Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 366 of 427
Found at i:106184337 original size:117 final size:118
Alignment explanation
Indices: 106184174--106184419 Score: 352
Period size: 117 Copynumber: 2.1 Consensus size: 118
106184164 TCCAAAAAAT
* * * * *
106184174 TAATTAATATATTTTCTAGATATTTTTATTTTTAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAATACATTTTCCAAATATTTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* * * * *
106184239 GTTC-AAAAAATTAGAGTCGACATCTTTAAAAAGGGGAAAATTTAATTTTGTTG
66 G-TCAAAAAAATTAGAGTCAACATCTTAAAAAAGGAGAAAAATTAATTTTGTTA
* *
106184292 TAATTAGTACATTTTCCAAATA-TTTCATTTTCAACATTTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAATACATTTTCCAAATATTTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
*
106184356 GTCAAAAAAATTAGAGTCAACATCTTAAAAAATGAGAAAAATTAATTTTGTTA
66 GTCAAAAAAATTAGAGTCAACATCTTAAAAAAGGAGAAAAATTAATTTTGTTA
106184409 TAATTAATACA
1 TAATTAATACA
106184420 ATAAATAGGC
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
116 2 0.02
117 93 0.82
118 18 0.16
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (118 bp):
TAATTAATACATTTTCCAAATATTTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCAAAAAAATTAGAGTCAACATCTTAAAAAAGGAGAAAAATTAATTTTGTTA
Found at i:106184442 original size:2 final size:2
Alignment explanation
Indices: 106184435--106184465 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
106184425 TAGGCATAGT
106184435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106184466 GTTTCTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106193822 original size:21 final size:20
Alignment explanation
Indices: 106193796--106193842 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
106193786 GAGTTTGTTT
*
106193796 TTTTTTAAGTATTAATGAGAA
1 TTTTTTAA-TAGTAATGAGAA
*
106193817 TTTTTT-ATAGTAATTAGAA
1 TTTTTTAATAGTAATGAGAA
106193836 TTTTTTA
1 TTTTTTA
106193843 GAATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 16 0.70
20 1 0.04
21 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTTTAATAGTAATGAGAA
Found at i:106200970 original size:25 final size:25
Alignment explanation
Indices: 106200942--106200993 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
106200932 TTTGACTTGA
**
106200942 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
106200967 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
106200992 CA
1 CA
106200994 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:106205376 original size:101 final size:101
Alignment explanation
Indices: 106205201--106205403 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
106205191 AAATCTTTTT
106205201 TTTCTATCAACCTTTATTCTTTTTTTCAATACGCTTTTTCTAACAAATTTAAAGAAAATACCGTT
1 TTTCTATCAACCTTTATTCTTTTTTTCAATACGCTTTTTCTAACAAATTTAAAGAAAATACCGTT
106205266 AAAAAAGTTAACAGGGATGATGTAGACTTTCATATG
66 AAAAAAGTTAACAGGGATGATGTAGACTTTCATATG
106205302 TTTCTATCAACCTTTATTCTTTTTTTCAATACGCTTTTTCTAACAAATTTAAAGAAAATACCGTT
1 TTTCTATCAACCTTTATTCTTTTTTTCAATACGCTTTTTCTAACAAATTTAAAGAAAATACCGTT
106205367 AAAAAAGTTAACAGGGATGATGTAGACTTTCATATG
66 AAAAAAGTTAACAGGGATGATGTAGACTTTCATATG
106205403 T
1 T
106205404 GAAATATTTT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (101 bp):
TTTCTATCAACCTTTATTCTTTTTTTCAATACGCTTTTTCTAACAAATTTAAAGAAAATACCGTT
AAAAAAGTTAACAGGGATGATGTAGACTTTCATATG
Found at i:106207366 original size:11 final size:10
Alignment explanation
Indices: 106207345--106207370 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
106207335 TTTTTTTACC
106207345 TTTTCTTTTT
1 TTTTCTTTTT
106207355 TTTTCTTTTT
1 TTTTCTTTTT
106207365 TTTTCT
1 TTTTCT
106207371 CATTCTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:106208465 original size:46 final size:46
Alignment explanation
Indices: 106208409--106208592 Score: 287
Period size: 46 Copynumber: 4.0 Consensus size: 46
106208399 TTCTGTCATG
* *
106208409 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
* * * *
106208455 TTGCCATGGTATCTTTCAACCATTGTCTTACTCATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
** *
106208501 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
106208547 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
106208593 GAGCACACTC
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAGA
Found at i:106210687 original size:16 final size:16
Alignment explanation
Indices: 106210668--106210706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
106210658 AATTTTTCCC
*
106210668 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
*
106210684 TTTTCCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
106210700 TCTTTCC
1 TTTTTCC
106210707 CCTGCTCTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:106210764 original size:16 final size:18
Alignment explanation
Indices: 106210735--106210775 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
106210725 TCATCCTTTC
106210735 TTTCTTTTTCTATT-CTT
1 TTTCTTTTTCTATTCCTT
106210752 TTTCTTTTT-TATTCCTT
1 TTTCTTTTTCTATTCCTT
*
106210769 TTACTTT
1 TTTCTTT
106210776 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:106212416 original size:42 final size:42
Alignment explanation
Indices: 106212350--106212525 Score: 178
Period size: 42 Copynumber: 4.0 Consensus size: 42
106212340 CTTCGTTTTC
** * *
106212350 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
106212393 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
106212434 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---A-TTCACATA
*
106212483 TCGATGCCATAGCCCAGCTATGGACTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
106212524 TC
1 TC
106212526 TCACTGATGC
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
41 11 0.10
42 61 0.54
43 2 0.02
45 2 0.02
47 1 0.01
48 1 0.01
49 36 0.32
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:106212494 original size:49 final size:48
Alignment explanation
Indices: 106212431--106212552 Score: 167
Period size: 49 Copynumber: 2.6 Consensus size: 48
106212421 ACATATTCAT
106212431 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACATCAC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACACATCAC
* * *
106212480 ATATCGATGCCATAGCCCAGCTATGGACTTACACGAATCACATATCTC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACACATCAC
* * *
106212528 A-CT-GATGCCATATCCCAGATATGGT
1 ATATCGATGCCATAGCCCAGCTATGGT
106212553 TTTATACAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 19 0.29
47 1 0.02
48 12 0.18
49 34 0.52
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACACATCAC
Found at i:106212660 original size:31 final size:31
Alignment explanation
Indices: 106212625--106212773 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
106212615 CTTGTCACTT
106212625 GTAGCCGAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
* *
106212656 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
106212687 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
106212718 GTAGCAGAAGCTACAACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
106212749 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
106212774 TGTCATTTAT
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
31 106 0.98
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:106212859 original size:50 final size:51
Alignment explanation
Indices: 106212749--106212877 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
106212739 CACTGATCAG
* * *
106212749 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
* *
106212800 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
106212850 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
106212878 TTCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:106216008 original size:29 final size:29
Alignment explanation
Indices: 106215919--106215995 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
106215909 ATTAACGCTC
* *
106215919 AGTGACTAAAATGTTACAACATGA-TAACGTA
1 AGTGACTAAAATG-T--AACATGACAAACATA
**
106215950 AGTGACTAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATGACAAACATA
106215979 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
106215996 CTGAGATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.12
29 22 0.54
30 1 0.02
31 13 0.32
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATGACAAACATA
Found at i:106223617 original size:32 final size:33
Alignment explanation
Indices: 106223571--106223635 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
106223561 TCATGTATAT
*
106223571 TTTGAGCTACTGTAGTATAA-TATATTAATAAA
1 TTTGAACTACTGTAGTATAATTATATTAATAAA
*
106223603 TTTGAACTATTGTAGTATAATTATATTAATAAA
1 TTTGAACTACTGTAGTATAATTATATTAATAAA
106223636 ATGAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (33 bp):
TTTGAACTACTGTAGTATAATTATATTAATAAA
Found at i:106224787 original size:108 final size:111
Alignment explanation
Indices: 106224661--106224915 Score: 408
Period size: 108 Copynumber: 2.3 Consensus size: 111
106224651 TGTTTAAAAA
106224661 AACACGTCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTA
1 AACAC-TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTA
*
106224726 TTATTTAAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACT
65 TTATTTAAAACTTATTACAACTTAACATATCATTGTTTTGTTAAACT
* *
106224773 -A-A-TCAAAAAATTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTAT
1 AACACTCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTAT
** *
106224835 TATTTAAAACTTATTACAGTTTAACATATTATTGTTTTGTTAAACT
66 TATTTAAAACTTATTACAACTTAACATATCATTGTTTTGTTAAACT
106224881 AAACACGTCAAAAATTTTATCAGAGTAATTAACAA
1 -AACAC-TCAAAAATTTTATCAGAGTAATTAACAA
106224916 TATTAATTAG
Statistics
Matches: 130, Mismatches: 8, Indels: 9
0.88 0.05 0.06
Matches are distributed among these distances:
108 100 0.77
110 2 0.02
111 2 0.02
113 26 0.20
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (111 bp):
AACACTCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTAT
TATTTAAAACTTATTACAACTTAACATATCATTGTTTTGTTAAACT
Found at i:106225876 original size:27 final size:27
Alignment explanation
Indices: 106225838--106225900 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
106225828 ATACATACAT
* *
106225838 GTTGCGCCTATCTAACAGGCTCAACTA
1 GTTGAGCCTATCTAACAGGCACAACTA
* * *
106225865 GTTGAGCCTATCTGATAGGCACGACTA
1 GTTGAGCCTATCTAACAGGCACAACTA
*
106225892 GTTGTGCCT
1 GTTGAGCCT
106225901 TCTTGGTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (27 bp):
GTTGAGCCTATCTAACAGGCACAACTA
Found at i:106230277 original size:113 final size:113
Alignment explanation
Indices: 106229959--106230508 Score: 929
Period size: 113 Copynumber: 4.8 Consensus size: 113
106229949 CACAAAACAA
* *
106229959 CTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACACACTAAACC
1 CTATAAAATTATTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAAT--ACACTAAACC
* *
106230024 ACTAAACACTAATAATATATATAACCTAATCTTAAATTACTAATAAAATAG
63 ACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
*
106230075 CTATAAAATTATTTTTTTAAAATATGTTACTAAAAAAAATCACAATACACTAATACACTAAACCA
1 CTATAAAATTA-TTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAATACACTAAACCA
106230140 CTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
64 CTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
*
106230190 CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACACTAATACACTAAACCACT
1 CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
* *
106230255 AAACGCTAACAATTTATTTAACCTAATCTTAAATTACTAATAAAATAG
66 AAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
*
106230303 CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACACTAATACACTAAACCACT
1 CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
* *
106230368 AAACGCTAACAATTTATTTAACCTAATCTTAAATTACTAATAAAATAG
66 AAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
* * *
106230416 CTATACAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACT
1 CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
106230481 AAACACTAACAATTTATATAACCTAATC
66 AAACACTAACAATTTATATAACCTAATC
106230509 AACTATAAAA
Statistics
Matches: 418, Mismatches: 15, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
113 280 0.67
114 18 0.04
115 70 0.17
116 11 0.03
117 39 0.09
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (113 bp):
CTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
AAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
Found at i:106231334 original size:11 final size:12
Alignment explanation
Indices: 106231306--106231334 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
106231296 GTTATTAATA
106231306 TAATTTAGTTCT
1 TAATTTAGTTCT
106231318 TAATTTAGTTC-
1 TAATTTAGTTCT
106231329 TAATTT
1 TAATTT
106231335 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:106231455 original size:20 final size:23
Alignment explanation
Indices: 106231432--106231482 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
106231422 ATTTTTTTTG
106231432 TTTTAAT-ATTTG-TTT-TTATA
1 TTTTAATCATTTGATTTATTATA
106231452 TTTTAAATGCATTTGATTTATTATA
1 TTTT-AAT-CATTTGATTTATTATA
106231477 TTTTAA
1 TTTTAA
106231483 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.15
21 3 0.12
23 5 0.19
24 5 0.19
25 9 0.35
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (23 bp):
TTTTAATCATTTGATTTATTATA
Found at i:106231488 original size:23 final size:22
Alignment explanation
Indices: 106231439--106231488 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
106231429 TTGTTTTAAT
*
106231439 ATTTGTTTTTATATTTTAAATGC
1 ATTTGTTTTTATATTTTAAA-GA
106231462 ATTTGATTTATTATATTTTAAA-A
1 ATTTG-TTT-TTATATTTTAAAGA
106231485 ATTT
1 ATTT
106231489 TTATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.38
24 3 0.12
25 12 0.50
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (22 bp):
ATTTGTTTTTATATTTTAAAGA
Found at i:106233956 original size:3 final size:3
Alignment explanation
Indices: 106233948--106234008 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
106233938 GGGATTTAAA
* * * * * *
106233948 AAT AAT AAT ATT AAT AAT GAT GAT AGT AAT ATT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
106233996 AAT ACA- AAT AAT A
1 AAT A-AT AAT AAT A
106234009 GATATTCTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.96
4 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:106233998 original size:21 final size:21
Alignment explanation
Indices: 106233951--106234008 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
106233941 ATTTAAAAAT
* * *
106233951 AATAATATTAATAATGATGAT
1 AATAATATTAATAATAATAAC
*
106233972 AGTAATATTAATAATAATAAC
1 AATAATATTAATAATAATAAC
**
106233993 AATAATACAAATAATA
1 AATAATATTAATAATA
106234009 GATATTCTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
AATAATATTAATAATAATAAC
Found at i:106234134 original size:3 final size:3
Alignment explanation
Indices: 106234128--106234203 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
106234118 AAAAGAAAAT
* * * * *
106234128 ATA ATA ATG ATA ATA ATA ATA GTA AT- ACA ATA GTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
106234175 ATA ATA TTA ATA ATA AAA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
106234204 TAATTTTAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
2 1 0.02
3 55 0.98
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:106235950 original size:54 final size:57
Alignment explanation
Indices: 106235879--106235986 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
106235869 ATAAACAATA
**
106235879 TAATAGTTTTGTCTTTTAAC-TT-AATGA-GTAAACATTTATCAAAACAATGTAGTT
1 TAATAGTTTTGTCTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTAGTT
* * *
106235933 TAATGGTTTTGAT-TTTTAACTTTAAAAAAGGTGAACATTTATCAAAATAATGTA
1 TAATAGTTTTG-TCTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTA
106235987 ATTTTACCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 17 0.38
55 3 0.07
56 3 0.07
57 22 0.49
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (57 bp):
TAATAGTTTTGTCTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTAGTT
Found at i:106240444 original size:2 final size:2
Alignment explanation
Indices: 106240437--106240461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106240427 TAGAGAATAC
106240437 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
106240462 CTAGTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106243697 original size:23 final size:24
Alignment explanation
Indices: 106243665--106243720 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
106243655 AAAAAAACTG
* *
106243665 TTATTTTTTTTCTTCCTA-TTTTT
1 TTATTGTTTTTCTTACTATTTTTT
*
106243688 TTATTG-TTTTGTTACTATTTTTT
1 TTATTGTTTTTCTTACTATTTTTT
*
106243711 TTGTTGTTTT
1 TTATTGTTTT
106243721 CACTATTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (24 bp):
TTATTGTTTTTCTTACTATTTTTT
Found at i:106243714 original size:20 final size:22
Alignment explanation
Indices: 106243684--106243729 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
106243674 TTCTTCCTAT
106243684 TTTTTTATTGTT-TTGTT-ACTA
1 TTTTTTATTGTTGTT-TTCACTA
106243705 TTTTTT-TTGTTGTTTTCACTA
1 TTTTTTATTGTTGTTTTCACTA
106243726 TTTT
1 TTTT
106243730 GCTATTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTTTATTGTTGTTTTCACTA
Found at i:106247628 original size:6 final size:6
Alignment explanation
Indices: 106247617--106247645 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
106247607 AAAGCAAGAG
106247617 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
106247646 GAGAGGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:106252208 original size:281 final size:279
Alignment explanation
Indices: 106251802--106252321 Score: 756
Period size: 281 Copynumber: 1.9 Consensus size: 279
106251792 ATTAAAAGAC
** *
106251802 TAAATTGTGCATAGTAATTTAAAAACATACGAAAATAATAAAATGAAACTTTAGTTGAATGGTAA
1 TAAATTGTGCATAGTAAAATAAAAACATAC-AAAATAATAAAATGAAACTTTAGTTGAATAGTAA
* * *
106251867 ATTTAAGATCTTATTAATTTAATTAGCATGAGTTCAAATCCTACTATATGTATATTTTTATTGGT
65 ATTTAAGATCTTACTAATTTAATTAGCATGAGTTCAAATCCTACAATATGCATATTTTTATTGGT
* **
106251932 TTTTATTAAAATAAAAATACTAAAGTACCCTCAAATAATATAACTTATTTTAATTATAAAAGGTC
130 TTTTATTAAAAT--AAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTC
* * *
106251997 ATTTTTGTAATTTCTCTAATCGAGTTGGTGCTTGGTTGACTGGTAACACCAACTCAGTTAAAGAT
193 ATTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAACACCAACTCAGTTAAAGAT
106252062 TTTATACAACTAATGAAAGTAA
258 TTTATACAACTAATGAAAGTAA
* * *
106252084 TAAATTGTGCCTATTAAAATAAAAACATGA-AAAATAATAAAATGAAACTTTTGTTGAATAGTAA
1 TAAATTGTGCATAGTAAAATAAAAACAT-ACAAAATAATAAAATGAAACTTTAGTTGAATAGTAA
* * * *
106252148 TTTTAAGATTTTACTAATTTAATTGGCAT-ATGTTCAACTCCTACAATATGCATATTTTTATTGG
65 ATTTAAGATCTTACTAATTTAATTAGCATGA-GTTCAAATCCTACAATATGCATATTTTTATTGG
* * * ** *
106252212 TTTTTGTTAAAATAAAGACTAAAGTACTCAAAAATAATATAATTTATTTTAATTATGTAATGTCA
129 TTTTTATTAAAATAAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTCA
106252277 TTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAA
194 TTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAA
106252322 TACTAACATA
Statistics
Matches: 211, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
279 86 0.41
280 1 0.00
281 99 0.47
282 24 0.11
283 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (279 bp):
TAAATTGTGCATAGTAAAATAAAAACATACAAAATAATAAAATGAAACTTTAGTTGAATAGTAAA
TTTAAGATCTTACTAATTTAATTAGCATGAGTTCAAATCCTACAATATGCATATTTTTATTGGTT
TTTATTAAAATAAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTCATT
TTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAACACCAACTCAGTTAAAGATTTT
ATACAACTAATGAAAGTAA
Found at i:106252343 original size:279 final size:280
Alignment explanation
Indices: 106251802--106252345 Score: 754
Period size: 279 Copynumber: 1.9 Consensus size: 280
106251792 ATTAAAAGAC
** *
106251802 TAAATTGTGCATAGTAATTTAAAAACATACGAAAATAATAAAATGAAACTTTAGTTGAATGGTAA
1 TAAATTGTGCATAGTAAAATAAAAACATAC-AAAATAATAAAATGAAACTTTAGTTGAATAGTAA
* * *
106251867 ATTTAAGATCTTATTAATTTAATTAGCATGAGTTCAAATCCTACTATATGTATATTTTTATTGGT
65 ATTTAAGATCTTACTAATTTAATTAGCATGAGTTCAAATCCTACAATATGCATATTTTTATTGGT
* **
106251932 TTTTATTAAAATAAAAATACTAAAGTACCCTCAAATAATATAACTTATTTTAATTATAAAAGGTC
130 TTTTATTAAAAT-AAAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTC
* * * *
106251997 ATTTTTGTAATTTCTCTAATCGAGTTGGTGCTTGGTTGACTGGTAACACCAACTCAGTTAAAGAT
194 ATTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAACACCAACTCAATTAAAGAT
106252062 TTTATACAACTAATGAAAGTAA
259 TTTATACAACTAATGAAAGTAA
* * *
106252084 TAAATTGTGCCTATTAAAATAAAAACATGA-AAAATAATAAAATGAAACTTTTGTTGAATAGTAA
1 TAAATTGTGCATAGTAAAATAAAAACAT-ACAAAATAATAAAATGAAACTTTAGTTGAATAGTAA
* * * *
106252148 TTTTAAGATTTTACTAATTTAATTGGCAT-ATGTTCAACTCCTACAATATGCATATTTTTATTGG
65 ATTTAAGATCTTACTAATTTAATTAGCATGA-GTTCAAATCCTACAATATGCATATTTTTATTGG
* * * ** *
106252212 TTTTTGTTAAAAT-AAAGACTAAAGTACTCAAAAATAATATAATTTATTTTAATTATGTAATGTC
129 TTTTTATTAAAATAAAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTC
* * *
106252276 ATTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAATACTAACAT-AATTAGAGA
194 ATTTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAACACCAAC-TCAATTAAAGA
106252340 TTTTAT
258 TTTTAT
106252346 TGATAGTACA
Statistics
Matches: 230, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
279 104 0.45
280 2 0.01
281 99 0.43
282 24 0.10
283 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (280 bp):
TAAATTGTGCATAGTAAAATAAAAACATACAAAATAATAAAATGAAACTTTAGTTGAATAGTAAA
TTTAAGATCTTACTAATTTAATTAGCATGAGTTCAAATCCTACAATATGCATATTTTTATTGGTT
TTTATTAAAATAAAAGACTAAAGTACCCAAAAATAATATAACTTATTTTAATTATAAAAGGTCAT
TTTTGTAATTTCTCTAATCAAGTTGGTGCTTGATTGACTCGTAACACCAACTCAATTAAAGATTT
TATACAACTAATGAAAGTAA
Found at i:106278419 original size:17 final size:17
Alignment explanation
Indices: 106278397--106278430 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
106278387 AGGAGAACTT
106278397 ATTTTTATTGCTAATTA
1 ATTTTTATTGCTAATTA
106278414 ATTTTTATTGCTAATTA
1 ATTTTTATTGCTAATTA
106278431 TATTCTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTTTATTGCTAATTA
Found at i:106279242 original size:4 final size:4
Alignment explanation
Indices: 106279233--106279259 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
106279223 ATCATATAAC
106279233 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
106279260 TTACTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:106279652 original size:37 final size:39
Alignment explanation
Indices: 106279569--106279694 Score: 125
Period size: 39 Copynumber: 3.2 Consensus size: 39
106279559 TCTAGTATGG
106279569 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
* *
106279608 CACCCAGTGTCTCATCGGCCTAG-TCGAAGT-A-AGTTGA
1 CACCCAGTGCCTCATCGG-ATAGTTCGAAGTAATAGTTGA
* * * * *
106279645 TACCCAGTACCTCATCGAATCAATCCGAAGTAATA-TAATGA
1 CACCCAGTGCCTCATCGGAT-AGTTCGAAGTAATAGT--TGA
106279686 CACCCAGTG
1 CACCCAGTG
106279695 TATCATCAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 21 0.30
38 7 0.10
39 26 0.38
40 4 0.06
41 10 0.14
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
Found at i:106279828 original size:18 final size:18
Alignment explanation
Indices: 106279807--106279842 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
106279797 CAATTCATAC
106279807 CACTTTCAATTTCAATTT
1 CACTTTCAATTTCAATTT
*
106279825 CACTTTCACTTTCAATTT
1 CACTTTCAATTTCAATTT
106279843 TAATCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (18 bp):
CACTTTCAATTTCAATTT
Found at i:106279831 original size:12 final size:12
Alignment explanation
Indices: 106279807--106279842 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
106279797 CAATTCATAC
106279807 CACTTTCAATTT
1 CACTTTCAATTT
* *
106279819 CAATTTCACTTT
1 CACTTTCAATTT
106279831 CACTTTCAATTT
1 CACTTTCAATTT
106279843 TAATCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (12 bp):
CACTTTCAATTT
Found at i:106279919 original size:34 final size:33
Alignment explanation
Indices: 106279854--106279920 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
106279844 AATCACAAAT
* *
106279854 CATTCAAATCAATTCAAATATACTATTAATATC
1 CATTCAAATCAATTCAAATATAATATCAATATC
*
106279887 CATTCACATACAATTCAAAATATAATA-CAATATC
1 CATTCAAAT-CAATTC-AAATATAATATCAATATC
106279921 AACACATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 12 0.41
35 9 0.31
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (33 bp):
CATTCAAATCAATTCAAATATAATATCAATATC
Found at i:106280711 original size:21 final size:21
Alignment explanation
Indices: 106280685--106280728 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
106280675 ATATACTAAT
106280685 TAATAATAATTATTATAAAAA
1 TAATAATAATTATTATAAAAA
*
106280706 TAATAATTATTATTATAAAAA
1 TAATAATAATTATTATAAAAA
106280727 TA
1 TA
106280729 TCTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATAATTATTATAAAAA
Found at i:106280756 original size:19 final size:20
Alignment explanation
Indices: 106280693--106280756 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
106280683 ATTAATAATA
**
106280693 ATTATTATAAAAATAATAATT
1 ATTATTATAAAAAT-ATCTTT
106280714 ATTATTATAAAAATATCTTT
1 ATTATTATAAAAATATCTTT
*
106280734 -TTATTA-ACAAATAT-TTAT
1 ATTATTATAAAAATATCTT-T
106280752 ATTAT
1 ATTAT
106280757 ATTTATCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.05
18 8 0.21
19 10 0.26
20 4 0.11
21 14 0.37
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATAAAAATATCTTT
Found at i:106286498 original size:9 final size:9
Alignment explanation
Indices: 106286494--106286526 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
106286484 ATAAAATGTA
106286494 AAAAAATTT
1 AAAAAATTT
*
106286503 -AGAAATTT
1 AAAAAATTT
106286511 AAAAAATTT
1 AAAAAATTT
106286520 AAAAAAT
1 AAAAAAT
106286527 AGAATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAAATTT
Found at i:106286508 original size:18 final size:17
Alignment explanation
Indices: 106286487--106286520 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
106286477 ATAAATTATA
106286487 AAATGTAAAAAAATTTAG
1 AAAT-TAAAAAAATTTAG
*
106286505 AAATTTAAAAAATTTA
1 AAATTAAAAAAATTTA
106286521 AAAAATAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AAATTAAAAAAATTTAG
Found at i:106286529 original size:24 final size:25
Alignment explanation
Indices: 106286502--106286551 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
106286492 TAAAAAAATT
*
106286502 TAGAAATTT-AAAAAATTTAAAAAA
1 TAGAAATTTCAAAAAATATAAAAAA
* *
106286526 TAGAATTTTCAAAAAGTATAAAAAA
1 TAGAAATTTCAAAAAATATAAAAAA
106286551 T
1 T
106286552 TGCAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (25 bp):
TAGAAATTTCAAAAAATATAAAAAA
Found at i:106286668 original size:37 final size:38
Alignment explanation
Indices: 106286601--106286682 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 38
106286591 ATTAAAAAGG
* * * * *
106286601 AAAAATTATAAAAAAATTAGAATTTTG-AAAATT-ATA
1 AAAAATTACAAAAAAATTAAAAATTAGAAAAATTGAAA
*
106286637 AAAAATTGACAAAAATATTAAAAATTAGAAAAATTGAAA
1 AAAAATT-ACAAAAAAATTAAAAATTAGAAAAATTGAAA
106286676 AAAAATT
1 AAAAATT
106286683 TCAAGAGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 7 0.19
37 15 0.41
38 6 0.16
39 9 0.24
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (38 bp):
AAAAATTACAAAAAAATTAAAAATTAGAAAAATTGAAA
Found at i:106287011 original size:36 final size:37
Alignment explanation
Indices: 106286937--106287008 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
106286927 ATTTTATATG
* *
106286937 ATTTTTTATTTTTTATTTGCAACTTTATATATTTTTA
1 ATTTTTAATATTTTATTTGCAACTTTATATATTTTTA
* *
106286974 ATTTTTAATATTTTCTTT-CAATTTTATAATATTTT
1 ATTTTTAATATTTTATTTGCAACTTTAT-ATATTTT
106287009 AATAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (37 bp):
ATTTTTAATATTTTATTTGCAACTTTATATATTTTTA
Found at i:106291933 original size:18 final size:19
Alignment explanation
Indices: 106291907--106291945 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
106291897 TATAAATCAT
* *
106291907 TAAATTTATTAAAAA-ATA
1 TAAAGTTATAAAAAAGATA
106291925 TAAAGTTATAAAAAAGATA
1 TAAAGTTATAAAAAAGATA
106291944 TA
1 TA
106291946 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAGTTATAAAAAAGATA
Found at i:106302634 original size:6 final size:6
Alignment explanation
Indices: 106302623--106302649 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
106302613 ATGTGCCGAC
106302623 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
106302650 CGATTCGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:106302759 original size:46 final size:47
Alignment explanation
Indices: 106302709--106302797 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 47
106302699 ACTATTTCGA
106302709 ATTTGTTCCGATGACGTACTCAGTGTACCGTA-CGTTACTGTTCCAG
1 ATTTGTTCCGATGACGTACTCAGTGTACCGTATCGTTACTGTTCCAG
* * *
106302755 ATTTGTTCCGATGAGGTACTCTGTGTACCGTATTGTTACTGTT
1 ATTTGTTCCGATGACGTACTCAGTGTACCGTATCGTTACTGTT
106302798 ACTATTCCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 30 0.77
47 9 0.23
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (47 bp):
ATTTGTTCCGATGACGTACTCAGTGTACCGTATCGTTACTGTTCCAG
Found at i:106302961 original size:18 final size:19
Alignment explanation
Indices: 106302919--106302970 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
106302909 AAAGATCGAC
106302919 TTTTACTGAATAATTTAAT
1 TTTTACTGAATAATTTAAT
* * *
106302938 TGTTACTGTAT-ATTTGAT
1 TTTTACTGAATAATTTAAT
106302956 TTTTACTGAATAATT
1 TTTTACTGAATAATT
106302971 GACTGTTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTTACTGAATAATTTAAT
Found at i:106302972 original size:18 final size:18
Alignment explanation
Indices: 106302921--106302986 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
106302911 AGATCGACTT
*
106302921 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* * *
106302940 TTACTGTATATTTGATTT
1 TTACTGAATAATTGATTG
*
106302958 TTACTGAATAATTGACTG
1 TTACTGAATAATTGATTG
*
106302976 TTACTGGATAA
1 TTACTGAATAA
106302987 CCGATCAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 29 0.76
19 9 0.24
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:106305450 original size:30 final size:31
Alignment explanation
Indices: 106305391--106305451 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
106305381 TCTTAATAAG
*
106305391 AATATAAAAAATAATTTATTGTTAATATTTT
1 AATATAAAAAATAATTAATTGTTAATATTTT
*
106305422 AATATATAAAAT-ATTAATT-TTAAATATTTT
1 AATATAAAAAATAATTAATTGTT-AATATTTT
106305452 TTAAGTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 14 0.52
31 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
AATATAAAAAATAATTAATTGTTAATATTTT
Found at i:106308662 original size:21 final size:21
Alignment explanation
Indices: 106308629--106308670 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
106308619 GCTGGTGTAT
*
106308629 AAAATAATATTTATTTAAATTA
1 AAAATAATATTTA-ATAAATTA
*
106308651 AAAAT-ATTTTTAATAAATTA
1 AAAATAATATTTAATAAATTA
106308671 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATAATATTTAATAAATTA
Found at i:106314772 original size:3 final size:3
Alignment explanation
Indices: 106314764--106314789 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
106314754 TCATTAGTGA
106314764 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
106314790 AATGGAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:106314979 original size:21 final size:21
Alignment explanation
Indices: 106314955--106314996 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
106314945 CCATTGTTTC
106314955 CATTTCTGTATCTGATTGATG
1 CATTTCTGTATCTGATTGATG
106314976 CATTTCTGTATCTGATTGATG
1 CATTTCTGTATCTGATTGATG
106314997 GGTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
CATTTCTGTATCTGATTGATG
Found at i:106318417 original size:20 final size:20
Alignment explanation
Indices: 106318392--106318432 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
106318382 GTTGTTCAAG
106318392 TAAAAATCAACAAAGCTACC
1 TAAAAATCAACAAAGCTACC
106318412 TAAAAATCAACAAAGCTACC
1 TAAAAATCAACAAAGCTACC
106318432 T
1 T
106318433 GATCTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.24, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAAAATCAACAAAGCTACC
Found at i:106336768 original size:133 final size:132
Alignment explanation
Indices: 106336525--106336770 Score: 388
Period size: 132 Copynumber: 1.9 Consensus size: 132
106336515 TGGAAATGGC
* * *
106336525 TGAGAGTGATGAGCTCAACACGTCCCATTACATATGCATGTTTAATGTAATGTAATTTGAAATCC
1 TGAGAGTGATGAGCTCAACACGTCCCATTACATATGCATGTTCAATGTAAGGCAATTTGAAATCC
*
106336590 AAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGTAGATTTCTACGGTGGATAAAAGTGATG
66 AAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTACGGTGGATAAAAGTGATG
106336655 AG
131 AG
* * *
106336657 TGAGAGTGATGAGCTCAATATG-CCCTATT-CAATATGCATGTTCAATGTAAGGCAATTTGGAAT
1 TGAGAGTGATGAGCTCAACACGTCCC-ATTAC-ATATGCATGTTCAATGTAAGGCAATTTGAAAT
106336720 CCCAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTAC
64 -CCAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTAC
106336771 AGTAGTTGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
131 4 0.04
132 51 0.49
133 49 0.47
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
TGAGAGTGATGAGCTCAACACGTCCCATTACATATGCATGTTCAATGTAAGGCAATTTGAAATCC
AAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTACGGTGGATAAAAGTGATG
AG
Found at i:106339345 original size:23 final size:26
Alignment explanation
Indices: 106339305--106339363 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 26
106339295 TTTTAGAAAA
106339305 AATACATA-TTTATATTAT-TAAAGT
1 AATACATATTTTATATTATATAAAGT
* *
106339329 -ATTCATATTTTAT-TTATATATAGT
1 AATACATATTTTATATTATATAAAGT
106339353 AATACATATTT
1 AATACATATTT
106339364 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 10 0.34
24 10 0.34
25 9 0.31
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (26 bp):
AATACATATTTTATATTATATAAAGT
Found at i:106340018 original size:20 final size:19
Alignment explanation
Indices: 106339975--106340018 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
106339965 TTAATTATAT
*
106339975 TAATAATTATTATATTTAA
1 TAATAAATATTATATTTAA
* *
106339994 AAATAAATATGTATGTTTAA
1 TAATAAATAT-TATATTTAA
106340014 TAATA
1 TAATA
106340019 TAAAAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TAATAAATATTATATTTAA
Found at i:106348762 original size:22 final size:21
Alignment explanation
Indices: 106348726--106348771 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
106348716 TATTTAAAAT
*
106348726 ATTTTATAATATATTTTTTAA
1 ATTTTAAAATATATTTTTTAA
*
106348747 ATTTTAAATATATATTTTTTTA
1 ATTTTAAA-ATATATTTTTTAA
106348769 ATT
1 ATT
106348772 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTAAAATATATTTTTTAA
Found at i:106348763 original size:34 final size:35
Alignment explanation
Indices: 106348724--106348807 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
106348714 TATATTTAAA
*
106348724 ATATTTTATAATATATTTTTT-AAATTTTAAATAT
1 ATATTTTTTAATATATTTTTTAAAATTTTAAATAT
106348758 ATATTTTTTTAAT-TATTTTTTAAAATTTTAAATAT
1 ATA-TTTTTTAATATATTTTTTAAAATTTTAAATAT
106348793 -TATTTTTTAA-ATATT
1 ATATTTTTTAATATATT
106348808 AAATATATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
33 12 0.26
34 13 0.28
35 21 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (35 bp):
ATATTTTTTAATATATTTTTTAAAATTTTAAATAT
Found at i:106348785 original size:22 final size:22
Alignment explanation
Indices: 106348769--106348821 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
106348759 TATTTTTTTA
106348769 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATTTTAAAT
*
106348791 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATTTTAAAT
106348812 ATATATTTTT
1 AT-TATTTTT
106348822 AATAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTTTTTAAAATTTTAAAT
Found at i:106348815 original size:23 final size:23
Alignment explanation
Indices: 106348769--106348836 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
106348759 TATTTTTTTA
*
106348769 ATTATTTTTTAAA-ATTTTAA-AT
1 ATTATTTTTTAAATA-TTAAATAT
106348791 ATTATTTTTTAAATATTAAATAT
1 ATTATTTTTTAAATATTAAATAT
* *
106348814 A-TATTTTTAATAATATAAAATAT
1 ATTATTTTTTA-AATATTAAATAT
106348837 TTAAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 25 0.62
23 15 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTTTTTAAATATTAAATAT
Found at i:106349254 original size:16 final size:17
Alignment explanation
Indices: 106349235--106349291 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 17
106349225 TATTTGTTAA
106349235 AAAAATAAATTTAT-TT
1 AAAAATAAATTTATATT
106349251 AAAAAT--ATTTATATT
1 AAAAATAAATTTATATT
*
106349266 AAAAAGTAAAAATTTAAATT
1 AAAAA-T--AAATTTATATT
106349286 AAAAAT
1 AAAAAT
106349292 TAAAAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 7 0.21
19 1 0.03
20 13 0.38
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAAATAAATTTATATT
Found at i:106349306 original size:20 final size:20
Alignment explanation
Indices: 106349249--106349306 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
106349239 ATAAATTTAT
106349249 TTAAAAATATTTATATTAAAAA
1 TTAAAAATA--TATATTAAAAA
* * *
106349271 GTAAAAATTTAAATTAAAAA
1 TTAAAAATATATATTAAAAA
106349291 TTAAAAATATATATTA
1 TTAAAAATATATATTA
106349307 TAAGATTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 23 0.77
22 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAATATATATTAAAAA
Found at i:106349767 original size:20 final size:20
Alignment explanation
Indices: 106349744--106349815 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
106349734 ATAATTTTTT
106349744 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
106349764 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
106349784 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
*
106349804 AAATTTATGTAC
1 AATTTTA-GTAC
106349816 TTAATATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
19 3 0.08
20 30 0.75
21 7 0.17
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:106349779 original size:40 final size:42
Alignment explanation
Indices: 106349735--106349820 Score: 149
Period size: 40 Copynumber: 2.1 Consensus size: 42
106349725 GTGTTGGTTA
106349735 TAATTTTTTAATTTTAGTACACATTTAT-AAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTTATAAAATTTATATACT
*
106349775 TAATTTTTTAATTTTAGTACACATTTATAAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTTATAAAATTTATATACT
106349817 TAAT
1 TAAT
106349821 ATATATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 28 0.65
41 10 0.23
42 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (42 bp):
TAATTTTTTAATTTTAGTACACATTTATAAAATTTATATACT
Found at i:106349829 original size:40 final size:40
Alignment explanation
Indices: 106349743--106349830 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
106349733 TATAATTTTT
* *
106349743 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTTATAAATTTATATATTAATTATA
*
106349783 TAATTTTAGTACACATTTATAAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTTAT-AAATTTATATA-TTAATTATA
106349824 T-ATTTTA
1 TAATTTTA
106349831 ATAGGTAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 26 0.60
41 13 0.30
42 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTTATAAATTTATATATTAATTATA
Found at i:106349951 original size:9 final size:9
Alignment explanation
Indices: 106349937--106350070 Score: 52
Period size: 9 Copynumber: 15.3 Consensus size: 9
106349927 ATTTTAAAAT
106349937 TTTAATATA
1 TTTAATATA
106349946 TTTAATATA
1 TTTAATATA
106349955 TTTTTAA-ATAA
1 --TTTAATAT-A
*
106349966 TTAAATATA
1 TTTAATATA
* * *
106349975 TTAAAAAAA
1 TTTAATATA
106349984 TTTAAGTATA
1 TTTAA-TATA
**
106349994 ACT-A-AT-
1 TTTAATATA
*
106350000 TTTAAAAT-
1 TTTAATATA
106350008 TTTAATATA
1 TTTAATATA
*
106350017 TTCAATATA
1 TTTAATATA
*
106350026 TTT--TTTA
1 TTTAATATA
**
106350033 -AAAATATA
1 TTTAATATA
*
106350041 TTTTAAAAT-
1 -TTTAATATA
106350050 TTTAATATA
1 TTTAATATA
106350059 TTTAATATA
1 TTTAATATA
106350068 TTT
1 TTT
106350071 TTTAATAGGA
Statistics
Matches: 91, Mismatches: 21, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
6 1 0.01
7 6 0.07
8 19 0.21
9 48 0.53
10 11 0.12
11 6 0.07
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (9 bp):
TTTAATATA
Found at i:106349973 original size:71 final size:71
Alignment explanation
Indices: 106349893--106350030 Score: 233
Period size: 71 Copynumber: 1.9 Consensus size: 71
106349883 AACTTAAAGA
* *
106349893 AATTAAATATATT-AAAAAATGTTAAGTATAGCAAATTTTAAAATTTTAATATATTTAATATATT
1 AATTAAATATATTAAAAAAAT-TTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATT
106349957 TTTAAAT
65 TTTAAAT
*
106349964 AATTAAATATATTAAAAAAATTTAAGTATAACTAATTTTAAAATTTTAATATATTCAATATATTT
1 AATTAAATATATTAAAAAAATTTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATTT
106350029 TT
66 TT
106350031 TAAAAATATA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 56 0.89
72 7 0.11
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (71 bp):
AATTAAATATATTAAAAAAATTTAAGTATAACAAATTTTAAAATTTTAATATATTCAATATATTT
TTAAAT
Found at i:106350017 original size:42 final size:42
Alignment explanation
Indices: 106349949--106350060 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
106349939 TAATATATTT
* * *
106349949 AATATATTTTTAAATAATTAAATATATTAAAAAAATTTAAGTATA
1 AATATA-TTTTAAA-ATTTTAATATATTAAAAAAATTT-AGTAAA
* * * * **
106349994 ACTA-ATTTTAAAATTTTAATATATTCAATATATTTTTTAAA
1 AATATATTTTAAAATTTTAATATATTAAAAAAATTTAGTAAA
106350035 AATATATTTTAAAATTTTAATATATT
1 AATATATTTTAAAATTTTAATATATT
106350061 TAATATATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.11
42 39 0.70
43 7 0.12
44 1 0.02
45 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
AATATATTTTAAAATTTTAATATATTAAAAAAATTTAGTAAA
Found at i:106350091 original size:42 final size:42
Alignment explanation
Indices: 106350003--106350091 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
106349993 AACTAATTTT
* * ****
106350003 AAAATTTTAATATATTCAATATATTTTTTAAAAATATATTTT
1 AAAATTTTAATATATTCAATATATTTTTTAAAAAGAAAAGAG
* * *
106350045 AAAATTTTAATATATTTAATATATTTTTTAATAGGAAAAGAG
1 AAAATTTTAATATATTCAATATATTTTTTAAAAAGAAAAGAG
106350087 AAAAT
1 AAAAT
106350092 AATTTTTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (42 bp):
AAAATTTTAATATATTCAATATATTTTTTAAAAAGAAAAGAG
Found at i:106352412 original size:30 final size:30
Alignment explanation
Indices: 106352376--106352477 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
106352366 CGCAGAGCAC
* * **
106352376 TTCATATCACTCGGACATTGGCGGTTCAAG
1 TTCATATCACCCGGACATAGGCGGTTTGAG
* *
106352406 TTCATATCACCCGGACATCGGCGATTTGAG
1 TTCATATCACCCGGACATAGGCGGTTTGAG
106352436 TTCATATCACCCGGACATAGGCGGTTTGAG
1 TTCATATCACCCGGACATAGGCGGTTTGAG
*
106352466 TTCATTTCACCC
1 TTCATATCACCC
106352478 AAAGCGACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (30 bp):
TTCATATCACCCGGACATAGGCGGTTTGAG
Found at i:106356628 original size:39 final size:39
Alignment explanation
Indices: 106356576--106356735 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
106356566 AATTATATTA
* *
106356576 CCAGCACAAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
106356615 CCTGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
106356654 CCAACACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
106356693 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
106356732 CCAG
1 CCAG
106356736 TATCTTGCAT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:106357674 original size:13 final size:13
Alignment explanation
Indices: 106357656--106357680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106357646 CTAGATAAAA
106357656 TATATATATATAT
1 TATATATATATAT
106357669 TATATATATATA
1 TATATATATATA
106357681 AATTCACCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:106359554 original size:50 final size:51
Alignment explanation
Indices: 106359479--106359602 Score: 178
Period size: 50 Copynumber: 2.5 Consensus size: 51
106359469 CCATGGCAAC
* *
106359479 AAGTGATAAGTGATAGCTTCGGCTACACTTAACTAATCAAGGATAAGTGA-
1 AAGTGATAAGTGATAGCTTCGGCTACACTTAACTAATCAAGGACAAATGAT
* * *
106359529 AAGTGATAAGTGACAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTAACTAATCAAGGACAAATGAT
* *
106359580 AAGTGAAAAGTGGTAGCTTCGGC
1 AAGTGATAAGTGATAGCTTCGGC
106359603 AACCTGATCA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 45 0.69
51 20 0.31
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTAACTAATCAAGGACAAATGAT
Found at i:106359622 original size:31 final size:31
Alignment explanation
Indices: 106359576--106359759 Score: 269
Period size: 31 Copynumber: 5.9 Consensus size: 31
106359566 CAAGGACAAA
* *
106359576 TGATAAGTGAAAAGTGGTAGCTTCGGCAACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
106359607 TGATCAGAGAAAAGTGATAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
106359638 TGATCAGTGAAAAATGGTAGCTTCAGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
106359669 TGATCAGTGAAAAGTGGTAGCCTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
106359700 TGATCAGTGAAAAATGGTAGCTCCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
106359731 TGATCAGTGAATAGTGGTAGCTTCAGCTA
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTA
106359760 AAAGTGACAA
Statistics
Matches: 135, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 135 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:106360573 original size:2 final size:2
Alignment explanation
Indices: 106360566--106360600 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
106360556 TGAAACTATG
106360566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106360601 AACAATGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:106363136 original size:46 final size:45
Alignment explanation
Indices: 106363076--106363341 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
106363066 TTTGACATGA
* * * * * *
106363076 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
106363122 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
106363168 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
106363214 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
106363260 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
106363298 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
106363342 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:106363305 original size:38 final size:38
Alignment explanation
Indices: 106363254--106363329 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
106363244 ACATTTTATA
106363254 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
106363292 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
106363330 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:106365441 original size:11 final size:11
Alignment explanation
Indices: 106365425--106365476 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
106365415 TATACTAAAT
106365425 AAATAATAATA
1 AAATAATAATA
*
106365436 AAATAAT-ATT
1 AAATAATAATA
* *
106365446 AAATATCTCATA
1 AAATA-ATAATA
*
106365458 AAATATTAATA
1 AAATAATAATA
106365469 AAATAATA
1 AAATAATA
106365477 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:106366446 original size:18 final size:18
Alignment explanation
Indices: 106366425--106366484 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
106366415 AATCGGTTAA
*
106366425 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
106366443 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
106366461 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
106366479 TCAGTA
1 TCAGTA
106366485 GCAGACAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:106366982 original size:3 final size:3
Alignment explanation
Indices: 106366974--106367045 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
106366964 ATTCAATACC
*
106366974 ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106367022 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
106367046 CTTACCATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:106368288 original size:11 final size:11
Alignment explanation
Indices: 106368272--106368308 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
106368262 ATATTTAAAA
106368272 TTTAAAAATAT
1 TTTAAAAATAT
106368283 TTTAAAAATA-
1 TTTAAAAATAT
106368293 TTT-AAAATAT
1 TTTAAAAATAT
*
106368303 TATAAA
1 TTTAAA
106368309 CAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 6 0.26
10 5 0.22
11 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:106368301 original size:9 final size:9
Alignment explanation
Indices: 106368262--106368308 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
106368252 TATAAAAATT
106368262 ATATTTAAA
1 ATATTTAAA
*
106368271 AT-TTAAAA
1 ATATTTAAA
106368279 ATATTTTAAAA
1 ATA-TTT-AAA
106368290 ATATTTAAA
1 ATATTTAAA
106368299 ATATTATAAA
1 ATATT-TAAA
106368309 CAAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
8 7 0.22
9 10 0.31
10 9 0.28
11 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATATTTAAA
Found at i:106368377 original size:24 final size:24
Alignment explanation
Indices: 106368336--106368391 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
106368326 ATGTTATATC
*
106368336 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAAT-A
*
106368361 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
106368384 TTATAAAA
1 TT-TAAAA
106368392 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 12 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:106368490 original size:121 final size:123
Alignment explanation
Indices: 106368269--106368500 Score: 307
Period size: 121 Copynumber: 1.9 Consensus size: 123
106368259 ATTATATTTA
* * *
106368269 AAATTTAAAAATATTTTAAAAATATTTAAAATATTATAAACAAATAATAAATTTGAAATGTTATA
1 AAATTAAAAAATATTTT-AAAATATTTAAAATATTATAAACAAATAATAAATTTGAAAGGTCATA
106368334 TCTTTAAAAATAATATATTTTAAATAATTTAAAAATCATA-ATTTAAAATATTATAAAAC
65 TCTTTAAAAATAATATATTTTAAATAATTTAAAAAT-ATATATTTAAAATATTATAAAAC
*
106368393 AAATTAAAAAATA-TTT-AAA-ATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATA
1 AAATTAAAAAATATTTTAAAATATTTAAAATATTAT-AAACAAATAATAAATTTGAAAGGTCATA
* *
106368455 TCTTTAAAATATTTAA-ATATTTTATATTA-TT-AAAATATATATTTAA
65 TCTTTAAAA-A--TAATATATTTTAAATAATTTAAAAATATATATTTAA
106368501 TATTTAAAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
120 17 0.18
121 48 0.49
122 3 0.03
123 14 0.14
124 15 0.15
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (123 bp):
AAATTAAAAAATATTTTAAAATATTTAAAATATTATAAACAAATAATAAATTTGAAAGGTCATAT
CTTTAAAAATAATATATTTTAAATAATTTAAAAATATATATTTAAAATATTATAAAAC
Found at i:106368510 original size:21 final size:22
Alignment explanation
Indices: 106368470--106368533 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
106368460 AAAATATTTA
* *
106368470 AATATTTTATATTATTAAAATAT
1 AATATTTAATATT-TAAAAATAT
106368493 -ATATTTAATATTTAAAAA-AT
1 AATATTTAATATTTAAAAATAT
* *
106368513 AATATTTAAAATTAAAAAATA
1 AATATTTAATATTTAAAAATA
106368534 ATTTCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.06
21 21 0.60
22 12 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTTAATATTTAAAAATAT
Found at i:106368558 original size:21 final size:22
Alignment explanation
Indices: 106368533--106368604 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
106368523 ATTAAAAAAT
106368533 AATTTCAAAATATATATTT-AA
1 AATTTCAAAATATATATTTAAA
*
106368554 AATTTAAAAAATATATATTATAAA
1 AATTT-CAAAATATATATT-TAAA
* *
106368578 ATATTTC-AAATATACATTTCAA
1 A-ATTTCAAAATATATATTTAAA
106368600 AATTT
1 AATTT
106368605 TTAAAATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 9 0.21
22 16 0.37
23 11 0.26
24 3 0.07
25 4 0.09
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTCAAAATATATATTTAAA
Found at i:106368567 original size:20 final size:19
Alignment explanation
Indices: 106368483--106368569 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
106368473 ATTTTATATT
*
106368483 ATTAAAATATATATTTAATA
1 ATTAAAAAATATATTTAA-A
*
106368503 TTTAAAAAATAATATTTAAA
1 ATTAAAAAAT-ATATTTAAA
106368523 ATTAAAAAATA-ATTTCAAA
1 ATTAAAAAATATATTT-AAA
106368542 A-T-----ATATATTTAAA
1 ATTAAAAAATATATTTAAA
106368555 ATTTAAAAAATATAT
1 A-TTAAAAAATATAT
106368570 ATTATAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.13
14 4 0.07
15 1 0.02
18 5 0.09
19 5 0.09
20 24 0.44
21 8 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAAAATATATTTAAA
Found at i:106368601 original size:23 final size:22
Alignment explanation
Indices: 106368528--106368611 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 22
106368518 TTAAAATTAA
106368528 AAAATAATTTCAAAATATATATTT
1 AAAAT-ATTT-AAAATATATATTT
*
106368552 AAAAT-TTAAAAAATATATATTAT
1 AAAATATT-TAAAATATATATT-T
* *
106368575 AAAATATTTCAAATATACATTT
1 AAAATATTTAAAATATATATTT
*
106368597 CAAAATTTTTAAAAT
1 -AAAATATTTAAAAT
106368612 TAATAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
22 15 0.30
23 28 0.56
24 7 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATATTTAAAATATATATTT
Found at i:106368611 original size:46 final size:47
Alignment explanation
Indices: 106368486--106368604 Score: 125
Period size: 53 Copynumber: 2.4 Consensus size: 47
106368476 TTATATTATT
* *
106368486 AAAATATATATTTAATATTTAAAAAATAATATTTAAAATTAAAAAATAATTTC
1 AAAATATACATTTAAAATTTAAAAAAT-ATA--T---ATTAAAAAATAATTTC
* *
106368539 AAAATATATATTTAAAATTTAAAAAATATATATTATAAAAT-ATTTC
1 AAAATATACATTTAAAATTTAAAAAATATATATTAAAAAATAATTTC
106368585 -AAATATACATTTCAAAATTT
1 AAAATATACATTT-AAAATTT
106368605 TTAAAATTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
45 11 0.18
46 12 0.19
47 9 0.15
50 1 0.02
52 3 0.05
53 26 0.42
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (47 bp):
AAAATATACATTTAAAATTTAAAAAATATATATTAAAAAATAATTTC
Found at i:106370522 original size:42 final size:43
Alignment explanation
Indices: 106370451--106370553 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
106370441 GTTTATTTAA
* * * *
106370451 AAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTT-CCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACACTTTACCC
* * *
106370493 ACAAACGCCTCTAAATGTCATGACCTTTAGCGACACTTTACCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACACTTTACCC
106370536 AAAAACGCCGCTAAAGGT
1 AAAAACGCCGCTAAAGGT
106370554 AATAAAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACACTTTACCC
Found at i:106370734 original size:21 final size:21
Alignment explanation
Indices: 106370692--106370734 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
106370682 TTAAATTTTT
* *
106370692 TATTAAAATTTTAACTAGAAA
1 TATTAAAATTATAACTAAAAA
106370713 TATTAAAATATATAA-TAAAAA
1 TATTAAAAT-TATAACTAAAAA
106370734 T
1 T
106370735 TAGATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TATTAAAATTATAACTAAAAA
Found at i:106372854 original size:13 final size:13
Alignment explanation
Indices: 106372836--106372861 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106372826 GATGTCCTTG
106372836 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
106372849 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
106372862 CTTTTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:106375980 original size:7 final size:7
Alignment explanation
Indices: 106375952--106376023 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
106375942 ATATAGATTA
*
106375952 AAATATT
1 AAATTTT
*
106375959 AAATATT
1 AAATTTT
106375966 AAATTTTT
1 AAA-TTTT
*
106375974 AAGTTTTT
1 AA-ATTTT
*
106375982 AATTTTT
1 AAATTTT
* *
106375989 TATTTTT
1 AAATTTT
* *
106375996 TATTTTT
1 AAATTTT
106376003 AAATTTT
1 AAATTTT
106376010 AAATTTT
1 AAATTTT
106376017 AAATTTT
1 AAATTTT
106376024 TTTAATTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
7 47 0.81
8 11 0.19
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (7 bp):
AAATTTT
Found at i:106376024 original size:15 final size:15
Alignment explanation
Indices: 106375957--106376023 Score: 66
Period size: 14 Copynumber: 4.6 Consensus size: 15
106375947 GATTAAAATA
*
106375957 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
106375972 TTAAGTTTTTAATTT
1 TTAAATTTTAAATTT
* **
106375987 TT-TATTTTTTATTT
1 TTAAATTTTAAATTT
106376001 TTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
106376015 TTAAATTTT
1 TTAAATTTT
106376024 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
14 22 0.52
15 20 0.48
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:106376028 original size:17 final size:16
Alignment explanation
Indices: 106375977--106376040 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
106375967 AATTTTTAAG
**
106375977 TTTTTAATTTTTTA-T
1 TTTTTAATTTTAAATT
*
106375992 TTTTTATTTTTAAA--
1 TTTTTAATTTTAAATT
*
106376006 TTTTAAATTTTAAATT
1 TTTTTAATTTTAAATT
*
106376022 TTTTTAATTTTTAATT
1 TTTTTAATTTTAAATT
106376038 TTT
1 TTT
106376041 GAGTTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 12 0.30
15 11 0.28
16 17 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATTTTAAATT
Found at i:106376032 original size:7 final size:7
Alignment explanation
Indices: 106375967--106376040 Score: 76
Period size: 7 Copynumber: 10.0 Consensus size: 7
106375957 TTAAATATTA
106375967 AATTTTT
1 AATTTTT
106375974 AAGTTTTT
1 AA-TTTTT
106375982 AATTTTT
1 AATTTTT
*
106375989 TATTTTT
1 AATTTTT
*
106375996 TATTTTT
1 AATTTTT
*
106376003 AAATTTTA
1 -AATTTTT
*
106376011 AATTTTA
1 AATTTTT
106376018 AATTTTTTT
1 AA--TTTTT
106376027 AATTTTT
1 AATTTTT
106376034 AATTTTT
1 AATTTTT
106376041 GAGTTTATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
7 41 0.69
8 12 0.20
9 6 0.10
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:106376039 original size:15 final size:15
Alignment explanation
Indices: 106375967--106376040 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
106375957 TTAAATATTA
*
106375967 AATTTTTAAGTTTTT
1 AATTTTTAATTTTTT
*
106375982 AATTTTTTATTTTTT
1 AATTTTTAATTTTTT
* *
106375997 -ATTTTTAAATTTTA
1 AATTTTTAATTTTTT
*
106376011 AATTTTAAATTTTTTT
1 AATTTTTAA-TTTTTT
106376027 AATTTTTAATTTTT
1 AATTTTTAATTTTT
106376041 GAGTTTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
14 11 0.23
15 25 0.52
16 12 0.25
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:106376053 original size:51 final size:51
Alignment explanation
Indices: 106375952--106376054 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
106375942 ATATAGATTA
* * *
106375952 AAATATTAAATATTAAATTTTTAAGTTTTTAATTTTTTATTTTTTATTTTT
1 AAATATTAAATATTAAATTTTTAAGTTTTTAATTTTTGAGTTTATATTTTT
* *
106376003 AAATTTTAAATTTTAAATTTTTTTAA-TTTTTAATTTTTGAGTTTAT-TTTTT
1 AAATATTAAATATTAAA--TTTTTAAGTTTTTAATTTTTGAGTTTATATTTTT
106376054 A
1 A
106376055 TTTCGGTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
51 21 0.47
52 17 0.38
53 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (51 bp):
AAATATTAAATATTAAATTTTTAAGTTTTTAATTTTTGAGTTTATATTTTT
Found at i:106376651 original size:7 final size:7
Alignment explanation
Indices: 106376639--106376702 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
106376629 CCCATGGCCA
106376639 TTAAACC
1 TTAAACC
106376646 TTAAACC
1 TTAAACC
*
106376653 ATAAAACC
1 -TTAAACC
*
106376661 CTAAACC
1 TTAAACC
* *
106376668 ATAGACC
1 TTAAACC
106376675 TTAAACC
1 TTAAACC
**
106376682 TTAAATA
1 TTAAACC
106376689 TTAAACC
1 TTAAACC
*
106376696 GTAAACC
1 TTAAACC
106376703 AAAAAATGCT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:106376659 original size:15 final size:15
Alignment explanation
Indices: 106376636--106376686 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
106376626 ATACCCATGG
*
106376636 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
106376651 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
106376666 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
106376680 CCTTAAA
1 CCATAAA
106376687 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:106376944 original size:41 final size:41
Alignment explanation
Indices: 106376899--106377162 Score: 386
Period size: 41 Copynumber: 6.5 Consensus size: 41
106376889 AGGGGTTATA
106376899 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
** *
106376940 TGACTTTTAATGGCGTTTTACCAAAAGCGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
* *
106376981 AGACTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
* * * *
106377022 TGACTTTTAGCAGCGTTTTACCGAAAGTGTCGCTAATGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
*
106377063 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
* * * *
106377104 TGACTTTTAGCGGCGTTTTACCTAAAGCACCACTATTGCTC
1 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
*
106377145 T-ATTTTTAGCGGCGTTTT
1 TGACTTTTAGCGGCGTTTT
106377163 TGGTAAAACG
Statistics
Matches: 202, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
40 16 0.08
41 186 0.92
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (41 bp):
TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
Found at i:106378923 original size:35 final size:35
Alignment explanation
Indices: 106378856--106379023 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
106378846 TCCTCATTGA
*** *
106378856 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
106378892 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
106378932 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
106378967 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
106379002 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
106379024 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:106378982 original size:75 final size:73
Alignment explanation
Indices: 106378851--106379023 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
106378841 GGTTTTCCTC
*** * * **
106378851 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
106378916 TCAGTATGG
65 TCAGTATGG
*
106378925 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
106378989 ACTCAGTATGG
63 ACTCAGTATGG
106379000 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
106379024 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:106393338 original size:2 final size:2
Alignment explanation
Indices: 106393326--106393355 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
106393316 AAAAGCTAAT
*
106393326 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106393356 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:106393360 original size:2 final size:2
Alignment explanation
Indices: 106393355--106393387 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
106393345 ATATATATAT
*
106393355 AG AG AG AG AG AG AG AG AG AG AG AG AG CG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
106393388 AGAAAACGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:106394463 original size:22 final size:23
Alignment explanation
Indices: 106394438--106394507 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 23
106394428 ATTTTAAAAT
106394438 TTATATTTATCAAATAA-TTTAA
1 TTATATTTATCAAATAATTTTAA
*
106394460 TTATA-TTCT-AAATAATTTTAA
1 TTATATTTATCAAATAATTTTAA
*
106394481 TTA-ATATATCAAACATAATTTGTAA
1 TTATATTTATC-AA-ATAATTT-TAA
106394506 TT
1 TT
106394508 TAAATTCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 7 0.18
21 13 0.33
22 5 0.13
23 2 0.05
24 7 0.18
25 5 0.13
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (23 bp):
TTATATTTATCAAATAATTTTAA
Found at i:106394481 original size:21 final size:23
Alignment explanation
Indices: 106394445--106394507 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 23
106394435 AATTTATATT
106394445 TATC-AAATAA-TTTAATT-ATA
1 TATCAAAATAATTTTAATTAATA
*
106394465 T-TCTAAATAATTTTAATTAATA
1 TATCAAAATAATTTTAATTAATA
106394487 TATCAAACATAATTTGTAATT
1 TATCAAA-ATAATTT-TAATT
106394508 TAAATTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 7 0.19
22 4 0.11
23 4 0.11
24 7 0.19
25 5 0.14
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
TATCAAAATAATTTTAATTAATA
Found at i:106394498 original size:24 final size:21
Alignment explanation
Indices: 106394449--106394516 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 21
106394439 TATATTTATC
*
106394449 AAATAA-TTTAATTATATTCT
1 AAATAATTTTAATTATATTCA
106394469 AAATAATTTTAATTAATATATCA
1 AAATAATTTTAATT-ATAT-TCA
*
106394492 AACATAATTTGTAATTTAAATTCA
1 AA-ATAATTT-TAA-TTATATTCA
106394516 A
1 A
106394517 TATTAAATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 6 0.15
21 7 0.17
22 4 0.10
23 4 0.10
24 11 0.28
25 6 0.15
26 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (21 bp):
AAATAATTTTAATTATATTCA
Found at i:106394733 original size:2 final size:2
Alignment explanation
Indices: 106394726--106394754 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
106394716 AACCTAAAAT
106394726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106394755 TTAAGCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106396174 original size:31 final size:31
Alignment explanation
Indices: 106396136--106396201 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
106396126 TCTTTTAGCT
*
106396136 ATATATTTAAAAATATATTATATATCTTTCC
1 ATATATTTAAAAATATATTATATATATTTCC
** *
106396167 ATATATTTAGGAATATATTATGTATATTTCC
1 ATATATTTAAAAATATATTATATATATTTCC
106396198 -TATA
1 ATATA
106396202 AATATTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (31 bp):
ATATATTTAAAAATATATTATATATATTTCC
Found at i:106396221 original size:21 final size:21
Alignment explanation
Indices: 106396181--106396238 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
106396171 ATTTAGGAAT
*
106396181 ATATTATGTATATTTCCTATAA
1 ATATTATGTATA-CTCCTATAA
*
106396203 ATATTATGTGTACTCCTATAA
1 ATATTATGTATACTCCTATAA
106396224 ATATTATGTATACTC
1 ATATTATGTATACTC
106396239 TTGATGTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATTATGTATACTCCTATAA
Found at i:106400928 original size:12 final size:13
Alignment explanation
Indices: 106400905--106400936 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
106400895 ATTTATTGAA
106400905 TCCAACTTGATAT
1 TCCAACTTGATAT
106400918 TCCAA-TTGATAT
1 TCCAACTTGATAT
106400930 TCCAACT
1 TCCAACT
106400937 CCCCTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (13 bp):
TCCAACTTGATAT
Found at i:106401446 original size:41 final size:41
Alignment explanation
Indices: 106401401--106401483 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
106401391 AAATTTCCTT
*
106401401 GGTTTCTAGATCATTTCACCCTTAAAATATTTGCACTATTA
1 GGTTTCTACATCATTTCACCCTTAAAATATTTGCACTATTA
106401442 GGTTTCTACATCATTTCACCCTTAAAATATTTGCACTATTA
1 GGTTTCTACATCATTTCACCCTTAAAATATTTGCACTATTA
106401483 G
1 G
106401484 TTCTTCAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (41 bp):
GGTTTCTACATCATTTCACCCTTAAAATATTTGCACTATTA
Found at i:106403941 original size:76 final size:76
Alignment explanation
Indices: 106403822--106404315 Score: 453
Period size: 76 Copynumber: 6.6 Consensus size: 76
106403812 GTTGTGATCG
* * *
106403822 TAAATC-AGCAAACTGTTAGAAAACCGAATGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
* *
106403886 AGTCGCGAGAA
66 AGTCGCGATAT
* * * ** * *
106403897 TAATTCAAGCGAACTATTAGAAAATCAAAGGTCATAATATTAAATCAGCGGACCTTAAAAATGAC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
* *
106403962 AGCCTCGATAT
66 AGTCGCGATAT
* * *
106403973 TAAATCAAACGAACTG-T-----ATCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGAC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
* *
106404032 AATCACGATAT
66 AGTCGCGATAT
* * * * * ** * *
106404043 TAAATCAAGCAAACTATTAGAAAATCGAAGGTTGCGATATTAAATTAGTGGATCGTAAAACTGAC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
106404108 AGTCGCGATAT
66 AGTCGCGATAT
* * * * * * * * * *
106404119 TAAATCAAACGAGCTGTTAGAAAACCGAAGGTTGCGATCTTAAATCAATGAACCATAAAAATGGC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
* *
106404184 AGTCACAATAT
66 AGTCGCGATAT
* * * * * * * * *
106404195 TAAATCAAGTGAACTGTTAGAAAATCAAAGGTCGCGATCTTAATTTAGCGGATCGGAAAAATGAC
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
*
106404260 AGTTGCGATAT
66 AGTCGCGATAT
* * * *
106404271 TAAATCAAGCGAACTGTTAGAAAATTGAATGTCACAATAATAAAT
1 TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAAT
106404316 GGCGGTCATT
Statistics
Matches: 330, Mismatches: 82, Indels: 13
0.78 0.19 0.03
Matches are distributed among these distances:
70 57 0.17
71 1 0.00
75 6 0.02
76 266 0.81
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (76 bp):
TAAATCAAGCGAACTGTTAGAAAATCGAAGGTCGCAATATTAAATCAACGGACCGTAAAAATGAC
AGTCGCGATAT
Found at i:106404058 original size:146 final size:146
Alignment explanation
Indices: 106403843--106404287 Score: 496
Period size: 146 Copynumber: 3.0 Consensus size: 146
106403833 ACTGTTAGAA
* * * * * * *
106403843 AACCGAATGTCGCAATATTAAATCAACGGACCGTAAAAATGACAGTCGCGAGAATAATTCAAGCG
1 AACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATATTAAATCAAGCG
*** * * *
106403908 AACTATTAGAAAATCAAAGGTCATAATATTAAATCAGCGGACCTTAAAAATGACAGCCTCGATAT
66 AACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGACAG-CTCGATAT
106403973 TAAATCAAACGAACTGT
130 TAAATCAAACGAACTGT
* * *
106403990 -ATCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAATCACGATATTAAATCAAGCA
1 AACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATATTAAATCAAGCG
* * * * *
106404054 AACTATTAGAAAATCGAAGGTTGCGATATTAAATTAGTGGATCGTAAAACTGACAGTCGCGATAT
66 AACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGACAG-CTCGATAT
*
106404119 TAAATCAAACGAGCTGTT
130 TAAATCAAACGAACTG-T
* * * * * *
106404137 AGAAAACCGAAGGTTGCGATCTTAAATCAATGAACCATAAAAATGGCAGTCACAATATTAAATCA
1 ----AACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATATTAAATCA
* * * * * *
106404202 AGTGAACTGTTAGAAAATCAAAGGTCGCGATCTTAATTTAGCGGATCGGAAAAATGACAGTTGCG
62 AGCGAACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGACAGCT-CG
*
106404267 ATATTAAATCAAGCGAACTGT
126 ATATTAAATCAAACGAACTGT
106404288 TAGAAAATTG
Statistics
Matches: 246, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
146 122 0.50
147 1 0.00
151 1 0.00
152 122 0.50
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (146 bp):
AACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATATTAAATCAAGCG
AACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGACAGCTCGATATT
AAATCAAACGAACTGT
Found at i:106404215 original size:152 final size:152
Alignment explanation
Indices: 106403832--106404294 Score: 560
Period size: 152 Copynumber: 3.1 Consensus size: 152
106403822 TAAATCAGCA
* * * * * *
106403832 AACTGTTAGAAAACCGAATGTCGCAATATTAAATCAACGGACCGTAAAAATGACAGTCGCGAGAA
1 AACTGTTAGAAAACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATAT
* *** * * *
106403897 TAATTCAAGCGAACTATTAGAAAATCAAAGGTCATAATATTAAATCAGCGGACCTTAAAAATGAC
66 TAAATCAAGCGAACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGAC
* *
106403962 AGCCTCGATATTAAATCAAACG
131 AGTCGCGATATTAAATCAAACG
* *
106403984 AACTG-T-----ATCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAATCACGATAT
1 AACTGTTAGAAAACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATAT
* * * * *
106404043 TAAATCAAGCAAACTATTAGAAAATCGAAGGTTGCGATATTAAATTAGTGGATCGTAAAACTGAC
66 TAAATCAAGCGAACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGAC
106404108 AGTCGCGATATTAAATCAAACG
131 AGTCGCGATATTAAATCAAACG
* * * * * * *
106404130 AGCTGTTAGAAAACCGAAGGTTGCGATCTTAAATCAATGAACCATAAAAATGGCAGTCACAATAT
1 AACTGTTAGAAAACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATAT
* * * * *
106404195 TAAATCAAGTGAACTGTTAGAAAATCAAAGGTCGCGATCTTAATTTAGCGGATCGGAAAAATGAC
66 TAAATCAAGCGAACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGAC
* *
106404260 AGTTGCGATATTAAATCAAGCG
131 AGTCGCGATATTAAATCAAACG
106404282 AACTGTTAGAAAA
1 AACTGTTAGAAAA
106404295 TTGAATGTCA
Statistics
Matches: 261, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
146 122 0.47
147 1 0.00
151 1 0.00
152 137 0.52
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (152 bp):
AACTGTTAGAAAACCGAAGGTCGCAATCTTAAATCAACGGACCATAAAAATGACAGTCACGATAT
TAAATCAAGCGAACTATTAGAAAATCAAAGGTCGCGATATTAAATTAGCGGATCGTAAAAATGAC
AGTCGCGATATTAAATCAAACG
Found at i:106405578 original size:19 final size:19
Alignment explanation
Indices: 106405556--106405595 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
106405546 ATATAGGGTG
106405556 AAAGTTGAATTATAAATTA
1 AAAGTTGAATTATAAATTA
106405575 AAAGTTGAATTATAAATTA
1 AAAGTTGAATTATAAATTA
106405594 AA
1 AA
106405596 GAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (19 bp):
AAAGTTGAATTATAAATTA
Found at i:106410139 original size:25 final size:25
Alignment explanation
Indices: 106410110--106410161 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
106410100 TTTGGCTTGA
**
106410110 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
106410135 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
106410160 CA
1 CA
106410162 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:106411037 original size:19 final size:19
Alignment explanation
Indices: 106411013--106411057 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
106411003 CAATTAACCC
106411013 CTCAATTGAGCTAAATTTT
1 CTCAATTGAGCTAAATTTT
106411032 CTCAATTGAGCTAAATTTT
1 CTCAATTGAGCTAAATTTT
106411051 CTCAATT
1 CTCAATT
106411058 AATACTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (19 bp):
CTCAATTGAGCTAAATTTT
Done.