Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 124 of 295
Found at i:37613382 original size:41 final size:41
Alignment explanation
Indices: 37613334--37613418 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
37613324 AATATATACA
37613334 CATCAAAACTTATATACATAGACCTTCTAGCCTATACATGC
1 CATCAAAACTTATATACATAGACCTTCTAGCCTATACATGC
37613375 CATCAAAACTTATATACATAGACCTTCTAGCCTATACATGC
1 CATCAAAACTTATATACATAGACCTTCTAGCCTATACATGC
37613416 CAT
1 CAT
37613419 ACTTTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (41 bp):
CATCAAAACTTATATACATAGACCTTCTAGCCTATACATGC
Found at i:37613952 original size:42 final size:43
Alignment explanation
Indices: 37613859--37614091 Score: 181
Period size: 43 Copynumber: 5.5 Consensus size: 43
37613849 CAATGTTGAC
* * * * **
37613859 GTCCCAGACGTAGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGCCGAT
*
37613902 GTCCCAGACAGGGTCTTACACG-AAATCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
* * * * ** * *
37613944 GTCGCAGACATTGTCATATACGTAAATCTCAAACGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCC-GAT
* * *
37613987 GTCCCAGACACGGTCTTACATG-AAATCAGATACGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
* * *
37614029 GTCCCAGACATGGTCTTATACGTAAATCACA-ATCGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGCC-GAT
* *
37614072 TTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
37614092 TGATGTCTCA
Statistics
Matches: 147, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.01
42 63 0.43
43 81 0.55
44 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
Found at i:37614013 original size:85 final size:85
Alignment explanation
Indices: 37613896--37614094 Score: 308
Period size: 85 Copynumber: 2.3 Consensus size: 85
37613886 CAATATCGAT
* * * * *
37613896 GCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCGATGTCGCAGACATTGTCAT
1 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACATGGTCAT
*
37613961 ATACGTAAATCTCAAACGAG
66 ATACGTAAATCACAAACGAG
* *
37613981 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGTCGATGTCCCAGACATGGTCTT
1 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACATGGTCAT
*
37614046 ATACGTAAATCACAATCGAG
66 ATACGTAAATCACAAACGAG
*
37614066 GCCTGTTTCCCAGACACGGTCTTACATGA
1 GCCTGTGTCCCAGACACGGTCTTACATGA
37614095 TGTCTCAGAC
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (85 bp):
GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACATGGTCAT
ATACGTAAATCACAAACGAG
Found at i:37622860 original size:55 final size:55
Alignment explanation
Indices: 37622723--37622860 Score: 145
Period size: 55 Copynumber: 2.5 Consensus size: 55
37622713 CATAGTTGAA
* * * * *
37622723 CACACGGGCGTGTGCCATGGCCGTGTTTTAAAGTCAGTGTTATACACGGGCAAGT
1 CACACGGGCATGTGCCATGGCCGTGTTTAAAAGACAGTATTATACACGGGCAAGC
* * * * *
37622778 CACACGGACATGTGCTATGGTCGTGTTTAAAAGACAGTATTGA-ACATGGG-TAGAC
1 CACACGGGCATGTGCCATGGCCGTGTTTAAAAGACAGTATT-ATACACGGGCAAG-C
*
37622833 CACACGGGCATGTGCCATGGCCATGTTT
1 CACACGGGCATGTGCCATGGCCGTGTTT
37622861 TAAATCCAGT
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
54 2 0.03
55 64 0.96
56 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (55 bp):
CACACGGGCATGTGCCATGGCCGTGTTTAAAAGACAGTATTATACACGGGCAAGC
Found at i:37623251 original size:49 final size:47
Alignment explanation
Indices: 37623163--37623290 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 47
37623153 CAAGGTGTGT
37623163 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-A-TGAGAGC
* ** *
37623212 CAGTGTAACACCTGTCTGGGACATGGCATCGACTTAGATATGAGAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATATGAGAGC
* * * *
37623259 CAGTATAAGACCATGTTTGGAACATAGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
37623291 GCTTCGTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 16 0.23
48 17 0.25
49 36 0.52
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATATGAGAGC
Found at i:37626522 original size:17 final size:16
Alignment explanation
Indices: 37626500--37626559 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
37626490 ATTTCCATAG
37626500 TTTAATATTAAATTAAA
1 TTTAATATTAAATT-AA
*
37626517 TTTAATATTAAAGTGGTTA
1 TTTAATATTAAA-T--TAA
37626536 TCTTAATATTAAATTTAA
1 T-TTAATATTAAA-TTAA
37626554 TTTAAT
1 TTTAAT
37626560 GTTTATCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 2 0.06
20 13 0.36
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTAATATTAAATTAA
Found at i:37628573 original size:27 final size:26
Alignment explanation
Indices: 37628525--37628584 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
37628515 GCAAGGCTAC
* *
37628525 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCA-AAA
* * *
37628552 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACAAAGCCACCAAAA
37628578 CAGATAT
1 CAGATAT
37628585 ATATGTGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAAAA
Found at i:37628629 original size:71 final size:67
Alignment explanation
Indices: 37628552--37628693 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
37628542 TCACCAGATA
* * * *
37628552 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATGTGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAAAACAG--ATATA--TGTGGCGAAGCCACCAGATTGCAACGA
37628617 GGCTGC
62 GGCTGC
* * * *
37628623 CAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACCAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
37628688 GC
66 GC
37628690 CAGA
1 CAGA
37628694 ATGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 35 0.56
69 4 0.06
71 24 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:37629296 original size:26 final size:27
Alignment explanation
Indices: 37629267--37629320 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37629257 TCACACAAGT
*
37629267 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
37629293 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
37629320 T
1 T
37629321 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:37629394 original size:54 final size:54
Alignment explanation
Indices: 37629336--37629493 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
37629326 TTTTACCCCG
* * * *
37629336 CAAGGGTATCTCGGTAATTGTACCCTGCAGGGGTATTTCGATATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA
* *
37629390 CAAGGGTATTTCGGTAATTCTACCCAACAGGGGTATTTCAATAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA
* ** *
37629444 CAGGGGTATTTCGGTAATTCTACTTTACAAGGGTATTTCGATAATTCTAC
1 CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
37629494 AACTTATCCA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA
Found at i:37629425 original size:81 final size:81
Alignment explanation
Indices: 37629321--37629493 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
37629311 GGGGCAAAAT
* ** ** * * *
37629321 GGTAATTTTACCCCGCAAGGGTATCTCGGTAATTGTACCCTGCAGGGGTATTTCGATATTTCTAC
1 GGTAATTCTACCCAACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
37629386 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * *
37629402 GGTAATTCTACCCAACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCAACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
**
37629467 TTTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
*
37629483 GATAATTCTAC
1 GGTAATTCTAC
37629494 AACTTATCCA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (81 bp):
GGTAATTCTACCCAACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
CCTACAAGGGTATTTC
Found at i:37629490 original size:27 final size:27
Alignment explanation
Indices: 37629336--37629493 Score: 190
Period size: 27 Copynumber: 5.9 Consensus size: 27
37629326 TTTTACCCCG
* * * *
37629336 CAAGGGTATCTCGGTAATTGTACCCTG
1 CAAGGGTATTTCGATAATTCTACCCTA
* *
37629363 CAGGGGTATTTCGATATTTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
* *
37629390 CAAGGGTATTTCGGTAATTCTACCCAA
1 CAAGGGTATTTCGATAATTCTACCCTA
* *
37629417 CAGGGGTATTTCAATAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
* * **
37629444 CAGGGGTATTTCGGTAATTCTACTTTA
1 CAAGGGTATTTCGATAATTCTACCCTA
37629471 CAAGGGTATTTCGATAATTCTAC
1 CAAGGGTATTTCGATAATTCTAC
37629494 AACTTATCCA
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTCTACCCTA
Found at i:37633638 original size:43 final size:43
Alignment explanation
Indices: 37633590--37633800 Score: 157
Period size: 43 Copynumber: 4.9 Consensus size: 43
37633580 CATCGAGACG
*
37633590 AGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
**
37633633 AGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-TA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTA
* * * *** *
37633676 CGATTACGTGTAAGACCGTGTCTAAAACATTGGCATCG--TTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
* * * * *
37633717 ATCGATTACATGTAAGACCCTTTCTAGGACAGTGGCATCGATATGT-
1 A--GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TA
* * *
37633763 -GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
37633801 CGAGCTTATT
Statistics
Matches: 135, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
41 4 0.03
42 7 0.05
43 119 0.88
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:37640188 original size:24 final size:23
Alignment explanation
Indices: 37640156--37640216 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
37640146 GGAACACTTA
37640156 ATTTTTATTACTTTAACCATTTTT
1 ATTTTTATTACTTTAA-CATTTTT
**
37640180 ATTTTTATTACAATTTAATTTTTTT
1 ATTTTTATTAC--TTTAACATTTTT
*
37640205 ATTTTAATTACT
1 ATTTTTATTACT
37640217 ATTTTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.34
25 15 0.47
26 5 0.16
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTATTACTTTAACATTTTT
Found at i:37640228 original size:24 final size:24
Alignment explanation
Indices: 37640175--37640232 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
37640165 ACTTTAACCA
*
37640175 TTTTTATTTTTATTACAATTTAATT
1 TTTTTATTTTAATTACAATTT-ATT
*
37640200 TTTTTATTTTAATTACTATTT-TT
1 TTTTTATTTTAATTACAATTTATT
37640223 TCTTTTATTT
1 T-TTTTATTT
37640233 GCTTTCGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 8 0.27
25 19 0.63
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTATTTTAATTACAATTTATT
Found at i:37652627 original size:42 final size:43
Alignment explanation
Indices: 37652568--37652680 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 43
37652558 CATCCATTAT
37652568 GAACTCGGACCACTCAACGAGCTCGGATGC-CACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
* * * * *
37652610 GAACTTGGACCACTCAACAAGTTCGTATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
* *
37652653 GAACTCGAACCGCTCAACGAGCTCGGAT
1 GAACTCGGACCACTCAACGAGCTCGGAT
37652681 TTCTTAATTC
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
Found at i:37656678 original size:57 final size:57
Alignment explanation
Indices: 37656610--37656718 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
37656600 CATTTTGACA
** *
37656610 AACATAAATATGTGCATTAAGAGACATTATGACAGCACCTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATTTGGCC
* *
37656667 AACATAAATATGCACATTAAGAGATATTTTGACAGCAACTATAAATTACATT
1 AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATT
37656719 AAGACCGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATTTGGCC
Found at i:37658236 original size:16 final size:18
Alignment explanation
Indices: 37658203--37658238 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
37658193 AAAAATGTAA
37658203 TTAATTTAAAATTTTTAT
1 TTAATTTAAAATTTTTAT
37658221 TTAA-TTAAAA-TTTTAT
1 TTAATTTAAAATTTTTAT
37658237 TT
1 TT
37658239 TAATCTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATTTAAAATTTTTAT
Found at i:37658401 original size:19 final size:19
Alignment explanation
Indices: 37658379--37658417 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37658369 AAATGAACTA
37658379 AAAAAACCACTACTTTTGT
1 AAAAAACCACTACTTTTGT
*
37658398 AAAAAACCACTATTTTTGT
1 AAAAAACCACTACTTTTGT
37658417 A
1 A
37658418 GTGTATCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAAACCACTACTTTTGT
Found at i:37660129 original size:2 final size:2
Alignment explanation
Indices: 37660122--37660162 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
37660112 CTGCTGCTGC
37660122 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
37660163 CCTGCCTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:37663335 original size:11 final size:11
Alignment explanation
Indices: 37663319--37663343 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37663309 TCAGTAGGCA
37663319 CATCACTAAAC
1 CATCACTAAAC
37663330 CATCACTAAAC
1 CATCACTAAAC
37663341 CAT
1 CAT
37663344 TATTTGGTTG
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:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (11 bp):
CATCACTAAAC
Found at i:37665918 original size:58 final size:58
Alignment explanation
Indices: 37665835--37665988 Score: 197
Period size: 58 Copynumber: 2.6 Consensus size: 58
37665825 TATTATGATC
* *
37665835 TTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTATTAAATTATAT-ATTAT
1 TTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATATTATTAAATTATATCATTAT
* * *
37665894 TTTATTAAATTGTATTTAATAATAATTATGTTAAAATATTATTTAATTATATCATTAT
1 TTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAATTATATCATTAT
*
37665952 TTTATTAAATTATATTTAGTAATAATCTA-ATTAAAAT
1 TTTATTAAATTATATTTAATAATAAT-TATATTAAAAT
37665989 TTAATAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
57 16 0.19
58 54 0.64
59 10 0.12
60 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (58 bp):
TTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAATTATATCATTAT
Found at i:37665936 original size:27 final size:26
Alignment explanation
Indices: 37665850--37665991 Score: 88
Period size: 29 Copynumber: 5.0 Consensus size: 26
37665840 TAATTCATAT
*
37665850 TTTAAAAATAATTATATTAAGAATGTTA
1 TTTAATAATAATTATATTAA-AAT-TTA
* * *
37665878 TTAAATTATATATTATTTTATTAAATTGTA
1 TTTAATAATA-ATTATATTA--AAATT-TA
*
37665908 TTTAATAATAATTATGTTAAAATATTA
1 TTTAATAATAATTATATTAAAAT-TTA
* *
37665935 TTTAATTATATCATTATTTTATTAAATTATA
1 TTTAA-TA-ATAATTATATTA--AAATT-TA
*
37665966 TTTAGTAATAATCTA-ATTAAAATTTA
1 TTTAATAATAAT-TATATTAAAATTTA
37665992 ATAACAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
26 2 0.02
27 16 0.18
28 10 0.11
29 34 0.37
30 18 0.20
31 11 0.12
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTAATAATAATTATATTAAAATTTA
Found at i:37666171 original size:16 final size:16
Alignment explanation
Indices: 37666150--37666203 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
37666140 TGAATTATTA
** *
37666150 ATTACAGTTTTATTCT
1 ATTACAGTCATATTCC
37666166 ATTACAGTCATATTCC
1 ATTACAGTCATATTCC
*
37666182 ATTACA-TCTCTATTCC
1 ATTACAGTC-ATATTCC
37666198 ATTACA
1 ATTACA
37666204 ATCCTATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 2 0.06
16 31 0.94
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTACAGTCATATTCC
Found at i:37666210 original size:16 final size:16
Alignment explanation
Indices: 37666160--37666212 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
37666150 ATTACAGTTT
* * *
37666160 TATTCTATTACAGTCA
1 TATTCCATTACAATCC
37666176 TATTCCATTAC-ATCTC
1 TATTCCATTACAATC-C
37666192 TATTCCATTACAATCC
1 TATTCCATTACAATCC
37666208 TATTC
1 TATTC
37666213 TATTTACCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 27 0.84
17 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAATCC
Found at i:37666559 original size:16 final size:15
Alignment explanation
Indices: 37666517--37666559 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
37666507 CGTTCGGGTG
37666517 AATGGAATATGATTGT
1 AATGGAATA-GATTGT
* *
37666533 AATAGATTAGAGTTGT
1 AATGGAATAGA-TTGT
37666549 AATGGAATAGA
1 AATGGAATAGA
37666560 ACTGTAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.33
Consensus pattern (15 bp):
AATGGAATAGATTGT
Found at i:37666605 original size:46 final size:44
Alignment explanation
Indices: 37666552--37666640 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
37666542 GAGTTGTAAT
37666552 GGAATAGAACTGTAATTAGTCATTCAAT-TGTTTGGTTCAATAGAAC
1 GGAATAGAACTGTAA-TAGT-ATTC-ATGTGTTTGGTTCAATAGAAC
** * *
37666598 GGAATAGAGTTGTAATAGTATTCTTGTGTTTGGTTGAATAGAA
1 GGAATAGAACTGTAATAGTATTCATGTGTTTGGTTCAATAGAA
37666641 TAGATTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 20 0.53
45 4 0.11
46 13 0.34
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (44 bp):
GGAATAGAACTGTAATAGTATTCATGTGTTTGGTTCAATAGAAC
Found at i:37666836 original size:57 final size:53
Alignment explanation
Indices: 37666735--37666841 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 53
37666725 ATTGTTATTA
*
37666735 AATTATTATTAAATATAATATAATAATAAATAATTTAATCATATT-TTAACAT
1 AATTATTATTAAATATAATATAATAATAAATAATTTAATAATATTCTTAACAT
*
37666787 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTCTTAA
1 AATTATTATTAAATATAA--T-AT--AATAATAAATAATTTAATAATATTCTTAA
37666842 TTCAATTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
52 18 0.38
54 1 0.02
55 2 0.04
57 22 0.47
58 4 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (53 bp):
AATTATTATTAAATATAATATAATAATAAATAATTTAATAATATTCTTAACAT
Found at i:37670267 original size:52 final size:52
Alignment explanation
Indices: 37670189--37670292 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
37670179 TATTCGAATT
37670189 TACTATTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
1 TACTATTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
37670241 TACTATTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
1 TACTATTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
37670293 ATAATAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (52 bp):
TACTATTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
Found at i:37671939 original size:22 final size:22
Alignment explanation
Indices: 37671898--37671956 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
37671888 GTTTTAAGAA
* *
37671898 TTGTTTTAGTA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
37671919 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
37671941 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
37671957 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:37671955 original size:20 final size:22
Alignment explanation
Indices: 37671911--37671956 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
37671901 TTTTAGTATC
* *
37671911 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
37671933 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
37671953 ATTT
1 ATTT
37671957 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:37671973 original size:26 final size:24
Alignment explanation
Indices: 37671927--37671975 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
37671917 ATTTGTTTTA
*
37671927 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
37671951 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
37671976 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:37671986 original size:25 final size:26
Alignment explanation
Indices: 37671930--37671987 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
37671920 TGTTTTAATA
*
37671930 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
37671955 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
37671980 TTTATTTA
1 TTTATTTA
37671988 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:37672519 original size:29 final size:31
Alignment explanation
Indices: 37672471--37672534 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
37672461 TTTATAATTA
*
37672471 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
37672502 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
37672531 TTTA
1 TTTA
37672535 TTTAATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:37672523 original size:8 final size:8
Alignment explanation
Indices: 37672512--37672536 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37672502 TTTAATAAGA
37672512 TATTTTAT
1 TATTTTAT
37672520 TATTTTAT
1 TATTTTAT
37672528 TATTTTAT
1 TATTTTAT
37672536 T
1 T
37672537 TAATCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:37675140 original size:5 final size:5
Alignment explanation
Indices: 37675125--37675161 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
37675115 AGTGGAAAAG
*
37675125 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
37675162 ATGATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:37675641 original size:45 final size:45
Alignment explanation
Indices: 37675577--37675809 Score: 358
Period size: 45 Copynumber: 5.2 Consensus size: 45
37675567 TTGTTACCGC
* *
37675577 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
37675622 TACTGTTATCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
37675667 TATTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
37675712 TATTGTTACCGTCACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
37675757 TACTATTACCGTTACTGATTCAGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
37675802 TACTGTTA
1 TACTGTTA
37675810 GTATTACTGT
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 171 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:37675822 original size:6 final size:6
Alignment explanation
Indices: 37675799--37675863 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
37675789 TGTTGAATAT
* * *
37675799 TGTTAC TGTTAG TATTAC TGTTAC TGCTAC TGTTAC TGATTAC TGTT-C
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TGTTAC
* *
37675847 TGGTAC TATGTAC TGTT
1 TGTTAC TGT-TAC TGTT
37675864 TTAGGCACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 11 0.24
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (6 bp):
TGTTAC
Found at i:37675860 original size:25 final size:25
Alignment explanation
Indices: 37675812--37675861 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37675802 TACTGTTAGT
*
37675812 ATTACTGTTACTGCTACTGTTACTG
1 ATTACTGTTACTGCTACTATTACTG
*
37675837 ATTACTGTT-CTGGTACTATGTACTG
1 ATTACTGTTACTGCTACTAT-TACTG
37675862 TTTTAGGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (25 bp):
ATTACTGTTACTGCTACTATTACTG
Found at i:37676683 original size:19 final size:19
Alignment explanation
Indices: 37676659--37676696 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37676649 AAAGAAAGAA
37676659 AAGATATAAACATACAGGT
1 AAGATATAAACATACAGGT
*
37676678 AAGATATAAACATATAGGT
1 AAGATATAAACATACAGGT
37676697 TATTAGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.24
Consensus pattern (19 bp):
AAGATATAAACATACAGGT
Found at i:37677691 original size:8 final size:8
Alignment explanation
Indices: 37677668--37677692 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37677658 TTTAATATGA
37677668 TATTTTAT
1 TATTTTAT
37677676 TATTTTAT
1 TATTTTAT
37677684 TATTTTAT
1 TATTTTAT
37677692 T
1 T
37677693 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:37677692 original size:21 final size:21
Alignment explanation
Indices: 37677640--37677693 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
37677630 AATTAGATAA
37677640 TTATTA-TTTA-TTTAATATT
1 TTATTATTTTATTTTAATATT
* ** *
37677659 TTAATATGATATTTTATTATT
1 TTATTATTTTATTTTAATATT
37677680 TTATTATTTTATTT
1 TTATTATTTTATTT
37677694 AGTCTATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 5 0.19
20 2 0.08
21 19 0.73
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTATTTTATTTTAATATT
Found at i:37679327 original size:18 final size:18
Alignment explanation
Indices: 37679306--37679344 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37679296 GTAAAATATT
37679306 AAATAATATTAAATAATA
1 AAATAATATTAAATAATA
* **
37679324 AAATATTATTATTTAATA
1 AAATAATATTAAATAATA
37679342 AAA
1 AAA
37679345 ATATTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATATTAAATAATA
Found at i:37691716 original size:51 final size:48
Alignment explanation
Indices: 37691614--37691716 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
37691604 TCCCCAAAAA
* * * *
37691614 TAATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTTACCT
1 TAATATTATTTTAATAATTTAATATTAAATGAAATTTAATATTAAACT
* * *
37691662 TAATATTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTAAATT
1 TAATATTATTTTAATAATTTAATATTAAA-TGA-AAT-TTAATATTAAACT
37691713 TAAT
1 TAAT
37691717 TTAATGGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 27 0.60
49 2 0.04
50 2 0.04
51 14 0.31
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (48 bp):
TAATATTATTTTAATAATTTAATATTAAATGAAATTTAATATTAAACT
Found at i:37691964 original size:25 final size:26
Alignment explanation
Indices: 37691922--37691972 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
37691912 AATTGTAAAG
*
37691922 AGAAAGTTCTCTAAAGATATTATTCT
1 AGAAAATTCTCTAAAGATATTATTCT
* *
37691948 AGAAAATT-TCTACAGATATTTTTCT
1 AGAAAATTCTCTAAAGATATTATTCT
37691973 GATTTACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGATATTATTCT
Found at i:37697517 original size:29 final size:29
Alignment explanation
Indices: 37697484--37697551 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
37697474 TGTGAACAGG
* *
37697484 CCGTGTGTCTCACATGGCCTTGGACACGC
1 CCGTGTGTCTCACACGACCTTGGACACGC
*
37697513 CCGTGTGTCACACACGACCTTGGACACGC
1 CCGTGTGTCTCACACGACCTTGGACACGC
*
37697542 TCGTGTGTCT
1 CCGTGTGTCT
37697552 AAGCCGTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.15, C:0.34, G:0.26, T:0.25
Consensus pattern (29 bp):
CCGTGTGTCTCACACGACCTTGGACACGC
Found at i:37698111 original size:58 final size:56
Alignment explanation
Indices: 37698039--37698212 Score: 149
Period size: 58 Copynumber: 3.0 Consensus size: 56
37698029 AATCATACCT
*
37698039 AAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
1 AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
* * * * ** * * *
37698095 AAGTTTCAAAT-CTCAATTCATCAATCAAT-TTATAC-CAAAACTTCAACTAAAATCATAC-C
1 AA---ACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTT--ACCAAAA-C-TTCTC
*
37698154 TAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
1 -AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
37698211 AA
1 AA
37698213 CGTTGACCAT
Statistics
Matches: 86, Mismatches: 20, Indels: 24
0.66 0.15 0.18
Matches are distributed among these distances:
56 14 0.16
57 9 0.10
58 42 0.49
59 9 0.10
60 12 0.14
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (56 bp):
AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
Found at i:37698186 original size:116 final size:116
Alignment explanation
Indices: 37697982--37698212 Score: 462
Period size: 116 Copynumber: 2.0 Consensus size: 116
37697972 TTACCAATCA
37697982 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
1 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
37698047 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
66 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
37698098 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
1 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
37698163 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAA
66 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAA
37698213 CGTTGACCAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (116 bp):
TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
Found at i:37698859 original size:42 final size:41
Alignment explanation
Indices: 37698765--37698921 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 41
37698755 CAGTGCCAAG
* * * * *
37698765 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAGA-AGCGATGCCA-T
* * *
37698808 GTCCTAGACAGGGTCTTACACGAAATCAGCTA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAG-AAGCGATGCC-AT
*
37698850 GTCCCAGACATGGTCTTACACGTGAAAT-AGAAGTCGATGCCAAC
1 GTCCCAGACATGGTCTTACAC--GAAATCAGAAG-CGATGCC-AT
*
37698894 GTCCCAGATATGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
37698922 CATAACGGAA
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
42 33 0.35
43 28 0.30
44 33 0.35
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAGAAGCGATGCCAT
Found at i:37698898 original size:44 final size:44
Alignment explanation
Indices: 37698758--37698921 Score: 153
Period size: 44 Copynumber: 3.8 Consensus size: 44
37698748 AGATATACAG
* * *
37698758 TGCCAAGGTCCCAGACGTGGTCTTACA-TGTAATCA-AACATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACTGAAATCAGAA-ATCGA
* * **
37698801 TGCC-ACTGTCCTAGACAGGGTCTTACAC-GAAATCAGCTA-CGA
1 TGCCAAC-GTCCCAGACATGGTCTTACACTGAAATCAGAAATCGA
* * *
37698843 TGCCGATGTCCCAGACATGGTCTTACACGTGAAAT-AGAAGTCGA
1 TGCCAACGTCCCAGACATGGTCTTACAC-TGAAATCAGAAATCGA
*
37698887 TGCCAACGTCCCAGATATGGTCTTACAC-GAAATCA
1 TGCCAACGTCCCAGACATGGTCTTACACTGAAATCA
37698922 CATAACGGAA
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
42 32 0.33
43 32 0.33
44 33 0.34
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (44 bp):
TGCCAACGTCCCAGACATGGTCTTACACTGAAATCAGAAATCGA
Found at i:37699569 original size:13 final size:13
Alignment explanation
Indices: 37699551--37699594 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 13
37699541 AAGCTCATGA
37699551 ATTCTGTAGGAAT
1 ATTCTGTAGGAAT
37699564 ATTCTGTA--AAT
1 ATTCTGTAGGAAT
37699575 ATT-T-TAGGAAT
1 ATTCTGTAGGAAT
*
37699586 ATTTTGTAG
1 ATTCTGTAG
37699595 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 2 0.07
10 1 0.04
11 12 0.44
12 1 0.04
13 11 0.41
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (13 bp):
ATTCTGTAGGAAT
Found at i:37699585 original size:22 final size:22
Alignment explanation
Indices: 37699557--37699601 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37699547 ATGAATTCTG
37699557 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
37699579 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
37699601 T
1 T
37699602 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:37704184 original size:22 final size:22
Alignment explanation
Indices: 37704156--37704200 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37704146 AGGGGGAGTG
37704156 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
37704178 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
37704200 T
1 T
37704201 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:37711702 original size:43 final size:42
Alignment explanation
Indices: 37711644--37711753 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
37711634 CAATGCCAAG
37711644 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGC-CACT
1 GTCCCAGACAG-GGTCTTACATGTAATCAAATA-CGATGCTCA-T
** * * * *
37711687 GTCGTAGACAGGGTCTTACACGAAATCAGATACGATGCTGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTCAT
*
37711729 GTCCCAGACATGGTCTTACATGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
37711754 AATAGAAGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 27 0.50
43 26 0.48
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTCAT
Found at i:37711738 original size:42 final size:43
Alignment explanation
Indices: 37711644--37711800 Score: 110
Period size: 44 Copynumber: 3.7 Consensus size: 43
37711634 CAATGCCAAG
* *
37711644 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATATCGATGCCACT
** * *
37711687 GTCGTAGACAGGGTCTTACACGAAATCAGATA-CGATGCTGA-T
1 GTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGC-CACT
* * * *
37711729 GTCCCAGACATGGTCTTACATGTAAAAT-AGAA-GTCGATGCCAAT
1 GTCCCAGACAGGGTCTTACACG--AAATCA-AATATCGATGCCACT
* *
37711773 GTCCCAGA-TGTGGTCTTACACAAAATCA
1 GTCCCAGACAG-GGTCTTACACGAAATCA
37711801 CATAACTGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 30 0.34
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:37723923 original size:47 final size:47
Alignment explanation
Indices: 37723816--37724250 Score: 690
Period size: 47 Copynumber: 9.1 Consensus size: 47
37723806 GAAATGATAG
37723816 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
37723865 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37723912 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37723959 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37724006 TAAGGCCTAATGGCCGATGTGATGAGTGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37724053 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GTGA
*
37724102 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37724149 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
* * * * * * * * *
37724200 CAGGGCCGAGTGACCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37724247 TAAG
1 TAAG
37724251 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 17, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
47 243 0.67
49 82 0.23
51 38 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37724425 original size:37 final size:37
Alignment explanation
Indices: 37724369--37724447 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
37724359 CCGAGCTCTA
* * * * *
37724369 AAGACCTGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37724406 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37724443 AAGAC
1 AAGAC
37724448 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37731314 original size:47 final size:47
Alignment explanation
Indices: 37731261--37731355 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
37731251 CTAATGTACT
37731261 TTTACCCAAAGGACCTTTTACCAGTACGT-TCGTCTCAAAATACTCTA
1 TTTACCCAAAGGACCTTTTACCAGTACGTCT-GTCTCAAAATACTCTA
** * *
37731308 TTTACCCAAAGGATTTTTTACTAGTACGTCTGTCTCAGAATACTCTA
1 TTTACCCAAAGGACCTTTTACCAGTACGTCTGTCTCAAAATACTCTA
37731355 T
1 T
37731356 CTCAAGACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 42 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (47 bp):
TTTACCCAAAGGACCTTTTACCAGTACGTCTGTCTCAAAATACTCTA
Found at i:37762179 original size:20 final size:20
Alignment explanation
Indices: 37762154--37762212 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
37762144 TAAAGATGGT
37762154 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
37762174 ATGTATGATATGCGCATGAC
1 ATGTATGATATGCACATGAC
37762194 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
37762213 TGTATTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:37762406 original size:25 final size:24
Alignment explanation
Indices: 37762263--37762392 Score: 208
Period size: 24 Copynumber: 5.4 Consensus size: 24
37762253 GAGGAAGTGC
*
37762263 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
37762287 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
37762311 AAAAGGGCTTATGCCCCTA-TTATT
1 AAAAGGGCTTATGCCCC-AGTTATT
37762335 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37762359 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
37762383 AAAAGAGGCT
1 AAAAG-GGCT
37762393 AGGCCTCTAG
Statistics
Matches: 101, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
23 1 0.01
24 95 0.94
25 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:37765292 original size:20 final size:20
Alignment explanation
Indices: 37765267--37765333 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
37765257 CACACACGTG
*
37765267 CCCTTGATTGTACTTTGGTA
1 CCCTTGATTGTACTTAGGTA
* *
37765287 CCCTTGATTGCACATACGTGT-
1 CCCTTGATTGTACTTA-G-GTA
37765308 CCC-TGATTGTACTTAGGTA
1 CCCTTGATTGTACTTAGGTA
37765327 CCCTTGA
1 CCCTTGA
37765334 ATGCACATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 26 0.68
21 4 0.11
22 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.37
Consensus pattern (20 bp):
CCCTTGATTGTACTTAGGTA
Found at i:37765317 original size:40 final size:39
Alignment explanation
Indices: 37765257--37765369 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 39
37765247 TTTGAATACA
* *
37765257 CACACACGTGCCCTTGATTGTACTTTGGTACCCTTGATTG
1 CACATACGTGCCC-TGATTGTACTTTGGTACCCTTGAATG
*
37765297 CACATACGTGTCCCTGATTGTACTTAGGTACCCTTGAATG
1 CACATACGTG-CCCTGATTGTACTTTGGTACCCTTGAATG
* *
37765337 CACATACATGCCGCTGTTTGTACTTTGGTACCC
1 CACATACGTGCC-CTGATTGTACTTTGGTACCC
37765370 CTAAATGGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.03
40 60 0.92
41 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (39 bp):
CACATACGTGCCCTGATTGTACTTTGGTACCCTTGAATG
Found at i:37765394 original size:40 final size:40
Alignment explanation
Indices: 37765274--37765408 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
37765264 GTGCCCTTGA
* *
37765274 TTGTACTTTGGTACCCTTGATTGCACATACGTGT-CCCTGA
1 TTGTACTTTGGTACCCTTGAATGCACATACGT-TCCCCTGT
* * * *
37765314 TTGTACTTAGGTACCCTTGAATGCACATACATGCCGCTGT
1 TTGTACTTTGGTACCCTTGAATGCACATACGTTCCCCTGT
* * * *
37765354 TTGTACTTTGGTACCCCTAAATGGATATACGTTCCCCTGT
1 TTGTACTTTGGTACCCTTGAATGCACATACGTTCCCCTGT
* *
37765394 TTGTACCTTAGTACC
1 TTGTACTTTGGTACC
37765409 TATAACATCC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (40 bp):
TTGTACTTTGGTACCCTTGAATGCACATACGTTCCCCTGT
Found at i:37768705 original size:30 final size:30
Alignment explanation
Indices: 37768641--37768706 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
37768631 ACATGGCCAT
* *
37768641 GTGTCACACACGGCCTAGCGACACAGTTGT
1 GTGTCACACACGGCCTAGCGACACAGCTGG
* * *
37768671 GTGTCACACACGGCCTGGTGACACGGCTGG
1 GTGTCACACACGGCCTAGCGACACAGCTGG
37768701 GTGTCA
1 GTGTCA
37768707 TTTGTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (30 bp):
GTGTCACACACGGCCTAGCGACACAGCTGG
Found at i:37773729 original size:207 final size:207
Alignment explanation
Indices: 37773374--37773750 Score: 691
Period size: 207 Copynumber: 1.8 Consensus size: 207
37773364 GAGATGAAGG
*
37773374 ACTTGGGATGGAGATTCTCAGAGATAGAAAAAAATGTAAATTGTACCTAAGTTAGAAAGGGTACA
1 ACTTGGGATGGAGATTCTCAGAGATAGAAAAAAATGTAAATTGTACCTAAGTCAGAAAGGGTACA
*
37773439 TTGAGAAACTTCTTTGCATGTTCAATATGCAGAATGCCAAGGCTGTTAGGACTCCATTAACAGTC
66 TTGAGAAACTTCTTTGCATGTTCAATATGCAAAATGCCAAGGCTGTTAGGACTCCATTAACAGTC
*
37773504 CACTTTAGACTTTCATCAGCTTTGTCTCTACAATCAAATGTATCTACATATAAAGGAGATTCTCA
131 CACTTCAGACTTTCATCAGCTTTGTCTCTACAATCAAATGTATCTACATATAAAGGAGATTCTCA
37773569 GCCAAATAAGAT
196 GCCAAATAAGAT
37773581 ACTTGGGATGGAGATTCTCAGAGATAGAAAAAAATGTAAATTGTACCTAAGTCAGAAAGGGTACA
1 ACTTGGGATGGAGATTCTCAGAGATAGAAAAAAATGTAAATTGTACCTAAGTCAGAAAGGGTACA
* **
37773646 TTGAGAAAGTTCTTTGCATGTTCAATATGCAAAATGCCAAGGCTGTTAGGACTCTGTTAACAGTC
66 TTGAGAAACTTCTTTGCATGTTCAATATGCAAAATGCCAAGGCTGTTAGGACTCCATTAACAGTC
*
37773711 CACTTCAGACTTTCATCAGCTTTTTCTCTACAATCAAATG
131 CACTTCAGACTTTCATCAGCTTTGTCTCTACAATCAAATG
37773751 ATGAGATTGA
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 163 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (207 bp):
ACTTGGGATGGAGATTCTCAGAGATAGAAAAAAATGTAAATTGTACCTAAGTCAGAAAGGGTACA
TTGAGAAACTTCTTTGCATGTTCAATATGCAAAATGCCAAGGCTGTTAGGACTCCATTAACAGTC
CACTTCAGACTTTCATCAGCTTTGTCTCTACAATCAAATGTATCTACATATAAAGGAGATTCTCA
GCCAAATAAGAT
Found at i:37775281 original size:119 final size:119
Alignment explanation
Indices: 37775069--37775288 Score: 262
Period size: 119 Copynumber: 1.8 Consensus size: 119
37775059 AGAAAAATTA
* * * * * * ** *
37775069 TTTAAGCTCAACTCCTATCTCTTAAGCTGTAGCCTCACCTTTGTATGATCTACTATTGGTTTTAA
1 TTTAAACTCAAATCCTATCTCTCAAGCTGCAACCTCACATTTGTACAATCTACTATTGGTTCTAA
* *
37775134 CTCATTGCTCTTTCAATCACTTAGAAAGTGTCTACAGTAACCATCTAAGAATGG
66 CACATTGCTCTTTCAATCACTTAAAAAGTGTCTACAGTAACCATCTAAGAATGG
* * *
37775188 TTTAAACTCAAATCCTATCTCTCAAGTTGCAATCTCACATTTGTACAATCTATTATTGGTTCTAA
1 TTTAAACTCAAATCCTATCTCTCAAGCTGCAACCTCACATTTGTACAATCTACTATTGGTTCTAA
* * * *
37775253 CACCTTGTTC-TTCTGATCACTTAAAAAGTGTTTACA
66 CACATTGCTCTTTC-AATCACTTAAAAAGTGTCTACA
37775289 ACTACTATCT
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
118 3 0.04
119 79 0.96
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.38
Consensus pattern (119 bp):
TTTAAACTCAAATCCTATCTCTCAAGCTGCAACCTCACATTTGTACAATCTACTATTGGTTCTAA
CACATTGCTCTTTCAATCACTTAAAAAGTGTCTACAGTAACCATCTAAGAATGG
Found at i:37783253 original size:61 final size:62
Alignment explanation
Indices: 37783116--37783264 Score: 164
Period size: 61 Copynumber: 2.4 Consensus size: 62
37783106 CTTCTAGGTA
* * *
37783116 AAACTCTAGATAGGAAAGCCTTTGTGTCGAGTAGTAGATATAATGGATAGTCTTTATAGCGT
1 AAACTCTTGATAGGAAAGCCTTTGTGTCGAGTAGTAGATATAAAGGATAGCCTTTATAGCGT
* * * *
37783178 AAA-T-TTGGACAGGAAAGCCTTTGTAG-CGAGTAATTA-ATGTAAAGGATAGCCTTTATGGCG-
1 AAACTCTT-GATAGGAAAGCCTTTGT-GTCGAGT-AGTAGATATAAAGGATAGCCTTTATAGCGT
*
37783238 AAACTCTTGATAGGAAAGCTTTTGTGT
1 AAACTCTTGATAGGAAAGCCTTTGTGT
37783265 AAACCTCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
60 5 0.07
61 58 0.81
62 9 0.12
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (62 bp):
AAACTCTTGATAGGAAAGCCTTTGTGTCGAGTAGTAGATATAAAGGATAGCCTTTATAGCGT
Found at i:37788415 original size:41 final size:42
Alignment explanation
Indices: 37788313--37788467 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 42
37788303 TGTGTTCTCA
** * *
37788313 TGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATT-TG
* * *
37788356 TGTAAGACCATGTGTGGGACATTGGCATTG-TATTTGATTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTG
* * *
37788397 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGA-TTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTG
* *
37788438 CATGTAAGACCATATCTGGGACGTTGGCAT
1 --TGTAAGACCATGTCTGGGACATTGGCAT
37788468 TGTATGATAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 30 0.33
42 14 0.15
43 48 0.52
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTG
Found at i:37790576 original size:33 final size:33
Alignment explanation
Indices: 37790534--37790602 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
37790524 AGTCCAAATG
37790534 CTTATTGATAGTACTAGAAACAACATATGTTTT
1 CTTATTGATAGTACTAGAAACAACATATGTTTT
*
37790567 CTTATTGATAGTACTAGAAAGAACATATGTTTT
1 CTTATTGATAGTACTAGAAACAACATATGTTTT
37790600 CTT
1 CTT
37790603 TTTACTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (33 bp):
CTTATTGATAGTACTAGAAACAACATATGTTTT
Found at i:37796405 original size:20 final size:21
Alignment explanation
Indices: 37796360--37796415 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
37796350 GTGGGGGTCT
37796360 ACATGCCCATGTGAAGGCCCC
1 ACATGCCCATGTGAAGGCCCC
* **
37796381 ACATGCCCATGTGGAGG-GGC
1 ACATGCCCATGTGAAGGCCCC
*
37796401 ACATGCCCGTGTGAA
1 ACATGCCCATGTGAA
37796416 CAGCCCGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (21 bp):
ACATGCCCATGTGAAGGCCCC
Found at i:37799615 original size:21 final size:21
Alignment explanation
Indices: 37799582--37799633 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
37799572 GTGGGGGTCT
* *
37799582 ACACGTCCATGTGAA-GCCCAC
1 ACACGCCCGTGTGAAGGCCC-C
37799603 ACACGCCCGTGTGAAGGCCCC
1 ACACGCCCGTGTGAAGGCCCC
*
37799624 ACATGCCCGT
1 ACACGCCCGT
37799634 ATAGAGGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGAAGGCCCC
Found at i:37802859 original size:38 final size:38
Alignment explanation
Indices: 37802812--37802894 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
37802802 TCACTTTGAG
*
37802812 TTAATAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
1 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
37802850 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
1 TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
37802888 TTAACAA
1 TTAACAA
37802895 TCTTTTAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (38 bp):
TTAACAAAATTCTCTTTGAGTTTTCTTTTAGAAGAGTT
Found at i:37803057 original size:16 final size:16
Alignment explanation
Indices: 37803036--37803068 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37803026 CCACTTGTAA
37803036 TTTTTTTCATCTATAT
1 TTTTTTTCATCTATAT
*
37803052 TTTTTTTCATCTTTAT
1 TTTTTTTCATCTATAT
37803068 T
1 T
37803069 CTATCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTCATCTATAT
Found at i:37804589 original size:25 final size:25
Alignment explanation
Indices: 37804561--37804628 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
37804551 TAGCATCGAA
*
37804561 CCAAGCTAGTGTTGGCAACCTTGAT
1 CCAAGCTAGTGTTAGCAACCTTGAT
37804586 CCAAGCTAGTGTTAGCAACCTTGAT
1 CCAAGCTAGTGTTAGCAACCTTGAT
* *
37804611 CCAAAGCAAGTGTCAGCA
1 CC-AAGCTAGTGTTAGCA
37804629 GCCTGATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 26 0.67
26 13 0.33
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
CCAAGCTAGTGTTAGCAACCTTGAT
Found at i:37809641 original size:5 final size:5
Alignment explanation
Indices: 37809623--37809660 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
37809613 CCTAAGGATG
*
37809623 AAATA AAATTA AAAGA AAA-A AAATA AAATA AAATA AAA
1 AAATA AAA-TA AAATA AAATA AAATA AAATA AAATA AAA
37809661 ATTAGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:37809648 original size:20 final size:19
Alignment explanation
Indices: 37809623--37809661 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
37809613 CCTAAGGATG
37809623 AAATAAAATTAAAAGAAAAA
1 AAATAAAA-TAAAAGAAAAA
*
37809643 AAATAAAATAAAATAAAAA
1 AAATAAAATAAAAGAAAAA
37809662 TTAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATAAAATAAAAGAAAAA
Found at i:37809689 original size:14 final size:14
Alignment explanation
Indices: 37809672--37809707 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
37809662 TTAGTTTTAA
37809672 AAAAATATAAAAAT
1 AAAAATATAAAAAT
*
37809686 AAAAACATAAAAAT
1 AAAAATATAAAAAT
37809700 AATAAATA
1 AA-AAATA
37809708 AAAGTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:37815340 original size:14 final size:15
Alignment explanation
Indices: 37815316--37815351 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
37815306 ACTTAAATTA
37815316 ATATCAATTAAGAAC
1 ATATCAATTAAGAAC
37815331 ATAT-AATTAAGAAC
1 ATATCAATTAAGAAC
*
37815345 AAATCAA
1 ATATCAA
37815352 ATATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (15 bp):
ATATCAATTAAGAAC
Found at i:37816304 original size:64 final size:64
Alignment explanation
Indices: 37816231--37816398 Score: 214
Period size: 64 Copynumber: 2.6 Consensus size: 64
37816221 AGGTAAGGAT
* *
37816231 CACATGGGCCAGAGACAGGAGCGTGTGTCCAGGCCGTGTGACTCACTATTTGTAATTTAGAAAC
1 CACACGGGCCAGAGACAGGAGCATGTGTCCAGGCCGTGTGACTCACTATTTGTAATTTAGAAAC
* * * * *
37816295 CATACGGGCCAGAGACACGG-GCTTGTGTCCAGGCCGTGTAACTCACTGTTTGTGATTTAGAAAC
1 CACACGGGCCAGAGACA-GGAGCATGTGTCCAGGCCGTGTGACTCACTATTTGTAATTTAGAAAC
* * * *
37816359 CACACAGGCTAGAGACATGAGCATGTGT-CAGGCTGTGTGA
1 CACACGGGCCAGAGACAGGAGCATGTGTCCAGGCCGTGTGA
37816399 GGCACAATGG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 11 0.12
64 76 0.85
65 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (64 bp):
CACACGGGCCAGAGACAGGAGCATGTGTCCAGGCCGTGTGACTCACTATTTGTAATTTAGAAAC
Found at i:37818872 original size:56 final size:56
Alignment explanation
Indices: 37818783--37818901 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
37818773 TAATCATTTA
37818783 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
1 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
*
37818839 TATACAACCAAAATCATTTAACTTAAATTTATATACATAATTCATATTCAACTACC
1 TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
37818895 TAGTACA
1 TA-TACA
37818902 TGCCACTTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 57 0.93
57 4 0.07
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (56 bp):
TATACAACCAAAATCATTTAACTTAAATGTATATACATAATTCATATTCAACTACC
Found at i:37819403 original size:27 final size:27
Alignment explanation
Indices: 37819373--37819435 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
37819363 AATCCTCCAT
37819373 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
37819400 AACACACCAGTATATCATATCCTCTCA
1 AACACACCAGTATATCATAGCCTCCCA
37819427 AACACACCA
1 AACACACCA
37819436 ATAAGGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:37819419 original size:29 final size:25
Alignment explanation
Indices: 37819359--37819435 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
37819349 ACCGGAATAT
37819359 TATAA-ATCCT-CCATAACACACCAG
1 TATAATATCCTCCCA-AACACACCAG
37819383 TATAATATAGCCTCCCAAACACACCAG
1 TATAATAT--CCTCCCAAACACACCAG
*
37819410 TATATCATATCCTCTCAAACACACCA
1 TATA--ATATCCTCCCAAACACACCA
37819436 ATAAGGCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
24 5 0.11
25 2 0.04
27 32 0.70
28 3 0.07
29 4 0.09
ACGTcount: A:0.40, C:0.34, G:0.04, T:0.22
Consensus pattern (25 bp):
TATAATATCCTCCCAAACACACCAG
Found at i:37820033 original size:9 final size:9
Alignment explanation
Indices: 37819999--37820046 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
37819989 TTTATTTCGT
*
37819999 TTTATTCTA
1 TTTATTTTA
37820008 TTTACTTTTTA
1 TTTA--TTTTA
37820019 TTTA-TTTA
1 TTTATTTTA
37820027 TTTTATTTTA
1 -TTTATTTTA
37820037 TTTATTTTA
1 TTTATTTTA
37820046 T
1 T
37820047 ATTAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 4 0.12
9 18 0.53
10 4 0.12
11 8 0.24
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:37820038 original size:29 final size:30
Alignment explanation
Indices: 37819989--37820049 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
37819979 TCTTTTTCCT
*
37819989 TTTATTTCGTTTTATTCTATTTACTTTT-TA
1 TTTATTTCATTTTATTCTATTTA-TTTTATA
*
37820019 TTTATTT-ATTTTATTTTATTTATTTTATA
1 TTTATTTCATTTTATTCTATTTATTTTATA
37820048 TT
1 TT
37820050 AATAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 17 0.61
30 7 0.25
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (30 bp):
TTTATTTCATTTTATTCTATTTATTTTATA
Found at i:37820526 original size:15 final size:14
Alignment explanation
Indices: 37820500--37820553 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
37820490 TTATATTTTA
37820500 ATTATCATAAATTCAT
1 ATTAT-ATAAATT-AT
37820516 ATTATATAAATTAT
1 ATTATATAAATTAT
*
37820530 ATTTATATATCATTA-
1 A-TTATATA-AATTAT
37820545 ATTATATAA
1 ATTATATAA
37820554 TCTAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:37820691 original size:17 final size:18
Alignment explanation
Indices: 37820658--37820691 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37820648 TTATTCTATT
*
37820658 ATTCAACTTTTATCCTTA
1 ATTCAACTTTAATCCTTA
37820676 ATTCAA-TTTAATCCTT
1 ATTCAACTTTAATCCTT
37820692 TTTCTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCAACTTTAATCCTTA
Found at i:37826645 original size:23 final size:23
Alignment explanation
Indices: 37826615--37826661 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
37826605 ATACGCGGAT
37826615 TCCACCCAAACAC-ACCAGAATA
1 TCCACCCAAACACAACCAGAATA
*
37826637 TCCAGCCCAAACACAACCGGAATA
1 TCCA-CCCAAACACAACCAGAATA
37826661 T
1 T
37826662 TATAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 9 0.41
24 9 0.41
ACGTcount: A:0.43, C:0.38, G:0.09, T:0.11
Consensus pattern (23 bp):
TCCACCCAAACACAACCAGAATA
Found at i:37826706 original size:27 final size:27
Alignment explanation
Indices: 37826676--37826738 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
37826666 AATCCTCCAT
37826676 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
37826703 AACACACCAGTATATCATATCCTCTCA
1 AACACACCAGTATATCATAGCCTCCCA
37826730 AACACACCA
1 AACACACCA
37826739 ATCAGGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:37826722 original size:29 final size:25
Alignment explanation
Indices: 37826662--37826738 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
37826652 ACCGGAATAT
37826662 TATAA-ATCCT-CCATAACACACCAG
1 TATAATATCCTCCCA-AACACACCAG
37826686 TATAATATAGCCTCCCAAACACACCAG
1 TATAATAT--CCTCCCAAACACACCAG
*
37826713 TATATCATATCCTCTCAAACACACCA
1 TATA--ATATCCTCCCAAACACACCA
37826739 ATCAGGCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
24 5 0.11
25 2 0.04
27 32 0.70
28 3 0.07
29 4 0.09
ACGTcount: A:0.40, C:0.34, G:0.04, T:0.22
Consensus pattern (25 bp):
TATAATATCCTCCCAAACACACCAG
Found at i:37827312 original size:15 final size:14
Alignment explanation
Indices: 37827292--37827342 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
37827282 TATTTTTCTT
37827292 TTTATTT-CGTTTTA
1 TTTATTTAC-TTTTA
37827306 TTCTATTTACTTTTA
1 TT-TATTTACTTTTA
37827321 TTTATTTTA-TTTTA
1 TTTA-TTTACTTTTA
*
37827335 TTTTTTTA
1 TTTATTTA
37827343 TATTAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 16 0.48
16 1 0.03
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTATTTACTTTTA
Found at i:37827823 original size:15 final size:14
Alignment explanation
Indices: 37827797--37827850 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
37827787 TTATATTTTA
37827797 ATTATCATAAATTCAT
1 ATTAT-ATAAATT-AT
37827813 ATTATATAAATTAT
1 ATTATATAAATTAT
*
37827827 ATTTATATATCATTA-
1 A-TTATATA-AATTAT
37827842 ATTATATAA
1 ATTATATAA
37827851 TTTAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:37827988 original size:17 final size:18
Alignment explanation
Indices: 37827953--37827988 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37827943 TATTGTTTTA
*
37827953 TAATTCAACTTTTATCCT
1 TAATTCAACTTTAATCCT
37827971 TAATTCAA-TTTAATCCT
1 TAATTCAACTTTAATCCT
37827988 T
1 T
37827989 TTTCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTCAACTTTAATCCT
Found at i:37838807 original size:13 final size:13
Alignment explanation
Indices: 37838789--37838816 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37838779 ATGAGCATTC
37838789 AATTAGCAGATAA
1 AATTAGCAGATAA
37838802 AATTAGCAGATAA
1 AATTAGCAGATAA
37838815 AA
1 AA
37838817 CAATCAGATT
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:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (13 bp):
AATTAGCAGATAA
Found at i:37841933 original size:21 final size:23
Alignment explanation
Indices: 37841892--37841937 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
37841882 TTTATTTATC
*
37841892 TTCTTTAAGTACTTTTTTTATTT
1 TTCTTTAAGTACTTATTTTATTT
37841915 TTCTTTAA-TA-TTATTTTATTT
1 TTCTTTAAGTACTTATTTTATTT
37841936 TT
1 TT
37841938 AGGTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (23 bp):
TTCTTTAAGTACTTATTTTATTT
Found at i:37850408 original size:27 final size:27
Alignment explanation
Indices: 37850378--37850495 Score: 128
Period size: 27 Copynumber: 4.4 Consensus size: 27
37850368 CCCTCAGTTT
* *
37850378 GTAAAATGACCGTAATACTCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAAG
*** * *
37850405 GTAAAATGAATATAATGCCCTTATAAG
1 GTAAAATGACCGTAATACCCCTATAAG
* * *
37850432 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAAG
* *
37850459 GTAAAATGATCGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAAG
37850486 GTAAAATGAC
1 GTAAAATGAC
37850496 GATATGCCCT
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAAG
Found at i:37850436 original size:54 final size:54
Alignment explanation
Indices: 37850378--37850495 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
37850368 CCCTCAGTTT
* * *
37850378 GTAAAATGACCGTAATACTCCTATAGGGTAAAATGAAT-ATAATGCCCTTATAAG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATG-ATCATAATACCCCTATAAG
* * * *
37850432 GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCATAATACCCCTATAAG
37850486 GTAAAATGAC
1 GTAAAATGAC
37850496 GATATGCCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.04
54 54 0.96
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (54 bp):
GTAAAATGACCGTAATACCCCTATAGGGTAAAATGATCATAATACCCCTATAAG
Found at i:37850693 original size:26 final size:27
Alignment explanation
Indices: 37850635--37850686 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
37850625 AGAAGTATTG
37850635 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
*
37850662 TACTGGTGGCT-TGCCACATTTACTG
1 TACTGGTGGCTATGCCACAATTACTG
37850687 TTTCTGGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:37850874 original size:33 final size:33
Alignment explanation
Indices: 37850839--37850975 Score: 140
Period size: 33 Copynumber: 4.3 Consensus size: 33
37850829 ATTGCATTAC
* * *
37850839 ACTGTACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
*
37850872 AC--TA-T--TACTGTATAGGGCTAAAGCCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
** * *
37850900 ACTGTTGTGTTACTGTATAAGGCTAAGGCCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
* *
37850933 ACTGTACTGATACTGGATAGGGCTCAGGCCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
37850966 ACTGTTACTG
1 ACTG-TACTG
37850976 CATGCATTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 21 0.25
30 2 0.02
31 3 0.04
33 54 0.64
34 5 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
Found at i:37853159 original size:119 final size:120
Alignment explanation
Indices: 37852977--37853199 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
37852967 TCCTCGTTCA
*
37852977 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
37853042 TTAGTAAC-TCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
37853097 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
37853159 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
37853200 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:37853199 original size:40 final size:40
Alignment explanation
Indices: 37852975--37853199 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
37852965 GCTCCTCGTT
* *
37852975 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
37853015 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
37853055 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
37853095 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
37853134 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
37853175 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37853200 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:37855273 original size:63 final size:63
Alignment explanation
Indices: 37855190--37855323 Score: 205
Period size: 63 Copynumber: 2.1 Consensus size: 63
37855180 GATCACATAG
*
37855190 GCCAGAGACACGGGCATGTGCCCAAGCCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
1 GCCAGAGACACAGGCATGTGCCCAAGCCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * ** *
37855253 GCCAGAGACACAGGCGTGTGCCCAGGTTGTGTGACTCACTTTTTTAATTTAGAAACCATGCGA
1 GCCAGAGACACAGGCATGTGCCCAAGCCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
*
37855316 GCTAGAGA
1 GCCAGAGA
37855324 TATGGGCATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (63 bp):
GCCAGAGACACAGGCATGTGCCCAAGCCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
Found at i:37855353 original size:63 final size:63
Alignment explanation
Indices: 37855190--37855355 Score: 197
Period size: 63 Copynumber: 2.6 Consensus size: 63
37855180 GATCACATAG
* * *
37855190 GCCAGAGACACGGGCATGTGCCCAAGCCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
1 GCCAGAGACACAGGCATATGCCCAAGTCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * * * *
37855253 GCCAGAGACACAGGCGTGTGCCCAGGTTGTGTGACTCACTTTTTTAATTTAGAAACCATGCGA
1 GCCAGAGACACAGGCATATGCCCAAGTCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
* * ** * * *
37855316 GCTAGAGATATGGGCATATGTCTAAGTCGTGTAACTCACT
1 GCCAGAGACACAGGCATATGCCCAAGTCGTGTGACTCACT
37855356 GTCTGTGACT
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (63 bp):
GCCAGAGACACAGGCATATGCCCAAGTCGTGTGACTCACTTTTTTAATTTAGAAACCACGCGA
Found at i:37857398 original size:12 final size:12
Alignment explanation
Indices: 37857376--37857407 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
37857366 TTTATTCACC
37857376 TGATGATTACTAT
1 TGAT-ATTACTAT
37857389 TGATATTACTAT
1 TGATATTACTAT
37857401 TGATATT
1 TGATATT
37857408 TTAATTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (12 bp):
TGATATTACTAT
Found at i:37859756 original size:23 final size:23
Alignment explanation
Indices: 37859730--37859779 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
37859720 GACTCACCAT
**
37859730 AGCTCGTTTGAACTTATTGATTC
1 AGCTCGTAAGAACTTATTGATTC
* *
37859753 AGCTCGTAAGAGCTTATTGTTTC
1 AGCTCGTAAGAACTTATTGATTC
37859776 AGCT
1 AGCT
37859780 TATTGGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (23 bp):
AGCTCGTAAGAACTTATTGATTC
Found at i:37859811 original size:23 final size:22
Alignment explanation
Indices: 37859785--37859838 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
37859775 CAGCTTATTG
37859785 GAGCTTACCGATTCAACTCGAA-A
1 GAGCTTACCG-TTCAACTC-AATA
* *
37859808 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACCGTTCAACTCAATA
37859830 GAGCTTACC
1 GAGCTTACC
37859839 ATTTTTAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (22 bp):
GAGCTTACCGTTCAACTCAATA
Found at i:37859853 original size:24 final size:25
Alignment explanation
Indices: 37859819--37859875 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
37859809 AGCTTACTGT
*
37859819 TCAGCTCAATAGAGCTTACCATTT-
1 TCAGCTCAATAAAGCTTACCATTTA
* *
37859843 TTAGCTCAATAAAGCTTACTATTTA
1 TCAGCTCAATAAAGCTTACCATTTA
37859868 TCAGCTCA
1 TCAGCTCA
37859876 GGAGAAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (25 bp):
TCAGCTCAATAAAGCTTACCATTTA
Found at i:37868035 original size:40 final size:40
Alignment explanation
Indices: 37867979--37868196 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
37867969 CGGATGATAA
* * *
37867979 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
37868019 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37868059 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37868099 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37868139 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
37868179 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37868197 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 145 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37873198 original size:48 final size:48
Alignment explanation
Indices: 37873023--37873196 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
37873013 ATGAGATCCC
*
37873023 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
* * * *
37873071 GTGTAAAGACCATGTCTAGGACAAGGCATCAACTTTGATATGTATGCTA
1 GTGT-AAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
* *** *
37873120 GTGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATGTGTACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
*
37873168 GTGTAAGACCATGTCTGGAACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
37873197 GGCACCAATA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
48 67 0.61
49 43 0.39
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCTTTGATATGTGTGCTA
Found at i:37873223 original size:48 final size:48
Alignment explanation
Indices: 37873117--37873227 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 48
37873107 GATATGTATG
* * * ** *
37873117 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATGTGTA
1 CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCACAATATGAGTA
*
37873165 CTAGTGTAAGACCATGTCTGGAACATGGCATC-GGCACCAATATGAG-A
1 CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCA-CAATATGAGTA
*
37873212 CTTCGTATAAGACCAT
1 C-TAGTATAAGACCAT
37873228 ATTTGGGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 5 0.09
48 49 0.91
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
CTAGTATAAGACCATGTCTGGAACATGGCATCGGGCACAATATGAGTA
Found at i:37878749 original size:38 final size:39
Alignment explanation
Indices: 37878671--37878751 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
37878661 ATTGAGAGTT
*
37878671 AAATTTATTATTTTATCAAAACATAACAAAATAGAAAAA
1 AAATTTATTATTTTACCAAAACATAACAAAATAGAAAAA
37878710 AAATTTATTATTTTACCAAAACATAA-AAAATAGAAAAA
1 AAATTTATTATTTTACCAAAACATAACAAAATAGAAAAA
37878748 AAAT
1 AAAT
37878752 AATGACATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 16 0.39
39 25 0.61
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (39 bp):
AAATTTATTATTTTACCAAAACATAACAAAATAGAAAAA
Found at i:37888819 original size:47 final size:47
Alignment explanation
Indices: 37888698--37888819 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
37888688 TTACGAGACA
* * *
37888698 GTAAGACCATGTCCGAGACATGGCATCAACGTGAGATATGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACGTGAGATATGAACCAGT
* *
37888745 GTAAGACCATGTCTGGAACATGGCATCGACTTGAGATATGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACGTGAGATATGAACCAGT
*
37888792 GTAAGACCATGTCTGGGATATGGCATCG
1 GTAAGACCATGTCTGGGACATGGCATCG
37888820 GCACCTTACC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGACGTGAGATATGAACCAGT
Found at i:37895168 original size:67 final size:67
Alignment explanation
Indices: 37895087--37895310 Score: 367
Period size: 67 Copynumber: 3.3 Consensus size: 67
37895077 TACTATGTGT
* *
37895087 ACACCATCTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGGATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGGATGCGTGGTTCCAGGTGAA
37895152 GG
66 GG
* *
37895154 ACACCATGTAGACAAGAGAGCTACGGGATAGATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGGATGCGTGGTTCCAGGTGAA
37895219 GG
66 GG
* * *
37895221 ATACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGGATGCGTGGTTCCAGGTGAA
37895286 GG
66 GG
* *
37895288 ACACTATGTAGACAAGAGTGCTA
1 ACACCATGTAGACAAGAGAGCTA
37895311 TGAGATAAAC
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 145 1.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGGATGCGTGGTTCCAGGTGAA
GG
Found at i:37899213 original size:47 final size:44
Alignment explanation
Indices: 37899106--37899365 Score: 190
Period size: 47 Copynumber: 5.7 Consensus size: 44
37899096 ATGTGTGCTG
* *
37899106 ATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCAC--CTCTGTAGGCCA
* * *
37899150 ATGCGTGTCCTAGACATGTCTTTCACTGGCTACCTCTGTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGC-ACCTCTGT--AGGCCA
* *
37899197 ATGCATGTCCCAGACATGTCTTACACTGGCA-CTCATAATATGGCTGA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACCTC-T-GTA-GGC-CA
* * * * *
37899244 A-GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCAC-C-TCTGTAGGCCA
* *
37899289 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-GGCCGA
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGC-A-CCT-CTGTAGGCC-A
*
37899338 A-GCATGTCTCAGACATGTCTTACACTGG
1 ATGCATGTCCCAGACATGTCTTACACTGG
37899366 TGCACAAATC
Statistics
Matches: 172, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
43 4 0.02
44 27 0.16
45 7 0.04
46 48 0.28
47 61 0.35
48 19 0.11
49 5 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACCTCTGTAGGCCA
Found at i:37899343 original size:140 final size:138
Alignment explanation
Indices: 37899060--37899365 Score: 372
Period size: 140 Copynumber: 2.2 Consensus size: 138
37899050 TTGCCGATGC
* * *
37899060 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATATATGTGCTGAAGCATGTCCCAGACATGT
* * * * *
37899125 CTTACACTAGCACAACTCTTAGCCGATGCGTGTCCTAGACATGTCTTTCACTGGCTACCTCTGTC
65 CTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-CTCTATC
37899190 GAGGCCAATG
129 GAGGCCAATG
37899200 CATGTCCCAGACATGTCTTACACTGGCACTCATA-ATATG-GCTGAAGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATATATGTGCTGAAGCATGTCCCAGACATGTC
**
37899263 TTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCA
66 TTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACTC-
*
37899326 TAAT-GTGGCCGAA-G
125 T-ATCGAGGCC-AATG
*
37899340 CATGTCTCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
37899366 TGCACAAATC
Statistics
Matches: 146, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
136 2 0.01
137 36 0.25
138 5 0.03
139 28 0.19
140 58 0.40
141 17 0.12
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (138 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATATATGTGCTGAAGCATGTCCCAGACATGTC
TTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTACTCTATCGA
GGCCAATG
Found at i:37899345 original size:94 final size:92
Alignment explanation
Indices: 37899060--37899365 Score: 318
Period size: 93 Copynumber: 3.3 Consensus size: 92
37899050 TTGCCGATGC
* * * *
37899060 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTG-TGCTGATGCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCCCTC-TGTCTG-GATGCCGATGCATGTCCCAGACATG
* * * * *
37899124 TCTTACACTAGCA-CA-ACTCTTAGCCGATG
63 TCTTACACTGGCATCATAAT-ATGGCCGAAG
* * * * *
37899153 CGTGTCCTAGACATGTCTTTCACTGGCTACCTCTGTC--GAGGCCAATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTGGC--CCTCTGTCTGGATGCCGATGCATGTCCCAGACATGT
*
37899216 CTTACACTGGCACTCATAATATGGCTGAAG
64 CTTACACTGGCA-TCATAATATGGCCGAAG
*
37899246 CATGTCCCAGACATGTCTTACACTAGCCCTC-GTCTGGATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTGGCCCTCTGTCTGGATGCCGATG-CATGTCCCAGACAT-GT
*
37899310 CTTACACTGGCTATCATAATGTGGCCGAAG
64 CTTACACTGGC-ATCATAATATGGCCGAAG
*
37899340 CATGTCTCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
37899366 TGCACAAATC
Statistics
Matches: 177, Mismatches: 25, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
90 4 0.02
91 36 0.20
92 20 0.11
93 59 0.33
94 57 0.32
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCCCTCTGTCTGGATGCCGATGCATGTCCCAGACATGTCT
TACACTGGCATCATAATATGGCCGAAG
Found at i:37906860 original size:47 final size:45
Alignment explanation
Indices: 37906625--37906882 Score: 206
Period size: 47 Copynumber: 5.6 Consensus size: 45
37906615 TTGCCGATGC
* * * *
37906625 CATGTCCCAGACATGTCTTACACTAGCA-CA-ACTCTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATCATACT-GTGGCCGAAG
* *
37906669 CGTGTCCCAGACACGTCTTACACTGGCTATC-T-CTGTCGAGGCC-AATG
1 CATGTCCCAGACATGTCTTACACTGGC-ATCATACTGT---GGCCGAA-G
* * * *
37906716 CATATCCCAGACATGTCTTACACTGGCACTCATAATATGGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATACTGTGGCCGAAG
* * * *
37906762 CATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTG-GATGCCGATAC
1 CATGTCCCAGACATGTCTTACACT-GGCATCATACTGTG--GCCGA-AG
*
37906809 CATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGAAG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ATCATACTGTGGCCGAAG
*
37906856 CATGTCTCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
37906883 GCACAAATCA
Statistics
Matches: 169, Mismatches: 26, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
44 26 0.15
45 4 0.02
46 50 0.30
47 65 0.38
48 19 0.11
49 4 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATACTGTGGCCGAAG
Found at i:37908638 original size:41 final size:41
Alignment explanation
Indices: 37908591--37908669 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
37908581 CCGTGTCCAT
* * *
37908591 GGCCCGTGTCCTTTACATGGCCATGACATGCCCGTGTCTCC
1 GGCCCGTGTCCTTCACACGGCCATGACACGCCCGTGTCTCC
37908632 GGCCCGTGTCCTTCACACGGCCATGACACGCCCGTGTC
1 GGCCCGTGTCCTTCACACGGCCATGACACGCCCGTGTC
37908670 CTAGCCTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.13, C:0.39, G:0.25, T:0.23
Consensus pattern (41 bp):
GGCCCGTGTCCTTCACACGGCCATGACACGCCCGTGTCTCC
Found at i:37909867 original size:46 final size:45
Alignment explanation
Indices: 37909724--37909867 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37909714 ATCTCGAGGC
*
37909724 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAA-TGC-
1 CGATGCATGTCCCAGACATGTCTTACACTAG--CTC-TCACAAGTGCT
* * * *
37909770 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCACAA-GTGCT
* *
37909818 CGATGCATGTCCCAGCCATGTCTTACACTAGCTCACACAAGTGACT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACAAGTG-CT
37909864 CGAT
1 CGAT
37909868 CATCATGGCA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
45 7 0.09
46 29 0.36
47 29 0.36
48 16 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACAAGTGCT
Found at i:37927258 original size:46 final size:44
Alignment explanation
Indices: 37927126--37927347 Score: 130
Period size: 47 Copynumber: 4.8 Consensus size: 44
37927116 GGTAAGGTGT
* * *
37927126 CGATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-C-ATCATCTC-GAGG
* * ***
37927174 CGACGCATGTCCCAAACA--TAAGACACTAGCATACATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCAT-CATCTCGAGG
* * *
37927217 TCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAATG
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCGAGG
* * * * *
37927263 CTGATGCCATGTTCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGG
1 C-GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCAT-CTCGAGG
*
37927311 CCGATGCATGTCCCAGCCATGTCTTACACTAGC-TCAT
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCATCAT
37927348 ACAAGTGACT
Statistics
Matches: 137, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
43 4 0.03
44 34 0.25
45 2 0.01
46 34 0.25
47 36 0.26
48 25 0.18
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCGAGG
Found at i:37930623 original size:46 final size:47
Alignment explanation
Indices: 37930565--37930786 Score: 213
Period size: 46 Copynumber: 4.7 Consensus size: 47
37930555 CGGTTATAGT
* *
37930565 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGA-GATGA
** * *
37930611 GAGCCAGTGTAAGACCATGTCTAAGATATGGCATC-GACATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATCGAGATGA
* * * *
37930659 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCC-TCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATG-A
** * *
37930706 -ATTCAGTGTAAGACATGTCTGGGACATGCACCGGCTAT-GAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
*
37930751 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
37930787 ACACCTTACC
Statistics
Matches: 141, Mismatches: 25, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 42 0.30
48 27 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
Done.