85547095 CATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
130 CATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
* *
85547155 GATAAGGCCGAATGG-CAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
85547218 AATGTGATGAATGTGAACA-TG-CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
65 AATGTGATGAATGTGAA-AGTGACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
85547281 ACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
129 ACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
85547342 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
85547407 ATGTGATGGATGTGGAAGTG
66 ATGTGATGAATGTGAAAGTG
85547427 TATAAATGTG
Statistics
Matches: 257, Mismatches: 10, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
187 118 0.46
188 61 0.24
189 62 0.24
190 16 0.06
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (189 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
ATGTGATGAATGTGAAAGTGACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
Found at i:85547319 original size:22 final size:22
Alignment explanation
Indices: 85547292--85547413 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
85547282 CATGTGTATG
85547292 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
85547314 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
85547339 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
85547361 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
85547386 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
85547408 TGTGAT
1 TGTGAT
85547414 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:85549352 original size:40 final size:40
Alignment explanation
Indices: 85549318--85549669 Score: 506
Period size: 40 Copynumber: 8.8 Consensus size: 40
85549308 CCAGCATGAT
* * *
85549318 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
85549358 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
85549398 TGCTCTTCGGAACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
85549438 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
85549478 TGCTCTTCGGAACTTAGCCCGGATAAATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
85549518 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
85549558 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
85549598 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
85549638 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
85549670 CTCAATTCTC
Statistics
Matches: 272, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 272 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:85550997 original size:37 final size:37
Alignment explanation
Indices: 85550938--85551083 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
85550928 AGCTCAGACG
* * * *
85550938 AAATCTCTACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
85550975 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
85551012 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
*
85551049 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
85551084 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
Found at i:85551288 original size:50 final size:50
Alignment explanation
Indices: 85551234--85551330 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
85551224 ATCGCCTACG
85551234 TATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATATATA
1 TATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATATA
* * *
85551284 TATTTCACATTGACCATTCGGCTTTACCACGTATGCATATCTCATAT
1 TATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATAT
85551331 TCATCACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (50 bp):
TATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATATA
Found at i:85551387 original size:47 final size:47
Alignment explanation
Indices: 85551288--85551480 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
85551278 TATATATATT
* * * * *
85551288 TCACATTGACCATTCGGCTTTA-C-CACGTATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACATTCA
*
85551334 TCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
85551381 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * **
85551428 TCACATTGGCCATTCGGCCTTATCTCATATATACATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
85551475 TCACAT
1 TCACAT
85551481 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 20 0.15
47 104 0.78
48 9 0.07
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:85551407 original size:22 final size:22
Alignment explanation
Indices: 85551380--85551451 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
85551370 GCTCACATTC
85551380 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
85551402 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
85551426 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
85551449 ATC
1 ATC
85551452 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:85554675 original size:46 final size:46
Alignment explanation
Indices: 85554590--85554763 Score: 135
Period size: 46 Copynumber: 3.7 Consensus size: 46
85554580 ATCTCGTAGC
* * * *
85554590 TGATGCATGTCCCCAG-TATCTCTTACACTGGCT-TACGTCTTGAGGT
1 TGATGCATGT-CCCAGACATGTCTTACACTAGCTCT-CGTCTTAAGGT
* * * *
85554636 TGATGTATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAACGC
1 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAGGT
* *
85554682 CGATGCCATGTCCCA-AGCATGGTCTTACACTAG--CTC-TCATAAGGTTT
1 TGATG-CATGTCCCAGA-CAT-GTCTTACACTAGCTCTCGTCTTAAGG--T
*
85554729 CTGATGCATGTCCTAGACATGTCTTACACTAGCTC
1 -TGATGCATGTCCCAGACATGTCTTACACTAGCTC
85554764 ACACACAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
45 10 0.10
46 50 0.50
47 23 0.23
48 18 0.18
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAGGT
Found at i:85554754 original size:140 final size:140
Alignment explanation
Indices: 85554502--85554758 Score: 299
Period size: 140 Copynumber: 1.8 Consensus size: 140
85554492 TATCAATGCC
* * *
85554502 ATGTCCTAGACATGGTCTTACAATGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAGACATGGTCTTACAATAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
* ** *
85554567 TACATTGACTATCATCTCGTAGCTGATGCATGTCCCCAGTATCTCTTACACTGGCTTACGTCTTG
66 TACATAGACTATCATAACGTAGCTGATGCATGTCCCCAGCATCTCTTACACTGGCTTACGTCTTG
85554632 AGGTTGATGT
131 AGGTTGATGT
* *
85554642 ATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAACGCCGATGCCATGTCCCA-AGCATGG
1 ATGTCCCAGACATGGTCTTACAATAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAGA-CATGG
* * ** * *
85554704 TCTTACACTAG-CTCTCATAAGGTTTCTGATGCATGT-CCTAGACATGTCTTACACT
63 TCTTACA-TAGACTATCATAACGTAGCTGATGCATGTCCCCAG-CATCTCTTACACT
85554759 AGCTCACACA
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
138 1 0.01
139 24 0.25
140 70 0.72
141 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (140 bp):
ATGTCCCAGACATGGTCTTACAATAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTCT
TACATAGACTATCATAACGTAGCTGATGCATGTCCCCAGCATCTCTTACACTGGCTTACGTCTTG
AGGTTGATGT
Found at i:85559719 original size:27 final size:27
Alignment explanation
Indices: 85559679--85559736 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
85559669 ACTCTCTAAT
* *
85559679 TGATAAAATGACTGTTATGCCCCTGTG
1 TGATAAAATAACTGTTATGCCCCTATG
85559706 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTGTTATGCCCCTATG
85559733 TGAT
1 TGAT
85559737 GTATGATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (27 bp):
TGATAAAATAACTGTTATGCCCCTATG
Found at i:85560749 original size:29 final size:29
Alignment explanation
Indices: 85560716--85560780 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
85560706 AAGGCGCATT
85560716 TAACAGAA-CCAGCCACAAAGGCTCTCATA
1 TAACA-AAGCCAGCCACAAAGGCTCTCATA
** *
85560745 TAACAAAGTTAGCCACAAGGGCTCTCATA
1 TAACAAAGCCAGCCACAAAGGCTCTCATA
*
85560774 TGACAAA
1 TAACAAA
85560781 ATTATCCAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.42, C:0.26, G:0.15, T:0.17
Consensus pattern (29 bp):
TAACAAAGCCAGCCACAAAGGCTCTCATA
Found at i:85560964 original size:28 final size:29
Alignment explanation
Indices: 85560932--85561007 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
85560922 AAGAATAGAA
* *
85560932 ACAAAGGCTTCCATATATCTGAGAACA-T
1 ACAAAGGCTTCCATATATATGAGAACACC
* *
85560960 ACAAAGGCTTCCATATATATGATAATAGCC
1 ACAAAGGCTTCCATATATATGAGAACA-CC
85560990 ACAAAGGCTTCCATATAT
1 ACAAAGGCTTCCATATAT
85561008 TCGGTAAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 24 0.57
30 18 0.43
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (29 bp):
ACAAAGGCTTCCATATATATGAGAACACC
Found at i:85574775 original size:12 final size:12
Alignment explanation
Indices: 85574758--85574783 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85574748 CATAGTACAC
85574758 TACAATTCAATT
1 TACAATTCAATT
85574770 TACAATTCAATT
1 TACAATTCAATT
85574782 TA
1 TA
85574784 ACTACAAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (12 bp):
TACAATTCAATT
Found at i:85578691 original size:30 final size:30
Alignment explanation
Indices: 85578655--85578714 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
85578645 ATTAGAATTT
*
85578655 CATCGATAAATACAAAAACAAATCTGTCTA
1 CATCGATAAATACAAAAACAAATCTATCTA
85578685 CATCGATAAATACAAAAACAAATCTATCTA
1 CATCGATAAATACAAAAACAAATCTATCTA
85578715 AGTACGGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (30 bp):
CATCGATAAATACAAAAACAAATCTATCTA
Found at i:85587820 original size:13 final size:13
Alignment explanation
Indices: 85587802--85587846 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
85587792 TGTGTCCTCC
85587802 ACACGGATGAGAT
1 ACACGGATGAGAT
* *
85587815 ACACGGCTGTGAT
1 ACACGGATGAGAT
85587828 ACACGGATGAGAT
1 ACACGGATGAGAT
85587841 ACACGG
1 ACACGG
85587847 CCGTGATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (13 bp):
ACACGGATGAGAT
Found at i:85587831 original size:26 final size:26
Alignment explanation
Indices: 85587802--85587859 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
85587792 TGTGTCCTCC
*
85587802 ACACGGATGAGATACACGGCTGTGAT
1 ACACGGATGAGATACACGGCCGTGAT
85587828 ACACGGATGAGATACACGGCCGTGAT
1 ACACGGATGAGATACACGGCCGTGAT
85587854 ACACGG
1 ACACGG
85587860 CCGTGTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (26 bp):
ACACGGATGAGATACACGGCCGTGAT
Found at i:85587854 original size:13 final size:13
Alignment explanation
Indices: 85587812--85587864 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
85587802 ACACGGATGA
*
85587812 GATACACGGCTGT
1 GATACACGGCCGT
** *
85587825 GATACACGGATGA
1 GATACACGGCCGT
85587838 GATACACGGCCGT
1 GATACACGGCCGT
85587851 GATACACGGCCGT
1 GATACACGGCCGT
85587864 G
1 G
85587865 TCTCTGCCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (13 bp):
GATACACGGCCGT
Found at i:85590034 original size:79 final size:82
Alignment explanation
Indices: 85589923--85590107 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
85589913 GCTACTCGTT
* * *
85589923 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
85589986 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
85590003 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
85590066 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
85590083 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85590108 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:85590107 original size:40 final size:40
Alignment explanation
Indices: 85589904--85590107 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
85589894 CGGAATTTAA
** *
85589904 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85589944 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85589984 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85590023 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85590063 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85590103 CCGGA
1 CCGGA
85590108 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.