Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 179 of 322
Found at i:58732986 original size:20 final size:20
Alignment explanation
Indices: 58732961--58733006 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
58732951 ATTGGGCCTT
58732961 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
58732981 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
58733000 GCCCATA
1 GCCCATA
58733007 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:58733015 original size:19 final size:20
Alignment explanation
Indices: 58732973--58733016 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
58732963 CCATATTAAC
** *
58732973 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
58732993 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
58733012 ACAGT
1 ACAGT
58733017 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:58733638 original size:8 final size:8
Alignment explanation
Indices: 58733613--58733645 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
58733603 TCTCAAAATG
58733613 TCGGCTTT
1 TCGGCTTT
58733621 TCGG-TATT
1 TCGGCT-TT
58733629 TCGGCTTT
1 TCGGCTTT
58733637 TCGGCTTT
1 TCGGCTTT
58733645 T
1 T
58733646 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.03, C:0.21, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:58736803 original size:18 final size:18
Alignment explanation
Indices: 58736774--58736828 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
58736764 ACAAATATAA
58736774 TGTTTTTG-AATAAAACT
1 TGTTTTTGAAATAAAACT
58736791 TGTTTTTGAAATAAAACT
1 TGTTTTTGAAATAAAACT
58736809 TGTTTTTGAAATAAAACT
1 TGTTTTTGAAATAAAACT
58736827 TG
1 TG
58736829 ATAAAATTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 8 0.22
18 29 0.78
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTTTTTGAAATAAAACT
Found at i:58739832 original size:21 final size:21
Alignment explanation
Indices: 58739806--58739845 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58739796 ATCATTCATT
58739806 TCAATTCCCTATCATTCACCG
1 TCAATTCCCTATCATTCACCG
* *
58739827 TCAATTTCCTGTCATTCAC
1 TCAATTCCCTATCATTCAC
58739846 AACTTCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.38
Consensus pattern (21 bp):
TCAATTCCCTATCATTCACCG
Found at i:58742562 original size:68 final size:68
Alignment explanation
Indices: 58742454--58742653 Score: 276
Period size: 68 Copynumber: 2.9 Consensus size: 68
58742444 ATCATGTCGG
** * * * * *
58742454 ACTTCATATGTCACTATAGCTTAGTTGTAGTCTTACACAATATGATCCCATGTTTATTGTTCTGG
1 ACTTCATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAATCCCATGTTTATTGTCCTGG
58742519 C-A
66 CGA
* * * * *
58742521 GACTTTATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAAACCCTTTTTTGTTGTCCTG
1 -ACTTCATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAATCCCATGTTTATTGTCCTG
58742586 GCGA
65 GCGA
58742590 ACTTCATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAATCCCATGTTTATTGTCCTG
1 ACTTCATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAATCCCATGTTTATTGTCCTG
58742654 ACGGACTATT
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
68 113 0.99
69 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (68 bp):
ACTTCATATGTTGCCATAGCCTAGTTGTGGTCTTACACAATATAATCCCATGTTTATTGTCCTGG
CGA
Found at i:58743681 original size:13 final size:13
Alignment explanation
Indices: 58743663--58743690 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58743653 ATTATTAAAT
58743663 TAAATAGTAAAAC
1 TAAATAGTAAAAC
58743676 TAAATAGTAAAAC
1 TAAATAGTAAAAC
58743689 TA
1 TA
58743691 TTAAAATAAT
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:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (13 bp):
TAAATAGTAAAAC
Found at i:58747436 original size:13 final size:12
Alignment explanation
Indices: 58747407--58747432 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58747397 TATTTAATAT
58747407 AATAAATATAAA
1 AATAAATATAAA
58747419 AATAAATATAAA
1 AATAAATATAAA
58747431 AA
1 AA
58747433 ATAATGTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAATATAAA
Found at i:58750644 original size:45 final size:45
Alignment explanation
Indices: 58750575--58750792 Score: 332
Period size: 45 Copynumber: 4.9 Consensus size: 45
58750565 TGTACAGTAC
*
58750575 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
* * *
58750620 TATTTGGGCCTTTGACCCTAGCAGGCTATAATGTCGGTGAGATAA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
* *
58750665 TATTCGGGCCTTTGAGCCTAGCAGGTTATAATGCCGGTGAAATAA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
* * *
58750710 TAGTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
*
58750755 TATTCGGGCC-TTGAGCCTAGCAGGATA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
58750793 ATGAATTTGG
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 11 0.07
44 15 0.10
45 130 0.83
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAA
Found at i:58754095 original size:28 final size:29
Alignment explanation
Indices: 58753981--58754095 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
58753971 TACTTGTATC
* * **
58753981 TGGCCCATTAAGCCC-AATCATATTTGTA
1 TGGCCCATTAGGCCCAAATCACATTCATA
***
58754009 TGGCCCATTAGGCCCAAATCACCCACATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
58754038 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
**
58754067 TGGCCTGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
58754095 T
1 T
58754096 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 27 0.38
29 45 0.62
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:58754095 original size:57 final size:57
Alignment explanation
Indices: 58753981--58754088 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 57
58753971 TACTTGTATC
* * *
58753981 TGGCCCATTAAGCCCAATCATATTTGTATGGCCCATTAGGCCCAAATCACCCACATA
1 TGGCCCATTAAGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACACACATA
* **
58754038 TGGCCCATTAGGCCCAAATCACATTTATATGGCCTGTTAGGCCC-AATCACA
1 TGGCCCATTAAGCCC-AATCACATTTATATGGCCCATTAGGCCCAAATCACA
58754089 TTCATATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
57 20 0.45
58 24 0.55
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (57 bp):
TGGCCCATTAAGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCACACACATA
Found at i:58755011 original size:43 final size:43
Alignment explanation
Indices: 58754964--58755050 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
58754954 AGAATAGAAA
*
58754964 TCAGCAGGAAGAAAAGAAAGAAAAACAAAAGGGGTTTCGGCTT
1 TCAGCAGGAAGAAAAAAAAGAAAAACAAAAGGGGTTTCGGCTT
*
58755007 TCAGCAGGAAGAAAAAAAAGAAAAACAAAAGGGTTTTCGGCTT
1 TCAGCAGGAAGAAAAAAAAGAAAAACAAAAGGGGTTTCGGCTT
58755050 T
1 T
58755051 TTGGATCTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.16
Consensus pattern (43 bp):
TCAGCAGGAAGAAAAAAAAGAAAAACAAAAGGGGTTTCGGCTT
Found at i:58761106 original size:25 final size:26
Alignment explanation
Indices: 58761065--58761114 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
58761055 CCTTTATCCC
58761065 TTTTAAAATTATTTATA-ACTTATTTA
1 TTTTAAAATTATTTATATA-TTATTTA
58761091 TTTT-AAATT-TTATATATATTATTT
1 TTTTAAAATTATT-TATATATTATTT
58761115 TATGTATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 2 0.09
25 15 0.68
26 5 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTAAAATTATTTATATATTATTTA
Found at i:58761116 original size:14 final size:14
Alignment explanation
Indices: 58761097--58761141 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
58761087 TTTATTTTAA
58761097 ATTTTATATATATT
1 ATTTTATATATATT
*
58761111 ATTTTATGTAT-TCT
1 ATTTTATATATAT-T
58761125 ATTTTATAT-TATT
1 ATTTTATATATATT
58761138 ATTT
1 ATTT
58761142 ACTTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
ATTTTATATATATT
Found at i:58761150 original size:10 final size:10
Alignment explanation
Indices: 58761137--58761171 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
58761127 TTTATATTAT
58761137 TATTTACTTA
1 TATTTACTTA
58761147 TATTTACTTA
1 TATTTACTTA
58761157 TATTTTA-TTA
1 TA-TTTACTTA
58761167 TATTT
1 TATTT
58761172 TTATCATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 3 0.12
10 17 0.71
11 4 0.17
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (10 bp):
TATTTACTTA
Found at i:58761150 original size:28 final size:26
Alignment explanation
Indices: 58761097--58761167 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
58761087 TTTATTTTAA
*
58761097 ATTTTATATATATTATTTTATGTATTCT
1 ATTTTATAT-TATTATTTTATATATT-T
58761125 ATTTTATATTATTA-TTTACTTATATTT
1 ATTTTATATTATTATTTTA--TATATTT
* *
58761152 ACTTATATTTTATTAT
1 A-TTTTATATTATTAT
58761168 ATTTTTATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.11
27 7 0.19
28 25 0.69
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (26 bp):
ATTTTATATTATTATTTTATATATTT
Found at i:58761181 original size:31 final size:33
Alignment explanation
Indices: 58761124--58761267 Score: 83
Period size: 32 Copynumber: 4.5 Consensus size: 33
58761114 TTATGTATTC
* *
58761124 TATTTTATATTATTATTTACTTATATTTACT-TA
1 TATTTTATATTATTATTTACTCATA-TTAATATA
58761157 TATTTTAT-TATATT-TTTA-TCATATTAATATA
1 TATTTTATAT-TATTATTTACTCATATTAATATA
* *
58761188 TATTTTAACATATATCA-TTACTCATTATT--TAT-
1 TATTTT-ATAT-TATTATTTACTCA-TATTAATATA
* * * * *
58761220 TATATTATATTTTTA-TCACATAATATTTATATA
1 TATTTTATATTATTATTTAC-TCATATTAATATA
58761253 T-TTTTATATTATTAT
1 TATTTTATATTATTAT
58761268 ATTATTTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 24
0.71 0.10 0.20
Matches are distributed among these distances:
30 14 0.16
31 17 0.20
32 25 0.29
33 24 0.28
34 3 0.03
35 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (33 bp):
TATTTTATATTATTATTTACTCATATTAATATA
Found at i:58761269 original size:24 final size:27
Alignment explanation
Indices: 58761209--58761282 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
58761199 ATATCATTAC
58761209 TCATTATT-TATTATATTATATTTTTA
1 TCATTATTATATTATATTATATTTTTA
* *
58761235 TCA-CATAATATT-TA-TATATTTTTA
1 TCATTATTATATTATATTATATTTTTA
*
58761259 T-ATTATTATATTATTTTATATTTT
1 TCATTATTATATTATATTATATTTT
58761283 AACAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 1 0.03
24 18 0.46
25 5 0.13
26 15 0.38
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (27 bp):
TCATTATTATATTATATTATATTTTTA
Found at i:58761297 original size:50 final size:51
Alignment explanation
Indices: 58761211--58761311 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 51
58761201 ATCATTACTC
* *
58761211 ATTATTTATTATATTATATTTTTATCACATAATATTT-ATA-TATTTTTAT
1 ATTATTTATTATATTATATTTTTAACACATAATATTTCATATTATTATTAT
*
58761260 ATTATTATATTATTTTATA-TTTTAACA-ATATATTATTTCATATTATTATTAT
1 ATTATT-TATTATATTATATTTTTAACACATA-A-TATTTCATATTATTATTAT
58761312 GTAATATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
48 3 0.07
49 14 0.32
50 16 0.36
51 3 0.07
52 8 0.18
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (51 bp):
ATTATTTATTATATTATATTTTTAACACATAATATTTCATATTATTATTAT
Found at i:58761309 original size:16 final size:16
Alignment explanation
Indices: 58761290--58761364 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 16
58761280 TTTAACAATA
58761290 TATTATTTCATATTAT
1 TATTATTTCATATTAT
* *
58761306 TATTATGTAATA-TA-
1 TATTATTTCATATTAT
* *
58761320 TATTTTTTCATGTATAT
1 TATTATTTCATAT-TAT
*
58761337 TATTA-TTCACATTAT
1 TATTATTTCATATTAT
58761352 TA-T-TTTCATATTA
1 TATTATTTCATATTA
58761365 AATTGATATT
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
14 17 0.38
15 7 0.16
16 17 0.38
17 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTATTTCATATTAT
Found at i:58761323 original size:30 final size:29
Alignment explanation
Indices: 58761277--58761364 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
58761267 TATTATTTTA
58761277 TATT-TTAACAATATATTATTTCATATTAT
1 TATTATTAAC-ATATATTATTTCATATTAT
* * *
58761306 TATTATGTAATATATATTTTTTCATGTATAT
1 TATTAT-TAACATATATTATTTCATAT-TAT
*
58761337 TATTATTCACAT-TATTATTTTCATATTA
1 TATTATTAACATATATTA-TTTCATATTA
58761365 AATTGATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
29 10 0.21
30 26 0.54
31 12 0.25
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (29 bp):
TATTATTAACATATATTATTTCATATTAT
Found at i:58761504 original size:21 final size:22
Alignment explanation
Indices: 58761470--58761513 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
58761460 TATTTCAAAA
*
58761470 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
58761491 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
58761513 T
1 T
58761514 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:58771114 original size:32 final size:33
Alignment explanation
Indices: 58771062--58771137 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 33
58771052 CTCAAACCAA
*
58771062 AGAA-ACAGAATAGATTGGCCTTAGCCTAGAAC
1 AGAATACAGAATAGATTGGCCTTAGCCCAGAAC
*
58771094 AGTATACAGAATA-ATTGGCCTTAGCCCAGAAC
1 AGAATACAGAATAGATTGGCCTTAGCCCAGAAC
58771126 AGAATACAGAAT
1 AGAATACAGAAT
58771138 TAAGCCCATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 32 0.80
33 8 0.20
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (33 bp):
AGAATACAGAATAGATTGGCCTTAGCCCAGAAC
Found at i:58771355 original size:28 final size:26
Alignment explanation
Indices: 58771299--58771411 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
58771289 AGGATGGCTG
* *
58771299 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
58771325 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
58771353 CCAGAACAGATATATGTGGCAGGGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
58771380 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
58771408 CCAG
1 CCAG
58771412 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:58771400 original size:55 final size:54
Alignment explanation
Indices: 58771299--58771411 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
58771289 AGGATGGCTG
*
58771299 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * * *
58771353 CCAGAACAGATATATGTGGCAGGGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAACCA
58771408 CCAG
1 CCAG
58771412 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:58771719 original size:20 final size:16
Alignment explanation
Indices: 58771667--58771706 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
58771657 CTTACAAAAT
58771667 TGAACCCGTTGGCCCA
1 TGAACCCGTTGGCCCA
58771683 TGAACCCGTTGGCCCA
1 TGAACCCGTTGGCCCA
58771699 TGAACCCG
1 TGAACCCG
58771707 ATTTTTGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (16 bp):
TGAACCCGTTGGCCCA
Found at i:58773605 original size:43 final size:42
Alignment explanation
Indices: 58773553--58773639 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 42
58773543 TGAACGTAGG
58773553 CTATAAGCAAGGATGATGTCAGCAACAGTATCTTATTAGATT
1 CTATAAGCAAGGATGATGTCAGCAACAGTATCTTATTAGATT
58773595 CTATATAGCAAGGATGATGTCAGCAACAGTATCTTATTAGATT
1 CTATA-AGCAAGGATGATGTCAGCAACAGTATCTTATTAGATT
58773638 CT
1 CT
58773640 CGAAGATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (42 bp):
CTATAAGCAAGGATGATGTCAGCAACAGTATCTTATTAGATT
Found at i:58776282 original size:24 final size:24
Alignment explanation
Indices: 58776250--58776320 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
58776240 CTGCCAGGAG
58776250 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
58776274 AGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
58776298 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
58776321 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:58777287 original size:283 final size:283
Alignment explanation
Indices: 58776780--58777345 Score: 1132
Period size: 283 Copynumber: 2.0 Consensus size: 283
58776770 CCACACTATC
58776780 CTAGGGACATAGCCGAATACTAAGATCACTGAGGGCTAGACTTTTGTTATCATTTGAGGGCCTAG
1 CTAGGGACATAGCCGAATACTAAGATCACTGAGGGCTAGACTTTTGTTATCATTTGAGGGCCTAG
58776845 AACTGCATCAGAATCAAGTAGGAACTAAGGGGGAACGTTGACTGGAAGAATCGGTGGTAAGTCTT
66 AACTGCATCAGAATCAAGTAGGAACTAAGGGGGAACGTTGACTGGAAGAATCGGTGGTAAGTCTT
58776910 TCCAACTTAGTCTATCTTGCATATTTTAAGAAAAGCCGGAATCCCTAAAAGGTTAGGGAGGTTGT
131 TCCAACTTAGTCTATCTTGCATATTTTAAGAAAAGCCGGAATCCCTAAAAGGTTAGGGAGGTTGT
58776975 CATTTTTTTGGACTTGTAGCCCTAAAGGGTTGTGATAATAGTATTATTTTGGTAATAGTGTGATT
196 CATTTTTTTGGACTTGTAGCCCTAAAGGGTTGTGATAATAGTATTATTTTGGTAATAGTGTGATT
58777040 AAGAGGCTGTTGACAAGGGCTTG
261 AAGAGGCTGTTGACAAGGGCTTG
58777063 CTAGGGACATAGCCGAATACTAAGATCACTGAGGGCTAGACTTTTGTTATCATTTGAGGGCCTAG
1 CTAGGGACATAGCCGAATACTAAGATCACTGAGGGCTAGACTTTTGTTATCATTTGAGGGCCTAG
58777128 AACTGCATCAGAATCAAGTAGGAACTAAGGGGGAACGTTGACTGGAAGAATCGGTGGTAAGTCTT
66 AACTGCATCAGAATCAAGTAGGAACTAAGGGGGAACGTTGACTGGAAGAATCGGTGGTAAGTCTT
58777193 TCCAACTTAGTCTATCTTGCATATTTTAAGAAAAGCCGGAATCCCTAAAAGGTTAGGGAGGTTGT
131 TCCAACTTAGTCTATCTTGCATATTTTAAGAAAAGCCGGAATCCCTAAAAGGTTAGGGAGGTTGT
58777258 CATTTTTTTGGACTTGTAGCCCTAAAGGGTTGTGATAATAGTATTATTTTGGTAATAGTGTGATT
196 CATTTTTTTGGACTTGTAGCCCTAAAGGGTTGTGATAATAGTATTATTTTGGTAATAGTGTGATT
58777323 AAGAGGCTGTTGACAAGGGCTTG
261 AAGAGGCTGTTGACAAGGGCTTG
58777346 GACAAGTGGA
Statistics
Matches: 283, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
283 283 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (283 bp):
CTAGGGACATAGCCGAATACTAAGATCACTGAGGGCTAGACTTTTGTTATCATTTGAGGGCCTAG
AACTGCATCAGAATCAAGTAGGAACTAAGGGGGAACGTTGACTGGAAGAATCGGTGGTAAGTCTT
TCCAACTTAGTCTATCTTGCATATTTTAAGAAAAGCCGGAATCCCTAAAAGGTTAGGGAGGTTGT
CATTTTTTTGGACTTGTAGCCCTAAAGGGTTGTGATAATAGTATTATTTTGGTAATAGTGTGATT
AAGAGGCTGTTGACAAGGGCTTG
Found at i:58778060 original size:27 final size:27
Alignment explanation
Indices: 58778020--58778219 Score: 199
Period size: 27 Copynumber: 7.1 Consensus size: 27
58778010 AGGAAGCGTC
*
58778020 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
58778047 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
58778074 CTGGTGGCTCTGCCACGATTATCTGTATCTAGT
1 CTGGTGGCTCTGCCACAATTATCTG-----A-T
*
58778107 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
58778135 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
58778162 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
58778190 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
58778216 CTGG
1 CTGG
58778220 CAGCCATGCT
Statistics
Matches: 146, Mismatches: 15, Indels: 25
0.78 0.08 0.13
Matches are distributed among these distances:
26 11 0.08
27 89 0.61
28 21 0.14
29 1 0.01
33 1 0.01
34 23 0.16
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:58778124 original size:88 final size:88
Alignment explanation
Indices: 58778017--58778191 Score: 341
Period size: 88 Copynumber: 2.0 Consensus size: 88
58778007 TGGAGGAAGC
58778017 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGC
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGC
*
58778082 TCTGCCACGATTATCTGTATCTA
66 TCTACCACGATTATCTGTATCTA
58778105 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGC
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGC
58778170 TCTACCACGATTATCTGTATCT
66 TCTACCACGATTATCTGTATCT
58778192 GGTGACTCTG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (88 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGC
TCTACCACGATTATCTGTATCTA
Found at i:58778142 original size:61 final size:58
Alignment explanation
Indices: 58778047--58778218 Score: 201
Period size: 61 Copynumber: 3.0 Consensus size: 58
58778037 ATTATCTGAT
*
58778047 CTGGTGGCTCTGCCACATATT-TCTGTTCTGGTGGCTCTGCCACGATTATCTGTATCTAGTC
1 CTGGTGGCTCTGCCACA-ATTATCTGATCTGGTGGCTCTGCCAC-ATTATCTGT-TCT-GTC
* *
58778108 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-TA--T-TTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATTATCTGTTCTGTC
* * * *
58778162 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTCTG
1 CTGGTGGCTCTGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATTATCTGTTCTG
58778219 GCAGCCATGC
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
54 24 0.25
55 20 0.21
56 3 0.03
57 1 0.01
58 1 0.01
59 7 0.07
60 4 0.04
61 37 0.38
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (58 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATTATCTGTTCTGTC
Found at i:58778707 original size:26 final size:26
Alignment explanation
Indices: 58778678--58778754 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
58778668 GGGTTTCGAT
58778678 TTATAACTTATCATGATGACCTTAAA
1 TTATAACTTATCATGATGACCTTAAA
*** * *
58778704 TTAT-A-TTAT--TG--GGTTTTGAT
1 TTATAACTTATCATGATGACCTTAAA
58778724 TTATAACTTATCATGATGACCTTAAA
1 TTATAACTTATCATGATGACCTTAAA
58778750 TTATA
1 TTATA
58778755 TTAACTATCA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
20 8 0.23
21 1 0.03
22 6 0.17
24 6 0.17
25 1 0.03
26 13 0.37
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (26 bp):
TTATAACTTATCATGATGACCTTAAA
Found at i:58778725 original size:46 final size:46
Alignment explanation
Indices: 58778665--58778757 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
58778655 ATTATTTTTA
58778665 ATTGGGTTTCGATTTATAACTTATCATGATGACCTTAAATTATATT
1 ATTGGGTTTCGATTTATAACTTATCATGATGACCTTAAATTATATT
*
58778711 ATTGGGTTTTGATTTATAACTTATCATGATGACCTTAAATTATATT
1 ATTGGGTTTCGATTTATAACTTATCATGATGACCTTAAATTATATT
58778757 A
1 A
58778758 ACTATCAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (46 bp):
ATTGGGTTTCGATTTATAACTTATCATGATGACCTTAAATTATATT
Found at i:58784052 original size:39 final size:40
Alignment explanation
Indices: 58783901--58784070 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
58783891 GGACTAAGAT
* * *
58783901 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
58783941 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
58783981 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
58784021 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
58784060 CCGAAGGCATT
1 CCGAAGGCATT
58784071 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:58784090 original size:79 final size:80
Alignment explanation
Indices: 58783923--58784105 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
58783913 GTGCGAGATA
* * * *
58783923 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
58783988 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
58784003 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
58784067 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
58784082 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
58784106 TACGCGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:58792429 original size:475 final size:475
Alignment explanation
Indices: 58791534--58792477 Score: 1602
Period size: 475 Copynumber: 2.0 Consensus size: 475
58791524 TGCCATACCC
58791534 CAATACGACAAGGAAAAACCGCTCAGACGAACAATTTGGTAAATTCCTTAAACTTTTAAAGAAAC
1 CAATACGACAAGGAAAAACCGCTCAGACGAACAATTTGGTAAATTCCTTAAACTTTTAAAGAAAC
* *
58791599 TACATATTAACCCACCGTTTATTGAAGCACTTTCACAGATGTAGAATGCAGTCAAATTTTTAAAG
66 TACATATTAACCCACCGTTTATTGAAGCACTTTCACAAATGTACAATGCAGTCAAATTTTTAAAG
* * *
58791664 GAGCCCCTAGCAAATAAACAAAAGTTAGATGAAAGGTTGCATGTGGAACTGAACGCGGTTTGCTC
131 GAACCCCTAGCAAATAAACAAAAGTTAGATGAAAGGTCGCATATGGAACTGAACGCGGTTTGCTC
*
58791729 AGCCATTCTTCAGAATAAGCTACCCAACAAACTAAAAGATCCAGGGAGTTTTATGATTCCTTGTT
196 AGCCATTCTTCAGAATAAGCTAACCAACAAACTAAAAGATCCAGGGAGTTTTATGATTCCTTGTT
* *
58791794 TAATTGGTAGTTTAGATCTTAATAATGAGTTGGCTGATCTAGGGGCTAGTATCAATGTTATGCCT
261 TAATTGGTAGTTTAGATCTTAATAATGAGTTGGCTGATCTAGAGACTAGTATCAATGTTATGCCT
58791859 TACAAATTGTTTAAGCAACTAGGTCTAGGGAAACCAAAACAAACTAGGATAAGCATTCAATTAGC
326 TACAAATTGTTTAAGCAACTAGGTCTAGGGAAACCAAAACAAACTAGGATAAGCATTCAATTAGC
58791924 AGATAAAACTGTCAGATTTCCTAGGGGTATCATTGAAGACATACTCGTTAAAATTCACAAATTTA
391 AGATAAAACTGTCAGATTTCCTAGGGGTATCATTGAAGACATACTCGTTAAAATTCACAAATTTA
**
58791989 TATTCTTAGTTGATAAAGCT
456 TATTCCCAGTTGATAAAGCT
* * *
58792009 CAATGCGACAAGGAAAGACCGCTCAGACGAACAATTTGGTAAATTCTTTAAACTTTTAAAGAAAC
1 CAATACGACAAGGAAAAACCGCTCAGACGAACAATTTGGTAAATTCCTTAAACTTTTAAAGAAAC
* * *
58792074 TACATATTAACCTACCGTTTATTGAAGCACTTTCGCAAAT-TCCCAATGCAGTCAAATTTTTAAA
66 TACATATTAACCCACCGTTTATTGAAGCACTTTCACAAATGT-ACAATGCAGTCAAATTTTTAAA
* * ** *
58792138 GGAACTCTTAGCAAATAAATGAAAGTTAGATGAAAGGTCGCATATGGAGCTGAACGCGGTTTGCT
130 GGAACCCCTAGCAAATAAACAAAAGTTAGATGAAAGGTCGCATATGGAACTGAACGCGGTTTGCT
* *
58792203 CAGCCATTCTTCTGAATAAGCTAACCAACAAACTAAAAGATCTAGGGAGTTTTATGATTCCTTGT
195 CAGCCATTCTTCAGAATAAGCTAACCAACAAACTAAAAGATCCAGGGAGTTTTATGATTCCTTGT
* *
58792268 TTAATTGGTAGTTTAGATGTTAATAATGCGTTGGCTGATCTAGAGACTAGTATCAATGTTATGCC
260 TTAATTGGTAGTTTAGATCTTAATAATGAGTTGGCTGATCTAGAGACTAGTATCAATGTTATGCC
* * *
58792333 TTACAAATTGTTTAAGCAACTAGGTCTAGGGAAACCCAAACAAACTAGGATGAGTATTCAATTAG
325 TTACAAATTGTTTAAGCAACTAGGTCTAGGGAAACCAAAACAAACTAGGATAAGCATTCAATTAG
* *
58792398 CAGATAAAACTGTCAGATTTCCTAGGGGTATCATTGAAGACGTACTCGTTAAAATTGACAAATTT
390 CAGATAAAACTGTCAGATTTCCTAGGGGTATCATTGAAGACATACTCGTTAAAATTCACAAATTT
58792463 ATATTCCCAGTTGAT
455 ATATTCCCAGTTGAT
58792478 TTTGTTGTTT
Statistics
Matches: 438, Mismatches: 30, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
474 1 0.00
475 437 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (475 bp):
CAATACGACAAGGAAAAACCGCTCAGACGAACAATTTGGTAAATTCCTTAAACTTTTAAAGAAAC
TACATATTAACCCACCGTTTATTGAAGCACTTTCACAAATGTACAATGCAGTCAAATTTTTAAAG
GAACCCCTAGCAAATAAACAAAAGTTAGATGAAAGGTCGCATATGGAACTGAACGCGGTTTGCTC
AGCCATTCTTCAGAATAAGCTAACCAACAAACTAAAAGATCCAGGGAGTTTTATGATTCCTTGTT
TAATTGGTAGTTTAGATCTTAATAATGAGTTGGCTGATCTAGAGACTAGTATCAATGTTATGCCT
TACAAATTGTTTAAGCAACTAGGTCTAGGGAAACCAAAACAAACTAGGATAAGCATTCAATTAGC
AGATAAAACTGTCAGATTTCCTAGGGGTATCATTGAAGACATACTCGTTAAAATTCACAAATTTA
TATTCCCAGTTGATAAAGCT
Found at i:58794891 original size:20 final size:20
Alignment explanation
Indices: 58794863--58794903 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
58794853 CTAAAATTAC
*
58794863 AAAATCAGCAGGAAAGATAA
1 AAAAGCAGCAGGAAAGATAA
58794883 AAAAGCAGCAGGAAAGATAA
1 AAAAGCAGCAGGAAAGATAA
58794903 A
1 A
58794904 CTTATCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.61, C:0.10, G:0.22, T:0.07
Consensus pattern (20 bp):
AAAAGCAGCAGGAAAGATAA
Found at i:58799000 original size:19 final size:20
Alignment explanation
Indices: 58798956--58799000 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
58798946 ATTATGTTCA
58798956 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
*
58798976 T-CTTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
58798994 TATTTTT
1 TATTTTT
58799001 TTGACAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.38
19 11 0.52
20 2 0.10
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:58814199 original size:46 final size:46
Alignment explanation
Indices: 58814132--58815043 Score: 1686
Period size: 46 Copynumber: 19.8 Consensus size: 46
58814122 TATAACCCGC
* * *
58814132 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
58814178 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
58814224 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814317 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814363 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814409 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814501 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814547 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814593 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814639 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814777 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814823 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58814961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58815007 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58815044 TGCTCAACCA
Statistics
Matches: 847, Mismatches: 12, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
43 1 0.00
44 3 0.00
46 806 0.95
47 32 0.04
49 4 0.00
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58819146 original size:43 final size:43
Alignment explanation
Indices: 58819090--58819259 Score: 107
Period size: 43 Copynumber: 4.0 Consensus size: 43
58819080 AGCTCATACA
* * * *
58819090 ATGCCAATGTCCCATAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAAACAG-GGTCTTACACGAAATCAAATATCG
*
58819133 ATGCCACTATCCCAAACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAATATCCCAAACAGGGTCTTACACGAAATCAAATATCG
** ** * * * *
58819175 ACACTGATGTCCCAGACATGGTTTTACACGTAAATCTAAA-ATCG
1 ATGCCAATATCCCAAACAGGGTCTTACACG-AAATC-AAATATCG
* * * *
58819219 ATGCCAA-AGTTCCAGAC-GTGGTCTTACACAAAATCACATAT
1 ATGCCAATA-TCCCAAACAG-GGTCTTACACGAAATCAAATAT
58819260 TGGAATCCTA
Statistics
Matches: 96, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
42 24 0.25
43 48 0.50
44 24 0.25
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAAACAGGGTCTTACACGAAATCAAATATCG
Found at i:58840797 original size:32 final size:31
Alignment explanation
Indices: 58840754--58840829 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
58840744 ATTTAACTGT
* *
58840754 AAAGTGACTAAAAGCTGATAAATTAATTAATA
1 AAAGTGACTAAAA-CTAACAAATTAATTAATA
* * * *
58840786 AGAGTGACTAAAATTAACAATTTATTTAATA
1 AAAGTGACTAAAACTAACAAATTAATTAATA
58840817 AAAGTGACTAAAA
1 AAAGTGACTAAAA
58840830 TAAGAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.29
Consensus pattern (31 bp):
AAAGTGACTAAAACTAACAAATTAATTAATA
Found at i:58842657 original size:27 final size:27
Alignment explanation
Indices: 58842623--58842683 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
58842613 TCTCTTTATG
58842623 TTCT-TGGCGAAAAATTATTTTTGTGT
1 TTCTATGGCGAAAAATTATTTTTGTGT
*
58842649 TTCTATGGCGAAAAATTTTTTTTGTGT
1 TTCTATGGCGAAAAATTATTTTTGTGT
58842676 TTCTATGG
1 TTCTATGG
58842684 ACCATAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (27 bp):
TTCTATGGCGAAAAATTATTTTTGTGT
Found at i:58847139 original size:26 final size:26
Alignment explanation
Indices: 58847083--58847140 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
58847073 GTAACCATTA
** *
58847083 ATTATTACACTTATTATATCTAAAAT
1 ATTATTACACTTAACATATATAAAAT
* * *
58847109 TTTATTACACTTAACATATATATACT
1 ATTATTACACTTAACATATATAAAAT
58847135 ATTATT
1 ATTATT
58847141 TACTTTTCCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTATTACACTTAACATATATAAAAT
Found at i:58849681 original size:11 final size:11
Alignment explanation
Indices: 58849665--58849689 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58849655 TTTGGGTTTT
58849665 GTGGGATTTAA
1 GTGGGATTTAA
58849676 GTGGGATTTAA
1 GTGGGATTTAA
58849687 GTG
1 GTG
58849690 CTACTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (11 bp):
GTGGGATTTAA
Found at i:58853865 original size:20 final size:21
Alignment explanation
Indices: 58853826--58853865 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
58853816 GTCAATAGGG
58853826 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
58853847 CTACACGGGCGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
58853866 GTTCTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:58860295 original size:40 final size:39
Alignment explanation
Indices: 58860211--58860395 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
58860201 TTGAATGATG
* * * *
58860211 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58860251 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58860291 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
58860330 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
58860371 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
58860396 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58860347 original size:79 final size:79
Alignment explanation
Indices: 58860211--58860428 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 79
58860201 TTGAATGATG
* * * * **
58860211 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
58860275 TGTGCGAGATACTA-A
64 TGTGCGAGATACTATA
*
58860290 TTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
*
58860354 TGTGCGAGTTACTATA
64 TGTGCGAGATACTATA
* * * *
58860370 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
58860429 TACGTGATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 71 0.60
80 47 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGATACTATA
Found at i:58865198 original size:27 final size:25
Alignment explanation
Indices: 58865145--58865200 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
58865135 TATACAAACG
58865145 AAAATAAATAAAAAATGAATAACAT
1 AAAATAAATAAAAAATGAATAACAT
* *
58865170 AAAATAATTTAAAACAATGAATAATAT
1 AAAATAA-ATAAAA-AATGAATAACAT
58865197 AAAA
1 AAAA
58865201 AATGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 7 0.26
26 5 0.19
27 15 0.56
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATAAATAAAAAATGAATAACAT
Found at i:58865210 original size:16 final size:16
Alignment explanation
Indices: 58865147--58865211 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
58865137 TACAAACGAA
58865147 AATAA-ATAAAAAATG
1 AATAATATAAAAAATG
*
58865162 AATAACAT--AAAAT-
1 AATAATATAAAAAATG
58865175 AAT--T-TAAAACAATG
1 AATAATATAAAA-AATG
58865189 AATAATATAAAAAATG
1 AATAATATAAAAAATG
58865205 AATAATA
1 AATAATA
58865212 ATCTAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
10 1 0.02
12 2 0.05
13 6 0.15
14 8 0.20
15 5 0.12
16 14 0.34
17 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (16 bp):
AATAATATAAAAAATG
Found at i:58865219 original size:17 final size:17
Alignment explanation
Indices: 58865179--58865229 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
58865169 TAAAATAATT
58865179 TAAAACAATGAATAAT-A
1 TAAAA-AATGAATAATAA
58865196 TAAAAAATGAATAATAA
1 TAAAAAATGAATAATAA
** *
58865213 TCTAAAATAAATAATAA
1 TAAAAAATGAATAATAA
58865230 AACAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (17 bp):
TAAAAAATGAATAATAA
Found at i:58871883 original size:47 final size:47
Alignment explanation
Indices: 58871832--58871968 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 47
58871822 TTAGGATTTT
58871832 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58871879 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGCCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58871926 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
58871969 TAGTGTGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 18 0.22
47 62 0.77
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58872238 original size:37 final size:37
Alignment explanation
Indices: 58872130--58872238 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
58872120 GGAAATATAT
*
58872130 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58872167 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
58872204 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
58872239 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58877853 original size:3 final size:3
Alignment explanation
Indices: 58877822--58877895 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
58877812 ATACACGTAC
* * * *
58877822 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA GTG ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
58877869 CTA ATA GTA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58877896 CAAGGATATT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:58878378 original size:13 final size:12
Alignment explanation
Indices: 58878360--58878396 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
58878350 AGAAAAAAAA
58878360 AAGAGAGAGAGGG
1 AAGAGAGA-AGGG
58878373 AAGAGAGAAGGG
1 AAGAGAGAAGGG
58878385 -AGAGAGAAGGG
1 AAGAGAGAAGGG
58878396 A
1 A
58878397 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 4 0.17
13 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:58879609 original size:88 final size:87
Alignment explanation
Indices: 58879494--58879802 Score: 241
Period size: 88 Copynumber: 3.4 Consensus size: 87
58879484 GTCTGCTGTG
* * *
58879494 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCATTGTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCA
*
58879559 GGCAGATAGGATTACTATCTTCA
66 GG-AGATAGGATTACTAGCTTCA
* * * *** * *
58879582 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGATCTGAAATT-TTTCGGTCTGTTCCACTGTAAT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC---ATTTATTTTAATCCGCTCCACTGTAAT
* *
58879645 CTCAGGGAGATAAGATCT-CTGGCTTCA
62 CTCA-GGAGATAGGAT-TACTAGCTTCA
*
58879672 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCAC
58879737 TGTAA-CTTCAGAGAGATAGGATTACTAGCTTCA
56 TGTAATC-TCAG-GAGATAGGATTACTAGCTTCA
* * *
58879770 ATTTACTCCGCTGTAA-TCTCAGGGAGATAAGAT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGAT
58879803 TACTATGGCT
Statistics
Matches: 171, Mismatches: 28, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
87 2 0.01
88 49 0.29
89 1 0.01
90 38 0.22
91 8 0.05
92 1 0.01
93 1 0.01
95 1 0.01
96 1 0.01
97 7 0.04
98 39 0.23
99 1 0.01
100 21 0.12
101 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (87 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCA
GGAGATAGGATTACTAGCTTCA
Found at i:58879758 original size:188 final size:187
Alignment explanation
Indices: 58879461--58879850 Score: 554
Period size: 188 Copynumber: 2.1 Consensus size: 187
58879451 CTAACTGCTT
* *** *
58879461 AGGGAGATAAGATCTGTGGTTTTGTCTGCTGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* *
58879526 TCATTTATTTTAATCCACTCCATTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCC
66 TCATTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
** ** * *
58879591 GCTGTAATCTCAGGGAGATAAGATCTGA-AAT-TTTTCGGTCTGTTCCACTGTAATCTC
131 GCTGTAATCTCAGGGAGATAAGAT-T-ACAATGGCTTCAATCTGCTCCACTGTAACCTC
58879648 AGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 AGGGAGATAAGATCTCTGG-TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
* * *
58879713 ATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGATTACTAGCTTCAATTTAC
65 ATCATTTATTTTAATCCACTCCACTGTAATC-TCAG-GCAGATAGGATTACTAGCTTCAATCTAC
*
58879776 TCCGCTGTAATCTCAGGGAGATAAGATTACTATGGCTTCAATCTGCTCCACTGTAACCTC
128 TCCGCTGTAATCTCAGGGAGATAAGATTACAATGGCTTCAATCTGCTCCACTGTAACCTC
58879836 AGGGAGATAAGATCT
1 AGGGAGATAAGATCT
58879851 GAAATTCTTC
Statistics
Matches: 181, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
186 1 0.01
187 22 0.12
188 157 0.87
189 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (187 bp):
AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
TCATTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
GCTGTAATCTCAGGGAGATAAGATTACAATGGCTTCAATCTGCTCCACTGTAACCTC
Found at i:58879784 original size:44 final size:45
Alignment explanation
Indices: 58879682--58880007 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 45
58879672 ATCTGATGTG
* * * **** *
58879682 ATCTACTCTACTGTAACTTCAGAGAGATAAGA-TCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTACTAGGCTTCA
** * *
58879726 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTA-GCTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTACTAGGCTTCA
* *
58879770 ATTTACTCCGCTGTAA-TCTCAGGGAGATAAGATTACTATGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATTACTA-GGCTTCA
* * * ** *
58879816 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGAT-T-ACTAGGCTTCA
* * * * * * *
58879862 GTCTACTCCACTGTAACCTCAGGGTGATAAGA--CCT--GATACG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTACTAGGCTTCA
** * * **** *
58879903 ATCTACTCTGCTGTAACTTCAGAGAGATAAGA-TCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATTACTAGGCTTCA
** *
58879947 ATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTA-GCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATTACTAGGCTTCA
* *
58879991 ATATACTCTACTGTAAC
1 ATCTACTCCACTGTAAC
58880008 CACAAAGAGG
Statistics
Matches: 211, Mismatches: 57, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
41 29 0.14
42 3 0.01
43 2 0.01
44 101 0.48
45 6 0.03
46 67 0.32
47 2 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTACTCCACTGTAACTTCAGGGAGATAAGATTACTAGGCTTCA
Found at i:58880183 original size:224 final size:221
Alignment explanation
Indices: 58879674--58880208 Score: 629
Period size: 224 Copynumber: 2.4 Consensus size: 221
58879664 TGGCTTCAAT
*
58879674 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * * * * **
58879739 TAA-CTTCAGAGAGATAGGATTACTAGCTTCAATTTACTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATC-TCAGGGAGATAGGATTACTAGCTTCAATATACTCCACTGTAACCACAAAGAGATAAGAT
* * ** **
58879803 TACTATGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
130 TACTATGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATCTGAAAGGCTTCAATCTAC
* *
58879868 TCCACTGTAACCTCAGGGTGATAAGAC
195 TCCACTGTAACCACAGGGAGATAAGAC
* *
58879895 CTGATACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
58879960 TAATCTCAGGGAGATAGGATTACTAGCTTCAATATACTCTACTGTAACCACAAAGAGGTAA-AGT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATATACTCCACTGTAACCACAAAGAGATAAGA-T
* * **
58880024 CGGTCATCT-TCGATCTTCAATCTATTCCACTGCCAA-C-CAGGGAGAT-AGAAT-T-ATCGGCT
130 ---T-A-CTAT-G-GCTTCAATCTACTCCACTG-CAACCTCAGGGAGATAAG-ATCTGAAAGGCT
* * *
58880083 TCAATGTACTCCACTGTAACCACATGGAGGTAA-ATC
186 TCAATCTACTCCACTGTAACCACAGGGAGATAAGA-C
* * *
58880119 CTGATGCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
58880184 TAATCTCAGGGAGATAGGATTACTA
66 TAATCTCAGGGAGATAGGATTACTA
58880209 TCTTTGATCT
Statistics
Matches: 270, Mismatches: 32, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
220 1 0.00
221 113 0.42
222 1 0.00
223 1 0.00
224 116 0.43
225 5 0.02
226 14 0.05
227 17 0.06
228 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (221 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATATACTCCACTGTAACCACAAAGAGATAAGATT
ACTATGGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATCTGAAAGGCTTCAATCTACT
CCACTGTAACCACAGGGAGATAAGAC
Found at i:58880502 original size:88 final size:87
Alignment explanation
Indices: 58880370--58880696 Score: 512
Period size: 88 Copynumber: 3.7 Consensus size: 87
58880360 CACCCGAGAG
* * *
58880370 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTATCTTCAA
1 AGGCAAAGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAA
* * *
58880435 CCAGCTCCACTGCAACCGATGG
66 CCAGCTCCACTGTAACCAATGA
* *
58880457 AGGCAAGGCTTTGTTTTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCA
1 AGGCAAAGCTTTG-TTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCA
58880522 ACCAGCTCCACTGTAACCAATGA
65 ACCAGCTCCACTGTAACCAATGA
* *
58880545 AGGCAAAGCTTTGTTTTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGATATCTTCA
1 AGGCAAAGCTTTG-TTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCA
58880610 ACCAGCTCCACTGTAACCAATGA
65 ACCAGCTCCACTGTAACCAATGA
* * *
58880633 AGGCAAAGC-TTGTTTTCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCAATCTTCAA
1 AGGCAAAGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAA
58880697 TCTATTCCAC
Statistics
Matches: 226, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
86 47 0.21
87 16 0.07
88 163 0.72
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGCAAAGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAA
CCAGCTCCACTGTAACCAATGA
Found at i:58880635 original size:44 final size:43
Alignment explanation
Indices: 58880411--58880638 Score: 126
Period size: 44 Copynumber: 5.2 Consensus size: 43
58880401 GTTAACGTAG
* *
58880411 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGAT
1 GAAGGCAAGATCTG-TATCTTCAACCAGCTCCACTGTAACCAAT
* * * * * * * * * *
58880455 GGAGGCAAGGCTTTGT-TTTTCGATCTA-CTTCGCTGTTAATGC-AG
1 GAAGGCAA-GATCTGTATCTTC-AACCAGCTCCACTG-TAA-CCAAT
58880499 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTG-TATCTTCAACCAGCTCCACTGTAACCAAT
* * * * * * * * *
58880543 GAAGGCAAAGCTTTGT-TTTTCGATCTA-CTTCGCTGTTAATGC-AG
1 GAAGGC-AAGATCTGTATCTTC-AACCAGCTCCACTG-TAA-CCAAT
58880587 GAAGGCAAGATCTGATATCTTCAACCAGCTCCACTGTAACCAAT
1 GAAGGCAAGATCTG-TATCTTCAACCAGCTCCACTGTAACCAAT
58880631 GAAGGCAA
1 GAAGGCAA
58880639 AGCTTGTTTT
Statistics
Matches: 129, Mismatches: 39, Indels: 32
0.64 0.19 0.16
Matches are distributed among these distances:
43 32 0.25
44 65 0.50
45 32 0.25
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GAAGGCAAGATCTGTATCTTCAACCAGCTCCACTGTAACCAAT
Found at i:58880924 original size:86 final size:86
Alignment explanation
Indices: 58880778--58881041 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
58880768 AAATCTGCCA
* * *
58880778 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
58880843 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
58880865 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* *
58880930 AAACGAGAGTGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
58880951 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
58881016 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
58881037 TCTTC
1 TCTTC
58881042 AATTTTTACT
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
86 140 0.88
87 20 0.12
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:58883237 original size:21 final size:21
Alignment explanation
Indices: 58883199--58883238 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58883189 GATTTTGGAG
*
58883199 AAAGAATGAATAATTATTAAT
1 AAAGAATGAATAAATATTAAT
58883220 AAAGAATGAA-AGAATATTA
1 AAAGAATGAATA-AATATTA
58883239 GCTCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAGAATGAATAAATATTAAT
Found at i:58885148 original size:19 final size:20
Alignment explanation
Indices: 58885119--58885167 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
58885109 CACTTCGTGA
* *
58885119 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
58885138 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
58885158 AAATG-AATGC
1 AAATGTAATGC
58885168 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:58887717 original size:3 final size:3
Alignment explanation
Indices: 58887686--58887759 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
58887676 ATACACGTAC
* * * *
58887686 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA GTG ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
58887733 CTA ATA GTA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
58887760 CAAGGATATT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:58888245 original size:11 final size:12
Alignment explanation
Indices: 58888225--58888262 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
58888215 AGAAAAAAAA
58888225 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
58888238 GAAGAGAGAAGG
1 GAAGAGAGAAGG
58888250 G-AGAGAGAAGG
1 GAAGAGAGAAGG
58888261 GA
1 GA
58888263 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:58889933 original size:46 final size:46
Alignment explanation
Indices: 58889883--58890076 Score: 148
Period size: 46 Copynumber: 4.3 Consensus size: 46
58889873 ATCTGCTTCG
58889883 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * ** * *
58889929 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * * ** * *
58889974 CTG--TTGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
58890017 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
58890063 CTGCCAAATACAGG
1 CTGCCAAATACAGG
58890077 GAGATAGAAT
Statistics
Matches: 105, Mismatches: 35, Indels: 16
0.67 0.22 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 11 0.10
44 1 0.01
45 19 0.18
46 57 0.54
47 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:58890090 original size:134 final size:134
Alignment explanation
Indices: 58889847--58890187 Score: 621
Period size: 134 Copynumber: 2.5 Consensus size: 134
58889837 NNNNNNNNNN
58889847 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
*
58889912 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
66 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
58889977 TTGT
131 TAGT
58889981 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
*
58890046 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCCCTG
66 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
58890111 TAGT
131 TAGT
* *
58890115 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG-A
1 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
58890179 TATCTTCAA
66 -ATCTTCAA
58890188 CCAGCTCTAC
Statistics
Matches: 201, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
133 1 0.00
134 200 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGT
Found at i:58890281 original size:86 final size:86
Alignment explanation
Indices: 58890135--58890398 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
58890125 AAATCTGCCA
* * *
58890135 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
58890200 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
58890222 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* *
58890287 AAACGAGAGTGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
58890308 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
58890373 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
58890394 TCTTC
1 TCTTC
58890399 AATTTTTACT
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
86 140 0.88
87 20 0.12
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:58892594 original size:21 final size:21
Alignment explanation
Indices: 58892556--58892595 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58892546 GATTTTGGAG
*
58892556 AAAGAATGAATAATTATTAAT
1 AAAGAATGAATAAATATTAAT
58892577 AAAGAATGAA-AGAATATTA
1 AAAGAATGAATA-AATATTA
58892596 GCTCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAGAATGAATAAATATTAAT
Found at i:58894513 original size:19 final size:20
Alignment explanation
Indices: 58894484--58894532 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
58894474 CACTTCGTGA
* *
58894484 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
58894503 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
58894523 AAATG-AATGC
1 AAATGTAATGC
58894533 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:58896538 original size:30 final size:29
Alignment explanation
Indices: 58896503--58896581 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
58896493 CAAGAAAATC
58896503 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATA-AGAAACCCA
* * *
58896533 GAATAAAGAAAT-CTAGAATAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAGAAACCCA
* *
58896562 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
58896582 CGATACTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.13
Consensus pattern (29 bp):
GAATAAAGAAATCCAAGATAAGAAACCCA
Found at i:58896542 original size:15 final size:15
Alignment explanation
Indices: 58896503--58896572 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
58896493 CAAGAAAATC
58896503 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
58896518 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
*
58896533 GAATAAAGAAATCTA
1 GAATAAAGAAATCCA
*
58896548 GAAT-AAGAGATCCA
1 GAATAAAGAAATCCA
*
58896562 GGATAAAGAAA
1 GAATAAAGAAA
58896573 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
14 12 0.28
15 30 0.70
16 1 0.02
ACGTcount: A:0.57, C:0.11, G:0.19, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:58896581 original size:15 final size:15
Alignment explanation
Indices: 58896505--58896581 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
58896495 AGAAAATCGA
*
58896505 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
58896520 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
58896534 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
58896549 A-ATAAGAGATCCAGG
1 ATA-AAGAAACCCAAG
58896564 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
58896579 ATA
1 ATA
58896582 CGATACTATG
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
13 1 0.02
14 9 0.20
15 35 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:58899671 original size:46 final size:46
Alignment explanation
Indices: 58899507--58899949 Score: 707
Period size: 46 Copynumber: 9.6 Consensus size: 46
58899497 TGTAACCCGC
* * *
58899507 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * * *
58899553 CCATAAGTGAACTTTGGAGTCAACTTAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAAC-TCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
58899604 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899647 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899693 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899739 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899831 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899877 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58899923 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
58899950 NNNNNNNNNN
Statistics
Matches: 371, Mismatches: 15, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 2 0.01
45 2 0.01
46 308 0.83
47 40 0.11
48 4 0.01
49 2 0.01
50 2 0.01
51 3 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58914194 original size:42 final size:42
Alignment explanation
Indices: 58914135--58914287 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
58914125 TGTGTTATCA
* * * * *
58914135 TGTAAGACCATATCTGGGATATGGCCTTGATATGAGATTTCG
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
* *
58914177 TGTAAGACCACATCTGGGACATGGCATCGAAATGAGATGTCG
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
* * * * *
58914219 TATAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCA
1 TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
58914261 TGTAAGACCACATCTGGGACATGGCAT
1 TGTAAGACCACATCTGGGACATGGCAT
58914288 TGGCATCTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATGGCATCGATATGAGATCTCG
Found at i:58917264 original size:43 final size:42
Alignment explanation
Indices: 58917116--58917264 Score: 117
Period size: 43 Copynumber: 3.5 Consensus size: 42
58917106 TGTGATTTCG
* * *
58917116 TGTAAGACCACGTCTGGGA-CGTTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGATAG-AGGCATC-ATATT-TGA-TTACA
* * ** * *
58917160 TGTAAGACCATGTCTGGGACATCGGGATCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGATAGAGGCATCATATTTGATTACA
*
58917202 TATAAGACC-CTGT-TGGGGATAGAGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCT-GGGATAGAGGCATC-ATATTTGATTACA
58917245 TGTAAGACCACGTCTGGGAT
1 TGTAAGACCACGTCTGGGAT
58917265 GTTCGCCTTG
Statistics
Matches: 83, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.29
43 31 0.37
44 27 0.33
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATAGAGGCATCATATTTGATTACA
Found at i:58919828 original size:43 final size:43
Alignment explanation
Indices: 58919765--58919931 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 43
58919755 AGCTCATAAA
* * *
58919765 ATGCC-ATATCCCAGATATGGTCTTACATGCT-ATCTCATAT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACA--CTAATCTCATATACG
* **
58919807 ATGCCAATGTTCCAGACATGGTCTTACAC-AAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACTAATCTCATAT-ACG
* * *
58919850 ATGCCAATGTCCCAGACATGGTTTTACACATAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAATCTCATATACG
*
58919893 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAT
1 ATGCCAATGTCCCAGACATGGTCTTACA-CTAATCTCAT
58919932 CTCAACAATC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 8 0.08
42 5 0.05
43 83 0.81
44 2 0.02
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAATCTCATATACG
Found at i:58922566 original size:17 final size:17
Alignment explanation
Indices: 58922544--58922642 Score: 53
Period size: 17 Copynumber: 5.8 Consensus size: 17
58922534 TACTTTAATA
58922544 AATTTAATATTAAACTT
1 AATTTAATATTAAACTT
*
58922561 AATTTAATACTT-ATCTT
1 AATTTAATA-TTAAACTT
* * **
58922578 CA--TAGTATTTTA-TT
1 AATTTAATATTAAACTT
*
58922592 AATTTAATATTAAAGTGAT
1 AATTTAATATTAAACT--T
* *
58922611 TATCTTAATATTAAATTT
1 AAT-TTAATATTAAACTT
*
58922629 AATCTAATATTAAA
1 AATTTAATATTAAA
58922643 TCTATTAGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 7 0.11
17 25 0.41
18 5 0.08
19 3 0.05
20 12 0.20
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATTTAATATTAAACTT
Found at i:58932009 original size:179 final size:179
Alignment explanation
Indices: 58931695--58932047 Score: 512
Period size: 179 Copynumber: 2.0 Consensus size: 179
58931685 ATTATGTATG
* * * * *
58931695 TGTATGATGATGGTGGTTTGATATCATATTTCCATGTTTTTTGGAGTAAGATGTCAGACACGTAA
1 TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGGAGTAAGATGTCAGACAAGTAA
* * ** * *
58931760 AAAGGTATTGTGGAATGAGTTCACGCCTGATGGTTAGTGCCCATTTTTTATCTTTATCACTGTGC
66 AAAGATATTGTGGAATGAGTTCACGCCTGATGGGTAGTGCCCATTTTTTATCTTTAGAACTATAC
* *
58931825 AAGTTAAGTTATAAGGTAAGCTGGTTAGGAACCTACTAGATGTACTAGA
131 AAGTTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTACTAGA
* * *
58931874 TGTAAGATAATGGTGGTTTGATATTAGATTTCAATGTTTTTTGGAGTAGGATGTTAGACAAGTAA
1 TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGGAGTAAGATGTCAGACAAGTAA
* *
58931939 AAAGATATTGTGGAATGAGTTCACTCTTGA-GGAGTAGTGCGCC-TTTTTTATCTTTAGAACTAT
66 AAAGATATTGTGGAATGAGTTCACGCCTGATGG-GTAGTGC-CCATTTTTTATCTTTAGAACTAT
58932002 ACAAGTTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTA
129 ACAAGTTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTA
58932048 AATCAGGGTA
Statistics
Matches: 154, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
178 2 0.01
179 150 0.97
180 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (179 bp):
TGTAAGATAATGGTGGTTTGATATCAGATTTCAATGTTTTTTGGAGTAAGATGTCAGACAAGTAA
AAAGATATTGTGGAATGAGTTCACGCCTGATGGGTAGTGCCCATTTTTTATCTTTAGAACTATAC
AAGTTAAGTTATAAAGTAAGCTAGTTAGGAACCTACTAGATGTACTAGA
Found at i:58933084 original size:28 final size:28
Alignment explanation
Indices: 58933031--58933162 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
58933021 AACACATTAG
* * *
58933031 GAAAGAATAAGCATTTGTGACGAACTAT
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
* **
58933059 GAAAGAATAAGTCTTAATGGCAAACTA-
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
* * * *
58933086 AAAAGAATAAGCCTTTGTGGAAAATTAC
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
58933114 GAAAGAATAAGCCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGTGGCAAACTAT
58933142 GAAAGAATAAGCCTTTGTGGC
1 GAAAGAATAAGCCTTTGTGGC
58933163 CGACCCCATA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 21 0.24
28 66 0.76
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.24
Consensus pattern (28 bp):
GAAAGAATAAGCCTTTGTGGCAAACTAT
Found at i:58933118 original size:55 final size:57
Alignment explanation
Indices: 58933032--58933161 Score: 167
Period size: 55 Copynumber: 2.3 Consensus size: 57
58933022 ACACATTAGG
* * * *
58933032 AAAGAATAAGCATTTGT-GACGAACTATGAAAGAATAAGTCTTAATGGCAAACTA-A
1 AAAGAATAAGCCTTTGTGGACAAACTACGAAAGAATAAGCCTTAATGGCAAACTATA
* ** *
58933087 AAAGAATAAGCCTTTGTGGA-AAATTACGAAAGAATAAGCCTTTGTGGCAAACTATG
1 AAAGAATAAGCCTTTGTGGACAAACTACGAAAGAATAAGCCTTAATGGCAAACTATA
58933143 AAAGAATAAGCCTTTGTGG
1 AAAGAATAAGCCTTTGTGG
58933162 CCGACCCCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
55 44 0.68
56 21 0.32
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.25
Consensus pattern (57 bp):
AAAGAATAAGCCTTTGTGGACAAACTACGAAAGAATAAGCCTTAATGGCAAACTATA
Found at i:58934621 original size:62 final size:62
Alignment explanation
Indices: 58934542--58934666 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
58934532 AAAGCTTAGC
* *
58934542 AAGCTTGTATGATATTAAAGTTATCTTATTGAATAAGCACATATTAAGCATTTACATATATT
1 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAACACATATTAAGCATTTACATATATT
58934604 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAACACATATTAAGCATTTACATATATT
1 AAGCTTGTATGATATTAAACTTATCTTATTGAATAAACACATATTAAGCATTTACATATATT
58934666 A
1 A
58934667 TAATATAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (62 bp):
AAGCTTGTATGATATTAAACTTATCTTATTGAATAAACACATATTAAGCATTTACATATATT
Found at i:58935268 original size:43 final size:43
Alignment explanation
Indices: 58935221--58935326 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 43
58935211 TATCCCATAT
* **
58935221 ATGGTCTTACATGTAATC-TCACATTGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCAT-AAAACGATGCCAATGTCCCAGAC
***
58935264 ATGGTCTTACACAAAAATCATAAAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACA-TGTAATCATAAAACGATGCCAATGTCCCAGAC
58935308 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
58935327 CATCTCGATC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 16 0.31
44 35 0.67
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATAAAACGATGCCAATGTCCCAGAC
Found at i:58940341 original size:40 final size:41
Alignment explanation
Indices: 58940077--58940472 Score: 341
Period size: 40 Copynumber: 9.9 Consensus size: 41
58940067 TCGAATGATG
* *
58940077 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGACTATA
* * * * *
58940117 TTCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGACTATA
* * * *
58940156 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* * * * *
58940196 TCCGAGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* * *
58940236 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* *
58940276 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* * *
58940316 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
**
58940356 TCCGGGCTAAACCCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* ** * * *
58940396 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTG-TTTTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
* * * * *
58940436 TCCGGGCTAGGTCCCAAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAC
58940473 GTGTATTCGG
Statistics
Matches: 305, Mismatches: 42, Indels: 17
0.84 0.12 0.05
Matches are distributed among these distances:
39 34 0.11
40 251 0.82
41 20 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATA
Found at i:58941503 original size:58 final size:58
Alignment explanation
Indices: 58941413--58941528 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
58941403 TAGAGAAAAT
58941413 GTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGACCGAGTC
1 GTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGACCGAGTC
*
58941471 GTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGGTAGACCGAGTC
1 GTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGACCGAGTC
58941529 ACCAAATTAT
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:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (58 bp):
GTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGACCGAGTC
Found at i:58943516 original size:47 final size:47
Alignment explanation
Indices: 58943465--58943640 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
58943455 TTAGGATTCT
* *
58943465 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCG
* *
58943512 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
* * * * * * *
58943559 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
* * * * *
58943606 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAG
58943641 TCCCGAAGGG
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
46 1 0.01
47 113 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
Found at i:58943563 original size:94 final size:94
Alignment explanation
Indices: 58943465--58943640 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 94
58943455 TTAGGATTCT
* * * ** *
58943465 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGCATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
58943529 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATAAATGTGATAAGGCCTAATGGCCG
* * * * *
58943559 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGCATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
58943624 TGTATAAATGTGATAAG
66 TGTATAAATGTGATAAG
58943641 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
93 1 0.01
94 68 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGCATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCG
Found at i:58943815 original size:37 final size:37
Alignment explanation
Indices: 58943759--58943837 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58943749 CCGAGCTCTA
* *
58943759 AAGACCCGATGACTACGTGT-GAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGA-GATTATGTCCGGGT
*
58943796 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58943833 AAGAC
1 AAGAC
58943838 TTCGTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58949329 original size:18 final size:18
Alignment explanation
Indices: 58949308--58949342 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58949298 TTTATTGCAA
*
58949308 TTTACTTTTTATTTTTAG
1 TTTAATTTTTATTTTTAG
*
58949326 TTTAATTTTTCTTTTTA
1 TTTAATTTTTATTTTTA
58949343 CTTGCTTCTG
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:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTAATTTTTATTTTTAG
Found at i:58952140 original size:27 final size:27
Alignment explanation
Indices: 58952107--58952586 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
58952097 TAAATTGTGC
*
58952107 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952134 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952161 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952188 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952215 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952242 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58952269 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58952297 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952324 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952351 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58952379 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58952407 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58952435 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58952463 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58952490 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58952517 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
58952545 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58952572 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58952587 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:58952347 original size:82 final size:82
Alignment explanation
Indices: 58952107--58952586 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
58952097 TAAATTGTGC
*
58952107 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
58952171 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
58952188 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
58952252 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
58952269 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
58952334 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
58952351 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
58952416 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
58952435 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
58952500 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
58952517 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
58952582 GTGCG
66 GTGCG
58952587 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:58961204 original size:29 final size:29
Alignment explanation
Indices: 58961145--58961202 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
58961135 CAAATAGCCG
58961145 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
58961174 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
58961203 AAAACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:58961638 original size:39 final size:39
Alignment explanation
Indices: 58961579--58961658 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
58961569 ATTCTTCTAG
58961579 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
1 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
* *
58961618 TACTCATACTAGTCCACACATTTCATTTATTTCACATTT
1 TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
58961657 TA
1 TA
58961659 GTCCCTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (39 bp):
TACTAATACTAGTCCACACATTCCATTTATTTCACATTT
Found at i:58963571 original size:28 final size:28
Alignment explanation
Indices: 58963539--58963593 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
58963529 ATTTCATTAC
58963539 ATTAAAATTTCATGTACCATAAGTTCCT
1 ATTAAAATTTCATGTACCATAAGTTCCT
*
58963567 ATTAAAATTTCATGTACCATAATTTCC
1 ATTAAAATTTCATGTACCATAAGTTCC
58963594 ATATATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.40
Consensus pattern (28 bp):
ATTAAAATTTCATGTACCATAAGTTCCT
Found at i:58965266 original size:12 final size:12
Alignment explanation
Indices: 58965249--58965280 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
58965239 TAAAATAATA
58965249 ATAAAATATCAT
1 ATAAAATATCAT
58965261 ATAAAATATCAT
1 ATAAAATATCAT
58965273 ATAAAATA
1 ATAAAATA
58965281 ATCAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAAAATATCAT
Found at i:58965301 original size:25 final size:23
Alignment explanation
Indices: 58965237--58965301 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
58965227 TATATATGCT
58965237 AATAAAATAA-TAATAAAATATCA
1 AATAAAA-AATTAATAAAATATCA
* * *
58965260 TATAAAATATCATATAAAATAATCA
1 AATAAAAAATTA-ATAAAAT-ATCA
58965285 AATTAAAAAATTAATAA
1 AA-TAAAAAATTAATAA
58965302 CTAATAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
22 1 0.03
23 7 0.22
24 7 0.22
25 9 0.28
26 8 0.25
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAAAAAATTAATAAAATATCA
Found at i:58965315 original size:4 final size:4
Alignment explanation
Indices: 58965293--58965329 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
58965283 CAAATTAAAA
*
58965293 AATT AA-T AACT AA-T AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AAT
58965330 CTAAAATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (4 bp):
AATT
Found at i:58968545 original size:4 final size:4
Alignment explanation
Indices: 58968517--58968559 Score: 50
Period size: 4 Copynumber: 9.8 Consensus size: 4
58968507 TACCCCCACT
58968517 TTTA TGTTA TTTCA GTTTCA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA T-TTA TTT-A -TTT-A TTTA TTTA TTTA TTTA TTTA TTT
58968560 CATATTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 23 0.64
5 8 0.22
6 5 0.14
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:58970126 original size:15 final size:15
Alignment explanation
Indices: 58970101--58970146 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
58970091 TTCTGAGTCC
58970101 ATTTATTTTATTTTTT
1 ATTT-TTTTATTTTTT
58970117 ATTTTTTTATTTTTGT
1 ATTTTTTTATTTTT-T
*
58970133 -TTTATTTATTTTTT
1 ATTTTTTTATTTTTT
58970147 GAGGACTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 22 0.79
16 5 0.18
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:58970127 original size:20 final size:20
Alignment explanation
Indices: 58970102--58970144 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58970092 TCTGAGTCCA
*
58970102 TTTATTTTATTTTTTATTT-T
1 TTTATTTT-TGTTTTATTTAT
58970122 TTTATTTTTGTTTTATTTAT
1 TTTATTTTTGTTTTATTTAT
58970142 TTT
1 TTT
58970145 TTGAGGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTATTTTTGTTTTATTTAT
Found at i:58973555 original size:36 final size:37
Alignment explanation
Indices: 58973474--58973556 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
58973464 TCTTTTTCGT
* *
58973474 TTTCTTTTTC-ATTCATGTTTCTTTTTCTTTTTTCTA
1 TTTCTTTTTCTATTCATGTTTCTTTTTCTTTTCTCAA
* * *
58973510 TGTCATTTTCTA-TCAT-TTATTTTTTTCTTTTCTCAA
1 TTTCTTTTTCTATTCATGTT-TCTTTTTCTTTTCTCAA
58973546 TTTCTTTTTCT
1 TTTCTTTTTCT
58973557 TGTTTCCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 2 0.05
36 35 0.92
37 1 0.03
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (37 bp):
TTTCTTTTTCTATTCATGTTTCTTTTTCTTTTCTCAA
Found at i:58975655 original size:19 final size:19
Alignment explanation
Indices: 58975628--58975667 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
58975618 TTATTCTAGC
*
58975628 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAACATG
*
58975647 AACTTAATTAACTAACATG
1 AACTAAATTAACTAACATG
58975666 AA
1 AA
58975668 TAGTTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAACATG
Found at i:58981510 original size:24 final size:24
Alignment explanation
Indices: 58981476--58981525 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
58981466 AAATATGTAC
*
58981476 AATGTCTCCCTTATATGTAACCGA
1 AATGTCCCCCTTATATGTAACCGA
* * *
58981500 AATGTCCCCCTTGTTTGTAATCGA
1 AATGTCCCCCTTATATGTAACCGA
58981524 AA
1 AA
58981526 ATCACTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (24 bp):
AATGTCCCCCTTATATGTAACCGA
Found at i:58985413 original size:21 final size:22
Alignment explanation
Indices: 58985389--58985436 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
58985379 TTTTATGTAC
* *
58985389 TTTTCTTTTTCTTTC-ATGTCT
1 TTTTCTTCTTCTCTCGATGTCT
*
58985410 TTTT-TTCTTCTCTCGATTTCT
1 TTTTCTTCTTCTCTCGATGTCT
58985431 TTTTCT
1 TTTTCT
58985437 CGCTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 13 0.59
22 1 0.05
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTCTTCTTCTCTCGATGTCT
Found at i:58985420 original size:20 final size:20
Alignment explanation
Indices: 58985383--58985434 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
58985373 TTCTCTTTTT
*
58985383 ATGTACTTTTCTTTTTCTTTC-
1 ATGT-CTTTT-TTTTTCTCTCG
58985404 ATGTCTTTTTTTCTTCTCTCG
1 ATGTCTTTTTTT-TTCTCTCG
*
58985425 ATTTCTTTTT
1 ATGTCTTTTT
58985435 CTCGCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 11 0.41
21 13 0.48
ACGTcount: A:0.08, C:0.19, G:0.06, T:0.67
Consensus pattern (20 bp):
ATGTCTTTTTTTTTCTCTCG
Found at i:58987368 original size:24 final size:24
Alignment explanation
Indices: 58987334--58987383 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
58987324 AATGATGTAT
*
58987334 AATGTCTCCCTTGTATGTAACAGA
1 AATGTCCCCCTTGTATGTAACAGA
*
58987358 AATGTCCCCCTTGTATGTAACCGA
1 AATGTCCCCCTTGTATGTAACAGA
58987382 AA
1 AA
58987384 ATCACATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (24 bp):
AATGTCCCCCTTGTATGTAACAGA
Found at i:59000917 original size:43 final size:43
Alignment explanation
Indices: 59000856--59000946 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
59000846 CAAACCATAT
*
59000856 AGAATGTACACTTGTCTGTTCTATCTGACAATGTGTTAGTAGC
1 AGAATGTACACTTGTCTGTTCTATCCGACAATGTGTTAGTAGC
59000899 AGAATGTACACTTGTCTGTTCTATCCGACAATGTGTTAGTAGC
1 AGAATGTACACTTGTCTGTTCTATCCGACAATGTGTTAGTAGC
59000942 AGAAT
1 AGAAT
59000947 TAAAGGCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
AGAATGTACACTTGTCTGTTCTATCCGACAATGTGTTAGTAGC
Found at i:59001954 original size:250 final size:250
Alignment explanation
Indices: 59001511--59002006 Score: 965
Period size: 250 Copynumber: 2.0 Consensus size: 250
59001501 CTCCCCGGGT
*
59001511 GAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATAAGTTCTGAATTTCTTGGA
1 GAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATAAGTTCTGAATTTATTGGA
59001576 ACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTGATTCCATATT
66 ACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTGATTCCATATT
59001641 CGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCACAAATTTGAT
131 CGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCACAAATTTGAT
*
59001706 GAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCGGATACTGG
196 GAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATACTGG
59001761 GAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATAAGTTCTGAATTTATTGGA
1 GAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATAAGTTCTGAATTTATTGGA
59001826 ACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTGATTCCATATT
66 ACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTGATTCCATATT
*
59001891 CGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCACGAATTTGAT
131 CGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCACAAATTTGAT
59001956 GAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATA
196 GAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATA
59002007 GAACAGACAA
Statistics
Matches: 243, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 243 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (250 bp):
GAATTGACATTCGGCTACAATGAGCTTCGTTCAGAATCATCGAAATAAGTTCTGAATTTATTGGA
ACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTGATTCCATATT
CGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCACAAATTTGAT
GAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATACTGG
Found at i:59002179 original size:208 final size:208
Alignment explanation
Indices: 59001816--59002229 Score: 810
Period size: 208 Copynumber: 2.0 Consensus size: 208
59001806 TAAGTTCTGA
59001816 ATTTATTGGAACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTG
1 ATTTATTGGAACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTG
59001881 ATTCCATATTCGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCA
66 ATTCCATATTCGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCA
59001946 CGAATTTGATGAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATAGAAC
131 CGAATTTGATGAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATAGAAC
59002011 AGACAAGTGTACC
196 AGACAAGTGTACC
*
59002024 ATTTCTTGGAACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTG
1 ATTTATTGGAACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTG
59002089 ATTCCATATTCGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCA
66 ATTCCATATTCGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCA
*
59002154 CGAATTTGATGAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCGGATAGAAC
131 CGAATTTGATGAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATAGAAC
59002219 AGACAAGTGTA
196 AGACAAGTGTA
59002230 TCGATATAAA
Statistics
Matches: 204, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 204 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (208 bp):
ATTTATTGGAACACACAAACGACTTCTGAACCTCAAACAATCGTCATCATCAATTTGAAACTCTG
ATTCCATATTCGAAACACATTCAGCCCGTCTTGCGACCAATTCATCATCGACATTCTGAGCTTCA
CGAATTTGATGAATCAACAATGGTTTGGCCTTTAATTCTGCTACTAACACATTGTCAGATAGAAC
AGACAAGTGTACC
Found at i:59004333 original size:20 final size:20
Alignment explanation
Indices: 59004297--59004334 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59004287 ATTACCGATA
*
59004297 ATTTACAATATATAGCATAC
1 ATTTACAATATAAAGCATAC
59004317 ATTTATCAA-ATAAAGCAT
1 ATTTA-CAATATAAAGCAT
59004335 TTATTCTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTTACAATATAAAGCATAC
Found at i:59004467 original size:12 final size:12
Alignment explanation
Indices: 59004450--59004474 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59004440 GCATTTGAGC
59004450 ATTTGAGCAACT
1 ATTTGAGCAACT
59004462 ATTTGAGCAACT
1 ATTTGAGCAACT
59004474 A
1 A
59004475 AAATGATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTTGAGCAACT
Found at i:59005197 original size:40 final size:40
Alignment explanation
Indices: 59005083--59005219 Score: 193
Period size: 40 Copynumber: 3.4 Consensus size: 40
59005073 ACCCGATATC
* * *
59005083 TCGCACACTAAGTGCCCTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
* *
59005123 TCACACACTAAGTGCCATATATAACCGAAGCTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
***
59005163 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
*
59005203 TTGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
59005220 CTGTAATATC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
Found at i:59006565 original size:46 final size:46
Alignment explanation
Indices: 59006515--59006687 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
59006505 TGGTTGAGCA
59006515 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59006561 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59006606 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59006654 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59006688 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59006671 original size:93 final size:93
Alignment explanation
Indices: 59006512--59006682 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59006502 GGATGGTTGA
* *
59006512 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59006577 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59006605 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59006670 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59006683 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59009664 original size:35 final size:35
Alignment explanation
Indices: 59009625--59009694 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
59009615 TTTTTAATCA
* *
59009625 TGAAATATTATGCTTTGTGGTTAATGTTGAGTAAT
1 TGAAATATTATGCTTTGGGGTTAATGTTGAATAAT
*
59009660 TGAAATATTATGCTTTGGGGTTATTGTTGAATAAT
1 TGAAATATTATGCTTTGGGGTTAATGTTGAATAAT
59009695 ATGTAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (35 bp):
TGAAATATTATGCTTTGGGGTTAATGTTGAATAAT
Found at i:59009909 original size:46 final size:46
Alignment explanation
Indices: 59009855--59010123 Score: 284
Period size: 46 Copynumber: 5.8 Consensus size: 46
59009845 TGGTTGAGCA
59009855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59009901 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
59009946 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59009994 CCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59010039 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59010087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59010124 GCGGGTTACA
Statistics
Matches: 185, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 90 0.49
47 56 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59009974 original size:47 final size:47
Alignment explanation
Indices: 59009905--59010069 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 47
59009895 CGAATGTCCA
59009905 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * *
59009952 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
59009998 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
59010045 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
59010070 ACTTATGGAT
Statistics
Matches: 103, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 28 0.27
47 53 0.51
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
Found at i:59010011 original size:93 final size:93
Alignment explanation
Indices: 59009852--59010116 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
59009842 GGATGGTTGA
* *
59009852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
59009917 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
59009945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
59010010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
59010038 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
59010103 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59010117 CTTATGGGCG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59013067 original size:15 final size:15
Alignment explanation
Indices: 59013047--59013115 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
59013037 GTATCTTGGG
59013047 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
59013062 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
59013077 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
59013092 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
59013107 TTTCTTTAT
1 TTTCTTTAT
59013116 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Done.