Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 123 of 126
Found at i:38243414 original size:60 final size:60
Alignment explanation
Indices: 38243307--38243429 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
38243297 TGCATTTGCA
* * * *
38243307 CTGTTACTGTATTGGGCTAAGGCCCACACTCTGTTACAGTATTGGGCTGAGGCCCACACT
1 CTGTTACTGCATTGGGCTAAGGCCCACACTCTGCTACAGTATAGGGCTCAGGCCCACACT
* * * * * *
38243367 CTGTTACTGCATTGGGCTATGGCCGATACAT-TGCTACTGTATAGGGCTCAGGCCTAGACT
1 CTGTTACTGCATTGGGCTAAGGCCCACAC-TCTGCTACAGTATAGGGCTCAGGCCCACACT
38243427 CTG
1 CTG
38243430 CATGTTCTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (60 bp):
CTGTTACTGCATTGGGCTAAGGCCCACACTCTGCTACAGTATAGGGCTCAGGCCCACACT
Found at i:38250223 original size:20 final size:20
Alignment explanation
Indices: 38250195--38250246 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
38250185 GCCCCGTGGC
* **
38250195 ATCGATATTTTTGCACCAGT
1 ATCGATATTTTTACAAAAGT
*
38250215 ATTGATATTTTTACAAAAGT
1 ATCGATATTTTTACAAAAGT
38250235 ATCGATATTTTT
1 ATCGATATTTTT
38250247 TAGTTGGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (20 bp):
ATCGATATTTTTACAAAAGT
Found at i:38252689 original size:16 final size:16
Alignment explanation
Indices: 38252649--38252691 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
38252639 GAATAAGCCA
*
38252649 CATCCATGAATCCAGC
1 CATCCATGTATCCAGC
38252665 CATCCATGTATCCAGC
1 CATCCATGTATCCAGC
*
38252681 CATTCATGTAT
1 CATCCATGTAT
38252692 GCTCCCATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.28
Consensus pattern (16 bp):
CATCCATGTATCCAGC
Found at i:38278445 original size:6 final size:6
Alignment explanation
Indices: 38278434--38278459 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38278424 TGTAGTTTGG
38278434 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
38278460 AACTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:38286890 original size:27 final size:27
Alignment explanation
Indices: 38286860--38287037 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38286850 ATATTGAGTC
* * * *
38286860 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38286887 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38286914 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38286942 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38286969 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38286996 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38287023 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38287038 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38286999 original size:82 final size:81
Alignment explanation
Indices: 38286881--38287036 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38286871 TGCTATATAA
* *
38286881 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38286946 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38286963 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38287027 CACTTAGTGC
65 CACTTAGTGC
38287037 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38300562 original size:22 final size:22
Alignment explanation
Indices: 38300534--38300604 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
38300524 TAATATTATA
38300534 TATATTATGATTTTTATTAAAT
1 TATATTATGATTTTTATTAAAT
* *** *
38300556 TATATTAAGAAGGTTATTAAAA
1 TATATTATGATTTTTATTAAAT
*
38300578 TATA-TATTATTTTTATTAAAT
1 TATATTATGATTTTTATTAAAT
38300599 TATATT
1 TATATT
38300605 TAATAATAAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
TATATTATGATTTTTATTAAAT
Found at i:38311791 original size:279 final size:276
Alignment explanation
Indices: 38311091--38311855 Score: 1140
Period size: 275 Copynumber: 2.8 Consensus size: 276
38311081 GGATCCAGCT
38311091 AATGGGTATGGGTCAAACTACTTTTTGTATCATTGGAACTGCTTAAAAGGGTTACCATAAATCAG
1 AATGGGTATGGGTCAAACTACTTTTTGTATCATTGGAACTGCTTAAAAGGGTTACCATAAATCAG
* *
38311156 CTAGATCAAAAAGACGGATCATTGAGTAAAAAGGTTACTCGGTAGAAAATCCTATCCACATGAAT
66 CTAGATCAAAAAGATGGATCATTGAG-CAAAAGGTTACTCGGTAGAAAATCCTATCCACATGAAT
* * * *
38311221 GGTAATCTACTTGTAAGTAGAATGGTCAATGGCTGTTTAGAATTGGATAATATTTTGCTC-GACA
130 GGTAGTCTACTTGGAAGTAGAATGGTCAATGGCTGTTAAGCATTGGATAATATTTTGC-CAGACA
* * ** *
38311285 GAATCATCCACACTAATGAGCAGCTAGATCAAAAAGATGAATCATTGAACAAAAGGTTACTCGTA
194 GAATCATCCACATTGACAAACAGCTAGATCAAAAAGATGAATCATTGAACAAAAGGTTACTCGTA
*
38311350 GAAAATCCTATTCACATG
259 GAAAATCCTATCCACATG
* **
38311368 AAT-GGAATGGGTCAAACTACTTTTTGTATCATTGGAACTGCTTAAAAGGACTACCATAAATCAG
1 AATGGGTATGGGTCAAACTACTTTTTGTATCATTGGAACTGCTTAAAAGGGTTACCATAAATCAG
*
38311432 CTAGATCAAAAAGATGGATCATTGAGCAAAAGGCTAC-CTGGTAGAAAATCCTATCCACATGAAT
66 CTAGATCAAAAAGATGGATCATTGAGCAAAAGGTTACTC-GGTAGAAAATCCTATCCACATGAAT
* **
38311496 GGTAGTCTGCTTGGAAGTAGAATGGTCAATGGCTGCCAAGCATTGGATAATATTTTGCCAGACAG
130 GGTAGTCTACTTGGAAGTAGAATGGTCAATGGCTGTTAAGCATTGGATAATATTTTGCCAGACAG
* * * *
38311561 AATCATCCACATTGACAAACAGCTAGATCAAAAAGATGGATCATTGAGCATAAGGTTACTTGGTA
195 AATCATCCACATTGACAAACAGCTAGATCAAAAAGATGAATCATTGAACAAAAGGTTAC-TCGTA
*
38311626 GAAAATCCTATCCACGTG
259 GAAAATCCTATCCACATG
* * *
38311644 AATGGGTATGAGTCAAACTACATTTTGTATCATTGGAACTGCTTTTAAAAGGGTTGCCATAAATC
1 AATGGGTATGGGTCAAACTACTTTTTGTATCATTGGAACTGC--TTAAAAGGGTTACCATAAATC
* * *
38311709 AGCTAGACCAAAAAGATGGATCATTGAGCAAAAGGTTACTCAGTAGAAAATCCTATCCACATGAC
64 AGCTAGATCAAAAAGATGGATCATTGAGCAAAAGGTTACTCGGTAGAAAATCCTATCCACATGAA
* * * *
38311774 TGGTAGTCTACTTGGAAGTAAAATGGTCAATGGCAGTTTAAGCATTAGATAATATTTTGCTAGAC
129 TGGTAGTCTACTTGGAAGTAGAATGGTCAATGGCTG-TTAAGCATTGGATAATATTTTGCCAGAC
38311839 AGAATCATCCACATTGA
193 AGAATCATCCACATTGA
38311856 TGAGCAGCAG
Statistics
Matches: 439, Mismatches: 41, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
274 2 0.00
275 141 0.32
276 106 0.24
277 38 0.09
279 110 0.25
280 42 0.10
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (276 bp):
AATGGGTATGGGTCAAACTACTTTTTGTATCATTGGAACTGCTTAAAAGGGTTACCATAAATCAG
CTAGATCAAAAAGATGGATCATTGAGCAAAAGGTTACTCGGTAGAAAATCCTATCCACATGAATG
GTAGTCTACTTGGAAGTAGAATGGTCAATGGCTGTTAAGCATTGGATAATATTTTGCCAGACAGA
ATCATCCACATTGACAAACAGCTAGATCAAAAAGATGAATCATTGAACAAAAGGTTACTCGTAGA
AAATCCTATCCACATG
Found at i:38320540 original size:3 final size:3
Alignment explanation
Indices: 38320532--38320610 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
38320522 GGTTATGGAA
38320532 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
38320580 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
38320611 TTTTTTTGGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:38322374 original size:27 final size:27
Alignment explanation
Indices: 38322328--38322407 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
38322318 ATAAGACCAT
*
38322328 TGGCGCCTCTTAGCAT-GGCACCACTAA
1 TGGCGCCTCTCAG-ATAGGCACCACTAA
* * * *
38322355 TGGTGCCTGTCAGATAGGCACCACCAT
1 TGGCGCCTCTCAGATAGGCACCACTAA
* *
38322382 TGGCGCCTCTGAGATAGGCGCCACTA
1 TGGCGCCTCTCAGATAGGCACCACTA
38322408 CTTTGTATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.21
Consensus pattern (27 bp):
TGGCGCCTCTCAGATAGGCACCACTAA
Found at i:38323217 original size:27 final size:27
Alignment explanation
Indices: 38323179--38323230 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
38323169 TTAATTGATT
38323179 TCTAAGTTCTAACTAGCCCATTTTTTG
1 TCTAAGTTCTAACTAGCCCATTTTTTG
*
38323206 TCTAAGTTCTAACTAGCTCATTTTT
1 TCTAAGTTCTAACTAGCCCATTTTT
38323231 GTAATCTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (27 bp):
TCTAAGTTCTAACTAGCCCATTTTTTG
Found at i:38324597 original size:61 final size:59
Alignment explanation
Indices: 38324454--38324610 Score: 185
Period size: 61 Copynumber: 2.6 Consensus size: 59
38324444 ATTTTCTAAT
* * *
38324454 ATTATA-TATTTTTATT-AATTCATATTTCAATAATAATTATATTAAAAATATTATTAAAC
1 ATTATATTATATTTATTAAATT-ATATTT-AATAATAATTATAGTAAAAATATGATTAAAC
* * * *
38324513 ATTATATTATTTTTATTAAATTATACTTAATAATAATTATAGT-AAATTATGATTAAATT
1 ATTATATTATATTTATTAAATTATATTTAATAATAATTATAGTAAAAATATGATTAAA-C
38324572 ATTTATATTTATATTTATTAAATTATATTTAATAATAAT
1 A-TTATA-TTATATTTATTAAATTATATTTAATAATAAT
38324611 CCTATTAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
58 12 0.14
59 21 0.24
60 20 0.23
61 33 0.38
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.52
Consensus pattern (59 bp):
ATTATATTATATTTATTAAATTATATTTAATAATAATTATAGTAAAAATATGATTAAAC
Found at i:38327457 original size:64 final size:64
Alignment explanation
Indices: 38327333--38327457 Score: 205
Period size: 64 Copynumber: 2.0 Consensus size: 64
38327323 CAAAGCCACT
* * *
38327333 TAGTCATAATAGTCATACTCCGCATAGCCCTCTTAAAGTCCATCCGAACCTCCACGAAACCGTA
1 TAGTCATAATAGTCATACCCCGCATAGCCCTCTTAAAGCCCATCCGAACCTCCACAAAACCGTA
* *
38327397 TAGTCATAATAGTCATACCCCGCATAGCCCTCTTAACGCCCATCCGAACCTCCGCAAAACC
1 TAGTCATAATAGTCATACCCCGCATAGCCCTCTTAAAGCCCATCCGAACCTCCACAAAACC
38327458 ACATCATCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (64 bp):
TAGTCATAATAGTCATACCCCGCATAGCCCTCTTAAAGCCCATCCGAACCTCCACAAAACCGTA
Found at i:38331826 original size:21 final size:21
Alignment explanation
Indices: 38331800--38331842 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38331790 AGGAGAAAGC
38331800 TTAGAACACTCTTTTGTGTAA
1 TTAGAACACTCTTTTGTGTAA
38331821 TTAGAACACTCTTTTGTGTAA
1 TTAGAACACTCTTTTGTGTAA
38331842 T
1 T
38331843 ATGGCTACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
TTAGAACACTCTTTTGTGTAA
Found at i:38348667 original size:36 final size:37
Alignment explanation
Indices: 38348611--38348685 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 37
38348601 TTTAATATTG
* * *
38348611 TATATATTTCATAGGTTATTATTTATTAGTTTTAAAT
1 TATAAATTTCATAGGTTATTATATACTAGTTTTAAAT
* *
38348648 TATAAATTTCAT-TGTTATTATATACTATTTTTAAAT
1 TATAAATTTCATAGGTTATTATATACTAGTTTTAAAT
38348684 TA
1 TA
38348686 ACATCCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (37 bp):
TATAAATTTCATAGGTTATTATATACTAGTTTTAAAT
Found at i:38358341 original size:20 final size:20
Alignment explanation
Indices: 38358316--38358354 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38358306 GTATTGAGCT
*
38358316 TTTAATTTCTAGTCGATTTC
1 TTTAATTTCAAGTCGATTTC
*
38358336 TTTAATTTCAAGTTGATTT
1 TTTAATTTCAAGTCGATTT
38358355 TAAAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTAATTTCAAGTCGATTTC
Found at i:38358507 original size:36 final size:36
Alignment explanation
Indices: 38358460--38358529 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
38358450 GTAACAAATG
*
38358460 CACAACGTTGACTGGCAACTGATATATATATATTGA
1 CACAACGTTGACTGACAACTGATATATATATATTGA
* *
38358496 CACAAGGTTGACTGACAAGTGATATATATATATT
1 CACAACGTTGACTGACAACTGATATATATATATT
38358530 TTGACCCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (36 bp):
CACAACGTTGACTGACAACTGATATATATATATTGA
Found at i:38359246 original size:20 final size:20
Alignment explanation
Indices: 38359221--38359277 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
38359211 GGAAAAATTT
38359221 TTACCAAAATATTTAAGGAC
1 TTACCAAAATATTTAAGGAC
*
38359241 TTACCAATAT-TTCTAA-GAC
1 TTACCAAAATATT-TAAGGAC
*
38359260 -TACCAAAATATCTAAGGA
1 TTACCAAAATATTTAAGGA
38359278 TTTAACAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.35
19 8 0.26
20 12 0.39
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (20 bp):
TTACCAAAATATTTAAGGAC
Found at i:38359263 original size:18 final size:20
Alignment explanation
Indices: 38359242--38359294 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
38359232 TTTAAGGACT
38359242 TACCAATATTTCTAA-GA-C
1 TACCAATATTTCTAAGGATC
* * *
38359260 TACCAAAATATCTAAGGATT
1 TACCAATATTTCTAAGGATC
*
38359280 TAACAATATTTCTAA
1 TACCAATATTTCTAA
38359295 AGTTTTATCA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (20 bp):
TACCAATATTTCTAAGGATC
Found at i:38359276 original size:38 final size:38
Alignment explanation
Indices: 38359222--38359294 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
38359212 GAAAAATTTT
* *
38359222 TACCAAAATATTTAAGGACTTACCAATATTTCTAAGAC
1 TACCAAAATATCTAAGGACTTAACAATATTTCTAAGAC
*
38359260 TACCAAAATATCTAAGGATTTAACAATATTTCTAA
1 TACCAAAATATCTAAGGACTTAACAATATTTCTAA
38359295 AGTTTTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (38 bp):
TACCAAAATATCTAAGGACTTAACAATATTTCTAAGAC
Found at i:38359301 original size:20 final size:20
Alignment explanation
Indices: 38359278--38359315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38359268 TATCTAAGGA
*
38359278 TTTAACAATATTTCTAAAGT
1 TTTAACAATATTTATAAAGT
*
38359298 TTTATCAATATTTATAAA
1 TTTAACAATATTTATAAA
38359316 CCCTAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTAACAATATTTATAAAGT
Found at i:38359721 original size:50 final size:50
Alignment explanation
Indices: 38359637--38359735 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
38359627 ACCTTATCCT
* ** * *
38359637 AATCAATGTCAAATAGAATGAGAGAATTTCTATAC-AGATTCTACTTGTAC
1 AATCAATATCAAATAGAAAAAGAGAAGTTATATACGA-ATTCTACTTGTAC
*
38359687 AATCAATATCAAATAGAAAAAGAGTAGTTATATACGAATTCTACTTGTA
1 AATCAATATCAAATAGAAAAAGAGAAGTTATATACGAATTCTACTTGTA
38359736 TTTTATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 41 0.98
51 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAAAGAGAAGTTATATACGAATTCTACTTGTAC
Found at i:38359831 original size:29 final size:29
Alignment explanation
Indices: 38359798--38359855 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
38359788 CCACCTTGAT
* *
38359798 ACGAACTCTCAACAAATAATTTCTTCACC
1 ACGAACTCTCAACAAATAAGTTCTCCACC
*
38359827 ACGAACTCTCAATAAATAAGTTCTCCACC
1 ACGAACTCTCAACAAATAAGTTCTCCACC
38359856 TCTTCTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (29 bp):
ACGAACTCTCAACAAATAAGTTCTCCACC
Found at i:38361373 original size:11 final size:11
Alignment explanation
Indices: 38361357--38361391 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
38361347 TGTTTTGTTC
*
38361357 TTATGGAGCGA
1 TTATGGAGTGA
38361368 TTATGGAGTGA
1 TTATGGAGTGA
38361379 TTATGGAGTGA
1 TTATGGAGTGA
38361390 TT
1 TT
38361392 CCATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (11 bp):
TTATGGAGTGA
Found at i:38364038 original size:30 final size:30
Alignment explanation
Indices: 38364004--38364091 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
38363994 CAGTAGTAGT
* *
38364004 GTGTGGGCCATAGCCCAATATAGTAACAGA
1 GTGTGGGCCTTAGCCCAATACAGTAACAGA
*
38364034 GTGTGGGCCTTAGCCCAATACAGTATCAGA
1 GTGTGGGCCTTAGCCCAATACAGTAACAGA
*
38364064 GTGTGGGCCTTAGCCTAATACAGTAACA
1 GTGTGGGCCTTAGCCCAATACAGTAACA
38364092 ATGCAAATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGA
Found at i:38364240 original size:26 final size:26
Alignment explanation
Indices: 38364210--38364297 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
38364200 CGTAGAAAAA
38364210 CTGCTAGTAATAGTAACGCAACAAAG
1 CTGCTAGTAATAGTAACGCAACAAAG
* * * * * *
38364236 TTGCTAATAAAAGTAATGCAGCAGAG
1 CTGCTAGTAATAGTAACGCAACAAAG
* *
38364262 CTGCCAGT-ATCAGTAACGCAACAAAT
1 CTGCTAGTAAT-AGTAACGCAACAAAG
*
38364288 CTGCCAGTAA
1 CTGCTAGTAA
38364298 CAGTGTTTAT
Statistics
Matches: 46, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
25 1 0.02
26 44 0.96
27 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
CTGCTAGTAATAGTAACGCAACAAAG
Found at i:38364508 original size:27 final size:27
Alignment explanation
Indices: 38364478--38364890 Score: 453
Period size: 27 Copynumber: 15.3 Consensus size: 27
38364468 GTTATAACAG
38364478 TCATTTTACCCTATC-AGGGTATTTCGA
1 TCATTTTACCCT-TCGAGGGTATTTCGA
* * *
38364505 TCATTTTACCCTT-TAGGGGTTTTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGA
* ** *
38364532 TCATTTTCCCCTTCGAGCCTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
38364559 TAATTTTACCCATCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
38364586 TCATTTTACCCTTC-AGGGGTATTTC-A
1 TCATTTTACCCTTCGA-GGGTATTTCGA
* ** * *
38364612 GTCATTTTACCTTTTAAGGGTATTTTGG
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* *
38364640 TCATTTTACCCTTTGAGGGCATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * * *
38364667 TCATTTTACCATTCGGGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
38364694 TCATTTTACCCTTTGGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
38364721 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
38364748 TTATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
38364775 TCATTTTACCCTTCGAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
38364801 GTCATTTTACCCTTCGAGGGTATTTTGG
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* *
38364829 TAATTTTACCTTTCGAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
38364855 GTCATTTTACCCTTCAAGGGTATTTC-A
1 -TCATTTTACCCTTCGAGGGTATTTCGA
38364882 GTCATTTTA
1 -TCATTTTA
38364891 GAGGCCCATT
Statistics
Matches: 328, Mismatches: 48, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.02
27 321 0.98
28 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:38369321 original size:14 final size:13
Alignment explanation
Indices: 38369294--38369326 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
38369284 AATAGAAAAC
38369294 TTTTTATCACTTT
1 TTTTTATCACTTT
38369307 TTTTTATCACTTT
1 TTTTTATCACTTT
38369320 TTCTTTA
1 TT-TTTA
38369327 GCCTCTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTATCACTTT
Found at i:38387771 original size:41 final size:41
Alignment explanation
Indices: 38387714--38387797 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
38387704 TCTATTGATC
38387714 AAAAAAAAGCATCCAGCAGCGCCACGCCAGTAGAAAGAGTT
1 AAAAAAAAGCATCCAGCAGCGCCACGCCAGTAGAAAGAGTT
*
38387755 AAAAAAAAGCATCCAGCAGCGCCATGCCAGTAGAAAGAGTT
1 AAAAAAAAGCATCCAGCAGCGCCACGCCAGTAGAAAGAGTT
38387796 AA
1 AA
38387798 GCTACTAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (41 bp):
AAAAAAAAGCATCCAGCAGCGCCACGCCAGTAGAAAGAGTT
Found at i:38391966 original size:15 final size:15
Alignment explanation
Indices: 38391946--38391999 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
38391936 TGCGAGATTT
38391946 GATTCTCTTGCCAGA
1 GATTCTCTTGCCAGA
* *
38391961 GATTCTTTTGCGAGA
1 GATTCTCTTGCCAGA
*
38391976 TTTGATTCTCTTGCTAGA
1 ---GATTCTCTTGCCAGA
38391994 GATTCT
1 GATTCT
38392000 TCCCTCCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 19 0.59
18 13 0.41
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (15 bp):
GATTCTCTTGCCAGA
Found at i:38391973 original size:33 final size:33
Alignment explanation
Indices: 38391936--38392000 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
38391926 GGAGGTAGCA
38391936 TGCGAGATTTGATTCTCTTGCCAGAGATTCTTT
1 TGCGAGATTTGATTCTCTTGCCAGAGATTCTTT
*
38391969 TGCGAGATTTGATTCTCTTGCTAGAGATTCTT
1 TGCGAGATTTGATTCTCTTGCCAGAGATTCTT
38392001 CCCTCCGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (33 bp):
TGCGAGATTTGATTCTCTTGCCAGAGATTCTTT
Found at i:38391984 original size:18 final size:18
Alignment explanation
Indices: 38391936--38391989 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
38391926 GGAGGTAGCA
38391936 TGCGAGATTTGATTCTCT
1 TGCGAGATTTGATTCTCT
* *
38391954 TGCCAGA---GATTCTTT
1 TGCGAGATTTGATTCTCT
38391969 TGCGAGATTTGATTCTCT
1 TGCGAGATTTGATTCTCT
38391987 TGC
1 TGC
38391990 TAGAGATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 13 0.45
18 16 0.55
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (18 bp):
TGCGAGATTTGATTCTCT
Found at i:38392504 original size:101 final size:101
Alignment explanation
Indices: 38392329--38392529 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
38392319 TTTATTTGCT
*
38392329 CCGGGGTGGTCACGTATATAAGTACAAGGAAGAGATGTCACGTATAGAAAGAAGAATGTGAGGCT
1 CCGGGGTGGTCACGTATATAAGCACAAGGAAGAGATGTCACGTATAGAAAGAAGAATGTGAGGCT
38392394 CTCGAGTGTGACTCTAGCAAAGGAACTCAAACGCTC
66 CTCGAGTGTGACTCTAGCAAAGGAACTCAAACGCTC
38392430 CCGGGGTGGTCACGTATATAAGCACAAGGAAGAGATGTCACGTATAGAAAGAAGAATGTGAGGCT
1 CCGGGGTGGTCACGTATATAAGCACAAGGAAGAGATGTCACGTATAGAAAGAAGAATGTGAGGCT
38392495 CTCGAGTGTGACTCTAGCAAAGGAACTCAAACGCT
66 CTCGAGTGTGACTCTAGCAAAGGAACTCAAACGCT
38392530 ATGCTGTCAC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (101 bp):
CCGGGGTGGTCACGTATATAAGCACAAGGAAGAGATGTCACGTATAGAAAGAAGAATGTGAGGCT
CTCGAGTGTGACTCTAGCAAAGGAACTCAAACGCTC
Found at i:38392895 original size:106 final size:106
Alignment explanation
Indices: 38392710--38392920 Score: 404
Period size: 106 Copynumber: 2.0 Consensus size: 106
38392700 CGAGTGCCTG
38392710 ACTCACATGCGACCTTCAGGTCTCTAAGGAAAGAGGACATACTCCCCGATTCTCGGGGGATACGC
1 ACTCACATGCGACCTTCAGGTCTCTAAGGAAAGAGGACATACTCCCCGATTCTCGGGGGATACGC
38392775 GTTGCGGATTGGTTGCGTCTATGCTTCTAATCGCAAAATTC
66 GTTGCGGATTGGTTGCGTCTATGCTTCTAATCGCAAAATTC
* *
38392816 ACTCACATGTGACCTTCAGGTCTCTAAGGAAAGAGGATATACTCCCCGATTCTCGGGGGATACGC
1 ACTCACATGCGACCTTCAGGTCTCTAAGGAAAGAGGACATACTCCCCGATTCTCGGGGGATACGC
38392881 GTTGCGGATTGGTTGCGTCTATGCTTCTAATCGCAAAATT
66 GTTGCGGATTGGTTGCGTCTATGCTTCTAATCGCAAAATT
38392921 TGGTTAGTAT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (106 bp):
ACTCACATGCGACCTTCAGGTCTCTAAGGAAAGAGGACATACTCCCCGATTCTCGGGGGATACGC
GTTGCGGATTGGTTGCGTCTATGCTTCTAATCGCAAAATTC
Found at i:38395512 original size:310 final size:310
Alignment explanation
Indices: 38394950--38395568 Score: 1211
Period size: 310 Copynumber: 2.0 Consensus size: 310
38394940 TACAGAGAAA
*
38394950 AGGAACGAGGGCAAGCTTTGCTGTACTGGGACTTAGGAAAAAGAGAGAGAAAGTAGCTCCTCTTC
1 AGGAACGAGGGCAAGCTTTGCTGTACTGGGACTTAGGAAAAAGAGAGAGAAAGCAGCTCCTCTTC
38395015 CTCTTTTCATCCATTCATCTCTTATCTTATTCCTTAATTCATTTTCTTCTTTACTAGAAAGTTTT
66 CTCTTTTCATCCATTCATCTCTTATCTTATTCCTTAATTCATTTTCTTCTTTACTAGAAAGTTTT
38395080 TCTCCTTCATAGACTATCTCGCTGTACTGAGAGATGAGCAAACCATAAGGACAGAGCTTAAAAGA
131 TCTCCTTCATAGACTATCTCGCTGTACTGAGAGATGAGCAAACCATAAGGACAGAGCTTAAAAGA
38395145 GCTGCTAGTGGGCTTACCCCGGATACGAACAAAAGGACGACTGGTTCGCCTAGAACAGGAGTGGG
196 GCTGCTAGTGGGCTTACCCCGGATACGAACAAAAGGACGACTGGTTCGCCTAGAACAGGAGTGGG
38395210 TCGCCAAAAGGAGTAGACAAACTAAGTGAAAAGTCTGTTGAAGACCAGAT
261 TCGCCAAAAGGAGTAGACAAACTAAGTGAAAAGTCTGTTGAAGACCAGAT
*
38395260 AGGAACGAGGGCAAGCTTTGCTGTACTGGGACTTAGGAGAAAGAGAGAGAAAGCAGCTCCTCTTC
1 AGGAACGAGGGCAAGCTTTGCTGTACTGGGACTTAGGAAAAAGAGAGAGAAAGCAGCTCCTCTTC
38395325 CTCTTTTCATCCATTCATCTCTTATCTTATTCCTTAATTCATTTTCTTCTTTACTAGAAAGTTTT
66 CTCTTTTCATCCATTCATCTCTTATCTTATTCCTTAATTCATTTTCTTCTTTACTAGAAAGTTTT
38395390 TCTCCTTCATAGACTATCTCGCTGTACTGAGAGATGAGCAAACCATAAGGACAGAGCTTAAAAGA
131 TCTCCTTCATAGACTATCTCGCTGTACTGAGAGATGAGCAAACCATAAGGACAGAGCTTAAAAGA
38395455 GCTGCTAGTGGGCTTACCCCGGATACGAACAAAAGGACGACTGGTTCGCCTAGAACAGGAGTGGG
196 GCTGCTAGTGGGCTTACCCCGGATACGAACAAAAGGACGACTGGTTCGCCTAGAACAGGAGTGGG
*
38395520 TCGCCAAAAGGAGTAGACAAACTAAGTGAAAAGTTTGTTGAAGACCAGA
261 TCGCCAAAAGGAGTAGACAAACTAAGTGAAAAGTCTGTTGAAGACCAGA
38395569 GGCCCTAACG
Statistics
Matches: 306, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
310 306 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (310 bp):
AGGAACGAGGGCAAGCTTTGCTGTACTGGGACTTAGGAAAAAGAGAGAGAAAGCAGCTCCTCTTC
CTCTTTTCATCCATTCATCTCTTATCTTATTCCTTAATTCATTTTCTTCTTTACTAGAAAGTTTT
TCTCCTTCATAGACTATCTCGCTGTACTGAGAGATGAGCAAACCATAAGGACAGAGCTTAAAAGA
GCTGCTAGTGGGCTTACCCCGGATACGAACAAAAGGACGACTGGTTCGCCTAGAACAGGAGTGGG
TCGCCAAAAGGAGTAGACAAACTAAGTGAAAAGTCTGTTGAAGACCAGAT
Found at i:38396395 original size:71 final size:71
Alignment explanation
Indices: 38396279--38396419 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
38396269 CTAGCAGTAG
*
38396279 GAGGATTCTCTATTACCGCTTTCATGTGACCACGAATGACTCTTGTTCTCAGACCGGGAATCCTA
1 GAGGATTCTCTATTACCACTTTCATGTGACCACGAATGACTCTTGTTCTCAGACCGGGAATCCTA
38396344 TCTTCA
66 TCTTCA
38396350 GAGGATTCTCTATTACCACTTTCATGTGACCACGAATGACTCTTGTTCTCAGACCGGGAATCCTA
1 GAGGATTCTCTATTACCACTTTCATGTGACCACGAATGACTCTTGTTCTCAGACCGGGAATCCTA
38396415 TCTTC
66 TCTTC
38396420 CTATATGGCG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (71 bp):
GAGGATTCTCTATTACCACTTTCATGTGACCACGAATGACTCTTGTTCTCAGACCGGGAATCCTA
TCTTCA
Found at i:38396631 original size:31 final size:31
Alignment explanation
Indices: 38396593--38396651 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
38396583 GCTCCTATTG
*
38396593 TGAAGAGCTTTTTCAACCTCCCCGAGGGGAT
1 TGAAGAGCTTTTTCAACCTCCCCAAGGGGAT
38396624 TGAAGAGCTTTTTCAACCTCCCCAAGGG
1 TGAAGAGCTTTTTCAACCTCCCCAAGGG
38396652 AAACCGAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (31 bp):
TGAAGAGCTTTTTCAACCTCCCCAAGGGGAT
Found at i:38400989 original size:17 final size:15
Alignment explanation
Indices: 38400966--38401017 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
38400956 GTCGTCCTCC
38400966 TTATTATTATATATTA
1 TTATTATTATATA-TA
*
38400982 TATATTATTATAGATA
1 T-TATTATTATATATA
38400998 TTATTATTATATTATA
1 TTATTATTATA-TATA
38401014 TTAT
1 TTAT
38401018 AGTACTCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 10 0.31
16 11 0.34
17 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTATTATTATATATA
Found at i:38401002 original size:15 final size:16
Alignment explanation
Indices: 38400966--38401008 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
38400956 GTCGTCCTCC
*
38400966 TTATTATTATATATTA
1 TTATTATTATAGATTA
38400982 TATATTATTATAGA-TA
1 T-TATTATTATAGATTA
38400998 TTATTATTATA
1 TTATTATTATA
38401009 TTATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
17 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTATTATTATAGATTA
Found at i:38401007 original size:25 final size:26
Alignment explanation
Indices: 38400970--38401019 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
38400960 TCCTCCTTAT
38400970 TATTATATATTATA-TATTATTATAGA
1 TATTATATATTATATTA-TATTATAGA
38400996 TATTAT-TATTATATTATATTATAG
1 TATTATATATTATATTATATTATAG
38401020 TACTCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TATTATATATTATATTATATTATAGA
Found at i:38411909 original size:125 final size:126
Alignment explanation
Indices: 38411687--38411935 Score: 455
Period size: 125 Copynumber: 2.0 Consensus size: 126
38411677 ACCGATCTCA
38411687 TCCACCTGAAAATTCGTGTAAAAGTTGGTAATTCGACTTTCTAATAGAGTCGTTAGTTCCGCAGC
1 TCCACCTGAAAATTCGTGTAAAAGTTGGTAATTCGACTTTCTAATAGAGTCGTTAGTTCCGCAGC
*
38411752 TCTGGGAGAGAATTCCATAAATAATTCCA-TTTTCGAATTTAGAGTCAAGGAGGAATGCCG
66 TCTGGGAGAGAATTCCATAAATAATTCCATTTTTCGAATTTAGAGTCAAGGAAGAATGCCG
*
38411812 TCCACTTGAAAATTCGTGTAAAAGTTGGTAATTCGACTTTCTAATAGAGTCGTTAGTTCCGCAGC
1 TCCACCTGAAAATTCGTGTAAAAGTTGGTAATTCGACTTTCTAATAGAGTCGTTAGTTCCGCAGC
**
38411877 TCTGGGAGAGAATTCCATAAATAATTCCATTTTTTTAATTTAGAGTCAAGGAAGAATGC
66 TCTGGGAGAGAATTCCATAAATAATTCCATTTTTCGAATTTAGAGTCAAGGAAGAATGC
38411936 TGGTGACAAA
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
125 93 0.78
126 26 0.22
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (126 bp):
TCCACCTGAAAATTCGTGTAAAAGTTGGTAATTCGACTTTCTAATAGAGTCGTTAGTTCCGCAGC
TCTGGGAGAGAATTCCATAAATAATTCCATTTTTCGAATTTAGAGTCAAGGAAGAATGCCG
Found at i:38416796 original size:159 final size:159
Alignment explanation
Indices: 38416507--38416819 Score: 581
Period size: 159 Copynumber: 2.0 Consensus size: 159
38416497 CAAGACCGAA
* *
38416507 AGAAGGACGCTGTCATTGAATCTATTACATCGCACTATTCTTTAAATTTTTACATAGAAAAAAGG
1 AGAAGGACGCTGTCATTGAATCTATTACATCGCACTATTCTGTAAATTGTTACATAGAAAAAAGG
38416572 TACTCAACCAGAGAGAAAGGTAGAACCAAAGGAAGGCTTCTTTGATTCAATTGAACGGTGCGAAC
66 TACTCAACCAGAGAGAAAGGTAGAACCAAAGGAAGGCTTCTTTGATTCAATTGAACGGTGCGAAC
*
38416637 GCGTTATCTAATCAGTTCCCATGGTCGAT
131 GCATTATCTAATCAGTTCCCATGGTCGAT
* *
38416666 AGAAGGACGCTGTCATTGAATCTATTACATCGCACTATTCTGTAAATTGTTACATTGGAAAAAGG
1 AGAAGGACGCTGTCATTGAATCTATTACATCGCACTATTCTGTAAATTGTTACATAGAAAAAAGG
38416731 TACTCAACCAGAGAGAAAGGTAGAACCAAAGGAAGGCTTCTTTGATTCAATTGAACGGTGCGAAC
66 TACTCAACCAGAGAGAAAGGTAGAACCAAAGGAAGGCTTCTTTGATTCAATTGAACGGTGCGAAC
38416796 GCATTATCTAATCAGTTCCCATGG
131 GCATTATCTAATCAGTTCCCATGG
38416820 GAGAGCCAGT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 149 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (159 bp):
AGAAGGACGCTGTCATTGAATCTATTACATCGCACTATTCTGTAAATTGTTACATAGAAAAAAGG
TACTCAACCAGAGAGAAAGGTAGAACCAAAGGAAGGCTTCTTTGATTCAATTGAACGGTGCGAAC
GCATTATCTAATCAGTTCCCATGGTCGAT
Found at i:38418526 original size:58 final size:58
Alignment explanation
Indices: 38418436--38418551 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
38418426 TTTGAAGGGC
38418436 AAATCCCACAGACGGAAGAGAAAAACCAGTCTTAGCAATAACCGTTGTTAGAGTTATA
1 AAATCCCACAGACGGAAGAGAAAAACCAGTCTTAGCAATAACCGTTGTTAGAGTTATA
*
38418494 AAATCCCATAGACGGAAGAGAAAAACCAGTCTTAGCAATAACCGTTGTTAGAGTTATA
1 AAATCCCACAGACGGAAGAGAAAAACCAGTCTTAGCAATAACCGTTGTTAGAGTTATA
38418552 TCATCAACCC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (58 bp):
AAATCCCACAGACGGAAGAGAAAAACCAGTCTTAGCAATAACCGTTGTTAGAGTTATA
Found at i:38432802 original size:27 final size:27
Alignment explanation
Indices: 38432771--38432948 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38432761 TAAATTGTAC
38432771 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38432798 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38432824 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38432852 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38432880 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38432907 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38432934 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38432949 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38432885 original size:82 final size:81
Alignment explanation
Indices: 38432772--38432927 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38432762 AAATTGTACA
* *
38432772 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38432836 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38432853 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38432918 TGCGAGTTGA
65 TGCGAATTGA
38432928 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38432939 original size:82 final size:81
Alignment explanation
Indices: 38432768--38432948 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38432758 GATTAAATTG
* *
38432768 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38432833 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38432849 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38432913 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38432931 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38432949 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38441043 original size:37 final size:37
Alignment explanation
Indices: 38440993--38441065 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
38440983 TCTATAAACC
* *
38440993 GTCCCTAACGAACGATCGGCTCATGTTTGAGCATGAA
1 GTCCCTAACGAACGATCGACTCATATTTGAGCATGAA
38441030 GTCCCTAACGAACGATCGACTCATATTTGAGCATGA
1 GTCCCTAACGAACGATCGACTCATATTTGAGCATGA
38441066 TGAATCACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (37 bp):
GTCCCTAACGAACGATCGACTCATATTTGAGCATGAA
Found at i:38445887 original size:78 final size:78
Alignment explanation
Indices: 38445758--38445911 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 78
38445748 TGGCCCAAGT
* * *
38445758 GAAGATCGGCACTTGAAGGCTTGAGGAGCAGCCCGCCAAAGGGAAAGTCGTGGAGACGGTAGACC
1 GAAGATCGGCACTCGAAGGCTTGAAGAGCAGCCCGCCAAAGGGAAAGTCGTGGAGACGGCAGACC
*
38445823 GGGAGGTTACAGC
66 GAGAGGTTACAGC
38445836 GAAGATCGGCACTCGAAGGCTTGAAGAGCAGCCCGCCAAAGGGAAAGTCGTGGAGACGGCAGACC
1 GAAGATCGGCACTCGAAGGCTTGAAGAGCAGCCCGCCAAAGGGAAAGTCGTGGAGACGGCAGACC
38445901 GAGAGGTTACA
66 GAGAGGTTACA
38445912 ATTTGAGTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.30, C:0.21, G:0.37, T:0.12
Consensus pattern (78 bp):
GAAGATCGGCACTCGAAGGCTTGAAGAGCAGCCCGCCAAAGGGAAAGTCGTGGAGACGGCAGACC
GAGAGGTTACAGC
Found at i:38454709 original size:25 final size:25
Alignment explanation
Indices: 38454675--38454725 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
38454665 TCTTAGTATC
38454675 TGCATACCCAAAAGGTGGCGCTGAT
1 TGCATACCCAAAAGGTGGCGCTGAT
*
38454700 TGCATACCCAAAAGGTGGTGCTGAT
1 TGCATACCCAAAAGGTGGCGCTGAT
38454725 T
1 T
38454726 TCAAAACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (25 bp):
TGCATACCCAAAAGGTGGCGCTGAT
Found at i:38455710 original size:37 final size:37
Alignment explanation
Indices: 38455660--38455733 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
38455650 ATAGATAGTA
*
38455660 AAATTCTGAGTTTAAACGATCTTAGGGGTCAGAAGAG
1 AAATTCTGAGTTTAAACGATCTTAAGGGTCAGAAGAG
38455697 AAATTCTGAGTTTAAACGATCTTAAGGGTCAGAAGAG
1 AAATTCTGAGTTTAAACGATCTTAAGGGTCAGAAGAG
38455734 TAGGCCTGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (37 bp):
AAATTCTGAGTTTAAACGATCTTAAGGGTCAGAAGAG
Found at i:38459292 original size:311 final size:311
Alignment explanation
Indices: 38458729--38459350 Score: 1181
Period size: 311 Copynumber: 2.0 Consensus size: 311
38458719 AGACAGAGTA
*
38458729 AAATCAATCGACAACAAAAGGAGTCACTCGTGGCACACTGACTATATTCCAACTTCTCTGCATCA
1 AAATCAATCAACAACAAAAGGAGTCACTCGTGGCACACTGACTATATTCCAACTTCTCTGCATCA
*
38458794 ATGCACTCACTACCTTTCTAGCCAAGGAAAGCAAGTCAAGCAGTCTTTTCAAGAAGAAAGTCACA
66 ATGCACTCACTACCTTTCTAGCCAAGGAAAGCAAGTCAAGCAATCTTTTCAAGAAGAAAGTCACA
*
38458859 CCGCTACTACTATTCTAACAGCTACCTATTCTCATCCGAGGAGAACGGAACCACCTTTAGAGTAG
131 CCGCTACTACTATTCTAACAGCTACCTATTCTCATCCCAGGAGAACGGAACCACCTTTAGAGTAG
* *
38458924 AGCTAACTGCTGCAGTTACGCCTCCAACAGATGAAATCGTACCCTCGTCTTACCGAGAACCTGAA
196 AGCTAACTACTACAGTTACGCCTCCAACAGATGAAATCGTACCCTCGTCTTACCGAGAACCTGAA
38458989 TGGGATTCGTGAACAGGAAAAGAAAAGACCTCTACTGCAATCCCACTCCAC
261 TGGGATTCGTGAACAGGAAAAGAAAAGACCTCTACTGCAATCCCACTCCAC
38459040 AAATCAATCAACAACAAAAGGAGTCACTCGTGGCACACTGACTATATTCCAACTTCTCTGCATCA
1 AAATCAATCAACAACAAAAGGAGTCACTCGTGGCACACTGACTATATTCCAACTTCTCTGCATCA
38459105 ATGCACTCACTACCTTTCTAGCCAAGGAAAGCAAGTCAAGCAATCTTTTCAAGAAGAAAGTCACA
66 ATGCACTCACTACCTTTCTAGCCAAGGAAAGCAAGTCAAGCAATCTTTTCAAGAAGAAAGTCACA
* *
38459170 CCGCTACTACTATTCTAACAGCTACCTATTTTCATCCCAGGAGAATGGAACCACCTTTAGAGTAG
131 CCGCTACTACTATTCTAACAGCTACCTATTCTCATCCCAGGAGAACGGAACCACCTTTAGAGTAG
38459235 AGCTAACTACTACAGTTACGCCTCCAACAGATGAAATCGTACCCTCGTCTTACCGAGAACCTGAA
196 AGCTAACTACTACAGTTACGCCTCCAACAGATGAAATCGTACCCTCGTCTTACCGAGAACCTGAA
38459300 TGGGATTCGTGAACAGGAAAAGAAAAGACCTCTACTGCAATCCCACTCCAC
261 TGGGATTCGTGAACAGGAAAAGAAAAGACCTCTACTGCAATCCCACTCCAC
38459351 TGGCTATTCT
Statistics
Matches: 304, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
311 304 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (311 bp):
AAATCAATCAACAACAAAAGGAGTCACTCGTGGCACACTGACTATATTCCAACTTCTCTGCATCA
ATGCACTCACTACCTTTCTAGCCAAGGAAAGCAAGTCAAGCAATCTTTTCAAGAAGAAAGTCACA
CCGCTACTACTATTCTAACAGCTACCTATTCTCATCCCAGGAGAACGGAACCACCTTTAGAGTAG
AGCTAACTACTACAGTTACGCCTCCAACAGATGAAATCGTACCCTCGTCTTACCGAGAACCTGAA
TGGGATTCGTGAACAGGAAAAGAAAAGACCTCTACTGCAATCCCACTCCAC
Found at i:38462339 original size:55 final size:55
Alignment explanation
Indices: 38462255--38462364 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
38462245 GCCTTCGCCG
*
38462255 AAGACGAAGGAAAGAAAGTAAAGGAAAGGAAAGGCAAGTACTTCAATTAATTGCT
1 AAGACAAAGGAAAGAAAGTAAAGGAAAGGAAAGGCAAGTACTTCAATTAATTGCT
38462310 AAGACAAAGGAAAGAAAGTAAAGGAAAGGAAAGGCAAGTACTTCAATTAATTGCT
1 AAGACAAAGGAAAGAAAGTAAAGGAAAGGAAAGGCAAGTACTTCAATTAATTGCT
38462365 CAAAGACGTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.50, C:0.09, G:0.25, T:0.16
Consensus pattern (55 bp):
AAGACAAAGGAAAGAAAGTAAAGGAAAGGAAAGGCAAGTACTTCAATTAATTGCT
Found at i:38463834 original size:130 final size:130
Alignment explanation
Indices: 38463601--38463862 Score: 506
Period size: 130 Copynumber: 2.0 Consensus size: 130
38463591 GAAAAAAAAA
*
38463601 AGTCAGGATAGGATTAACCCCGGTCCATCAGATAGAATCAGATCTCGAACAACTGAAAGGCCAAA
1 AGTCAGGATAGGATTAACCCCAGTCCATCAGATAGAATCAGATCTCGAACAACTGAAAGGCCAAA
38463666 TGATCTTCTCCATAAAGAATGGGATACTATGGAACATGACTGTATCAAGTATGTTCGATCCTGCC
66 TGATCTTCTCCATAAAGAATGGGATACTATGGAACATGACTGTATCAAGTATGTTCGATCCTGCC
*
38463731 AGTCAGGATATGATTAACCCCAGTCCATCAGATAGAATCAGATCTCGAACAACTGAAAGGCCAAA
1 AGTCAGGATAGGATTAACCCCAGTCCATCAGATAGAATCAGATCTCGAACAACTGAAAGGCCAAA
38463796 TGATCTTCTCCATAAAGAATGGGATACTATGGAACATGACTGTATCAAGTATGTTCGATCCTGCC
66 TGATCTTCTCCATAAAGAATGGGATACTATGGAACATGACTGTATCAAGTATGTTCGATCCTGCC
38463861 AG
1 AG
38463863 CAGTGTCAGA
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (130 bp):
AGTCAGGATAGGATTAACCCCAGTCCATCAGATAGAATCAGATCTCGAACAACTGAAAGGCCAAA
TGATCTTCTCCATAAAGAATGGGATACTATGGAACATGACTGTATCAAGTATGTTCGATCCTGCC
Found at i:38466681 original size:14 final size:14
Alignment explanation
Indices: 38466662--38466689 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38466652 TATATTAGTA
38466662 TTTTCTATTCTATT
1 TTTTCTATTCTATT
38466676 TTTTCTATTCTATT
1 TTTTCTATTCTATT
38466690 AGTATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:38466700 original size:11 final size:11
Alignment explanation
Indices: 38466681--38466736 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
38466671 CTATTTTTTC
*
38466681 TATTCTATTAG
1 TATTATATTAG
38466692 TATTATATTAG
1 TATTATATTAG
*
38466703 TATTCTATTA-
1 TATTATATTAG
38466713 TATTAGTATTAG
1 TATTA-TATTAG
38466725 -ATTAGTATTAG
1 TATTA-TATTAG
38466736 T
1 T
38466737 TAGGTTAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.10
11 35 0.90
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (11 bp):
TATTATATTAG
Found at i:38466706 original size:6 final size:6
Alignment explanation
Indices: 38466686--38466756 Score: 71
Period size: 6 Copynumber: 12.2 Consensus size: 6
38466676 TTTTCTATTC
*
38466686 TATTAG TATTA- TATTAG TATT-C TATTA- TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
38466730 TATTAG TTAGGTTAG -ATTAG TATTAG T
1 TATTAG -TA--TTAG TATTAG TATTAG T
38466757 TAGTGATCCT
Statistics
Matches: 56, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
5 23 0.41
6 26 0.46
7 3 0.05
9 4 0.07
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:38466708 original size:27 final size:27
Alignment explanation
Indices: 38466678--38466733 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
38466668 ATTCTATTTT
* *
38466678 TTCTATTCTATTAGTATTATATTAGTA
1 TTCTATTATATTAGTATTAGATTAGTA
38466705 TTCTATTATATTAGTATTAGATTAGTA
1 TTCTATTATATTAGTATTAGATTAGTA
38466732 TT
1 TT
38466734 AGTTAGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.55
Consensus pattern (27 bp):
TTCTATTATATTAGTATTAGATTAGTA
Found at i:38466709 original size:22 final size:22
Alignment explanation
Indices: 38466681--38466724 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
38466671 CTATTTTTTC
38466681 TATTCTATTAGTATTA-TATTAG
1 TATTCTATTA-TATTAGTATTAG
38466703 TATTCTATTATATTAGTATTAG
1 TATTCTATTATATTAGTATTAG
38466725 ATTAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (22 bp):
TATTCTATTATATTAGTATTAG
Found at i:38466711 original size:16 final size:16
Alignment explanation
Indices: 38466686--38466736 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
38466676 TTTTCTATTC
38466686 TATTAGTATTATATTAG
1 TATTA-TATTATATTAG
*
38466703 TATTCTATTATATTAG
1 TATTATATTATATTAG
*
38466719 TATTAGATTAGTATTAG
1 TATTATATTA-TATTAG
38466736 T
1 T
38466737 TAGGTTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (16 bp):
TATTATATTATATTAG
Found at i:38466746 original size:20 final size:20
Alignment explanation
Indices: 38466721--38466759 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
38466711 TATATTAGTA
38466721 TTAGATTAGTATTAGTTAGG
1 TTAGATTAGTATTAGTTAGG
38466741 TTAGATTAGTATTAGTTAG
1 TTAGATTAGTATTAGTTAG
38466760 TGATCCTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
TTAGATTAGTATTAGTTAGG
Found at i:38476284 original size:32 final size:32
Alignment explanation
Indices: 38476243--38476304 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
38476233 CATCTATTTT
38476243 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
38476275 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
38476305 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:38476890 original size:135 final size:135
Alignment explanation
Indices: 38476648--38476917 Score: 495
Period size: 135 Copynumber: 2.0 Consensus size: 135
38476638 AAAATGAAAA
* *
38476648 GGTCGTCTTATTCAAAACCCCAATTATGAAATCCCCTCTCTCCCACTTCACACCTCGGAACGCAC
1 GGTCGTCTTATTCAAAACCCAAATTATGAAATCCCCTCTCTCCCACTTCACACCTCGGAACACAC
38476713 CGTTCTTATAGAGAGAAAGGCACTTTCACATCTTCTTAACCCGAAATGGCTGGGGAGAGGAAAGG
66 CGTTCTTATAGAGAGAAAGGCACTTTCACATCTTCTTAACCCGAAATGGCTGGGGAGAGGAAAGG
38476778 TTCCT
131 TTCCT
* *
38476783 GGTCGTTTTATTCAAAACCCAAATTATGAAATCCCCTCTCTCCCACTTCACACCTCGGAACACAT
1 GGTCGTCTTATTCAAAACCCAAATTATGAAATCCCCTCTCTCCCACTTCACACCTCGGAACACAC
*
38476848 TGTTCTTATAGAGAGAAAGGCACTTTCACATCTTCTTAACCCGAAATGGCTGGGGAGAGGAAAGG
66 CGTTCTTATAGAGAGAAAGGCACTTTCACATCTTCTTAACCCGAAATGGCTGGGGAGAGGAAAGG
38476913 TTCCT
131 TTCCT
38476918 TTTTTTTAGG
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (135 bp):
GGTCGTCTTATTCAAAACCCAAATTATGAAATCCCCTCTCTCCCACTTCACACCTCGGAACACAC
CGTTCTTATAGAGAGAAAGGCACTTTCACATCTTCTTAACCCGAAATGGCTGGGGAGAGGAAAGG
TTCCT
Found at i:38479653 original size:15 final size:15
Alignment explanation
Indices: 38479633--38479664 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38479623 AGTTATGTCT
38479633 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
38479648 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
38479663 AT
1 AT
38479665 TTCAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:38485995 original size:22 final size:22
Alignment explanation
Indices: 38485969--38486012 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38485959 TTATCTCTTT
38485969 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
38485991 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
38486013 AAATCGAGAG
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:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:38488305 original size:32 final size:31
Alignment explanation
Indices: 38488243--38488317 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
38488233 TAAATTTAAT
* *
38488243 TTTATTATTATTCGAATTAATATTCGATAAAA
1 TTTATTATTATTCGAATTAATAATCAAT-AAA
38488275 TTTATTATTATTCGAATTATATAAT-AATAAA
1 TTTATTATTATTCGAATTA-ATAATCAATAAA
*
38488306 TTT-TTACTATTC
1 TTTATTATTATTC
38488318 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 8 0.21
31 6 0.15
32 21 0.54
33 4 0.10
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (31 bp):
TTTATTATTATTCGAATTAATAATCAATAAA
Found at i:38488421 original size:21 final size:21
Alignment explanation
Indices: 38488397--38488438 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38488387 AGTAAATTAC
38488397 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
38488418 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
38488439 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:38489388 original size:154 final size:154
Alignment explanation
Indices: 38489191--38489499 Score: 582
Period size: 154 Copynumber: 2.0 Consensus size: 154
38489181 TATATTTTTG
*
38489191 AAAATGAACGTTTAAATGTCCTTCAAAAGTAAGTAAATAGATCCGAAACATATAAAATGCTGTTA
1 AAAATGAACATTTAAATGTCCTTCAAAAGTAAGTAAATAGATCCGAAACATATAAAATGCTGTTA
38489256 ATCCGGCAGTGGACCAAGCTATTATTGCAAAAATCGGTGAATACAACCAACTGTCACTAAGAATT
66 ATCCGGCAGTGGACCAAGCTATTATTGCAAAAATCGGTGAATACAACCAACTGTCACTAAGAATT
38489321 TCATCTTTGGACCAAAAACAAGCA
131 TCATCTTTGGACCAAAAACAAGCA
*
38489345 AAAATGAACATTTAAATGTCCTTCAAAAGTAAGTAAATAGATCCGAAACATATAAAATGTTGTTA
1 AAAATGAACATTTAAATGTCCTTCAAAAGTAAGTAAATAGATCCGAAACATATAAAATGCTGTTA
**
38489410 ATCCGGTGGTGGACCAAGCTATTATTGCAAAAATCGGTGAATACAACCAACTGTCACTAAGAATT
66 ATCCGGCAGTGGACCAAGCTATTATTGCAAAAATCGGTGAATACAACCAACTGTCACTAAGAATT
38489475 TCATCTTTGGACCAAAAACAAGCA
131 TCATCTTTGGACCAAAAACAAGCA
38489499 A
1 A
38489500 GGGGTGGAAT
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (154 bp):
AAAATGAACATTTAAATGTCCTTCAAAAGTAAGTAAATAGATCCGAAACATATAAAATGCTGTTA
ATCCGGCAGTGGACCAAGCTATTATTGCAAAAATCGGTGAATACAACCAACTGTCACTAAGAATT
TCATCTTTGGACCAAAAACAAGCA
Found at i:38490258 original size:16 final size:16
Alignment explanation
Indices: 38490237--38490288 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
38490227 TTTCTAGTAT
*
38490237 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
38490253 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
*
38490269 TTTATTTACTGGCGTA
1 TTTATTTACTAGCGTA
38490285 TTTA
1 TTTA
38490289 CTCTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:38492881 original size:21 final size:18
Alignment explanation
Indices: 38492862--38493013 Score: 65
Period size: 17 Copynumber: 8.4 Consensus size: 18
38492852 CAAAAAATAG
38492862 AAATAAATATATATATAATA
1 AAATAAATATATA-AT-ATA
38492882 ATAATAAATA-ATAATATA
1 A-AATAAATATATAATATA
38492900 TAAATATAATATATAAATATAA
1 -AAATA-AATATAT-AATAT-A
*
38492922 AAATAACTA-A-AATAGTTA
1 AAATAAATATATAATA--TA
*
38492940 GAAT--ATATATAGA-ATA
1 AAATAAATATATA-ATATA
*
38492956 AAAT--AGATATAATATA
1 AAATAAATATATAATATA
*
38492972 TAAATAAAT-T-GAATATA
1 -AAATAAATATATAATATA
*
38492989 ATATTAAATATATAA-ATA
1 A-AATAAATATATAATATA
*
38493007 AATTAAA
1 AAATAAA
38493014 CCAAAAGAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 39
0.69 0.06 0.25
Matches are distributed among these distances:
15 1 0.01
16 17 0.16
17 27 0.26
18 19 0.18
19 13 0.12
20 9 0.09
21 18 0.17
22 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATAAATATATAATATA
Found at i:38492890 original size:25 final size:24
Alignment explanation
Indices: 38492862--38492978 Score: 94
Period size: 25 Copynumber: 4.8 Consensus size: 24
38492852 CAAAAAATAG
38492862 AAATAAATATATATATAATAATAAT
1 AAATAAATATATATATAATAA-AAT
*
38492887 AAAT-AATA-ATATATAAATATAAT
1 AAATAAATATATATAT-AATAAAAT
* * *
38492910 ATATAAATATAAAAATAACTAAAAT
1 AAATAAATATATATATAA-TAAAAT
** *
38492935 AGTTAGAATATATATAGAATAAAAT
1 AAATA-AATATATATATAATAAAAT
* *
38492960 AGATATAATATATAAATAA
1 AAATA-AATATATATATAA
38492979 ATTGAATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
23 12 0.16
24 14 0.19
25 37 0.51
26 10 0.14
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATAAATATATATATAATAAAAT
Found at i:38492894 original size:13 final size:13
Alignment explanation
Indices: 38492862--38493009 Score: 83
Period size: 13 Copynumber: 12.3 Consensus size: 13
38492852 CAAAAAATAG
38492862 AAATA-AATATAT
1 AAATATAATATAT
*
38492874 ATATAATAATA-AT
1 AAAT-ATAATATAT
38492887 AAATAATAATATAT
1 AAAT-ATAATATAT
38492901 AAATATAATATAT
1 AAATATAATATAT
*
38492914 AAATATAA-AAAT
1 AAATATAATATAT
* *
38492926 AACTAAAATAGT-T
1 AAATATAATA-TAT
*
38492939 AGA-AT-ATATAT
1 AAATATAATATAT
*
38492950 AGA-ATAA-A-AT
1 AAATATAATATAT
*
38492960 AGATATAATATAT
1 AAATATAATATAT
38492973 -AA-ATAA-AT-T
1 AAATATAATATAT
*
38492982 GAATATAATAT-T
1 AAATATAATATAT
*
38492994 AAATAT-ATAAAT
1 AAATATAATATAT
38493006 AAAT
1 AAAT
38493010 TAAACCAAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
9 1 0.01
10 10 0.09
11 25 0.23
12 29 0.26
13 35 0.32
14 10 0.09
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (13 bp):
AAATATAATATAT
Found at i:38492902 original size:23 final size:22
Alignment explanation
Indices: 38492863--38493007 Score: 72
Period size: 23 Copynumber: 6.4 Consensus size: 22
38492853 AAAAAATAGA
38492863 AATAAAT-ATATATAT-AATAAT
1 AATAAATAATATATATAAAT-AT
38492884 AATAAATAATAATATATAAATAT
1 AATAAATAAT-ATATATAAATAT
*
38492907 AATATATAA-ATATA-AAA-AT
1 AATAAATAATATATATAAATAT
* * * *
38492926 AACTAAAATAGTTAGAATATATATAG
1 AA-T-AAATA-ATA-TATATAAATAT
*
38492952 AAT-AA-AATAGATATAATATAT
1 AATAAATAATATATATAA-ATAT
38492973 AAATAAATTGAATATAATATTAAATAT
1 -AATAAA-T-AATAT-ATA-TAAATAT
38493000 -ATAAATAA
1 AATAAATAA
38493008 ATTAAACCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
19 4 0.04
20 9 0.09
21 21 0.22
22 6 0.06
23 23 0.24
24 7 0.07
25 8 0.08
26 7 0.07
27 7 0.07
28 3 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (22 bp):
AATAAATAATATATATAAATAT
Found at i:38492916 original size:27 final size:27
Alignment explanation
Indices: 38492867--38493007 Score: 79
Period size: 25 Copynumber: 5.5 Consensus size: 27
38492857 AATAGAAATA
*
38492867 AATATATATATAATAATAATAAATAAT
1 AATATATAAATAATAATAATAAATAAT
38492894 AATATATAAAT-ATAAT-AT--AT-A-
1 AATATATAAATAATAATAATAAATAAT
* * * *
38492915 AATATAAAAATAACTAA-AAT-AGTTAG
1 AATATATAAATAA-TAATAATAAATAAT
* * *
38492941 AATATATATAGAATAA-AATAGAT-AT
1 AATATATAAATAATAATAATAAATAAT
* *
38492966 AATATATAAATAA-ATTGAATATAATATT
1 AATATATAAATAATAAT-AATA-AATAAT
38492994 AAATATATAAATAA
1 -AATATATAAATAA
38493008 ATTAAACCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.11
22 2 0.02
23 7 0.08
24 2 0.02
25 21 0.24
26 20 0.23
27 12 0.14
28 1 0.01
29 13 0.15
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (27 bp):
AATATATAAATAATAATAATAAATAAT
Found at i:38492926 original size:29 final size:30
Alignment explanation
Indices: 38492868--38492974 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 30
38492858 ATAGAAATAA
* * *
38492868 ATATATATATAATA-ATAATAAATAATAAT
1 ATATAAATATAATATATAATATATAAAAAT
38492897 ATATAAATATAATATATAA-ATATAAAAAT
1 ATATAAATATAATATATAATATATAAAAAT
* * *
38492926 A-ACTAAA-ATAGT-TAGAATATATATAGAAT
1 ATA-TAAATATAATATATAATATATA-AAAAT
* *
38492955 AAAATAGATATAATATATAA
1 -ATATAAATATAATATATAA
38492975 ATAAATTGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
27 4 0.07
28 10 0.16
29 30 0.49
30 8 0.13
31 5 0.08
32 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
ATATAAATATAATATATAATATATAAAAAT
Found at i:38493011 original size:17 final size:17
Alignment explanation
Indices: 38492966--38493013 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
38492956 AAATAGATAT
38492966 AATATATAAATAAATT-
1 AATATATAAATAAATTA
*
38492982 GA-ATAT-AAT--ATTA
1 AATATATAAATAAATTA
38492995 AATATATAAATAAATTA
1 AATATATAAATAAATTA
38493012 AA
1 AA
38493014 CCAAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.12
13 1 0.04
14 7 0.28
15 7 0.28
16 1 0.04
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:38493407 original size:13 final size:13
Alignment explanation
Indices: 38493389--38493416 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38493379 GTTATTCATA
38493389 ATTAATATGAATT
1 ATTAATATGAATT
38493402 ATTAATATGAATT
1 ATTAATATGAATT
38493415 AT
1 AT
38493417 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:38493504 original size:13 final size:13
Alignment explanation
Indices: 38493486--38493513 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38493476 GTTATTCATA
38493486 ATTAATATGAATT
1 ATTAATATGAATT
38493499 ATTAATATGAATT
1 ATTAATATGAATT
38493512 AT
1 AT
38493514 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:38493521 original size:97 final size:97
Alignment explanation
Indices: 38493355--38493548 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
38493345 AAACTATTAG
38493355 ATCTTATCTATTAACTATCTATTAGTTATTCATAATTAATATGAATTATTAATATGAATTATAGA
1 ATCTTATCTATTAACTATCTATTAGTTATTCATAATTAATATGAATTATTAATATGAATTATAGA
38493420 CTCGAATTTAGAAAAACTAGAATTTTTTCTAA
66 CTCGAATTTAGAAAAACTAGAATTTTTTCTAA
*
38493452 ATCTTATTTATTAACTATCTATTAGTTATTCATAATTAATATGAATTATTAATATGAATTATAGA
1 ATCTTATCTATTAACTATCTATTAGTTATTCATAATTAATATGAATTATTAATATGAATTATAGA
38493517 CTCGAATTTAGAAAAACTAGAATTTTTTCTAA
66 CTCGAATTTAGAAAAACTAGAATTTTTTCTAA
38493549 TTTTTAATGC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (97 bp):
ATCTTATCTATTAACTATCTATTAGTTATTCATAATTAATATGAATTATTAATATGAATTATAGA
CTCGAATTTAGAAAAACTAGAATTTTTTCTAA
Found at i:38493734 original size:21 final size:20
Alignment explanation
Indices: 38493684--38493757 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 20
38493674 ATATATTTAA
*
38493684 TTTTTTATATATAT-ATATT
1 TTTTTTATATATTTAATATT
*
38493703 ATTTATCTATATATTTAATATCT
1 -TTT-TTTATATATTTAATAT-T
*
38493726 TTTTTTATAT-CTTAATTATAT
1 TTTTTTATATATTTAA-TAT-T
38493747 TTCTTTTATAT
1 TT-TTTTATAT
38493758 TAATATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
20 7 0.16
21 21 0.48
22 15 0.34
23 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTATATATTTAATATT
Found at i:38493809 original size:17 final size:17
Alignment explanation
Indices: 38493787--38493825 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
38493777 CTGACTCCAT
*
38493787 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
38493804 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
38493821 TTTTA
1 TTTTA
38493826 CATCTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:38493921 original size:31 final size:31
Alignment explanation
Indices: 38493886--38493945 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
38493876 CGATCGATTT
38493886 AATAGATTTAATATAGATTAAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
38493917 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
38493946 CTATTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:38494022 original size:15 final size:17
Alignment explanation
Indices: 38493992--38494023 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
38493982 GTCAAAATCT
38493992 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
38494009 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
38494024 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:38494146 original size:27 final size:28
Alignment explanation
Indices: 38494116--38494172 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
38494106 AAATGAATGG
*
38494116 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
38494143 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
38494171 AA
1 AA
38494173 AAATAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:38494669 original size:18 final size:18
Alignment explanation
Indices: 38494642--38494684 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
38494632 CGCATAAAAA
* *
38494642 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
38494660 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
38494678 GAAAGAA
1 GAAAGAA
38494685 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:38498563 original size:15 final size:16
Alignment explanation
Indices: 38498538--38498567 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38498528 TCAATTTCAT
38498538 TTTGATATAGTACTAA
1 TTTGATATAGTACTAA
38498554 TTTG-TATAGTACTA
1 TTTGATATAGTACTA
38498568 GTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (16 bp):
TTTGATATAGTACTAA
Found at i:38499270 original size:24 final size:22
Alignment explanation
Indices: 38499229--38499272 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
38499219 CATTATTCAA
*
38499229 ATTTCATATACATGTATCATAG
1 ATTTCATATACATATATCATAG
38499251 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
38499273 GTAACAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAG
Found at i:38499489 original size:24 final size:25
Alignment explanation
Indices: 38499432--38499494 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
38499422 GTACTTGCAT
* * * *
38499432 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGTGAAGCGGGAA
*
38499457 GCTCTTACGAGCTGT-AAGCGGGAA
1 GCTCATACGAGCTGTGAAGCGGGAA
38499481 GCTCATACGAGCTG
1 GCTCATACGAGCTG
38499495 AATATTAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAAGCGGGAA
Found at i:38503293 original size:14 final size:14
Alignment explanation
Indices: 38503274--38503304 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
38503264 TGTATTAAAG
38503274 TTTCATTGAAAATT
1 TTTCATTGAAAATT
38503288 TTTCATTGAAAATT
1 TTTCATTGAAAATT
38503302 TTT
1 TTT
38503305 AATGATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTCATTGAAAATT
Found at i:38506933 original size:26 final size:26
Alignment explanation
Indices: 38506902--38507004 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 26
38506892 TCTAAATTAA
* *
38506902 TAAATTAAATAAAAGTATTAATTTAG
1 TAAATTGAATAAAATTATTAATTTAG
38506928 TAAATTGAATAAAATTATTAATTTAG
1 TAAATTGAATAAAATTATTAATTTAG
*
38506954 TAAATTGAATAAAATTATTAATCTAG
1 TAAATTGAATAAAATTATTAATTTAG
*
38506980 TAAATTGAATAAAACTATTAATTTA
1 TAAATTGAATAAAATTATTAATTTA
38507005 TATTAAGATC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (26 bp):
TAAATTGAATAAAATTATTAATTTAG
Found at i:38507413 original size:40 final size:40
Alignment explanation
Indices: 38507364--38507445 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
38507354 GCGTTATACT
* * *
38507364 TTCTGTTTGGCGTGTTTCGGCTGGA-CTAGCTCTTATAAGC
1 TTCTATTTGGCGTATTTCAGCTGGATC-AGCTCTTATAAGC
* *
38507404 TTCTATTTGGCGTATTTCAGTTGGATCAGCTCTTATGAGC
1 TTCTATTTGGCGTATTTCAGCTGGATCAGCTCTTATAAGC
38507444 TT
1 TT
38507446 TTTGTCTGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.43
Consensus pattern (40 bp):
TTCTATTTGGCGTATTTCAGCTGGATCAGCTCTTATAAGC
Found at i:38511258 original size:104 final size:103
Alignment explanation
Indices: 38511078--38511287 Score: 384
Period size: 104 Copynumber: 2.0 Consensus size: 103
38511068 CTTATTTTCA
38511078 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
1 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
*
38511143 ATTGCCCGTTGAACTATTTCAAAATTTATAAGGATACTC
66 ATTGCCCGTTGAACTA-TTCAAAATTTATAAAGATACTC
*
38511182 TGAACATTTAATTTCTCACGTACCTGAACCATTTATCTCAATTTCACATTCGATCTTGACTTGAC
1 TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
*
38511247 ATTTCCCGTTGAACTATTCAAAATTTATAAAGATACTC
66 ATTGCCCGTTGAACTATTCAAAATTTATAAAGATACTC
38511285 TGA
1 TGA
38511288 TTGTTAGATA
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
103 24 0.23
104 79 0.77
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (103 bp):
TGAACATTTAATTTCTCACGTACCTGAACCATATATCTCAATTTCACATTCGATCTTGACTTGAC
ATTGCCCGTTGAACTATTCAAAATTTATAAAGATACTC
Found at i:38511376 original size:43 final size:42
Alignment explanation
Indices: 38511312--38511464 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
38511302 CGTACAATGT
* * *
38511312 CAATGTCCTAGAC-GAGGTCTTACATGTAATCAAATATCGACGC
1 CAATGTCCCAGACAG-GGTCTTACATGTAAACAAATA-CAACGC
* * * *
38511355 CACTGTCCCAGACAGGGTCTTACATGAAAACATATACAATGC
1 CAATGTCCCAGACAGGGTCTTACATGTAAACAAATACAACGC
* * * *
38511397 GAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CAATGC
1 CAATGTCCCAGACAGGGTCTTACATGTAAA---CAAATACAACGC
*
38511441 CAACGTCCCAGAC-GTGGTCTTACA
1 CAATGTCCCAGACAG-GGTCTTACA
38511465 CGAAATCACA
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 27 0.30
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
CAATGTCCCAGACAGGGTCTTACATGTAAACAAATACAACGC
Found at i:38523165 original size:21 final size:20
Alignment explanation
Indices: 38523118--38523167 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
38523108 GAACAAAAAT
38523118 AACTAAAAAAATAAATCTAA
1 AACTAAAAAAATAAATCTAA
*
38523138 AGCCTAAAGAAAATAACA-CTAA
1 A-ACTAAA-AAAATAA-ATCTAA
38523160 AACTAAAA
1 AACTAAAA
38523168 TTACAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 10 0.40
22 12 0.48
23 1 0.04
ACGTcount: A:0.66, C:0.14, G:0.04, T:0.16
Consensus pattern (20 bp):
AACTAAAAAAATAAATCTAA
Found at i:38529090 original size:10 final size:10
Alignment explanation
Indices: 38529075--38529104 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
38529065 AATAGTGGAG
38529075 GAAAAGAGAA
1 GAAAAGAGAA
38529085 GAAAAGAGAA
1 GAAAAGAGAA
38529095 GAAAAGAGAA
1 GAAAAGAGAA
38529105 AATGGGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:38530545 original size:5 final size:6
Alignment explanation
Indices: 38530515--38530542 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38530505 TGCGAAATTT
38530515 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
38530543 GAACTAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:38532012 original size:142 final size:142
Alignment explanation
Indices: 38531846--38532127 Score: 564
Period size: 142 Copynumber: 2.0 Consensus size: 142
38531836 TCTAAAGAGG
38531846 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
1 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
38531911 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
66 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
38531976 TGGCTTCATTTT
131 TGGCTTCATTTT
38531988 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
1 AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
38532053 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
66 TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
38532118 TGGCTTCATT
131 TGGCTTCATT
38532128 AAAATGTAAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 140 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (142 bp):
AATCCTATACGATATTTAAATTTAGTTTAAAACCCTAAAAAAATATCTTACATATTATTTATAAT
TTTTTCTAGTGTAAATGGTAAATAAGATCTTAAAGACTAAGATGAATCCAAATGTAAAAACCTTA
TGGCTTCATTTT
Found at i:38532132 original size:27 final size:27
Alignment explanation
Indices: 38532102--38532162 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
38532092 AGATGAATCC
38532102 AAATGTAAAAACCTTATGGCTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
*
38532129 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
38532156 AAATGTA
1 AAATGTA
38532163 CCACCTACTT
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:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGCTTCATTA
Found at i:38535812 original size:14 final size:13
Alignment explanation
Indices: 38535789--38535831 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
38535779 AATTCAAAGT
38535789 AAATAATAATTTA
1 AAATAATAATTTA
38535802 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
38535816 CAACAACAATTTA
1 AAATAATAATTTA
38535829 AAA
1 AAA
38535832 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:38537750 original size:30 final size:31
Alignment explanation
Indices: 38537710--38537776 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
38537700 ATATATATGG
* *
38537710 AAATAAATATATACATAAAAATAAAA-ATAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
* * *
38537740 AAATACATATATATATAGAAAGAAAAGAAAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
38537771 AAATAA
1 AAATAA
38537777 TTACATATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (31 bp):
AAATAAATATATACATAAAAAGAAAAGAAAA
Found at i:38539539 original size:44 final size:44
Alignment explanation
Indices: 38539481--38540037 Score: 292
Period size: 44 Copynumber: 12.8 Consensus size: 44
38539471 ACTAGATGAG
* *
38539481 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * * *
38539524 ATCCGCTCCACTGCAACTTCAGTGAGATAGGATTATAG-G-CTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTGATTTTA
* **** *
38539568 ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCACCATTTTGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTT-A
* * * * * * *
38539613 GTTTGCCCCACTGCAACTTTAGTGG-GATAAGACTTGCTTA-TTCA
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTG-TGATTTTA
* * * * *
38539657 GTCTGCTCCACTGCAACTTCAGGGAGATAATACTAGATGA----G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGATTTTA
* * * *
38539698 ATCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * * *
38539741 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATAG-G-CTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTGATTTTA
* ** *
38539785 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATTTTGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTT-A
* * *
38539830 GTCTG-TCCCACTGCAACTTCA-GGAGGATAAG-TCTTGCTTA-CTTA
1 ATCTGCT-CCACTGCAACTTCAGGGA-GATAAGAT-TTG-TGATTTTA
* * * * * * ***
38539874 GTCTGCTTCACTGCAACTTCAAGAAGATAAGA-CT-AGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * * *
38539915 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
* * **
38539958 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTGATTTTA
* * *
38540002 GTCTGCTCTACTACAACTTCAGGGAGATAAGATTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
38540038 CCATCTTTAG
Statistics
Matches: 384, Mismatches: 98, Indels: 63
0.70 0.18 0.12
Matches are distributed among these distances:
39 3 0.01
40 41 0.11
41 15 0.04
42 2 0.01
43 24 0.06
44 230 0.60
45 63 0.16
46 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
Found at i:38539748 original size:217 final size:215
Alignment explanation
Indices: 38539373--38540041 Score: 1007
Period size: 217 Copynumber: 3.1 Consensus size: 215
38539363 CTGCTCCACT
* * *
38539373 GGAAATAAGATTCGCCATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTTATT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCA-GGGGATAAGACTTGCTTATT
* * *
38539438 CAGTCTGCTCTACTGCAACTTTAGGGAAATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
65 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
*
38539503 GAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAGTGAGATAGGATTATAGGCTTAA
130 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG-GAGATAGGATTATAGGCTTAA
38539568 ATCTGCTCCACTGCAACTTCAG
194 ATCTGCTCCACTGCAACTTCAG
* * *
38539590 GGAAATAAGATTCACCATTTTGGGTTTGCCCCACTGCAACTTTAGTGGGATAAGACTTGCTTATT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAG-GGGATAAGACTTGCTTATT
* *
38539655 CAGTCTGCTCCACTGCAACTTCAGGGAGATAATACTAGATGAGATCTGCTCTCTGCAACTTTAGA
65 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGA
38539720 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATAGGCTTAA
130 GAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGG-AGATAGGATTATAGGCTTAA
*
38539785 ATCTGCTCCACTGTAACTTCAG
194 ATCTGCTCCACTGCAACTTCAG
* * * *
38539807 GGAGATAAGATTTGCCATTTTGGGTCTGTCCCACTGCAACTTCAGGAGGATAAGTCTTGCTTACT
1 GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAGG-GGATAAGACTTGCTTA-T
* * * *
38539872 T-AGTCTGCTTCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
64 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
* * *
38539936 AGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
129 AGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA-GGAGATAGGATTATAGGCTTA
* * *
38540001 AGTCTGCTCTACTACAACTTCAG
193 AATCTGCTCCACTGCAACTTCAG
* *
38540024 GGAGATAAGATTTGCCAT
1 GGAAATAAGATTCGCCAT
38540042 CTTTAGTCTT
Statistics
Matches: 414, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.01
217 407 0.98
218 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (215 bp):
GGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCAGGGGATAAGACTTGCTTATTC
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGAGATAGGATTATAGGCTTAAAT
CTGCTCCACTGCAACTTCAG
Found at i:38540355 original size:44 final size:44
Alignment explanation
Indices: 38540292--38540376 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
38540282 AAAGTAAGAT
*
38540292 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
1 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAC
38540336 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAG
1 TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAG
38540377 AATTATATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (44 bp):
TCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGAC
Found at i:38540496 original size:88 final size:88
Alignment explanation
Indices: 38540382--38540647 Score: 442
Period size: 88 Copynumber: 3.0 Consensus size: 88
38540372 GATAGAATTA
*
38540382 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTTAACCTGCTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
*
38540447 ACAACCCAGGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* ** *
38540470 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACTTGCTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
38540535 ACAACCCAAGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* *
38540558 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGTTATCTTCAACCTGTTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
* *
38540623 ACAACTCAAGGAGGTAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
38540646 TA
1 TA
38540648 ATTTCACCGA
Statistics
Matches: 164, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 164 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
ACAACCCAAGGAGGCAAGGCTGG
Found at i:38540506 original size:44 final size:45
Alignment explanation
Indices: 38540382--38540609 Score: 171
Period size: 44 Copynumber: 5.2 Consensus size: 45
38540372 GATAGAATTA
* * *
38540382 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
** * * * * ** *
38540427 TATCTTTAACCTGCTCCACT-ACAACCCAGGGAGGCAAG-GCTGG
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
* **
38540470 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTAC
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
* * * * **
38540515 TATCTTC-AACTTGCTCCACT-ACAACCCAAGG-AGGCAAG-GCTGG
1 TATCTTCGATC-TGCTTCACTGTCGATGC-AGGAAGGCAAGAGCTGG
* * * *
38540558 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
38540603 TATCTTC
1 TATCTTC
38540610 AACCTGTTCC
Statistics
Matches: 132, Mismatches: 43, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
43 38 0.29
44 49 0.37
45 45 0.34
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (45 bp):
TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
Found at i:38548531 original size:87 final size:87
Alignment explanation
Indices: 38548432--38548590 Score: 275
Period size: 87 Copynumber: 1.8 Consensus size: 87
38548422 AAAAAAGCAT
*
38548432 ATATATACATACATATATAAATATAGAAAAATATTCGTTAGAA-AAAAATAAATATACATACATG
1 ATATATACATACATATAT-AATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATG
38548496 TACATATAATTTTTAAAGAAAAC
65 TACATATAATTTTTAAAGAAAAC
*
38548519 ATATATATATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
1 ATATATACATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
*
38548584 ACGTATA
66 ACATATA
38548591 TAAATAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
86 23 0.34
87 45 0.66
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (87 bp):
ATATATACATACATATATAATATAGAAAAATAGTCGTTAGAAGAAAAATAAATATACATACATGT
ACATATAATTTTTAAAGAAAAC
Found at i:38548667 original size:18 final size:18
Alignment explanation
Indices: 38548657--38548691 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38548647 ATATATATGG
38548657 AAATAAATATATACATAA
1 AAATAAATATATACATAA
*
38548675 AAATAAATATACACATA
1 AAATAAATATATACATA
38548692 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATATATACATAA
Found at i:38550993 original size:18 final size:19
Alignment explanation
Indices: 38550944--38550993 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
38550934 CTAAACTCTC
38550944 TTTTTTTAAAAAAATCAAAA
1 TTTTTTT-AAAAAATCAAAA
* * *
38550964 CTTTTTT-CAAAATC-AAG
1 TTTTTTTAAAAAATCAAAA
38550981 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
38550994 CTTTTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
20 6 0.25
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTTTTAAAAAATCAAAA
Found at i:38552583 original size:51 final size:51
Alignment explanation
Indices: 38552495--38552620 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
38552485 ATGAGATACT
** * *
38552495 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
* * * * **
38552546 AATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
38552597 AATCTTAGAAGATATGATATTATA
1 AATCTTAGAAGATATGATATTATA
38552621 TTCTTAGAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGG
Found at i:38557642 original size:12 final size:12
Alignment explanation
Indices: 38557609--38557643 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
38557599 TGAGACAAGA
38557609 TATTCTTTAAAT
1 TATTCTTTAAAT
*
38557621 TACTCTTTTAAAT
1 TATTC-TTTAAAT
38557634 TATTCTTTAA
1 TATTCTTTAA
38557644 GTAACCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:38558063 original size:39 final size:40
Alignment explanation
Indices: 38558010--38558110 Score: 98
Period size: 44 Copynumber: 2.4 Consensus size: 40
38558000 TTTTCTTATG
**
38558010 CTATTACAACTCTATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACAGTTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
38558049 CTATTACAGTTCTATGCCATTCCATTCAACCAAACAATTGAATTG
1 CTATTACAGTTC--T---ATTCCATTCAACCAAACAATAGAATTA
38558094 CTATTACAGTTCTATTC
1 CTATTACAGTTCTATTC
38558111 TATTATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
39 10 0.20
40 4 0.08
41 1 0.02
43 2 0.04
44 21 0.41
45 13 0.25
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACAGTTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:38558115 original size:16 final size:16
Alignment explanation
Indices: 38558094--38558163 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
38558084 AATTGAATTG
**
38558094 CTATTACAGTTCTATT
1 CTATTACAACTCTATT
*
38558110 CTATTATAACTCTATT
1 CTATTACAACTCTATT
* *
38558126 CTATTACAATTCTTTT
1 CTATTACAACTCTATT
* * *
38558142 CCATTACAGCTCTATC
1 CTATTACAACTCTATT
38558158 CTATTA
1 CTATTA
38558164 TACTGAACCA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (16 bp):
CTATTACAACTCTATT
Found at i:38558155 original size:32 final size:32
Alignment explanation
Indices: 38558094--38558163 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
38558084 AATTGAATTG
* * * *
38558094 CTATTACAGTTCTATTCTATTATAACTCTATT
1 CTATTACAATTCTATTCCATTACAACTCTATC
* *
38558126 CTATTACAATTCTTTTCCATTACAGCTCTATC
1 CTATTACAATTCTATTCCATTACAACTCTATC
38558158 CTATTA
1 CTATTA
38558164 TACTGAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (32 bp):
CTATTACAATTCTATTCCATTACAACTCTATC
Found at i:38559582 original size:24 final size:24
Alignment explanation
Indices: 38559555--38559610 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
38559545 TATATATATT
38559555 TGAAAAAAATTTCAAAGCAAAATA
1 TGAAAAAAATTTCAAAGCAAAATA
38559579 TGAAAAAAATTTCAAAGCAAAATA
1 TGAAAAAAATTTCAAAGCAAAATA
*
38559603 AGAAAAAA
1 TGAAAAAA
38559611 TACTTTAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (24 bp):
TGAAAAAAATTTCAAAGCAAAATA
Found at i:38559762 original size:19 final size:20
Alignment explanation
Indices: 38559717--38559783 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 20
38559707 ATTCTTTAGA
*
38559717 ATTTTTTTAAAATATTTTAT
1 ATTTTTTAAAAATATTTTAT
38559737 ATATTTTTAAAAATATTTT-T
1 AT-TTTTTAAAAATATTTTAT
*
38559757 ATTTTTTAAAATTATTTTGA-
1 ATTTTTTAAAAATATTTT-AT
38559777 ATTTTTT
1 ATTTTTT
38559784 TTTGTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 15 0.36
20 12 0.29
21 15 0.36
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAAAATATTTTAT
Found at i:38559780 original size:20 final size:18
Alignment explanation
Indices: 38559719--38559783 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 18
38559709 TCTTTAGAAT
38559719 TTTTTTAAAATATTTTATA
1 TTTTTTAAAATATTTTA-A
*
38559738 TATTTTTAAAAATATTTTTA
1 T-TTTTT-AAAATATTTTAA
38559758 TTTTTTAAAATTATTTTGAA
1 TTTTTTAAAA-TATTTT-AA
38559778 TTTTTT
1 TTTTTT
38559784 TTTGTAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.10
19 12 0.30
20 14 0.35
21 10 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTTAAAATATTTTAA
Found at i:38567313 original size:27 final size:27
Alignment explanation
Indices: 38567275--38567331 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
38567265 GAAATATATA
38567275 AAAGGTTAAACATTCTGACCACCTTTT
1 AAAGGTTAAACATTCTGACCACCTTTT
*
38567302 AAAGGTTGAACATTCTGACCACCTTTT
1 AAAGGTTAAACATTCTGACCACCTTTT
38567329 AAA
1 AAA
38567332 CTTTTAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (27 bp):
AAAGGTTAAACATTCTGACCACCTTTT
Found at i:38571851 original size:18 final size:18
Alignment explanation
Indices: 38571820--38571857 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38571810 AGTTGAGACT
*
38571820 AGGATCATGTTGTTAAAG
1 AGGATCATGATGTTAAAG
*
38571838 AGGATGATGATGTTAAAG
1 AGGATCATGATGTTAAAG
38571856 AG
1 AG
38571858 TTAATGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (18 bp):
AGGATCATGATGTTAAAG
Found at i:38571897 original size:35 final size:35
Alignment explanation
Indices: 38571858--38571927 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
38571848 TGTTAAAGAG
38571858 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
1 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
38571893 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
1 TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
38571928 GATACCACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (35 bp):
TTAATGTTGGGATATGGTTGAAGTTTGAAGTAGGT
Found at i:38576499 original size:13 final size:14
Alignment explanation
Indices: 38576473--38576506 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
38576463 AAATTATAGA
38576473 TTATTATTATAATT
1 TTATTATTATAATT
38576487 TTATTATTA-AATT
1 TTATTATTATAATT
*
38576500 TTTTTAT
1 TTATTAT
38576507 ACCTATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTATAATT
Found at i:38582594 original size:62 final size:59
Alignment explanation
Indices: 38582484--38582683 Score: 188
Period size: 62 Copynumber: 3.2 Consensus size: 59
38582474 TCAATTTAAC
* * * *
38582484 ATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATTAAATATT
1 ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
38582543 ATTAAAATAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAACCA
1 ATTAAAATAATAAAATATTTAT-T--AAGATAAACATTAAATTAAATTTAATATTAA-AT----A
38582608 TTTTAAT
58 ---T--T
* * **
38582615 ATTAAATTAATAAAATA-CTATTAAGATATGCATTAAATTAAATTTAATATTAAA-ATT
1 ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
*
38582672 ATTAAGATAATA
1 ATTAAAATAATA
38582684 TTATTTTTGG
Statistics
Matches: 118, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
57 11 0.09
59 21 0.18
60 1 0.01
62 30 0.25
63 2 0.02
67 2 0.02
68 29 0.25
70 2 0.02
71 3 0.03
72 17 0.14
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.41
Consensus pattern (59 bp):
ATTAAAATAATAAAATATTTATTAAGATAAACATTAAATTAAATTTAATATTAAATATT
Done.