Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 197 of 228
Found at i:58007676 original size:12 final size:12
Alignment explanation
Indices: 58007656--58007690 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
58007646 AAAATAAAAA
58007656 ATATGTATATAG
1 ATATGTATATAG
*
58007668 ATATATATATAG
1 ATATGTATATAG
58007680 ATATGTATATA
1 ATATGTATATA
58007691 AATTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (12 bp):
ATATGTATATAG
Found at i:58007864 original size:39 final size:37
Alignment explanation
Indices: 58007769--58007867 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 37
58007759 TACGTGCATA
* *
58007769 TATATGTATATATATAAAGTATAAAAAGTATAAAAGTATG
1 TATATGTACATATAT--A-TATAAAAAGTATAAAAATATG
58007809 TATATGTACATATATATATAAATAAGTTATAAAAATATG
1 TATATGTACATATATATATAAA-AAG-TATAAAAATATG
* * *
58007848 TATGTGTATATGTATATATA
1 TATATGTACATATATATATA
58007868 TTATAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 6 0.12
38 4 0.08
39 28 0.54
40 14 0.27
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.39
Consensus pattern (37 bp):
TATATGTACATATATATATAAAAAGTATAAAAATATG
Found at i:58007893 original size:30 final size:33
Alignment explanation
Indices: 58007810--58007901 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 33
58007800 AAAAGTATGT
** * * *
58007810 ATATGTACATATATATATAAATAAGTTATAAAA
1 ATATGTATGTATATATGTATATAAATTATAAAA
* *
58007843 ATATGTATGTGTATATGTATATATATTAT-AAA
1 ATATGTATGTATATATGTATATAAATTATAAAA
58007875 A-ATGTATGTATA-ATGTATATAAATTAT
1 ATATGTATGTATATATGTATATAAATTAT
58007902 GAAGTATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
30 14 0.28
31 10 0.20
32 4 0.08
33 22 0.44
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (33 bp):
ATATGTATGTATATATGTATATAAATTATAAAA
Found at i:58009228 original size:16 final size:16
Alignment explanation
Indices: 58009203--58009240 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
58009193 TTGAATTACT
*
58009203 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
58009219 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
58009235 ATTACA
1 ATTACA
58009241 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:58015498 original size:25 final size:23
Alignment explanation
Indices: 58015454--58015508 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
58015444 GTTTATATTT
58015454 TATAA-TTTTTATTTTTAAAAAA
1 TATAATTTTTTATTTTTAAAAAA
*
58015476 TATGATTTTTTATATTTTAAAAAA
1 TATAATTTTTTAT-TTTTAAAAAA
58015500 TTATAATTT
1 -TATAATTT
58015509 GAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 10 0.36
25 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATAATTTTTTATTTTTAAAAAA
Found at i:58019591 original size:29 final size:29
Alignment explanation
Indices: 58019535--58019593 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
58019525 TTTTAAAATT
**
58019535 TAAAAAATAATAAAAACTATTTTCAAAAA
1 TAAAAAATAATAAAAACTATTTAAAAAAA
* * *
58019564 TAAAAAATCATTAAAATTATTTAAAAAAA
1 TAAAAAATAATAAAAACTATTTAAAAAAA
58019593 T
1 T
58019594 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (29 bp):
TAAAAAATAATAAAAACTATTTAAAAAAA
Found at i:58020210 original size:14 final size:15
Alignment explanation
Indices: 58020188--58020264 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
58020178 CAATCAAACA
58020188 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
58020202 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
58020217 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
58020237 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
58020251 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
58020265 ACTAGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:58020229 original size:20 final size:20
Alignment explanation
Indices: 58020204--58020243 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58020194 AATATTTTCC
*
58020204 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
58020224 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
58020244 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:58020249 original size:34 final size:35
Alignment explanation
Indices: 58020192--58020258 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
58020182 CAAACACCAG
*
58020192 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
58020227 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
58020259 TATTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:58021190 original size:20 final size:18
Alignment explanation
Indices: 58021156--58021192 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
58021146 ATTGAATTAT
58021156 TCACAAGATTTATTTAAG
1 TCACAAGATTTATTTAAG
58021174 TCACTAAGATGTTATTTAA
1 TCAC-AAGAT-TTATTTAA
58021193 AAAAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TCACAAGATTTATTTAAG
Found at i:58025442 original size:2 final size:2
Alignment explanation
Indices: 58025435--58025530 Score: 192
Period size: 2 Copynumber: 48.0 Consensus size: 2
58025425 GTAGGGACGT
58025435 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58025477 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58025519 GA GA GA GA GA GA
1 GA GA GA GA GA GA
58025531 TGGGACACTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 94 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:58032238 original size:43 final size:43
Alignment explanation
Indices: 58032177--58032261 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
58032167 ATATCCAAGC
*
58032177 CAAGGGTGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
1 CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
* * *
58032220 CAAGGATGGCGACAATAGTTTAATTATATTGCGTGACCATAG
1 CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAG
58032262 GATAGACAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (43 bp):
CAAGGATGGCAACAATAGTTTAATTATATCGAGTGACCATAGT
Found at i:58049087 original size:22 final size:22
Alignment explanation
Indices: 58049029--58049087 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
58049019 TATTTATATC
*
58049029 ATAATTTCCAAAATTTAAATTT
1 ATAATTTCCATAATTTAAATTT
** * *
58049051 ATAA-ACCCCTGAATTTTAATTT
1 ATAATTTCCAT-AATTTAAATTT
58049073 ATAATTTCCATAATT
1 ATAATTTCCATAATT
58049088 AAGCCACCAA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
21 2 0.07
22 22 0.81
23 3 0.11
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTTCCATAATTTAAATTT
Found at i:58049433 original size:22 final size:22
Alignment explanation
Indices: 58049382--58049426 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
58049372 TTTTTAAAAC
58049382 TTAGAATTAGTTGAATGCTAAA
1 TTAGAATTAGTTGAATGCTAAA
58049404 TTAGAATTAGTTGAATGCTAAA
1 TTAGAATTAGTTGAATGCTAAA
58049426 T
1 T
58049427 CTAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
TTAGAATTAGTTGAATGCTAAA
Found at i:58055119 original size:12 final size:12
Alignment explanation
Indices: 58055102--58055126 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58055092 TTCAATCACC
58055102 TTTCAATATTTT
1 TTTCAATATTTT
58055114 TTTCAATATTTT
1 TTTCAATATTTT
58055126 T
1 T
58055127 CTTTGTACTG
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCAATATTTT
Found at i:58055784 original size:16 final size:17
Alignment explanation
Indices: 58055758--58055793 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
58055748 GTATATATAC
*
58055758 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
58055775 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
58055791 ATA
1 ATA
58055794 TACGTTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:58055811 original size:23 final size:23
Alignment explanation
Indices: 58055785--58055857 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
58055775 ATACTTTATA
58055785 ATTTATATATACGTTATACATAT
1 ATTTATATATACGTTATACATAT
*
58055808 ATTTTTATAATA--TATATACATAT
1 ATTTATAT-ATACGT-TATACATAT
* *
58055831 A--TACATATACG-TGTACATAT
1 ATTTATATATACGTTATACATAT
*
58055851 TTTTATA
1 ATTTATA
58055858 ACTTATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
20 11 0.29
21 3 0.08
22 4 0.11
23 17 0.45
24 3 0.08
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTTATATATACGTTATACATAT
Found at i:58055882 original size:43 final size:43
Alignment explanation
Indices: 58055788--58055933 Score: 107
Period size: 47 Copynumber: 3.2 Consensus size: 43
58055778 CTTTATAATT
58055788 TATATATACGTTATACATATATTTTTATAATATATATACATATA
1 TATATATACGTTATACA-ATATTTTTATAATATATATACATATA
* * *
58055832 TACATATACG-TGTAC-ATATTTTTATAACTTATTTATATATATGTATA
1 TATATATACGTTATACAATATTTTTATAA--TA--TATATACA--TATA
* * * * *
58055879 TATACATACTTATATATTCTATATATTTTATAATTTATATACATATC
1 TATATATACGT-TATA--CAATAT-TTTTATAATATATATACATATA
58055926 TATATATA
1 TATATATA
58055934 TACATCTATA
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
41 12 0.15
43 6 0.08
44 9 0.11
45 7 0.09
47 21 0.27
49 10 0.13
51 2 0.03
52 4 0.05
53 8 0.10
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (43 bp):
TATATATACGTTATACAATATTTTTATAATATATATACATATA
Found at i:58055935 original size:53 final size:50
Alignment explanation
Indices: 58055847--58055945 Score: 126
Period size: 53 Copynumber: 1.9 Consensus size: 50
58055837 ATACGTGTAC
* * *
58055847 ATATTTTTATAACTTATTTATATATATGTATATATACATACTTATATATTCT
1 ATATTTTTATAACTTATATACATATATATATATATACAT-C-TATATATTCT
* *
58055899 ATATATTTTATAATTTATATACATATCTATATATATACATCTATATA
1 ATAT-TTTTATAACTTATATACATATATATATATATACATCTATATA
58055946 CATTTTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 6 0.15
52 5 0.12
53 30 0.73
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (50 bp):
ATATTTTTATAACTTATATACATATATATATATATACATCTATATATTCT
Found at i:58056342 original size:20 final size:21
Alignment explanation
Indices: 58056307--58056351 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
58056297 TTCCTCATAT
58056307 TATTTTTATTCATATTAT-CA
1 TATTTTTATTCATATTATGCA
58056327 TATTTATTATTC-TATTATGCA
1 TATTT-TTATTCATATTATGCA
58056348 TATT
1 TATT
58056352 AACACCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTATTCATATTATGCA
Found at i:58056623 original size:107 final size:107
Alignment explanation
Indices: 58056379--58056664 Score: 439
Period size: 107 Copynumber: 2.7 Consensus size: 107
58056369 AAAGAAAATT
*
58056379 TTTCTAAA-TAAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTC-AAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
** * *
58056443 TCGATTTTTTTTGTTCGAACAAATAGCCAAATATCCTTTTAAAA
65 TCGA-TTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAA
* * * *
58056487 TTTTAAAGTAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
58056552 CGATTTTTCCGTCCGACCATATAGCCAAATATCATTTTAAAA
66 CGATTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAA
*
58056594 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATATGCTGGGTTT
1 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
58056659 CGATTT
66 CGATTT
58056665 CTCGTTTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
107 102 0.63
108 59 0.37
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (107 bp):
TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCCGTCCGAACAAATAGCCAAATATCATTTTAAAA
Found at i:58060242 original size:66 final size:66
Alignment explanation
Indices: 58060160--58060450 Score: 289
Period size: 66 Copynumber: 4.4 Consensus size: 66
58060150 CTATGATTGC
* ** * * * *
58060160 TGGGGAGAGTGATGTTGGTGGAGTAGAAACTGATGGGGTGGGTTATGTTGAAGGGGTACAAGTTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
58060225 A
66 A
** ** *
58060226 TGGGGAGGGTGATGTTGAAGGAAAATGAAA-TGATGATGAGGGTGATGTAGAAGGGGTACAAGTT
1 TGGGGAGGGTGATGTTGAAGGAGTA-GAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCT
58060290 GA
65 GA
* * ** * **
58060292 TAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGATGTGGAAAGTGATGTAGAAGGGGTACAAGCTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
58060357 A
66 A
* * * * * * * * * *
58060358 TGAGGTGGGTAATGTAGATGGGGTACAAGCTGTTGGGGAGGGTGATGTAGAAGGGGTACAAACTG
1 TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
*
58060423 T
66 A
58060424 TGGGGAGGGTGATGTTGAAGG-GTAGAA
1 TGGGGAGGGTGATGTTGAAGGAGTAGAA
58060451 GGTGACGAGG
Statistics
Matches: 181, Mismatches: 42, Indels: 5
0.79 0.18 0.02
Matches are distributed among these distances:
65 8 0.04
66 169 0.93
67 4 0.02
ACGTcount: A:0.29, C:0.03, G:0.44, T:0.24
Consensus pattern (66 bp):
TGGGGAGGGTGATGTTGAAGGAGTAGAAACTGATGGGGAGGGTGATGTAGAAGGGGTACAAGCTG
A
Found at i:58060324 original size:21 final size:24
Alignment explanation
Indices: 58060299--58060345 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
58060289 TGATAGGAAG
*
58060299 GGTGATGTTG-AAG-GA-GTAGAA
1 GGTGATGTGGAAAGTGATGTAGAA
58060320 GGTGATGTGGAAAGTGATGTAGAA
1 GGTGATGTGGAAAGTGATGTAGAA
58060344 GG
1 GG
58060346 GGTACAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 2 0.09
24 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (24 bp):
GGTGATGTGGAAAGTGATGTAGAA
Found at i:58060445 original size:33 final size:33
Alignment explanation
Indices: 58060160--58060445 Score: 232
Period size: 33 Copynumber: 8.7 Consensus size: 33
58060150 CTATGATTGC
* ** * * *
58060160 TGGGGAGAGTGATGTTGGTGGAGTAGAAACTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * *
58060193 TGGGGTGGGTTATGTTGAAGGGGTACAAGTTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
*** * *
58060226 TGGGGAGGGTGATGTTGAAGGAAAATGAA-ATGA
1 TGGGGAGGGTGATGTTGAAGGGGTA-CAAGCTGA
** * *
58060259 TGATGAGGGTGATGTAGAAGGGGTACAAGTTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * * * *
58060292 TAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* ** *
58060325 TGTGGAAAGTGATGTAGAAGGGGTACAAGCTGA
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * * * * *
58060358 TGAGGTGGGTAATGTAGATGGGGTACAAGCTGT
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
* * *
58060391 TGGGGAGGGTGATGTAGAAGGGGTACAAACTGT
1 TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
58060424 TGGGGAGGGTGATGTTGAAGGG
1 TGGGGAGGGTGATGTTGAAGGG
58060446 TAGAAGGTGA
Statistics
Matches: 197, Mismatches: 54, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
32 2 0.01
33 193 0.98
34 2 0.01
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.24
Consensus pattern (33 bp):
TGGGGAGGGTGATGTTGAAGGGGTACAAGCTGA
Found at i:58060445 original size:99 final size:99
Alignment explanation
Indices: 58060189--58060445 Score: 264
Period size: 99 Copynumber: 2.6 Consensus size: 99
58060179 GGAGTAGAAA
* * * * *
58060189 CTGATGGGGTGGGTTATGTTGAAGGGGTACAAGTTGATGGGGAGGGTGATGTTGAAGGAAAATGA
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
* *
58060254 AATGATGATGAGGGTGATGTAGAAGGGGTACAAG
66 AATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
* * * * * * * ** * **
58060288 TTGATAGGAAGGGTGATGTTGAAGGAGTAGAAGGTGATGTGGAAAGTGATGTAGAAGGGGTA-CA
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
* * *
58060352 AGCTGATGAGGTGGGTAATGTAGATGGGGTACAAG
66 A-ATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
* * * *
58060387 CTGTTGGGGAGGGTGATGTAGAAGGGGTACAAACTGTTGGGGAGGGTGATGTTGAAGGG
1 CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGG
58060446 TAGAAGGTGA
Statistics
Matches: 122, Mismatches: 35, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
98 2 0.02
99 120 0.98
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (99 bp):
CTGATGGGGAGGGTGATGTTGAAGGGGTACAAGCTGATGGGGAGGGTGATGTTGAAGGGAAATCA
AATGATGAGGAGGGTAATGTAGAAGGGGTACAAG
Found at i:58065410 original size:22 final size:22
Alignment explanation
Indices: 58065380--58065422 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
58065370 ACAGCAGAAC
* *
58065380 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
58065402 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
58065423 AACACCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:58065571 original size:42 final size:42
Alignment explanation
Indices: 58065520--58065806 Score: 300
Period size: 42 Copynumber: 6.8 Consensus size: 42
58065510 ATAAAAAAAG
*
58065520 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAA-AATGC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAA-AC
* * *
58065562 GCCGCTAAAGATTATGTTCTTTAGTGGCGCTTACAAATAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
* **
58065604 GCCGCTAAAGAACATAATCTTTAGCGGCGCTTAGAAATAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
* *
58065646 GCCGCTAAATATCATGTTCTTTAGCGGCGCTTAGGAAAAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAATAAAC
* * *
58065689 GCCGCTAAAGTTCATGTTCTTTAGCGGCGCTTTTGAGGA-AAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGA-AATAAAC
* * * *
58065732 GCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTCAA-AAAC
1 GCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG--AAATAAAC
58065774 GCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 GCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
58065807 TTTTACAAAT
Statistics
Matches: 209, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 135 0.65
43 69 0.33
44 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (42 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAAC
Found at i:58065826 original size:18 final size:18
Alignment explanation
Indices: 58065803--58065840 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58065793 TTTAGCGGCG
*
58065803 CTTATTTTACAAATGCCA
1 CTTATTTCACAAATGCCA
58065821 CTTATTTCACAAATGCCA
1 CTTATTTCACAAATGCCA
58065839 CT
1 CT
58065841 GTTTTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (18 bp):
CTTATTTCACAAATGCCA
Found at i:58066280 original size:21 final size:21
Alignment explanation
Indices: 58066256--58066345 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
58066246 GCTTCTATTG
58066256 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
58066277 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
58066298 CTGCTTCTCTCACTGTAGCCGT
1 CTGCTTCTCTCGCTGCAGCC-T
* * *
58066320 -TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
58066340 CTGCTT
1 CTGCTT
58066346 TAAGTTGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:58066324 original size:42 final size:42
Alignment explanation
Indices: 58066256--58066345 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
58066246 GCTTCTATTG
* * *
58066256 CTGCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
*
58066298 CTGCTTCTCTCACTGTAGCCGT-TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCACTGCAGCC-TCTGCTTCCCTCGCTGCCGCAT
58066340 CTGCTT
1 CTGCTT
58066346 TAAGTTGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (42 bp):
CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
Found at i:58071825 original size:9 final size:9
Alignment explanation
Indices: 58071811--58072003 Score: 149
Period size: 9 Copynumber: 22.8 Consensus size: 9
58071801 AACTTATTTA
58071811 TTATGTAAG
1 TTATGTAAG
58071820 TTATGTAAG
1 TTATGTAAG
*
58071829 TTCTGTAAG
1 TTATGTAAG
58071838 TTATGTAAG
1 TTATGTAAG
*
58071847 CTATGTAAG
1 TTATGTAAG
*
58071856 TTGTGT-A-
1 TTATGTAAG
* *
58071863 TTATGAAAC
1 TTATGTAAG
58071872 TTATGTAAG
1 TTATGTAAG
*
58071881 TTATGT--C
1 TTATGTAAG
58071888 TTATGTAAG
1 TTATGTAAG
* *
58071897 TGATGTAAA
1 TTATGTAAG
*
58071906 ATATGT-A-
1 TTATGTAAG
58071913 TTATGTAAG
1 TTATGTAAG
*
58071922 TTATGTCAG
1 TTATGTAAG
*
58071931 TTGTGT-A-
1 TTATGTAAG
*
58071938 TTATGTAAA
1 TTATGTAAG
58071947 TTATGT-A-
1 TTATGTAAG
58071954 TTATGTAAG
1 TTATGTAAG
*
58071963 TTATGTAAT
1 TTATGTAAG
*
58071972 TTGTGT-A-
1 TTATGTAAG
*
58071979 TTATGTAAC
1 TTATGTAAG
* *
58071988 TTATTTAAT
1 TTATGTAAG
58071997 TTATGTA
1 TTATGTA
58072004 CGGTATGTGT
Statistics
Matches: 147, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
7 31 0.21
8 10 0.07
9 106 0.72
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:58071876 original size:25 final size:25
Alignment explanation
Indices: 58071804--58071960 Score: 131
Period size: 25 Copynumber: 6.3 Consensus size: 25
58071794 TAGGAATAAC
* *
58071804 TTATTTATTATGTAAGTTATGTAAG
1 TTATGTATTATGAAAGTTATGTAAG
* * *
58071829 TTCTGTAAGTTATGTAAGCTATGTAAG
1 TTATGT-A-TTATGAAAGTTATGTAAG
* *
58071856 TTGTGTATTATGAAACTTATGTAAG
1 TTATGTATTATGAAAGTTATGTAAG
* * * *
58071881 TTATGTCTTATGTAAGTGATGTAAA
1 TTATGTATTATGAAAGTTATGTAAG
* * *
58071906 ATATGTATTATGTAAGTTATGTCAG
1 TTATGTATTATGAAAGTTATGTAAG
*
58071931 TTGTGTATTATGTAAA-TTATGT-A-
1 TTATGTATTATG-AAAGTTATGTAAG
58071954 TTATGTA
1 TTATGTA
58071961 AGTTATGTAA
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
23 6 0.06
24 1 0.01
25 74 0.69
26 4 0.04
27 22 0.21
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGAAAGTTATGTAAG
Found at i:58071890 original size:16 final size:16
Alignment explanation
Indices: 58071804--58071969 Score: 98
Period size: 16 Copynumber: 10.4 Consensus size: 16
58071794 TAGGAATAAC
*
58071804 TTATTTATTATGTAAG
1 TTATGTATTATGTAAG
*
58071820 TTATGTAAGTTCTGTAAG
1 TTATGT-A-TTATGTAAG
*
58071838 TTATGTAAGCTATGTAAG
1 TTATGT-A-TTATGTAAG
*
58071856 TTGTGTATTATG-AA-
1 TTATGTATTATGTAAG
*
58071870 --A---CTTATGTAAG
1 TTATGTATTATGTAAG
*
58071881 TTATGTCTTATGTAAG
1 TTATGTATTATGTAAG
* *
58071897 TGATGTAAAATATGT-A-
1 TTATGT--ATTATGTAAG
*
58071913 TTATGTAAGTTATGTCAG
1 TTATGT-A-TTATGTAAG
* *
58071931 TTGTGTATTATGTAAA
1 TTATGTATTATGTAAG
58071947 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
58071963 TTATGTA
1 TTATGTA
58071970 ATTTGTGTAT
Statistics
Matches: 118, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
9 5 0.04
10 2 0.02
13 1 0.01
15 4 0.03
16 62 0.53
17 5 0.04
18 39 0.33
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:58071913 original size:50 final size:50
Alignment explanation
Indices: 58071809--58071986 Score: 160
Period size: 50 Copynumber: 3.7 Consensus size: 50
58071799 ATAACTTATT
* ** *
58071809 TATTATGTAAGTTATGTAAGTTCTGTAAGTTATGTAAGCTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAGCTATGTAAAATATG
* * *
58071861 TATTATGAAACTTATGTAAGTTATGTCTTATGTAAG-TGATGTAAAATATG
1 TATTATGTAAGTTATGTAAGTTATGTATTATGTAAGCT-ATGTAAAATATG
* *
58071911 TATTATGTAAGTTATGTCAGTTGTGTATTATGTAA---A--T----TATG
1 TATTATGTAAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAAATATG
* *
58071952 TATTATGTAAGTTATGTAATTTGTGTATTATGTAA
1 TATTATGTAAGTTATGTAAGTTATGTATTATGTAA
58071987 CTTATTTAAT
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
41 37 0.33
45 1 0.01
47 1 0.01
49 1 0.01
50 48 0.43
52 23 0.21
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (50 bp):
TATTATGTAAGTTATGTAAGTTATGTATTATGTAAGCTATGTAAAATATG
Found at i:58071917 original size:41 final size:40
Alignment explanation
Indices: 58071872--58071986 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
58071862 ATTATGAAAC
58071872 TTATGTAAGTTATGTC-TTATGTAAGTGATGTAAAATATGTA
1 TTATGTAAGTTATGTCATTATGT-A-TGATGTAAAATATGTA
* * *
58071913 TTATGTAAGTTATGTCAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTCA-TTATGTATGATGTAAAATATGTA
* * *
58071954 TTATGTAAGTTATGTAATTTGTGTATTATGTAA
1 TTATGTAAGTTATGTCA-TTATGTATGATGTAA
58071987 CTTATTTAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 61 0.91
42 1 0.01
43 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTTATGTCATTATGTATGATGTAAAATATGTA
Found at i:58071966 original size:25 final size:24
Alignment explanation
Indices: 58071810--58072003 Score: 99
Period size: 25 Copynumber: 7.7 Consensus size: 24
58071800 TAACTTATTT
* *
58071810 ATTATGTAAGTTATGTAAGTTCTGTA
1 ATTATGTAATTTATGT-A-TTATGTA
** *
58071836 AGTTATGTAAGCTATGTAAGTTGTGT-
1 A-TTATGTAATTTATGT-A-TTATGTA
* *
58071862 ATTATGAAACTTATGTAAGTTATGT-
1 ATTATGTAATTTATGT-A-TTATGTA
* * * *
58071887 CTTATGTAAGTGATGTAAAATATGT-
1 ATTATGTAATTTATGT--ATTATGTA
* *
58071912 ATTATGTAAGTTATGTCAGTTGTGT-
1 ATTATGTAATTTATGT-A-TTATGTA
*
58071937 ATTATGTAAATTATGTATTATGTA
1 ATTATGTAATTTATGTATTATGTA
*
58071961 AGTTATGTAATTTGTGTATTATGTA
1 A-TTATGTAATTTATGTATTATGTA
*
58071986 ACTTATTTAATTTATGTA
1 A-TTATGTAATTTATGTA
58072004 CGGTATGTGT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
23 5 0.04
24 3 0.02
25 106 0.76
26 4 0.03
27 22 0.16
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (24 bp):
ATTATGTAATTTATGTATTATGTA
Found at i:58072205 original size:87 final size:86
Alignment explanation
Indices: 58072107--58072461 Score: 393
Period size: 87 Copynumber: 4.0 Consensus size: 86
58072097 CTTAAAAATT
*
58072107 TAATACTAATAAATTTA-ATATTTAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
1 TAATACTAAT--ATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
*
58072171 AGGTTATATTAAAACAATATTTA
64 AGGTTATATTAAAACAAAATTTA
*
58072194 TAATACTAATAAATTTA-ATATTAAAACAATATTTATAATTATTTAGAAAACATTTAAATTTTAT
1 TAATACTAAT--ATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
58072258 AGGTTATATTAAAACAAAATTTA
64 AGGTTATATTAAAACAAAATTTA
* * * *
58072281 TAATACTAATA--TAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAAATT
1 TAATACTAATATTTAGATATTAAAACAATATTTATAATTATTTAGAAA---ACT--T-TTAAATT
* * *
58072344 TAATA-CTAATA-TAGAAACCTTATAAATTTA
60 TTATAGGTTATATTA-AAA-C--A-AAATTTA
* * *
58072374 GAAAACT--TATATAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAG
1 TAATACTAATATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAG
*
58072437 GTTATATTAAAACAATATTTA
66 GTTATATTAAAACAAAATTTA
58072458 TAAT
1 TAAT
58072462 TATTTAGAAA
Statistics
Matches: 229, Mismatches: 23, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
83 2 0.01
84 38 0.17
85 2 0.01
87 106 0.46
88 10 0.04
89 10 0.04
90 13 0.06
91 2 0.01
92 1 0.00
93 45 0.20
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (86 bp):
TAATACTAATATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAG
GTTATATTAAAACAAAATTTA
Found at i:58072234 original size:18 final size:18
Alignment explanation
Indices: 58072174--58072234 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 18
58072164 ATTTTATAGG
58072174 TTAT-ATTAAAACAATAT
1 TTATAATTAAAACAATAT
* *
58072191 TTATAA-TACTAATAA-AT
1 TTATAATTA-AAACAATAT
58072208 TTA-ATATTAAAACAATAT
1 TTATA-ATTAAAACAATAT
58072226 TTATAATTA
1 TTATAATTA
58072235 TTTAGAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
16 1 0.03
17 16 0.47
18 16 0.47
19 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATAATTAAAACAATAT
Found at i:58072342 original size:15 final size:15
Alignment explanation
Indices: 58072322--58072354 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58072312 AGAATTATTT
*
58072322 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
58072337 ATAAATTTAATACTA
1 ATAAATTTAATACTA
58072352 ATA
1 ATA
58072355 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:58072420 original size:42 final size:46
Alignment explanation
Indices: 58072369--58072513 Score: 154
Period size: 52 Copynumber: 3.0 Consensus size: 46
58072359 AACCTTATAA
58072369 ATTTAGAAAACTT-A-TATA-G-ATATTAAAACAATATTTATAATT
1 ATTTAGAAAACTTAATTATAGGTATATTAAAACAATATTTATAATT
58072411 ATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAATATTTATAATT
1 ATTTAGAAAAC--TT-AA--TTATAGG-TATATTAAAACAATATTTATAATT
58072463 ATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAATATTTATAAT
1 ATTTAGAAAAC--TT-AA--TTATAGG-TATATTAAAACAATATTTATAAT
58072514 ACTAATATAG
Statistics
Matches: 93, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
42 11 0.12
44 2 0.02
46 1 0.01
49 4 0.04
50 1 0.01
52 74 0.80
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (46 bp):
ATTTAGAAAACTTAATTATAGGTATATTAAAACAATATTTATAATT
Found at i:58072426 original size:21 final size:21
Alignment explanation
Indices: 58072369--58072430 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
58072359 AACCTTATAA
*
58072369 ATTTAGAAAACTTATATAGA-T
1 ATTTAGAAAACTTTTATA-ATT
*
58072390 A-TTA-AAACAATATTTATAATT
1 ATTTAGAAA-ACT-TTTATAATT
58072411 ATTTAGAAAACTTTTA-AATT
1 ATTTAGAAAACTTTTATAATT
58072431 TTATAGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 12 0.36
22 5 0.15
23 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTTAGAAAACTTTTATAATT
Found at i:58072444 original size:52 final size:52
Alignment explanation
Indices: 58072388--58072513 Score: 252
Period size: 52 Copynumber: 2.4 Consensus size: 52
58072378 ACTTATATAG
58072388 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTT
58072440 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTT
58072492 ATATTAAAACAATATTTATAAT
1 ATATTAAAACAATATTTATAAT
58072514 ACTAATATAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (52 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTT
Found at i:58072457 original size:24 final size:24
Alignment explanation
Indices: 58072430--58072511 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
58072420 ACTTTTAAAT
58072430 TTTATAGGTTATATTAAAACAATA
1 TTTATAGGTTATATTAAAACAATA
*
58072454 TTTATA-ATTAT-TTAGAAAACTTTTAA-A
1 TTTATAGGTTATATT--AAAAC----AATA
58072481 TTTTATAGGTTATATTAAAACAATA
1 -TTTATAGGTTATATTAAAACAATA
58072506 TTTATA
1 TTTATA
58072512 ATACTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 19 0.41
25 1 0.02
27 1 0.02
28 13 0.28
29 4 0.09
30 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
TTTATAGGTTATATTAAAACAATA
Found at i:58072496 original size:229 final size:229
Alignment explanation
Indices: 58072211--58072648 Score: 840
Period size: 229 Copynumber: 1.9 Consensus size: 229
58072201 AATAAATTTA
58072211 ATATTAAAACAATATTTATAATTATTTAGAAAACATTTAAATTTTATAGGTTATATTAAAACAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAAACATTTAAATTTTATAGGTTATATTAAAACAAA
58072276 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
58072341 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAGATATTAAAACAATATTTA
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAGATATTAAAACAATATTTA
58072406 TAATTATTTAGAAAACTTTTAAATTTTATAGGTT
196 TAATTATTTAGAAAACTTTTAAATTTTATAGGTT
* *
58072440 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACATTTAAATTTTATAGGTTATATTAAAACAAA
*
58072505 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTTTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
*
58072570 ATTTAATACTAATATAGAAACCTTATAAGTTTAGAAAACTTATATAGATATTAAAACAATATTTA
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAGATATTAAAACAATATTTA
58072635 TAATTATTTAGAAA
196 TAATTATTTAGAAA
58072649 TGTTATCATT
Statistics
Matches: 205, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 205 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (229 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACATTTAAATTTTATAGGTTATATTAAAACAAA
ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAGATATTAAAACAATATTTA
TAATTATTTAGAAAACTTTTAAATTTTATAGGTT
Found at i:58072571 original size:15 final size:15
Alignment explanation
Indices: 58072551--58072583 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58072541 AGAATTTTTT
*
58072551 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
58072566 ATAAATTTAATACTA
1 ATAAATTTAATACTA
58072581 ATA
1 ATA
58072584 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:58073996 original size:17 final size:17
Alignment explanation
Indices: 58073962--58073996 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58073952 TAGGGAAACT
*
58073962 GGGGGAATAGGAATTGG
1 GGGGGAATAGGAAATGG
*
58073979 GGGGGAATATGAAATGG
1 GGGGGAATAGGAAATGG
58073996 G
1 G
58073997 AAATTAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.17
Consensus pattern (17 bp):
GGGGGAATAGGAAATGG
Found at i:58074566 original size:22 final size:22
Alignment explanation
Indices: 58074540--58074588 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
58074530 CCCTAAGTTT
*
58074540 AACCCGTAACCTTTATACTTTA
1 AACCCGTAACCTTTAAACTTTA
58074562 AACCCGTAACCTTTAAACTTTA
1 AACCCGTAACCTTTAAACTTTA
58074584 AACCC
1 AACCC
58074589 TAAACTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (22 bp):
AACCCGTAACCTTTAAACTTTA
Found at i:58074780 original size:53 final size:54
Alignment explanation
Indices: 58074660--58074782 Score: 148
Period size: 53 Copynumber: 2.3 Consensus size: 54
58074650 CTTAAATTAT
* *
58074660 AAACTAC-AAGCCCTAAAATACTAATTAATCCCAAACCCCAAACCGTTAACCAG
1 AAACTACTAAGCCCTAAAATACTAATTAATCCCAAACCCCAAAACGTTAACCAC
* * *
58074713 AAGC-A-TCAAGCCCTAAAATACTAATTAATCCCAAACCCTAAAAC-TTAAACCCC
1 AAACTACT-AAGCCCTAAAATACTAATTAATCCCAAACCCCAAAACGTT-AACCAC
58074766 AAACTACTAA-CCCTAAA
1 AAACTACTAAGCCCTAAA
58074783 CCCAAGACAC
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
52 3 0.05
53 52 0.88
54 3 0.05
55 1 0.02
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (54 bp):
AAACTACTAAGCCCTAAAATACTAATTAATCCCAAACCCCAAAACGTTAACCAC
Found at i:58092838 original size:21 final size:21
Alignment explanation
Indices: 58092814--58092885 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
58092804 TTCTTTTGAA
* *
58092814 CCTCTACTTCTCTCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCAG
*
58092835 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
58092856 CCTCTGCTTCCCTCACTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
58092877 CCTCTGCTT
1 CCTCTGCTT
58092886 TAAGTTGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.44, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:58093936 original size:25 final size:25
Alignment explanation
Indices: 58093908--58094069 Score: 143
Period size: 25 Copynumber: 6.4 Consensus size: 25
58093898 ATAAAGTAAA
58093908 TATGAAAATTATGTAAGTTATTTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
58093933 TATGAAAATTATGTAAGTTGTGTAT
1 TATGAAAATTATGTAAGTTATTTAT
*
58093958 TATGAAAATTATGCTATG-TA---AGT
1 TATGAAAATTATG-TAAGTTATTTA-T
* * * * *
58093981 TATGTAAGTCATATAAGTTATGTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
58094006 TATGTAAGTTATGTAAGTTATTTAT
1 TATGAAAATTATGTAAGTTATTTAT
* *
58094031 TATGAAAATTAAGTAAGTTATGTAATT
1 TATGAAAATTATGTAAGTTAT-TTA-T
58094058 TATGAATAATTA
1 TATGAA-AATTA
58094070 AAAAAATGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 78 0.70
26 6 0.05
27 7 0.06
28 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.44
Consensus pattern (25 bp):
TATGAAAATTATGTAAGTTATTTAT
Found at i:58093984 original size:9 final size:9
Alignment explanation
Indices: 58093972--58094339 Score: 180
Period size: 9 Copynumber: 42.2 Consensus size: 9
58093962 AAAATTATGC
58093972 TATGTAAGT
1 TATGTAAGT
58093981 TATGTAAGT
1 TATGTAAGT
* *
58093990 CATATAAGT
1 TATGTAAGT
58093999 TATGT-A-T
1 TATGTAAGT
58094006 TATGTAAGT
1 TATGTAAGT
58094015 TATGTAAGT
1 TATGTAAGT
*
58094024 TAT-TTA-T
1 TATGTAAGT
* *
58094031 TATGAAAAT
1 TATGTAAGT
*
58094040 TAAGTAAGT
1 TATGTAAGT
*
58094049 TATGTAATT
1 TATGTAAGT
58094058 TATG-AA-T
1 TATGTAAGT
* **
58094065 AAT-TAAAAA
1 TATGT-AAGT
*
58094074 AATGTAAGT
1 TATGTAAGT
58094083 TATGTAAG-
1 TATGTAAGT
58094091 T-TGTAAGT
1 TATGTAAGT
*
58094099 TATGTAATT
1 TATGTAAGT
58094108 TATG-AA-T
1 TATGTAAGT
* **
58094115 AAT-TAAAAA
1 TATGT-AAGT
*
58094124 AATGTAAGT
1 TATGTAAGT
58094133 TATGTAAG-
1 TATGTAAGT
58094141 T-TGTAAGT
1 TATGTAAGT
58094149 TATGTAAGT
1 TATGTAAGT
*
58094158 TATGTATA-A
1 TATGTA-AGT
58094167 TAT-TAA-T
1 TATGTAAGT
58094174 TAAT-TAAGT
1 T-ATGTAAGT
*
58094183 TATGTAATT
1 TATGTAAGT
*
58094192 TATGTATA-A
1 TATGTA-AGT
58094201 TAT-TAA-T
1 TATGTAAGT
58094208 TAAT-TAAGT
1 T-ATGTAAGT
*
58094217 TATGTAATT
1 TATGTAAGT
*
58094226 TATGTATAATAT
1 TATG--TAA-GT
58094238 TAATGTAAGT
1 T-ATGTAAGT
*
58094248 TATGTAATT
1 TATGTAAGT
*
58094257 TATGTTTAATAT
1 TATG--TAA-GT
58094269 TAATGTAAGT
1 T-ATGTAAGT
58094279 TATGTAAG-
1 TATGTAAGT
58094287 T-TGTAAGT
1 TATGTAAGT
58094295 TATGTAAGT
1 TATGTAAGT
*
58094304 TATGTATA-A
1 TATGTA-AGT
58094313 TAT-TAA-T
1 TATGTAAGT
58094320 TAAT-TAAGT
1 T-ATGTAAGT
58094329 TATGTAAGT
1 TATGTAAGT
58094338 TA
1 TA
58094340 CGTATAATAC
Statistics
Matches: 285, Mismatches: 36, Indels: 76
0.72 0.09 0.19
Matches are distributed among these distances:
7 40 0.14
8 46 0.16
9 168 0.59
10 9 0.03
11 12 0.04
12 4 0.01
13 6 0.02
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:58094047 original size:34 final size:35
Alignment explanation
Indices: 58093941--58094288 Score: 136
Period size: 34 Copynumber: 10.3 Consensus size: 35
58093931 ATTATGAAAA
* *
58093941 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
58093980 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
58094014 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
58094048 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
58094082 TTATGTAAGTTGT-AAGTTATG-TAATTTATG-AA-
1 TTATGTAAGTTATGAA-TTATGAAAATTAATGTAAG
* *** * *
58094114 TAAT-TAAAAAAATGTAAGTTATG-TAAGT--TGTAAG
1 TTATGT-AAGTTATG-AA-TTATGAAAATTAATGTAAG
* * *
58094148 TTATGTAAGTTATGTATAAT-ATTAATTAAT-TAAG
1 TTATGTAAGTTATGAATTATGA-AAATTAATGTAAG
* * * *
58094182 TTATGTAATTTATGTATAAT-ATTAATTAAT-TAAG
1 TTATGTAAGTTATGAATTATGA-AAATTAATGTAAG
* *
58094216 TTATGTAATTTATG---TAT-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* *
58094247 TTATGTAATTTATG--TT-T-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
58094278 TTATGTAAGTT
1 TTATGTAAGTT
58094289 GTAAGTTATG
Statistics
Matches: 251, Mismatches: 36, Indels: 52
0.74 0.11 0.15
Matches are distributed among these distances:
30 6 0.02
31 47 0.19
32 20 0.08
33 16 0.06
34 138 0.55
35 3 0.01
39 13 0.05
40 1 0.00
41 7 0.03
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:58094085 original size:25 final size:25
Alignment explanation
Indices: 58094050--58094136 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
58094040 TAAGTAAGTT
*
58094050 ATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGAATAATTAAAAAA
* ***
58094075 ATGTAAGTTATG--TAAGTTGTAAGTT
1 ATGTAAGTTATGAATAA-TT-AAAAAA
*
58094100 ATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGAATAATTAAAAAA
58094125 ATGTAAGTTATG
1 ATGTAAGTTATG
58094137 TAAGTTGTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
23 3 0.06
24 2 0.04
25 37 0.79
26 2 0.04
27 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (25 bp):
ATGTAAGTTATGAATAATTAAAAAA
Found at i:58094097 original size:16 final size:16
Alignment explanation
Indices: 58094076--58094158 Score: 71
Period size: 16 Copynumber: 5.1 Consensus size: 16
58094066 ATTAAAAAAA
58094076 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
*
58094092 TGTAAGTTATGTAATTT
1 TGTAAGTTATGTAA-GT
** **
58094109 ATGAATAA-TTA-AAAAAA
1 -TG--TAAGTTATGTAAGT
58094126 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
58094142 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
58094158 T
1 T
58094159 ATGTATAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 35 0.67
17 1 0.02
18 4 0.08
19 3 0.06
20 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:58094097 original size:50 final size:50
Alignment explanation
Indices: 58094043--58094338 Score: 269
Period size: 50 Copynumber: 6.0 Consensus size: 50
58094033 TGAAAATTAA
**
58094043 GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAATTTATGAATAATTAAATTAATGTAAGTTATGTAAGTT
**
58094093 GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAATTTATGAATAATTAAATTAATGTAAGTTATGTAAGTT
* * *
58094143 GTAAGTTATGTAAGTTATGTATAATATTAATTAAT-TAAGTTATGTAA-TT
1 GTAAGTTATGTAATTTATGAATAAT-TAAATTAATGTAAGTTATGTAAGTT
* * * * *
58094192 -TATG-TA--TAATATTA--ATTAATTAAGTT-ATGTAATTTATGTATAATATTAAT
1 GTAAGTTATGTAAT-TTATGAATAATTAAATTAATGTAAGTTATG--T-A-AGT--T
58094242 GTAAGTTATGTAATTTATG--T--TTAATATTAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAATTTATGAATAATTAA-ATTAATGTAAGTTATGTAAGTT
* * *
58094289 GTAAGTTATGTAAGTTATGTATAATATTAATTAAT-TAAGTTATGTAAGTT
1 GTAAGTTATGTAATTTATGAATAAT-TAAATTAATGTAAGTTATGTAAGTT
58094339 ACGTATAATA
Statistics
Matches: 205, Mismatches: 18, Indels: 46
0.76 0.07 0.17
Matches are distributed among these distances:
42 2 0.01
43 12 0.06
44 4 0.02
45 4 0.02
46 4 0.02
47 22 0.11
48 4 0.02
49 5 0.02
50 102 0.50
51 21 0.10
52 6 0.03
53 15 0.07
54 4 0.02
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (50 bp):
GTAAGTTATGTAATTTATGAATAATTAAATTAATGTAAGTTATGTAAGTT
Found at i:58094293 original size:16 final size:16
Alignment explanation
Indices: 58094272--58094304 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58094262 TTAATATTAA
58094272 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
58094288 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
58094304 T
1 T
58094305 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:58094328 original size:34 final size:34
Alignment explanation
Indices: 58094144--58094353 Score: 201
Period size: 34 Copynumber: 5.9 Consensus size: 34
58094134 ATGTAAGTTG
58094144 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
*
58094178 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
* *
58094212 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
* *
58094243 TAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT-T-A---AT
* *
58094282 GTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 -TAAG-T-TATGTAA-----GTTATGTATAATATTAATTAAT
* *
58094324 TAAGTTATGTAAGTTACGTATAATACTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT
58094354 GTAAGTTATG
Statistics
Matches: 148, Mismatches: 12, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
31 28 0.19
33 2 0.01
34 78 0.53
39 5 0.03
40 5 0.03
41 5 0.03
42 7 0.05
45 1 0.01
46 1 0.01
47 16 0.11
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAAT
Found at i:58094358 original size:22 final size:21
Alignment explanation
Indices: 58094330--58094374 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
58094320 TAATTAAGTT
58094330 ATGTAAGTTACGTATAATACTA
1 ATGTAAGTTACGTATAATA-TA
* *
58094352 ATGTAAGTTATGTATTATATA
1 ATGTAAGTTACGTATAATATA
58094373 AT
1 AT
58094375 AACAGCGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (21 bp):
ATGTAAGTTACGTATAATATA
Found at i:58097051 original size:16 final size:16
Alignment explanation
Indices: 58097006--58097061 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
58096996 TAAATCTCAC
*
58097006 ATCTTTTATTTATT-T
1 ATCTTTTATTAATTGT
* *
58097021 ATTTATTTCTTAATTGT
1 ATCT-TTTATTAATTGT
58097038 ATCTTTTATTAATTGT
1 ATCTTTTATTAATTGT
58097054 ATCTTTTA
1 ATCTTTTA
58097062 ATTACTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (16 bp):
ATCTTTTATTAATTGT
Found at i:58097534 original size:20 final size:20
Alignment explanation
Indices: 58097481--58097556 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
58097471 TAATTAATTG
* *
58097481 TAAATCCTAAACCCCAAACT
1 TAAACCCTAAACCCTAAACT
*
58097501 ATAAACCCTTAACCCT-AACT
1 -TAAACCCTAAACCCTAAACT
* *
58097521 CTAAACCCCAAACCGTAAAACT
1 -TAAACCCTAAACCCT-AAACT
58097543 TAAACCCTAAACCC
1 TAAACCCTAAACCC
58097557 GTCAATTAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 16 0.36
21 24 0.55
22 4 0.09
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.18
Consensus pattern (20 bp):
TAAACCCTAAACCCTAAACT
Found at i:58097549 original size:34 final size:34
Alignment explanation
Indices: 58097487--58097552 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
58097477 ATTGTAAATC
* *
58097487 CTAAACCCCAAACTATAAACCCTTAACCCTAACT
1 CTAAACCCCAAACCATAAACACTTAACCCTAACT
*
58097521 CTAAACCCCAAACCGTAAA-ACTTAAACCCTAA
1 CTAAACCCCAAACCATAAACACTT-AACCCTAA
58097553 ACCCGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (34 bp):
CTAAACCCCAAACCATAAACACTTAACCCTAACT
Found at i:58097553 original size:7 final size:7
Alignment explanation
Indices: 58097481--58097556 Score: 55
Period size: 7 Copynumber: 11.0 Consensus size: 7
58097471 TAATTAATTG
*
58097481 TAAATCC
1 TAAACCC
58097488 TAAACCC
1 TAAACCC
* **
58097495 CAAACTA
1 TAAACCC
58097502 TAAACCC
1 TAAACCC
*
58097509 TTAACCC
1 TAAACCC
*
58097516 T-AACTC
1 TAAACCC
58097522 TAAACCC
1 TAAACCC
* *
58097529 CAAACCG
1 TAAACCC
* *
58097536 TAAAACT
1 TAAACCC
58097543 TAAACCC
1 TAAACCC
58097550 TAAACCC
1 TAAACCC
58097557 GTCAATTAAC
Statistics
Matches: 51, Mismatches: 17, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 5 0.10
7 46 0.90
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:58097766 original size:13 final size:14
Alignment explanation
Indices: 58097731--58097771 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
58097721 CAAACCCCTA
*
58097731 AAGT-CTAAACCGT
1 AAGTCCTAAACCAT
*
58097744 AAGTCATAAACCAT
1 AAGTCCTAAACCAT
58097758 AA-TCCTAAACCAT
1 AAGTCCTAAACCAT
58097771 A
1 A
58097772 TCTTTGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (14 bp):
AAGTCCTAAACCAT
Found at i:58099960 original size:14 final size:15
Alignment explanation
Indices: 58099941--58099973 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58099931 ATAGTATTGT
58099941 ATTTTATAT-ATATA
1 ATTTTATATGATATA
*
58099955 ATTTTATGTGATATA
1 ATTTTATATGATATA
58099970 ATTT
1 ATTT
58099974 ACATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTTTATATGATATA
Found at i:58100004 original size:20 final size:20
Alignment explanation
Indices: 58099976--58100022 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
58099966 TATAATTTAC
*
58099976 ATAATATATA-TAAATAAAAT
1 ATAAAATATACTAAA-AAAAT
*
58099996 ATAAAATATACTACAAAAAT
1 ATAAAATATACTAAAAAAAT
58100016 ATAAAAT
1 ATAAAAT
58100023 GGGTTAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAATATACTAAAAAAAT
Found at i:58100768 original size:11 final size:11
Alignment explanation
Indices: 58100749--58100813 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
58100739 AAAATTAAAA
58100749 AAAATATATTTT
1 AAAA-ATATTTT
58100761 AAAAATATTTT
1 AAAAATATTTT
58100772 --AAA-A--TT
1 AAAAATATTTT
*
58100778 AAAAA-A-TTA
1 AAAAATATTTT
58100787 AAAAAGTATTTT
1 AAAAA-TATTTT
58100799 AAAAATATTTT
1 AAAAATATTTT
58100810 AAAA
1 AAAA
58100814 TTATAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 9 0.20
11 18 0.40
12 11 0.24
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:58100853 original size:30 final size:30
Alignment explanation
Indices: 58100799--58100859 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
58100789 AAAGTATTTT
58100799 AAAAATATTTTAAAATTATAAAAAATTAAA
1 AAAAATATTTTAAAATTATAAAAAATTAAA
58100829 AAAAAGTATTTTAAAATTA-AAAAAATTAAA
1 AAAAA-TATTTTAAAATTATAAAAAATTAAA
58100859 A
1 A
58100860 TATTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTATAAAAAATTAAA
Found at i:58100856 original size:40 final size:42
Alignment explanation
Indices: 58100738--58100844 Score: 168
Period size: 38 Copynumber: 2.6 Consensus size: 42
58100728 AATTTATTTT
*
58100738 AAAAATTAAAAAAAATATATTTTAAAAATATTTTAAAA-T-TA
1 AAAAATTAAAAAAAA-GTATTTTAAAAATATTTTAAAATTATA
58100779 AAAAATT--AAAAAAGTATTTTAAAAATATTTTAAAATTATA
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTATA
58100819 AAAAATTAAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAAGTATTTTAAAA
58100845 TTAAAAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
38 21 0.34
39 7 0.11
40 9 0.15
41 7 0.11
42 17 0.28
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (42 bp):
AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTATA
Found at i:58107413 original size:13 final size:13
Alignment explanation
Indices: 58107395--58107444 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
58107385 TCTTCATTGT
58107395 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
58107408 TTTTGAAAAGTAC
1 TTTTGAAAAGTGC
** *
58107421 TTTTGGGAAGTGT
1 TTTTGAAAAGTGC
58107434 TTTTGAAAAGT
1 TTTTGAAAAGT
58107445 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:58108952 original size:24 final size:23
Alignment explanation
Indices: 58108894--58108953 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
58108884 CTATTTTCCA
*
58108894 TTATTT-AATATAAAGGTTTTTT
1 TTATTTAAATATAAAGGGTTTTT
*
58108916 TTA-TGAAATATATAAGGGGTTTTT
1 TTATTTAAATATA-AA-GGGTTTTT
58108940 TTATTTAACATATA
1 TTATTTAA-ATATA
58108954 TTTGTGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
23 2 0.07
24 10 0.33
25 3 0.10
26 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (23 bp):
TTATTTAAATATAAAGGGTTTTT
Found at i:58110749 original size:28 final size:28
Alignment explanation
Indices: 58110693--58110756 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
58110683 GATTTTTTTT
*
58110693 ACCCTAAATCCCAAACCTCAAAGACTAA
1 ACCCTAAATCCAAAACCTCAAAGACTAA
*
58110721 ACCCTTAATCCAAAACCT-AGAAG-CTTAA
1 ACCCTAAATCCAAAACCTCA-AAGAC-TAA
58110749 ACCCTAAA
1 ACCCTAAA
58110757 CCCGAACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (28 bp):
ACCCTAAATCCAAAACCTCAAAGACTAA
Found at i:58110995 original size:13 final size:14
Alignment explanation
Indices: 58110970--58111000 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
58110960 GAGATTCGGG
58110970 GTTTAAGGTTCAAA
1 GTTTAAGGTTCAAA
58110984 GTTTAA-GTTCAAA
1 GTTTAAGGTTCAAA
58110997 GTTT
1 GTTT
58111001 TGGGTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
GTTTAAGGTTCAAA
Found at i:58114956 original size:3 final size:3
Alignment explanation
Indices: 58114950--58114975 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58114940 ATGATGAATC
58114950 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
58114976 GGTTTAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:58115427 original size:20 final size:20
Alignment explanation
Indices: 58115382--58115420 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58115372 AAACTGCTCT
*
58115382 TTTTTTTACTGTTTTCTTGC
1 TTTTTTTACTGTTTTATTGC
58115402 TTTTTTTACTGTTTTATTG
1 TTTTTTTACTGTTTTATTG
58115421 TTATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.72
Consensus pattern (20 bp):
TTTTTTTACTGTTTTATTGC
Found at i:58121481 original size:20 final size:20
Alignment explanation
Indices: 58121456--58121495 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58121446 AATATTTTCT
* *
58121456 AGTAAATCATTTTACAGAAA
1 AGTAAAACAGTTTACAGAAA
*
58121476 AGTAAAACAGTTTGCAGAAA
1 AGTAAAACAGTTTACAGAAA
58121496 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
AGTAAAACAGTTTACAGAAA
Found at i:58122767 original size:43 final size:42
Alignment explanation
Indices: 58122710--58122791 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 42
58122700 TTAGATTTTG
*
58122710 TTACAACAATTAATACGATTAACAATTAATAATTTGATAATT
1 TTACAACAATTAATACAATTAACAATTAATAATTTGATAATT
*
58122752 TTACTAACAATTAATACAATTAATAATTAATAATTTGATA
1 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATA
58122792 TAATTTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (42 bp):
TTACAACAATTAATACAATTAACAATTAATAATTTGATAATT
Found at i:58122846 original size:16 final size:16
Alignment explanation
Indices: 58122826--58122878 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
58122816 TTGGTTCGCT
*
58122826 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
58122842 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
58122858 GTAATGGAATACAGGC
1 GTAATGGAATAGAGGC
58122874 GTAAT
1 GTAAT
58122879 AGGTAATCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:58123178 original size:61 final size:61
Alignment explanation
Indices: 58123113--58123310 Score: 228
Period size: 61 Copynumber: 3.3 Consensus size: 61
58123103 TTATTATTAA
*
58123113 ATATAAT-TTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAAT
1 ATATAATATT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAAT
* * * * * ** *
58123174 ATATAATATTATAAAA-T-GTAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAAAAT
1 ATATAATATTATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATAATAAT
*
58123233 ATATAAT-TTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATTATAAT
1 ATATAATATT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAAT
58123294 ATATAATATTATAAAAT
1 ATATAATATTATAAAAT
58123311 ATAATTTAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
58 4 0.04
59 35 0.32
60 16 0.15
61 49 0.45
62 6 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
ATATAATATTATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAAT
Found at i:58123234 original size:59 final size:59
Alignment explanation
Indices: 58123171--58123359 Score: 222
Period size: 59 Copynumber: 3.2 Consensus size: 59
58123161 CTAAAATCAT
*
58123171 AATATATAATATTATAAAATGTAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
* * * * * ** * *
58123230 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATTAT
1 AATATATAATATT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
58123291 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
58123350 AATATATAAT
1 AATATATAAT
58123360 TCCCCCACGT
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
58 4 0.04
59 45 0.43
60 16 0.15
61 35 0.34
62 4 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (59 bp):
AATATATAATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
Found at i:58123270 original size:120 final size:120
Alignment explanation
Indices: 58123113--58123360 Score: 478
Period size: 120 Copynumber: 2.1 Consensus size: 120
58123103 TTATTATTAA
58123113 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
58123178 AATATTATAAAATGTAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
58123233 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATTATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
58123298 AATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
66 AATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
58123353 ATATAATT
1 ATATAATT
58123361 CCCCCACGTT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 126 1.00
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (120 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATATTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:58123306 original size:15 final size:15
Alignment explanation
Indices: 58123286--58123355 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
58123276 ATTTACTAAA
*
58123286 ATTATAATATATAAT
1 ATTATAAAATATAAT
58123301 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
58123314 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
58123327 ATTATTAAATATAAT
1 ATTATAAAATATAAT
58123342 -TTAATAAAAATATA
1 ATT-AT-AAAATATA
58123356 TAATTCCCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 7 0.16
13 6 0.14
14 9 0.20
15 15 0.34
16 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:58124267 original size:12 final size:12
Alignment explanation
Indices: 58124250--58124276 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58124240 AGAAACCGTG
58124250 AAAACATTTTAT
1 AAAACATTTTAT
58124262 AAAACATTTTAT
1 AAAACATTTTAT
58124274 AAA
1 AAA
58124277 CCATGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAACATTTTAT
Found at i:58125868 original size:19 final size:19
Alignment explanation
Indices: 58125833--58125869 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58125823 TTCCACATTC
58125833 AATATTAATTCACATTTCA
1 AATATTAATTCACATTTCA
58125852 AATA-TAATTCACAATTTC
1 AATATTAATTCAC-ATTTC
58125870 TAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATTAATTCACATTTCA
Found at i:58134884 original size:15 final size:15
Alignment explanation
Indices: 58134864--58134913 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
58134854 TGTAGTTGAA
58134864 GATGACGACGACAAC
1 GATGACGACGACAAC
* *
58134879 GATGACGACGACGAT
1 GATGACGACGACAAC
* *
58134894 GATGACGATGACAAG
1 GATGACGACGACAAC
58134909 GATGA
1 GATGA
58134914 AGATGATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (15 bp):
GATGACGACGACAAC
Found at i:58138333 original size:5 final size:5
Alignment explanation
Indices: 58138325--58138352 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
58138315 ATATAATATA
58138325 ATAGT ATAGT ATAGT ATAGT ATAGT ATA
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATA
58138353 TAATGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
ATAGT
Found at i:58140141 original size:30 final size:29
Alignment explanation
Indices: 58140092--58140163 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
58140082 ACGAATAAAA
*
58140092 ATATATAAATATAAATAAA-TAAATATTTTT
1 ATATATAAAT-TAAATAAATTAAATA-ATTT
*
58140122 ATATGTAAATTAAATTAAATTAAATAATTT
1 ATATATAAATTAAA-TAAATTAAATAATTT
*
58140152 ATATTTAAATTA
1 ATATATAAATTA
58140164 TTGAATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 4 0.11
30 27 0.73
31 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATATAAATTAAATAAATTAAATAATTT
Found at i:58140628 original size:20 final size:20
Alignment explanation
Indices: 58140580--58140628 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
58140570 ATTAAAGGGG
58140580 AAATTAAATCAATTTGATTA
1 AAATTAAATCAATTTGATTA
*
58140600 AAATCAAATCTAA-TTGATTA
1 AAATTAAATC-AATTTGATTA
*
58140620 GAATTAAAT
1 AAATTAAAT
58140629 AAAATCAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATTAAATCAATTTGATTA
Found at i:58143342 original size:42 final size:43
Alignment explanation
Indices: 58143246--58143471 Score: 341
Period size: 43 Copynumber: 5.3 Consensus size: 43
58143236 CGTTTTTTTT
* * *
58143246 ACAAACGCCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
*
58143289 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCAC-TTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
58143331 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
* *
58143374 ACAAACGCCGCTATAAATCAGGACCTTTAGCTA-CGTTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGC-AGCGCTTTTCCC
* **
58143417 ACAAACGCCGCTATAGATCA-GACCTTTAGCGGCGCTTTTTTC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
58143459 ACAAACGCCGCTA
1 ACAAACGCCGCTA
58143472 AAAGTGCCAT
Statistics
Matches: 168, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
42 71 0.42
43 96 0.57
44 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCC
Found at i:58143345 original size:85 final size:86
Alignment explanation
Indices: 58143246--58143471 Score: 350
Period size: 85 Copynumber: 2.7 Consensus size: 86
58143236 CGTTTTTTTT
* *
58143246 ACAAACGCCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGG
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
58143311 ACCTTTAGC-A-GCACTTTCCC
66 ACCTTTAGCTACG-ACTTTCCC
* *
58143331 ACAAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
**
58143396 ACCTTTAGCTACGTTTTTCCC
66 ACCTTTAGCTACGACTTTCCC
**
58143417 ACAAACGCCGCTATAGATC-AGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTA
1 ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
58143472 AAAGTGCCAT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 102 0.79
86 26 0.20
87 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (86 bp):
ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATCAGG
ACCTTTAGCTACGACTTTCCC
Found at i:58144045 original size:21 final size:21
Alignment explanation
Indices: 58143982--58144036 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
58143972 TCTGCCTTCT
58143982 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
58144003 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
58144024 TTGAGTAACTACA
1 TTGAGTAACTACA
58144037 GTAGCATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
TTGAGTAACTACATGGCAATC
Found at i:58146566 original size:57 final size:57
Alignment explanation
Indices: 58146453--58146566 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
58146443 CTCCACTCCA
* **
58146453 ACATTTACAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTGTGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
* *
58146510 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGACAG-GCTTTTCTTCAGCTGC
1 ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAG-CAGAGCTCTTATTCAGCTGC
58146567 TCTTCAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (57 bp):
ACATTTAAAGTTTCACCTCCATTTATTTGAACAGAAGCAGAGCTCTTATTCAGCTGC
Found at i:58148104 original size:110 final size:111
Alignment explanation
Indices: 58147927--58148193 Score: 310
Period size: 110 Copynumber: 2.4 Consensus size: 111
58147917 TATATAAGAA
* *
58147927 CTTATTTAGTATATAAATTAAAAAATATTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGA
1 CTTATTTAATATATAAATT-AAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGA
*
58147992 ATCTCTAAACCCTAAATCAC-TAA-CTA-TT-AACCCCAAACCCCTAAAC
65 ATCTCT-AACCCTAAA-C-CTTAACCAACTTGAACCCCAAACCCCTAAAC
* **
58148038 CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAATCC-TAAACCCTAACCTGACCTTGA
1 CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAA-CCTTAAACCCTAACCCGACCCCGA
* * * * *
58148102 ATCTCTAACCCTAAACCTTAACCCAACCTTGAATCTCTAACCCTTAAAT
65 ATCTCTAACCCTAAACCTTAA-CCAA-CTTGAACCCCAAACCCCTAAAC
* *
58148151 ATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACC
1 CTTATTTAATATATAAATTAAAA-ATACTAATTAATCTAAACC
58148194 ATAACCTGAC
Statistics
Matches: 135, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
107 1 0.01
108 4 0.03
109 9 0.07
110 46 0.34
111 20 0.15
112 2 0.01
113 37 0.27
114 16 0.12
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (111 bp):
CTTATTTAATATATAAATTAAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGAA
TCTCTAACCCTAAACCTTAACCAACTTGAACCCCAAACCCCTAAAC
Found at i:58148115 original size:32 final size:32
Alignment explanation
Indices: 58148079--58148145 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
58148069 TAATCTAAAT
**
58148079 CCTAAACCCTAACCTGACCTTGAATCTCTAAC
1 CCTAAACCCTAACCCAACCTTGAATCTCTAAC
*
58148111 CCTAAACCTTAACCCAACCTTGAATCTCTAAC
1 CCTAAACCCTAACCCAACCTTGAATCTCTAAC
58148143 CCT
1 CCT
58148146 TAAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.39, G:0.04, T:0.25
Consensus pattern (32 bp):
CCTAAACCCTAACCCAACCTTGAATCTCTAAC
Found at i:58148251 original size:7 final size:7
Alignment explanation
Indices: 58148239--58148272 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
58148229 TAACTGATCT
*
58148239 TAACCTC
1 TAACCCC
*
58148246 TAACCTC
1 TAACCCC
58148253 TAACCCC
1 TAACCCC
58148260 TAACCCC
1 TAACCCC
58148267 TAACCC
1 TAACCC
58148273 ATAAACCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:58149341 original size:41 final size:41
Alignment explanation
Indices: 58149182--58149341 Score: 250
Period size: 41 Copynumber: 3.9 Consensus size: 41
58149172 TTTTATTATT
* *
58149182 ATTAGCGGCGCTTTTTCAAAAAACGCTGCTAAAGG-TCGAGC
1 ATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGGCCCGAGC
* * * *
58149223 ATTAGAGGCGCTTCTTCAAAAACGCAGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
58149264 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
58149305 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
58149342 CAAAAACTCA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 16 0.15
41 93 0.85
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:58149437 original size:39 final size:38
Alignment explanation
Indices: 58149394--58149509 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 38
58149384 GGCGCTTTTT
* *
58149394 AAAAAACGCCGCTAATGCTTATTTTTAGTGGGGCTTTCC
1 AAAAAGCGCCGCTAATGCTTATTTTTAGTGGCG-TTTCC
* ** * **
58149433 AAAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTT
1 AAAAAGCGCCGCTAATGCT-TATTTTTAGTGGCGTTTCC
58149472 ATAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTT
1 A-AAAAGCGCCGCTAATGCTT-ATTTTTAGTGGCGTTT
58149510 TTTGTCTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
39 22 0.35
40 40 0.65
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (38 bp):
AAAAAGCGCCGCTAATGCTTATTTTTAGTGGCGTTTCC
Found at i:58153805 original size:42 final size:42
Alignment explanation
Indices: 58153758--58153842 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
58153748 GCTTAAGACT
*
58153758 TAAAACTTAATATATTTATTTTTTTATTTACATAGTTTTTTA
1 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
58153800 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
1 TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
58153842 T
1 T
58153843 TGAAGCAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (42 bp):
TAAAACTTAATATATTTATCTTTTTATTTACATAGTTTTTTA
Found at i:58157232 original size:32 final size:34
Alignment explanation
Indices: 58157172--58157237 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 34
58157162 AAACCACTTG
58157172 AGTTCAAACTCTCAGGAGAGCAAGTGGAAAATCCT
1 AGTTCAAACTCTCA-GAGAGCAAGTGGAAAATCCT
58157207 AGTTCAAACTCTC-GAG-GCAAGTGGAAAATCC
1 AGTTCAAACTCTCAGAGAGCAAGTGGAAAATCC
58157238 CCATCTAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 15 0.48
33 3 0.10
35 13 0.42
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (34 bp):
AGTTCAAACTCTCAGAGAGCAAGTGGAAAATCCT
Found at i:58166874 original size:21 final size:21
Alignment explanation
Indices: 58166848--58166892 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
58166838 CTCCAACAGC
58166848 TTTCTTCCTCATTGTTCTTCA
1 TTTCTTCCTCATTGTTCTTCA
58166869 TTTCTTCCTCATTGTTCTTCA
1 TTTCTTCCTCATTGTTCTTCA
58166890 TTT
1 TTT
58166893 ATCTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.27, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTCTTCCTCATTGTTCTTCA
Found at i:58173255 original size:17 final size:18
Alignment explanation
Indices: 58173225--58173258 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
58173215 ATTTAAATTG
58173225 CGGTCGCAGTCGCGTTTT
1 CGGTCGCAGTCGCGTTTT
58173243 CGGTCGC-GTCGCGTTT
1 CGGTCGCAGTCGCGTTT
58173259 ATCGCGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.29, G:0.35, T:0.32
Consensus pattern (18 bp):
CGGTCGCAGTCGCGTTTT
Found at i:58174103 original size:18 final size:18
Alignment explanation
Indices: 58174082--58174122 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
58174072 TAATTGATAT
* *
58174082 GGAGGATATATTTGAGGA
1 GGAGGATACATGTGAGGA
*
58174100 GGAGGATACATGTGAGGT
1 GGAGGATACATGTGAGGA
58174118 GGAGG
1 GGAGG
58174123 TGGGTGATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.46, T:0.22
Consensus pattern (18 bp):
GGAGGATACATGTGAGGA
Found at i:58174151 original size:18 final size:18
Alignment explanation
Indices: 58174082--58174153 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
58174072 TAATTGATAT
* * *
58174082 GGAGGATATATTTGAGGA
1 GGAGGATACATTGGTGGA
58174100 GGAGGATACATGTGAGGTGGA
1 GGAGGATACAT-T--GGTGGA
*
58174121 GGTGGGTGATACATTGGTGGA
1 -G-GAG-GATACATTGGTGGA
58174142 GGAGGATACATT
1 GGAGGATACATT
58174154 TGAGGCGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 18 0.42
19 3 0.07
20 1 0.02
21 10 0.23
22 1 0.02
23 3 0.07
24 7 0.16
ACGTcount: A:0.28, C:0.04, G:0.43, T:0.25
Consensus pattern (18 bp):
GGAGGATACATTGGTGGA
Found at i:58175843 original size:37 final size:34
Alignment explanation
Indices: 58175771--58175857 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 34
58175761 AACTATAAAG
58175771 GCCGAATGC-ACATATTCACTTATACCCACCAAT
1 GCCGAATGCTACATATTCACTTATACCCACCAAT
* * *
58175804 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGC-TACATAT-T-CACTTATACCCACCAAT
58175841 GCCGAATGCCTACATAT
1 GCCGAATG-CTACATAT
58175858 GCACACATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 9 0.20
35 6 0.13
36 1 0.02
37 29 0.63
38 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (34 bp):
GCCGAATGCTACATATTCACTTATACCCACCAAT
Found at i:58176216 original size:41 final size:41
Alignment explanation
Indices: 58176041--58176209 Score: 275
Period size: 41 Copynumber: 4.1 Consensus size: 41
58176031 AATTCATCAT
* *
58176041 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
58176082 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * *
58176123 AGTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
58176164 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
58176205 ATTCA
1 ATTCA
58176210 ATTCACCAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:58176216 original size:82 final size:82
Alignment explanation
Indices: 58176047--58176205 Score: 318
Period size: 82 Copynumber: 1.9 Consensus size: 82
58176037 TCATATTCGG
58176047 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
58176112 TTTATAACCTGAGTCAT
66 TTTATAACCTGAGTCAT
58176129 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
58176194 TTTATAACCTGA
66 TTTATAACCTGA
58176206 TTCAATTCAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGAGTCAT
Found at i:58176488 original size:15 final size:17
Alignment explanation
Indices: 58176444--58176490 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
58176434 TGTTCGATCC
*
58176444 ACACATATATATATATT
1 ACACACATATATATATT
58176461 ACACACATATATATATT
1 ACACACATATATATATT
*
58176478 -CGCACAT-TATATA
1 ACACACATATATATA
58176491 AACACAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 16 0.57
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (17 bp):
ACACACATATATATATT
Found at i:58179095 original size:17 final size:18
Alignment explanation
Indices: 58179073--58179106 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
58179063 CGACCGCGAT
58179073 AAACGCGA-CGCGACCGA
1 AAACGCGACCGCGACCGA
58179090 AAACGCGACCGCGACCG
1 AAACGCGACCGCGACCG
58179107 TAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.38, G:0.29, T:0.00
Consensus pattern (18 bp):
AAACGCGACCGCGACCGA
Found at i:58182750 original size:21 final size:21
Alignment explanation
Indices: 58182724--58182764 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58182714 AGACGAGCAA
* *
58182724 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
58182745 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
58182765 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:58191617 original size:40 final size:41
Alignment explanation
Indices: 58191527--58191618 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
58191517 CCATTTTTCG
**
58191527 GGAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGTCA
1 GGAAATCGCGTCCACGTCAGCGCGATGTCA-GGTACGTGGAA
* *
58191569 GGACATCGCGTCCACGTCAGCGCGACCTG-C-TG-ACGTGGAA
1 GGAAATCGCGTCCACGTCAGCGCGA--TGTCAGGTACGTGGAA
58191609 GGAAATCGCG
1 GGAAATCGCG
58191619 CCCTCAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 15 0.35
41 1 0.02
42 24 0.56
43 1 0.02
44 2 0.05
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (41 bp):
GGAAATCGCGTCCACGTCAGCGCGATGTCAGGTACGTGGAA
Found at i:58198635 original size:61 final size:60
Alignment explanation
Indices: 58198570--58198757 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 60
58198560 TTATAGTATC
58198570 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
* * * * * * * * *
58198631 ATATATTTTAATTAT-AATATATTTA-ATAATAATTATGTTAA--ATT-ATATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TA--TTAATTATTAAAATTTTATTA-AATT
*
58198690 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
58198751 ATATATT
1 ATATATT
58198758 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 31 0.32
60 14 0.15
61 38 0.40
62 3 0.03
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAATTTTATTAAATT
Found at i:58198652 original size:16 final size:16
Alignment explanation
Indices: 58198631--58198677 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
58198621 TTATTAAATT
58198631 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
58198647 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
58198662 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
58198678 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:58198771 original size:120 final size:121
Alignment explanation
Indices: 58198558--58198794 Score: 449
Period size: 120 Copynumber: 2.0 Consensus size: 121
58198548 ATCAATTTTC
58198558 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
58198623 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAATTATA
66 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATA
* *
58198678 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATTTT
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
58198743 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
58198795 ATGATTAAAT
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
120 108 0.95
121 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (121 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATA
Found at i:58198772 original size:16 final size:16
Alignment explanation
Indices: 58198733--58198792 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
58198723 TATTGATTAT
*
58198733 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
58198749 TTATATATTTTAATTA
1 TAATATATTTTAATAA
58198765 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
58198780 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
58198793 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:58198777 original size:15 final size:15
Alignment explanation
Indices: 58198742--58198783 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
58198732 TTAATAATTT
*
58198742 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58198756 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58198770 TATTTAATAATAAT
1 TATTTAATTATAAT
58198784 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58199030 original size:14 final size:15
Alignment explanation
Indices: 58199006--58199059 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
58198996 TTGATTTGCT
58199006 ATTACACATCTATTCC
1 ATTACAC-TCTATTCC
58199022 ATTACATCTCTATTCC
1 ATTACA-CTCTATTCC
*
58199038 ATTACGCCTCTATTCC
1 ATTAC-ACTCTATTCC
*
58199054 AATACA
1 ATTACA
58199060 GTGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.30, C:0.31, G:0.02, T:0.37
Consensus pattern (15 bp):
ATTACACTCTATTCC
Found at i:58200410 original size:22 final size:22
Alignment explanation
Indices: 58200369--58200430 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
58200359 CAATAACAAC
* * *
58200369 AAAATAATAGTAACATAAT-AG
1 AAAATAATAGCAAAACAATAAG
58200390 TAAAATAATAGCAAAACAATAAG
1 -AAAATAATAGCAAAACAATAAG
*
58200413 AAAATAGTAGCAAAACAA
1 AAAATAATAGCAAAACAA
58200431 CCAGAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.18
Consensus pattern (22 bp):
AAAATAATAGCAAAACAATAAG
Found at i:58200427 original size:11 final size:11
Alignment explanation
Indices: 58200368--58200427 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
58200358 GCAATAACAA
58200368 CAAAATAATAG
1 CAAAATAATAG
* *
58200379 TAACATAATAG
1 CAAAATAATAG
*
58200390 TAAAATAATAG
1 CAAAATAATAG
*
58200401 CAAAACAATAAG
1 CAAAATAAT-AG
*
58200413 -AAAATAGTAG
1 CAAAATAATAG
58200423 CAAAA
1 CAAAA
58200428 CAACCAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 2 0.05
11 36 0.90
12 2 0.05
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:58200436 original size:22 final size:22
Alignment explanation
Indices: 58200391--58200438 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
58200381 ACATAATAGT
*
58200391 AAAATAATAGCAAAACAATAAG
1 AAAATAATAGCAAAACAACAAG
* *
58200413 AAAATAGTAGCAAAACAACCAG
1 AAAATAATAGCAAAACAACAAG
58200435 AAAA
1 AAAA
58200439 CAAAACAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAATAATAGCAAAACAACAAG
Found at i:58202604 original size:152 final size:151
Alignment explanation
Indices: 58202327--58202759 Score: 511
Period size: 153 Copynumber: 2.8 Consensus size: 151
58202317 TTGTTCGTAG
* *
58202327 TTTGGCCATTTGTTCGTATTTTTTTCTTGGATTTTATTAC-TTC-TAAAAAATATACTATTTTTA
1 TTTGGCCCTTTGTTCGTATTTTTTTC-CGGATTTTATTACTTTCAT-AAAAATATACTA-TTTTA
* * * * * *
58202390 AATTTT-TTATTTTACATCATTTTAGTACATTATATTTAAAATGTATTAATTTAGTGTGTTTTTT
63 TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTT
* *
58202454 AAATAAA-TT-AAAAAATCTTTAT
128 AAATAAATTTAAAAAAACCCTTAT
** *
58202476 TTTGGCCCTTTGTTCGTATTTTTTTACCGGATTTTATTACTTTCAATAAAAATATTTTATTTTCG
1 TTTGGCCCTTTGTTCGTATTTTTTT-CCGGATTTTATTACTTTC-ATAAAAATATACTATTTT-A
* * *
58202541 TATTTTATTATTTTAGATTATTTTAGTACATCATGTTTGAAATGTATTAATTTACTTTATTTTTT
63 TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTT
58202606 AAATAAATTTAAAAAAAACCCTTAT
128 AAATAAATTT-AAAAAAACCCTTAT
* * * * *
58202631 TTCGACCCTTTATTCGTATTTTTTTCCCCAGAGTTTATTACTTT--TAAAAATATACTATTTTAT
1 TTTGGCCCTTTGTTCGTATTTTTTT--CCGGATTTTATTACTTTCATAAAAATATACTATTTTAT
* * *
58202694 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
64 -ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTT
58202759 A
128 A
58202760 TTGAAAGTAA
Statistics
Matches: 242, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
149 36 0.15
150 8 0.03
151 15 0.06
152 59 0.24
153 76 0.31
155 33 0.14
156 15 0.06
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (151 bp):
TTTGGCCCTTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCATAAAAATATACTATTTTATAT
TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTATTTTTTAAA
TAAATTTAAAAAAACCCTTAT
Found at i:58203036 original size:155 final size:152
Alignment explanation
Indices: 58202763--58203409 Score: 872
Period size: 153 Copynumber: 4.2 Consensus size: 152
58202753 TTTTTTATTG
* * * * *
58202763 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAATGACCAAAATAAGAGTTTTTTTTAAGTTTA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAG-GGTTTTTTTAAATTTA
* * * * *
58202828 TTTAAAACACACACTATATGAATATATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
65 TTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * *
58202893 TTTAGAAAATAGTATATTTTTTA
130 ATTAAAAAATAATATATTTTTTA
58202916 AAAGTAATAAAATCCGGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAAATTT
1 AAAGTAATAAAATCCGG-GAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTT-AAATTT
* * *
58202981 ATTTAAAAAAACACAGTTAATTAATACATTTTATACATAATGTACTAAAATAATGTAAAATAATA
64 ATTT-AAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
58203046 AAATTAGAAAATAATATATTTTTTA
128 AAATTAAAAAATAATATATTTTTTA
* *
58203071 AAAGTAATAAACTCTGGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTA
1 AAAGTAATAAAATC-CGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTA
* *
58203136 TTTAAAAAACACAGTAAATTAATACATTTTAAACATGATGTACTAAAATAATGTAAAATAATAAA
65 TTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
*
58203201 A-TACAAAAATAATATATTTTTATTG
130 ATTA-AAAAATAATATA-TTTT-TTA
* * * *
58203226 AAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCTGAAATAAAGATTTTTTT-AATTTAT
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTAT
* * * * *
58203290 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACGAAAATAATCTAAAATAAAAAAA
66 TTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT-AATAAA
*
58203355 ATTAAAAAATAGTATA-TTTTTA
130 ATTAAAAAATAATATATTTTTTA
* *
58203377 AAAGTAATAAAAT-C-TGAAAAAAAAACGAACAAA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAA
58203410 TGGTCAAAAT
Statistics
Matches: 446, Mismatches: 39, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
149 17 0.04
151 15 0.03
152 5 0.01
153 155 0.35
154 107 0.24
155 145 0.33
156 2 0.00
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.30
Consensus pattern (152 bp):
AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTAT
TTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
TTAAAAAATAATATATTTTTTA
Done.