Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 37 of 145
Found at i:11735768 original size:33 final size:33
Alignment explanation
Indices: 11735697--11735769 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
11735687 TTTGGCATCC
* * **
11735697 AGTGCCTCATTGGATAAATTCGAAGCAACATCC
1 AGTGTCTCATTGGATAAATCCGAAGCAACATAA
11735730 AGTGTCTCATTGGATAAATCCGAAGCAA-ATAA
1 AGTGTCTCATTGGATAAATCCGAAGCAACATAA
11735762 ATGTGTCT
1 A-GTGTCT
11735770 AGTGCTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 3 0.09
33 32 0.91
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (33 bp):
AGTGTCTCATTGGATAAATCCGAAGCAACATAA
Found at i:11738310 original size:18 final size:20
Alignment explanation
Indices: 11738285--11738329 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
11738275 TTAGGACTTT
11738285 TATTTTATTAGGG-TTAGGG
1 TATTTTATTAGGGATTAGGG
*
11738304 T-TTTTATTAGGGATTTGGG
1 TATTTTATTAGGGATTAGGG
11738323 TATTTTA
1 TATTTTA
11738330 AAAGTGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (20 bp):
TATTTTATTAGGGATTAGGG
Found at i:11739630 original size:3 final size:3
Alignment explanation
Indices: 11739616--11739679 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
11739606 TCGTTGCTAC
11739616 TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11739662 TAT TAT AAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
11739680 TATTTTCCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11739904 original size:18 final size:20
Alignment explanation
Indices: 11739879--11739923 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
11739869 TTAGGACTTT
11739879 TATTTTATTAGGG-TTAGGG
1 TATTTTATTAGGGATTAGGG
*
11739898 T-TTTTATTAGGGATTTGGG
1 TATTTTATTAGGGATTAGGG
11739917 TATTTTA
1 TATTTTA
11739924 AAAGTGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (20 bp):
TATTTTATTAGGGATTAGGG
Found at i:11741224 original size:3 final size:3
Alignment explanation
Indices: 11741210--11741281 Score: 110
Period size: 3 Copynumber: 23.7 Consensus size: 3
11741200 TCGTTGCTAC
11741210 TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11741256 TAT TAT AAT TA- TAT TATT TAT TAT TA
1 TAT TAT TAT TAT TAT TA-T TAT TAT TA
11741282 CTATACCTAC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11744576 original size:41 final size:41
Alignment explanation
Indices: 11744527--11744635 Score: 182
Period size: 41 Copynumber: 2.6 Consensus size: 41
11744517 CGAAATGGCC
*
11744527 TCACACGCCCGTGTGCTAGCCGTGTGTCTCACACGGTCGAG
1 TCACACGCCCGTGTGCTAGCCGTGTGTCTCACACGGCCGAG
*
11744568 TCATACGCCCGTGTGCTAGCCGTGTGTCTCACACGGCCGAG
1 TCACACGCCCGTGTGCTAGCCGTGTGTCTCACACGGCCGAG
*
11744609 TCACACGCCTGTGTGTCTAGCCGTGTG
1 TCACACGCCCGTGTG-CTAGCCGTGTG
11744636 GACTCAGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 52 0.83
42 11 0.17
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (41 bp):
TCACACGCCCGTGTGCTAGCCGTGTGTCTCACACGGCCGAG
Found at i:11747288 original size:9 final size:9
Alignment explanation
Indices: 11747276--11747333 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
11747266 AAAAACGAGC
11747276 GAGTTGAGA
1 GAGTTGAGA
*
11747285 GAGTTGGGA
1 GAGTTGAGA
*
11747294 GGGTTTGAGA
1 GAG-TTGAGA
*
11747304 GAATTTGAGA
1 G-AGTTGAGA
*
11747314 GAATTGAGA
1 GAGTTGAGA
11747323 GAGTTGAGA
1 GAGTTGAGA
11747332 GA
1 GA
11747334 AGGATGTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 27 0.68
10 13 0.32
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (9 bp):
GAGTTGAGA
Found at i:11748138 original size:22 final size:21
Alignment explanation
Indices: 11748108--11748148 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11748098 TGTGTAGAAC
*
11748108 ATTATTAAAATTTATAAAAAAT
1 ATTAATAAAATTT-TAAAAAAT
11748130 ATTAATAAAATTTTAAAAA
1 ATTAATAAAATTTTAAAAA
11748149 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAATAAAATTTTAAAAAAT
Found at i:11753381 original size:22 final size:22
Alignment explanation
Indices: 11753337--11753382 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11753327 TAATATAAAC
* *
11753337 TTAATAGATGCAGGAAAATATT
1 TTAATAGATGAAAGAAAATATT
11753359 TTAATAGATGAAAAGAAAA-ATT
1 TTAATAGATG-AAAGAAAATATT
11753381 TT
1 TT
11753383 GAACTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (22 bp):
TTAATAGATGAAAGAAAATATT
Found at i:11760387 original size:30 final size:30
Alignment explanation
Indices: 11760353--11760415 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11760343 ACTTATTTTA
11760353 TTGTTAATCTTGTTATCATTTTAAAGGCAT
1 TTGTTAATCTTGTTATCATTTTAAAGGCAT
* * *
11760383 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATCTTGTTATCATTTTAAAGGCAT
11760413 TTG
1 TTG
11760416 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAATCTTGTTATCATTTTAAAGGCAT
Found at i:11763788 original size:50 final size:49
Alignment explanation
Indices: 11763726--11763911 Score: 230
Period size: 50 Copynumber: 3.7 Consensus size: 49
11763716 TCATTCGATA
*
11763726 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAACTTTTAC-GTT
* * *
11763776 CACGTAATAGCCTTCACATAGTACTATACACGTGATCAAGTTTTACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAACTTTTACG-TT
* * *
11763826 CACGTAGTAGCCTTCACATAGTACTACATACGTGACTAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-TCAA-CTTTTAC-GTT
* * *
11763877 CACATAGTAGCCTTCACTTAGTACTACACATGTGA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA
11763912 CCATNNNNNN
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 77 0.65
51 36 0.30
52 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAACTTTTACGTT
Found at i:11765596 original size:20 final size:19
Alignment explanation
Indices: 11765558--11765615 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
11765548 TACTAGGGGT
**
11765558 AAGGTATTGATACAATGAGA
1 AAGGTA-TGATACTTTGAGA
*
11765578 AAGGTACTGATACTTTGAGT
1 AAGGTA-TGATACTTTGAGA
*
11765598 AGGGTATCGATACTTTGA
1 AAGGTAT-GATACTTTGA
11765616 TCTCTGGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (19 bp):
AAGGTATGATACTTTGAGA
Found at i:11782227 original size:12 final size:12
Alignment explanation
Indices: 11782210--11782238 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11782200 GTAGGCAACT
11782210 TTTTTTTTGCGA
1 TTTTTTTTGCGA
11782222 TTTTTTTTGCGA
1 TTTTTTTTGCGA
11782234 TTTTT
1 TTTTT
11782239 GCTTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (12 bp):
TTTTTTTTGCGA
Found at i:11782247 original size:31 final size:30
Alignment explanation
Indices: 11782210--11782307 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
11782200 GTAGGCAACT
*
11782210 TTTTTTTTGCGATTTTTTTTGCGATTTTTGC
1 TTTTTTTTGCG-TTTTTTTTGCGCTTTTTGC
**
11782241 TTTTTTTAACTGTTTTTTTTGCGCTTTTT-C
1 TTTTTTTTGC-GTTTTTTTTGCGCTTTTTGC
*
11782271 -TTTTTTTGC-TGTTTTTTGCGCTTTTTGC
1 TTTTTTTTGCGTTTTTTTTGCGCTTTTTGC
11782299 TGTTTTTTT
1 T-TTTTTTT
11782308 TAAAGAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
27 16 0.28
28 1 0.02
29 7 0.12
30 8 0.14
31 24 0.42
32 1 0.02
ACGTcount: A:0.04, C:0.11, G:0.14, T:0.70
Consensus pattern (30 bp):
TTTTTTTTGCGTTTTTTTTGCGCTTTTTGC
Found at i:11785866 original size:25 final size:25
Alignment explanation
Indices: 11785834--11785883 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11785824 AAAAAATTAA
*
11785834 AACCAAAAGAAATTTTAGTTTTTTT
1 AACCAAAAGAAATCTTAGTTTTTTT
11785859 AACCAAAAGAAATCTTAGTTTTTTT
1 AACCAAAAGAAATCTTAGTTTTTTT
11785884 TTCTTCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (25 bp):
AACCAAAAGAAATCTTAGTTTTTTT
Found at i:11786607 original size:24 final size:24
Alignment explanation
Indices: 11786557--11786608 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11786547 AATCAAAGTC
** **
11786557 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
11786581 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
11786605 AAAT
1 AAAT
11786609 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11790991 original size:24 final size:24
Alignment explanation
Indices: 11790950--11791000 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11790940 AATCAAAGTC
** *
11790950 AATATATTATGTTAATAAATGCTA
1 AATATATTATACTAATAAATACTA
*
11790974 AATATATTATACTCATAAATACTA
1 AATATATTATACTAATAAATACTA
11790998 AAT
1 AAT
11791001 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (24 bp):
AATATATTATACTAATAAATACTA
Found at i:11794624 original size:15 final size:16
Alignment explanation
Indices: 11794596--11794625 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11794586 AAAGAGAGAG
11794596 AAATAATGTAAAAATA
1 AAATAATGTAAAAATA
11794612 AAATAAT-TAAAAAT
1 AAATAATGTAAAAAT
11794626 TATTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATAATGTAAAAATA
Found at i:11797075 original size:22 final size:22
Alignment explanation
Indices: 11797018--11797103 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
11797008 TGCTAACTAG
* * *
11797018 TAGGCACCAAAGTGCAAAGCAG
1 TAGGCACCGAAGTGCAAATCAA
** * *
11797040 TAGGCAGTGTAGTGCAAATTAA
1 TAGGCACCGAAGTGCAAATCAA
*
11797062 TAGGCACCGAAGTGTAGAA-CAA
1 TAGGCACCGAAGTGCA-AATCAA
* *
11797084 TAGGCACCGTAGTACAAATC
1 TAGGCACCGAAGTGCAAATC
11797104 TTGAACAAGC
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
21 2 0.04
22 43 0.91
23 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (22 bp):
TAGGCACCGAAGTGCAAATCAA
Found at i:11797096 original size:44 final size:44
Alignment explanation
Indices: 11796993--11797102 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
11796983 TACACCACAC
* * * * *
11796993 CAATAGGCATCGGAGTGCTAACTAGTAGGCACCAAAGTGCAAAG
1 CAATAGGCACCGTAGTGCAAATTAATAGGCACCAAAGTGCAAAG
* ** * *
11797037 CAGTAGGCAGTGTAGTGCAAATTAATAGGCACCGAAGTGTAGAA-
1 CAATAGGCACCGTAGTGCAAATTAATAGGCACCAAAGTGCA-AAG
*
11797081 CAATAGGCACCGTAGTACAAAT
1 CAATAGGCACCGTAGTGCAAAT
11797103 CTTGAACAAG
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (44 bp):
CAATAGGCACCGTAGTGCAAATTAATAGGCACCAAAGTGCAAAG
Found at i:11809481 original size:18 final size:18
Alignment explanation
Indices: 11809452--11809499 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
11809442 AAAAAAACGT
*
11809452 TTTGAAATTGAATAATGA
1 TTTGAAAATGAATAATGA
* *
11809470 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAATGA
11809488 TTTGAAAATGAA
1 TTTGAAAATGAA
11809500 CGAAACGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGAAAATGAATAATGA
Found at i:11812336 original size:55 final size:55
Alignment explanation
Indices: 11812252--11812362 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
11812242 TCACTTTCCT
11812252 TCACTTTTTCTCCATTTTCCATATCAAAACATACAATATTTACACACTAAAATCA
1 TCACTTTTTCTCCATTTTCCATATCAAAACATACAATATTTACACACTAAAATCA
*
11812307 TCACTTTTTCTCCATTTTCCATATCAAAACATACAATATTTACACACTCAAATCA
1 TCACTTTTTCTCCATTTTCCATATCAAAACATACAATATTTACACACTAAAATCA
11812362 T
1 T
11812363 ACTCACATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (55 bp):
TCACTTTTTCTCCATTTTCCATATCAAAACATACAATATTTACACACTAAAATCA
Found at i:11813997 original size:30 final size:33
Alignment explanation
Indices: 11813963--11814022 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 33
11813953 AATAAACATG
11813963 AACTTCAATT-TGGTGCA-AT-TATACATATGA
1 AACTTCAATTGTGGTGCACATGTATACATATGA
* *
11813993 AACTTGAATTGTGGTTCACATGTATACATA
1 AACTTCAATTGTGGTGCACATGTATACATA
11814023 AAAGACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 6 0.24
32 2 0.08
33 8 0.32
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (33 bp):
AACTTCAATTGTGGTGCACATGTATACATATGA
Found at i:11815829 original size:28 final size:28
Alignment explanation
Indices: 11815797--11815870 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
11815787 TTTAGAGATA
*
11815797 GCCACAAAGGCTTCCTTATCCAGAAATT
1 GCCACAAAGGCTTCCTTATCCAAAAATT
** *
11815825 GCCACAAAGGCTTTATCATCCAAAAATT
1 GCCACAAAGGCTTCCTTATCCAAAAATT
* *
11815853 GCTACAAATGCTTTCCTT
1 GCCACAAAGGC-TTCCTT
11815871 TTAGAGCCTC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTATCCAAAAATT
Found at i:11817741 original size:21 final size:21
Alignment explanation
Indices: 11817715--11817788 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
11817705 ACTCATATGA
*
11817715 GTTTCAGTTTAACCCTTCTAG
1 GTTTCAGTTTAACCCTTATAG
* * * *
11817736 GTTTCAGTTCAGCTCTTTTGAG
1 GTTTCAGTTTAACCCTTAT-AG
* * *
11817758 CTTT-AGTTTAACCCTAATGG
1 GTTTCAGTTTAACCCTTATAG
11817778 GTTTCAGTTTA
1 GTTTCAGTTTA
11817789 GCTCTTCTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 4 0.10
21 30 0.77
22 5 0.13
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTATAG
Found at i:11817781 original size:42 final size:42
Alignment explanation
Indices: 11817710--11817865 Score: 167
Period size: 42 Copynumber: 3.7 Consensus size: 42
11817700 AGTCAACTCA
* * *
11817710 TATGAG-TTTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCT
1 TATGAGCTTT-AGTTTAACCCTTATGGGTTTCAGTTAAGCTCT
* * *
11817752 TTTGAGCTTTAGTTTAACCCTAATGGGTTTCAGTTTAGCTCT
1 TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTAAGCTCT
* * *
11817794 TCTGAGCTTTA-TATTAACCCTTATGGGTTTCTA-TTAATCTCC
1 TATGAGCTTTAGT-TTAACCCTTATGGGTTTC-AGTTAAGCTCT
11817836 TATGAGCTTCT-GTTTAACCCTTATGGGTTT
1 TATGAGCTT-TAGTTTAACCCTTATGGGTTT
11817866 TCGTTTAGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 91 0.93
43 6 0.06
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (42 bp):
TATGAGCTTTAGTTTAACCCTTATGGGTTTCAGTTAAGCTCT
Found at i:11817830 original size:20 final size:20
Alignment explanation
Indices: 11817805--11817865 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
11817795 CTGAGCTTTA
11817805 TATTAACCCTTATGGGTTTC
1 TATTAACCCTTATGGGTTTC
* *
11817825 TATTAATCTCC-TATGAGCTTC
1 TATTAA-C-CCTTATGGGTTTC
*
11817846 TGTTTAACCCTTATGGGTTT
1 T-ATTAACCCTTATGGGTTT
11817866 TCGTTTAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 8 0.25
21 18 0.56
22 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (20 bp):
TATTAACCCTTATGGGTTTC
Found at i:11817860 original size:21 final size:21
Alignment explanation
Indices: 11817754--11817860 Score: 51
Period size: 21 Copynumber: 5.1 Consensus size: 21
11817744 TCAGCTCTTT
*
11817754 TGAGCTT-TAGTTTAACCCTAA
1 TGAGCTTCT-GTTTAACCCTTA
* * * * * *
11817775 TGGGTTTCAGTTTAGCTCTTC
1 TGAGCTTCTGTTTAACCCTTA
*
11817796 TGAGCTT-TATATTAACCCTTA
1 TGAGCTTCTGT-TTAACCCTTA
* * *
11817817 TGGGTTTCT-ATTAATCTCC-TA
1 TGAGCTTCTGTTTAA-C-CCTTA
11817838 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTGTTTAACCCTTA
11817859 TG
1 TG
11817861 GGTTTTCGTT
Statistics
Matches: 59, Mismatches: 20, Indels: 14
0.63 0.22 0.15
Matches are distributed among these distances:
20 7 0.12
21 45 0.76
22 7 0.12
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (21 bp):
TGAGCTTCTGTTTAACCCTTA
Found at i:11817887 original size:42 final size:41
Alignment explanation
Indices: 11817710--11817887 Score: 155
Period size: 42 Copynumber: 4.2 Consensus size: 41
11817700 AGTCAACTCA
* * * * *
11817710 TATGAGTTTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTC-GTTTAGCTCT
* *
11817752 TTTGAGCTT-TAGTTTAACCCTAATGGGTTTCAGTTTAGCTCT
1 TATGAGCTTCT-GTTTAACCCTTATGGGTTTC-GTTTAGCTCT
* * * *
11817794 TCTGAGCTT-TATATTAACCCTTATGGGTTTC-TATTAATCTCC
1 TATGAGCTTCTGT-TTAACCCTTATGGGTTTCGT-TT-AGCTCT
*
11817836 TATGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTTAGCACT
1 TATGAGCTTCTGTTTAACCCTTATGGG-TTTCGTTTAGCTCT
*
11817878 TATGTGCTTC
1 TATGAGCTTC
11817888 AGTGCTGCCT
Statistics
Matches: 111, Mismatches: 18, Indels: 14
0.78 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 98 0.88
43 8 0.07
44 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.45
Consensus pattern (41 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCGTTTAGCTCT
Found at i:11822690 original size:9 final size:9
Alignment explanation
Indices: 11822676--11822712 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11822666 TATAGTTTGA
11822676 TATTCGAAT
1 TATTCGAAT
11822685 TATTCGAAT
1 TATTCGAAT
*
11822694 TATTCGAGT
1 TATTCGAAT
11822703 TATTCGAAT
1 TATTCGAAT
11822712 T
1 T
11822713 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11823875 original size:14 final size:14
Alignment explanation
Indices: 11823836--11823879 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
11823826 ATGTTTATAA
* *
11823836 TTTAATTATTTAAG
1 TTTAATTAATTAAT
*
11823850 GTTAATTAAATTAAT
1 TTTAATT-AATTAAT
11823865 TTTAATTAATTAAT
1 TTTAATTAATTAAT
11823879 T
1 T
11823880 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAT
Found at i:11828472 original size:63 final size:63
Alignment explanation
Indices: 11828366--11828529 Score: 220
Period size: 63 Copynumber: 2.6 Consensus size: 63
11828356 CCTACTATGC
* * * * * * *
11828366 AACAGTAAGTCACACGGCCTGGACATGCACCCGGGTCTCTGGCCTATATGTCTCTAATTCTTG
1 AACAGTGAGTCACAAGGCCTGGACACGCGCCCGTGTCCCTGGCCTATATGTCTCTAATTCGTG
* *
11828429 AATAGTGAGTCACAAGGCCTGGACACGCGCCCGTGTCCCTGGCCTATATGTCTCTAATTGGTG
1 AACAGTGAGTCACAAGGCCTGGACACGCGCCCGTGTCCCTGGCCTATATGTCTCTAATTCGTG
** *
11828492 AACAGTGAGTCACAAGGTATGGACACGCGCCTGTGTCC
1 AACAGTGAGTCACAAGGCCTGGACACGCGCCCGTGTCC
11828530 TTAACCCATG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 88 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (63 bp):
AACAGTGAGTCACAAGGCCTGGACACGCGCCCGTGTCCCTGGCCTATATGTCTCTAATTCGTG
Found at i:11833459 original size:32 final size:32
Alignment explanation
Indices: 11833423--11833491 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
11833413 CTACCTATCT
** *
11833423 CAACCACCGAATCAGTCATTGAGAGAATCAAG
1 CAACCACCGAATCAAACATAGAGAGAATCAAG
*
11833455 CAACCACTGAATCAAACATAGAGAGAATCAAG
1 CAACCACCGAATCAAACATAGAGAGAATCAAG
11833487 CAACC
1 CAACC
11833492 TCTACCCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (32 bp):
CAACCACCGAATCAAACATAGAGAGAATCAAG
Found at i:11834790 original size:17 final size:17
Alignment explanation
Indices: 11834761--11834793 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11834751 TTTATAATAA
11834761 TAAACTTATAATTATAT
1 TAAACTTATAATTATAT
11834778 TAAA-TTATAAATTATA
1 TAAACTTAT-AATTATA
11834794 AAAGTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAACTTATAATTATAT
Found at i:11837012 original size:20 final size:20
Alignment explanation
Indices: 11836987--11837044 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
11836977 ATACAGGGGT
11836987 AAGGTATTGATACTTTGT-A
1 AAGGTATTGATACTTTGTGA
* *
11837006 GAAGGTACTGATACTTTATGA
1 -AAGGTATTGATACTTTGTGA
*
11837027 AAGGTATCGATACCTTTG
1 AAGGTATTGATA-CTTTG
11837045 ATTTTTGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (20 bp):
AAGGTATTGATACTTTGTGA
Found at i:11838671 original size:25 final size:24
Alignment explanation
Indices: 11838595--11838695 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 24
11838585 ACTAATGAAT
* * *
11838595 AGAGAGCATTGAAGTGTTAT-A-C
1 AGAGAGCACTGACGTGCTATAATC
* *
11838617 AGAGAGCACAGATGTGCTA-AA-C
1 AGAGAGCACTGACGTGCTATAATC
*
11838639 AGAAAGCACTGACGTGCTAGTAATC
1 AGAGAGCACTGACGTGCTA-TAATC
*
11838664 AGAGAGCACTAACGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAATC
11838689 AGAGAGC
1 AGAGAGC
11838696 GTGCTAAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 33 0.51
24 2 0.03
25 29 0.45
26 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (24 bp):
AGAGAGCACTGACGTGCTATAATC
Found at i:11839591 original size:26 final size:26
Alignment explanation
Indices: 11839546--11839597 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11839536 AAATCCCAAA
11839546 TTTTCTTTCTTTCCGTCCCT-TTTTCT
1 TTTTCTTTCTTTCCG-CCCTGTTTTCT
11839572 TTTTCTTTCCTTTCTC-CCCTGTTTTC
1 TTTTCTTT-CTTTC-CGCCCTGTTTTC
11839598 GTTCTGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 12 0.52
27 10 0.43
28 1 0.04
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTCTTTCTTTCCGCCCTGTTTTCT
Found at i:11851754 original size:11 final size:10
Alignment explanation
Indices: 11851733--11851785 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
11851723 TCTTCTTCCC
*
11851733 TTCTTTCTTT
1 TTCTTTTTTT
11851743 TTCTTATTTTT
1 TTCTT-TTTTT
* *
11851754 TTCTCATTCTT
1 TTCT-TTTTTT
11851765 TTCTTTTCTTT
1 TTCTTTT-TTT
11851776 TTCTTTTTTT
1 TTCTTTTTTT
11851786 CCTTCGTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 10 0.29
11 25 0.71
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:11855954 original size:28 final size:29
Alignment explanation
Indices: 11855913--11855967 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
11855903 GAATTGTGAC
11855913 CAGACATGTTATAGGTTGAAAAACAAAGG
1 CAGACATGTTATAGGTTGAAAAACAAAGG
11855942 CAGA-ATGTTATAGGTTGAAAAACAAA
1 CAGACATGTTATAGGTTGAAAAACAAA
11855968 AACAAGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (29 bp):
CAGACATGTTATAGGTTGAAAAACAAAGG
Found at i:11863655 original size:20 final size:19
Alignment explanation
Indices: 11863632--11863670 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
11863622 TAATAAAGGA
11863632 GAAAATAAA-GAAGATAGATG
1 GAAAA-AAATGAAGAT-GATG
11863652 GAAAAAAATGAAGATGATG
1 GAAAAAAATGAAGATGATG
11863671 TGTAAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (19 bp):
GAAAAAAATGAAGATGATG
Found at i:11866687 original size:3 final size:3
Alignment explanation
Indices: 11866679--11866719 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11866669 CACCATTACT
11866679 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11866720 TTGTTTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11876065 original size:2 final size:2
Alignment explanation
Indices: 11876060--11876089 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11876050 TCTCTCTCTC
11876060 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11876090 GCTGTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11880099 original size:19 final size:20
Alignment explanation
Indices: 11880062--11880100 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11880052 TTTTAAAAAC
* *
11880062 TTTATAAAAATACATAAATA
1 TTTAAAAAAAAACATAAATA
11880082 TTTAAAAAAAAACA-AAATA
1 TTTAAAAAAAAACATAAATA
11880101 ATAGATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
TTTAAAAAAAAACATAAATA
Found at i:11880962 original size:21 final size:21
Alignment explanation
Indices: 11880933--11881002 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
11880923 AGTGATTAAG
11880933 ATTA-TTAAATTACAAATTTT
1 ATTATTTAAATTACAAATTTT
* ** * *
11880953 TTTATTTAAATTATGTAACTTG
1 ATTATTTAAATTA-CAAATTTT
*
11880975 AATATTTAAATTACAAATTTT
1 ATTATTTAAATTACAAATTTT
*
11880996 CTTATTT
1 ATTATTT
11881003 TAATCGTCTA
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 3 0.09
21 17 0.49
22 15 0.43
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTATTTAAATTACAAATTTT
Found at i:11881576 original size:19 final size:18
Alignment explanation
Indices: 11881552--11881589 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11881542 AATAAATTTC
11881552 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
11881571 AAAAATTCTAAAATTTAT
1 AAAAATTCAAAAATTTAT
11881589 A
1 A
11881590 TTTTTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:11897748 original size:65 final size:65
Alignment explanation
Indices: 11897644--11897773 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
11897634 GATTGCTTTA
11897644 TTGATGATAACGTTTTGCTAAAATTAACAAGGCAGAACTAAGCATTTCTTACCAACTGGGAGATG
1 TTGATGATAACGTTTTGCTAAAATTAACAAGGCAGAACTAAGCATTTCTTACCAACTGGGAGATG
11897709 TTGATGATAACGTTTTGCTAAAATTAACAAGGCAGAACTAAGCATTTCTTACCAACTGGGAGATG
1 TTGATGATAACGTTTTGCTAAAATTAACAAGGCAGAACTAAGCATTTCTTACCAACTGGGAGATG
11897774 CTAACTTTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGATGATAACGTTTTGCTAAAATTAACAAGGCAGAACTAAGCATTTCTTACCAACTGGGAGATG
Found at i:11908460 original size:25 final size:26
Alignment explanation
Indices: 11908431--11908498 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
11908421 CATTATTAAC
*
11908431 TTAATTTAATTTAATTATA-TACATT
1 TTAATTTAATTTAATTATATTACATA
* * *
11908456 TTAATTCAATTTAATCATATTATATA
1 TTAATTTAATTTAATTATATTACATA
*
11908482 ATAA-TTAATTTAATTAT
1 TTAATTTAATTTAATTAT
11908499 CTTATTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 28 0.80
26 7 0.20
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAATTTAATTTAATTATATTACATA
Found at i:11908478 original size:30 final size:29
Alignment explanation
Indices: 11908444--11908510 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
11908434 ATTTAATTTA
*
11908444 ATTATATACAT-TTTAATTCAATTTAATCAT
1 ATTATATACATAATTAATTCAA-TT-ATCAT
* *
11908474 ATTATATA-ATAATTAATTTAATTATCTT
1 ATTATATACATAATTAATTCAATTATCAT
11908502 ATTATATAC
1 ATTATATAC
11908511 CTCACTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 12 0.38
29 4 0.12
30 16 0.50
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTATATACATAATTAATTCAATTATCAT
Found at i:11913601 original size:27 final size:27
Alignment explanation
Indices: 11913568--11913628 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
11913558 CCTTAGGGAA
11913568 GTTTGAATTCCTTAAAATTCGATTAGG
1 GTTTGAATTCCTTAAAATTCGATTAGG
*
11913595 GTTTGAATTCCTTAAAATTTGATTAGG
1 GTTTGAATTCCTTAAAATTCGATTAGG
11913622 GTTTGAA
1 GTTTGAA
11913629 GAGTGTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
GTTTGAATTCCTTAAAATTCGATTAGG
Found at i:11914012 original size:3 final size:3
Alignment explanation
Indices: 11914004--11914042 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11913994 TTGCTCTAAA
11914004 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11914043 TATTTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11914355 original size:16 final size:17
Alignment explanation
Indices: 11914334--11914367 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11914324 TACAAGATTT
*
11914334 AAAAATT-TATAATTAA
1 AAAAATTATAAAATTAA
11914350 AAAAATTATAAAATTAA
1 AAAAATTATAAAATTAA
11914367 A
1 A
11914368 GAGAGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATTATAAAATTAA
Found at i:11917320 original size:23 final size:23
Alignment explanation
Indices: 11917289--11917339 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
11917279 ACCTACTTTC
* *
11917289 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
11917312 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
11917335 TTACA
1 TTACA
11917340 CACCATTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:11925514 original size:21 final size:19
Alignment explanation
Indices: 11925462--11925515 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
11925452 CACATCGTTA
11925462 TTTAAAATTATTATTAACATG
1 TTTAAAA-T-TTATTAACATG
* *
11925483 TTTAGAGTTTATTAACATTG
1 TTTAAAATTTATTAACA-TG
11925503 TTTTAAAATTTAT
1 -TTTAAAATTTAT
11925516 CCTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTAAAATTTATTAACATG
Found at i:11926037 original size:19 final size:15
Alignment explanation
Indices: 11925999--11926028 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11925989 ATGTTTCAAC
11925999 TTAATAATGTTGTTA
1 TTAATAATGTTGTTA
11926014 TTAATGAATGTTGTT
1 TTAAT-AATGTTGTT
11926029 GTATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
TTAATAATGTTGTTA
Found at i:11931383 original size:3 final size:3
Alignment explanation
Indices: 11931370--11931447 Score: 72
Period size: 3 Copynumber: 26.3 Consensus size: 3
11931360 AAGGAATACT
* * * *
11931370 ATA ACA ATA ATA AT- GTA ATA ATA ATA TTA ATA ATC AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11931416 ATA ATA ATA ATA AGTA GATA A-A ATA ATG ATA A
1 ATA ATA ATA ATA A-TA -ATA ATA ATA ATA ATA A
11931448 GAGGGATACA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
2 5 0.08
3 51 0.84
4 4 0.07
5 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11931401 original size:23 final size:23
Alignment explanation
Indices: 11931370--11931447 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
11931360 AAGGAATACT
*
11931370 ATAACAATAATAATGTAATAATA
1 ATAATAATAATAATGTAATAATA
* * *
11931393 ATATTAATAATCATATAATAATA
1 ATAATAATAATAATGTAATAATA
11931416 ATAATAATAATAA-GTAGATAA-A
1 ATAATAATAATAATGTA-ATAATA
*
11931438 ATAATGATAA
1 ATAATAATAA
11931448 GAGGGATACA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.26
23 34 0.74
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAATAATAATAATGTAATAATA
Found at i:11931436 original size:20 final size:18
Alignment explanation
Indices: 11931370--11931447 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 18
11931360 AAGGAATACT
* *
11931370 ATAACAATAATAAT-GTA
1 ATAATAATAATAATAATA
* *
11931387 ATAATAATATTAATAATC
1 ATAATAATAATAATAATA
11931405 AT-ATAATAATAATAATA
1 ATAATAATAATAATAATA
11931422 ATAATAAGTAGATAA-AATA
1 ATAATAA-TA-ATAATAATA
*
11931441 ATGATAA
1 ATAATAA
11931448 GAGGGATACA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 27 0.54
18 7 0.14
19 12 0.24
20 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:11932861 original size:92 final size:92
Alignment explanation
Indices: 11932704--11932886 Score: 276
Period size: 92 Copynumber: 2.0 Consensus size: 92
11932694 CGTGCGGTCA
* * *
11932704 ACGGCGGGGAGAGAAGGGCGCCTTTGCCATTTTGGTGAAATGGCAGCAGGAGCGTGTCAGGCCTC
1 ACGGCGGGGAGAGAAGGACGCCCTTGCCATTTTGGTGAAATGGCAGCAGGAGCGTGTCAAGCCTC
* *
11932769 GGGACAAGGAGCCTCGGGTGGTGTGAG
66 GGGACAAGGAGCCTCGGATGGCGTGAG
* * * *
11932796 ACGGCGGGGAGAGAAGGATGCCCTTGCCATTTTGGTGAAATGGCGGCAGGGGCTTGTCAAGCCTC
1 ACGGCGGGGAGAGAAGGACGCCCTTGCCATTTTGGTGAAATGGCAGCAGGAGCGTGTCAAGCCTC
*
11932861 GGGACGAGGAGCCTCGGATGGCGTGA
66 GGGACAAGGAGCCTCGGATGGCGTGA
11932887 TCGAGGAGAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.20, C:0.20, G:0.43, T:0.17
Consensus pattern (92 bp):
ACGGCGGGGAGAGAAGGACGCCCTTGCCATTTTGGTGAAATGGCAGCAGGAGCGTGTCAAGCCTC
GGGACAAGGAGCCTCGGATGGCGTGAG
Found at i:11937862 original size:20 final size:20
Alignment explanation
Indices: 11937837--11937944 Score: 94
Period size: 20 Copynumber: 5.5 Consensus size: 20
11937827 TTGTATGGGA
11937837 TTGCACTTCAGTGCCTCTGT
1 TTGCACTTCAGTGCCTCTGT
** *
11937857 TTGCACTTTGGTGCCTCT-A
1 TTGCACTTCAGTGCCTCTGT
* * **
11937876 TTACACTTCGGTATCTCTGT
1 TTGCACTTCAGTGCCTCTGT
* *
11937896 TTGCACTTCAGTGCCGCTGA
1 TTGCACTTCAGTGCCTCTGT
*
11937916 TTGCACATTC-GTGTCTCTGT
1 TTGCAC-TTCAGTGCCTCTGT
*
11937936 TTGTACTTC
1 TTGCACTTC
11937945 GATACTTATG
Statistics
Matches: 68, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
19 17 0.25
20 48 0.71
21 3 0.04
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTGT
Found at i:11937894 original size:39 final size:40
Alignment explanation
Indices: 11937851--11937944 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
11937841 ACTTCAGTGC
** *
11937851 CTCTGTTTGCACTTTGGTGCCTCT-ATTACAC-TTCGGTAT
1 CTCTGTTTGCACTTCAGTGCCGCTGATTACACATTC-GTAT
* *
11937890 CTCTGTTTGCACTTCAGTGCCGCTGATTGCACATTCGTGT
1 CTCTGTTTGCACTTCAGTGCCGCTGATTACACATTCGTAT
*
11937930 CTCTGTTTGTACTTC
1 CTCTGTTTGCACTTC
11937945 GATACTTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 21 0.45
40 23 0.49
41 3 0.06
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.43
Consensus pattern (40 bp):
CTCTGTTTGCACTTCAGTGCCGCTGATTACACATTCGTAT
Found at i:11940097 original size:517 final size:515
Alignment explanation
Indices: 11939076--11940112 Score: 1662
Period size: 517 Copynumber: 2.0 Consensus size: 515
11939066 AATATGTAAA
*
11939076 TGTTATATTATAATGGTGTTCCTAGTGAAATGTTTGGTTTTGAATGTGTTTAAAGCGTTTTTGGT
1 TGTTATACTATAATGGTGTTCCTAGTGAAATGTTTGGTTTTGAATGTGTTTAAAGCGTTTTTGGT
11939141 TGGATTGATTCTTAATGGTCAAGAGCTAAGTGGTAATACTTTGAAATGGTAAGTTTTGAATATGT
66 TGGATTGATTCTTAATGGTCAAGAGCTAAGTGGTAATACTTTGAAATGGTAAGTTTTGAATATGT
* * *
11939206 TTGTACTTTGGTTAATTTGGTTGATGGTTGAGCATGAATAGATGTTTAATGTCATGTGTTTACTT
131 TTGCACGTTGGTTAATTTGGTTGATGGTTGAGCATGAATAGATGTTTAATGTCATGTGCTTACTT
* *
11939271 AGCTAAATTAGTAATTTACTGATATTTAATTGTGGTGCATTTGAATGGCATATTAGTTAGGCGTG
196 AGCTAAATTAGTAATTGAATGATATTTAATTGTGGTGCATTTGAATGGCATATTAGTTAGGCGTG
** * *
11939336 AAATGAATTAATTTTTAACATGTATTTGATGATTTAAATGTGTTTTTGAGCCTAGGAATTGATCT
261 AAATGAATTAAAATTTAACATGTATTTGATGATTTAAATGCGTTTTTGAACCTAGGAATTGATCT
* *
11939401 AGATATGGCATGTCTTGTTGTGCAAGGAACAATGCATGACATTACTTAATTTAGAGGTCAAAAAG
326 AGATATGGAATGTCTTATTGTGCAAGGAACAATGCATGACATTACTTAATTTAGAGGTCAAAAAG
* *
11939466 GGTGCACACGGCCATGTACCACACACAGTCACCACGCACAGCCGTGTGTAATTATTGATTATCGG
391 GATGCACACGGCCATGTACCACACACAGTCACCACGCACAGCCGTGTGTAATTATTGATTATAGG
* * * *
11939531 TGCAGTATCCACACAGCGTAGCACATGGCTTGCAACACGACCATGTGAGCCAAAACAGAT
456 TGCAATATCCACACAGCCTAACACATGGCCTGCAACACGACCATGTGAGCCAAAACAGAT
*
11939591 TGTTATACTATAATGGTGTTCCTAGTGAAATGTTTGGTTTTGAATATGTGTTTAAAGTGTTTTTG
1 TGTTATACTATAATGGTGTTCCTAGTGAAATGTTTGGTTTTG-A-ATGTGTTTAAAGCGTTTTTG
* *
11939656 GTTGGATTGATTCTTAATGGTTAAGAGCTAAGTGTTAATACTTTGAAATGGTAAGTTTTGAATAT
64 GTTGGATTGATTCTTAATGGTCAAGAGCTAAGTGGTAATACTTTGAAATGGTAAGTTTTGAATAT
*
11939721 GTTTGCACGTTGGTTAATTTGGTTGATGGTTGGGCATGAATAGATGTTTAATGTCATGTGCTTAC
129 GTTTGCACGTTGGTTAATTTGGTTGATGGTTGAGCATGAATAGATGTTTAATGTCATGTGCTTAC
* *
11939786 TTAGCTAAATTAGTAATTGAATGATCTTTAATTGTGGTGCATTTGAATGGCATATTGGTTAGGCG
194 TTAGCTAAATTAGTAATTGAATGATATTTAATTGTGGTGCATTTGAATGGCATATTAGTTAGGCG
* *
11939851 TGAAATGAATTAAAATTTAGCATGTATTTGATGATTTAAATGCGTTTTTGAACCTAGGATTTGAT
259 TGAAATGAATTAAAATTTAACATGTATTTGATGATTTAAATGCGTTTTTGAACCTAGGAATTGAT
* * * *
11939916 CTAGATATGGAATGTCTTATTGTGCAAGGAATAATGCATGACATTGCTTGATTTAGGGGTCAAAA
324 CTAGATATGGAATGTCTTATTGTGCAAGGAACAATGCATGACATTACTTAATTTAGAGGTCAAAA
* * * * * *
11939981 AGGATGCATACGGCCATGTGCCACATACGGTCACCACGCACGGCCTTGTGTAATTATTGATTATA
389 AGGATGCACACGGCCATGTACCACACACAGTCACCACGCACAGCCGTGTGTAATTATTGATTATA
* * * ** *
11940046 GGTGCAATATCTACAC-GACCTAACACATGGCCTGCGACATGACTGTGTGAGCCAAAATAGAT
454 GGTGCAATATCCACACAG-CCTAACACATGGCCTGCAACACGACCATGTGAGCCAAAACAGAT
11940108 TGTTA
1 TGTTA
11940113 CACGGTTTAG
Statistics
Matches: 477, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
515 41 0.09
516 2 0.00
517 434 0.91
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (515 bp):
TGTTATACTATAATGGTGTTCCTAGTGAAATGTTTGGTTTTGAATGTGTTTAAAGCGTTTTTGGT
TGGATTGATTCTTAATGGTCAAGAGCTAAGTGGTAATACTTTGAAATGGTAAGTTTTGAATATGT
TTGCACGTTGGTTAATTTGGTTGATGGTTGAGCATGAATAGATGTTTAATGTCATGTGCTTACTT
AGCTAAATTAGTAATTGAATGATATTTAATTGTGGTGCATTTGAATGGCATATTAGTTAGGCGTG
AAATGAATTAAAATTTAACATGTATTTGATGATTTAAATGCGTTTTTGAACCTAGGAATTGATCT
AGATATGGAATGTCTTATTGTGCAAGGAACAATGCATGACATTACTTAATTTAGAGGTCAAAAAG
GATGCACACGGCCATGTACCACACACAGTCACCACGCACAGCCGTGTGTAATTATTGATTATAGG
TGCAATATCCACACAGCCTAACACATGGCCTGCAACACGACCATGTGAGCCAAAACAGAT
Found at i:11943001 original size:11 final size:11
Alignment explanation
Indices: 11942979--11943012 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11942969 AGCCCGCCCG
11942979 TATTATTTTTTA
1 TATTA-TTTTTA
11942991 TATTATTTTTA
1 TATTATTTTTA
*
11943002 TATAATTTTTA
1 TATTATTTTTA
11943013 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:11943196 original size:12 final size:12
Alignment explanation
Indices: 11943174--11943202 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11943164 CAAATACCTT
11943174 TAAAA-TAATAA
1 TAAAATTAATAA
11943185 TAAAATTAATAA
1 TAAAATTAATAA
11943197 TAAAAT
1 TAAAAT
11943203 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:11960948 original size:16 final size:16
Alignment explanation
Indices: 11960912--11960948 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11960902 TTGGTTCGCT
11960912 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
* *
11960928 ATAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
11960944 GTAAT
1 GTAAT
11960949 AGCAATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:11960993 original size:45 final size:44
Alignment explanation
Indices: 11960929--11961022 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
11960919 AATAGAGACA
11960929 TAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAATG
* *
11960974 TAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATG
*
11961018 GAATG
1 TAATG
11961023 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATG
Found at i:11964082 original size:27 final size:27
Alignment explanation
Indices: 11964030--11964085 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
11964020 AAACATGGTG
** *
11964030 TTATGCTGATATTTTTTTTTCATTCTT
1 TTATGCTGATATTTTTAATTAATTCTT
11964057 TTATGCTGA-ATTTTTAATTAATTTCTT
1 TTATGCTGATATTTTTAATTAA-TTCTT
11964084 TT
1 TT
11964086 TGCAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (27 bp):
TTATGCTGATATTTTTAATTAATTCTT
Found at i:11967868 original size:41 final size:41
Alignment explanation
Indices: 11967822--11967900 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
11967812 TGTATGTTTA
* * *
11967822 ACCAACTATAGTGTAGAATCACTCAATACAAAGTACAACAG
1 ACCAACTATAATCTAAAATCACTCAATACAAAGTACAACAG
11967863 ACCAACTATAATCTAAAATCACTCAATACAAAGTACAA
1 ACCAACTATAATCTAAAATCACTCAATACAAAGTACAA
11967901 TGGGTGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.20
Consensus pattern (41 bp):
ACCAACTATAATCTAAAATCACTCAATACAAAGTACAACAG
Found at i:11973827 original size:14 final size:13
Alignment explanation
Indices: 11973792--11973863 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
11973782 AGAATTAGGC
11973792 ATAAAAAATATAA
1 ATAAAAAATATAA
11973805 TATACAAAAATATAA
1 -ATA-AAAAATATAA
* *
11973820 ATAGAAAAGTAAAA
1 ATA-AAAAATATAA
*
11973834 ATAATAAATA-AA
1 ATAAAAAATATAA
*
11973846 AT--AAAATAAAA
1 ATAAAAAATATAA
11973857 ATAAAAA
1 ATAAAAA
11973864 GTAAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.10
11 4 0.08
12 4 0.08
13 8 0.17
14 17 0.35
15 10 0.21
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (13 bp):
ATAAAAAATATAA
Found at i:11973833 original size:6 final size:6
Alignment explanation
Indices: 11973810--11973870 Score: 63
Period size: 6 Copynumber: 9.8 Consensus size: 6
11973800 TATAATATAC
*
11973810 AAAAAT ATAAAT AGAAAAGT AAAAAT AATAAAT -AAAAT -AAAAT AAAAAT
1 AAAAAT AAAAAT A-AAAA-T AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT
11973859 AAAAAGT AAAAA
1 AAAAA-T AAAAA
11973871 AATGGTGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
5 9 0.19
6 20 0.42
7 17 0.35
8 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:11973851 original size:17 final size:16
Alignment explanation
Indices: 11973831--11973862 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
11973821 TAGAAAAGTA
11973831 AAAATAATAAATAAAAT
1 AAAATAA-AAATAAAAT
11973848 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
11973863 AGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:11973855 original size:23 final size:24
Alignment explanation
Indices: 11973824--11973869 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
11973814 ATATAAATAG
11973824 AAAAGTAAAAATAATAAA-TAAAAT
1 AAAAGTAAAAATAA-AAAGTAAAAT
11973848 AAAA-TAAAAATAAAAAGTAAAA
1 AAAAGTAAAAATAAAAAGTAAAA
11973870 AAATGGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 14 0.67
24 4 0.19
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAGTAAAAATAAAAAGTAAAAT
Found at i:11973855 original size:35 final size:35
Alignment explanation
Indices: 11973795--11973870 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 35
11973785 ATTAGGCATA
*
11973795 AAAAATATAATATACAAAAATAT-AAATAGAAAAGT
1 AAAAATATAATATACAAAAAAATAAAATA-AAAAGT
11973830 AAAAATAATAA-ATA-AAATAAAATAAAAATAAAAAGT
1 AAAAAT-ATAATATACAAA-AAAAT-AAAATAAAAAGT
11973866 AAAAA
1 AAAAA
11973871 AATGGTGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
34 3 0.08
35 13 0.36
36 15 0.42
37 5 0.14
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (35 bp):
AAAAATATAATATACAAAAAAATAAAATAAAAAGT
Found at i:11973871 original size:14 final size:12
Alignment explanation
Indices: 11973810--11973870 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 12
11973800 TATAATATAC
*
11973810 AAAAATATAAAT
1 AAAAATAAAAAT
11973822 AGAAAAGTAAAAAT
1 A-AAAA-TAAAAAT
11973836 AATAAAT-AAAAT
1 AA-AAATAAAAAT
11973848 -AAAATAAAAAT
1 AAAAATAAAAAT
11973859 AAAAAGTAAAAA
1 AAAAA-TAAAAA
11973871 AATGGTGGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
10 4 0.10
11 6 0.14
12 10 0.24
13 12 0.29
14 10 0.24
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:11978536 original size:17 final size:17
Alignment explanation
Indices: 11978508--11978548 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
11978498 CTTAATTTAG
11978508 CTCTACAGTAGACAACTC
1 CTCTA-AGTAGACAACTC
11978526 CTCTAAGTAGACAACTC
1 CTCTAAGTAGACAACTC
11978543 CTCTAA
1 CTCTAA
11978549 CTTCCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (17 bp):
CTCTAAGTAGACAACTC
Found at i:11979814 original size:27 final size:27
Alignment explanation
Indices: 11979776--11979829 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
11979766 TAATGGCACT
*
11979776 CGATTACTTCTTAATTCTTTAACTTCC
1 CGATTACTTCTTAATTATTTAACTTCC
*
11979803 CGATTACTTCTTAGTTATTTAACTTCC
1 CGATTACTTCTTAATTATTTAACTTCC
11979830 TGAGTCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.06, T:0.48
Consensus pattern (27 bp):
CGATTACTTCTTAATTATTTAACTTCC
Found at i:11987054 original size:28 final size:28
Alignment explanation
Indices: 11986997--11987055 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11986987 GCGATAAAGA
** *
11986997 ATAATTCAATTTGCTCACATGAGTTCTG
1 ATAATTCAATTTGCTCACACAAGATCTG
* *
11987025 ATAATTGAATTTGCTCACACAAGATGTG
1 ATAATTCAATTTGCTCACACAAGATCTG
11987053 ATA
1 ATA
11987056 TTTGGGCTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (28 bp):
ATAATTCAATTTGCTCACACAAGATCTG
Found at i:12011864 original size:24 final size:24
Alignment explanation
Indices: 12011837--12011883 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12011827 GTAATACAAT
*
12011837 TCACAGACAAAA-CAGTCATTTAAA
1 TCACAGA-AAAATCAATCATTTAAA
12011861 TCACAGAAAAATCAATCATTTAA
1 TCACAGAAAAATCAATCATTTAA
12011884 CCTCGAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.23
Consensus pattern (24 bp):
TCACAGAAAAATCAATCATTTAAA
Found at i:12011947 original size:27 final size:27
Alignment explanation
Indices: 12011930--12012017 Score: 158
Period size: 27 Copynumber: 3.3 Consensus size: 27
12011920 TAATTCGGTC
12011930 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
12011957 ATTTTACCCTTCGAGGGGATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
12011984 ATTTTACCCTTCGAGGATATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
12012011 ATTTTAC
1 ATTTTAC
12012018 AACCTTTTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:12011961 original size:54 final size:53
Alignment explanation
Indices: 12011903--12012017 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 53
12011893 CCAAAAAGTC
* *
12011903 ATTTTACCTTA-AGGGGGTAATTCGGTCATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCTTAGA-GGGG-AATTCGGTAATTTTACCCTTCGAGGATATTTTGGTA
* * *
12011957 ATTTTACCCTTCGAGGGGATTTTGGTAATTTTACCCTTCGAGGATATTTTGGTA
1 ATTTTA-CCTTAGAGGGGAATTCGGTAATTTTACCCTTCGAGGATATTTTGGTA
12012011 ATTTTAC
1 ATTTTAC
12012018 AACCTTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 1 0.02
54 44 0.81
55 8 0.15
56 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (53 bp):
ATTTTACCTTAGAGGGGAATTCGGTAATTTTACCCTTCGAGGATATTTTGGTA
Found at i:12021293 original size:15 final size:15
Alignment explanation
Indices: 12021273--12021310 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
12021263 TTCACTATTA
12021273 TGTCTTTTGTATTTT
1 TGTCTTTTGTATTTT
*
12021288 TGTCTTTTGTCTTTT
1 TGTCTTTTGTATTTT
*
12021303 TGTATTTT
1 TGTCTTTT
12021311 TGTCTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.08, G:0.13, T:0.74
Consensus pattern (15 bp):
TGTCTTTTGTATTTT
Found at i:12021307 original size:23 final size:22
Alignment explanation
Indices: 12021273--12021329 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
12021263 TTCACTATTA
12021273 TGTCTTTTGTATTTTTGTCTTT
1 TGTCTTTTGTATTTTTGTCTTT
12021295 TGTCTTTTTGTATTTTTGTC-TT
1 TGTC-TTTTGTATTTTTGTCTTT
*
12021317 TAT-TTTTGTATTT
1 TGTCTTTTGTATTT
12021330 AAGTTCAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.07, C:0.07, G:0.12, T:0.74
Consensus pattern (22 bp):
TGTCTTTTGTATTTTTGTCTTT
Found at i:12022942 original size:27 final size:24
Alignment explanation
Indices: 12022884--12022945 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
12022874 ACTATTCTAA
*
12022884 AATT-AATATTATTTTAATAATTT
1 AATTAAATATTATCTTAATAATTT
*
12022907 AATTTAATACTTATCTTAATAGTATTT
1 AATTAAATA-TTATCTTAATA--ATTT
*
12022934 TATTAAATATTA
1 AATTAAATATTA
12022946 AAGTGTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 10 0.31
26 3 0.09
27 11 0.34
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAAATATTATCTTAATAATTT
Found at i:12027684 original size:27 final size:27
Alignment explanation
Indices: 12027646--12027701 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12027636 CACAAATTCT
12027646 TAGTGAAATATATTACTAGCATAAACA
1 TAGTGAAATATATTACTAGCATAAACA
12027673 TAGTGAAATATATTACTAGCATAAACA
1 TAGTGAAATATATTACTAGCATAAACA
12027700 TA
1 TA
12027702 CTGATTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
TAGTGAAATATATTACTAGCATAAACA
Found at i:12035420 original size:22 final size:22
Alignment explanation
Indices: 12035392--12035435 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12035382 TTAATTAAGC
12035392 TAGTTTGTAACAAGGTCTATAT
1 TAGTTTGTAACAAGGTCTATAT
12035414 TAGTTTGTAACAAGGTCTATAT
1 TAGTTTGTAACAAGGTCTATAT
12035436 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
TAGTTTGTAACAAGGTCTATAT
Found at i:12036696 original size:19 final size:19
Alignment explanation
Indices: 12036674--12036743 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
12036664 AATTCTTTGG
*
12036674 TTTTTCTTTTTTCCTTTTT
1 TTTTTCATTTTTCCTTTTT
* *
12036693 TTTTCACATTTTCCCTTTTT
1 TTTT-TCATTTTTCCTTTTT
*
12036713 GTTTT-ATTTTTCCTTTATT
1 TTTTTCATTTTTCCTTT-TT
12036732 TTTGTTC-TTTTT
1 TTT-TTCATTTTT
12036744 TTTCTTCTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 10 0.25
19 8 0.20
20 22 0.55
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTCATTTTTCCTTTTT
Found at i:12049580 original size:29 final size:28
Alignment explanation
Indices: 12049548--12049610 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
12049538 TTTAAAAAGT
**
12049548 AATAATTTTA-ATGATTATTAACTTTTAAA
1 AATAATTTTATA-GATT-TTAAAATTTAAA
*
12049577 AATAGTTTTATAGATTTTAAAATTTAAA
1 AATAATTTTATAGATTTTAAAATTTAAA
12049605 AA-AATT
1 AATAATT
12049611 GATTAAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.10
28 12 0.41
29 13 0.45
30 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
AATAATTTTATAGATTTTAAAATTTAAA
Found at i:12055687 original size:85 final size:86
Alignment explanation
Indices: 12055586--12055758 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 86
12055576 ATTTCTATAA
12055586 AAATATTATTAAAATATCCATAAATAAATAACTAAAAAAATATTTATAATAAAAACAGTTAAAAT
1 AAATATTATTAAAATATCCATAAATAAATAACTAAAAAAATATTTATAATAAAAACAGTTAAAAT
12055651 TACAAACTTTCACTAAAACTG
66 TACAAACTTTCACTAAAACTG
12055672 AAATATTATT-AAATATCCATAAATAAATAACTAAAAAAATATTTATAATAAAAACAGTTAAAAT
1 AAATATTATTAAAATATCCATAAATAAATAACTAAAAAAATATTTATAATAAAAACAGTTAAAAT
12055736 TACAAACTTTCACTAAAACTG
66 TACAAACTTTCACTAAAACTG
12055757 AA
1 AA
12055759 TATCTTCAAA
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 77 0.89
86 10 0.11
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.30
Consensus pattern (86 bp):
AAATATTATTAAAATATCCATAAATAAATAACTAAAAAAATATTTATAATAAAAACAGTTAAAAT
TACAAACTTTCACTAAAACTG
Found at i:12056270 original size:22 final size:24
Alignment explanation
Indices: 12056221--12056285 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
12056211 TTCTGTATCC
* *
12056221 TATTTAGTTTTATTTTTACTTTTA
1 TATTTAGGTTTATTTTTACATTTA
12056245 -ATTTAGGTTT-TTTTT-CATTTA
1 TATTTAGGTTTATTTTTACATTTA
*
12056266 TATTTATAGTTTAGTTTTTA
1 TATTTA-GGTTTA-TTTTTA
12056286 TTTCGTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 5 0.15
22 10 0.30
23 13 0.39
25 5 0.15
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (24 bp):
TATTTAGGTTTATTTTTACATTTA
Found at i:12073768 original size:8 final size:8
Alignment explanation
Indices: 12073755--12073784 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
12073745 AATCACAATT
12073755 ATCTAACC
1 ATCTAACC
12073763 ATCTAACC
1 ATCTAACC
12073771 ATCTAACC
1 ATCTAACC
12073779 ATCTAA
1 ATCTAA
12073785 ACCAAAGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCTAACC
Found at i:12075791 original size:9 final size:9
Alignment explanation
Indices: 12075777--12075813 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12075767 TATAGTTTGA
12075777 TATTCGAAT
1 TATTCGAAT
12075786 TATTCGAAT
1 TATTCGAAT
*
12075795 TATTCGAGT
1 TATTCGAAT
12075804 TATTCGAAT
1 TATTCGAAT
12075813 T
1 T
12075814 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12084007 original size:12 final size:12
Alignment explanation
Indices: 12083990--12084016 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12083980 TGAAGTGTGC
12083990 AGATACTGATGG
1 AGATACTGATGG
12084002 AGATACTGATGG
1 AGATACTGATGG
12084014 AGA
1 AGA
12084017 ATGCCATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
AGATACTGATGG
Found at i:12086385 original size:13 final size:13
Alignment explanation
Indices: 12086367--12086410 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
12086357 ATTCAATTCG
*
12086367 ATGTTTAGACAGT
1 ATGTTTAGACAAT
*
12086380 ATGTTTAGATAAT
1 ATGTTTAGACAAT
*
12086393 ATGTTTAGACATT
1 ATGTTTAGACAAT
12086406 ATGTT
1 ATGTT
12086411 CATATAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (13 bp):
ATGTTTAGACAAT
Found at i:12086745 original size:58 final size:59
Alignment explanation
Indices: 12086640--12086754 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 59
12086630 AGATAACACT
* *
12086640 GACTTGTTATAAATCACGCACCGCAAAAATCTCACATTACAACCAGTAAAACTCTCCCC
1 GACTTGTTATAAATCACGCACCGCAAAAACCTCACAATACAACCAGTAAAACTCTCCCC
* * * * *
12086699 GACTTGTTATAAATTACTCACC-CAAAAACCTTACAATACAAGCAGTAAAATTCTCC
1 GACTTGTTATAAATCACGCACCGCAAAAACCTCACAATACAACCAGTAAAACTCTCC
12086755 AATAAATAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 29 0.59
59 20 0.41
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (59 bp):
GACTTGTTATAAATCACGCACCGCAAAAACCTCACAATACAACCAGTAAAACTCTCCCC
Found at i:12091352 original size:27 final size:28
Alignment explanation
Indices: 12091306--12091360 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
12091296 ATAAAGATTA
12091306 AATTGATAAAAAAAAATTATCGCTTCAT
1 AATTGATAAAAAAAAATTATCGCTTCAT
12091334 AATTGAT-AAAAAAAATTATCGCTTCAT
1 AATTGATAAAAAAAAATTATCGCTTCAT
12091361 GTGGCGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (28 bp):
AATTGATAAAAAAAAATTATCGCTTCAT
Found at i:12098524 original size:6 final size:6
Alignment explanation
Indices: 12098515--12098569 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
12098505 TCTCCACCTC
* *
12098515 CGTCTT CGTCTT CGTCTT CGTCTT CGTCTT CGTTTT TGTCTT CGTCTT
1 CGTCTT CGTCTT CGTCTT CGTCTT CGTCTT CGTCTT CGTCTT CGTCTT
*
12098563 CATCTT C
1 CGTCTT C
12098570 TGTGCTTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.02, C:0.31, G:0.15, T:0.53
Consensus pattern (6 bp):
CGTCTT
Found at i:12101642 original size:2 final size:2
Alignment explanation
Indices: 12101635--12101664 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12101625 ACTCTTGTAA
12101635 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12101665 TATCCCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12114080 original size:25 final size:26
Alignment explanation
Indices: 12114052--12114130 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 26
12114042 TTGATTGTTT
*
12114052 TTTGTA-AAAATTATGTGTTTGAAGC
1 TTTGTATATAATTATGTGTTTGAAGC
*
12114077 TTTG-ATATAATTATTTGTTTGAAGC
1 TTTGTATATAATTATGTGTTTGAAGC
*
12114102 TTT-TATATAATTATGTGCTTGAAGC
1 TTTGTATATAATTATGTGTTTGAAGC
12114127 TTTG
1 TTTG
12114131 ATTGTGATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (26 bp):
TTTGTATATAATTATGTGTTTGAAGC
Found at i:12116041 original size:18 final size:18
Alignment explanation
Indices: 12116018--12116052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12116008 GTGTGTCCCC
*
12116018 TATTTTTGAAAATTTTCA
1 TATTTTTCAAAATTTTCA
*
12116036 TATTTTTCCAAATTTTC
1 TATTTTTCAAAATTTTC
12116053 CTAACTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTTTTCAAAATTTTCA
Found at i:12119162 original size:284 final size:288
Alignment explanation
Indices: 12118393--12119214 Score: 818
Period size: 284 Copynumber: 2.8 Consensus size: 288
12118383 GGGTGTAACA
** * * * * *
12118393 CACCAACTTAATTAGGAAATTACGAAAATATTCTTCTATAATTAAAAAAACTTATACTATTTGAG
1 CACCAACTTGGTTAGGAAATTACAAAAATGTCCTTCTATAATTAAAATAAGTTATACTATTTGAG
* * * * *
12118458 GGTATTTTAGTCTTTTCATTTTAAGAAAAACCAATTAAAATATGTATATAGT-GAAATTTAAACC
66 GGTATTTTAGTCTTTTTATTTTAACAAAAACCAATTAAAATATGCATATGGTAG-GATTTAAACC
* * * * **
12118522 CACAACAATTGTATTAGTAAAACTTTAAATTTACCACTCAAG-CAAAGCTTTGTTTTGATGTAAT
130 CACACCAATTGAATTAGTAAAACCTTAAATTTACCACTC-AGCCAAAAC-TT-CATT--T-TAA-
* * * * * *
12118586 TTGTACAATTTCATTTAAATATG-ATTAAGTTATTATCTCCATTATTTGTATATCTATACTATCT
188 ---TACATTTTTATTTTAATATGCA-CAAGTTATTATCTCTATTAATTGTATATCTATACTATCT
** **
12118650 ATTAAGTGTTTTACTGAGTTGGTGTTACCCTTAACCGAGT
249 ATTAAGCATTTTACTGAGTTGGTGCCACCCTTAACCGAGT
* ** * * * *
12118690 CACCAACTTGGTTAGGAAATTATAGGAATGCCCTTCTGTAATTAAAATAAGTTATACAATTTAAG
1 CACCAACTTGGTTAGGAAATTACAAAAATGTCCTTCTATAATTAAAATAAGTTATACTATTTGAG
** * * * *
12118755 GGTACGTACCCTAGTTTTTTTATTTTAACAAAAACCAATTAAAATATACATATGGTAAGATTTGA
66 GGTA--T--TTTAGTCTTTTTATTTTAACAAAAACCAATTAAAATATGCATATGGTAGGATTTAA
* * * * *
12118820 ACCCACACCAATTGAATTAGTAAAACCTTAAATTTACCACTAAACTAAGATTTCATTTTAATACA
127 ACCCACACCAATTGAATTAGTAAAACCTTAAATTTACCACTCAGCCAAAACTTCATTTTAATACA
* * * * *
12118885 TTTTTATTTTAATATGCACATGTTATCATTTCTATTAGTTGTATA-GT-TA-TA-CTATTAAGCA
192 TTTTTATTTTAATATGCACAAGTTATTATCTCTATTAATTGTATATCTATACTATCTATTAAGCA
* *
12118946 TTTTACTGAGTTGGTGCCA-CCTTCAATCGGGT
257 TTTTACTGAGTTGGTGCCACCCTT-AACCGAGT
* * *
12118978 CATCAACTCT-GTTAGAAAATTACAAAAATGTCCTT-TCATAATTAAAATAAGTTAAACTATTTG
1 CACCAACT-TGGTTAGGAAATTACAAAAATGTCCTTCT-ATAATTAAAATAAGTTATACTATTTG
* *
12119041 AGGGTATTTTAGTCTTTTTATTTTTACAAAAACCAATTAAAATATGCATATGGTAGGATTTCAAC
64 AGGGTATTTTAGTCTTTTTATTTTAACAAAAACCAATTAAAATATGCATATGGTAGGATTTAAAC
* * * * * *
12119106 CTACTCCAATTGGATTAATAAAACCTTAAATTTACCACTCAGCCAAAACTTCATTTTGATATATT
129 CCACACCAATTGAATTAGTAAAACCTTAAATTTACCACTCAGCCAAAACTTCATTTTAATACATT
*
12119171 TTTGTTTTAATATGCACAAGTTATTATCTCTATTAATTGTATAT
194 TTTATTTTAATATGCACAAGTTATTATCTCTATTAATTGTATAT
12119215 ATTAATAATG
Statistics
Matches: 429, Mismatches: 85, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
284 143 0.33
286 1 0.00
287 5 0.01
288 86 0.20
289 3 0.01
290 2 0.00
291 1 0.00
292 38 0.09
293 1 0.00
296 3 0.01
297 56 0.13
299 3 0.01
300 3 0.01
301 84 0.20
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (288 bp):
CACCAACTTGGTTAGGAAATTACAAAAATGTCCTTCTATAATTAAAATAAGTTATACTATTTGAG
GGTATTTTAGTCTTTTTATTTTAACAAAAACCAATTAAAATATGCATATGGTAGGATTTAAACCC
ACACCAATTGAATTAGTAAAACCTTAAATTTACCACTCAGCCAAAACTTCATTTTAATACATTTT
TATTTTAATATGCACAAGTTATTATCTCTATTAATTGTATATCTATACTATCTATTAAGCATTTT
ACTGAGTTGGTGCCACCCTTAACCGAGT
Found at i:12120759 original size:37 final size:37
Alignment explanation
Indices: 12120709--12120786 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
12120699 TATGAATTGC
12120709 ACTTCTTATTCCTGGTTAGTTTCCATAATTGATATGA
1 ACTTCTTATTCCTGGTTAGTTTCCATAATTGATATGA
12120746 ACTTCTTATTCCTGGTTAGTTTCCATAATTGATATGA
1 ACTTCTTATTCCTGGTTAGTTTCCATAATTGATATGA
12120783 ACTT
1 ACTT
12120787 TTGTTCTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (37 bp):
ACTTCTTATTCCTGGTTAGTTTCCATAATTGATATGA
Found at i:12123057 original size:3 final size:3
Alignment explanation
Indices: 12123049--12123079 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12123039 GATGAACTTG
12123049 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12123080 GTCATTTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12134221 original size:23 final size:23
Alignment explanation
Indices: 12134195--12134269 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
12134185 ATAAGTGTCA
*
12134195 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
12134218 CACTGAAATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
12134241 CACTGAAATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
12134264 CACTGA
1 CACTGA
12134270 TCAATAACAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCAAAGCTAC
Found at i:12139529 original size:22 final size:22
Alignment explanation
Indices: 12139504--12139548 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12139494 TACAACAATG
12139504 GAGGAGGATAATGA-GGAGCAAA
1 GAGGA-GATAATGATGGAGCAAA
* *
12139526 GAGGAGATCATGATGGTGCAAA
1 GAGGAGATAATGATGGAGCAAA
12139548 G
1 G
12139549 GAATTCGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.40, T:0.13
Consensus pattern (22 bp):
GAGGAGATAATGATGGAGCAAA
Found at i:12140071 original size:20 final size:20
Alignment explanation
Indices: 12140048--12140174 Score: 61
Period size: 20 Copynumber: 6.3 Consensus size: 20
12140038 TTAAGTAGCA
12140048 TTTTCATATTTTAAGTAATT
1 TTTTCATATTTTAAGTAATT
*
12140068 TTTTCATATATTACGAAGT-ATT
1 TTTTCATAT-TT--TAAGTAATT
* *
12140090 TCTTT-AAAGTTTTAAATAATT
1 T-TTTCATA-TTTTAAGTAATT
*
12140111 TTTTCATGTTTTAA-T-ATT
1 TTTTCATATTTTAAGTAATT
* **
12140129 TAGTT-A-ATTTTCAA-TAAGC
1 T-TTTCATATTTT-AAGTAATT
* *
12140148 TTTTCATATTTGAAGTAATA
1 TTTTCATATTTTAAGTAATT
12140168 TTTTCAT
1 TTTTCAT
12140175 GTATTTCAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 26
0.67 0.12 0.22
Matches are distributed among these distances:
17 4 0.05
18 10 0.12
19 8 0.10
20 35 0.44
21 7 0.09
22 8 0.10
23 8 0.10
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTCATATTTTAAGTAATT
Found at i:12144906 original size:5 final size:5
Alignment explanation
Indices: 12144898--12144925 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12144888 GAAAGGAAAA
12144898 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
12144926 TTCAATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:12150869 original size:140 final size:141
Alignment explanation
Indices: 12150686--12150938 Score: 456
Period size: 140 Copynumber: 1.8 Consensus size: 141
12150676 TTAGGTGGTC
12150686 CAATCATACCTTAATAAAAGATTGGTGACACTACACCAGAACAGGTTTTTAGCGGCGTTTTTTTA
1 CAATCATACCTTAATAAAAGATTGGTGACACTACACCAGAACAGGTTTTTAGCGGCGTTTTTTTA
12150751 GGCCTTTAGTGGTGCTTTTTAACG-CCACTAAAGGTATTTGCGGCGCTTTAAGAAGCGCCACAAA
66 GGCCTTTAGTGGTGCTTTTTAACGCCCA-TAAAGGTATTTGCGGCGCTTTAAGAAGCGCCACAAA
12150815 AAATGCCGCTAA
130 AAATGCCGCTAA
12150827 CAATCATACC-TAATAAAAGATTGGTGACACTACACCAGAACAGGTTTTTAGCGGCGTTTTTTTA
1 CAATCATACCTTAATAAAAGATTGGTGACACTACACCAGAACAGGTTTTTAGCGGCGTTTTTTTA
* * *
12150891 GGCCTTTAGTGGTGCTTTTTAACGCCCATCAAGTTCTTTGCGGCGCTT
66 GGCCTTTAGTGGTGCTTTTTAACGCCCATAAAGGTATTTGCGGCGCTT
12150939 AGAAAAAAAC
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
140 95 0.88
141 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (141 bp):
CAATCATACCTTAATAAAAGATTGGTGACACTACACCAGAACAGGTTTTTAGCGGCGTTTTTTTA
GGCCTTTAGTGGTGCTTTTTAACGCCCATAAAGGTATTTGCGGCGCTTTAAGAAGCGCCACAAAA
AATGCCGCTAA
Found at i:12150988 original size:42 final size:42
Alignment explanation
Indices: 12150930--12151106 Score: 250
Period size: 42 Copynumber: 4.2 Consensus size: 42
12150920 CAAGTTCTTT
* *
12150930 GCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAATGTTCTATA
1 GCGGCGCTTGGGAAAAAACGCCGCTAAAAGTAATGTTCTATA
*
12150972 GCGGCGCTTGGGAAAAAACGCCGCT-AAAGATCATGTTCCT-TA
1 GCGGCGCTTGGGAAAAAACGCCGCTAAAAG-TAATGTT-CTATA
*
12151014 GCGGCGCTTGGGAAAAAATGCCGCTAAAAGTAATGTTCTATA
1 GCGGCGCTTGGGAAAAAACGCCGCTAAAAGTAATGTTCTATA
** * *
12151056 GCGGCGCTTGGTCAAAAACGCCGCTAAAAGTAGTGTTCTTTA
1 GCGGCGCTTGGGAAAAAACGCCGCTAAAAGTAATGTTCTATA
12151098 GCGGCGCTT
1 GCGGCGCTT
12151107 ATTTCACAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
41 6 0.05
42 109 0.90
43 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (42 bp):
GCGGCGCTTGGGAAAAAACGCCGCTAAAAGTAATGTTCTATA
Found at i:12160761 original size:14 final size:15
Alignment explanation
Indices: 12160724--12160764 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
12160714 CCCTGATCTG
*
12160724 AACCCAAAATCCCTA
1 AACCCTAAATCCCTA
*
12160739 AACCTTAAATCCC-A
1 AACCCTAAATCCCTA
12160753 AACCCTAAATCC
1 AACCCTAAATCC
12160765 ATACAAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCTAAATCCCTA
Found at i:12161564 original size:21 final size:20
Alignment explanation
Indices: 12161540--12161624 Score: 53
Period size: 21 Copynumber: 4.0 Consensus size: 20
12161530 ACTAGTTAAT
12161540 CTAAACTGTAAACCATAAACC
1 CTAAACT-TAAACCATAAACC
* * *
12161561 CTAAAATCATAAACCCTTAACAC
1 CT-AAA-CTTAAACCATAAAC-C
* * *
12161584 ATAACCTTAAACCTTAAACC
1 CTAAACTTAAACCATAAACC
* *
12161604 CCAACCTTTAAACCATAAACC
1 CTAAAC-TTAAACCATAAACC
12161625 ATAGACCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.10
21 26 0.53
22 15 0.31
23 3 0.06
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (20 bp):
CTAAACTTAAACCATAAACC
Found at i:12161565 original size:14 final size:14
Alignment explanation
Indices: 12161548--12161627 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
12161538 ATCTAAACTG
12161548 TAAACCATAAACCC
1 TAAACCATAAACCC
*
12161562 TAAAATCATAAACCC
1 T-AAACCATAAACCC
* *
12161577 TTAACACAT-AACCT
1 TAAAC-CATAAACCC
*
12161591 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
12161605 -CAACCTTTAAACCA
1 TAAACC-ATAAACCC
12161619 TAAACCATA
1 TAAACCATA
12161628 GACCAAATAC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 6 0.12
14 24 0.48
15 20 0.40
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:12162153 original size:113 final size:114
Alignment explanation
Indices: 12161927--12162145 Score: 284
Period size: 113 Copynumber: 1.9 Consensus size: 114
12161917 TTTTTTGATA
* *
12161927 TGCGCCACTAATAACTGTATACATCAAGACAAAAACGTTGCGTTTTGGTTACCAAATGTTGCGGT
1 TGCGCCACTAATAACTGTATACATCAAGACAAAAACGTTGCGTTTTGGTTAACAAATGTTGCGGC
*
12161992 GCTTCTCTGAAAACGCCGCTAATAGTATGCCTTAGCGGCGTGTACCCTT
66 GCTTCTCTCAAAACGCCGCTAATAGTATGCCTTAGCGGCGTGTACCCTT
* * * * * *
12162041 TGCGCCACTAAT-TCTAGTATACCTCAAGAC-CAAAC-TCTGCGTTTTGGTTAAGATATTTTGCG
1 TGCGCCACTAATAACT-GTATACATCAAGACAAAAACGT-TGCGTTTTGGTTAACAAATGTTGCG
* *
12162103 GCGCTT-TCCTCAAAACGCCGCTAATATTATGCTTTAGCGGCGT
64 GCGCTTCT-CTCAAAACGCCGCTAATAGTATGCCTTAGCGGCGT
12162146 TTTCCCTTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
112 2 0.02
113 64 0.70
114 25 0.27
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCGCCACTAATAACTGTATACATCAAGACAAAAACGTTGCGTTTTGGTTAACAAATGTTGCGGC
GCTTCTCTCAAAACGCCGCTAATAGTATGCCTTAGCGGCGTGTACCCTT
Found at i:12162426 original size:112 final size:113
Alignment explanation
Indices: 12162268--12162500 Score: 278
Period size: 112 Copynumber: 2.1 Consensus size: 113
12162258 GACCAAACTT
* *
12162268 TGCGTTTTGGTTAACATATGTTACGGCGCTTTTGGTAAGCGCCGCTAATACTTCCTTTAGC-AGC
1 TGCGTTTTCGTTAACATATGTTACGGCGCTTTTGGCAAGCGCCGCTAATACTTCCTTTAGCGA-C
* * * *
12162332 GGGTTTT-CGTAAGCGCCACTAATGCTAATATACAGCGAGA-TAAAACGA
65 -GGTTTTCCATAAACGCCACTAATGCTAATATACAGCAAGACCAAAACGA
* * *
12162380 TGCGTTTTCGTTAAGAT-TTTTACGGCGCTTTCT-GCAATGCTCCGCTAATACTTCCTTTAGCGA
1 TGCGTTTTCGTTAACATATGTTACGGCGCTTT-TGGCAA-GCGCCGCTAATACTTCCTTTAGCGA
* * * *
12162443 CGTTTTTCCATAAACGCCACTAATTCTAGTATACATCAAGACCAAAACGA
64 CGGTTTTCCATAAACGCCACTAATGCTAATATACAGCAAGACCAAAACGA
12162493 TGCGTTTT
1 TGCGTTTT
12162501 GATCTTCAGA
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
111 21 0.20
112 66 0.64
113 16 0.16
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (113 bp):
TGCGTTTTCGTTAACATATGTTACGGCGCTTTTGGCAAGCGCCGCTAATACTTCCTTTAGCGACG
GTTTTCCATAAACGCCACTAATGCTAATATACAGCAAGACCAAAACGA
Found at i:12162997 original size:89 final size:84
Alignment explanation
Indices: 12162831--12162998 Score: 219
Period size: 89 Copynumber: 1.9 Consensus size: 84
12162821 TATATATATC
* *
12162831 GCCTTACATACAATCTAAGTTAAAATTACATAACCTAAGTCAAGCATACCAGATATGATGAGATC
1 GCCTTACATACAATCTAAGTTAAAATTACATAACCTAAGTCAAACATACCAGATATAATGAGATC
*
12162896 AACGACCGATAATTACATA
66 AACGACCCATAATTACATA
*
12162915 GCCTTACATTACAATCTAAGTTAAAATTATATACATAGCCTAAGTCAAACATACCAGATATAATG
1 GCCTTACA-TACAATCTAAGTT-AAA--AT-TACATAACCTAAGTCAAACATACCAGATATAATG
* * **
12162980 GGATTAATTACCCATAATT
61 AGATCAACGACCCATAATT
12162999 CCCGTGACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
84 8 0.11
85 13 0.18
86 3 0.04
88 2 0.03
89 45 0.63
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (84 bp):
GCCTTACATACAATCTAAGTTAAAATTACATAACCTAAGTCAAACATACCAGATATAATGAGATC
AACGACCCATAATTACATA
Found at i:12166603 original size:13 final size:13
Alignment explanation
Indices: 12166585--12166610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12166575 TAGTTGCGAG
12166585 CCTGTTGAAGACA
1 CCTGTTGAAGACA
12166598 CCTGTTGAAGACA
1 CCTGTTGAAGACA
12166611 GTATGCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:12166784 original size:64 final size:64
Alignment explanation
Indices: 12166675--12166817 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 64
12166665 GTGCGGGTTG
* * * * * *
12166675 TAAAGGTGCT-AGCCCTGTATAGTTGCAAGCGTGTTGAAGATAATATGCAAATATGCGAGTCTGT
1 TAAAGGTG-TGAGCTCTGTATAGTTGCAAGCCTGCTAAAGACAATATGCAAAGATGCGAGTCTGT
* *
12166739 TAAAGGTGTGAGCTCTGTATAGTTGCGAGCCTGCTAAAGACAATATGCAAAGCTGCGAGTCTGT
1 TAAAGGTGTGAGCTCTGTATAGTTGCAAGCCTGCTAAAGACAATATGCAAAGATGCGAGTCTGT
*
12166803 CAAAGGTGTGAGCTC
1 TAAAGGTGTGAGCTC
12166818 AACGACATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.01
64 68 0.99
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (64 bp):
TAAAGGTGTGAGCTCTGTATAGTTGCAAGCCTGCTAAAGACAATATGCAAAGATGCGAGTCTGT
Found at i:12173145 original size:91 final size:91
Alignment explanation
Indices: 12172975--12173148 Score: 276
Period size: 91 Copynumber: 1.9 Consensus size: 91
12172965 TGCCAGATTG
*
12172975 CTCATAAGAGCTTTCCAACCGATAACATGCTAGATGCACATAGTGCAAACCTCGTAGCCTAAGTA
1 CTCATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCAAACCTCGTAGCCTAAGTA
** *
12173040 TTCTCCGTCGATAACACATTAGTTTA
66 TTCTCCCCCAATAACACATTAGTTTA
* * * *
12173066 CTCATAAGAGCTTTCCAACTGATAACATGCCAGATGCACATAGTGCAAAGCTCGTTGGCTAAGTA
1 CTCATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCAAACCTCGTAGCCTAAGTA
12173131 TTCTCCCCCAATAACACA
66 TTCTCCCCCAATAACACA
12173149 CCAAAACCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (91 bp):
CTCATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCAAACCTCGTAGCCTAAGTA
TTCTCCCCCAATAACACATTAGTTTA
Found at i:12175055 original size:25 final size:25
Alignment explanation
Indices: 12175027--12175291 Score: 75
Period size: 25 Copynumber: 10.7 Consensus size: 25
12175017 GCCAAATAAT
*
12175027 GGGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGAGAGCCATGTAAC
* ** * **
12175052 GGGAAGCTTATCCGAGCTAAATAAC
1 GGGAAGCTCATGAGAGCCATGTAAC
*
12175077 AGGAAGCTCATGAGAGCCATAGT--C
1 GGGAAGCTCATGAGAGCCAT-GTAAC
* * **
12175101 GGGAAGCTCGTGCGAG-CAAATAAC
1 GGGAAGCTCATGAGAGCCATGTAAC
* * * *
12175125 AGGTAGCTCCA-AAAAGCCAT-TAATC
1 GGGAAGCT-CATGAGAGCCATGTAA-C
* * * * *
12175150 GAGAAGCTTCA-GATAGCTATATATC
1 GGGAAGC-TCATGAGAGCCATGTAAC
* * * * *
12175175 GGGAAGTTCAAGTGAGTCA--TATC
1 GGGAAGCTCATGAGAGCCATGTAAC
12175198 GGGAAGCTCCA-GAGAGCCAT-TAATC
1 GGGAAGCT-CATGAGAGCCATGTAA-C
** *
12175223 GGGAAGCTCACAAAGAGCC-TTTAATC
1 GGGAAGCTCA-TGAGAGCCATGTAA-C
* *
12175249 GGGAAGCTCACGAAGAGCCATATAAC
1 GGGAAGCTCATG-AGAGCCATGTAAC
* *
12175275 GGGACGCTCATAAGAGC
1 GGGAAGCTCATGAGAGC
12175292 TGCGGTGTGC
Statistics
Matches: 174, Mismatches: 49, Indels: 34
0.68 0.19 0.13
Matches are distributed among these distances:
22 1 0.01
23 19 0.11
24 35 0.20
25 74 0.43
26 41 0.24
27 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATGAGAGCCATGTAAC
Found at i:12175082 original size:50 final size:48
Alignment explanation
Indices: 12174993--12175133 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 48
12174983 TCCATCAATT
* * ** *
12174993 CATATTCGGGAAGCACATTCTCGAGCCAAATAATGGGAAGCTCATGTGAGC
1 CATAGTCGGGAAGCTCA-TC-CGAG-CAAATAACAGGAAGCTCATGAGAGC
*
12175044 CAT-GTAACGGGAAGCTTATCCGAGCTAAATAACAGGAAGCTCATGAGAGC
1 CATAGT--CGGGAAGCTCATCCGAGC-AAATAACAGGAAGCTCATGAGAGC
* * *
12175094 CATAGTCGGGAAGCTCGTGCGAGCAAATAACAGGTAGCTC
1 CATAGTCGGGAAGCTCATCCGAGCAAATAACAGGAAGCTC
12175134 CAAAAAGCCA
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
48 15 0.20
49 16 0.21
50 29 0.38
51 7 0.09
52 9 0.12
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (48 bp):
CATAGTCGGGAAGCTCATCCGAGCAAATAACAGGAAGCTCATGAGAGC
Found at i:12175156 original size:49 final size:49
Alignment explanation
Indices: 12175064--12175157 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 49
12175054 GAAGCTTATC
* * * *
12175064 CGAGCTAAATAACAGGAAGCTCATGAGAGCCATAGTCGGGAAGCTCGTG
1 CGAGCTAAATAACAGGAAGCTCATAAAAGCCATAATCGAGAAGCTCGTG
*
12175113 CGAGC-AAATAACAGGTAGCTCCA-AAAAGCCATTAATCGAGAAGCT
1 CGAGCTAAATAACAGGAAGCT-CATAAAAGCCA-TAATCGAGAAGCT
12175158 TCAGATAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 20 0.53
49 18 0.47
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (49 bp):
CGAGCTAAATAACAGGAAGCTCATAAAAGCCATAATCGAGAAGCTCGTG
Found at i:12175246 original size:26 final size:26
Alignment explanation
Indices: 12175195--12175284 Score: 112
Period size: 26 Copynumber: 3.5 Consensus size: 26
12175185 AGTGAGTCAT
* *
12175195 ATCGGGAAGCTC-CAGAGAGCCATTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
12175220 ATCGGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
* *
12175246 ATCGGGAAGCTCACGAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCC-TTTA
*
12175273 A-CGGGACGCTCA
1 ATCGGGAAGCTCA
12175285 TAAGAGCTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
25 12 0.21
26 42 0.72
27 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCTTTA
Done.