Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 311 of 410
Found at i:96552725 original size:25 final size:26
Alignment explanation
Indices: 96552696--96552748 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
96552686 AGTGCAAGTT
*
96552696 ATACC-GATTTGGCTTCGGGGCATGC
1 ATACCAGATTTGGCTTCGGGCCATGC
96552721 ATACCAGATGATTTGGCTTCGGGCCATG
1 ATACC--A-GATTTGGCTTCGGGCCATG
96552749 ATAATAGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
29 18 0.78
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (26 bp):
ATACCAGATTTGGCTTCGGGCCATGC
Found at i:96553881 original size:66 final size:65
Alignment explanation
Indices: 96553775--96553914 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 65
96553765 CTCAGTCTCA
*
96553775 CACACGAGCGTGTGAATGGCCATGTGGTACAAGTTAGTATACCCCCTAATTGGCACACGGCCTAG
1 CACACGGGCGTGTGAATGGCCATGTGGTACAAGTTAGTATACCCCCTAATTGGCACACGGCCTAG
* * * * * * ** *
96553840 CACACGGGCGTGTGACTTGGCCATGT-TTCATAAGTTCGTATACCCTCTATTTTTCACACGTCCT
1 CACACGGGCGTGTGA-ATGGCCATGTGGT-ACAAGTTAGTATACCCCCTAATTGGCACACGGCCT
*
96553904 GG
64 AG
96553906 CACACGGGC
1 CACACGGGC
96553915 CTGTCCTTGG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
65 15 0.24
66 47 0.76
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (65 bp):
CACACGGGCGTGTGAATGGCCATGTGGTACAAGTTAGTATACCCCCTAATTGGCACACGGCCTAG
Found at i:96556425 original size:23 final size:23
Alignment explanation
Indices: 96556399--96556444 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
96556389 TGATTATGTG
96556399 AATGAGTATAATTCTACGAACGA
1 AATGAGTATAATTCTACGAACGA
96556422 AATGAGTATAATTCTACGAACGA
1 AATGAGTATAATTCTACGAACGA
96556445 GTTTGACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
AATGAGTATAATTCTACGAACGA
Found at i:96560597 original size:42 final size:42
Alignment explanation
Indices: 96560535--96560751 Score: 220
Period size: 42 Copynumber: 5.2 Consensus size: 42
96560525 TGACATTAGG
* * * * *
96560535 GTTATGAGTTTATGTTTAAGACCATATTTGAGATATGGCATT
1 GTTATGAGATTACGTGTAAGACCATATCTGGGATATGGCATT
*
96560577 GTTATGAGATTACGTGTAAGACCATATATGGGATATGGCATT
1 GTTATGAGATTACGTGTAAGACCATATCTGGGATATGGCATT
* * * * * *
96560619 GTTATGAGATTTCGTGTAGGACCATGTCTGGGACATGACATC
1 GTTATGAGATTACGTGTAAGACCATATCTGGGATATGGCATT
* * * * *
96560661 GATATGAGAAT-CGTGTAAGACCATAGCCGGGCTATTGGCATT
1 GTTATGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATT
* ** *
96560703 GATATGAGATCCCATGTAAGACCATATCTGGGATATGGCATT
1 GTTATGAGATTACGTGTAAGACCATATCTGGGATATGGCATT
*
96560745 GGTATGA
1 GTTATGA
96560752 TTCTATGTGT
Statistics
Matches: 144, Mismatches: 29, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
41 17 0.12
42 108 0.75
43 19 0.13
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
GTTATGAGATTACGTGTAAGACCATATCTGGGATATGGCATT
Found at i:96562363 original size:2 final size:2
Alignment explanation
Indices: 96562356--96562386 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96562346 TACCCCTCAC
96562356 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
96562387 TCCTTAAAAA
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:96563785 original size:42 final size:42
Alignment explanation
Indices: 96563737--96563821 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
96563727 CAAAACCTAG
96563737 CTTAATTGAAGTTACATTTAAGAATAAAAATAAAACTTTCTC
1 CTTAATTGAAGTTACATTTAAGAATAAAAATAAAACTTTCTC
96563779 CTTAATTGAAGTTACATTTAAGAATAAAAATAAAACTTTCTC
1 CTTAATTGAAGTTACATTTAAGAATAAAAATAAAACTTTCTC
96563821 C
1 C
96563822 AAATGAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (42 bp):
CTTAATTGAAGTTACATTTAAGAATAAAAATAAAACTTTCTC
Found at i:96588981 original size:26 final size:26
Alignment explanation
Indices: 96588952--96589032 Score: 128
Period size: 26 Copynumber: 3.1 Consensus size: 26
96588942 TAAAACCCTA
96588952 GGGTATATCGGTAATTTGCTCTTTAG
1 GGGTATATCGGTAATTTGCTCTTTAG
*
96588978 GGGTAATTTCGGTAATTTGCTCTTTAG
1 GGGT-ATATCGGTAATTTGCTCTTTAG
96589005 GGGTA-ATTCGGTAATTTGCTCTTTAG
1 GGGTATA-TCGGTAATTTGCTCTTTAG
96589031 GG
1 GG
96589033 TAATTTCGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 26 0.51
27 25 0.49
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (26 bp):
GGGTATATCGGTAATTTGCTCTTTAG
Found at i:96589040 original size:26 final size:27
Alignment explanation
Indices: 96588959--96589040 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
96588949 CTAGGGTATA
96588959 TCGGTAATTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTGCTCTTTAGGGGTAATT
96588986 TCGGTAATTTGCTCTTTAGGGGTAA-T
1 TCGGTAATTTGCTCTTTAGGGGTAATT
96589012 TCGGTAATTTGCTCTTTA-GGGTAATT
1 TCGGTAATTTGCTCTTTAGGGGTAATT
96589038 TCG
1 TCG
96589041 TGATCTACGC
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 6 0.11
26 23 0.43
27 25 0.46
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (27 bp):
TCGGTAATTTGCTCTTTAGGGGTAATT
Found at i:96595839 original size:40 final size:40
Alignment explanation
Indices: 96595756--96595908 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
96595746 TCGAATGATG
* *
96595756 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
96595796 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
96595836 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
96595877 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
96595909 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:96603872 original size:40 final size:40
Alignment explanation
Indices: 96603789--96603900 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
96603779 TCGAATGATG
* *
96603789 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
96603829 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
96603869 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
96603901 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:96608046 original size:14 final size:15
Alignment explanation
Indices: 96608022--96608052 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
96608012 GTTTAAAAAA
96608022 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
96608037 TTTTTA-TTTTTATT
1 TTTTTATTTTTTATT
96608051 TT
1 TT
96608053 CACTTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:96616707 original size:49 final size:49
Alignment explanation
Indices: 96616533--96616837 Score: 478
Period size: 49 Copynumber: 6.3 Consensus size: 49
96616523 CCCTTCGGGA
* * * * * *
96616533 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96616580 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96616627 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96616674 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96616723 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96616772 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96616821 CTTATCACATATATATA
1 CTTATCACATATATATA
96616838 TCTCATACAT
Statistics
Matches: 242, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 90 0.37
49 151 0.62
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96620988 original size:40 final size:40
Alignment explanation
Indices: 96620939--96621208 Score: 427
Period size: 40 Copynumber: 6.8 Consensus size: 40
96620929 CCAGCATGAT
* * *
96620939 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
96620979 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96621019 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96621059 TGCTCTTCGGAACTTA-TCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96621098 TGCTCTT-GGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96621137 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
96621177 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
96621209 CTCAATTCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
38 8 0.04
39 60 0.28
40 147 0.68
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:96621166 original size:118 final size:120
Alignment explanation
Indices: 96620939--96621208 Score: 427
Period size: 118 Copynumber: 2.3 Consensus size: 120
96620929 CCAGCATGAT
* * * *
96620939 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGTTG
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
96621004 CATTACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
96621059 TGCTCTTCGGAACTTA-TCCGGATACATCACTAGCACGAATGCTCTT-GGAACTTAGTCCGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
96621122 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* ** *
96621177 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACCTAGCCCGGATACATCACT
96621209 CTCAATTCTC
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
118 82 0.59
119 42 0.30
120 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:96623412 original size:25 final size:25
Alignment explanation
Indices: 96623384--96623462 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
96623374 ACTCGGCCCT
*
96623384 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
96623409 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
96623431 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
96623456 ATCACAT
1 ATCACAT
96623463 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:96623508 original size:49 final size:49
Alignment explanation
Indices: 96623334--96623638 Score: 460
Period size: 49 Copynumber: 6.3 Consensus size: 49
96623324 CCCTTCGGGA
* * * * * *
96623334 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
96623381 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96623428 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96623475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96623524 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96623573 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96623622 CTTATCACATATATATA
1 CTTATCACATATATATA
96623639 TCTCATACAT
Statistics
Matches: 242, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 90 0.37
49 151 0.62
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96626964 original size:44 final size:44
Alignment explanation
Indices: 96626896--96626983 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
96626886 ATTACATGGA
*
96626896 TCGCATCCATAATGATCTCGGACCAACTCAAAGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGC
* *
96626940 TCGCATCCATAATGAACTCTGACCAACTCAATGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGC
96626984 CTCATACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGC
Found at i:96628477 original size:19 final size:19
Alignment explanation
Indices: 96628455--96628493 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
96628445 GAACCACATA
*
96628455 GCCTTGGCA-TTTCCACACG
1 GCCTGGGCAGTTT-CACACG
96628474 GCCTGGGCAGTTTCACACG
1 GCCTGGGCAGTTTCACACG
96628493 G
1 G
96628494 GTCGACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.23
Consensus pattern (19 bp):
GCCTGGGCAGTTTCACACG
Found at i:96630645 original size:20 final size:20
Alignment explanation
Indices: 96630620--96630669 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
96630610 ATGGCCAATT
96630620 AAATCAATTTGATTAAAATA
1 AAATCAATTTGATTAAAATA
* * *
96630640 AAATCAAATTGATTAGAATC
1 AAATCAATTTGATTAAAATA
*
96630660 AAGTCAATTT
1 AAATCAATTT
96630670 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATA
Found at i:96631087 original size:82 final size:82
Alignment explanation
Indices: 96630988--96631377 Score: 400
Period size: 82 Copynumber: 4.8 Consensus size: 82
96630978 CAAAATCAAG
* * * *
96630988 ATCGAATAAAATTTGTTAACCGACAGGAATAAATCCTGAAACAAATTATTCAATTTAATTCTAAT
1 ATCGAATAAAATATGTTAAACGACGGGAATAAATCCTGAAACAGATTATTCAATTTAATTCTAAT
*
96631053 TTGGAAACCTAATTAAA
66 TTGGAAACCAAATTAAA
* * * *
96631070 ATCGAACAAAATATGTTAAAC-AGCGGGAATCAATCCTGAAATAGATTATTCAATTTAATTGTAA
1 ATCGAATAAAATATGTTAAACGA-CGGGAATAAATCCTGAAACAGATTATTCAATTTAATTCTAA
96631134 TTTGGAAACCAAATTAAA
65 TTTGGAAACCAAATTAAA
* * * * * * *
96631152 ATCGAATTAAATCTATTAAATGGCGGGAATAAATCCCGAAACAGATTATTCAATTTAATTATAAT
1 ATCGAATAAAATATGTTAAACGACGGGAATAAATCCTGAAACAGATTATTCAATTTAATTCTAAT
* * **
96631217 TTGGGAACAAAAAACAAA
66 TTGGAAAC-CAAATTAAA
* * * * * * *
96631235 ATCGAATAAAATCTGTTAAATGGCGGG-AT--TTACTGAAACGGATTATACAATTTAATTCTAAT
1 ATCGAATAAAATATGTTAAACGACGGGAATAAATCCTGAAACAGATTATTCAATTTAATTCTAAT
*
96631297 TTGGAAACTAAATTAAA
66 TTGGAAACCAAATTAAA
* ** * *
96631314 ATCGAATAAAATATGTCAAACGGTGGGAATAAAT-CTCGAAATAGATT-TT--ATTTAATTTTAA
1 ATCGAATAAAATATGTTAAACGACGGGAATAAATCCT-GAAACAGATTATTCAATTTAATTCTAA
96631375 TTT
65 TTT
96631378 CTCGTTTGGC
Statistics
Matches: 257, Mismatches: 44, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
79 43 0.17
80 36 0.14
81 4 0.02
82 143 0.56
83 31 0.12
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (82 bp):
ATCGAATAAAATATGTTAAACGACGGGAATAAATCCTGAAACAGATTATTCAATTTAATTCTAAT
TTGGAAACCAAATTAAA
Found at i:96631344 original size:162 final size:163
Alignment explanation
Indices: 96631013--96631377 Score: 425
Period size: 162 Copynumber: 2.3 Consensus size: 163
96631003 TTAACCGACA
* * * ** **
96631013 GGAATAAATCCTGAAACAAATTATTCAATTTAATTCTAATTTGGAAACCTAATTAAAATCGAACA
1 GGAATAAATCCCGAAACAGATTATTCAATTTAATTATAATTTGGAAACAAAAACAAAATCGAACA
* * * *
96631078 AAATATGTTAAACAGCGGGAATCAATCCTGAAATAGATTATTCAATTTAATTGTAATTTGGAAAC
66 AAATATGTTAAACAGCGGGAAT-AATACTGAAACAGATTATACAATTTAATTCTAATTTGGAAAC
* * * *
96631143 CAAATTAAAATCGAATTAAATCTATTAAATGGCG
130 CAAATTAAAATCGAATAAAATATATCAAACGGCG
* *
96631177 GGAATAAATCCCGAAACAGATTATTCAATTTAATTATAATTTGGGAACAAAAAACAAAATCGAAT
1 GGAATAAATCCCGAAACAGATTATTCAATTTAATTATAATTTGGAAAC-AAAAACAAAATCGAAC
* ** * *
96631242 AAAATCTGTTAAATGGCGGG-AT-TTACTGAAACGGATTATACAATTTAATTCTAATTTGGAAAC
65 AAAATATGTTAAACAGCGGGAATAATACTGAAACAGATTATACAATTTAATTCTAATTTGGAAAC
* * *
96631305 TAAATTAAAATCGAATAAAATATGTCAAACGGTG
130 CAAATTAAAATCGAATAAAATATATCAAACGGCG
* * *
96631339 GGAATAAATCTCGAAATAGATT-TT--ATTTAATTTTAATTT
1 GGAATAAATCCCGAAACAGATTATTCAATTTAATTATAATTT
96631378 CTCGTTTGGC
Statistics
Matches: 172, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
159 14 0.08
161 2 0.01
162 82 0.48
164 46 0.27
165 28 0.16
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (163 bp):
GGAATAAATCCCGAAACAGATTATTCAATTTAATTATAATTTGGAAACAAAAACAAAATCGAACA
AAATATGTTAAACAGCGGGAATAATACTGAAACAGATTATACAATTTAATTCTAATTTGGAAACC
AAATTAAAATCGAATAAAATATATCAAACGGCG
Found at i:96631411 original size:87 final size:85
Alignment explanation
Indices: 96630909--96632155 Score: 572
Period size: 87 Copynumber: 14.6 Consensus size: 85
96630899 AAAAAATCAA
* * ** * **
96630909 AATAAAATCTGTTAAGTGGCGGGAATAAATCCCAAAACA-AAATTATTTGA--TTAGGTCTTCGT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTC-TCGT
* * *
96630971 TTAGAAGCAAAATC-AAGATCG
65 TTGGAAACAAAATCAAAAAT-G
* ** * * * * * **
96630992 AATAAAATTTGTTAACCGACAGGAATAAATCCTGAAACA-A-ATTATTCAA-TTTAATTCTAATT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
** *
96631054 TGGAAACCTAAT-TAAAATCG
66 TGGAAACAAAATCAAAAAT-G
* * ** * * * * * **
96631074 AACAAAATATGTTAAACAGCGGGAATCAATCCTGAAATAGA--TTATTCAA-TTTAATTGTAATT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
* *
96631136 TGGAAACCAAAT-TAAAATCG
66 TGGAAACAAAATCAAAAAT-G
* * * * **
96631156 AATTAAATCTATTAAATGGCGGGAATAAATCCCGAAACAGA--TTATTCAA-TTTAATTATAATT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
* *
96631218 TGGGAACAAAA-AACAAAATCG
66 TGGAAACAAAATCA-AAAAT-G
* * * * ** **
96631239 AATAAAATCTGTTAAATGGCGGG-AT--TTACTGAAACGGA--TTATACAA-TTTAATTCTAATT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
* *
96631298 TGGAAACTAAAT-TAAAATCG
66 TGGAAACAAAATCAAAAAT-G
* * * * * *
96631318 AATAAAATATGTCAAACGGTGGGAATAAATCTCGAAATAGATTTTATTTAATTTTAATTTCTCGT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAA-TTCTCGT
* *
96631383 TTGGCAACAAAATCAAGAATG
65 TTGGAAACAAAATCAAAAATG
* * * * * *
96631404 TAATAAAATCTGTTGAATAGCGGGAATAAATCCCAAAAGAAATTTTATTTAATTTTTAATACTCG
1 -AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAA-TTTTAATTCTCG
* *
96631469 TTTTGGGAACAAAATAAAAAATAG
64 -TTTGGAAACAAAATCAAAAAT-G
* * * * * * *
96631493 AATAAAATCCGTTTAATGGCAGGAATAAATCCCGAAACGGATTTTATATAACTTTAATTCTCATT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
*
96631558 TGGAAATAAAATCAAAAATGG
66 TGGAAACAAAATCAAAAAT-G
** * * * ** * * * * *
96631579 AATAAAATCCATTGAATAGCGGGAACAAATCCTAAAACGGATTTTACTAAACTTTAATT-TACCA
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCT--CG
* *
96631643 TTTGGAAATAAAATTAAAAATGG
64 TTTGGAAACAAAATCAAAAAT-G
* * * ** * * * * ** *
96631666 AAAAAAATCCGTTGAACAGCGGGAATAAATCTCAAAATAGATTTTATTTTATTTTAAAACTCCTT
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCT-CGT
* * *
96631731 TTGGGAACTAAATAAAAAATG
65 TTGGAAACAAAATCAAAAATG
* * *** ** * * * * *
96631752 AAATAAAATCCGTTGAACAACAAGAATAAATCCTGAAACCGATTTTATTCAACTTTAGTTCTCGT
1 -AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGT
* * *
96631817 TTGAAAATAAAATAAAAAAATGG
65 TTGGAAACAAAAT-CAAAAAT-G
* * ** * * *
96631840 AATAAAATCCGTTGAACAT--CAGGAATAAATTTCGAAACGGATTTTATTTAACTTTAATTCTCA
1 AATAAAATCTGTT-AA-ATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCG
* * *
96631903 TTTGGCAATAAAATAAAAAATAG
64 TTTGGAAACAAAATCAAAAAT-G
* * * ** * *** *
96631926 AATAAAAT-TCGTTGAACGGCGGAAATAAATCCCGAAATGGATTTTATTTCACACTAATTTCTAG
1 AATAAAATCT-GTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAA-TTCTCG
* *
96631990 TTTGGAAATAAAATAAAAAATGG
64 TTTGGAAACAAAATCAAAAAT-G
* * * ** * * * *
96632013 AATAGAATCCGTTGAACAGCGGGAATAAAT-CCTAAATCGGATTTTATTTAACTTTAATTTTCCG
1 AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAA-CAGATTTTATTTAATTTTAATTCT-CG
* *
96632077 TTTGGAAATAAAATAAAAAATG
64 TTTGGAAACAAAATCAAAAATG
* * * **
96632099 AAATAAAATCCGTTGAACTGG-GGGAATAAATCTCGAAATGGATTTTATTTATATTTT
1 -AATAAAATCTGTT-AAATGGCGGGAATAAATCCCGAAACAGATTTTATTTA-ATTTT
96632156 CAAATAAAAT
Statistics
Matches: 929, Mismatches: 198, Indels: 69
0.78 0.17 0.06
Matches are distributed among these distances:
79 26 0.03
80 39 0.04
82 164 0.18
83 67 0.07
84 7 0.01
85 7 0.01
86 155 0.17
87 383 0.41
88 79 0.09
89 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (85 bp):
AATAAAATCTGTTAAATGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTCTCGTT
TGGAAACAAAATCAAAAATG
Found at i:96631931 original size:347 final size:348
Alignment explanation
Indices: 96631338--96632116 Score: 922
Period size: 347 Copynumber: 2.2 Consensus size: 348
96631328 GTCAAACGGT
* * * * *
96631338 GGGAATAAATCTCGAAATAGATTTTATTTAATTTT-AATTTCTCGTTTGGCAACAAAATCAAGAA
1 GGGAATAAATCTCAAAATAGATTTTATTTAATTTTAAATTTC-CGTTTGGGAACTAAATAAAAAA
* * * * ** * * *
96631402 TGTAATAAAATCTGTTGAATAGCGGGAATAAATCCCAAAAGAAATTTTATTTAATTTTTAATACT
65 TGAAATAAAATCCGTTGAACAACAAGAATAAATCCCAAAACAAATTTTATTCAATCTTTAATACT
** * **
96631467 CGTTTTGGGAACAAAATAAAAAATAGAATAAAATCCGTTTAATGGCAGGAATAAATCCCGAAACG
130 CGTTTTGAAAACAAAATAAAAAATAGAATAAAATCCGTTGAACAGCAGGAATAAATCCCGAAACG
* * *
96631532 GATTTTATATAACTTTAATTCTCATTTGGAAATAAAATCAAAAATGGAATAAAATCCATTGAATA
195 GATTTTATATAACTTTAATTCTCATTTGGAAATAAAATAAAAAATAGAATAAAATCCATTGAACA
* * ** *
96631597 GCGGGAACAAATCCTAAAACGGATTTTACTAAACTTTAATTTACCA-TTTGGAAATAAAATTAAA
260 GCGGAAACAAATCCCAAAACGGATTTTACTAAACACTAATTT-CCAGTTTGGAAATAAAATAAAA
96631661 AATGGAAAAAAATCCGTTGAACAGC
324 AATGGAAAAAAATCCGTTGAACAGC
* ** *
96631686 GGGAATAAATCTCAAAATAGATTTTATTTTATTTTAAAACTCCTTTTGGGAACTAAATAAAAAAT
1 GGGAATAAATCTCAAAATAGATTTTATTTAATTTTAAATTTCCGTTTGGGAACTAAATAAAAAAT
** ** * *
96631751 GAAATAAAATCCGTTGAACAACAAGAATAAATCCTGAAACCGATTTTATTCAA-CTTTAGTTCTC
66 GAAATAAAATCCGTTGAACAACAAGAATAAATCCCAAAACAAATTTTATTCAATCTTTAATACTC
* * * **
96631815 G-TTTGAAAATAAAATAAAAAAATGGAATAAAATCCGTTGAACATCAGGAATAAATTTCGAAACG
131 GTTTTGAAAACAAAAT-AAAAAATAGAATAAAATCCGTTGAACAGCAGGAATAAATCCCGAAACG
* * * * *
96631879 GATTTTATTTAACTTTAATTCTCATTTGGCAATAAAATAAAAAATAGAATAAAATTCGTTGAACG
195 GATTTTATATAACTTTAATTCTCATTTGGAAATAAAATAAAAAATAGAATAAAATCCATTGAACA
* * * * ** *
96631944 GCGGAAATAAATCCCGAAATGGATTTTATTTCACACTAATTTCTAGTTTGGAAATAAAATAAAAA
260 GCGGAAACAAATCCCAAAACGGATTTTACTAAACACTAATTTCCAGTTTGGAAATAAAATAAAAA
* *
96632009 ATGGAATAGAATCCGTTGAACAGC
325 ATGGAAAAAAATCCGTTGAACAGC
* * * * *
96632033 GGGAATAAATC-CTAAATCGGATTTTATTTAACTTTAATTTTCCGTTT-GGAAATAAAATAAAAA
1 GGGAATAAATCTCAAAAT-AGATTTTATTTAATTTTAAATTTCCGTTTGGGAACT-AAATAAAAA
96632096 ATGAAATAAAATCCGTTGAAC
64 ATGAAATAAAATCCGTTGAAC
96632117 TGGGGGAATA
Statistics
Matches: 361, Mismatches: 65, Indels: 11
0.83 0.15 0.03
Matches are distributed among these distances:
346 23 0.06
347 242 0.67
348 92 0.25
349 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (348 bp):
GGGAATAAATCTCAAAATAGATTTTATTTAATTTTAAATTTCCGTTTGGGAACTAAATAAAAAAT
GAAATAAAATCCGTTGAACAACAAGAATAAATCCCAAAACAAATTTTATTCAATCTTTAATACTC
GTTTTGAAAACAAAATAAAAAATAGAATAAAATCCGTTGAACAGCAGGAATAAATCCCGAAACGG
ATTTTATATAACTTTAATTCTCATTTGGAAATAAAATAAAAAATAGAATAAAATCCATTGAACAG
CGGAAACAAATCCCAAAACGGATTTTACTAAACACTAATTTCCAGTTTGGAAATAAAATAAAAAA
TGGAAAAAAATCCGTTGAACAGC
Found at i:96632129 original size:174 final size:174
Alignment explanation
Indices: 96631338--96632149 Score: 736
Period size: 174 Copynumber: 4.7 Consensus size: 174
96631328 GTCAAACGGT
* * * * * * *
96631338 GGGAATAAATCTCGAAAT-AGATTTTATTTAATTTTAATT-TCTCGTTTGGCAACAAAATCAAGA
1 GGGAATAAATC-CGAAATCGGATTTTATTTAACTTTAATTCTC-CATTTGGAAATAAAATAAAAA
* * * * ***
96631401 ATGTAATAAAATCTGTTGAA-TAGCGGGAATAAATCCC-AAAAGAAATTTTATTTAATTTTTAA-
64 ATGAAATAAAATCCGTTGAACT-GCGGGAATAAATCCCGAAACG-GATTTTATTTAA-CACTAAT
* * * * * * **
96631463 TACTCGTTTTGGGAACAAAATAAAAAATAGAATAAAATCCGTTTAATGGC
126 TTCTAG-TTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGC
* * *
96631513 AGGAATAAATCCCGAAA-CGGATTTTATATAACTTTAATTCT-CATTTGGAAATAAAATCAAAAA
1 GGGAATAAAT-CCGAAATCGGATTTTATTTAACTTTAATTCTCCATTTGGAAATAAAATAAAAAA
* * * ** * * **
96631576 TGGAATAAAATCCATTGAA-TAGCGGGAACAAATCCTAAAACGGATTTTACTAAACTTTAATTTA
65 TGAAATAAAATCCGTTGAACT-GCGGGAATAAATCCCGAAACGGATTTTATTTAACACTAATTT-
* * *
96631640 CCA-TTTGGAAATAAAATTAAAAATGGAAAAAAATCCGTTGAACAGC
128 CTAGTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGC
* * * * ** * *
96631686 GGGAATAAATCTCAAAAT-AGATTTTATTTTATTTTAAAACTCCTTTTGGGAACT-AAATAAAAA
1 GGGAATAAATC-CGAAATCGGATTTTATTTAACTTTAATTCTCCATTT-GGAAATAAAATAAAAA
** ** * * * * * *
96631749 ATGAAATAAAATCCGTTGAACAACAAGAATAAATCCTGAAACCGATTTTATTCAAC-TTTAGTTC
64 ATGAAATAAAATCCGTTGAACTGCGGGAATAAATCCCGAAACGGATTTTATTTAACACTAATTTC
* * *
96631813 TCGTTTGAAAATAAAATAAAAAAATGGAATAAAATCCGTTGAACATC
129 TAGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCCGTTGAACAGC
* * *
96631860 AGGAATAAATTTCGAAA-CGGATTTTATTTAACTTTAATTCT-CATTTGGCAATAAAATAAAAAA
1 GGGAATAAA-TCCGAAATCGGATTTTATTTAACTTTAATTCTCCATTTGGAAATAAAATAAAAAA
* * * * *
96631923 T-AGAATAAAATTCGTTGAACGGCGGAAATAAATCCCGAAATGGATTTTATTTCACACTAATTTC
65 TGA-AATAAAATCCGTTGAACTGCGGGAATAAATCCCGAAACGGATTTTATTTAACACTAATTTC
*
96631987 TAGTTTGGAAATAAAATAAAAAATGGAATAGAATCCGTTGAACAGC
129 TAGTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGC
* * *
96632033 GGGAATAAATCCTAAATCGGATTTTATTTAACTTTAATTTTCCGTTTGGAAATAAAATAAAAAAT
1 GGGAATAAATCCGAAATCGGATTTTATTTAACTTTAATTCTCCATTTGGAAATAAAATAAAAAAT
* * *
96632098 GAAATAAAATCCGTTGAACTGGGGGAATAAATCTCGAAATGGATTTTATTTA
66 GAAATAAAATCCGTTGAACTGCGGGAATAAATCCCGAAACGGATTTTATTTA
96632150 TATTTTCAAA
Statistics
Matches: 516, Mismatches: 100, Indels: 43
0.78 0.15 0.07
Matches are distributed among these distances:
172 12 0.02
173 202 0.39
174 256 0.50
175 44 0.09
176 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (174 bp):
GGGAATAAATCCGAAATCGGATTTTATTTAACTTTAATTCTCCATTTGGAAATAAAATAAAAAAT
GAAATAAAATCCGTTGAACTGCGGGAATAAATCCCGAAACGGATTTTATTTAACACTAATTTCTA
GTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGC
Found at i:96632146 original size:260 final size:254
Alignment explanation
Indices: 96631338--96632149 Score: 835
Period size: 260 Copynumber: 3.1 Consensus size: 254
96631328 GTCAAACGGT
** * * * * *
96631338 GGGAATAAATCTCGAAATAGATTTTATTTAATTTTAATTTCTCGTTTGGCAACAAAATCAAGAAT
1 GGGAATAAATCTCGAAACGGATTTTATTTAACTTTAA-TTCTCATTTGGCAATAAAATAAAAAAT
* * *
96631403 GTAATAAAA-TCTGTTGAATAGCGGGAATAAATCCCAAAAGAAATTTTATTTAATTTTTAATACT
65 G-AATAAAATTC-GTTGAACAGCGGGAATAAATCCCAAATG-GATTTTATTTAA-TTTTAATACT
* * * * ** *
96631467 CGTTTTGGGAACAAAATAAAAAATAGAATAAAATCCGTTTAATGGCAGGAATAAATCCCGAAACG
126 -G-TTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGCAGGAATAAAT-CCTAAACG
* * * *
96631532 GATTTTATATAACTTTAATTCTCATTTGGAAATAAAATCAAAAATGGAATAAAATCCATTGAA-T
188 GATTTTATTTAACTTTAATTCTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACT
96631596 AGC
253 -GC
* * * * * *
96631599 GGGAACAAATC-CTAAAACGGATTTTACTAAACTTTAATT-TACCATTTGGAAATAAAATTAAAA
1 GGGAATAAATCTC-GAAACGGATTTTATTTAACTTTAATTCT--CATTTGGCAATAAAATAAAAA
* * * * * *
96631662 ATGGAAAAAAATCCGTTGAACAGCGGGAATAAATCTCAAAATAGATTTTATTTTATTTTAAAACT
63 AT-GAATAAAATTCGTTGAACAGCGGGAATAAATC-CCAAATGGATTTTATTTAATTTTAATACT
* * * * *
96631727 CCTTTTGGGAACT-AAATAAAAAATGAAATAAAATCCGTTGAACAACAAGAATAAATCCTGAAAC
126 --GTTT-GGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGCAGGAATAAATCCT-AAAC
* * * *
96631791 CGATTTTATTCAACTTTAGTTCTCGTTTGAAAATAAAATAAAAAAATGGAATAAAATCCGTTGAA
187 GGATTTTATTTAACTTTAATTCTCGTTTGGAAATAAAAT-AAAAAATGGAATAAAATCCGTTGAA
96631856 CAT-C
251 C-TGC
* *
96631860 AGGAATAAATTTCGAAACGGATTTTATTTAACTTTAATTCTCATTTGGCAATAAAATAAAAAATA
1 GGGAATAAATCTCGAAACGGATTTTATTTAACTTTAATTCTCATTTGGCAATAAAATAAAAAAT-
* * * *** *
96631925 GAATAAAATTCGTTGAACGGCGGAAATAAATCCCGAAATGGATTTTATTTCACACTAATTTCTAG
65 GAATAAAATTCGTTGAACAGCGGGAATAAATCCC-AAATGGATTTTATTTAATTTTAA-TACT-G
* *
96631990 TTTGGAAATAAAATAAAAAATGGAATAGAATCCGTTGAACAGCGGGAATAAATCCTAAATCGGAT
127 TTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGCAGGAATAAATCCTAAA-CGGAT
* * *
96632055 TTTATTTAACTTTAATTTTCCGTTTGGAAATAAAATAAAAAATGAAATAAAATCCGTTGAACTGG
191 TTTATTTAACTTTAATTCT-CGTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACTGC
*
96632120 GGGAATAAATCTCGAAATGGATTTTATTTA
1 GGGAATAAATCTCGAAACGGATTTTATTTA
96632150 TATTTTCAAA
Statistics
Matches: 451, Mismatches: 80, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
259 13 0.03
260 271 0.60
261 158 0.35
262 8 0.02
263 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (254 bp):
GGGAATAAATCTCGAAACGGATTTTATTTAACTTTAATTCTCATTTGGCAATAAAATAAAAAATG
AATAAAATTCGTTGAACAGCGGGAATAAATCCCAAATGGATTTTATTTAATTTTAATACTGTTTG
GAAATAAAATAAAAAATGGAATAAAATCCGTTGAACAGCAGGAATAAATCCTAAACGGATTTTAT
TTAACTTTAATTCTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCCGTTGAACTGC
Found at i:96632311 original size:24 final size:24
Alignment explanation
Indices: 96632257--96632305 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
96632247 CACGTTAGCT
96632257 AACAAATATATATATATATATATA
1 AACAAATATATATATATATATATA
*
96632281 AACAAATATTTATATATATA-ATA
1 AACAAATATATATATATATATATA
96632304 AA
1 AA
96632306 ATAAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
AACAAATATATATATATATATATA
Found at i:96632760 original size:20 final size:20
Alignment explanation
Indices: 96632735--96632788 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
96632725 TTAAAGGGGC
*
96632735 AATTAAATCAATTTGATTAA
1 AATTAAATCAAATTGATTAA
* *
96632755 AATTAAAGCAAATTGATTAG
1 AATTAAATCAAATTGATTAA
*
96632775 AATCAAATCAAATT
1 AATTAAATCAAATT
96632789 TATTTTTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
AATTAAATCAAATTGATTAA
Found at i:96633232 original size:76 final size:75
Alignment explanation
Indices: 96633105--96633409 Score: 335
Period size: 76 Copynumber: 3.9 Consensus size: 75
96633095 CAAGATTGAA
* * * * * *
96633105 TAAAATTTGTTAACTGGCAAGAATAAATCTCGAAA-AAATTATTCAATTTAATTCTAATTTGGGA
1 TAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTTGGAA
96633169 ACAAAATCAAT
65 ACAAAATCAAT
* * * *
96633180 TAAATTTTGATAAATGACGAGAATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTTGGAA
1 TAAAATATGTTAAATGGCG-GAATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTTGGAA
*
96633245 ACCAAAATAAAATCT
65 A-CAAAAT-CAA--T
*
96633260 AATAAAATATGTTAAATGGCTGGAATAAATCCCGAAATATATTATTCAATTTAATTCTAATTTGG
1 --TAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTT-G
* *
96633325 GAAA-AAAAACAAA
62 GAAACAAAATCAAT
* * *
96633338 TAAAATATGTTAAATGGCGGAAATAAATCCTGAAACAGATTATACAATTTAATTCTAATTTGGAA
1 TAAAATATGTTAAATGGCGG-AATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTTGGAA
*
96633403 ACCAAAT
65 ACAAAAT
96633410 TAAAATCGAA
Statistics
Matches: 195, Mismatches: 23, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
75 35 0.18
76 85 0.44
77 6 0.03
78 2 0.01
80 3 0.02
81 4 0.02
82 54 0.28
83 6 0.03
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (75 bp):
TAAAATATGTTAAATGGCGGAATAAATCCCGAAATAGATTATTCAATTTAATTCTAATTTGGAAA
CAAAATCAAT
Found at i:96633289 original size:82 final size:80
Alignment explanation
Indices: 96633085--96633761 Score: 390
Period size: 87 Copynumber: 8.2 Consensus size: 80
96633075 TCTTCGTTTA
* * * * * * *
96633085 GAAACAAAATCAAGATTGAATAAAATTTGTTAACTGGCAAGAATAAATCTCGAAA-AAATTATTC
1 GAAACAAAAT-AAAATCGAATAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGATTATTC
96633149 AATTTAATTCTAATTTG
64 AATTTAATTCTAATTTG
* * * * * *
96633166 GGAACAAAAT-CAAT----TAAATTTTGATAAATGACGAGAATAAATCCCGAAATAGATTATTCA
1 GAAACAAAATAAAATCGAATAAAATATGTTAAATGGCG-GAATAAATCCCGAAATAGATTATTCA
96633226 ATTTAATTCTAATTTG
65 ATTTAATTCTAATTTG
* *
96633242 GAAACCAAAATAAAATCTAATAAAATATGTTAAATGGCTGGAATAAATCCCGAAATATATTATTC
1 GAAA-CAAAATAAAATCGAATAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGATTATTC
96633307 AATTTAATTCTAATTTG
64 AATTTAATTCTAATTTG
* * * * *
96633324 G---GAAAA-AAAA-CAAATAAAATATGTTAAATGGCGGAAATAAATCCTGAAACAGATTATACA
1 GAAACAAAATAAAATCGAATAAAATATGTTAAATGGCGG-AATAAATCCCGAAATAGATTATTCA
96633384 ATTTAATTCTAATTTG
65 ATTTAATTCTAATTTG
* * * * ** ** *
96633400 GAAACCAAATTAAAATCGAATAGAATATGTCAAACGAGATGAATAAATCTTGAAACAGATTTTAT
1 GAAA-CAAAATAAAATCGAATAAAATATGTTAAATG-GCGGAATAAATCCCGAAATAGA--TTAT
* * **
96633465 TTAATTTTAATACTCGTTTTG
62 TCAA-TTTAATTCT-AATTTG
* * * * *
96633486 GGAACAAAATAAAAAATGGAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTA
1 GAAACAAAAT--AAAATCGAATAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGA--TTA
* * *
96633551 TTCAATTTTAATACTAGTTTTA
61 TTCAA-TTTAATTCTA-ATTTG
* * ** * *
96633573 GAAACAAAATAAAAAAATTGAATAAAATCTGTTGAACA-ACCGGAATAAATCCCAAAACAGATTT
1 GAAACAAAAT---AAAATCGAATAAAATATGTT-AA-ATGGCGGAATAAATCCCGAAATAGA--T
* * **
96633637 TATTTAATTTTAATACTCGTTTTGG
59 TATTCAA-TTTAATTCT-AATTT-G
** * ** *
96633662 GAAACAAAATAAAAAAT-GAATAAAATCCGTTTAACAGCGGGAATAAATCCCGAAATGGATTTTA
1 GAAACAAAAT--AAAATCGAATAAAATATGTTAAATGGC-GGAATAAATCCCGAAATAGA--TTA
* *
96633726 TTTAACTTTAATTCTTATTTG
61 TTCAA-TTTAATTCTAATTTG
* *
96633747 AAAATAAAATTAAAA
1 GAAACAAAA-TAAAA
96633762 AAAGGAATAA
Statistics
Matches: 489, Mismatches: 74, Indels: 63
0.78 0.12 0.10
Matches are distributed among these distances:
75 30 0.06
76 87 0.18
77 10 0.02
78 7 0.01
79 2 0.00
80 3 0.01
81 13 0.03
82 89 0.18
83 3 0.01
84 10 0.02
85 22 0.04
86 15 0.03
87 116 0.24
88 69 0.14
89 12 0.02
90 1 0.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (80 bp):
GAAACAAAATAAAATCGAATAAAATATGTTAAATGGCGGAATAAATCCCGAAATAGATTATTCAA
TTTAATTCTAATTTG
Found at i:96633316 original size:158 final size:157
Alignment explanation
Indices: 96633085--96633429 Score: 460
Period size: 158 Copynumber: 2.2 Consensus size: 157
96633075 TCTTCGTTTA
* * * * *
96633085 GAAA-CAAAATCAAGATTGAATAAAATTTGTTAACTGGCAAGAATAAATCTCGAAAAAATTATTC
1 GAAACCAAAAT-AAAATCGAATAAAATATGTTAAATGGCAAGAATAAATCCCGAAAAAATTATTC
* * * * *
96633149 AATTTAATTCTAATTTGGGAACAAAATCAATTAAATTTTGATAAATGAC-GAGAATAAATCCCGA
65 AATTTAATTCTAATTTGGGAAAAAAAACAAATAAAATATGATAAATGACGGA-AATAAATCCCGA
* *
96633213 AATAGATTATTCAATTTAATTCTAATTTG
129 AACAGATTATACAATTTAATTCTAATTTG
* ** *
96633242 GAAACCAAAATAAAATCTAATAAAATATGTTAAATGGCTGGAATAAATCCCGAAATATATTATTC
1 GAAACCAAAATAAAATCGAATAAAATATGTTAAATGGCAAGAATAAATCCCGAAA-AAATTATTC
* * *
96633307 AATTTAATTCTAATTTGGGAAAAAAAACAAATAAAATATGTTAAATGGCGGAAATAAATCCTGAA
65 AATTTAATTCTAATTTGGGAAAAAAAACAAATAAAATATGATAAATGACGGAAATAAATCCCGAA
96633372 ACAGATTATACAATTTAATTCTAATTTG
130 ACAGATTATACAATTTAATTCTAATTTG
* *
96633400 GAAACCAAATTAAAATCGAATAGAATATGT
1 GAAACCAAAATAAAATCGAATAAAATATGT
96633430 CAAACGAGAT
Statistics
Matches: 163, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
157 40 0.25
158 121 0.74
159 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (157 bp):
GAAACCAAAATAAAATCGAATAAAATATGTTAAATGGCAAGAATAAATCCCGAAAAAATTATTCA
ATTTAATTCTAATTTGGGAAAAAAAACAAATAAAATATGATAAATGACGGAAATAAATCCCGAAA
CAGATTATACAATTTAATTCTAATTTG
Found at i:96633532 original size:87 final size:87
Alignment explanation
Indices: 96633440--96633909 Score: 563
Period size: 87 Copynumber: 5.4 Consensus size: 87
96633430 CAAACGAGAT
** *
96633440 GAATAAATCTTGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGGAACAAAATAAAAAATGG
1 GAATAAATCCCGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAAATGG
*
96633505 AATAAAATCTGTTGAACGGCAG
66 AATAAAATCTGTTGAACAGCAG
* * * * *
96633527 GAATAAATCCCGAAATAGATTTTATTCAATTTTAATACTAGTTTTAGAAACAAAATAAAAAAATT
1 GAATAAATCCCGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAAT-AAAAAATG
* *
96633592 GAATAAAATCTGTTGAACAACCG
65 GAATAAAATCTGTTGAACAGCAG
*
96633615 GAATAAATCCCAAAACAGATTTTATTTAATTTTAATACTCGTTTTGGGAAACAAAATAAAAAAT-
1 GAATAAATCCCGAAACAGATTTTATTTAATTTTAATACTCGTTTT-GGAAACAAAATAAAAAATG
* * *
96633679 GAATAAAATCCGTTTAACAGCGG
65 GAATAAAATCTGTTGAACAGCAG
** * * * * *
96633702 GAATAAATCCCGAAATGGATTTTATTTAACTTTAAT--TCTTATTTGAAAATAAAATTAAAAAAA
1 GAATAAATCCCGAAACAGATTTTATTTAATTTTAATACTCGT-TTTGGAAACAAAA-TAAAAAAT
* *
96633765 GGAATAAAATCTGTTGAACAACAA
64 GGAATAAAATCTGTTGAACAGCAG
* * * * *
96633789 GAAT-AATCCCTGAAACGGATTTTATTTAACTTTAATTTCTC-ATTTGGAAATAAAATAAAAAAT
1 GAATAAATCCC-GAAACAGATTTTATTTAATTTTAA-TACTCGTTTTGGAAACAAAATAAAAAAT
* *
96633852 GGAATAAAATCTGTTGAACGGCAA
64 GGAATAAAATCTGTTGAACAGCAG
96633876 GAATAAATCCCGAAACAGATTTTATTTATATTTT
1 GAATAAATCCCGAAACAGATTTTATTTA-ATTTT
96633910 CAAAAAAAAA
Statistics
Matches: 331, Mismatches: 41, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
85 11 0.03
86 16 0.05
87 194 0.59
88 98 0.30
89 10 0.03
90 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (87 bp):
GAATAAATCCCGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAAATGG
AATAAAATCTGTTGAACAGCAG
Found at i:96633882 original size:174 final size:176
Alignment explanation
Indices: 96633440--96633903 Score: 629
Period size: 175 Copynumber: 2.7 Consensus size: 176
96633430 CAAACGAGAT
* *
96633440 GAATAAAT-CTTGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGGAACAAAATAAAAAATG
1 GAATAAATCCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAAATG
* *
96633504 GAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTATTCAATTTTAATACTAGT
66 GAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAACTTTAATACTAGT
* * **
96633569 TTTAGAAACAAAATAAAAAAATTGAATAAAATCTGTTGAACAACCG
131 TTGAGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAACAACAA
*
96633615 GAATAAATCCC-AAAACAGATTTTATTTAATTTTAATACTCGTTTTGGGAAACAAAATAAAAAAT
1 GAATAAATCCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTT-GGAAACAAAATAAAAAAT
* * * * * *
96633679 -GAATAAAATCCGTTTAACAGCGGGAATAAATCCCGAAATGGATTTTATTTAACTTTAATTCTTA
65 GGAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAACTTTAATAC-TA
*
96633743 -TTTGA-AAATAAAATTAAAAAAA-GGAATAAAATCTGTTGAACAACAA
129 GTTTGAGAAACAAAA-TAAAAAAATGGAATAAAATCTGTTGAACAACAA
* * * * *
96633789 GAAT-AATCCCTGAAACGGATTTTATTTAACTTTAATTTCTC-ATTTGGAAATAAAATAAAAAAT
1 GAATAAATCCCTGAAACAGATTTTATTTAATTTTAA-TACTCGTTTTGGAAACAAAATAAAAAAT
* *
96633852 GGAATAAAATCTGTTGAACGGCAAGAATAAATCCCGAAACAGATTTTATTTA
65 GGAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTATTTA
96633904 TATTTTCAAA
Statistics
Matches: 253, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
173 23 0.09
174 100 0.40
175 110 0.43
176 20 0.08
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (176 bp):
GAATAAATCCCTGAAACAGATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAAATG
GAATAAAATCTGTTGAACGGCAGGAATAAATCCCGAAATAGATTTTATTTAACTTTAATACTAGT
TTGAGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAACAACAA
Found at i:96634048 original size:24 final size:25
Alignment explanation
Indices: 96634011--96634061 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
96634001 CACGTTAGCG
96634011 AACAAAAATATATAAATAT-AAATA
1 AACAAAAATATATAAATATAAAATA
* * *
96634035 AACAAATATTTATATATATAAAATA
1 AACAAAAATATATAAATATAAAATA
96634060 AA
1 AA
96634062 ATAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AACAAAAATATATAAATATAAAATA
Found at i:96634524 original size:20 final size:20
Alignment explanation
Indices: 96634499--96634552 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
96634489 TTAAAGAGGC
*
96634499 AATTAAATCAATTTGATTAA
1 AATTAAATCAAATTGATTAA
* *
96634519 AATTAAATTAAATTGATTAG
1 AATTAAATCAAATTGATTAA
*
96634539 AATCAAATCAAATT
1 AATTAAATCAAATT
96634553 TCTTTTACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
AATTAAATCAAATTGATTAA
Found at i:96634964 original size:82 final size:83
Alignment explanation
Indices: 96634785--96634976 Score: 298
Period size: 83 Copynumber: 2.3 Consensus size: 83
96634775 GAAAAAATCA
* * *
96634785 AAATAAAATCTGTTGAGCGCCGGGAATAAATCCCAAAACAAAATTTTTGATTAAGTCTTTGTTTA
1 AAATAAAATCTGTTAACCGGCGGGAATAAATCCCAAAACAAAATTTTTGATTAAGTCTTTGTTTA
96634850 GAAACCAAAATCAAGATC
66 GAAACCAAAATCAAGATC
96634868 AAATAAAATCTGTTAACCGGCGGGAATAAATCCCAAAAC-AAATTATTTGATTAAGTCTTTGTTT
1 AAATAAAATCTGTTAACCGGCGGGAATAAATCCCAAAACAAAATT-TTTGATTAAGTCTTTGTTT
*
96634932 AGAAA-TAAAATCAAGATC
65 AGAAACCAAAATCAAGATC
* * *
96634950 GAATAAAATTTGTTAACCGGCGAGAAT
1 AAATAAAATCTGTTAACCGGCGGGAAT
96634977 TTATTCTGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
82 41 0.41
83 60 0.59
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (83 bp):
AAATAAAATCTGTTAACCGGCGGGAATAAATCCCAAAACAAAATTTTTGATTAAGTCTTTGTTTA
GAAACCAAAATCAAGATC
Found at i:96635070 original size:75 final size:77
Alignment explanation
Indices: 96634938--96635220 Score: 264
Period size: 75 Copynumber: 3.6 Consensus size: 77
96634928 GTTTAGAAAT
* * * * ** * *
96634938 AAAATCAAGATCGAATAAAATTTGTTAACCGGCGAGAATTTATTCTGAAACAAATTATTCAATTT
1 AAAATGAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGATTATTCAATTT
96635003 AATTCTAATTTG
66 AATTCTAATTTG
*
96635015 -AGA-GAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGATTATTCAATTT
1 AAAATGAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGATTATTCAATTT
*
96635078 AATTTTAATTTG
66 AATTCTAATTTG
* * * ** * *
96635090 AAAACCAAATTAAAATCGAATAAAATCTATTAAACGATGGGAATAAATCCTGAATACAGATTATA
1 ---A--AAATGAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAA-ACAGATTATT
96635155 CAATTTAATTCTAATTTGG
60 CAATTTAATTCTAATTT-G
* * * *
96635174 AAACAAAATTAAAATCAAATAAAATATGTCAAACGGCGGGAATAAAT
1 ----AAAATGAAAATCGAATAAAATATGTTAAACGGCGAGAATAAAT
96635221 TTTGAAATTG
Statistics
Matches: 170, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
75 63 0.37
76 2 0.01
81 2 0.01
82 38 0.22
83 61 0.36
84 1 0.01
85 3 0.02
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (77 bp):
AAAATGAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGATTATTCAATTT
AATTCTAATTTG
Found at i:96635188 original size:83 final size:82
Alignment explanation
Indices: 96635019--96635220 Score: 269
Period size: 83 Copynumber: 2.5 Consensus size: 82
96635009 AATTTGAGAG
* * * *
96635019 AAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGATTATTCAATTTAATTTT
1 AAAATCGAATAAAATATATTAAACGACGAGAATAAATCCTGAAACAGATTATACAATTTAATTCT
*
96635084 AATTTGAAAACCAAATT
66 AATTTGAAAACAAAATT
* * *
96635101 AAAATCGAATAAAATCTATTAAACGATGGGAATAAATCCTGAATACAGATTATACAATTTAATTC
1 AAAATCGAATAAAATATATTAAACGACGAGAATAAATCCTGAA-ACAGATTATACAATTTAATTC
*
96635166 TAATTTGGAAACAAAATT
65 TAATTTGAAAACAAAATT
* * * * *
96635184 AAAATCAAATAAAATATGTCAAACGGCGGGAATAAAT
1 AAAATCGAATAAAATATATTAAACGACGAGAATAAAT
96635221 TTTGAAATTG
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 38 0.37
83 66 0.63
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (82 bp):
AAAATCGAATAAAATATATTAAACGACGAGAATAAATCCTGAAACAGATTATACAATTTAATTCT
AATTTGAAAACAAAATT
Found at i:96635413 original size:175 final size:175
Alignment explanation
Indices: 96635232--96635852 Score: 504
Period size: 170 Copynumber: 3.6 Consensus size: 175
96635222 TTGAAATTGG
* * * * * *
96635232 TTTTATTTAATTTTAATTTCCCG-TTTGGCAACAAAAT-TAAGAATGGAATAAAATCCGTTGAAT
1 TTTTATTTAATCTTAA-TACCCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCCATTGAA-
* * *
96635295 A-GCGAGAATAATTTCCAAAACAAATTTTATTTAATTTTTAATACTCGTTTTGGGAACAAAATAA
64 AGGCGAGAATAAATCCCAAAACAAATTTTATTTAA-TTTTAATACTCGTTTTGGAAACAAAATAA
* *
96635359 AAAATGGAATAGAA-CTTATTGAACGGTAGGAATAAATCCCGAAACAGA
128 AAAATGGAATA-AATCTTATTGAACAGCAGGAATAAATCCCGAAACAGA
* *
96635407 TTTTATTTAATCTTAATACTCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCTATTGAAAG
1 TTTTATTTAATCTTAATACCCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCCATTGAAAG
* * * * * *
96635472 GCGGGAATAAATCCCGACATAGATTTTATTTTATTTTAATACTCGTTTTGGAAACAAAATAAAAA
66 GCGAGAATAAATCCCAAAACAAATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAA
* * * *
96635537 ATGGAATAAATTTTGTTGAACAGCGGGAATAAATCCCGAAATAG-
131 ATGGAATAAATCTTATTGAACAGCAGGAATAAATCCCGAAACAGA
* ** * * ** *
96635581 ----ATTTAATTTTAATACTTGTTTTGGGAACAAAATAAAAAATTGGAATAAAATCTGTTGAATG
1 TTTTATTTAATCTTAATACCCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCCATTGAAAG
* * * ** * * * *
96635642 GCAAGTAATAAATCTCGAAACGGATTTTATTTAACTTTAATTCTCATTTT-GAAATAAAAT-AAA
66 GCGAG-AATAAATCCCAAAACAAATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAA
* * * * *
96635705 AATGAAATAAATC-CATTGAAC-GACGGGAATAAATCTCGAAACGGA
130 AATGGAATAAATCTTATTGAACAG-CAGGAATAAATCCCGAAACAGA
* * * * * * * * * *
96635750 TTTTATATAAATATTATTTCCC-ATTTAGAAATAAAAT--AAAAATGAAATAGAATCAATTGAAC
1 TTTTAT-TTAATCTTAATACCCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCCATTGAA-
** * *
96635812 A-GC-AGGAATAAATCCTGAAACAGATTTTATTTAACTTTAAT
64 AGGCGA-GAATAAATCCCAAAACAAATTTTATTTAATTTTAAT
96635853 TTCCCGATTG
Statistics
Matches: 366, Mismatches: 66, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
167 1 0.00
168 24 0.07
169 14 0.04
170 100 0.27
171 58 0.16
173 13 0.04
174 15 0.04
175 95 0.26
176 46 0.13
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (175 bp):
TTTTATTTAATCTTAATACCCGTTTTGGAAACAAAATAAAAAAATGGAATAAAATCCATTGAAAG
GCGAGAATAAATCCCAAAACAAATTTTATTTAATTTTAATACTCGTTTTGGAAACAAAATAAAAA
ATGGAATAAATCTTATTGAACAGCAGGAATAAATCCCGAAACAGA
Found at i:96635581 original size:87 final size:87
Alignment explanation
Indices: 96635169--96635938 Score: 575
Period size: 88 Copynumber: 8.9 Consensus size: 87
96635159 TTAATTCTAA
* ** * ** * *** ** *
96635169 TTTGGAAACAAAAT-TAAAATCAAATAAAATATGTCAAACGGCGGGAATAAATTTTGAAATTGGT
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
* *
96635233 TTTATTTAATTTTAATTTCCCG-
66 TTTATTTAATTTTAA-TACTCGT
* * * * * * * * * *
96635255 TTTGGCAACAAAATTAAGAATGGAATAAAATCCGTTGAATAGCGAGAATAATTTCCAAAACAAAT
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
96635320 TTTATTTAATTTTTAATACTCGT
66 TTTATTTAA-TTTTAATACTCGT
* * * * **
96635343 TTTGGGAACAAAATAAAAAATGGAATAGAA-CTTATTGAACGGTAGGAATAAATCCCGAAACAGA
1 TTTGGAAACAAAATAAAAAATGGAATAAAATC-TGTTGAACAGCGGGAATAAATCCCGAAACAGA
*
96635407 TTTTATTTAATCTTAATACTCGT
65 TTTTATTTAATTTTAATACTCGT
* * *
96635430 TTTGGAAACAAAATAAAAAAATGGAATAAAATCTATTGAA-AGGCGGGAATAAATCCCGACATAG
1 TTTGGAAACAAAAT-AAAAAATGGAATAAAATCTGTTGAACA-GCGGGAATAAATCCCGAAACAG
*
96635494 ATTTTATTTTATTTTAATACTCGT
64 ATTTTATTTAATTTTAATACTCGT
* * *
96635518 TTTGGAAACAAAATAAAAAATGGAATAAATTTTGTTGAACAGCGGGAATAAATCCCGAAATAG--
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
*
96635581 ---ATTTAATTTTAATACTTGT
66 TTTATTTAATTTTAATACTCGT
* ** * * * *
96635600 TTTGGGAACAAAATAAAAAATTGGAATAAAATCTGTTGAATGGCAAGTAATAAATCTCGAAACGG
1 TTTGGAAACAAAATAAAAAA-TGGAATAAAATCTGTTGAACAGC-GGGAATAAATCCCGAAACAG
* * *
96635665 ATTTTATTTAACTTTAATTCTCAT
64 ATTTTATTTAATTTTAATACTCGT
* * ** * *
96635689 TTT-GAAATAAAAT-AAAAATGAAAT-AAATCCATTGAAC-GACGGGAATAAATCTCGAAACGGA
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAG-CGGGAATAAATCCCGAAACAGA
* * * * **
96635750 TTTTATATAAATATTATTTC-CCA
65 TTTTAT-TTAATTTTAATACTCGT
* * * * ** * *
96635773 TTTAGAAATAAAAT-AAAAATGAAATAGAATCAATTGAACAGCAGGAATAAATCCTGAAACAGAT
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
* * *
96635837 TTTATTTAACTTTAATTTCCCG-
66 TTTATTTAATTTTAA-TACTCGT
* * * ** * * * **
96635859 ATT-GAAAAAAAATTAAAAATAAAATAAAATCCGTTGATCAGCGGGAATAAATCCCAAAATGGAT
1 TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
96635923 TTTATTTATATTTTAA
66 TTTATTTA-ATTTTAA
96635939 AATAAAATAA
Statistics
Matches: 555, Mismatches: 105, Indels: 47
0.79 0.15 0.07
Matches are distributed among these distances:
82 36 0.06
83 19 0.03
84 45 0.08
85 56 0.10
86 106 0.19
87 126 0.23
88 148 0.27
89 19 0.03
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (87 bp):
TTTGGAAACAAAATAAAAAATGGAATAAAATCTGTTGAACAGCGGGAATAAATCCCGAAACAGAT
TTTATTTAATTTTAATACTCGT
Found at i:96635838 original size:86 final size:83
Alignment explanation
Indices: 96635648--96635930 Score: 329
Period size: 86 Copynumber: 3.3 Consensus size: 83
96635638 AATGGCAAGT
* *
96635648 AATAAATCTCGAAACGGATTTTATTTAACTTTAATTCTCATTTTGAAATAAAATAAAAATGAAAT
1 AATAAATCTCGAAACGGATTTTATTTAACTTTATTTCCCA-TTTGAAATAAAATAAAAATGAAAT
96635713 AAATCCATTGAAC-GACGGG
65 AAATCCATTGAACAG-CGGG
* *
96635732 AATAAATCTCGAAACGGATTTTATATAAATATTATTTCCCATTTAGAAATAAAATAAAAATGAAA
1 AATAAATCTCGAAACGGATTTTATTTAACT-TTATTTCCCATTT-GAAATAAAATAAAAATGAAA
* *
96635797 TAGAATCAATTGAACAGCAGG
64 TA-AATCCATTGAACAGCGGG
* * *
96635818 AATAAATC-CTGAAACAGATTTTATTTAACTTTAATTTCCCGA-TTGAAAAAAAATTAAAAATAA
1 AATAAATCTC-GAAACGGATTTTATTTAACTTT-ATTTCCC-ATTTGAAATAAAA-TAAAAATGA
* *
96635881 AATAAAATCCGTTGATCAGCGGG
62 AAT-AAATCCATTGAACAGCGGG
* * *
96635904 AATAAATCCCAAAATGGATTTTATTTA
1 AATAAATCTCGAAACGGATTTTATTTA
96635931 TATTTTAAAA
Statistics
Matches: 171, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
84 31 0.18
85 41 0.24
86 95 0.56
87 4 0.02
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (83 bp):
AATAAATCTCGAAACGGATTTTATTTAACTTTATTTCCCATTTGAAATAAAATAAAAATGAAATA
AATCCATTGAACAGCGGG
Found at i:96640368 original size:66 final size:66
Alignment explanation
Indices: 96640245--96640392 Score: 174
Period size: 66 Copynumber: 2.2 Consensus size: 66
96640235 GACAGTCTCA
* *
96640245 CACATGGGCGTGTGACTAGCCGTGTGGTACAAGTCAGTATACCCCCTAATTGGCACACAGCCTAG
1 CACACGGGCGTGTGACTAGCCATGTGGTACAAGTCAGTATACCCCCTAATTGGCACACAGCCT-G
96640310 -T
65 TT
* * * * * ** *
96640311 -ACACGGGCGTGTGACTTGTCCATGTTGTATAAGTCAGTATACCCTCTAGTTTTCACACGGCCTG
1 CACACGGGCGTGTGACTAG-CCATGTGGTACAAGTCAGTATACCCCCTAATTGGCACACAGCCTG
96640375 TT
65 TT
96640377 CACACGGGCGTGTGAC
1 CACACGGGCGTGTGAC
96640393 CCCTGTATGG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
65 17 0.25
66 37 0.54
67 15 0.22
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (66 bp):
CACACGGGCGTGTGACTAGCCATGTGGTACAAGTCAGTATACCCCCTAATTGGCACACAGCCTGT
T
Found at i:96641237 original size:22 final size:22
Alignment explanation
Indices: 96641211--96641252 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96641201 CCATGATTTT
*
96641211 TAATAAAATAA-AATGATAATTG
1 TAAT-AAATAATAATAATAATTG
96641233 TAATAAATAATAATAATAAT
1 TAATAAATAATAATAATAAT
96641253 AATAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAATAAATAATAATAATAATTG
Found at i:96641246 original size:3 final size:3
Alignment explanation
Indices: 96641211--96641263 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
96641201 CCATGATTTT
* **
96641211 TAA TAA -AA TAA -AA TGA TAA TTG TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
96641255 TAA TAA TAA
1 TAA TAA TAA
96641264 ATCATTAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:96641258 original size:22 final size:21
Alignment explanation
Indices: 96641211--96641264 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
96641201 CCATGATTTT
* **
96641211 TAATAAAATAAAATGATAATTG
1 TAAT-AAATAAAATAATAATAA
96641233 TAATAAATAATAATAATAATAA
1 TAATAAATAA-AATAATAATAA
96641255 TAAT-AATAAA
1 TAATAAATAAA
96641265 TCATTAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 11 0.39
22 16 0.57
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TAATAAATAAAATAATAATAA
Found at i:96653220 original size:14 final size:15
Alignment explanation
Indices: 96653190--96653220 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
96653180 ATCCCAAAAG
96653190 TTGGGTTAGTAGAAA
1 TTGGGTTAGTAGAAA
96653205 TTGGGTTAGT-GAAA
1 TTGGGTTAGTAGAAA
96653219 TT
1 TT
96653221 AAGAGTGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TTGGGTTAGTAGAAA
Found at i:96653748 original size:15 final size:16
Alignment explanation
Indices: 96653728--96653760 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
96653718 CCCATCTCCA
*
96653728 TTCTTTGTTTTCT-TT
1 TTCTTTCTTTTCTATT
96653743 TTCTTTCTTTTCTATT
1 TTCTTTCTTTTCTATT
96653759 TT
1 TT
96653761 TGTTCTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (16 bp):
TTCTTTCTTTTCTATT
Found at i:96668314 original size:18 final size:19
Alignment explanation
Indices: 96668293--96668333 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
96668283 AATATATATC
*
96668293 CTAACCTCCCACTAA-CCA
1 CTAACATCCCACTAACCCA
96668311 CTAA-ATCCCACTAACCCA
1 CTAACATCCCACTAACCCA
96668329 CTAAC
1 CTAAC
96668334 TCTTAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (19 bp):
CTAACATCCCACTAACCCA
Found at i:96668321 original size:17 final size:18
Alignment explanation
Indices: 96668299--96668332 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
96668289 TATCCTAACC
96668299 TCCCACTAA-CCACTAAA
1 TCCCACTAACCCACTAAA
96668316 TCCCACTAACCCACTAA
1 TCCCACTAACCCACTAA
96668333 CTCTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (18 bp):
TCCCACTAACCCACTAAA
Found at i:96677758 original size:2 final size:2
Alignment explanation
Indices: 96677751--96677789 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
96677741 ACAACAACAA
96677751 AT AT 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 AT AT A
96677790 ATGAATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96678268 original size:17 final size:16
Alignment explanation
Indices: 96678246--96678292 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
96678236 CAGATTTAAG
96678246 ATTATTATTTTAATTTA
1 ATTATT-TTTTAATTTA
*
96678263 ATTA-TTTTTAATCTTT
1 ATTATTTTTTAAT-TTA
96678279 A-TATTTTTTAATTT
1 ATTATTTTTTAATTT
96678293 TAAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 11 0.41
16 12 0.44
17 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTTTTTAATTTA
Found at i:96678646 original size:15 final size:14
Alignment explanation
Indices: 96678626--96678664 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
96678616 TGAAAAGTAC
96678626 AAAAATTAAAAT-T
1 AAAAATTAAAATAT
96678639 AATCAAATTAAAATAT
1 AA--AAATTAAAATAT
96678655 AAAAATTAAA
1 AAAAATTAAA
96678665 CCCACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 8 0.35
15 10 0.43
16 3 0.13
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:96699401 original size:37 final size:37
Alignment explanation
Indices: 96699351--96699423 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
96699341 AAGCTACTAA
96699351 GCTTAGTAAGCACGTATAATTCAAAATTAAACTTACT
1 GCTTAGTAAGCACGTATAATTCAAAATTAAACTTACT
96699388 GCTTAGTAAGCACGTATAATTCAAAATTAAACTTAC
1 GCTTAGTAAGCACGTATAATTCAAAATTAAACTTAC
96699424 CATTTAAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
GCTTAGTAAGCACGTATAATTCAAAATTAAACTTACT
Found at i:96699735 original size:22 final size:23
Alignment explanation
Indices: 96699707--96699757 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
96699697 TGGAAACGGG
*
96699707 AAGCTCTATT-AAGCTGAAT-AGT
1 AAGCTCT-TTCAAGCTGAATCAAT
*
96699729 AAGCTCTTTCGAGCTGAATCAAT
1 AAGCTCTTTCAAGCTGAATCAAT
96699752 AAGCTC
1 AAGCTC
96699758 ATACGAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 8 0.32
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (23 bp):
AAGCTCTTTCAAGCTGAATCAAT
Found at i:96699764 original size:23 final size:22
Alignment explanation
Indices: 96699718--96699766 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
96699708 AGCTCTATTA
* * *
96699718 AGCTGAATAGTAAGCTCTTTCG
1 AGCTGAATAATAAGCTCATACG
96699740 AGCTGAATCAATAAGCTCATACG
1 AGCTGAAT-AATAAGCTCATACG
96699763 AGCT
1 AGCT
96699767 ATGGTGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (22 bp):
AGCTGAATAATAAGCTCATACG
Found at i:96701376 original size:46 final size:46
Alignment explanation
Indices: 96701309--96701402 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
96701299 TTAGACATGA
* *
96701309 GTAAGGCATACAATCTTGTTGAGCGGCATTTCGTAGAGGCAGTTAT
1 GTAAGGCATACAATCTTGTTGAGCGGCATTTCATAGAGGCAATTAT
* *
96701355 GTAAGGCATACAATCTTGTTGAGTGGCATTTTATAGAGGCAATTAT
1 GTAAGGCATACAATCTTGTTGAGCGGCATTTCATAGAGGCAATTAT
96701401 GT
1 GT
96701403 TGAAGTTAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (46 bp):
GTAAGGCATACAATCTTGTTGAGCGGCATTTCATAGAGGCAATTAT
Found at i:96707186 original size:9 final size:9
Alignment explanation
Indices: 96707172--96707259 Score: 122
Period size: 9 Copynumber: 9.8 Consensus size: 9
96707162 ATAAGTATAA
96707172 AATTAACCG
1 AATTAACCG
96707181 AATTAACCG
1 AATTAACCG
*
96707190 AATTAATCG
1 AATTAACCG
96707199 AATTAACCG
1 AATTAACCG
* *
96707208 AATTACCCA
1 AATTAACCG
* *
96707217 AATTACCCA
1 AATTAACCG
96707226 AATTAACCG
1 AATTAACCG
*
96707235 AATTAACTG
1 AATTAACCG
96707244 AATTAACCG
1 AATTAACCG
96707253 AATTAAC
1 AATTAAC
96707260 TGAGTTATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:96707336 original size:18 final size:17
Alignment explanation
Indices: 96707295--96707343 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
96707285 TTTTTTATTT
*
96707295 TTATTTTTAGTTTTAGA
1 TTATTTTTAGTTTTAAA
* *
96707312 TTTTTTTTATTTATTAAA
1 TTATTTTTAGTT-TTAAA
*
96707330 TTATTTTTAATTTT
1 TTATTTTTAGTTTT
96707344 TATGATTGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
TTATTTTTAGTTTTAAA
Found at i:96707364 original size:13 final size:13
Alignment explanation
Indices: 96707348--96707372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96707338 AATTTTTATG
96707348 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
96707361 ATTGGGTTGGGT
1 ATTGGGTTGGGT
96707373 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:96707372 original size:18 final size:18
Alignment explanation
Indices: 96707349--96707386 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
96707339 ATTTTTATGA
96707349 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
96707367 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
96707385 TT
1 TT
96707387 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:96709464 original size:40 final size:40
Alignment explanation
Indices: 96709379--96709529 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
96709369 AATTGAATGA
* * *
96709379 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
96709419 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
96709460 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
96709499 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
96709530 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:96709543 original size:40 final size:40
Alignment explanation
Indices: 96709416--96709545 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
96709406 ATGCTGGAAA
* * * *
96709416 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
96709456 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
96709496 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
96709536 TTATATCCGG
1 TTATATCCGG
96709546 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:96727865 original size:44 final size:45
Alignment explanation
Indices: 96727789--96727879 Score: 148
Period size: 44 Copynumber: 2.0 Consensus size: 45
96727779 TTAAGAAATA
*
96727789 TGGAGTTTACCATAGAACAGTTACCCCTTACCATCCTCAAACTAG
1 TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
* *
96727834 TGGA-TTTAGCATAGAACAGTTACCCCCTACCATCCTTAAACTAG
1 TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
96727878 TG
1 TG
96727880 CACAAGTCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 39 0.91
45 4 0.09
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (45 bp):
TGGAGTTTACCATAGAACAGTTACCCCCTACCATCCTCAAACTAG
Found at i:96733612 original size:30 final size:30
Alignment explanation
Indices: 96733576--96733632 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
96733566 TAGGCACTTC
*
96733576 CACACGGGTAGTCCACACACCCGTGTGTAA
1 CACACGGGTAGGCCACACACCCGTGTGTAA
* *
96733606 CACACGGGTAGGCCACACGCTCGTGTG
1 CACACGGGTAGGCCACACACCCGTGTG
96733633 GCATGACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGGCCACACACCCGTGTGTAA
Found at i:96739044 original size:61 final size:61
Alignment explanation
Indices: 96738949--96739072 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 61
96738939 TTTTTGGTCA
* * *
96738949 ATTGAACTCCATCCACCATAGAGTTAGAACAAAGGATATGGGCCAAAGCCCAAATAAATAC
1 ATTGAACTCCATCCACCATAGAGTCAGAACAAAGGATATGGGCCAAAACCCAAATAAAAAC
* * * *
96739010 ATTGAACTGCATCCATCATAGAGTCAGTACAAAGGATATGGGCCAAAACCTAAATAAAAAC
1 ATTGAACTCCATCCACCATAGAGTCAGAACAAAGGATATGGGCCAAAACCCAAATAAAAAC
96739071 AT
1 AT
96739073 ATCAAAGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (61 bp):
ATTGAACTCCATCCACCATAGAGTCAGAACAAAGGATATGGGCCAAAACCCAAATAAAAAC
Found at i:96743701 original size:2 final size:2
Alignment explanation
Indices: 96743694--96743722 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96743684 GATTGAATTG
96743694 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 A
96743723 ATCAAATATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96744192 original size:16 final size:16
Alignment explanation
Indices: 96744156--96744208 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
96744146 GTTATATACT
* *
96744156 CATGAATTGAGTATGG
1 CATGAAATGAGTATTG
*
96744172 TATGAAATGATGTATT-
1 CATGAAATGA-GTATTG
*
96744188 CATGAATTGAGTATTG
1 CATGAAATGAGTATTG
96744204 CATGA
1 CATGA
96744209 CTAATGCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (16 bp):
CATGAAATGAGTATTG
Found at i:96751801 original size:23 final size:22
Alignment explanation
Indices: 96751757--96751801 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
96751747 CAAAAATTAA
*
96751757 TTTTATTTATTATAATATATAT
1 TTTTATTTATTATAATAAATAT
* *
96751779 TTTTATTTTATTTTATTAAATAT
1 TTTTA-TTTATTATAATAAATAT
96751802 AATTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTTATTATAATAAATAT
Found at i:96752241 original size:26 final size:26
Alignment explanation
Indices: 96752204--96752339 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
96752194 TGATACAAAT
*
96752204 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
96752230 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
96752256 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
96752282 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
96752308 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
96752334 TGATAA
1 TGATAA
96752340 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:96754371 original size:136 final size:136
Alignment explanation
Indices: 96754122--96754406 Score: 509
Period size: 136 Copynumber: 2.1 Consensus size: 136
96754112 GAGTAGTCTC
96754122 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
* *
96754187 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATCA
66 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
96754252 CTGTTA
131 CTGTTA
*
96754258 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
96754322 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
96754387 ACTGTTA
130 ACTGTTA
**
96754394 CCTGAATGGGCTT
1 CCCAAATGGGCTT
96754407 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
135 57 0.40
136 86 0.60
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:96755310 original size:2 final size:2
Alignment explanation
Indices: 96755303--96755339 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
96755293 TAAACCCTCC
96755303 AT 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 AT A
96755340 AAAGGAGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96767277 original size:40 final size:40
Alignment explanation
Indices: 96767232--96767439 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
96767222 CGGAATACGA
*
96767232 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
96767272 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
96767312 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
96767352 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
*** * ** * *
96767392 CCGGATATAATTGCTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
96767432 CCGGATAT
1 CCGGATAT
96767440 CATTCAATTA
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:96769549 original size:15 final size:15
Alignment explanation
Indices: 96769529--96769581 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
96769519 AGGTCAGCTC
96769529 AAGCCCATCGGGCCT
1 AAGCCCATCGGGCCT
96769544 AAGCCCATCGGGCCT
1 AAGCCCATCGGGCCT
96769559 AAGCCCATCGGGCCT
1 AAGCCCATCGGGCCT
96769574 AAGCCCAT
1 AAGCCCAT
96769582 TCAGATAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.23, C:0.40, G:0.25, T:0.13
Consensus pattern (15 bp):
AAGCCCATCGGGCCT
Found at i:96769618 original size:33 final size:34
Alignment explanation
Indices: 96769568--96769660 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 34
96769558 TAAGCCCATC
* *
96769568 GGGCCTAAGCCC--ATTCAGATAACAGTGATACT
1 GGGCCTAGGCCCTTATTCAGATAACAGTGAAACT
* * *
96769600 GGGCC-AGAG-CCTTTTTCAGATTACA-TTAAACT
1 GGGCCTAG-GCCCTTATTCAGATAACAGTGAAACT
96769632 GGGCCTTAGGCCCTTATTCAGATAACAGT
1 GGGCC-TAGGCCCTTATTCAGATAACAGT
96769661 ATGGCCCATA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
31 3 0.06
32 16 0.34
33 11 0.23
34 16 0.34
35 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (34 bp):
GGGCCTAGGCCCTTATTCAGATAACAGTGAAACT
Found at i:96790731 original size:16 final size:16
Alignment explanation
Indices: 96790710--96790740 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
96790700 CGTTTGGTTC
96790710 ACTGTAATTGAATAGT
1 ACTGTAATTGAATAGT
96790726 ACTGTAATTGAATAG
1 ACTGTAATTGAATAG
96790741 AACTATAATC
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:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
ACTGTAATTGAATAGT
Found at i:96790749 original size:16 final size:16
Alignment explanation
Indices: 96790714--96790749 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
96790704 TGGTTCACTG
* *
96790714 TAATTGAATAGTACTG
1 TAATTGAATAGAACTA
96790730 TAATTGAATAGAACTA
1 TAATTGAATAGAACTA
96790746 TAAT
1 TAAT
96790750 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (16 bp):
TAATTGAATAGAACTA
Found at i:96790990 original size:26 final size:27
Alignment explanation
Indices: 96790914--96790991 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
96790904 TTATTTTTAT
96790914 TAATTT-ATAATAGGATTATTATTAAACA
1 TAATTTAATAATA--ATTATTATTAAACA
* * *
96790942 TAATTTAATAATAAATAAT-TTAATCA
1 TAATTTAATAATAATTATTATTAAACA
*
96790968 TACTTTAAT-ATAATTATTATTAAA
1 TAATTTAATAATAATTATTATTAAA
96790992 ATATGAATGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 7 0.17
26 18 0.44
27 4 0.10
28 6 0.15
29 6 0.15
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (27 bp):
TAATTTAATAATAATTATTATTAAACA
Found at i:96791141 original size:16 final size:16
Alignment explanation
Indices: 96791111--96791151 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
96791101 TACAAATAAT
96791111 TTAATT-ATC-TTCTA
1 TTAATTAATCTTTCTA
96791125 TTAATTAATCTTTCTA
1 TTAATTAATCTTTCTA
*
96791141 TAAATTAATCT
1 TTAATTAATCT
96791152 CAATTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 15 0.62
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATTAATCTTTCTA
Found at i:96791289 original size:12 final size:12
Alignment explanation
Indices: 96791258--96791289 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
96791248 GTTTCATTTG
*
96791258 TTTTTTACATAA
1 TTTTTTATATAA
96791270 TTTTTTATATAA
1 TTTTTTATATAA
96791282 TTTTTTAT
1 TTTTTTAT
96791290 CTGTGTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTATATAA
Found at i:96791765 original size:25 final size:24
Alignment explanation
Indices: 96791737--96791784 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
96791727 TTGAGTTTGT
96791737 GAATCTCAACAATGCCTTCTCTGCC
1 GAATCTCAACAATGCCTT-TCTGCC
96791762 GAATCTCAACAATGCCTTTCTGC
1 GAATCTCAACAATGCCTTTCTGC
96791785 TGAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.29
Consensus pattern (24 bp):
GAATCTCAACAATGCCTTTCTGCC
Found at i:96791795 original size:25 final size:25
Alignment explanation
Indices: 96791737--96791795 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
96791727 TTGAGTTTGT
*
96791737 GAATCTCAACAATGCCTTCTCTGCC
1 GAATATCAACAATGCCTTCTCTGCC
* *
96791762 GAATCTCAACAATGCCTT-TCTGCT
1 GAATATCAACAATGCCTTCTCTGCC
96791786 GAAATATCAA
1 G-AATATCAA
96791796 ATTTATTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (25 bp):
GAATATCAACAATGCCTTCTCTGCC
Found at i:96792663 original size:84 final size:84
Alignment explanation
Indices: 96792522--96792688 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
96792512 GTAATGAAAT
*
96792522 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATGTGCAAATAGATA
1 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
96792587 AGATAGGATACATAAACAA
66 AGATAGGATACATAAACAA
* *
96792606 AATAGTATAGTTAGAGAGGCTCCTTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATGGATA
1 AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
96792671 AGATAGGATACATAAACA
66 AGATAGGATACATAAACA
96792689 TAACCCTAGC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.23
Consensus pattern (84 bp):
AATAGTATAGTTAGAGAGGCTCATTAAATCTTGCAAGCCCCAAAAGATAAATATGCAAATAGATA
AGATAGGATACATAAACAA
Found at i:96798041 original size:53 final size:53
Alignment explanation
Indices: 96797956--96798061 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
96797946 TTGTGTGTTG
** * *
96797956 TACTATTACTGTTACTTCGGATTATTCCGATGAGGTACTCTGTACCGTACTGT
1 TACTATTACTGTTACTTCGGATTAGGCCGATGAGGCACTATGTACCGTACTGT
* * * *
96798009 TACTGTTACTGTTTACTTCGGCTT-GGCCGATGAGGCATTATGTTCCGTACTGT
1 TACTATTACTG-TTACTTCGGATTAGGCCGATGAGGCACTATGTACCGTACTGT
96798062 ATTGGTGTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 33 0.75
54 11 0.25
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (53 bp):
TACTATTACTGTTACTTCGGATTAGGCCGATGAGGCACTATGTACCGTACTGT
Found at i:96798189 original size:18 final size:18
Alignment explanation
Indices: 96798129--96798170 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
96798119 TAAATAAAAG
*
96798129 TACTGAATGACTGACTGT
1 TACTGAATAACTGACTGT
*
96798147 TACTGAATAATTGATCT-T
1 TACTGAATAACTGA-CTGT
96798165 TACTGA
1 TACTGA
96798171 TCTTTACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:96798196 original size:18 final size:18
Alignment explanation
Indices: 96798175--96798238 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
96798165 TACTGATCTT
96798175 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGC
** * *
96798193 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGC
*
96798211 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGC
96798229 TACTGAATAA
1 TACTGAATAA
96798239 TTGAACGTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGATTGC
Found at i:96798196 original size:28 final size:28
Alignment explanation
Indices: 96798138--96798198 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
96798128 GTACTGAATG
* *
96798138 ACTGACTGTTACTGAATAATTGATCTTT
1 ACTGACTGTTACTGAATAACTGATCTCT
96798166 ACTGATCT-TTACTGAATAACTGAT-TGCT
1 ACTGA-CTGTTACTGAATAACTGATCT-CT
96798194 ACTGA
1 ACTGA
96798199 GCAAATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 26 0.90
29 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (28 bp):
ACTGACTGTTACTGAATAACTGATCTCT
Found at i:96798214 original size:46 final size:46
Alignment explanation
Indices: 96798129--96798216 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
96798119 TAAATAAAAG
* * * *
96798129 TACTGAATGACTGACTGTTACTGAATAATTGATCTTTACTGATCTT
1 TACTGAATAACTGACTGCTACTGAACAAATGATCTTTACTGATCTT
* *
96798175 TACTGAATAACTGATTGCTACTGAGCAAATGAT-TGTTACTGA
1 TACTGAATAACTGACTGCTACTGAACAAATGATCT-TTACTGA
96798217 ATAACTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.03
46 34 0.97
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (46 bp):
TACTGAATAACTGACTGCTACTGAACAAATGATCTTTACTGATCTT
Found at i:96798249 original size:36 final size:36
Alignment explanation
Indices: 96798174--96798250 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
96798164 TTACTGATCT
* * **
96798174 TTACTGAATAACTGATTGCTACTGAGCAAATGATTG
1 TTACTGAATAACTAATTGCTACTGAACAAATGAACG
* *
96798210 TTACTGAATAACTAATTGCTACTGAATAATTGAACG
1 TTACTGAATAACTAATTGCTACTGAACAAATGAACG
96798246 TTACT
1 TTACT
96798251 AAATGAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (36 bp):
TTACTGAATAACTAATTGCTACTGAACAAATGAACG
Found at i:96802375 original size:31 final size:31
Alignment explanation
Indices: 96802337--96802399 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
96802327 TCAATACAAA
*
96802337 TACTAATAGCAATCTAGTTGTGTACTGCAAG
1 TACTAATAACAATCTAGTTGTGTACTGCAAG
*
96802368 TACTAATAACAATCTAGTTGTGTATTGCAAG
1 TACTAATAACAATCTAGTTGTGTACTGCAAG
96802399 T
1 T
96802400 GTGACAGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (31 bp):
TACTAATAACAATCTAGTTGTGTACTGCAAG
Found at i:96812260 original size:31 final size:31
Alignment explanation
Indices: 96812222--96812286 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
96812212 TATAGAAACA
96812222 GGTAAATGTATTTGAACACGATTCATGACAT
1 GGTAAATGTATTTGAACACGATTCATGACAT
*
96812253 GGTAAATGTATTTGAACACGGTTCATGACAT
1 GGTAAATGTATTTGAACACGATTCATGACAT
96812284 GGT
1 GGT
96812287 TGTAGCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (31 bp):
GGTAAATGTATTTGAACACGATTCATGACAT
Found at i:96812532 original size:37 final size:34
Alignment explanation
Indices: 96812491--96812571 Score: 83
Period size: 37 Copynumber: 2.3 Consensus size: 34
96812481 AATGATAATG
*
96812491 ATAATAAAATAT-TAAAGTATATAAAAAGGAAAAACAA
1 ATAATAAAAT-TCTAAA-CATATAAAAAGG-AAAA-AA
* *
96812528 ATAATATAAATTCTAAACATTTAAAAAGGTAAAAA
1 ATAATA-AAATTCTAAACATATAAAAAGGAAAAAA
96812563 ATAATAAAA
1 ATAATAAAA
96812572 GGTAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 3 0.08
35 8 0.21
36 3 0.08
37 17 0.44
38 8 0.21
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (34 bp):
ATAATAAAATTCTAAACATATAAAAAGGAAAAAA
Found at i:96812573 original size:17 final size:18
Alignment explanation
Indices: 96812551--96812585 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96812541 TAAACATTTA
96812551 AAAAGGTA-AAAAATAAT
1 AAAAGGTAGAAAAATAAT
96812568 AAAAGGTAGAAAAATAAT
1 AAAAGGTAGAAAAATAAT
96812586 GAATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AAAAGGTAGAAAAATAAT
Found at i:96814323 original size:51 final size:50
Alignment explanation
Indices: 96814263--96814470 Score: 160
Period size: 51 Copynumber: 4.2 Consensus size: 50
96814253 TTCAATCTGC
96814263 TCCACTGCAACCTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
1 TCCACTGCAACCTCAA-GAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
* ** * * **
96814314 TCCATTGCAA-CTTTAGAGATATA-A----TATC-TGTAGCTTTAATATGC
1 TCCACTGCAACCTCAAGAGATA-AGATTTGTAACTTGTAGCTTTAATCTAT
* * *
96814358 TCCACTGCAACTTCATAGAGATAAGATTTGTGACTTGTAGCTTTAATCTGT
1 TCCACTGCAACCTCA-AGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
* * * * * * *
96814409 TTCACTGTAACTTTAGGGAAATAAGATTTGTAACTTGTGGCTTTAATCTAT
1 TCCACTGCAACCTCA-AGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
* *
96814460 TCTATTGCAAC
1 TCCACTGCAAC
96814471 TTTAGGAAAA
Statistics
Matches: 120, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
44 22 0.18
45 5 0.04
46 8 0.07
49 7 0.06
50 6 0.05
51 72 0.60
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (50 bp):
TCCACTGCAACCTCAAGAGATAAGATTTGTAACTTGTAGCTTTAATCTAT
Found at i:96814472 original size:51 final size:51
Alignment explanation
Indices: 96814378--96814487 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
96814368 CTTCATAGAG
* * * *
96814378 ATAAGATTTGTGACTTGTAGCTTTAATCTGTTTCACTGTAACTTTAGGGAA
1 ATAAGATTTGTAACTTGTAGCTTTAATCTATTTCACTGCAACTTTAGGAAA
* *
96814429 ATAAGATTTGTAACTTGTGGCTTTAATCTA-TTCTATTGCAACTTTAGGAAA
1 ATAAGATTTGTAACTTGTAGCTTTAATCTATTTC-ACTGCAACTTTAGGAAA
96814480 ATAAGATT
1 ATAAGATT
96814488 CTCTATCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (51 bp):
ATAAGATTTGTAACTTGTAGCTTTAATCTATTTCACTGCAACTTTAGGAAA
Found at i:96827766 original size:46 final size:46
Alignment explanation
Indices: 96827711--96827891 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
96827701 TAGGATGGTT
96827711 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
96827757 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
96827803 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
96827850 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96827892 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:96827872 original size:93 final size:93
Alignment explanation
Indices: 96827713--96827883 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
96827703 GGATGGTTGA
* *
96827713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96827778 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
96827806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
96827871 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
96827884 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96830864 original size:15 final size:15
Alignment explanation
Indices: 96830844--96830912 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
96830834 GTATCTTGGG
96830844 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
96830859 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
96830874 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
96830889 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
96830904 TTTCTTTAT
1 TTTCTTTAT
96830913 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:96830913 original size:30 final size:30
Alignment explanation
Indices: 96830835--96830922 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
96830825 CATAGTATCG
* * * *
96830835 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
96830865 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
96830895 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
96830923 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:96833472 original size:46 final size:47
Alignment explanation
Indices: 96833307--96833480 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 47
96833297 GGTTGAGCAT
*
96833307 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GCG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCA
* * * *
96833352 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GCA
*
96833398 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCA
*
96833445 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96833481 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 27 0.25
46 36 0.34
47 26 0.24
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCA
Found at i:96843736 original size:50 final size:50
Alignment explanation
Indices: 96843661--96843762 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
96843651 AAACTTGAAC
**
96843661 CTGTTAGGTAATTCACCGGAACTGAAGTGCTGGCTTGATATTGTTGAGGT
1 CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
* * *
96843711 CTGTTCGGTAATTCACCGGAGCTGAAGTGCCAGCTTGATGTTGTTGAGGT
1 CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
96843761 CT
1 CT
96843763 TGTAGTAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (50 bp):
CTGTTAGGTAATTCACCGGAACTGAAGTGCCAGCTTGATATTGTTGAGGT
Found at i:96847875 original size:3 final size:3
Alignment explanation
Indices: 96847869--96847940 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
96847859 TATAAAAGTG
* * *
96847869 TAA TAA TAA TAA TAAA TCA TAA TAC TAA T-A TGCA TAA TAA -AA T-A
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
96847913 TAA TAA TAA TGA TAA TGA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
96847941 TCAAAGTACA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:96848009 original size:16 final size:18
Alignment explanation
Indices: 96847990--96848026 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
96847980 TAAACATTTA
96847990 AAAAGGTA-AAAAA-AAT
1 AAAAGGTAGAAAAATAAT
96848006 AAAAGGTAGAAAAATAAT
1 AAAAGGTAGAAAAATAAT
96848024 AAA
1 AAA
96848027 TAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAGGTAGAAAAATAAT
Found at i:96849422 original size:24 final size:23
Alignment explanation
Indices: 96849362--96849424 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
96849352 AAATAGTTTA
96849362 GGTTATGGGCTTGTTGGGCTTTG
1 GGTTATGGGCTTGTTGGGCTTTG
96849385 GGTTATGGGCTTGTTGGGCTTTG
1 GGTTATGGGCTTGTTGGGCTTTG
*
96849408 GGTTATTGGGTTTGTTG
1 GGTTA-TGGGCTTGTTG
96849425 TTTAGGTAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 28 0.74
24 10 0.26
ACGTcount: A:0.05, C:0.06, G:0.43, T:0.46
Consensus pattern (23 bp):
GGTTATGGGCTTGTTGGGCTTTG
Found at i:96850674 original size:32 final size:31
Alignment explanation
Indices: 96850638--96850704 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 31
96850628 CTTGTTTTTT
*
96850638 AAATGGAAACCATTTAACGCAAAGCTAGAATA
1 AAATGGAAACCATTTAACCCAAAGCTAGAA-A
* *
96850670 AAATGGAAACCATTTTACCCATAGCTAGAAA
1 AAATGGAAACCATTTAACCCAAAGCTAGAAA
96850701 AAAT
1 AAAT
96850705 AGTTCAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.21
Consensus pattern (31 bp):
AAATGGAAACCATTTAACCCAAAGCTAGAAA
Found at i:96863348 original size:6 final size:6
Alignment explanation
Indices: 96863337--96863381 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
96863327 TGACACCTCA
96863337 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCA
1 TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCAGCC TCA
96863382 ACATCAACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.49, G:0.16, T:0.18
Consensus pattern (6 bp):
TCAGCC
Found at i:96863693 original size:6 final size:6
Alignment explanation
Indices: 96863682--96863718 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
96863672 GATTACGTCT
* *
96863682 TGGCCG TGGCCG TCGCCG TGGCCG TCGCCG TGGCCG T
1 TGGCCG TGGCCG TGGCCG TGGCCG TGGCCG TGGCCG T
96863719 CGTCATCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.43, T:0.19
Consensus pattern (6 bp):
TGGCCG
Found at i:96863701 original size:12 final size:12
Alignment explanation
Indices: 96863684--96863720 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
96863674 TTACGTCTTG
96863684 GCCGTGGCCGTC
1 GCCGTGGCCGTC
96863696 GCCGTGGCCGTC
1 GCCGTGGCCGTC
96863708 GCCGTGGCCGTC
1 GCCGTGGCCGTC
96863720 G
1 G
96863721 TCATCGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.43, T:0.16
Consensus pattern (12 bp):
GCCGTGGCCGTC
Found at i:96864141 original size:28 final size:28
Alignment explanation
Indices: 96864087--96864141 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
96864077 AATATTTTTT
* *
96864087 TTAACCAAAACTACAAATATTTCTATAA
1 TTAACCAAAACGACAAATAATTCTATAA
*
96864115 TTAACTCAAAACGA-AAATAATTGTATA
1 TTAAC-CAAAACGACAAATAATTCTATA
96864142 CAAGACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAACCAAAACGACAAATAATTCTATAA
Found at i:96865265 original size:11 final size:11
Alignment explanation
Indices: 96865249--96865273 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96865239 TCGATAGTTA
96865249 AATCTTCCTTT
1 AATCTTCCTTT
96865260 AATCTTCCTTT
1 AATCTTCCTTT
96865271 AAT
1 AAT
96865274 TGTTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (11 bp):
AATCTTCCTTT
Found at i:96870235 original size:69 final size:69
Alignment explanation
Indices: 96870124--96870399 Score: 227
Period size: 69 Copynumber: 4.0 Consensus size: 69
96870114 AGCATTTTTC
* *
96870124 TCATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAACAAAAGCAAAGCTCCCA
1 TCATACTAAGGCTCGCAGGAGAAGAGCCACAGCCTCCAACACAGTTAACAAAAGCAAAGCTCCCA
96870189 ACTG
66 ACTG
* ** * * * * * *
96870193 TCATACTAAGGCTCACAGGAGAAGAGTTACAGCCTCTAACACAGTTAGCGAGAGTAAAGCTCCTA
1 TCATACTAAGGCTCGCAGGAGAAGAGCCACAGCCTCCAACACAGTTAACAAAAGCAAAGCTCCCA
*
96870258 GCTG
66 ACTG
* * * ** * * ** * * *
96870262 TCATATTAAGGCTCGCAGGCGAAGAACCGTAGCTTCCATCGTAGTTAGA-GAGAGAAAAGCTCCC
1 TCATACTAAGGCTCGCAGGAGAAGAGCCACAGCCTCCAACACAGTTA-ACAAAAGCAAAGCTCCC
96870326 AACTG
65 AACTG
* *** *
96870331 TCATACTACA-GCTCGCAAGCA-AAGAGCC-CTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTC
1 TCATACTA-AGGCTCGC-AGGAGAAGAGCCAC-AGCCTCCAACACAGTTAACAAAAGCAAAGCTC
96870393 CCAACTG
63 CCAACTG
96870400 CGACATTAAA
Statistics
Matches: 162, Mismatches: 40, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
69 159 0.98
70 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (69 bp):
TCATACTAAGGCTCGCAGGAGAAGAGCCACAGCCTCCAACACAGTTAACAAAAGCAAAGCTCCCA
ACTG
Found at i:96870556 original size:57 final size:57
Alignment explanation
Indices: 96870482--96870674 Score: 221
Period size: 57 Copynumber: 3.4 Consensus size: 57
96870472 GCAATCTTCC
* ** * *
96870482 AAAATTTT-CAATATATAAAAAATTTTGCGGAGTCACATTCTCATCTTATTACCTTAG
1 AAAATTTTCCAA-GTATAAAAAATTTTGCAAAGTCACATTCTCAGCTTATTACTTTAG
* * * * * *
96870539 AAAATTTTCCAAGTATAAAAAAATTCGCATACTCACATTCTTAGCTTATTACTTTAA
1 AAAATTTTCCAAGTATAAAAAATTTTGCAAAGTCACATTCTCAGCTTATTACTTTAG
*
96870596 AAAATTTTCCAAGTAT-AAAAATGTTTGCAAAGTCATATTC-CTAGCTTATTACTTTAG
1 AAAATTTTCCAAGTATAAAAAAT-TTTGCAAAGTCACATTCTC-AGCTTATTACTTTAG
*
96870653 AAAATTTTTCAAGTATAAAAAA
1 AAAATTTTCCAAGTATAAAAAA
96870675 AAAAAACATT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
56 5 0.04
57 101 0.89
58 8 0.07
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (57 bp):
AAAATTTTCCAAGTATAAAAAATTTTGCAAAGTCACATTCTCAGCTTATTACTTTAG
Found at i:96872707 original size:17 final size:17
Alignment explanation
Indices: 96872681--96872717 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
96872671 TACTATTGAT
96872681 AAAGG-AAAAAAAATAA
1 AAAGGAAAAAAAAATAA
96872697 AAAGAGAAAAAAAAATAA
1 AAAG-GAAAAAAAAATAA
96872715 AAA
1 AAA
96872718 TCTAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 1 0.05
18 14 0.74
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAGGAAAAAAAAATAA
Found at i:96872790 original size:39 final size:39
Alignment explanation
Indices: 96872736--96872813 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
96872726 GGAAAGCAAG
*
96872736 AATGTTTCTAAGGTTACCTTTGTTTCAGTCATTGAAGAT
1 AATGTTTCTAAGGTTACCTTCGTTTCAGTCATTGAAGAT
96872775 AATGTTTCTAAGGTTACCTTCGTTTCAGTCATTGAAGAT
1 AATGTTTCTAAGGTTACCTTCGTTTCAGTCATTGAAGAT
96872814 GCTAAGTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (39 bp):
AATGTTTCTAAGGTTACCTTCGTTTCAGTCATTGAAGAT
Found at i:96874292 original size:23 final size:23
Alignment explanation
Indices: 96874193--96874309 Score: 107
Period size: 23 Copynumber: 5.2 Consensus size: 23
96874183 AACTATAGAT
* * *
96874193 AATATTCACTATTCATACCAGAG
1 AATATTTACTGTTCATGCCAGAG
*
96874216 AATATTTATTGTTCATGCCAGAG
1 AATATTTACTGTTCATGCCAGAG
* * *
96874239 AAT-CTTACTATTTC-TGTCAGAG
1 AATATTTACT-GTTCATGCCAGAG
*
96874261 -AT-TTCTACTGTTCATGCCAGAA
1 AATATT-TACTGTTCATGCCAGAG
*
96874283 AATATTTACTGTTCATGCTAGAG
1 AATATTTACTGTTCATGCCAGAG
96874306 AATA
1 AATA
96874310 ATTCTTGTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
21 6 0.08
22 21 0.28
23 46 0.61
24 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (23 bp):
AATATTTACTGTTCATGCCAGAG
Found at i:96874318 original size:23 final size:23
Alignment explanation
Indices: 96874266--96874320 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
96874256 CAGAGATTTC
*
96874266 TACTGTTCATGCCAGAAAATATT
1 TACTGTTCATGCCAGAAAATAAT
* *
96874289 TACTGTTCATGCTAGAGAATAAT
1 TACTGTTCATGCCAGAAAATAAT
96874312 T-CTTGTTCA
1 TAC-TGTTCA
96874321 CTCATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (23 bp):
TACTGTTCATGCCAGAAAATAAT
Found at i:96883813 original size:29 final size:31
Alignment explanation
Indices: 96883781--96883838 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
96883771 TGTGCATTAT
*
96883781 ATATATATGTTGAA-TT-AAGT-TGTAAAAGA
1 ATATAGATG-TGAAGTTGAAGTATGTAAAAGA
96883810 ATATAGATGTGAAGTTGAAGTATGTAAAA
1 ATATAGATGTGAAGTTGAAGTATGTAAAA
96883839 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (31 bp):
ATATAGATGTGAAGTTGAAGTATGTAAAAGA
Found at i:96895346 original size:2 final size:2
Alignment explanation
Indices: 96895339--96895381 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
96895329 TTTCAATAAG
96895339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96895381 A
1 A
96895382 AAATAAAGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96896007 original size:5 final size:6
Alignment explanation
Indices: 96895991--96896019 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
96895981 AATTTTAATG
96895991 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
96896020 TGAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:96896020 original size:12 final size:12
Alignment explanation
Indices: 96895991--96896019 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
96895981 AATTTTAATG
96895991 ATTTTTATTTTT
1 ATTTTTATTTTT
96896003 ATTTTTA-TTTT
1 ATTTTTATTTTT
96896014 ATTTTT
1 ATTTTT
96896020 TGAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:96901543 original size:2 final size:2
Alignment explanation
Indices: 96901536--96901562 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96901526 TGGTTGAAAG
96901536 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 A
96901563 AGGATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96902618 original size:10 final size:9
Alignment explanation
Indices: 96902567--96902654 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 9
96902557 TCATAAAAAC
96902567 ATTAAAATT
1 ATTAAAATT
* *
96902576 -GTAAAAAT
1 ATTAAAATT
*
96902584 AATAAATATT
1 ATTAAA-ATT
96902594 A-TAAAA-T
1 ATTAAAATT
*
96902601 AATAAAATT
1 ATTAAAATT
96902610 ATTAGAAATT
1 ATTA-AAATT
96902620 ATTAATAAATT
1 ATT-A-AAATT
* *
96902631 ATAAAAACT
1 ATTAAAATT
96902640 ATTAAAATTT
1 ATTAAAA-TT
96902650 ATTAA
1 ATTAA
96902655 TTTTTATAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
7 2 0.03
8 12 0.19
9 22 0.35
10 18 0.29
11 8 0.13
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTAAAATT
Done.